SUPERFAMILY 1.75 HMM library and genome assignments server


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 (3,213) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 71,915 171,345 102
Proteins 65,057 154,869 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 macromolecule metabolic process0.02961.822e-12Least InformativeInherited
Biological Process (BP)protein metabolic process0.084190.3952Least InformativeInherited
Biological Process (BP)biosynthetic process0.17035.17e-07Least InformativeInherited
Biological Process (BP)gene expression3.762e-050Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0020747.363e-11Moderately InformativeInherited
Biological Process (BP)translation0.00022920InformativeDirect
Molecular Function (MF)structural molecule activity9.569e-060.0001269Moderately InformativeDirect
Molecular Function (MF)structural constituent of ribosome7.683e-072.772e-11InformativeDirect
Cellular Component (CC)intracellular organelle part0.058920.6826Least InformativeInherited
Cellular Component (CC)intracellular non-membrane-bounded organelle0.00011370.001187Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.5450.217Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex1.693e-081.689e-14Moderately InformativeDirect
Cellular Component (CC)cytosol0.026910.02527Moderately InformativeInherited
Cellular Component (CC)small ribosomal subunit4.112e-110InformativeDirect
Cellular Component (CC)cytosolic ribosome0.18330.4834InformativeInherited
Cellular Component (CC)cytosolic small ribosomal subunit0.00087551.939e-05Highly 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 macromolecule metabolic process 1.822e-12 Least Informative Direct
Biological Process (BP) biosynthetic process 5.17e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 3.746e-15 Least Informative Direct
Biological Process (BP) single-organism metabolic process 5.838e-06 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1.542e-05 Least Informative Direct
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.3952 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 7.363e-11 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 0 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 6.338e-13 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 7.631e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0004486 Moderately Informative Direct
Biological Process (BP) cellular localization 0.907 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.28 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecule catabolic process 0.01482 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.9329 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.4287 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.8865 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.6756 Moderately Informative Inherited
Biological Process (BP) reproduction 0.6977 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.4747 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.848 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5481 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 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) translation 0 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0 Informative Direct
Biological Process (BP) organophosphate catabolic process 0 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 0 Informative Direct
Biological Process (BP) mitochondrion organization 0 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0 Informative Direct
Biological Process (BP) isoprenoid metabolic process 8.021e-08 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 1.315e-07 Informative Direct
Biological Process (BP) response to DNA damage stimulus 1.675e-05 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.0001709 Informative Direct
Biological Process (BP) DNA metabolic process 0.0003217 Informative Direct
Biological Process (BP) cell cycle process 0.0003504 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.0005887 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0009674 Informative Direct
Biological Process (BP) protein localization to organelle 0.03472 Informative Inherited
Biological Process (BP) ncRNA metabolic process 0.2366 Informative Inherited
Biological Process (BP) response to cytokine stimulus 0.556 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.08961 Informative Inherited
Biological Process (BP) chromosome organization 1 Informative Inherited
Biological Process (BP) organelle localization 0.5425 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.7597 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.8174 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.239 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.6844 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.8451 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.4991 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) protein catabolic process 1 Informative Inherited
Biological Process (BP) hexose metabolic process 0.07258 Informative Inherited
Biological Process (BP) carbohydrate catabolic process 1 Informative Inherited
Biological Process (BP) steroid metabolic process 0.01983 Informative Inherited
Biological Process (BP) nucleoside monophosphate metabolic process 0.7218 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.001545 Informative Inherited
Biological Process (BP) aspartate family amino acid metabolic process 0.07253 Informative Inherited
Biological Process (BP) immune effector process 0.0741 Informative Inherited
Biological Process (BP) immune response 0.6508 Informative Inherited
Biological Process (BP) cell activation 0.918 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0 Highly Informative Direct
Biological Process (BP) galactose metabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0 Highly Informative Direct
Biological Process (BP) cellular component disassembly 7.645e-14 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 9.461e-13 Highly Informative Direct
Biological Process (BP) regulation of nitric oxide biosynthetic process 1.041e-11 Highly Informative Direct
Biological Process (BP) meiosis 1.062e-10 Highly Informative Direct
Biological Process (BP) guanosine-containing compound metabolic process 5.936e-10 Highly Informative Direct
Biological Process (BP) steroid biosynthetic process 5.199e-08 Highly Informative Direct
Biological Process (BP) sterol metabolic process 9.737e-08 Highly Informative Direct
Biological Process (BP) chromosome segregation 3.216e-06 Highly Informative Direct
Biological Process (BP) RNA catabolic process 1.254e-05 Highly Informative Direct
Biological Process (BP) carbohydrate phosphorylation 1.999e-05 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 8.658e-05 Highly Informative Direct
Biological Process (BP) response to heat 0.0001144 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 0.0001289 Highly Informative Direct
Biological Process (BP) alcohol biosynthetic process 0.0001782 Highly Informative Direct
Biological Process (BP) DNA recombination 0.1196 Highly Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.008614 Highly Informative Inherited
Biological Process (BP) B cell activation 0.01346 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.2439 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.04269 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) nucleoside monophosphate catabolic process 1 Highly Informative Inherited
Biological Process (BP) acyl-CoA metabolic process 0.03231 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.03494 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.002719 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.0001269 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 2.337e-09 Moderately Informative Direct
Molecular Function (MF) isomerase activity 9.233e-09 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.0006368 Moderately Informative Direct
Molecular Function (MF) anion binding 0.06742 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.4027 Moderately Informative Inherited
Molecular Function (MF) lyase activity 0.1362 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) structural constituent of ribosome 2.772e-11 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) nuclease activity 4.226e-11 Informative Direct
Molecular Function (MF) RNA binding 1.478e-07 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 2.764e-07 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 7.407e-07 Informative Direct
Molecular Function (MF) nucleotide binding 9.488e-05 Informative Direct
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) carbon-carbon lyase activity 0.03322 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.1627 Informative Inherited
Molecular Function (MF) hydro-lyase activity 0.001338 Informative Inherited
Molecular Function (MF) kinase activity 0.6367 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.7731 Informative Inherited
Molecular Function (MF) peptidase activity 1 Informative Inherited
Molecular Function (MF) translation factor activity, nucleic acid binding 0 Highly Informative Direct
Molecular Function (MF) carbohydrate kinase activity 3.054e-15 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 1.008e-05 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 2.912e-05 Highly Informative Direct
Molecular Function (MF) ATP binding 3.338e-05 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0.6826 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1839 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.217 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.001187 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 1.689e-14 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.0001542 Moderately Informative Direct
Cellular Component (CC) cytosol 0.02527 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.05901 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.005781 Moderately Informative Inherited
Cellular Component (CC) small ribosomal subunit 0 Informative Direct
Cellular Component (CC) nucleolus 0.0001121 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.4834 Informative Inherited
Cellular Component (CC) plastid 0.003707 Informative Inherited
Cellular Component (CC) cell-cell junction 0.2783 Informative Inherited
Cellular Component (CC) mitochondrial matrix 0.002246 Informative Inherited
Cellular Component (CC) chromosome 0.04532 Informative Inherited
Cellular Component (CC) cytosolic small ribosomal subunit 1.939e-05 Highly Informative Direct
Cellular Component (CC) symplast 0.0002924 Highly Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.001125 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.315 Highly Informative Inherited
Cellular Component (CC) condensed chromosome 0.01008 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 abdomen0.01244Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.2043Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.003256Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.03082Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal genital system morphology0.1738Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.2553Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal bleeding0.01201InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.02298InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by anatomical site0.02315InformativeInherited
Phenotypic Abnormality (PA)Abnormality of female internal genitalia0.02503InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system physiology0.1344InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the intestine0.3053InformativeInherited
Phenotypic Abnormality (PA)Uterine neoplasm1.584e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the large intestine4.294e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Urinary tract neoplasm0.0003176Highly InformativeDirect
Phenotypic Abnormality (PA)Sarcoma0.0003929Highly InformativeDirect
Phenotypic Abnormality (PA)Migraine0.0005229Highly InformativeDirect
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.0423Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal reproductive system morphology0.09Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.008994InformativeInherited
Mammalian Phenotype (MP)abnormal male germ cell morphology0.01325InformativeInherited
Mammalian Phenotype (MP)abnormal spermatogenesis0.01873InformativeInherited
Mammalian Phenotype (MP)abnormal male meiosis0.0003038Highly InformativeDirect
Mammalian Phenotype (MP)azoospermia0.000416Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)larval development variant0.3432Least InformativeInherited
Worm Phenotype (WP)growth variant0.3714Least InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01511Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.03872Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.07052Moderately InformativeInherited
Worm Phenotype (WP)germ cell compartment expansion variant0.0001344InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.0001353InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.0001518InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.0001846InformativeDirect
Worm Phenotype (WP)early larval arrest6.174e-05Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.0001192Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)developmental rate defective0.000509InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA 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)immune system0.02304Moderately InformativeInherited
Xenopus ANatomical entity (XAN)endocrine system0.001248InformativeInherited

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 cell0.000278Least 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 groups0Least InformativeDirect
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least 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 peptide bonds (peptide hydrolases)0.02581Moderately 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)Pentosyltransferases1InformativeInherited
Enzyme Commission (EC)Carboxy-lyases1InformativeInherited
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-lyases0.4384Highly InformativeInherited

Document: EC 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 metabolism9.668e-10Moderately InformativeDirect
Biological processCarbohydrate metabolism0.0005854Moderately InformativeDirect
Biological processStress response0InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processtRNA processing0InformativeDirect
Biological processSteroid metabolism0.05366InformativeInherited
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processLipid A biosynthesis0Highly InformativeDirect
Biological processSterol biosynthesis5.574e-09Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPeroxisome0.0002986InformativeDirect
DomainTransit peptide4.866e-06Moderately 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 modificationLyase2.769e-11Moderately InformativeDirect
Post-translational modificationProtease5.135e-05Moderately 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)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)carbohydrate metabolism0Least InformativeDirect
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect
UniPathway (UP)carbohydrate biosynthesis0.7923InformativeInherited
UniPathway (UP)galactose metabolism0Highly InformativeDirect
UniPathway (UP)D-ribose 5-phosphate biosynthesis0Highly InformativeDirect

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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

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


Alignments of sequences to 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.


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