SUPERFAMILY 1.75 HMM library and genome assignments server


Nitrite and sulphite reductase 4Fe-4S domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Nitrite and sulphite reductase 4Fe-4S domain-like [ 56013]
Superfamily:   Nitrite and sulphite reductase 4Fe-4S domain-like [ 56014]
Families:   Nitrite and sulphite reductase 4Fe-4S domain-like [ 56015] (5)


Superfamily statistics
Genomes (2,518) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 8,566 49,159 10
Proteins 6,323 39,039 7


Functional annotation
General category Metabolism
Detailed category E- transfer

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 0.0002732 Least Informative Direct
Biological Process (BP) biosynthetic process 0.1311 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.003102 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.1825 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2085 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.7712 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.4563 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.5751 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.6047 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) sulfur compound metabolic process 2.286e-13 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 3.49e-05 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0004638 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.001825 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.03543 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.03002 Moderately Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 2.826e-05 Informative Direct
Biological Process (BP) DNA metabolic process 0.0003969 Informative Direct
Biological Process (BP) sulfur amino acid metabolic process 0.000487 Informative Direct
Biological Process (BP) regulation of DNA metabolic process 3.113e-07 Highly Informative Direct
Molecular Function (MF) binding 0.1085 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) metal cluster binding 8.482e-13 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on a sulfur group of donors 2.554e-08 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0.1499 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.6074 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.08979 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.06764 Least Informative Inherited
Cellular Component (CC) plastid 1.013e-09 Informative Direct
Cellular Component (CC) chloroplast stroma 1.986e-12 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 a sulfur group of donors0Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1InformativeInherited
Enzyme Commission (EC)Sulfite reductase (NADPH)0Highly InformativeDirect
Enzyme Commission (EC)(E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synth0Highly InformativeDirect
Enzyme Commission (EC)Nitrite reductase (NAD(P)H)1.128e-12Highly InformativeDirect
Enzyme Commission (EC)With other acceptors0.000383Highly InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0.0004265Highly 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)seed0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence meristem0Moderately InformativeDirect
Plant ANatomical entity (PAN)cotyledon0Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect

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)Acting on CH or CH(2) groups0InformativeDirect
Enzyme Commission (EC)Acting on a sulfur group of donors0InformativeDirect
Enzyme Commission (EC)Acting on other nitrogenous compounds as donors0.7482InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1Highly InformativeInherited

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 processCysteine biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processNitrate assimilation0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionHeme0InformativeDirect
Molecular functionIron-sulfur0InformativeDirect
Molecular functionNADP0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationThioether bond0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)lipid biosynthesis0Moderately InformativeDirect
UniPathway (UP)energy metabolism0Moderately InformativeDirect
UniPathway (UP)nitrogen metabolism0.03283Moderately InformativeInherited
UniPathway (UP)hydrogen sulfide biosynthesis0InformativeDirect
UniPathway (UP)isoprenoid biosynthesis0InformativeDirect
UniPathway (UP)nitrate reduction3.389e-09InformativeDirect
UniPathway (UP)isopentenyl diphosphate biosynthesis via DXP pathway0Highly InformativeDirect
UniPathway (UP)nitrate reduction (assimilation)7.058e-15Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · 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 10 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 Nitrite and sulphite reductase 4Fe-4S domain-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 10 hidden Markov models representing the Nitrite and sulphite reductase 4Fe-4S domain-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-coverage) · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]