SUPERFAMILY 1.75 HMM library and genome assignments server


Formate dehydrogenase/DMSO reductase, domains 1-3 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Formate dehydrogenase/DMSO reductase, domains 1-3 [ 53705]
Superfamily:   Formate dehydrogenase/DMSO reductase, domains 1-3 [ 53706]
Families:   Formate dehydrogenase/DMSO reductase, domains 1-3 [ 53707] (10)


Superfamily statistics
Genomes (2,467) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 11,578 92,144 19
Proteins 11,554 92,013 19


Functional annotation
General category Metabolism
Detailed category Redox

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism metabolic process 5.627e-09 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.7895 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.6816 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.02783 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.8845 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.04476 Least Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 1.568e-05 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 1.94e-05 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 2.672e-05 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.0007606 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.001451 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.003958 Moderately Informative Inherited
Biological Process (BP) mitochondrion organization 6.083e-11 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 3.436e-10 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 2.577e-09 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 4.238e-09 Informative Direct
Biological Process (BP) apoptotic process 6.264e-09 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.18e-08 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 2.066e-08 Informative Direct
Biological Process (BP) ATP metabolic process 9.022e-11 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 3.914e-10 Highly Informative Direct
Molecular Function (MF) binding 0.3739 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) cation binding 0.004912 Moderately Informative Inherited
Molecular Function (MF) electron carrier activity 3.667e-11 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on NAD(P)H 4.275e-10 Informative Direct
Molecular Function (MF) metal cluster binding 1.236e-11 Highly Informative Direct
Molecular Function (MF) NADH dehydrogenase activity 1.097e-06 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor 0.0001956 Highly Informative Direct
Cellular Component (CC) protein complex 8.601e-07 Least Informative Direct
Cellular Component (CC) membrane 3.882e-05 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.1248 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.696 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.1598 Least Informative Inherited
Cellular Component (CC) mitochondrial part 1.778e-09 Moderately Informative Direct
Cellular Component (CC) organelle envelope 1.105e-08 Moderately Informative Direct
Cellular Component (CC) organelle membrane 2.537e-06 Moderately Informative Direct
Cellular Component (CC) respiratory chain 6.075e-15 Informative Direct
Cellular Component (CC) mitochondrial membrane part 1.017e-13 Informative Direct
Cellular Component (CC) external encapsulating structure 0.0001157 Informative Direct
Cellular Component (CC) respiratory chain complex I 0 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)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH1.207e-11Moderately InformativeDirect
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors1Moderately InformativeInherited
Enzyme Commission (EC)NADH:ubiquinone reductase (H(+)-translocating)0InformativeDirect
Enzyme Commission (EC)With other acceptors0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.474InformativeInherited
Enzyme Commission (EC)Nitrate reductase0Highly InformativeDirect
Enzyme Commission (EC)Formate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0.3808Highly InformativeInherited

Document: EC 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)Acting on other nitrogenous compounds as donors0InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH1.035e-10InformativeDirect
Enzyme Commission (EC)Acting on a sulfur group of donors0.8441InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors1InformativeInherited
Enzyme Commission (EC)With other acceptors0Highly InformativeDirect
Enzyme Commission (EC)NADH:ubiquinone reductase (H(+)-translocating)0Highly InformativeDirect
Enzyme Commission (EC)Formate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)NADH dehydrogenase2.063e-09Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0.4125Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processElectron transport0InformativeDirect
Biological processNitrate assimilation0Highly InformativeDirect
Cellular componentMitochondrion0.0006239Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentMitochondrion inner membrane1.139e-10InformativeDirect
Coding sequence diversitySelenocysteine1.138e-13InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionIron-sulfur0InformativeDirect
Molecular functionMolybdenum0InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular function2Fe-2S0InformativeDirect
Molecular functionUbiquinone0Highly InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationQuinone0Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 12 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 Formate dehydrogenase/DMSO reductase, domains 1-3 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 12 hidden Markov models representing the Formate dehydrogenase/DMSO reductase, domains 1-3 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-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]