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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 (3,256) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 146,678 702,208 241
Proteins 113,613 553,506 208


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 process0.0000000000054870Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.000000000000011570Least InformativeDirect
Biological Process (BP)primary metabolic process0.000018020Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00047560.000000008708Least InformativeDirect
Biological Process (BP)biological regulation0.033181Least InformativeInherited
Biological Process (BP)response to stimulus0.065520.1227Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.0001150.3575Least InformativeInherited
Biological Process (BP)peptide metabolic process00Moderately InformativeDirect
Biological Process (BP)response to stress0.00091810.000000000000001902Moderately InformativeDirect
Biological Process (BP)organelle organization0.000015890Moderately InformativeDirect
Biological Process (BP)gene expression0.000000000000022650Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00000000029640Moderately InformativeDirect
Biological Process (BP)regulation of nitrogen compound metabolic process0.00020020.0001083Moderately InformativeDirect
Biological Process (BP)regulation of biosynthetic process0.0095470.3165Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.000490.02065Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.0078151Moderately InformativeInherited
Biological Process (BP)regulation of biological quality11Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.70811Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.0000035520.0715Moderately InformativeInherited
Biological Process (BP)mitochondrion organization0.00000036830.00003016InformativeDirect
Biological Process (BP)ribonucleoprotein complex biogenesis0.00012660.0000000000002771InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.069980InformativeInherited
Biological Process (BP)regulation of transcription, DNA-templated0.55141InformativeInherited
Biological Process (BP)response to temperature stimulus0.00000017270.001049InformativeInherited
Biological Process (BP)translational initiation0.00000000018410.00003106Highly InformativeDirect
Biological Process (BP)response to cold00.0000007102Highly InformativeDirect
Biological Process (BP)regulation of RNA stability0.000090790.0000000001617Highly InformativeDirect
Biological Process (BP)regulation of protein complex disassembly0.00022830.009599Highly InformativeInherited
Molecular Function (MF)binding0.00000015460.000000000005606Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity00.0000000000003658Moderately InformativeDirect
Molecular Function (MF)structural constituent of ribosome00InformativeDirect
Molecular Function (MF)macromolecular complex binding0.000003570.000001166InformativeDirect
Molecular Function (MF)DNA binding0.030161InformativeInherited
Molecular Function (MF)chromatin binding0.000068530.00000001131Highly InformativeDirect
Molecular Function (MF)single-stranded DNA binding0.000000071360Highly InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.000000000025210.0000000006107Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.22191Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle10.1277Least InformativeInherited
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)ribosome00Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.000000008840.0000000003996Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.000000000000015990Moderately InformativeDirect
Cellular Component (CC)nuclear part0.031850Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.0001110.06025Moderately InformativeInherited
Cellular Component (CC)transferase complex0.035461Moderately InformativeInherited
Cellular Component (CC)DNA-directed RNA polymerase complex0.00000000051270.000000000000001578InformativeDirect
Cellular Component (CC)mitochondrial ribosome0.000000026310.00000007516InformativeDirect
Cellular Component (CC)small ribosomal subunit00.000001325InformativeDirect
Cellular Component (CC)ribonucleoprotein granule0.02290.01546InformativeInherited
Cellular Component (CC)nucleoplasm part0.13250.9158InformativeInherited
Cellular Component (CC)chromosome0.0019110InformativeInherited
Cellular Component (CC)nuclear chromosome0.00034940Highly InformativeDirect
Cellular Component (CC)DNA-directed RNA polymerase II, core complex0.000077420.000000192Highly InformativeDirect
Cellular Component (CC)mitochondrial small ribosomal subunit0.00000000024420.00000006371Highly InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit0.00016790.00000005367Highly InformativeDirect
Cellular Component (CC)replisome0.0000000030570Highly InformativeDirect

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 0.000000008708 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) biological regulation 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.3575 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1227 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0.00001348 Moderately Informative Direct
Biological Process (BP) response to stress 0.000000000000001902 Moderately Informative Direct
Biological Process (BP) organelle organization 0 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 macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0.0001083 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.09338 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 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) regulation of biosynthetic process 0.3165 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 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) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.2335 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.0715 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.02065 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 0.005373 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) tRNA metabolic process 0.0001684 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 0.00003016 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) cell cycle process 0.00000003286 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0.0000000000002771 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.00001018 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.00000000000008815 Informative Direct
Biological Process (BP) single organism reproductive process 0.0001616 Informative Direct
Biological Process (BP) regulation of organelle organization 0.8528 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.00439 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.9886 Informative Inherited
Biological Process (BP) organelle fission 1 Informative Inherited
Biological Process (BP) negative regulation of molecular function 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.7439 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.01389 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) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) protein localization to organelle 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.2372 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) negative regulation of nitrogen compound metabolic process 0.009709 Informative Inherited
Biological Process (BP) ncRNA processing 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.006553 Informative Inherited
Biological Process (BP) response to radiation 0.005128 Informative Inherited
Biological Process (BP) response to temperature stimulus 0.001049 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.2917 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.004018 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.7289 Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.000003492 Highly Informative Direct
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) DNA recombination 0.000001234 Highly Informative Direct
Biological Process (BP) RNA catabolic process 0.0000000000009609 Highly Informative Direct
Biological Process (BP) translational initiation 0.00003106 Highly Informative Direct
Biological Process (BP) response to cold 0.0000007102 Highly Informative Direct
Biological Process (BP) response to UV 0.0002004 Highly Informative Direct
Biological Process (BP) gene silencing 0.000004915 Highly Informative Direct
Biological Process (BP) negative regulation of translation 0.000000000000001902 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.00002956 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.00001058 Highly Informative Direct
Biological Process (BP) regulation of RNA stability 0.0000000001617 Highly Informative Direct
Biological Process (BP) negative regulation of mitotic cell cycle 0.00001309 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0.00002021 Highly Informative Direct
Biological Process (BP) chromosome organization 0 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.3243 Highly Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 1 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.1712 Highly Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.4731 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle process 0.01684 Highly Informative Inherited
Biological Process (BP) nuclear chromosome segregation 1 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.08374 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 external stimulus 0.5297 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.5659 Highly Informative Inherited
Biological Process (BP) regulation of protein complex disassembly 0.009599 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) mRNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) cell cycle phase transition 0.401 Highly Informative Inherited
Molecular Function (MF) binding 0.000000000005606 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.000001542 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 0.0000000000003658 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.000002152 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.000000003658 Moderately Informative Direct
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.3364 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0.0004294 Informative Direct
Molecular Function (MF) structural constituent of ribosome 0 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) macromolecular complex binding 0.000001166 Informative Direct
Molecular Function (MF) ATPase activity 0.01743 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) chromatin binding 0.00000001131 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) deoxyribonuclease activity 1 Highly Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0000000006107 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1277 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 0.0000000003996 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.06025 Moderately Informative Inherited
Cellular Component (CC) transferase complex 1 Moderately Informative Inherited
Cellular Component (CC) DNA-directed RNA polymerase complex 0.000000000000001578 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.00000007516 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.000001325 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.01546 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.9158 Informative Inherited
Cellular Component (CC) nuclear chromosome 0 Highly Informative Direct
Cellular Component (CC) DNA-directed RNA polymerase II, core complex 0.000000192 Highly Informative Direct
Cellular Component (CC) mitochondrial small ribosomal subunit 0.00000006371 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 0.00000005367 Highly Informative Direct
Cellular Component (CC) replisome 0 Highly Informative Direct

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/aging0.0004719Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.03286Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.3787Least InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.003063Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.003254Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.004284Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.004675Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.01199Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.08315Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.1677Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.7061Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.8086Moderately InformativeInherited
Mammalian Phenotype (MP)chromosomal instability0InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.001363InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.001794InformativeInherited
Mammalian Phenotype (MP)decreased cell proliferation0.006128InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.01328InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.09121InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.2227InformativeInherited
Mammalian Phenotype (MP)embryonic lethality0.709InformativeInherited
Mammalian Phenotype (MP)abnormal oocyte number0.00002682Highly InformativeDirect
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.00003492Highly InformativeDirect
Mammalian Phenotype (MP)abnormal ovary size0.00007841Highly InformativeDirect
Mammalian Phenotype (MP)decreased fetal size0.00008284Highly InformativeDirect
Mammalian Phenotype (MP)decreased male germ cell number0.0001458Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.01499Highly 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 variant0.00000000000006126Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000002868Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000007114Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.0000388Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.004201Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.01262Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.1689Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0000000001423Moderately InformativeDirect
Worm Phenotype (WP)apoptosis variant0.0001453Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0002323Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.0003112Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0006404Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.02785Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.07046Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.07886Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.09598Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.3495Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.8534Moderately InformativeInherited
Worm Phenotype (WP)pleiotropic defects severe early emb0.000000001418InformativeDirect
Worm Phenotype (WP)sick0.00000001023InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.00000002611InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.000001239InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.000006186InformativeDirect
Worm Phenotype (WP)endocytic transport defect0.000008007InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0001086InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.000265InformativeDirect
Worm Phenotype (WP)gonad development variant0.001477InformativeInherited
Worm Phenotype (WP)RNA expression variant0.02703InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.04969InformativeInherited
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.08939InformativeInherited
Worm Phenotype (WP)chromosome segregation variant0.1537InformativeInherited
Worm Phenotype (WP)cell stress response variant0.7375InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.8826InformativeInherited
Worm Phenotype (WP)no oocytes0.0000000006705Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.000000006566Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.0000000289Highly InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.00000003835Highly InformativeDirect
Worm Phenotype (WP)nucleus defective early emb0.0000001869Highly InformativeDirect
Worm Phenotype (WP)nonsense mRNA accumulation0.00002452Highly InformativeDirect
Worm Phenotype (WP)hypoxia resistant0.00007086Highly InformativeDirect
Worm Phenotype (WP)cell gamma ray response variant0.00007767Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic processing body variant0.00008747Highly InformativeDirect
Worm Phenotype (WP)nuclear number variant0.000108Highly InformativeDirect
Worm Phenotype (WP)apoptosis reduced0.0004632Highly InformativeDirect
Worm Phenotype (WP)cell cycle variant0.001043Highly InformativeInherited
Worm Phenotype (WP)RNA processing variant0.003161Highly InformativeInherited
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.02956Highly InformativeInherited
Worm Phenotype (WP)cytokinesis defective early emb0.08656Highly 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 maintenance0.000005305InformativeDirect
Yeast Phenotype (YP)heat sensitivity0.00001217InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0007806InformativeDirect

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)embryo0.0000004211Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0.000003424Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.00007419Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0002598Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0.003827Least InformativeInherited
Xenopus ANatomical entity (XAN)egg0.0000004878Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0.001425Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0.0001024InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

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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)

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EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.05263Least 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)Aminoacyltransferases1InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters1InformativeInherited
Enzyme Commission (EC)Other carbon--nitrogen ligases1InformativeInherited
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Phenylalanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase0.000000001596Highly 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

DrugBank ATC (DB)

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DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)antineoplastic and immunomodulating agents0.003167Least InformativeInherited

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

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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 termination4.822e-16Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome1InformativeInherited
Cellular componentExosome0Highly InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
Cellular componentTelomere0.000000005974Highly InformativeDirect
Coding sequence diversityRNA editing0.000978Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionNucleotide-binding0.0000009906Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationNuclease0.1649Moderately 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 modificationMethylation0Moderately InformativeDirect
Post-translational modificationHydroxylation0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

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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) · DrugBank ATC (DB) · 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) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]