D-alanine--D-alanine ligase - Xylanimonas cellulosilytica (strain DSM 15894 / CECT 5975 / LMG 20990 / XIL07)

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D1BV64 (D1BV64_XYLCX) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 24. 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:	Xcel_2285

Organism

Xylanimonas cellulosilytica (strain DSM 15894 / CECT 5975 / LMG 20990 / XIL07) [Complete proteome] [HAMAP]

Taxonomic identifier

446471 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Micrococcineae › Promicromonosporaceae › Xylanimonas ›

Protein attributes

Sequence length	377 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

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

Ontologies

Keywords
Biological process	Cell shape Cell wall biogenesis/degradation SAAS SAAS005905 HAMAP-Rule MF_00047 Peptidoglycan synthesis SAAS SAAS005905 HAMAP-Rule MF_00047
Cellular component	Cytoplasm SAAS SAAS005905 HAMAP-Rule MF_00047
Ligand	ATP-binding SAAS SAAS005905 HAMAP-Rule MF_00047 Magnesium SAAS SAAS005905 HAMAP-Rule MF_00047 Manganese SAAS SAAS005905 HAMAP-Rule MF_00047 Metal-binding SAAS SAAS005905 HAMAP-Rule MF_00047 Nucleotide-binding
Molecular function	Ligase SAAS SAAS005905 HAMAP-Rule MF_00047 EMBL ACZ31303.1
Technical term	Complete 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

156 – 367

212

ATP-grasp By similarity HAMAP-Rule MF_00047

Nucleotide binding

188 – 243

ATP By similarity HAMAP-Rule MF_00047

Sites

Metal binding

321

Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047

Metal binding

334

Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047

Metal binding

334

Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Metal binding

336

Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Sequences

Sequence

Length

Mass (Da)

Tools

D1BV64 [UniParc].

Last modified January 19, 2010. Version 1.
Checksum: D9C9693189B19853
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FASTA

377

40,501

        10         20         30         40         50         60 
MSEQPSPARK TRVALLFGGR SGEHAISAAT AAGVLRAIDR DVYDVVPVGI TRDGRWVVAA 

        70         80         90        100        110        120 
DEPERWEITD GRLPEVTSDD GAEVVLSLTA GERTLRVLEP GQVPGVLGEV DVVFPLLHGP 

       130        140        150        160        170        180 
FGEDGTLQGL LELADVHYVG AGVLASAVGM DKHFMKLVLE GQGLPVGPYT VILPRDWETR 

       190        200        210        220        230        240 
REEATAAVAR LGLPVFVKPA RAGSSLGITR VDDLADLPAA VAEAQRHDPK VIVEQGIEGR 

       250        260        270        280        290        300 
EVECAVLGGR SGLPARASLP GEIVVDHGAH AFYDFEAKYL DESAVQLRCP ADLPDKVVAQ 

       310        320        330        340        350        360 
VRSIAVRTFD AVGAEGLSRV DVFVTPDERV IVNEINTMPG FTPFSMYPRM WEATGLTYPQ 

       370 
LIDELIQLAL ERPTGLR

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References

[1]

"The complete chromosome of Xylanimonas cellulosilytica DSM 15894."
US DOE Joint Genome Institute (JGI-PGF)
Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Kyrpides N., Mavromatis K., Ivanova N., Mikhailova N., Foster B., Clum A., Brettin T., Detter J.C., Han C.

Eisen J.A.
Submitted (NOV-2009) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 15894 / CECT 5975 / LMG 20990 / XIL07.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001821 Genomic DNA. Translation: ACZ31303.1.
RefSeq	YP_003326861.1. NC_013530.1.
3D structure databases
ProteinModelPortal	D1BV64.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ACZ31303; ACZ31303; Xcel_2285.
GeneID	8649821.
KEGG	xce:Xcel_2285.
PATRIC	32553607. VBIXylCel24446_2329.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HOG000011593.
KO	K01921.
OMA	LLHGPFG.
Enzyme and pathway databases
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

D1BV64_XYLCX

Accession

Primary (citable) accession number: D1BV64

Entry history

Integrated into UniProtKB/TrEMBL:	January 19, 2010
Last sequence update:	January 19, 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)

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

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information