SUPERFAMILY 1.75 HMM library and genome assignments server

UROD/MetE-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   TIM beta/alpha-barrel [ 51350] (33)
Superfamily:   UROD/MetE-like [ 51726] (2)
Families:   Uroporphyrinogen decarboxylase, UROD [ 51727]
  Cobalamin-independent methionine synthase [ 110384]


Superfamily statistics
Genomes (2,895) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 8,746 44,749 11
Proteins 6,910 33,936 10


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

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)nitrogen compound metabolic process0.0073580.000006225Least InformativeInherited
Biological Process (BP)biosynthetic process0.0028720.0000009469Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.054350.00006148Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0028190.04259Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.0014380.02886Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.0013840.02475Least InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.00000084270.0009467Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process0.0000015120.0004053Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process0.000000027540.00000001021Moderately InformativeDirect
Biological Process (BP)organonitrogen compound biosynthetic process0.0000043310.0000000000614Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.0000017220.001045Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.0000045450.002443Moderately InformativeInherited
Biological Process (BP)pigment metabolic process0.00000000031190.00000001074InformativeDirect
Biological Process (BP)porphyrin-containing compound biosynthetic process0.00000000000000950.00002834Highly InformativeDirect
Biological Process (BP)pigment biosynthetic process0.0000000021270.000000008483Highly InformativeDirect
Molecular Function (MF)lyase activity0.000000016590.000001919Moderately InformativeDirect
Molecular Function (MF)carbon-carbon lyase activity0.0000000000057920.0000000000002632InformativeDirect
Molecular Function (MF)carboxy-lyase activity6.761e-160.000000000000001562Highly 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) nitrogen compound metabolic process 0.000006225 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0000009469 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00006148 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.04259 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.02886 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.02475 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.000001345 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.000001232 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0009467 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.0004053 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.0001766 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.00000001021 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0000000000614 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.001045 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.002443 Moderately Informative Inherited
Biological Process (BP) sulfur amino acid metabolic process 0.000004023 Informative Direct
Biological Process (BP) aspartate family amino acid metabolic process 0.000207 Informative Direct
Biological Process (BP) pigment metabolic process 0.00000001074 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 0.00001444 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0153 Informative Inherited
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.00002834 Highly Informative Direct
Biological Process (BP) pigment biosynthetic process 0.000000008483 Highly Informative Direct
Molecular Function (MF) transferase activity 0.003737 Least Informative Inherited
Molecular Function (MF) lyase activity 0.000001919 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0 Informative Direct
Molecular Function (MF) carbon-carbon lyase activity 0.0000000000002632 Informative Direct
Molecular Function (MF) methyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 0.000000000000001562 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.9581 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.04168 Least Informative Inherited
Cellular Component (CC) plastid 0.00000553 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0Least InformativeDirect
Enzyme Commission (EC)Methyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0InformativeDirect

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 processMethionine biosynthesis0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processMethanogenesis0.0000005073Highly InformativeDirect
Biological processHeme biosynthesis0.000003366Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
DomainRepeat0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationTransferase0.000000000001053Least InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationDecarboxylase0InformativeDirect
Post-translational modificationMethyltransferase0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism0Least InformativeDirect
UniPathway (UP)amino-acid metabolism0.00009204Least InformativeDirect
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)porphyrin-containing compound metabolism0Moderately InformativeDirect
UniPathway (UP)macrocycle metabolism0Moderately InformativeDirect
UniPathway (UP)one-carbon metabolism1Moderately InformativeInherited
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)L-methionine biosynthesis0InformativeDirect
UniPathway (UP)methanogenesis0.08565InformativeInherited
UniPathway (UP)methanogenesis from methylated amine0.0001139Highly 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) · 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 4 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 UROD/MetE-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 4 hidden Markov models representing the UROD/MetE-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) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]