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Protein

Alanine racemase 1

Gene

alr1

Organism
Staphylococcus aureus (strain COL)
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 2 (alr2), Alanine racemase 1 (alr1)
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 sitei39Proton acceptor; specific for D-alanineUniRule annotation1
Binding sitei138SubstrateUniRule annotation1
Active sitei265Proton acceptor; specific for L-alanineUniRule annotation1
Binding sitei312Substrate; via amide nitrogenUniRule annotation1

GO - Molecular functioni

GO - Biological processi

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 1UniRule annotation (EC:5.1.1.1UniRule annotation)
Gene namesi
Name:alr1
Synonyms:alr
Ordered Locus Names:SACOL2060
OrganismiStaphylococcus aureus (strain COL)
Taxonomic identifieri93062 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000000530 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001145671 – 382Alanine racemase 1Add BLAST382

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei39N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi93062.SACOL2060.

Structurei

Secondary structure

1382
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi7 – 14Combined sources8
Helixi15 – 28Combined sources14
Beta strandi32 – 37Combined sources6
Helixi39 – 43Combined sources5
Helixi47 – 56Combined sources10
Beta strandi61 – 66Combined sources6
Helixi67 – 74Combined sources8
Turni75 – 77Combined sources3
Beta strandi80 – 84Combined sources5
Helixi90 – 92Combined sources3
Helixi93 – 98Combined sources6
Beta strandi101 – 105Combined sources5
Helixi108 – 116Combined sources9
Beta strandi126 – 132Combined sources7
Beta strandi139 – 141Combined sources3
Helixi144 – 154Combined sources11
Beta strandi160 – 166Combined sources7
Beta strandi174 – 177Combined sources4
Helixi178 – 191Combined sources14
Beta strandi197 – 202Combined sources6
Helixi204 – 209Combined sources6
Helixi222 – 225Combined sources4
Helixi231 – 236Combined sources6
Beta strandi245 – 250Combined sources6
Beta strandi253 – 257Combined sources5
Beta strandi275 – 281Combined sources7
Helixi284 – 286Combined sources3
Helixi290 – 292Combined sources3
Beta strandi296 – 299Combined sources4
Beta strandi302 – 308Combined sources7
Beta strandi315 – 319Combined sources5
Beta strandi328 – 332Combined sources5
Beta strandi336 – 338Combined sources3
Helixi342 – 348Combined sources7
Helixi353 – 359Combined sources7
Beta strandi366 – 370Combined sources5
Beta strandi373 – 377Combined sources5
Helixi379 – 381Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3OO2X-ray2.37A/B1-382[»]
ProteinModelPortaliQ5HED1.
SMRiQ5HED1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5HED1.

Family & Domainsi

Sequence similaritiesi

Belongs to the alanine racemase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CJ4. Bacteria.
COG0787. LUCA.
HOGENOMiHOG000031444.
KOiK01775.
OMAiPWEILCS.

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.

Q5HED1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDKYYRSAY MNVDLNAVAS NFKVFSTLHP NKTVMAVVKA NAYGLGSVKV
60 70 80 90 100
ARHLMENGAT FFAVATLDEA IELRMHGITA KILVLGVLPA KDIDKAIQHR
110 120 130 140 150
VALTVPSKQW LKEAIKNISG EQEKKLWLHI KLDTGMGRLG IKDTKTYQEV
160 170 180 190 200
IEIIQQYEQL VFEGVFTHFA CADEPGDMTT EQYQRFKDMV NEAIKPEYIH
210 220 230 240 250
CQNSAGSLLM DCQFCNAIRP GISLYGYYPS EYVQQKVKVH LKPSVQLIAN
260 270 280 290 300
VVQTKTLQAG ESVSYGATYT ATDPTTIALL PIGYADGYLR IMQGSFVNVN
310 320 330 340 350
GHQCEVIGRV CMDQTIVKVP DQVKAGDSVI LIDNHRESPQ SVEVVAEKQH
360 370 380
TINYEVLCNL SRRLPRIYHD GDQRFVTNEL LK
Length:382
Mass (Da):42,823
Last modified:February 15, 2005 - v1
Checksum:i52B3C88E9811956D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000046 Genomic DNA. Translation: AAW37022.1.
RefSeqiWP_001281145.1. NC_002951.2.

Genome annotation databases

EnsemblBacteriaiAAW37022; AAW37022; SACOL2060.
GeneIDi28380347.
KEGGisac:SACOL2060.
PATRICi19530395. VBIStaAur112458_2009.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000046 Genomic DNA. Translation: AAW37022.1.
RefSeqiWP_001281145.1. NC_002951.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3OO2X-ray2.37A/B1-382[»]
ProteinModelPortaliQ5HED1.
SMRiQ5HED1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi93062.SACOL2060.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAW37022; AAW37022; SACOL2060.
GeneIDi28380347.
KEGGisac:SACOL2060.
PATRICi19530395. VBIStaAur112458_2009.

Phylogenomic databases

eggNOGiENOG4105CJ4. Bacteria.
COG0787. LUCA.
HOGENOMiHOG000031444.
KOiK01775.
OMAiPWEILCS.

Enzyme and pathway databases

UniPathwayiUPA00042; UER00497.

Miscellaneous databases

EvolutionaryTraceiQ5HED1.

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 nameiALR1_STAAC
AccessioniPrimary (citable) accession number: Q5HED1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: February 15, 2005
Last modified: November 2, 2016
This is version 85 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

3D-structure, Complete 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.