SUPERFAMILY 1.75 HMM library and genome assignments server

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LmbE-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   LmbE-like [ 102587]
Superfamily:   LmbE-like [ 102588]
Families:   LmbE-like [ 102589] (2)


Superfamily statistics
Genomes (1,625) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 3,144 22,199 3
Proteins 3,134 22,171 3


Functional annotation
General category Other
Detailed category Unknown function

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 process0.00035420.000323Least InformativeDirect
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process0.040220.0009835Least InformativeInherited
Biological Process (BP)single-organism cellular process0.010510.3363Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.92970.5943Least InformativeInherited
Biological Process (BP)macromolecule metabolic process0.65210.766Least InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.00092870.0000002958Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.000000059420.000000000175Moderately InformativeDirect
Biological Process (BP)lipid metabolic process0.0210.00002461Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.0033320.003156Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.0041860.0001254Moderately InformativeInherited
Biological Process (BP)membrane lipid metabolic process0.00000053610.0000000000009981InformativeDirect
Biological Process (BP)phospholipid metabolic process0.0000027640.0000000003441InformativeDirect
Biological Process (BP)glycerolipid metabolic process0.00000050080.0000000000653InformativeDirect
Biological Process (BP)glycosyl compound metabolic process0.000012680.00001356InformativeDirect
Biological Process (BP)liposaccharide metabolic process0.0017660.00000002937InformativeInherited
Biological Process (BP)protein lipidation0.00000000028650Highly InformativeDirect
Biological Process (BP)glycolipid biosynthetic process0.00035480.000000003134Highly InformativeDirect
Biological Process (BP)glycoside metabolic process0.000000000015390.0000000000103Highly InformativeDirect
Biological Process (BP)glycerophospholipid biosynthetic process0.000000014140.00000000000002606Highly InformativeDirect
Biological Process (BP)phosphatidylinositol metabolic process0.0000000013150.00000000000004085Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.0096180.002501Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds0.0000000050620.00000000000003153InformativeDirect
Molecular Function (MF)deacetylase activity0.00000022330.000000000003056Highly 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) biosynthetic process 0.0009835 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.000323 Least Informative Direct
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3363 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.5943 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.766 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0.00002461 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0001254 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.0000002958 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.000000000175 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.003156 Moderately Informative Inherited
Biological Process (BP) membrane lipid metabolic process 0.0000000000009981 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.0000000003441 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0.0000000000653 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.00001356 Informative Direct
Biological Process (BP) liposaccharide metabolic process 0.00000002937 Informative Direct
Biological Process (BP) protein lipidation 0 Highly Informative Direct
Biological Process (BP) glycolipid biosynthetic process 0.000000003134 Highly Informative Direct
Biological Process (BP) glycoside metabolic process 0.0000000000103 Highly Informative Direct
Biological Process (BP) glycerophospholipid biosynthetic process 0.00000000000002606 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0.00000000000004085 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.002501 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.00000000000003153 Informative Direct
Molecular Function (MF) deacetylase activity 0.000000000003056 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)In linear amides0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentEndoplasmic reticulum0.000003451Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 2 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 LmbE-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 2 hidden Markov models representing the LmbE-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) · UniProtKB KeyWords (KW) · Internal database links ]