SUPERFAMILY 1.75 HMM library and genome assignments server

HydA/Nqo6-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   HydA/Nqo6-like [ 56769]
Superfamily:   HydA/Nqo6-like [ 56770] (2)
Families:   Nickel-iron hydrogenase, small subunit [ 56771]
  Nq06-like [ 144031]


Superfamily statistics
Genomes (2,185) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,711 23,438 8
Proteins 4,703 23,429 8


Functional annotation
General category Metabolism
Detailed category Other enzymes

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 component organization or biogenesis0.00017610.006264Least InformativeInherited
Biological Process (BP)single-organism cellular process0.039420.3849Least InformativeInherited
Biological Process (BP)organelle organization0.0000860.0004319Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.000000015810.0000001901Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis0.0000002190.000003855Moderately InformativeDirect
Biological Process (BP)mitochondrion organization0.000000000064760.0000000001059InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly0.000000000012510.00000000006076InformativeDirect
Molecular Function (MF)oxidoreductase activity0.000000002620.0000000005184Moderately InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on NAD(P)H0.0000000000038540.00000000001746InformativeDirect
Molecular Function (MF)NADH dehydrogenase activity00Highly InformativeDirect
Cellular Component (CC)membrane0.000340.0005615Least InformativeDirect
Cellular Component (CC)protein complex0.000000034440.000001883Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.062070.1424Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.0015280.02122Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.34820.08873Least InformativeInherited
Cellular Component (CC)organelle membrane0.00017130.00006547Moderately InformativeDirect
Cellular Component (CC)organelle envelope0.0000046780.0000002822Moderately InformativeDirect
Cellular Component (CC)mitochondrial part0.0000019620.000000131Moderately InformativeDirect
Cellular Component (CC)mitochondrial membrane part0.000000010630.00000000009415InformativeDirect
Cellular Component (CC)respiratory chain0.00000000000049810.000000000000003095InformativeDirect
Cellular Component (CC)respiratory chain complex I00Highly 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 component organization or biogenesis 0.006264 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3849 Least Informative Inherited
Biological Process (BP) organelle organization 0.0004319 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000001901 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000003855 Moderately Informative Direct
Biological Process (BP) mitochondrion organization 0.0000000001059 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.00000000006076 Informative Direct
Molecular Function (MF) oxidoreductase activity 0.0000000005184 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on NAD(P)H 0.00000000001746 Informative Direct
Molecular Function (MF) NADH dehydrogenase activity 0 Highly Informative Direct
Cellular Component (CC) membrane 0.0005615 Least Informative Direct
Cellular Component (CC) protein complex 0.000001883 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.1424 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.02122 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.08873 Least Informative Inherited
Cellular Component (CC) organelle membrane 0.00006547 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0.0000002822 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.000000131 Moderately Informative Direct
Cellular Component (CC) mitochondrial membrane part 0.00000000009415 Informative Direct
Cellular Component (CC) respiratory chain 0.000000000000003095 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 NADPH0Moderately InformativeDirect
Enzyme Commission (EC)NADH:ubiquinone reductase (H(+)-translocating)0InformativeDirect
Enzyme Commission (EC)With other acceptors0InformativeDirect
Enzyme Commission (EC)Acting on hydrogen as donor0Highly InformativeDirect
Enzyme Commission (EC)NADH dehydrogenase (quinone)0.00000002565Highly InformativeDirect

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 NADH or NADPH0InformativeDirect
Enzyme Commission (EC)Acting on hydrogen as donor0Highly InformativeDirect
Enzyme Commission (EC)NADH:ubiquinone reductase (H(+)-translocating)0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processElectron transport1InformativeInherited
Biological processRespiratory chain0.0004786Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
Cellular componentThylakoid0InformativeDirect
Cellular componentCell inner membrane0InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionIron-sulfur0InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionNADP0InformativeDirect
Molecular function3Fe-4S0Highly InformativeDirect
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-quality) · 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 6 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 HydA/Nqo6-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 6 hidden Markov models representing the HydA/Nqo6-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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]