Pyrrolidone-carboxylate peptidase - Xenorhabdus bovienii (strain SS-2004)

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D3V0W1 (D3V0W1_XENBS) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 24. History...

Clusters with 100%, 90%, 50% identity |

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info Customize order

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info Customize order

Names and origin

Protein names

Recommended name:
Pyrrolidone-carboxylate peptidase HAMAP-Rule MF_00417
EC=3.4.19.3 HAMAP-Rule MF_00417

Alternative name(s):
5-oxoprolyl-peptidase HAMAP-Rule MF_00417
Pyroglutamyl-peptidase I HAMAP-Rule MF_00417

Gene names

Name:	pcp HAMAP-Rule MF_00417
Ordered Locus Names:	XBJ1_1667

Organism

Xenorhabdus bovienii (strain SS-2004) [Complete proteome] [HAMAP] EMBL CBJ80793.1

Taxonomic identifier

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Xenorhabdus ›

Protein attributes

Sequence length	215 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Removes 5-oxoproline from various penultimate amino acid residues except L-proline By similarity. HAMAP-Rule MF_00417 SAAS SAAS000816
Catalytic activity	Release of an N-terminal pyroglutamyl group from a polypeptide, the second amino acid generally not being Pro. HAMAP-Rule MF_00417 SAAS SAAS000816
Subunit structure	Homotetramer By similarity. HAMAP-Rule MF_00417
Subcellular location	Cytoplasm By similarity HAMAP-Rule MF_00417.
Sequence similarities	Belongs to the peptidase C15 family. HAMAP-Rule MF_00417

Ontologies

Keywords
Cellular component	Cytoplasm HAMAP-Rule MF_00417 SAAS SAAS000816
Molecular function	Hydrolase Protease Thiol protease HAMAP-Rule MF_00417 SAAS SAAS000816
Technical term	3D-structure PDB 4GXH PDB 4HPS Complete proteome
Gene Ontology (GO)
Biological_process	proteolysis Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	cysteine-type peptidase activity Inferred from electronic annotation. Source: UniProtKB-KW pyroglutamyl-peptidase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Sites

Active site

1

By similarity HAMAP-Rule MF_00417

Active site

1

By similarity HAMAP-Rule MF_00417

Active site

1

By similarity HAMAP-Rule MF_00417

Sequences

Sequence

Length

Mass (Da)

Tools

D3V0W1 [UniParc].

Last modified April 20, 2010. Version 1.
Checksum: 6EE07B0220E6B059
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215

22,980

        10         20         30         40         50         60 
MKTILVTAFD PFGGEAINPS WEAIKPLQGS QVFGANIEIC QIPCIFDTSL EHLYAAVDKY 

        70         80         90        100        110        120 
QPELVISVGQ AGGRTNITVE RVAININDAR IPDNAGNQPI DTPVIVDGPA AYFSRLPIKT 

       130        140        150        160        170        180 
MVNALNTAGI PASVSQTAGT FVCNHVMYGL LHYLAQNTPS VRGGFIHVPY LPEQAVKDGN 

       190        200        210 
QSSMTLMLMT LALKIAIETA WKNTSDIAVT GGATH

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete genome sequence of Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)." Goodrich-Blair H., Barbazuk B., Bode H.B., Darby C., Du Z., Forst S., Gaudriault S., Goldman B.S., Goodner B., Henkhaus J., Latreille P., Medigue C., Miller N., Norton S., Ogier J.C., Rouy Z., Slater S., Suen G. Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: SS-2004.
[2]	"Crystal Structure of a Pyrrolidone-carboxylate peptidase 1 (target ID NYSGRC-012831) from Xenorhabdus bovienii SS-2004 (CASP Target)." Ghosh A., Bhoshle R., Toro R., Gizzi A., Hillerich B., Seidel R., Almo S.C., New York Structural Genomics Research Consortium Submitted (SEP-2012) to the PDB data bank Cited for: X-RAY CRYSTALLOGRAPHY (2.70 ANGSTROMS).
[3]	"Crystal Structure of a Pyrrolidone-carboxylate peptidase 1 (target ID NYSGRC-012831) from Xenorhabdus bovienii SS-2004 in space group P21." Ghosh A., Ahmed A., Banu R., Bhoshle R., Bonanno J., Chamala S., Chowdhury S., Fiser A, Glenn A.S., Hillerich B., Khafizov K., Lafleur J., Love J.D., Seidel R., Stead M., Toro R., Almo S.C. Submitted (OCT-2012) to the PDB data bank Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 1-206.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

FN667741 Genomic DNA. Translation: CBJ80793.1.

RefSeq

YP_003467573.1. NC_013892.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
4GXH	X-ray	2.70	A/B/C/D	1-215	[»]
4HPS	X-ray	1.55	A/B/C/D	1-206	[»]

ModBase

Protein family/group databases

MEROPS

Protocols and materials databases

StructuralBiologyKnowledgebase

Genome annotation databases

EnsemblBacteria

CBJ80793; CBJ80793; XBJ1_1667.

GeneID

KEGG

PATRIC

35298287. VBIXenBov95754_1510.

Organism-specific databases

CMR

Phylogenomic databases

HOGENOM

KO

Family and domain databases

Gene3D

3.40.630.20. 1 hit.

HAMAP

MF_00417. Pyrrolid_peptidase.

InterPro

IPR000816. Peptidase_C15.
IPR016125. Peptidase_C15-like.
[Graphical view]

PANTHER

PTHR23402. PTHR23402. 1 hit.

Pfam

PF01470. Peptidase_C15. 1 hit.
[Graphical view]

PIRSF

PIRSF015592. Prld-crbxl_pptds. 1 hit.

PRINTS

PR00706. PYROGLUPTASE.

SUPFAM

SSF53182. Peptidase_C15-like. 1 hit.

TIGRFAMs

TIGR00504. pyro_pdase. 1 hit.

PROSITE

PS01334. PYRASE_CYS. 1 hit.
PS01333. PYRASE_GLU. 1 hit.
[Graphical view]

ProtoNet

Entry information

Entry name

D3V0W1_XENBS

Accession

Primary (citable) accession number: D3V0W1

Entry history

Integrated into UniProtKB/TrEMBL:	April 20, 2010
Last sequence update:	April 20, 2010
Last modified:	May 1, 2013
This is version 24 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info