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Home > SCOP hierarchy > C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase superfamily

C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase superfamily

SCOP classification

Root:	SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:	All beta proteins [ 48724] (174)
Fold:	8-bladed beta-propeller [ 50997] (3)
Superfamily:	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase [ 51004]
Families:	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase [ 51005]

Superfamily statistics

	Genomes (1,615)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	2,983	46,300	8
Proteins	2,945	46,034	8

Functional annotation

General category	Metabolism
Detailed category	E- transfer

Document: Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)

	EC term	FDR (all)	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Oxidoreductases	0.002387	Least Informative	Inherited
Enzyme Commission (EC)	Hydrolases	0.01415	Least Informative	Inherited
Enzyme Commission (EC)	Acting on other nitrogenous compounds as donors	0.0000000007292	Informative	Direct
Enzyme Commission (EC)	Carboxylic ester hydrolases	0.007238	Informative	Inherited
Enzyme Commission (EC)	With a cytochrome as acceptor	0.000000000000007489	Highly Informative	Direct

Document: EC annotation of SCOP domains

InterPro annotation

Cross references IPR011048 SSF51004 Protein matches

Abstract
Cytochrome cd1 (cyt cd1) nitrite reductase is a dimeric enzyme of the bacterial periplasm that plays a key role in denitrification, the respiratory reduction of nitrite to nitric oxide in the nitrogen cycle. Each subunit of the cyt cd1 dimer contains one cytochrome c and one d1 haem group [ PubMed 12556530]. The active site contains a specialised d1 haem, where the nitrite substrate is bound and reduced. This d1 haem is bound in an 8-bladed beta-propeller, which is also found in some members of the WD40 repeat-containing proteins .

InterPro database

PDBeMotif information about ligands, sequence and structure motifs

Cross references

PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) ]

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 C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase 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 C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase 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 · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Internal database links ]