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Protein

2-(R)-hydroxypropyl-CoM dehydrogenase

Gene

xecD

Organism
Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the oxidation of 2-(R)-hydroxyalkyl thioesters of CoM to 2-oxoalkyl thioesters of CoM. The enzyme highly specific for the R enantiomers.

Catalytic activityi

2-(R)-hydroxypropyl-CoM + NAD+ = 2-oxopropyl-CoM + NADH.

Pathwayi: propylene degradation

This protein is involved in the pathway propylene degradation, which is part of Alkene metabolism.
View all proteins of this organism that are known to be involved in the pathway propylene degradation and in Alkene metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei142 – 1421SubstrateBy similarity
Active sitei155 – 1551Proton acceptorPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13285.
XAUT78245:GHS6-4927-MONOMER.
BRENDAi1.1.1.268. 1641.
UniPathwayiUPA00776.

Names & Taxonomyi

Protein namesi
Recommended name:
2-(R)-hydroxypropyl-CoM dehydrogenase (EC:1.1.1.268)
Short name:
R-HPCDH
Alternative name(s):
Aliphatic epoxide carboxylation component III
Gene namesi
Name:xecD
Ordered Locus Names:Xaut_4868
Encoded oniPlasmid pXAUT010 Publication
OrganismiXanthobacter autotrophicus (strain ATCC BAA-1158 / Py2)
Taxonomic identifieri78245 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesXanthobacteraceaeXanthobacter
Proteomesi
  • UP000002417 Componenti: Plasmid pXAUT01

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved1 Publication
Chaini2 – 2502492-(R)-hydroxypropyl-CoM dehydrogenasePRO_0000054705Add
BLAST

Expressioni

Inductioni

By aliphatic and chlorinated alkenes.

Interactioni

Subunit structurei

Homodimer. Component III of the aliphatic epoxide carboxylation complex together with components I, II and IV.

Structurei

Secondary structure

1
250
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 85Combined sources
Turni9 – 113Combined sources
Helixi13 – 2412Combined sources
Beta strandi28 – 347Combined sources
Helixi36 – 4611Combined sources
Turni48 – 503Combined sources
Helixi51 – 533Combined sources
Beta strandi54 – 585Combined sources
Helixi64 – 7815Combined sources
Beta strandi83 – 864Combined sources
Helixi99 – 1013Combined sources
Helixi104 – 11411Combined sources
Helixi116 – 13217Combined sources
Beta strandi135 – 1406Combined sources
Helixi143 – 1453Combined sources
Helixi153 – 17321Combined sources
Helixi174 – 1763Combined sources
Beta strandi178 – 1858Combined sources
Turni191 – 1933Combined sources
Helixi194 – 1974Combined sources
Helixi200 – 2078Combined sources
Helixi218 – 22912Combined sources
Beta strandi240 – 2445Combined sources
Helixi247 – 2493Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CFCX-ray1.80A/B/C/D2-250[»]
ProteinModelPortaliQ56840.
SMRiQ56840. Positions 1-250.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ56840.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

OMAiRTHWHAY.
OrthoDBiPOG091H012M.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR016040. NAD(P)-bd_dom.
IPR020904. Sc_DH/Rdtase_CS.
IPR002347. SDR_fam.
[Graphical view]
PRINTSiPR00081. GDHRDH.
PR00080. SDRFAMILY.
SUPFAMiSSF51735. SSF51735. 1 hit.
PROSITEiPS00061. ADH_SHORT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q56840-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRVAIVTGA SSGNGLAIAT RFLARGDRVA ALDLSAETLE ETARTHWHAY
60 70 80 90 100
ADKVLRVRAD VADEGDVNAA IAATMEQFGA IDVLVNNAGI TGNSEAGVLH
110 120 130 140 150
TTPVEQFDKV MAVNVRGIFL GCRAVLPHML LQGAGVIVNI ASVASLVAFP
160 170 180 190 200
GRSAYTTSKG AVLQLTKSVA VDYAGSGIRC NAVCPGMIET PMTQWRLDQP
210 220 230 240 250
ELRDQVLARI PQKEIGTAAQ VADAVMFLAG EDATYVNGAA LVMDGAYTAI
Length:250
Mass (Da):26,143
Last modified:January 23, 2007 - v3
Checksum:iF43B8A86CD7C1ED2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X79863 Genomic DNA. Translation: CAA56244.1.
CP000782 Genomic DNA. Translation: ABS70079.1.
PIRiS47054.
RefSeqiWP_011992983.1. NC_009717.1.

Genome annotation databases

EnsemblBacteriaiABS70079; ABS70079; Xaut_4868.
KEGGixau:Xaut_4868.
PATRICi24041517. VBIXanAut29526_0070.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X79863 Genomic DNA. Translation: CAA56244.1.
CP000782 Genomic DNA. Translation: ABS70079.1.
PIRiS47054.
RefSeqiWP_011992983.1. NC_009717.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CFCX-ray1.80A/B/C/D2-250[»]
ProteinModelPortaliQ56840.
SMRiQ56840. Positions 1-250.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABS70079; ABS70079; Xaut_4868.
KEGGixau:Xaut_4868.
PATRICi24041517. VBIXanAut29526_0070.

Phylogenomic databases

OMAiRTHWHAY.
OrthoDBiPOG091H012M.

Enzyme and pathway databases

UniPathwayiUPA00776.
BioCyciMetaCyc:MONOMER-13285.
XAUT78245:GHS6-4927-MONOMER.
BRENDAi1.1.1.268. 1641.

Miscellaneous databases

EvolutionaryTraceiQ56840.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR016040. NAD(P)-bd_dom.
IPR020904. Sc_DH/Rdtase_CS.
IPR002347. SDR_fam.
[Graphical view]
PRINTSiPR00081. GDHRDH.
PR00080. SDRFAMILY.
SUPFAMiSSF51735. SSF51735. 1 hit.
PROSITEiPS00061. ADH_SHORT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiHCDR_XANP2
AccessioniPrimary (citable) accession number: Q56840
Secondary accession number(s): A7IPY3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 8, 2002
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 113 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Plasmid, 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.