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Protein

D-aminopeptidase

Gene

dppA

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Hydrolyzes N-terminal residues in D-amino acid containing peptides. Among the tested substrates, the highest activities are with D-Ala-D-Ala and D-Ala-Gly-Gly. The physiological role is not clear.

Cofactori

Zn2+Note: Binds 2 Zn2+ ions per subunit.

pH dependencei

Optimum pH is 9-11.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Zinc 1
Metal bindingi8 – 81Zinc 2
Metal bindingi10 – 101Zinc 1
Metal bindingi60 – 601Zinc 2
Metal bindingi104 – 1041Zinc 2
Active sitei115 – 1151Nucleophile
Metal bindingi133 – 1331Zinc 2

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Aminopeptidase, Hydrolase, Metalloprotease, Protease

Keywords - Biological processi

Sporulation

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciBSUB:BSU12920-MONOMER.
BRENDAi3.4.11.19. 658.

Protein family/group databases

MEROPSiM55.001.
TCDBi3.A.1.5.2. the atp-binding cassette (abc) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
D-aminopeptidase (EC:3.4.11.-)
Gene namesi
Name:dppA
Synonyms:dciAA
Ordered Locus Names:BSU12920
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 274274D-aminopeptidasePRO_0000208269Add
BLAST

Proteomic databases

PaxDbiP26902.

Expressioni

Developmental stagei

Expressed early during sporulation.

Inductioni

Nutrient deficiency conditions, which also induce sporulation.

Interactioni

Subunit structurei

Homodecamer. A 20 Angstroms wide channel runs through the complex, giving access to a central chamber holding the active sites.1 Publication

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100007166.

Structurei

Secondary structure

1
274
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 76Combined sources
Helixi18 – 203Combined sources
Helixi28 – 4821Combined sources
Beta strandi52 – 587Combined sources
Turni68 – 703Combined sources
Beta strandi75 – 817Combined sources
Helixi86 – 883Combined sources
Beta strandi96 – 1038Combined sources
Beta strandi109 – 1113Combined sources
Beta strandi116 – 1183Combined sources
Beta strandi121 – 1266Combined sources
Beta strandi129 – 1313Combined sources
Helixi133 – 14311Combined sources
Beta strandi148 – 1547Combined sources
Helixi155 – 1628Combined sources
Beta strandi169 – 17810Combined sources
Beta strandi181 – 1844Combined sources
Helixi187 – 20317Combined sources
Helixi205 – 2073Combined sources
Beta strandi218 – 2258Combined sources
Helixi226 – 2327Combined sources
Beta strandi238 – 2403Combined sources
Beta strandi244 – 2507Combined sources
Helixi254 – 26815Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HI9X-ray2.40A/B/C/D/E1-274[»]
ProteinModelPortaliP26902.
SMRiP26902. Positions 1-274.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP26902.

Family & Domainsi

Sequence similaritiesi

Belongs to the peptidase M55 family.Curated

Phylogenomic databases

eggNOGiENOG4108ME1. Bacteria.
COG2362. LUCA.
HOGENOMiHOG000189246.
InParanoidiP26902.
KOiK16203.
OMAiNKDKVKP.
PhylomeDBiP26902.

Family and domain databases

Gene3Di3.40.50.10780. 1 hit.
InterProiIPR027476. DppA_N.
IPR007035. Peptidase_M55.
[Graphical view]
PfamiPF04951. Peptidase_M55. 1 hit.
[Graphical view]
PIRSFiPIRSF015853. Pep_DppA. 1 hit.
SUPFAMiSSF63992. SSF63992. 1 hit.

Sequencei

Sequence statusi: Complete.

P26902-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLYMSVDME GISGLPDDTF VDSGKRNYER GRLIMTEEAN YCIAEAFNSG
60 70 80 90 100
CTEVLVNDSH SKMNNLMVEK LHPEADLISG DVKPFSMVEG LDDTFRGALF
110 120 130 140 150
LGYHARASTP GVMSHSMIFG VRHFYINDRP VGELGLNAYV AGYYDVPVLM
160 170 180 190 200
VAGDDRAAKE AEELIPNVTT AAVKQTISRS AVKCLSPAKA GRLLTEKTAF
210 220 230 240 250
ALQNKDKVKP LTPPDRPVLS IEFANYGQAE WANLMPGTEI KTGTTTVQFQ
260 270
AKDMLEAYQA MLVMTELAMR TSFC
Length:274
Mass (Da):30,159
Last modified:June 16, 2009 - v3
Checksum:i09A9F6410ADCFD38
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti190 – 1901A → R in CAA05572 (Ref. 2) Curated
Sequence conflicti199 – 1991A → P in CAA40002 (PubMed:1766370).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56678 Genomic DNA. Translation: CAA40002.1.
AJ002571 Genomic DNA. Translation: CAA05572.1.
AL009126 Genomic DNA. Translation: CAB13149.2.
PIRiS16647.
RefSeqiNP_389175.2. NC_000964.3.
WP_003245814.1. NZ_JNCM01000035.1.

Genome annotation databases

EnsemblBacteriaiCAB13149; CAB13149; BSU12920.
GeneIDi936727.
KEGGibsu:BSU12920.
PATRICi18974339. VBIBacSub10457_1362.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56678 Genomic DNA. Translation: CAA40002.1.
AJ002571 Genomic DNA. Translation: CAA05572.1.
AL009126 Genomic DNA. Translation: CAB13149.2.
PIRiS16647.
RefSeqiNP_389175.2. NC_000964.3.
WP_003245814.1. NZ_JNCM01000035.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HI9X-ray2.40A/B/C/D/E1-274[»]
ProteinModelPortaliP26902.
SMRiP26902. Positions 1-274.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100007166.

Protein family/group databases

MEROPSiM55.001.
TCDBi3.A.1.5.2. the atp-binding cassette (abc) superfamily.

Proteomic databases

PaxDbiP26902.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB13149; CAB13149; BSU12920.
GeneIDi936727.
KEGGibsu:BSU12920.
PATRICi18974339. VBIBacSub10457_1362.

Phylogenomic databases

eggNOGiENOG4108ME1. Bacteria.
COG2362. LUCA.
HOGENOMiHOG000189246.
InParanoidiP26902.
KOiK16203.
OMAiNKDKVKP.
PhylomeDBiP26902.

Enzyme and pathway databases

BioCyciBSUB:BSU12920-MONOMER.
BRENDAi3.4.11.19. 658.

Miscellaneous databases

EvolutionaryTraceiP26902.

Family and domain databases

Gene3Di3.40.50.10780. 1 hit.
InterProiIPR027476. DppA_N.
IPR007035. Peptidase_M55.
[Graphical view]
PfamiPF04951. Peptidase_M55. 1 hit.
[Graphical view]
PIRSFiPIRSF015853. Pep_DppA. 1 hit.
SUPFAMiSSF63992. SSF63992. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiDPPA_BACSU
AccessioniPrimary (citable) accession number: P26902
Secondary accession number(s): O34802
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1992
Last sequence update: June 16, 2009
Last modified: September 7, 2016
This is version 109 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Peptidase families
    Classification of peptidase families and list of entries
  4. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.