SUPERFAMILY 1.75 HMM library and genome assignments server

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


Ribosomal protein S5 domain 2-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ribosomal protein S5 domain 2-like [ 54210]
Superfamily:   Ribosomal protein S5 domain 2-like [ 54211] (12)
Families:   Translational machinery components [ 54212] (4)
  RNase P protein [ 54220]
  DNA gyrase/MutL, second domain [ 54224] (6)
  Hsp90 middle domain [ 102755]
  Ribonuclease PH domain 1-like [ 54229] (10)
  GHMP Kinase, N-terminal domain [ 54232] (6)
  Early switch protein XOL-1, N-terminal domain [ 89824]
  UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC [ 89827]
  Imidazole glycerol phosphate dehydratase [ 102766]
  ATP-dependent protease Lon (La), catalytic domain [ 102769]
  YigZ N-terminal domain-like [ 102772] (2)
  Formaldehyde-activating enzyme, FAE [ 117795]


Superfamily statistics
Genomes (3,256) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 73,169 363,446 102
Proteins 66,306 325,948 93


Functional annotation
General category Information
Detailed category Translation

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)cellular nitrogen compound metabolic process0.00038920Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00096150.0000001088Least InformativeDirect
Biological Process (BP)biosynthetic process0.082720.00007054Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.061730.0002983Least InformativeInherited
Biological Process (BP)primary metabolic process0.086080Least InformativeInherited
Biological Process (BP)gene expression0.0000000015420Moderately InformativeDirect
Biological Process (BP)peptide metabolic process0.000000073110Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00000019550Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0002810.0000001458Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.0000000056630.000001439Moderately InformativeDirect
Molecular Function (MF)structural constituent of ribosome0.00000000035130.00000000000003181InformativeDirect
Cellular Component (CC)intracellular organelle part0.000042361Least InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.000000025420.1506Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.43441Least InformativeInherited
Cellular Component (CC)ribosome0.00000000012490.0000000000006234Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.00000000027850.0009003Moderately InformativeDirect
Cellular Component (CC)small ribosomal subunit0.0000000000000027780InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit0.000098610.000000761Highly 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 nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.0000001088 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0002983 Least Informative Direct
Biological Process (BP) biosynthetic process 0.00007054 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00008141 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00004375 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0001515 Least Informative Direct
Biological Process (BP) response to stimulus 0.000000000001078 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0000000002191 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) single-organism metabolic process 0.9869 Least Informative Inherited
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000001458 Moderately Informative Direct
Biological Process (BP) response to stress 0 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.7786 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.9058 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.1261 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4891 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.6092 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.002855 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.7665 Moderately Informative Inherited
Biological Process (BP) immune system process 0.8875 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.2377 Moderately Informative Inherited
Biological Process (BP) mitochondrion organization 0 Informative Direct
Biological Process (BP) response to temperature stimulus 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0.0000000000003081 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.0000000001024 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.00000001057 Informative Direct
Biological Process (BP) isoprenoid metabolic process 0.00000001611 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.00000003965 Informative Direct
Biological Process (BP) DNA metabolic process 0.00000007352 Informative Direct
Biological Process (BP) monosaccharide metabolic process 0.0000005658 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.00000967 Informative Direct
Biological Process (BP) ncRNA processing 0.0001246 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.0006983 Informative Direct
Biological Process (BP) growth 0.1569 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) cell cycle process 0.3078 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.1025 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.009888 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) transmembrane transport 0.7353 Informative Inherited
Biological Process (BP) response to radiation 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.5103 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.7327 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) regulation of phosphorylation 1 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 1 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.02219 Informative Inherited
Biological Process (BP) carbohydrate catabolic process 0.8664 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) organelle fission 0.986 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.02023 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 1 Informative Inherited
Biological Process (BP) response to inorganic substance 0.5021 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.1381 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.708 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.4398 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.3925 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.4554 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) tRNA metabolic process 0.8607 Informative Inherited
Biological Process (BP) aspartate family amino acid metabolic process 0.1082 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.2627 Informative Inherited
Biological Process (BP) response to oxidative stress 0.6091 Informative Inherited
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) RNA catabolic process 0 Highly Informative Direct
Biological Process (BP) response to estrogen 0 Highly Informative Direct
Biological Process (BP) response to cold 0 Highly Informative Direct
Biological Process (BP) response to heat 0 Highly Informative Direct
Biological Process (BP) response to antibiotic 0 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.000000000001398 Highly Informative Direct
Biological Process (BP) regulation of reactive oxygen species biosynthetic process 0.0000000001842 Highly Informative Direct
Biological Process (BP) rRNA metabolic process 0.0000001036 Highly Informative Direct
Biological Process (BP) positive regulation of reactive oxygen species metabolic process 0.000000185 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 0.0000002807 Highly Informative Direct
Biological Process (BP) cellular response to reactive oxygen species 0.0000003114 Highly Informative Direct
Biological Process (BP) protein folding 0.0000004294 Highly Informative Direct
Biological Process (BP) regulation of RNA stability 0.0000005252 Highly Informative Direct
Biological Process (BP) secondary alcohol metabolic process 0.00001002 Highly Informative Direct
Biological Process (BP) response to hydrogen peroxide 0.00001085 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 0.00003359 Highly Informative Direct
Biological Process (BP) monosaccharide catabolic process 0.0000363 Highly Informative Direct
Biological Process (BP) meiotic cell cycle process 0.00006308 Highly Informative Direct
Biological Process (BP) alcohol biosynthetic process 0.0000689 Highly Informative Direct
Biological Process (BP) mRNA metabolic process 0.0002757 Highly Informative Direct
Biological Process (BP) response to nutrient levels 0.5253 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 0.05257 Highly Informative Inherited
Biological Process (BP) cell growth 0.09209 Highly Informative Inherited
Biological Process (BP) cell projection organization 1 Highly Informative Inherited
Biological Process (BP) neuron development 1 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.03096 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.002305 Highly Informative Inherited
Biological Process (BP) nuclear chromosome segregation 0.09317 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Highly Informative Inherited
Biological Process (BP) cellular response to abiotic stimulus 0.2124 Highly Informative Inherited
Biological Process (BP) response to UV 0.002174 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.06428 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.0927 Highly Informative Inherited
Biological Process (BP) cellular response to external stimulus 0.001678 Highly Informative Inherited
Biological Process (BP) response to endoplasmic reticulum stress 0.1147 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.08311 Highly Informative Inherited
Biological Process (BP) modification-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) steroid metabolic process 0.01013 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.5382 Highly Informative Inherited
Biological Process (BP) chromosome organization 0.02203 Highly Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.3135 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) binding 0.9209 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.000001439 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.0000000001109 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.0000000004261 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0.000000002266 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.0000000268 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00002598 Moderately Informative Direct
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) molecular function regulator 0.9153 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) lyase activity 0.2211 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.1349 Moderately Informative Inherited
Molecular Function (MF) structural constituent of ribosome 0.00000000000003181 Informative Direct
Molecular Function (MF) purine nucleoside binding 0 Informative Direct
Molecular Function (MF) ribonucleoside binding 0 Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0 Informative Direct
Molecular Function (MF) ribonucleotide binding 0 Informative Direct
Molecular Function (MF) purine nucleotide binding 0 Informative Direct
Molecular Function (MF) RNA binding 0.0000000003218 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0.0009347 Informative Direct
Molecular Function (MF) kinase activity 1 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) hydro-lyase activity 0.006357 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 1 Informative Inherited
Molecular Function (MF) ATPase activity 1 Informative Inherited
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.8041 Informative Inherited
Molecular Function (MF) carbon-carbon lyase activity 0.03641 Informative Inherited
Molecular Function (MF) translation factor activity, RNA binding 8.405e-16 Highly Informative Direct
Molecular Function (MF) ATP binding 0.0000001649 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 0.00001594 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00003201 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.1506 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) ribosome 0.0000000000006234 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.0009003 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.01472 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.009846 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.9121 Moderately Informative Inherited
Cellular Component (CC) small ribosomal subunit 0 Informative Direct
Cellular Component (CC) chromosome 0.06369 Informative Inherited
Cellular Component (CC) cell junction 0.7582 Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.009853 Informative Inherited
Cellular Component (CC) cytosolic small ribosomal subunit 0.000000761 Highly Informative Direct
Cellular Component (CC) mitochondrial small ribosomal subunit 0.000001794 Highly Informative Direct
Cellular Component (CC) germ cell nucleus 0.0004344 Highly Informative Direct
Cellular Component (CC) symplast 0.0008119 Highly Informative Direct
Cellular Component (CC) chromatin 0.9121 Highly Informative Inherited
Cellular Component (CC) cell-cell junction 0.2013 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome 0.536 Highly Informative Inherited
Cellular Component (CC) condensed chromosome 0.02479 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)Lyases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.03273Least InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Sole sub-subclass for isomerases that do not belon1InformativeInherited
Enzyme Commission (EC)Aldehyde-lyases0.3584InformativeInherited
Enzyme Commission (EC)Endopeptidase La0Highly InformativeDirect
Enzyme Commission (EC)Homoserine kinase0Highly InformativeDirect
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Ribonuclease P0Highly InformativeDirect
Enzyme Commission (EC)Histidinol-phosphatase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the digestive system0.03323Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.2342Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.2644Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.4536Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the immune system0.6344Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.01764Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system physiology0.07218Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.07391Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system physiology0.08511Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.1518Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.1759Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.1966Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal genital system morphology0.2951Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.5223Moderately InformativeInherited
Phenotypic Abnormality (PA)Internal hemorrhage0.0006386InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the genitourinary tract0.002658InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the biliary system0.00437InformativeInherited
Phenotypic Abnormality (PA)Morphological abnormality of the gastrointestinal tract0.02169InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.02499InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ovary0.03993InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the pancreas0.05695InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.1408InformativeInherited
Phenotypic Abnormality (PA)Recurrent infections0.182InformativeInherited
Phenotypic Abnormality (PA)Endometrial carcinoma0.00000088Highly InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the small intestine0.000001414Highly InformativeDirect
Phenotypic Abnormality (PA)Hereditary nonpolyposis colorectal carcinoma0.000005529Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the rectum0.000005553Highly InformativeDirect
Phenotypic Abnormality (PA)Colon cancer0.000007667Highly InformativeDirect
Phenotypic Abnormality (PA)Biliary tract neoplasm0.00003794Highly InformativeDirect
Phenotypic Abnormality (PA)Ovarian neoplasm0.00006248Highly InformativeDirect
Phenotypic Abnormality (PA)Gastrointestinal hemorrhage0.00008396Highly InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the stomach0.000416Highly InformativeDirect
Phenotypic Abnormality (PA)Recurrent urinary tract infections0.0004175Highly InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the pancreas0.0004394Highly InformativeDirect
Phenotypic Abnormality (PA)Intestinal obstruction0.000644Highly InformativeDirect
Phenotypic Abnormality (PA)Renal neoplasm0.0006561Highly InformativeDirect
Phenotypic Abnormality (PA)Neuroblastic tumors0.0007453Highly InformativeDirect
Phenotypic Abnormality (PA)Primitive neuroectodermal tumor0.0007453Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.008946Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.04726Least InformativeInherited
Worm Phenotype (WP)larval growth variant0.1503Least InformativeInherited
Worm Phenotype (WP)larval development variant0.2775Least InformativeInherited
Worm Phenotype (WP)cell development variant0.4534Least InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.02563Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.05264Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.1191Moderately InformativeInherited
Worm Phenotype (WP)germ cell compartment expansion variant0.0003577InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.000378InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.0004342InformativeDirect
Worm Phenotype (WP)early larval arrest0.00000008745Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0Least InformativeDirect

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)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0.0008201Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0.0002765Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.00542Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds0.0000000000866Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.273Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)In linear amides0InformativeDirect
Enzyme Commission (EC)Pentosyltransferases1InformativeInherited
Enzyme Commission (EC)Phosphotransferases with a phosphate group as acceptor1InformativeInherited
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Ribonuclease P0Highly InformativeDirect
Enzyme Commission (EC)DNA topoisomerase (ATP-hydrolyzing)0Highly InformativeDirect
Enzyme Commission (EC)Aldehyde-lyases0.5096Highly InformativeInherited

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)antiinfectives for systemic use0.0000004182Least InformativeDirect
Drugbank ATC_code (DB)sensory organs0.0003504Least InformativeDirect
Drugbank ATC_code (DB)antiinfectives0.0003629Moderately InformativeDirect
Drugbank ATC_code (DB)antibacterials for systemic use0.1388Moderately InformativeInherited
Drugbank ATC_code (DB)quinolone antibacterials0.0001054InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processLipid metabolism0.000000000001842Moderately InformativeDirect
Biological processCarbohydrate metabolism0.002634Moderately InformativeInherited
Biological processStress response0InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processtRNA processing0InformativeDirect
Biological processSteroid metabolism0.05161InformativeInherited
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processLipid A biosynthesis0Highly InformativeDirect
Biological processSterol biosynthesis0.00000000005952Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPeroxisome0.00003914InformativeDirect
Cellular componentExosome0Highly InformativeDirect
DomainTransit peptide0.00001794Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationLyase0.000000000371Moderately InformativeDirect
Post-translational modificationProtease0.0001128Moderately InformativeDirect
Post-translational modificationIsomerase1Moderately InformativeInherited
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationSerine protease0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationTopoisomerase0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amino-acid metabolism0Least InformativeDirect
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)biopolymer metabolism0.00000000001689Least InformativeDirect
UniPathway (UP)cofactor metabolism1Least InformativeInherited
UniPathway (UP)carbohydrate metabolism1Least InformativeInherited
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)lipid biosynthesis0Moderately InformativeDirect
UniPathway (UP)cellular component biogenesis0.0000000000003072Moderately InformativeDirect
UniPathway (UP)carbohydrate biosynthesis1Moderately InformativeInherited
UniPathway (UP)alcohol metabolism1Moderately InformativeInherited
UniPathway (UP)membrane lipid metabolism1Moderately InformativeInherited
UniPathway (UP)lipopolysaccharide biosynthesis0InformativeDirect
UniPathway (UP)L-histidine biosynthesis0InformativeDirect
UniPathway (UP)isoprenoid biosynthesis0InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect
UniPathway (UP)alcohol biosynthesis0.04515InformativeInherited
UniPathway (UP)terpene biosynthesis0.4791InformativeInherited
UniPathway (UP)steroid metabolism1InformativeInherited
UniPathway (UP)glycolipid biosynthesis1InformativeInherited
UniPathway (UP)L-threonine biosynthesis0Highly InformativeDirect
UniPathway (UP)galactose metabolism0Highly InformativeDirect
UniPathway (UP)lipid IV(A) biosynthesis0Highly InformativeDirect
UniPathway (UP)sterol biosynthesis0.001253Highly InformativeInherited

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) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Phenotype (FP) · 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 58 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 Ribosomal protein S5 domain 2-like 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 58 hidden Markov models representing the Ribosomal protein S5 domain 2-like 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) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Phenotype (FP) · 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 ]