P11568 (HGDC_ACIFV) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Activator of (R)-2-hydroxyglutaryl-CoA dehydratase

Alternative name(s):
2-hydroxyglutaryl-CoA dehydratase component A

Gene names

Name:	hgdC
Ordered Locus Names:	Acfer_1816

Organism

Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4) [Complete proteome] [HAMAP]

Taxonomic identifier

591001 [NCBI]

Taxonomic lineage

Bacteria › Firmicutes › Negativicutes › Selenomonadales › Acidaminococcaceae › Acidaminococcus

Protein attributes

Sequence length	260 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Required for the activation of (R)-2-hydroxyglutaryl-CoA dehydratase. This protein is extremely sensitive towards oxygen.
Cofactor	Binds 1 4Fe-4S cluster per dimer.
Subunit structure	Homodimer.
Sequence similarities	To E.coli yjiL and M.jannaschii MJ0004 and MJ0800.

Ontologies

Keywords
Ligand	4Fe-4S Iron Iron-sulfur Metal-binding
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Molecular function	4 iron, 4 sulfur cluster binding Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 260

260

Activator of (R)-2-hydroxyglutaryl-CoA dehydratase

PRO_0000083965

Sites

Metal binding

127

1

Iron-sulfur (4Fe-4S); shared with dimeric partner

Metal binding

166

1

Iron-sulfur (4Fe-4S); shared with dimeric partner

Experimental info

Sequence conflict

196

1

A → P in CAA32464. Ref.3

Sequence conflict

209

1

V → L in CAA32464. Ref.3

Sequence conflict

214 – 224

11

MTGGVAQNYGV → HDRRCSPELWL in CAA32464. Ref.3

Secondary structure

1

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260

Helix Strand Turn

Details...

Beta strand

4 – 10

7

Beta strand

12 – 21

10

Turn

22 – 24

3

Beta strand

25 – 33

9

Helix

40 – 52

13

Helix

56 – 58

3

Beta strand

60 – 66

7

Turn

67 – 75

9

Beta strand

77 – 80

4

Helix

82 – 93

12

Beta strand

99 – 104

6

Beta strand

107 – 114

8

Beta strand

117 – 126

10

Helix

132 – 142

11

Turn

146 – 148

3

Helix

149 – 153

5

Helix

167 – 179

13

Helix

184 – 204

21

Beta strand

210 – 216

7

Helix

217 – 220

4

Helix

222 – 232

11

Helix

240 – 244

5

Helix

245 – 257

13

Sequences

	Sequence		Length	Mass (Da)
	P11568 [UniParc]. Last modified November 1, 1997. Version 2. Checksum: 7E97044DB6E805AC	FASTA	260	27,269
	10 20 30 40 50 60 MSIYTLGIDV GSTASKCIIL KDGKEIVAKS LVAVGTGTSG PARSISEVLE NAHMKKEDMA 70 80 90 100 110 120 FTLATGYGRN SLEGIADKQM SELSCHAMGA SFIWPNVHTV IDIGGQDVKV IHVENGTMTN 130 140 150 160 170 180 FQMNDKCAAG TGRFLDVMAN ILEVKVSDLA ELGAKSTKRV AISSTCTVFA ESEVISQLSK 190 200 210 220 230 240 GTDKIDIIAG IHRSVASRVI GLANRVGIVK DVVMTGGVAQ NYGVRGALEE GLGVEIKTSP 250 260 LAQYNGALGA ALYAYKKAAK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification of the gene encoding the activator of (R)-2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans by gene expression in Escherichia coli." Bendrat K., Mueller U., Klees A.-G., Buckel W. FEBS Lett. 329:329-331(1993) [PubMed: 8365476] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Complete genome sequence of Acidaminococcus fermentans type strain (VR4)." Chang Y.J., Pukall R., Saunders E., Lapidus A., Copeland A., Nolan M., Glavina Del Rio T., Lucas S., Chen F., Tice H., Cheng J.F., Han C., Detter J.C., Bruce D., Goodwin L., Pitluck S., Mikhailova N., Liolios K. , Pati A., Ivanova N., Mavromatis K., Chen A., Palaniappan K., Land M., Hauser L., Jeffries C.D., Brettin T., Rohde M., Goker M., Bristow J., Eisen J.A., Markowitz V., Hugenholtz P., Kyrpides N.C., Klenk H.P. Stand. Genomic Sci. 3:1-14(2010) [PubMed: 21304687] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 25085 / DSM 20731 / VR4.
[3]	"Cloning and sequencing of the genes of 2-hydoxyglutaryl-CoA dehydratase from Acidaminococcus fermentans." Dutscho R., Wohlfarth G., Buckel P., Buckel W. Eur. J. Biochem. 181:741-746(1989) [PubMed: 2659350] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 129-260.
[4]	"Activation of (R)-2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans." Mueller U., Buckel W. Eur. J. Biochem. 230:698-704(1995) [PubMed: 7607244] [Abstract] Cited for: CHARACTERIZATION.
[5]	"The iron-sulfur clusters in 2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans. Biochemical and spectroscopic investigations." Hans M., Buckel W., Bill E. Eur. J. Biochem. 267:7082-7093(2000) [PubMed: 11106419] [Abstract] Cited for: CHARACTERIZATION.
[6]	"Crystal structure of the Acidaminococcus fermentans 2-hydroxyglutaryl-CoA dehydratase component A." Locher K.P., Hans M., Yeh A.P., Schmid B., Buckel W., Rees D.C. J. Mol. Biol. 307:297-308(2001) [PubMed: 11243821] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS).

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X59645 Genomic DNA. Translation: CAA42196.1.
CP001859 Genomic DNA. Translation: ADB48170.1.
X14252 Genomic DNA. Translation: CAA32464.1.

PIR

S36105.

RefSeq

YP_003399485.1. NC_013740.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1HUX	X-ray	3.00	A/B	1-260	[»]

ProteinModelPortal

P11568.

SMR

P11568. Positions 2-249.

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

8738319.

GenomeReviews

Gene locus Acfer_1816 in contig CP001859_GR.

KEGG

afn:Acfer_1816.

PATRIC

31910223. VBIAciFer109666_1807.

Organism-specific databases

CMR

Search...

Phylogenomic databases

ProtClustDB

CLSK900136.

Family and domain databases

InterPro

IPR002731. ATPase_BadF.
IPR008275. CoA_E_activase.
[Graphical view]

Pfam

PF01869. BcrAD_BadFG. 1 hit.
[Graphical view]

TIGRFAMs

TIGR00241. CoA_E_activ. 1 hit.

ProtoNet

Search...

Entry information

Entry name

HGDC_ACIFV

Accession

Primary (citable) accession number: P11568
Secondary accession number(s): D2RM68, Q44042

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1989
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 79 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program