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 (3,214) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 142,805 313,595 241
Proteins 110,615 245,559 208


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 process1.985e-100Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process3.618e-130Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.029010.007539Least InformativeInherited
Biological Process (BP)single-organism cellular process0.84051Least InformativeInherited
Biological Process (BP)response to stimulus0.65230.3468Least InformativeInherited
Biological Process (BP)protein metabolic process0.00071661Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.031690Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.1030Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.082280Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.028380Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0025759.871e-07Least InformativeInherited
Biological Process (BP)organelle organization0.0001232.113e-14Moderately InformativeDirect
Biological Process (BP)gene expression9.095e-151.267e-13Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.0036611Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.87340.9169Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.010310.008619Moderately InformativeInherited
Biological Process (BP)homeostatic process0.43080.01452Moderately InformativeInherited
Biological Process (BP)translation8.62e-140InformativeDirect
Biological Process (BP)ribonucleoprotein complex biogenesis5.55e-055.794e-10InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.018953.394e-10InformativeInherited
Biological Process (BP)chromosome organization0.31721.849e-08InformativeInherited
Biological Process (BP)DNA metabolic process0.37360InformativeInherited
Biological Process (BP)translational initiation1.395e-081.497e-05Highly InformativeDirect
Biological Process (BP)response to cold1.178e-090.0009047Highly InformativeDirect
Molecular Function (MF)binding0.00010092.173e-14Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity4.302e-122.06e-07Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.44771Moderately InformativeInherited
Molecular Function (MF)chromatin binding2.758e-071.185e-11InformativeDirect
Molecular Function (MF)structural constituent of ribosome1.315e-150InformativeDirect
Molecular Function (MF)nucleotidyltransferase activity0.00097041.034e-14InformativeDirect
Molecular Function (MF)DNA binding0.42010.8539InformativeInherited
Molecular Function (MF)ribonucleoprotein complex binding0.00028482.02e-07Highly InformativeDirect
Molecular Function (MF)structure-specific DNA binding00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle1.372e-150Least InformativeDirect
Cellular Component (CC)intracellular organelle part6.005e-066.957e-14Least InformativeDirect
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle10.9911Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.065941Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex00Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen5.675e-085.406e-14Moderately InformativeDirect
Cellular Component (CC)cytosol0.063370.005177Moderately InformativeInherited
Cellular Component (CC)nuclear part0.054910Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.0042760.0141Moderately InformativeInherited
Cellular Component (CC)nuclear DNA-directed RNA polymerase complex0.0001877.879e-05InformativeDirect
Cellular Component (CC)chromosome0.93537.91e-13InformativeInherited
Cellular Component (CC)mitochondrial matrix3.303e-070.2905InformativeInherited
Cellular Component (CC)small ribosomal subunit00.001608InformativeInherited
Cellular Component (CC)cytosolic ribosome0.47740.008553InformativeInherited
Cellular Component (CC)nucleoplasm part0.11491InformativeInherited
Cellular Component (CC)DNA-directed RNA polymerase II, core complex2.399e-105.678e-10Highly InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit5.867e-054.544e-07Highly InformativeDirect
Cellular Component (CC)replisome6.592e-059.316e-09Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.012449.123e-13Highly 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 9.871e-07 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.007539 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.3468 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 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) reproduction 0.0005097 Moderately Informative Direct
Biological Process (BP) organelle organization 2.113e-14 Moderately Informative Direct
Biological Process (BP) gene expression 1.267e-13 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 1.268e-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 0.5699 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.9169 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.01452 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.04444 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) regulation of developmental process 0.52 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.8293 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.08647 Moderately Informative Inherited
Biological Process (BP) regulation of protein 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) negative regulation of metabolic process 0.02959 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.04846 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.8758 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.008619 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.08424 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate 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 0.0323 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) organonitrogen compound catabolic process 0.9416 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) translation 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 8.632e-06 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 2.228e-05 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 3.394e-10 Informative Direct
Biological Process (BP) sexual reproduction 6.359e-05 Informative Direct
Biological Process (BP) cell cycle process 5.887e-14 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 5.794e-10 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.0005597 Informative Direct
Biological Process (BP) ncRNA metabolic process 9.192e-12 Informative Direct
Biological Process (BP) single organism reproductive process 9.174e-06 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 7.984e-06 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0001281 Informative Direct
Biological Process (BP) chromosome organization 1.849e-08 Informative Direct
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.7456 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.6124 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.2127 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) organelle localization 0.8419 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.01438 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.6015 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) positive regulation of protein metabolic process 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.3263 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.7352 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) membrane organization 1 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.4343 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.003004 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.7808 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.001544 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.01691 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.001491 Informative Inherited
Biological Process (BP) transcription, DNA-dependent 1 Informative Inherited
Biological Process (BP) glycosyl compound catabolic process 0.001262 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.007765 Informative Inherited
Biological Process (BP) cell activation 1 Informative Inherited
Biological Process (BP) immune effector process 0.7065 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) cell cycle checkpoint 5.581e-06 Highly Informative Direct
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 9.642e-06 Highly Informative Direct
Biological Process (BP) RNA catabolic process 5.612e-11 Highly Informative Direct
Biological Process (BP) translational initiation 1.497e-05 Highly Informative Direct
Biological Process (BP) regulation of translation 1.324e-06 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 1.904e-11 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 2.296e-07 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 5.667e-08 Highly Informative Direct
Biological Process (BP) response to cold 0.0009047 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 7.331e-15 Highly Informative Direct
Biological Process (BP) gene silencing 6.904e-08 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 1.62e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 6.013e-11 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 1.638e-07 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 1.39e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 0.4416 Highly Informative Inherited
Biological Process (BP) cellular response to organic cyclic compound 0.1619 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 1 Highly Informative Inherited
Biological Process (BP) chromosome segregation 0.02384 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.03889 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.0655 Highly Informative Inherited
Biological Process (BP) establishment of RNA localization 0.01132 Highly Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.04399 Highly Informative Inherited
Biological Process (BP) B cell activation 0.06405 Highly Informative Inherited
Biological Process (BP) protein methylation 0.2024 Highly Informative Inherited
Biological Process (BP) histone modification 0.2938 Highly Informative Inherited
Biological Process (BP) stem cell development 0.01007 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.09587 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.3203 Highly Informative Inherited
Biological Process (BP) meiosis 0.007519 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.01109 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.2196 Highly Informative Inherited
Biological Process (BP) cell division 0.4858 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.03479 Highly Informative Inherited
Biological Process (BP) cell cycle phase 0.09243 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle phase transition 0.03458 Highly Informative Inherited
Molecular Function (MF) binding 2.173e-14 Least Informative Direct
Molecular Function (MF) hydrolase activity 1.859e-07 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 2.06e-07 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 0.09224 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 1.185e-11 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 1.034e-14 Informative Direct
Molecular Function (MF) DNA binding 0.8539 Informative Inherited
Molecular Function (MF) RNA binding 0.007397 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0.1544 Informative Inherited
Molecular Function (MF) ribonucleoprotein complex binding 2.02e-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 6.957e-14 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.9911 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 5.406e-14 Moderately Informative Direct
Cellular Component (CC) cytosol 0.005177 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.0141 Moderately Informative Inherited
Cellular Component (CC) chromosome 7.91e-13 Informative Direct
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 7.879e-05 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.2905 Informative Inherited
Cellular Component (CC) small ribosomal subunit 0.001608 Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.008553 Informative Inherited
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) cytoplasmic mRNA processing body 4.374e-07 Highly Informative Direct
Cellular Component (CC) DNA-directed RNA polymerase II, core complex 5.678e-10 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 4.544e-07 Highly Informative Direct
Cellular Component (CC) replisome 9.316e-09 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 9.123e-13 Highly Informative Direct
Cellular Component (CC) nuclear body 0.728 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 phenotype0.001311Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.005366Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.09793Least InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.0001579Moderately InformativeDirect
Mammalian Phenotype (MP)tumorigenesis0.0005141Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system morphology0.06735Moderately InformativeInherited
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.06951Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.09096Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.7883Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal chromosome stability1.591e-11InformativeDirect
Mammalian Phenotype (MP)decreased germ cell number0.0003082InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.0007588InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.001007InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.001068InformativeInherited
Mammalian Phenotype (MP)abnormal induced cell death0.004749InformativeInherited
Mammalian Phenotype (MP)decreased cell proliferation0.004845InformativeInherited
Mammalian Phenotype (MP)abnormal sex gland morphology0.008758InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.01592InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.02652InformativeInherited
Mammalian Phenotype (MP)chromosomal instability0Highly InformativeDirect
Mammalian Phenotype (MP)decreased fetal size1.363e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal ovary size0.000221Highly InformativeDirect
Mammalian Phenotype (MP)increased sensitivity to induced cell death0.0004581Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.02793Highly InformativeInherited
Mammalian Phenotype (MP)abnormal female germ cell morphology0.03464Highly InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.04146Highly 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 maintenance1.479e-06InformativeDirect
Yeast Phenotype (YP)heat sensitivity3.177e-05InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0006851InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo1.941e-05Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0.001316Least InformativeInherited

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 cell5.537e-05Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.0003556Least 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 phosphorous-containing groups0.1282Least 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 guanylyltransferase1.557e-09Highly InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.08999Highly 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)

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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 termination7.027e-16Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome1InformativeInherited
Cellular componentPrimosome0Highly InformativeDirect
Cellular componentTelomere5.203e-09Highly InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding5.553e-13Least InformativeDirect
Molecular functionNucleotide-binding2.628e-12Least 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 modificationNuclease0.1898Moderately 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 ]