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Protein

Alanine racemase 2

Gene

alr2

Organism
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the interconversion of L-alanine and D-alanine. May also act on other amino acids.UniRule annotation

Catalytic activityi

L-alanine = D-alanine.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotation

Pathwayi: D-alanine biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes D-alanine from L-alanine.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Alanine racemase 1 (alr1), Alanine racemase 2 (alr2)
This subpathway is part of the pathway D-alanine biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-alanine from L-alanine, the pathway D-alanine biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei59Proton acceptor; specific for D-alanineUniRule annotation1
Binding sitei158SubstrateUniRule annotation1
Active sitei284Proton acceptor; specific for L-alanineUniRule annotation1
Binding sitei332Substrate; via amide nitrogenUniRule annotation1

GO - Molecular functioni

  • alanine racemase activity Source: TIGR
  • pyridoxal phosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  • D-alanine biosynthetic process Source: UniProtKB-UniPathway
  • peptidoglycan biosynthetic process Source: TIGR
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

UniPathwayiUPA00042; UER00497.

Names & Taxonomyi

Protein namesi
Recommended name:
Alanine racemase 2UniRule annotation (EC:5.1.1.1UniRule annotation)
Gene namesi
Name:alr2
Ordered Locus Names:VC_1312
OrganismiVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Taxonomic identifieri243277 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000000584 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001145921 – 392Alanine racemase 2Add BLAST392

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei59N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Protein-protein interaction databases

STRINGi243277.VC1312.

Structurei

Secondary structure

1392
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi20 – 24Combined sources5
Beta strandi26 – 33Combined sources8
Helixi34 – 45Combined sources12
Beta strandi54 – 57Combined sources4
Helixi59 – 63Combined sources5
Helixi67 – 76Combined sources10
Beta strandi81 – 86Combined sources6
Helixi87 – 95Combined sources9
Beta strandi100 – 104Combined sources5
Helixi110 – 115Combined sources6
Helixi117 – 119Combined sources3
Beta strandi122 – 125Combined sources4
Helixi128 – 141Combined sources14
Beta strandi145 – 151Combined sources7
Beta strandi158 – 161Combined sources4
Helixi166 – 176Combined sources11
Beta strandi181 – 187Combined sources7
Helixi195 – 215Combined sources21
Helixi220 – 222Combined sources3
Beta strandi224 – 228Combined sources5
Helixi230 – 235Combined sources6
Helixi237 – 239Combined sources3
Turni248 – 252Combined sources5
Beta strandi264 – 269Combined sources6
Beta strandi272 – 276Combined sources5
Beta strandi281 – 283Combined sources3
Helixi284 – 286Combined sources3
Beta strandi294 – 300Combined sources7
Helixi303 – 305Combined sources3
Helixi309 – 311Combined sources3
Turni312 – 314Combined sources3
Beta strandi316 – 319Combined sources4
Beta strandi322 – 326Combined sources5
Beta strandi335 – 338Combined sources4
Beta strandi350 – 357Combined sources8
Helixi364 – 371Combined sources8
Helixi375 – 385Combined sources11
Beta strandi388 – 391Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4BEQX-ray1.50A9-392[»]
4BEUX-ray1.15A9-392[»]
ProteinModelPortaliQ9KSE5.
SMRiQ9KSE5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the alanine racemase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CJ4. Bacteria.
COG0787. LUCA.
OMAiADLYTVW.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 1 hit.
HAMAPiMF_01201. Ala_racemase. 1 hit.
InterProiIPR000821. Ala_racemase.
IPR009006. Ala_racemase/Decarboxylase_C.
IPR011079. Ala_racemase_C.
IPR001608. Ala_racemase_N.
IPR020622. Ala_racemase_pyridoxalP-BS.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF00842. Ala_racemase_C. 1 hit.
PF01168. Ala_racemase_N. 1 hit.
[Graphical view]
PRINTSiPR00992. ALARACEMASE.
SMARTiSM01005. Ala_racemase_C. 1 hit.
[Graphical view]
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR00492. alr. 1 hit.
PROSITEiPS00395. ALANINE_RACEMASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9KSE5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPSFSLSAAP LHIDTALPDA AQIQQSNSWL EISLGQFQSN IEQFKSHMNA
60 70 80 90 100
NTKICAIMKA DAYGNGIRGL MPTIIAQGIP CVGVASNAEA RAVRESGFKG
110 120 130 140 150
ELIRVRSASL SEMSSALDLN IEELIGTHQQ ALDLAELAKQ SGKTLKVHIA
160 170 180 190 200
LNDGGMGRNG IDMTTEAGKK EAVSIATQPS LSVVGIMTHF PNYNADEVRA
210 220 230 240 250
KLAQFKESST WLMQQANLKR EEITLHVANS YTALNVPEAQ LDMVRPGGVL
260 270 280 290 300
FGDLPTNPEY PSIVSFKTRV SSLHHLPKDS TVGYDSTFTT SRDSVLANLP
310 320 330 340 350
VGYSDGYPRK MGNKAEVLIN GQRAKVVGVT SMNTTVVDVT EIKGVLPGQE
360 370 380 390
VVLFGQQQKQ SIAVSEMENN AELIFPELYT LWGTSNPRFY VK
Length:392
Mass (Da):42,498
Last modified:March 5, 2002 - v2
Checksum:iC0211DC2661691FD
GO

Sequence cautioni

The sequence AAF94470 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003852 Genomic DNA. Translation: AAF94470.1. Different initiation.
PIRiA82215.

Genome annotation databases

EnsemblBacteriaiAAF94470; AAF94470; VC_1312.
PATRICi20081706. VBIVibCho83274_1252.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003852 Genomic DNA. Translation: AAF94470.1. Different initiation.
PIRiA82215.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4BEQX-ray1.50A9-392[»]
4BEUX-ray1.15A9-392[»]
ProteinModelPortaliQ9KSE5.
SMRiQ9KSE5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243277.VC1312.

Protocols and materials databases

DNASUi2614766.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF94470; AAF94470; VC_1312.
PATRICi20081706. VBIVibCho83274_1252.

Phylogenomic databases

eggNOGiENOG4105CJ4. Bacteria.
COG0787. LUCA.
OMAiADLYTVW.

Enzyme and pathway databases

UniPathwayiUPA00042; UER00497.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 1 hit.
HAMAPiMF_01201. Ala_racemase. 1 hit.
InterProiIPR000821. Ala_racemase.
IPR009006. Ala_racemase/Decarboxylase_C.
IPR011079. Ala_racemase_C.
IPR001608. Ala_racemase_N.
IPR020622. Ala_racemase_pyridoxalP-BS.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF00842. Ala_racemase_C. 1 hit.
PF01168. Ala_racemase_N. 1 hit.
[Graphical view]
PRINTSiPR00992. ALARACEMASE.
SMARTiSM01005. Ala_racemase_C. 1 hit.
[Graphical view]
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR00492. alr. 1 hit.
PROSITEiPS00395. ALANINE_RACEMASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiALR2_VIBCH
AccessioniPrimary (citable) accession number: Q9KSE5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 5, 2002
Last sequence update: March 5, 2002
Last modified: November 2, 2016
This is version 99 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.