Summary: NapD protein
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NapD protein Provide feedback
Uncharacterized protein involved in formation of periplasmic nitrate reductase.
Berks BC, Richardson DJ, Reilly A, Willis AC, Ferguson SJ; , Biochem J 1995;309:983-992.: The napEDABC gene cluster encoding the periplasmic nitrate reductase system of Thiosphaera pantotropha. PUBMED:7639719 EPMC:7639719
Potter LC, Cole JA; , Biochem J 1999;344:69-76.: Essential roles for the products of the napABCD genes, but not napFGH, in periplasmic nitrate reduction by Escherichia coli K-12. PUBMED:10548535 EPMC:10548535
Internal database links
|Similarity to PfamA using HHSearch:||AsnC_trans_reg|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR005623
This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [PUBMED:19060147].
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This superfamily of proteins possess a Ferredoxin-like fold. Pairs of these assemble into a beta barrel. The function of this barrel is quite varied and includes Muconolactone isomerase as well as monooxygenases.
The clan contains the following 18 members:ABM AsnC_trans_reg Chlor_dismutase Dabb Dehydratase_hem DUF1330 DUF3291 DUF4188 DUF718 DUF881 Dyp_perox EthD MIase MmlI NapD NIPSNAP SOR YCII
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Curation and family details
|Number in seed:||59|
|Number in full:||1029|
|Average length of the domain:||78.70 aa|
|Average identity of full alignment:||39 %|
|Average coverage of the sequence by the domain:||82.85 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||8|
|Download:||download the raw HMM for this family|
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the NapD domain has been found. There are 2 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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