D-alanine--D-alanine ligase - Koribacter versatilis (strain Ellin345)

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Q1IHQ8 (Q1IHQ8_KORVE) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 61. History...

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

Third-party data

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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:
D-alanine--D-alanine ligase HAMAP-Rule MF_00047
EC=6.3.2.4 HAMAP-Rule MF_00047

Alternative name(s):
D-Ala-D-Ala ligase HAMAP-Rule MF_00047
D-alanylalanine synthetase HAMAP-Rule MF_00047

Gene names

Name:	ddl HAMAP-Rule MF_00047
Ordered Locus Names:	Acid345_4592

Organism

Koribacter versatilis (strain Ellin345) [Reference proteome] [HAMAP]

Taxonomic identifier

204669 [NCBI]

Taxonomic lineage

Bacteria › Acidobacteria › Candidatus Koribacter ›

Protein attributes

Sequence length	393 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Cell wall formation By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905
Catalytic activity	ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP-Rule MF_00047 SAAS SAAS005905
Cofactor	Binds 2 magnesium or manganese ions per subunit By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905
Pathway	Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP-Rule MF_00047 SAAS SAAS005905
Subcellular location	Cytoplasm By similarity HAMAP-Rule MF_00047 SAAS SAAS005905.
Sequence similarities	Belongs to the D-alanine--D-alanine ligase family. HAMAP-Rule MF_00047 Contains 1 ATP-grasp domain. HAMAP-Rule MF_00047 SAAS SAAS005905

Ontologies

Keywords
Biological process	Cell shape Cell wall biogenesis/degradation HAMAP-Rule MF_00047 SAAS SAAS005905 Peptidoglycan synthesis HAMAP-Rule MF_00047 SAAS SAAS005905
Cellular component	Cytoplasm HAMAP-Rule MF_00047 SAAS SAAS005905
Ligand	ATP-binding HAMAP-Rule MF_00047 SAAS SAAS005905 Magnesium HAMAP-Rule MF_00047 SAAS SAAS005905 Manganese HAMAP-Rule MF_00047 SAAS SAAS005905 Metal-binding HAMAP-Rule MF_00047 SAAS SAAS005905 Nucleotide-binding
Molecular function	Ligase HAMAP-Rule MF_00047 SAAS SAAS005905 EMBL ABF43592.1
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	peptidoglycan biosynthetic process Inferred from electronic annotation. Source: HAMAP regulation of cell shape Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cell wall Inferred from electronic annotation. Source: InterPro cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP D-alanine-D-alanine ligase activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: HAMAP manganese ion binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Regions

Domain

165 – 376

212

ATP-grasp By similarity HAMAP-Rule MF_00047

Nucleotide binding

198 – 253

ATP By similarity HAMAP-Rule MF_00047

Sites

Metal binding

329

Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047

Metal binding

343

Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047

Metal binding

343

Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Metal binding

345

Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Sequences

Sequence

Length

Mass (Da)

Tools

Q1IHQ8 [UniParc].

Last modified June 13, 2006. Version 1.
Checksum: 326E18F32FDBF85B
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FASTA

393

42,424

        10         20         30         40         50         60 
MAKKIRVGVL FGGRSGEHDV SLLSAASVIN AVDKKKFEVV PIGITKEGKW LTASHAESLL 

        70         80         90        100        110        120 
NGKKAEQQLR AGDPEATPGA AVLAKGEAVL VPPVPQSDRS AIVPFETDAA GHSASSIDVD 

       130        140        150        160        170        180 
VIFPVLHGTF GEDGTIQGLF ELANIPYVGA GVLGSAAGMD KDIMKALFKN AGLPIVKHMT 

       190        200        210        220        230        240 
VLRSQWQREP KKVKKLVESK LKYPVFVKPA NLGSSVGISK AHDSKELGPA LDEAAKFDRK 

       250        260        270        280        290        300 
LVIEQGVGGK KKKAREIECS VLGNDEPKAS VPGEIVPIKE FYDYAAKYLD EGSALEIPAK 

       310        320        330        340        350        360 
LPKSTQKQVQ ELAIRAFQAV DGSGLGRVDF LIDPKSNKLY VNEINTMPGF TSISMYPKLW 

       370        380        390 
EASGLKYTDL ITRLIELALE RHADKQKNQY TKD

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References

[1]

"Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils."
Ward N.L., Challacombe J.F., Janssen P.H., Henrissat B., Coutinho P.M., Wu M., Xie G., Haft D.H., Sait M., Badger J., Barabote R.D., Bradley B., Brettin T.S., Brinkac L.M., Bruce D., Creasy T., Daugherty S.C., Davidsen T.M.

Kuske C.R.
Appl. Environ. Microbiol. 75:2046-2056(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Ellin345.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000360 Genomic DNA. Translation: ABF43592.1.
RefSeq	YP_593666.1. NC_008009.1.
3D structure databases
ProteinModelPortal	Q1IHQ8.
ModBase	Search...
Protein-protein interaction databases
STRING	204669.Acid345_4592.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABF43592; ABF43592; Acid345_4592.
GeneID	4071537.
KEGG	aba:Acid345_4592.
PATRIC	31986587. VBICanKor57425_4905.
Phylogenomic databases
eggNOG	COG1181.
HOGENOM	HOG000011593.
KO	K01921.
OMA	LLHGPFG.
ProtClustDB	CLSK2467861.
Enzyme and pathway databases
BioCyc	KVER204669:GHL8-4644-MONOMER.
UniPathway	UPA00219.
Family and domain databases
Gene3D	3.30.1490.20. 1 hit. 3.30.470.20. 1 hit. 3.40.50.20. 1 hit.
HAMAP	MF_00047. Dala_Dala_lig.
InterPro	IPR011761. ATP-grasp. IPR013815. ATP_grasp_subdomain_1. IPR013816. ATP_grasp_subdomain_2. IPR000291. D-Ala_lig_Van_CS. IPR005905. D_ala_D_ala. IPR011095. Dala_Dala_lig_C. IPR011127. Dala_Dala_lig_N. IPR016185. PreATP-grasp_dom. [Graphical view]
PANTHER	PTHR23132. PTHR23132. 1 hit.
Pfam	PF07478. Dala_Dala_lig_C. 1 hit. PF01820. Dala_Dala_lig_N. 1 hit. [Graphical view]
SUPFAM	SSF52440. PreATP-grasp-like. 1 hit.
TIGRFAMs	TIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITE	PS50975. ATP_GRASP. 1 hit. PS00843. DALA_DALA_LIGASE_1. 1 hit. PS00844. DALA_DALA_LIGASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

Q1IHQ8_KORVE

Accession

Primary (citable) accession number: Q1IHQ8

Entry history

Integrated into UniProtKB/TrEMBL:	June 13, 2006
Last sequence update:	June 13, 2006
Last modified:	May 1, 2013
This is version 61 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)

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

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Regions

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information