SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Nucleic acid-binding proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   OB-fold [ 50198] (16)
Superfamily:   Nucleic acid-binding proteins [ 50249] (16)
Families:   Anticodon-binding domain [ 50250] (2)
  RecG "wedge" domain [ 69259]
  DNA helicase RuvA subunit, N-terminal domain [ 50259]
  Single strand DNA-binding domain, SSB [ 50263] (12)
  Myf domain [ 50277] (6)
  Cold shock DNA-binding domain-like [ 50282] (30)
  TRAM domain [ 101768] (3)
  Hypothetical protein MTH1 (MT0001), insert domain [ 74955]
  DNA ligase/mRNA capping enzyme postcatalytic domain [ 50307] (5)
  Phage ssDNA-binding proteins [ 50315] (3)
  DNA replication initiator (cdc21/cdc54) N-terminal domain [ 89332]
  RNA polymerase subunit RBP8 [ 50321]
  RecO N-terminal domain-like [ 117204]
  TIP49 domain [ 141315]
  SSO2064-like [ 159109]
  RNB domain-like [ 159112] (3)


Superfamily statistics
Genomes (3,261) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 147,116 742,135 241
Proteins 113,958 588,049 208


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biosynthetic process0.0000000000023330Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.0000000000000016070Least InformativeDirect
Biological Process (BP)primary metabolic process0.0000067490Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0091690.000004384Least InformativeInherited
Biological Process (BP)biological regulation0.020570.6519Least InformativeInherited
Biological Process (BP)response to stimulus0.061330.06479Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.28931Least InformativeInherited
Biological Process (BP)peptide metabolic process00Moderately InformativeDirect
Biological Process (BP)gene expression0.00000000000002320Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00000000036990Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00047330.004487Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0063850.1486Moderately InformativeInherited
Biological Process (BP)regulation of biological quality10.734Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.00092560.5647Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.6181Moderately InformativeInherited
Biological Process (BP)organelle organization0.013350.0000000000002086Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.0023730.9108Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.000015750.02926Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.69281Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.0000013270.06881Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex subunit organization0.0000047170.0003111InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.08490InformativeInherited
Biological Process (BP)chromosome organization0.42520InformativeInherited
Biological Process (BP)regulation of transcription, DNA-templated0.56461InformativeInherited
Biological Process (BP)response to temperature stimulus0.00000058620.003219InformativeInherited
Biological Process (BP)translational initiation0.000000000086280.00007002Highly InformativeDirect
Biological Process (BP)response to cold00.000001777Highly InformativeDirect
Biological Process (BP)regulation of protein complex disassembly0.00020970.01198Highly InformativeInherited
Molecular Function (MF)binding0.0000000003630.0000000000006342Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity00Moderately InformativeDirect
Molecular Function (MF)macromolecular complex binding0.13961InformativeInherited
Molecular Function (MF)DNA binding0.26781InformativeInherited
Molecular Function (MF)chromatin binding0.000000007550.000000000003996Highly InformativeDirect
Molecular Function (MF)single-stranded DNA binding0.0000000043180Highly InformativeDirect
Cellular Component (CC)macromolecular complex00Least InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00000000074240.00000002495Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.013071Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle10.236Least InformativeInherited
Cellular Component (CC)ribosome00Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.0000000079610.0000000002001Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.000000000028480Moderately InformativeDirect
Cellular Component (CC)transferase complex0.012511Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.000014880.03472Moderately InformativeInherited
Cellular Component (CC)nuclear part0.35850Moderately InformativeInherited
Cellular Component (CC)mitochondrial ribosome0.00000020350.000000005619InformativeDirect
Cellular Component (CC)small ribosomal subunit00.00000185InformativeDirect
Cellular Component (CC)transferase complex, transferring phosphorus-containing groups0.000000018270.0000000005372InformativeDirect
Cellular Component (CC)ribonucleoprotein granule0.030180.03311InformativeInherited
Cellular Component (CC)chromosome0.61040.000000000001678InformativeInherited
Cellular Component (CC)cytosolic ribosome0.76510.02547InformativeInherited
Cellular Component (CC)nucleoplasm part0.028360.7299InformativeInherited
Cellular Component (CC)protein-DNA complex0.0086230InformativeInherited
Cellular Component (CC)DNA-directed RNA polymerase II, core complex0.00004790.0000002063Highly InformativeDirect
Cellular Component (CC)mitochondrial small ribosomal subunit0.0000000000071470.00000001232Highly InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit0.00044770.0000001446Highly InformativeDirect
Cellular Component (CC)replisome0.00000000022040Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.0010410Highly InformativeInherited

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000004384 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.06479 Least Informative Inherited
Biological Process (BP) biological regulation 0.6519 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0.000005816 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0000000000002086 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0002507 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.02926 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1486 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.734 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1366 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.3075 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.004487 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.9108 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.5647 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.06881 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.007452 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) tRNA metabolic process 0.00004324 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) response to radiation 0.0009772 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) negative regulation of gene expression 0.0004312 Informative Direct
Biological Process (BP) cell cycle process 0.0000003497 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000000000000001945 Informative Direct
Biological Process (BP) ribosome biogenesis 0.0002742 Informative Direct
Biological Process (BP) single organism reproductive process 0.0002409 Informative Direct
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.0003111 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.3374 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.01918 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.1697 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.002059 Informative Inherited
Biological Process (BP) regulation of catabolic process 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.5811 Informative Inherited
Biological Process (BP) negative regulation of molecular function 1 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) organelle assembly 1 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0.01096 Informative Inherited
Biological Process (BP) protein localization to organelle 0.004087 Informative Inherited
Biological Process (BP) response to extracellular stimulus 0.2116 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.8049 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.00356 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) ncRNA processing 1 Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.3863 Informative Inherited
Biological Process (BP) response to temperature stimulus 0.003219 Informative Inherited
Biological Process (BP) mitochondrion organization 0.4915 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.2904 Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.00000502 Highly Informative Direct
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) double-strand break repair 0.0000000000001498 Highly Informative Direct
Biological Process (BP) DNA recombination 0.000002654 Highly Informative Direct
Biological Process (BP) RNA catabolic process 0.0000000000001529 Highly Informative Direct
Biological Process (BP) translational initiation 0.00007002 Highly Informative Direct
Biological Process (BP) response to cold 0.000001777 Highly Informative Direct
Biological Process (BP) response to UV 0.0003279 Highly Informative Direct
Biological Process (BP) gene silencing 0.00001127 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.0005753 Highly Informative Direct
Biological Process (BP) negative regulation of cellular amide metabolic process 0.000000000000005614 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.0006725 Highly Informative Direct
Biological Process (BP) ribosome assembly 0.0003899 Highly Informative Direct
Biological Process (BP) negative regulation of mitotic cell cycle 0.00001205 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.00000000000009312 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0.000003518 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0 Highly Informative Direct
Biological Process (BP) protein-DNA complex subunit organization 0.0004379 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.2775 Highly Informative Inherited
Biological Process (BP) modification-dependent macromolecule catabolic process 1 Highly Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 1 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.2294 Highly Informative Inherited
Biological Process (BP) nuclear chromosome segregation 1 Highly Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.7984 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.02684 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Highly Informative Inherited
Biological Process (BP) response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) cellular response to extracellular stimulus 0.1286 Highly Informative Inherited
Biological Process (BP) positive regulation of homeostatic process 0.1472 Highly Informative Inherited
Biological Process (BP) regulation of protein complex disassembly 0.01198 Highly Informative Inherited
Biological Process (BP) nuclear division 0.3771 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle 0.09022 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) negative regulation of transcription, DNA-templated 1 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle phase transition 0.4339 Highly Informative Inherited
Molecular Function (MF) binding 0.0000000000006342 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.000000569 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.0000004535 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.000000002607 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.2754 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0.000001327 Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0 Informative Direct
Molecular Function (MF) ligase activity 0 Informative Direct
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) macromolecular complex binding 1 Informative Inherited
Molecular Function (MF) ATPase activity 0.01518 Informative Inherited
Molecular Function (MF) chromatin binding 0.000000000003996 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0 Highly Informative Direct
Molecular Function (MF) deoxyribonuclease activity 1 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) double-stranded DNA binding 1 Highly Informative Inherited
Cellular Component (CC) macromolecular complex 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00000002495 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.236 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.0000000002001 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) transferase complex 1 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.03472 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.000000000001678 Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.000000005619 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.00000185 Informative Direct
Cellular Component (CC) protein-DNA complex 0 Informative Direct
Cellular Component (CC) transferase complex, transferring phosphorus-containing groups 0.0000000005372 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.02547 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.7299 Informative Inherited
Cellular Component (CC) ribonucleoprotein granule 0.03311 Informative Inherited
Cellular Component (CC) DNA-directed RNA polymerase II, core complex 0.0000002063 Highly Informative Direct
Cellular Component (CC) mitochondrial small ribosomal subunit 0.00000001232 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 0.0000001446 Highly Informative Direct
Cellular Component (CC) replisome 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0 Highly Informative Direct
Cellular Component (CC) nuclear body 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0Moderately InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters1Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phenylalanine--tRNA ligase0InformativeDirect
Enzyme Commission (EC)Ligases that form phosphoric-ester bonds1InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0.1092InformativeInherited
Enzyme Commission (EC)Methionine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Aspartate--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)DNA ligase (NAD(+))0.0000000000006306Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase0.000000003114Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.0003087Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.02776Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.3737Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.3935Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.002879Moderately InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.003501Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.003741Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.004858Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.01158Moderately InformativeInherited
Mammalian Phenotype (MP)reproductive system phenotype0.2031Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.24Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.7019Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.8147Moderately InformativeInherited
Mammalian Phenotype (MP)chromosomal instability0InformativeDirect
Mammalian Phenotype (MP)embryonic lethality prior to organogenesis0.0003236InformativeDirect
Mammalian Phenotype (MP)abnormal DNA repair0.0009899InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.001511InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.001663InformativeInherited
Mammalian Phenotype (MP)abnormal erythroid lineage cell morphology0.001932InformativeInherited
Mammalian Phenotype (MP)decreased cell proliferation0.005962InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.01345InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.07732InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.218InformativeInherited
Mammalian Phenotype (MP)abnormal oocyte number0.00002446Highly InformativeDirect
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.00003369Highly InformativeDirect
Mammalian Phenotype (MP)decreased fetal size0.00007372Highly InformativeDirect
Mammalian Phenotype (MP)abnormal ovary size0.00007434Highly InformativeDirect
Mammalian Phenotype (MP)decreased male germ cell number0.0001258Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.01567Highly InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell number0.04388Highly InformativeInherited
Mammalian Phenotype (MP)abnormal reticulocyte morphology0.04776Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0000000000002954Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000001308Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000003063Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00009465Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.004781Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.009461Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.2165Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.000000000118Moderately InformativeDirect
Worm Phenotype (WP)apoptosis variant0.00003694Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0002095Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.0002627Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.003278Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.04608Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.07309Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.07792Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.1407Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.326Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.8469Moderately InformativeInherited
Worm Phenotype (WP)pleiotropic defects severe early emb0.00000000145InformativeDirect
Worm Phenotype (WP)sick0.0000000096InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.00000002423InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.000001109InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.000003372InformativeDirect
Worm Phenotype (WP)endocytic transport defect0.000009358InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0001052InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0002385InformativeDirect
Worm Phenotype (WP)gonad development variant0.001401InformativeInherited
Worm Phenotype (WP)nuclear positioning variant0.0193InformativeInherited
Worm Phenotype (WP)RNA expression variant0.03913InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.049InformativeInherited
Worm Phenotype (WP)oxygen response variant0.07739InformativeInherited
Worm Phenotype (WP)chromosome segregation variant0.08792InformativeInherited
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.09171InformativeInherited
Worm Phenotype (WP)cell stress response variant0.8636InformativeInherited
Worm Phenotype (WP)no oocytes0.000000000588Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.000000005484Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.00000002488Highly InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.00000003571Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.000006881Highly InformativeDirect
Worm Phenotype (WP)nonsense mRNA accumulation0.00002614Highly InformativeDirect
Worm Phenotype (WP)multiple nuclei0.00005049Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic processing body variant0.00008308Highly InformativeDirect
Worm Phenotype (WP)cell gamma ray response variant0.00009209Highly InformativeDirect
Worm Phenotype (WP)hypoxia resistant0.0001514Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic streaming defective0.0001873Highly InformativeDirect
Worm Phenotype (WP)cell cycle variant0.000824Highly InformativeDirect
Worm Phenotype (WP)embryonic cell morphology variant0.0009451Highly InformativeDirect
Worm Phenotype (WP)RNA processing variant0.003149Highly InformativeInherited
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.0286Highly InformativeInherited
Worm Phenotype (WP)cytokinesis defective early emb0.08753Highly InformativeInherited
Worm Phenotype (WP)pronuclear nuclear appearance defective early emb0.1267Highly InformativeInherited
Worm Phenotype (WP)cleavage furrow defective0.6253Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)chromosome/plasmid maintenance0.000005327InformativeDirect
Yeast Phenotype (YP)heat sensitivity0.000012InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0007941InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.0000005358Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0.000003608Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.00008556Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0002525Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0.003848Least InformativeInherited
Xenopus ANatomical entity (XAN)egg0.0000004516Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0.00144Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0.00009856InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0.0000549Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.0003516Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.03071Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups1Moderately InformativeInherited
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups1InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters1InformativeInherited
Enzyme Commission (EC)Other carbon--nitrogen ligases1InformativeInherited
Enzyme Commission (EC)Phenylalanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor1Highly InformativeInherited
Enzyme Commission (EC)Forming phosphoric ester bonds1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processTranscription regulation1Moderately InformativeInherited
Biological processDNA recombination0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processTranscription termination4.844e-16Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome1InformativeInherited
Cellular componentExosome0Highly InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
Cellular componentTelomere0.000000007689Highly InformativeDirect
Coding sequence diversityRNA editing0.0009543Moderately InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRNA-binding0Moderately InformativeDirect
Post-translational modificationNuclease0.1625Moderately InformativeInherited
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect
Post-translational modificationExonuclease0InformativeDirect
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationtRNA-binding0Highly InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationHydroxylation0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 131 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Nucleic acid-binding proteins domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 131 hidden Markov models representing the Nucleic acid-binding proteins superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]