Reviewed, UniProtKB/Swiss-Prot P13629 (PHFL_DESVO)

Names and origin

Protein names

Recommended name:
    Periplasmic [Fe] hydrogenase large subunit
    EC=1.12.7.2
Alternative name(s):
    Fe hydrogenlyase

Gene names

Name:

hydA

Organism

Desulfovibrio vulgaris (strain Oxamicus Monticello)

Taxonomic identifier

884 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Deltaproteobacteria › Desulfovibrionales › Desulfovibrionaceae › Desulfovibrio

Protein attributes

Sequence length	421 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	May be involved in hydrogen uptake for the reduction of sulfate to hydrogen sulfide in an electron transport chain. Cytochrome c3 is likely to be the physiological electron carrier for the enzyme.
Catalytic activity	H2 + 2 oxidized ferredoxin = 2 reduced ferredoxin + 2 H+.
Cofactor	Binds 3 4Fe-4S clusters per subunit By similarity. Binds 2 iron ions per subunit By similarity.
Subunit structure	Heterodimer of a large and a small subunit.
Subcellular location	Periplasm.
Miscellaneous	[Fe], [NiFe], and [NiFeSe] hydrogenases appear to represent three distinct enzymes having hydrogenase activity.
Sequence similarities	Contains 2 4Fe-4S ferredoxin-type domains.

Ontologies

Keywords
Biological process	Electron transport Transport
Cellular component	Periplasm
Domain	Repeat
Ligand	4Fe-4S Iron Iron-sulfur Metal-binding
Molecular function	Oxidoreductase
Gene Ontology (GO)
Biological process	electron transport chain Inferred from electronic annotation. Source: UniProtKB-KW transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	periplasmic space Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	4 iron, 4 sulfur cluster binding Inferred from electronic annotation. Source: UniProtKB-KW electron carrier activity Inferred from electronic annotation. Source: InterPro ferredoxin hydrogenase activity Inferred from electronic annotation. Source: EC iron 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 – 421	421	Periplasmic [Fe] hydrogenase large subunit		PRO_0000159240
Regions
	Domain	26 – 55	30	4Fe-4S ferredoxin-type 1
	Domain	56 – 86	31	4Fe-4S ferredoxin-type 2
Sites
	Metal binding	35	1	Iron-sulfur 1 (4Fe-4S) By similarity
	Metal binding	38	1	Iron-sulfur 1 (4Fe-4S) By similarity
	Metal binding	41	1	Iron-sulfur 1 (4Fe-4S) By similarity
	Metal binding	45	1	Iron-sulfur 2 (4Fe-4S) By similarity
	Metal binding	66	1	Iron-sulfur 2 (4Fe-4S) By similarity
	Metal binding	69	1	Iron-sulfur 2 (4Fe-4S) By similarity
	Metal binding	72	1	Iron-sulfur 2 (4Fe-4S) By similarity
	Metal binding	76	1	Iron-sulfur 1 (4Fe-4S) By similarity
	Metal binding	179	1	Iron-sulfur 3 (4Fe-4S) By similarity
	Metal binding	234	1	Iron-sulfur 3 (4Fe-4S) By similarity
	Metal binding	378	1	Iron-sulfur 3 (4Fe-4S) By similarity
	Metal binding	382	1	Diiron subcluster By similarity
	Metal binding	382	1	Iron-sulfur 3 (4Fe-4S) By similarity

Sequences

	Sequence		Length	Mass (Da)
	P13629-1 [UniParc]. Last modified January 1, 1990. Version 1. Checksum: 8E987ABC4DC7C965	FASTA	421	46,279
	10 20 30 40 50 60 MSRIEMEKIF YEDHAPDPKA DPDKLFFIQI DESKCIGCDS CQQYCPTGAI FGDTGDAHKI 70 80 90 100 110 120 PHEELCINCG QCLTHCPVGA IYESQSWVTE IEKKIKAKDV KVIAMPAPAV RYALGDAFGL 130 140 150 160 170 180 PVGTVTTGKM FSALKELGFD HCWDNEFTAD VTIWEEGTEF VQRLTKKLDK PLPQFTSCCP 190 200 210 220 230 240 GWHKYVESLY PELFPHMSSC KSPIGMLGTL AKTYGADRMK YDRAKVYTVS IMPCTAKKYE 250 260 270 280 290 300 GMRPQLWDSG HKDIDATIDT RELAYMIKKA KIDFTKLPDG KRDTLMGEST GGATLFGVTG 310 320 330 340 350 360 GVMEAALRYA YQAVTGKKPE SMDFKGVRGL QGVKEATVNV GGVDVKVAVV HGARRFHDVC 370 380 390 400 410 420 ELVKAGKAPW HFIEFMACPG GCVCGGGQPV MPGVLEAADR RSTRMYAGLK KRLAMASASR A

References

[1]	"Organization of the genes encoding [Fe] hydrogenase in Desulfovibrio vulgaris subsp. oxamicus Monticello." Voordouw G., Strang J.D., Wilson F.R. J. Bacteriol. 171:3881-3889(1989) [PubMed: 2661538] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	M27212 Genomic DNA. Translation: AAA23373.1.
PIR	HQDVLV. A32886.
3D structure databases
HSSP	HSSP built from PDB template 1HFE based on UniProtKB P07598.
SMR	P13629. Positions 2-397.
ModBase	Search...
Family and domain databases
InterPro	IPR017896. 4Fe4S_Fe-S-bd. IPR001450. 4Fe4S_Fe_S_bd_subgr. IPR017900. 4Fe4S_Fe_S_CS. IPR004108. Fe_hydrogenase_lsu_C. IPR013352. Fe_hydrogenase_subset. [Graphical view]
Pfam	PF02906. Fe_hyd_lg_C. 1 hit. PF00037. Fer4. 2 hits. [Graphical view]
TIGRFAMs	TIGR02512. Fe_only_hydrog. 1 hit.
PROSITE	PS00198. 4FE4S_FER_1. 2 hits. PS51379. 4FE4S_FER_2. 2 hits. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PHFL_DESVO

Accession

Primary (citable) accession number: P13629

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1990
Last sequence update:	January 1, 1990
Last modified:	June 16, 2009
This is version 67 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)