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Protein

Pediocin PA-1 transport/processing ATP-binding protein PedD

Gene

pedD

Organism
Pediococcus acidilactici
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Involved in the export process of the bacteriocin pediocin PA-1/AcH. Is also essential for pediocin production.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei19 – 191PROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi519 – 5268ATPPROSITE-ProRule annotation

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Bacteriocin transport, Protein transport, Transport

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Protein family/group databases

MEROPSiC39.001.
TCDBi3.A.1.112.2. the atp-binding cassette (abc) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
Pediocin PA-1 transport/processing ATP-binding protein PedD (EC:3.4.22.-)
Alternative name(s):
Pediocin AcH transport ATP-binding protein PapD
Gene namesi
Name:pedD
Synonyms:papD
Encoded oniPlasmid pSRQ111 Publication
Plasmid pSMB741 Publication
OrganismiPediococcus acidilactici
Taxonomic identifieri1254 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaePediococcusPediococcus acidilactici group

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei170 – 19021HelicalPROSITE-ProRule annotationAdd
BLAST
Transmembranei207 – 22721HelicalPROSITE-ProRule annotationAdd
BLAST
Transmembranei284 – 30421HelicalPROSITE-ProRule annotationAdd
BLAST
Transmembranei307 – 32721HelicalPROSITE-ProRule annotationAdd
BLAST
Transmembranei396 – 41621HelicalPROSITE-ProRule annotationAdd
BLAST
Transmembranei426 – 44621HelicalPROSITE-ProRule annotationAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 724724Pediocin PA-1 transport/processing ATP-binding protein PedDPRO_0000092682Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliP36497.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini13 – 140128Peptidase C39PROSITE-ProRule annotationAdd
BLAST
Domaini170 – 452283ABC transmembrane type-1PROSITE-ProRule annotationAdd
BLAST
Domaini486 – 722237ABC transporterPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 ABC transmembrane type-1 domain.PROSITE-ProRule annotation
Contains 1 ABC transporter domain.PROSITE-ProRule annotation
Contains 1 peptidase C39 domain.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

KOiK12292.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR011527. ABC1_TM_dom.
IPR003439. ABC_transporter-like.
IPR017871. ABC_transporter_CS.
IPR027417. P-loop_NTPase.
IPR005897. Pept_C39_ABC_bacteriocin.
IPR005074. Peptidase_C39.
[Graphical view]
PfamiPF00664. ABC_membrane. 1 hit.
PF00005. ABC_tran. 1 hit.
PF03412. Peptidase_C39. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
SSF90123. SSF90123. 1 hit.
TIGRFAMsiTIGR01193. bacteriocin_ABC. 1 hit.
PROSITEiPS50929. ABC_TM1F. 1 hit.
PS00211. ABC_TRANSPORTER_1. 1 hit.
PS50893. ABC_TRANSPORTER_2. 1 hit.
PS50990. PEPTIDASE_C39. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P36497-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWTQKWHKYY TAQVDENDCG LAALNMILKY YGSDYMLAHL RQLAKTTADG
60 70 80 90 100
TTVLGLVKAA KHLNLNAEAV RADMDALTAS QLPLPVIVHV FKKNKLPHYY
110 120 130 140 150
VVYQVTENDL IIGDPDPTVK TTKISKSQFA KEWTQIAIII APTVKYKPIK
160 170 180 190 200
ESRHTLIDLV PLLIKQKRLI GLIITAAAIT TLISIAGAYF FQLIIDTYLP
210 220 230 240 250
HLMTNRLSLV AIGLIVAYAF QAIINYIQSF FTIVLGQRLM IDIVLKYVHH
260 270 280 290 300
LFDLPMNFFT TRHVGEMTSR FSDASKIIDA LGSTTLTLFL DMWILLAVGL
310 320 330 340 350
FLAYQNINLF LCSLVVVPIY ISIVWLFKKT FNRLNQDTME SNAVLNSAII
360 370 380 390 400
ESLSGIETIK SLTGEATTKK KIDTLFSDLL HKNLAYQKAD QGQQAIKAAT
410 420 430 440 450
KLILTIVILW WGTFFVMRHQ LSLGQLLTYN ALLAYFLTPL ENIINLQPKL
460 470 480 490 500
QAARVANNRL NEVYLVESEF SKSREITALE QLNGDIEVNH VSFNYGYCSN
510 520 530 540 550
ILEDVSLTIP HHQKITIVGM SGSGKTTLAK LLVGFFEPQE QHGEIQINHH
560 570 580 590 600
NISDISRTIL RQYINYVPQE PFIFSGSVLE NLLLGSRPGV TQQMIDQACS
610 620 630 640 650
FAEIKTDIEN LPQGYHTRLS ESGFNLSGGQ KQRLSIARAL LSPAQCFIFD
660 670 680 690 700
ESTSNLDTIT EHKIVSKLLF MKDKTIIFVA HRLNIASQTD KVVVLDHGKI
710 720
VEQGSHRQLL NYNGYYARLI HNQE
Length:724
Mass (Da):81,652
Last modified:June 1, 1994 - v1
Checksum:iB897C680EB519AF5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M83924 Genomic DNA. Translation: AAA25561.1.
U02482 Genomic DNA. Translation: AAC43296.1.
PIRiD48941.
RefSeqiNP_857605.1. NC_004832.1.
WP_002834569.1. NC_004832.1.

Genome annotation databases

GeneIDi1090332.
KEGGipg:1090332.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M83924 Genomic DNA. Translation: AAA25561.1.
U02482 Genomic DNA. Translation: AAC43296.1.
PIRiD48941.
RefSeqiNP_857605.1. NC_004832.1.
WP_002834569.1. NC_004832.1.

3D structure databases

ProteinModelPortaliP36497.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC39.001.
TCDBi3.A.1.112.2. the atp-binding cassette (abc) superfamily.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1090332.
KEGGipg:1090332.

Phylogenomic databases

KOiK12292.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR011527. ABC1_TM_dom.
IPR003439. ABC_transporter-like.
IPR017871. ABC_transporter_CS.
IPR027417. P-loop_NTPase.
IPR005897. Pept_C39_ABC_bacteriocin.
IPR005074. Peptidase_C39.
[Graphical view]
PfamiPF00664. ABC_membrane. 1 hit.
PF00005. ABC_tran. 1 hit.
PF03412. Peptidase_C39. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
SSF90123. SSF90123. 1 hit.
TIGRFAMsiTIGR01193. bacteriocin_ABC. 1 hit.
PROSITEiPS50929. ABC_TM1F. 1 hit.
PS00211. ABC_TRANSPORTER_1. 1 hit.
PS50893. ABC_TRANSPORTER_2. 1 hit.
PS50990. PEPTIDASE_C39. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Cloning, expression, and nucleotide sequence of genes involved in production of pediocin PA-1, and bacteriocin from Pediococcus acidilactici PAC1.0."
    Marugg J.D., Gonzalez C.F., Kunka B.S., Ledeboer A.M., Pucci M.J., Toonen M.Y., Walker S.A., Zoetmulder L.C.M., Vandenbergh P.A.
    Appl. Environ. Microbiol. 58:2360-2367(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: PAC-1.0.
    Plasmid: pSRQ11
  2. "Complete nucleotide sequence of pSMB 74, a plasmid encoding the production of pediocin AcH in Pediococcus acidilactici."
    Motlagh A.M., Bukhtiyarova M.B., Ray B.R.
    Lett. Appl. Microbiol. 18:305-312(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: H.
    Plasmid: pSMB74

Entry informationi

Entry nameiPEDD_PEDAC
AccessioniPrimary (citable) accession number: P36497
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: September 16, 2015
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Plasmid

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. 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.