Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.

P55792

- HDVD_CLOAM

UniProt

P55792 - HDVD_CLOAM

(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Protein

4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase

Gene

abfD

Organism
Clostridium aminobutyricum
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Catalyzes the reversible conversion of 4-hydroxybutyryl-CoA to crotonyl-CoA. The mechanism of the reaction seems to go through three steps: (1) the FAD-dependent oxidation of 4-hydroxybutyryl-CoA to 4-hydroxycrotonyl-CoA; (2) the hydroxyl group is substituted by a hydride derived from the now reduced FAD in an SN2' reaction leading to vinylacetyl-CoA; (3) isomerization to yield crotonyl-CoA.

Catalytic activityi

4-hydroxybutanoyl-CoA = but-3-enoyl-CoA + H2O.1 Publication
Vinylacetyl-CoA = (E)-but-2-enoyl-CoA.1 Publication

Cofactori

Protein has several cofactor binding sites:

Kineticsi

  1. KM=50 µM for 4-hydroxybutanoyl-CoA1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi99 – 991Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi103 – 1031Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi292 – 2921Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi299 – 2991Iron-sulfur (4Fe-4S)1 Publication
Binding sitei325 – 3251FAD1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi149 – 1568FAD1 Publication
Nucleotide bindingi188 – 1903FAD1 Publication
Nucleotide bindingi386 – 3905FAD1 Publication

GO - Molecular functioni

  1. 4-hydroxybutanoyl-CoA dehydratase activity Source: UniProtKB-EC
  2. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  3. acyl-CoA dehydrogenase activity Source: InterPro
  4. metal ion binding Source: UniProtKB-KW
  5. vinylacetyl-CoA delta-isomerase activity Source: UniProtKB-EC
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Lyase, Oxidoreductase

Keywords - Ligandi

4Fe-4S, FAD, Flavoprotein, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13485.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase (EC:4.2.1.120, EC:5.3.3.3)
Short name:
4-BUDH
Alternative name(s):
Gamma-aminobutyrate metabolism dehydratase/isomerase
Gene namesi
Name:abfD
OrganismiClostridium aminobutyricum
Taxonomic identifieri33953 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesClostridiaceaeClostridium

Pathology & Biotechi

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 4904904-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerasePRO_0000083940Add
BLAST

Interactioni

Subunit structurei

Homotetramer.2 Publications

Structurei

Secondary structure

1
490
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi5 – 128Combined sources
Beta strandi19 – 213Combined sources
Helixi29 – 313Combined sources
Turni33 – 353Combined sources
Helixi36 – 5015Combined sources
Turni52 – 543Combined sources
Helixi55 – 584Combined sources
Beta strandi59 – 613Combined sources
Turni63 – 653Combined sources
Beta strandi66 – 705Combined sources
Helixi71 – 733Combined sources
Helixi79 – 9618Combined sources
Helixi103 – 12321Combined sources
Helixi127 – 14115Combined sources
Beta strandi145 – 1484Combined sources
Helixi160 – 1623Combined sources
Beta strandi171 – 1755Combined sources
Beta strandi177 – 18610Combined sources
Beta strandi196 – 2005Combined sources
Helixi208 – 2136Combined sources
Beta strandi215 – 2206Combined sources
Beta strandi226 – 2305Combined sources
Helixi236 – 2405Combined sources
Helixi246 – 2483Combined sources
Beta strandi249 – 2524Combined sources
Beta strandi258 – 26811Combined sources
Helixi269 – 2713Combined sources
Beta strandi272 – 2765Combined sources
Helixi278 – 2803Combined sources
Helixi281 – 31838Combined sources
Helixi324 – 34926Combined sources
Helixi363 – 37311Combined sources
Helixi376 – 38813Combined sources
Helixi391 – 3944Combined sources
Helixi398 – 4014Combined sources
Helixi414 – 4218Combined sources
Helixi430 – 44415Combined sources
Helixi449 – 4524Combined sources
Helixi454 – 4585Combined sources
Helixi463 – 47311Combined sources
Helixi476 – 48712Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1U8VX-ray1.60A/B/C/D1-490[»]
ProteinModelPortaliP55792.
SMRiP55792. Positions 1-490.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP55792.

Family & Domainsi

Family and domain databases

Gene3Di2.40.110.10. 1 hit.
InterProiIPR006091. Acyl-CoA_Oxase/DH_cen-dom.
IPR009075. AcylCo_DH/oxidase_C.
IPR009100. AcylCoA_DH/oxidase_NM_dom.
IPR004925. HpaB/PvcC/4-BUDH.
IPR024719. HpaB/PvcC/4-BUDH_C.
IPR024674. HpaB/PvcC/4-BUDH_N.
[Graphical view]
PfamiPF03241. HpaB. 1 hit.
PF11794. HpaB_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000331. HpaA_HpaB. 1 hit.
SUPFAMiSSF47203. SSF47203. 1 hit.
SSF56645. SSF56645. 1 hit.

Sequencei

Sequence statusi: Complete.

P55792-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLMTAEQYIE SLRKLNTRVY MFGEKIENWV DHPMIRPSIN CVAMTYELAQ
60 70 80 90 100
DPQYADLMTT KSNLIGKTIN RFANLHQSTD DLRKKVKMQR LLGQKTASCF
110 120 130 140 150
QRCVGMDAFN AVFSTTYEID QKYGTNYHKN FTEYLKYIQE NDLIVDGAMT
160 170 180 190 200
DPKGDRGLAP SAQKDPDLFL RIVEKREDGI VVRGAKAHQT GSINSHEHII
210 220 230 240 250
MPTIAMTEAD KDYAVSFACP SDADGLFMIY GRQSCDTRKM EEGADIDLGN
260 270 280 290 300
KQFGGQEALV VFDNVFIPND RIFLCQEYDF AGMMVERFAG YHRQSYGGCK
310 320 330 340 350
VGVGDVVIGA AALAADYNGA QKASHVKDKL IEMTHLNETL YCCGIACSAE
360 370 380 390 400
GYPTAAGNYQ IDLLLANVCK QNITRFPYEI VRLAEDIAGG LMVTMPSEAD
410 420 430 440 450
FKSETVVGRD GETIGDFCNK FFAAAPTCTT EERMRVLRFL ENICLGASAV
460 470 480 490
GYRTESMHGA GSPQAQRIMI ARQGNINAKK ELAKAIAGIK
Length:490
Mass (Da):54,422
Last modified:December 20, 2005 - v3
Checksum:iEDC1E40336806E38
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ250267 Genomic DNA. Translation: CAB60035.2.
PIRiS34765.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ250267 Genomic DNA. Translation: CAB60035.2 .
PIRi S34765.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1U8V X-ray 1.60 A/B/C/D 1-490 [» ]
ProteinModelPortali P55792.
SMRi P55792. Positions 1-490.
ModBasei Search...
MobiDBi Search...

Chemistry

DrugBanki DB03147. Flavin adenine dinucleotide.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Enzyme and pathway databases

BioCyci MetaCyc:MONOMER-13485.

Miscellaneous databases

EvolutionaryTracei P55792.

Family and domain databases

Gene3Di 2.40.110.10. 1 hit.
InterProi IPR006091. Acyl-CoA_Oxase/DH_cen-dom.
IPR009075. AcylCo_DH/oxidase_C.
IPR009100. AcylCoA_DH/oxidase_NM_dom.
IPR004925. HpaB/PvcC/4-BUDH.
IPR024719. HpaB/PvcC/4-BUDH_C.
IPR024674. HpaB/PvcC/4-BUDH_N.
[Graphical view ]
Pfami PF03241. HpaB. 1 hit.
PF11794. HpaB_N. 1 hit.
[Graphical view ]
PIRSFi PIRSF000331. HpaA_HpaB. 1 hit.
SUPFAMi SSF47203. SSF47203. 1 hit.
SSF56645. SSF56645. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Fermentation of 4-aminobutyrate by Clostridium aminobutyricum: cloning of two genes involved in the formation and dehydration of 4-hydroxybutyryl-CoA."
    Gerhardt A., Cinkaya I., Linder D., Huisman G., Buckel W.
    Arch. Microbiol. 174:189-199(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 13726 / DSM 2634.
  2. Zhang J.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION TO 43; 167 AND 357.
  3. "Purification and properties of an iron-sulfur and FAD-containing 4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA delta 3-delta 2-isomerase from Clostridium aminobutyricum."
    Scherf U., Buckel W.
    Eur. J. Biochem. 215:421-429(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-30, CATALYTIC ACTIVITY, SUBUNIT, COFACTOR, BIOPHYSICOCHEMICAL PROPERTIES, REACTION MECHANISM.
    Strain: ATCC 13726 / DSM 2634.
  4. "Crystal structure of 4-hydroxybutyryl-CoA dehydratase: radical catalysis involving a [4Fe-4S] cluster and flavin."
    Martins B.M., Dobbek H., Cinkaya I., Buckel W., Messerschmidt A.
    Proc. Natl. Acad. Sci. U.S.A. 101:15645-15649(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) IN COMPLEX WITH IRON-SULFUR AND FAD, COFACTOR, REACTION MECHANISM.

Entry informationi

Entry nameiHDVD_CLOAM
AccessioniPrimary (citable) accession number: P55792
Secondary accession number(s): Q9RM87
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 20, 2005
Last modified: November 26, 2014
This is version 78 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, Direct protein sequencing, Multifunctional enzyme

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

External Data

Dasty 3