SUPERFAMILY 1.75 HMM library and genome assignments server


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 (3,248) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 145,428 702,208 241
Proteins 112,653 553,506 208


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 process6.823e-110Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process7.468e-130Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.041040.08779Least InformativeInherited
Biological Process (BP)single-organism cellular process0.95021Least InformativeInherited
Biological Process (BP)protein metabolic process6.17e-051Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.1130Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.27510Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.10450Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.2330Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.018577.307e-05Least InformativeInherited
Biological Process (BP)organelle organization0.00052421.051e-12Moderately InformativeDirect
Biological Process (BP)gene expression09.067e-15Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.072511Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.93620.9819Moderately InformativeInherited
Biological Process (BP)homeostatic process0.53220.007921Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex biogenesis0.00070211.649e-09InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.044052.445e-09InformativeInherited
Biological Process (BP)chromosome organization0.31613.484e-10InformativeInherited
Biological Process (BP)DNA metabolic process0.43080InformativeInherited
Biological Process (BP)translational initiation1.074e-096.803e-07Highly InformativeDirect
Molecular Function (MF)binding0.0011725.429e-11Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity2.972e-121.541e-08Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.55751Moderately InformativeInherited
Molecular Function (MF)chromatin binding2.583e-072.019e-10InformativeDirect
Molecular Function (MF)structural constituent of ribosome1.32e-150InformativeDirect
Molecular Function (MF)DNA binding0.60490.9031InformativeInherited
Molecular Function (MF)nucleotidyltransferase activity0.0016256.048e-15InformativeInherited
Molecular Function (MF)RNA polymerase activity1.177e-050.0003668Highly InformativeDirect
Molecular Function (MF)ribonucleoprotein complex binding0.00038984.415e-07Highly InformativeDirect
Molecular Function (MF)structure-specific DNA binding00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)intracellular organelle part3.895e-073.068e-14Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle10.8087Least InformativeInherited
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.26171Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex00Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen9.395e-091.868e-13Moderately InformativeDirect
Cellular Component (CC)cytosol0.079770.003691Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.0090280.01381Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0075620Moderately InformativeInherited
Cellular Component (CC)small ribosomal subunit00.0009955InformativeDirect
Cellular Component (CC)nuclear DNA-directed RNA polymerase complex0.00088460.0001015InformativeDirect
Cellular Component (CC)mitochondrial matrix1.671e-060.2214InformativeInherited
Cellular Component (CC)chromosome0.93821.608e-15InformativeInherited
Cellular Component (CC)nucleoplasm part0.24731InformativeInherited
Cellular Component (CC)DNA-directed RNA polymerase II, core complex5.88e-105.606e-09Highly InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit6.812e-054.399e-07Highly InformativeDirect
Cellular Component (CC)replisome9.117e-050Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.030440Highly 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) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 7.307e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.9487 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.08779 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) organelle organization 1.051e-12 Moderately Informative Direct
Biological Process (BP) gene expression 9.067e-15 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 3.613e-07 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) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.6858 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.9819 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.1053 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.007921 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.9294 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.007101 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 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) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.0255 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1365 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.7378 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.8673 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.03641 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.01908 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 2.656e-05 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 2.152e-06 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 2.445e-09 Informative Direct
Biological Process (BP) sexual reproduction 5.353e-05 Informative Direct
Biological Process (BP) cell cycle process 6.194e-13 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 1.649e-09 Informative Direct
Biological Process (BP) ncRNA metabolic process 3.954e-12 Informative Direct
Biological Process (BP) single organism reproductive process 4.102e-05 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 4.78e-07 Informative Direct
Biological Process (BP) organophosphate catabolic process 8.157e-05 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0001148 Informative Direct
Biological Process (BP) chromosome organization 3.484e-10 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0001593 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 5.853e-05 Informative Direct
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.8479 Informative Inherited
Biological Process (BP) regulation of response to stress 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.001344 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.3035 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.7009 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.356 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) organelle localization 0.9775 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.05001 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.6158 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.487 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.8202 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.419 Informative Inherited
Biological Process (BP) cellular membrane organization 1 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.3221 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.713 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.04413 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.1057 Informative Inherited
Biological Process (BP) transcription, DNA-dependent 1 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.002212 Informative Inherited
Biological Process (BP) leukocyte activation 1 Informative Inherited
Biological Process (BP) immune effector process 0.8537 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 1 Informative Inherited
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) double-strand break repair 0 Highly Informative Direct
Biological Process (BP) DNA recombination 3.271e-06 Highly Informative Direct
Biological Process (BP) translational initiation 6.803e-07 Highly Informative Direct
Biological Process (BP) regulation of translation 4.437e-07 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 1.136e-13 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 6.012e-09 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 1.165e-09 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 7.281e-15 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 1.896e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 4.924e-13 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 4.063e-09 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 2.336e-06 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.5057 Highly Informative Inherited
Biological Process (BP) negative regulation of cell cycle 0.5319 Highly Informative Inherited
Biological Process (BP) mRNA catabolic process 0.2539 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.1524 Highly Informative Inherited
Biological Process (BP) chromosome segregation 0.02981 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.06669 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.1023 Highly Informative Inherited
Biological Process (BP) establishment of RNA localization 0.005609 Highly Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.06254 Highly Informative Inherited
Biological Process (BP) B cell activation 0.09557 Highly Informative Inherited
Biological Process (BP) protein methylation 0.2129 Highly Informative Inherited
Biological Process (BP) histone modification 0.4802 Highly Informative Inherited
Biological Process (BP) stem cell development 0.02868 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.1648 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.3928 Highly Informative Inherited
Biological Process (BP) meiosis 0.006053 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.2883 Highly Informative Inherited
Biological Process (BP) cell division 0.5 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.03092 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle phase transition 0.02891 Highly Informative Inherited
Biological Process (BP) interphase 0.3999 Highly Informative Inherited
Molecular Function (MF) binding 5.429e-11 Least Informative Direct
Molecular Function (MF) hydrolase activity 3.028e-06 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 1.541e-08 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.09202 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 2.019e-10 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 6.048e-15 Informative Direct
Molecular Function (MF) DNA binding 0.9031 Informative Inherited
Molecular Function (MF) RNA binding 0.009092 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0.1382 Informative Inherited
Molecular Function (MF) RNA polymerase activity 0.0003668 Highly Informative Direct
Molecular Function (MF) ribonucleoprotein complex binding 4.415e-07 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 3.068e-14 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.8087 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 1.868e-13 Moderately Informative Direct
Cellular Component (CC) cytosol 0.003691 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.01381 Moderately Informative Inherited
Cellular Component (CC) chromosome 1.608e-15 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.0009955 Informative Direct
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.0001015 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.2214 Informative Inherited
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) cytoplasmic mRNA processing body 5.41e-07 Highly Informative Direct
Cellular Component (CC) DNA-directed RNA polymerase II, core complex 5.606e-09 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 4.399e-07 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 0.7181 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(+))6.306e-13Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase3.114e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.002349Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.008558Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.1564Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body phenotype0.2537Least InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.000248Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal tumor incidence0.0004561Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal metabolism0.005914Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.05055Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.06577Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.6966Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.8105Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number9.471e-05InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.0002699InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.0003754InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.0006554InformativeDirect
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.0009264InformativeDirect
Mammalian Phenotype (MP)decreased cell proliferation0.005707InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.005738InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.006528InformativeInherited
Mammalian Phenotype (MP)abnormal induced cell death0.01189InformativeInherited
Mammalian Phenotype (MP)abnormal sex gland morphology0.01569InformativeInherited
Mammalian Phenotype (MP)chromosomal instability2.161e-14Highly InformativeDirect
Mammalian Phenotype (MP)decreased fetal size2.33e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal ovary size3.002e-05Highly InformativeDirect
Mammalian Phenotype (MP)increased sensitivity to induced cell death0.0008075Highly InformativeDirect
Mammalian Phenotype (MP)abnormal female germ cell morphology0.01612Highly InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.01752Highly InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.02079Highly 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 variant1.849e-11Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.7785Least InformativeInherited
Worm Phenotype (WP)growth variant1Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal1.125e-09Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect2.739e-05Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.009473Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.02999Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.0449Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.05699Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.6343Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.8606Moderately InformativeInherited
Worm Phenotype (WP)sick5.096e-09InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb3.473e-08InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant2.454e-07InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant1.103e-05InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0002954InformativeDirect
Worm Phenotype (WP)germline nuclear positioning variant0.0006507InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.06895InformativeInherited
Worm Phenotype (WP)cell division variant0.1339InformativeInherited
Worm Phenotype (WP)oocyte number decreased4.784e-07Highly InformativeDirect
Worm Phenotype (WP)nuclear number variant9.87e-05Highly InformativeDirect
Worm Phenotype (WP)excessive blebbing early emb0.0001555Highly InformativeDirect
Worm Phenotype (WP)embryonic cell morphology variant0.0002173Highly InformativeDirect
Worm Phenotype (WP)cell cycle variant0.002204Highly InformativeInherited
Worm Phenotype (WP)cleavage furrow defective early emb0.8074Highly 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 maintenance1.649e-06InformativeDirect
Yeast Phenotype (YP)heat sensitivity3.353e-05InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0007033InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo2.09e-05Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0.001385Least InformativeInherited

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 cell5.537e-05Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.0003556Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0.1038Least 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)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Phenylalanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase1.546e-09Highly InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.0854Highly InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1Highly InformativeInherited
Enzyme Commission (EC)Ligases that form 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 termination7.04e-16Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome1InformativeInherited
Cellular componentPrimosome0Highly InformativeDirect
Cellular componentTelomere1.587e-08Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionNucleotide-binding1.84e-15Least InformativeDirect
Molecular functionMetal-binding2.662e-11Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionDNA-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 modificationNuclease0.2059Moderately 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 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

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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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]