dacD:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

DacD

Synonyms

D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6b)[1], B2010[2][1], YeeC[2][1], PhsE[2][1], DacD[2][1] , ECK2004, JW5329, phsE, phsF, yeeC, b2010

Product description

DD-carboxypeptidase, penicillin-binding protein 6b[2][3]

D-alanine D-alanine carboxypeptidase PBP6b; penicillin-binding protein 6b[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0004180

carboxypeptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0121

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001967

P

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012907

P

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015956

P

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018044

P

Seeded from EcoCyc (v14.0)

complete

GO:0008360

regulation of cell shape

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0133

P

Seeded from EcoCyc (v14.0)

complete

GO:0009002

serine-type D-Ala-D-Ala carboxypeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001967

F

Seeded from EcoCyc (v14.0)

complete

GO:0009002

serine-type D-Ala-D-Ala carboxypeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012907

F

Seeded from EcoCyc (v14.0)

complete

GO:0009002

serine-type D-Ala-D-Ala carboxypeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018044

F

Seeded from EcoCyc (v14.0)

complete

GO:0009002

serine-type D-Ala-D-Ala carboxypeptidase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.4.16.4

F

Seeded from EcoCyc (v14.0)

complete

GO:0009252

peptidoglycan biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0573

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0019898

extrinsic to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9903

C

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

plasma membrane


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MLLKRRLIIA ASLFVFNLSS GFAAENIPFS PQPPEIHAGS WVLMDYTTGQ ILTAGNEHQQ
RNPASLTKLM TGYVVDRAID SHRITPDDIV TVGRDAWAKD NPVFVGSSLM FLKEGDRVSV
RDLSRGLIVD SGNDACVALA DYIAGGQRQF VEMMNNYAEK LHLKDTHFET VHGLDAPGQH
SSAYDLAVLS RAIIHGEPEF YHMYSEKSLT WNGITQQNRN GLLWDKTMNV DGLKTGHTSG
AGFNLIASAV DGQRRLIAVV MGADSAKGRE EEARKLLRWG QQNFTTVQIL HRGKKVGTER
IWYGDKENID LGTEQEFWMV LPKAEIPHIK AKYTLDGKEL TAPISAHQRV GEIELYDRDK
QVAHWPLVTL ESVGEGSMFS RLSDYFHHKA
Length

390

Mol. Wt

43.572 kDa

pI

6.8 (calculated)

Extinction coefficient

60,390 - 60,515 (calc based on 11 Y, 8 W, and 1 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

motif

1-21

UniProt Manual:Signal Peptides

UniProt:P33013

Domain

25..263

PF00768 D-alanyl-D-alanine carboxypeptidase

PMID:19920124[5]

Domain

282..373

PF07943 Penicillin-binding protein 5, C-terminal domain

PMID:19920124[5]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=dacD taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:162135904

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946518

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006680

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P33013

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11893

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11893

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946518

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001823

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1839

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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