SUPERFAMILY 1.75 HMM library and genome assignments server


Clavaminate synthase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Double-stranded beta-helix [ 51181] (7)
Superfamily:   Clavaminate synthase-like [ 51197] (13)
Families:   Penicillin synthase-like [ 51198] (4)
  Clavaminate synthase [ 51203]
  Gab protein (hypothetical protein YgaT) [ 63855]
  YhcH-like [ 89413]
  Type II Proline 3-hydroxylase (proline oxidase) [ 63858]
  TauD/TfdA-like [ 75038] (2)
  gamma-Butyrobetaine hydroxylase [ 89416] (2)
  Hypoxia-inducible factor HIF ihhibitor (FIH1) [ 82194]
  PhyH-like [ 141623] (2)
  AlkB-like [ 141628] (2)
  Asparaginyl hydroxylase-like [ 141633]
  YbiU-like [ 141636]
  TehB-like [ 159307] (2)


Superfamily statistics
Genomes (2,062) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 40,804 98,263 31
Proteins 40,332 98,040 31


Functional annotation
General category Metabolism
Detailed category Secondary metabolism

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)single-organism metabolic process6.146e-110Least InformativeDirect
Biological Process (BP)biosynthetic process0.026771Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.81243.862e-06Least InformativeInherited
Biological Process (BP)multicellular organismal process11Least InformativeInherited
Biological Process (BP)developmental process11Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)localization11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.039741Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.5781Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.83621Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.025211Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process10.0001112Least InformativeInherited
Biological Process (BP)protein metabolic process13.861e-10Least InformativeInherited
Biological Process (BP)response to stimulus0.14241Least InformativeInherited
Biological Process (BP)organic hydroxy compound metabolic process0.00022970.01796Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus1.118e-050.1899Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.053684.217e-12Moderately InformativeInherited
Biological Process (BP)cell differentiation11Moderately InformativeInherited
Biological Process (BP)organ development11Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.40051Moderately InformativeInherited
Biological Process (BP)organic substance transport0.81241Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.65731Moderately InformativeInherited
Biological Process (BP)organic substance catabolic process11Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.037010.008619Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.082831Moderately InformativeInherited
Biological Process (BP)immune system process0.94041Moderately InformativeInherited
Biological Process (BP)cellular protein modification process10Moderately InformativeInherited
Biological Process (BP)response to oxygen-containing compound0.00085110.2867Moderately InformativeInherited
Biological Process (BP)single-organism biosynthetic process0.011540.1715Moderately InformativeInherited
Biological Process (BP)lipid metabolic process4.003e-050.5362Moderately InformativeInherited
Biological Process (BP)cellular localization0.88411Moderately InformativeInherited
Biological Process (BP)cellular response to stress5.471e-050.275Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.95951Moderately InformativeInherited
Biological Process (BP)isoprenoid metabolic process1.081e-113.547e-11InformativeDirect
Biological Process (BP)organic hydroxy compound biosynthetic process9.453e-091.167e-10InformativeDirect
Biological Process (BP)nitrogen compound transport0.0060320.2454InformativeInherited
Biological Process (BP)vesicle-mediated transport11InformativeInherited
Biological Process (BP)organonitrogen compound catabolic process0.60081InformativeInherited
Biological Process (BP)pyrimidine-containing compound metabolic process0.011640.01237InformativeInherited
Biological Process (BP)carboxylic acid catabolic process0.21580.405InformativeInherited
Biological Process (BP)RNA modification1.081e-050.01269InformativeInherited
Biological Process (BP)DNA metabolic process0.0023321InformativeInherited
Biological Process (BP)leukocyte activation0.037420.4497InformativeInherited
Biological Process (BP)hematopoietic or lymphoid organ development0.088890.5909InformativeInherited
Biological Process (BP)peptidyl-amino acid modification0.26041InformativeInherited
Biological Process (BP)response to inorganic substance0.044950.5355InformativeInherited
Biological Process (BP)cytoplasmic transport0.14240.9917InformativeInherited
Biological Process (BP)response to DNA damage stimulus0.039430.01375InformativeInherited
Biological Process (BP)myeloid leukocyte activation0.00017827.272e-05Highly InformativeDirect
Biological Process (BP)DNA modification1.164e-129.767e-05Highly InformativeDirect
Biological Process (BP)isoprenoid biosynthetic process2.464e-060.0001854Highly InformativeDirect
Biological Process (BP)antibiotic biosynthetic process0.00027670.0001207Highly InformativeDirect
Biological Process (BP)erythrocyte differentiation3.823e-050.0001087Highly InformativeDirect
Biological Process (BP)myeloid cell development1.636e-061.055e-06Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound catabolic process1.234e-063.021e-06Highly InformativeDirect
Biological Process (BP)regulation of gene expression, epigenetic1.824e-090.002302Highly InformativeInherited
Biological Process (BP)nucleobase-containing compound transport0.00013910.01124Highly InformativeInherited
Biological Process (BP)establishment of RNA localization2.973e-070.00113Highly InformativeInherited
Biological Process (BP)phagocytosis0.068840.005002Highly InformativeInherited
Biological Process (BP)T cell differentiation0.00027020.006095Highly InformativeInherited
Biological Process (BP)nuclear export1.52e-060.002162Highly InformativeInherited
Molecular Function (MF)hydrolase activity11Least InformativeInherited
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)cation binding6.19e-060Moderately InformativeDirect
Molecular Function (MF)iron ion binding2.113e-140Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge00Highly InformativeDirect
Molecular Function (MF)dioxygenase activity00Highly 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) regulation of metabolic process 3.862e-06 Least Informative Direct
Biological Process (BP) protein metabolic process 3.861e-10 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0001112 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 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) localization 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.0106 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 1.61e-14 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.000441 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 4.217e-12 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 3.731e-09 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 5.7e-07 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.01796 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1899 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.03608 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1654 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.1715 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.008619 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) immune system 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) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.2867 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.5362 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.275 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) isoprenoid metabolic process 3.547e-11 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.000548 Informative Direct
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 1.167e-10 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0488 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.1773 Informative Inherited
Biological Process (BP) muscle system process 0.001343 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) tube development 0.1984 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) blood circulation 0.06632 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.2454 Informative Inherited
Biological Process (BP) negative regulation of cell communication 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) negative regulation of developmental process 1 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 0.0108 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.3307 Informative Inherited
Biological Process (BP) vesicle-mediated transport 1 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 1 Informative Inherited
Biological Process (BP) pyrimidine-containing compound metabolic process 0.01237 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.405 Informative Inherited
Biological Process (BP) RNA modification 0.01269 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) leukocyte activation 0.4497 Informative Inherited
Biological Process (BP) positive regulation of gene expression 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 nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.4968 Informative Inherited
Biological Process (BP) central nervous system development 0.8672 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.5909 Informative Inherited
Biological Process (BP) actin filament-based process 0.8061 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) embryonic morphogenesis 1 Informative Inherited
Biological Process (BP) tissue morphogenesis 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) reproductive system development 0.7933 Informative Inherited
Biological Process (BP) response to inorganic substance 0.5355 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.9917 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.01375 Informative Inherited
Biological Process (BP) cardiovascular system development 0.001052 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.2322 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) myeloid leukocyte activation 7.272e-05 Highly Informative Direct
Biological Process (BP) DNA modification 9.767e-05 Highly Informative Direct
Biological Process (BP) amino-acid betaine metabolic process 1.764e-11 Highly Informative Direct
Biological Process (BP) striated muscle contraction 0.0006055 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 0.0001854 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) antibiotic biosynthetic process 0.0001207 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0.0001635 Highly Informative Direct
Biological Process (BP) actin filament-based movement 9.857e-05 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 0.0001087 Highly Informative Direct
Biological Process (BP) mitotic cell cycle phase transition 0.0007252 Highly Informative Direct
Biological Process (BP) heart contraction 8.457e-06 Highly Informative Direct
Biological Process (BP) myeloid cell development 1.055e-06 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 3.021e-06 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0.01124 Highly Informative Inherited
Biological Process (BP) establishment of RNA localization 0.00113 Highly Informative Inherited
Biological Process (BP) regulation of mRNA processing 0.08146 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) phagocytosis 0.005002 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.006095 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.002302 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-dependent 1 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.002776 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.8572 Highly Informative Inherited
Biological Process (BP) nuclear export 0.002162 Highly Informative Inherited
Biological Process (BP) angiogenesis 0.04005 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.1332 Highly Informative Inherited
Biological Process (BP) neural tube development 0.0323 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.008026 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) cation binding 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.3036 Moderately Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) DNA binding 0.1364 Informative Inherited
Molecular Function (MF) iron ion binding 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0004029 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0 Highly Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0003598 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.007092 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.007433 Informative Inherited
Cellular Component (CC) chromosome 0.1035 Informative Inherited
Cellular Component (CC) chromatin 3.697e-05 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.02119 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)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.8245Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.6674Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Least InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.008223Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)RNA-directed RNA polymerase1.846e-11InformativeDirect
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporatio0Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.2351Least InformativeInherited
Mammalian Phenotype (MP)muscle phenotype0.1068Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.2318Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart layer morphology0.02631InformativeInherited
Mammalian Phenotype (MP)abnormal myocardium layer morphology0.02422Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cardiac muscle tissue morphology0.05067Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP 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

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant1Least InformativeInherited
Plant ANatomical entity (PAN)flower1Least InformativeInherited
Plant ANatomical entity (PAN)vascular system0.7641InformativeInherited
Plant ANatomical entity (PAN)plant ovule0.2516Highly InformativeInherited

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases0.8023Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.8358Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.9189Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0InformativeDirect
Enzyme Commission (EC)RNA-directed RNA polymerase4.125e-11InformativeDirect
Enzyme Commission (EC)RNA helicase0.0001773InformativeDirect
Enzyme Commission (EC)Acting on single donors with incorporation of molecular oxygen0.7184InformativeInherited
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0Highly InformativeDirect
Enzyme Commission (EC)With incorporation of one atom of oxygen3.502e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDifferentiation3.043e-08Moderately InformativeDirect
Biological processViral RNA replication9.738e-10InformativeDirect
Biological processPlant defense0.0005375InformativeDirect
Biological processmRNA splicing0.0006404InformativeDirect
Biological processAntibiotic biosynthesis0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainTPR repeat0.0009259Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationRepressor2.835e-11Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase1Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationRNA-directed RNA polymerase4.689e-10Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)aromatic compound metabolism0.2212Least InformativeInherited
UniPathway (UP)biopolymer metabolism1Least InformativeInherited
UniPathway (UP)secondary metabolite metabolism0Moderately InformativeDirect
UniPathway (UP)aromatic compound biosynthesis2.253e-13Moderately InformativeDirect
UniPathway (UP)amine and polyamine metabolism4.404e-08Moderately InformativeDirect
UniPathway (UP)nitrogen metabolism0.06426Moderately InformativeInherited
UniPathway (UP)energy metabolism0.2894Moderately InformativeInherited
UniPathway (UP)antibiotic biosynthesis0InformativeDirect
UniPathway (UP)plant hormone metabolism0InformativeDirect
UniPathway (UP)flavonoid metabolism0InformativeDirect
UniPathway (UP)phenylpropanoid biosynthesis0InformativeDirect
UniPathway (UP)carnitine metabolism1.345e-15InformativeDirect
UniPathway (UP)amine and polyamine biosynthesis9.917e-12InformativeDirect
UniPathway (UP)alkaloid metabolism2.195e-07InformativeDirect
UniPathway (UP)pigment biosynthesis0.000841InformativeDirect
UniPathway (UP)tRNA modification0.009358InformativeInherited
UniPathway (UP)terpene metabolism1InformativeInherited
UniPathway (UP)hydrocarbon biosynthesis0Highly InformativeDirect
UniPathway (UP)plant hormone biosynthesis0Highly InformativeDirect
UniPathway (UP)tRNA post-transcriptional modification0Highly InformativeDirect
UniPathway (UP)alkene metabolism0Highly InformativeDirect
UniPathway (UP)organosulfur degradation7.703e-09Highly InformativeDirect
UniPathway (UP)sesquiterpene biosynthesis2.431e-05Highly InformativeDirect
UniPathway (UP)anthocyanin biosynthesis0.0005395Highly InformativeDirect
UniPathway (UP)penicillin biosynthesis0.154Highly 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 21 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 Clavaminate synthase-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 21 hidden Markov models representing the Clavaminate synthase-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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