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P29166 (PHF1_CLOPA) Reviewed, UniProtKB/Swiss-Prot

Last modified June 28, 2011. Version 97. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Iron hydrogenase 1
EC=1.12.7.2
Alternative name(s):
CpI
Fe-only hydrogenase
[Fe] hydrogenase
OrganismClostridium pasteurianum
Taxonomic identifier1501 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Clostridia › Clostridiales › Clostridiaceae › Clostridium

Protein attributes

Sequence length574 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

H2 + 2 oxidized ferredoxin = 2 reduced ferredoxin + 2 H+.

Cofactor

Binds 1 2Fe-2S cluster per subunit.

Binds 4 4Fe-4S clusters per subunit.

Binds 2 iron ions per subunit. Besides cysteine ligand the diiron subcluster contains non-protein ligands including 2 sulfur atoms, 1 water and 5 cyanide or carbon monoxide ligands.

Subunit structure

Monomer.

Sequence similarities

Contains 1 2Fe-2S ferredoxin-type domain.

Contains 2 4Fe-4S ferredoxin-type domains.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 574574Iron hydrogenase 1
PRO_0000199732

Regions

Domain1 – 78782Fe-2S ferredoxin-type
Domain138 – 167304Fe-4S ferredoxin-type 1
Domain181 – 210304Fe-4S ferredoxin-type 2

Sites

Metal binding341Iron-sulfur 1 (2Fe-2S) Ref.2
Metal binding461Iron-sulfur 1 (2Fe-2S) Ref.2
Metal binding491Iron-sulfur 1 (2Fe-2S) Ref.2
Metal binding621Iron-sulfur 1 (2Fe-2S) Ref.2
Metal binding941Iron-sulfur 2 (4Fe-4S); via tele nitrogen
Metal binding981Iron-sulfur 2 (4Fe-4S) Ref.2
Metal binding1011Iron-sulfur 2 (4Fe-4S) Ref.2
Metal binding1071Iron-sulfur 2 (4Fe-4S) Ref.2
Metal binding1471Iron-sulfur 3 (4Fe-4S) Ref.2
Metal binding1501Iron-sulfur 3 (4Fe-4S) Ref.2
Metal binding1531Iron-sulfur 3 (4Fe-4S) Ref.2
Metal binding1571Iron-sulfur 4 (4Fe-4S) Ref.2
Metal binding1901Iron-sulfur 4 (4Fe-4S) Ref.2
Metal binding1931Iron-sulfur 4 (4Fe-4S) Ref.2
Metal binding1961Iron-sulfur 4 (4Fe-4S) Ref.2
Metal binding2001Iron-sulfur 3 (4Fe-4S) Ref.2
Metal binding3001Iron-sulfur 5 (4Fe-4S) Ref.2
Metal binding3551Iron-sulfur 5 (4Fe-4S) Ref.2
Metal binding4991Iron-sulfur 5 (4Fe-4S) Ref.2
Metal binding5031Diiron subcluster
Metal binding5031Iron-sulfur 5 (4Fe-4S) Ref.2

Secondary structure

1 ......................................................................................................... 574
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P29166 [UniParc].

Last modified December 1, 1992. Version 1.
Checksum: 17E28A74E23C7DEE

FASTA57463,828
        10         20         30         40         50         60 
MKTIIINGVQ FNTDEDTTIL KFARDNNIDI SALCFLNNCN NDINKCEICT VEVEGTGLVT 

        70         80         90        100        110        120 
ACDTLIEDGM IINTNSDAVN EKIKSRISQL LDIHEFKCGP CNRRENCEFL KLVIKYKARA 

       130        140        150        160        170        180 
SKPFLPKDKT EYVDERSKSL TVDRTKCLLC GRCVNACGKN TETYAMKFLN KNGKTIIGAE 

       190        200        210        220        230        240 
DEKCFDDTNC LLCGQCIIAC PVAALSEKSH MDRVKNALNA PEKHVIVAMA PSVRASIGEL 

       250        260        270        280        290        300 
FNMGFGVDVT GKIYTALRQL GFDKIFDINF GADMTIMEEA TELVQRIENN GPFPMFTSCC 

       310        320        330        340        350        360 
PGWVRQAENY YPELLNNLSS AKSPQQIFGT ASKTYYPSIS GLDPKNVFTV TVMPCTSKKF 

       370        380        390        400        410        420 
EADRPQMEKD GLRDIDAVIT TRELAKMIKD AKIPFAKLED SEADPAMGEY SGAGAIFGAT 

       430        440        450        460        470        480 
GGVMEAALRS AKDFAENAEL EDIEYKQVRG LNGIKEAEVE INNNKYNVAV INGASNLFKF 

       490        500        510        520        530        540 
MKSGMINEKQ YHFIEVMACH GGCVNGGGQP HVNPKDLEKV DIKKVRASVL YNQDEHLSKR 

       550        560        570 
KSHENTALVK MYQNYFGKPG EGRAHEILHF KYKK

« Hide

References

[1]"Primary structure of hydrogenase I from Clostridium pasteurianum."
Meyer J., Gagnon J.
Biochemistry 30:9697-9704(1991) [PubMed: 1911757] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PARTIAL PROTEIN SEQUENCE.
Strain: ATCC 6013 / DSM 525 / NCIB 9486 / VKM B-1774 / W5.
[2]"X-ray crystal structure of the Fe-only hydrogenase (CpI) from Clostridium pasteurianum to 1.8-A resolution."
Peters J.W., Lanzilotta W.N., Lemon B.J., Seefeldt L.C.
Science 282:1853-1858(1998) [PubMed: 9836629] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).
[3]"Binding of exogenously added carbon monoxide at the active site of the iron-only hydrogenase (CpI) from Clostridium pasteurianum."
Lemon B.J., Peters J.W.
Biochemistry 38:12969-12973(1999) [PubMed: 10529166] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS).
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		M81737 Genomic DNA. Translation: AAA23248.1.
PIRHQCL1P. A40330.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1C4AX-ray2.40A1-574[»]
1C4CX-ray2.40A1-574[»]
1FEHX-ray1.80A1-574[»]
3C8YX-ray1.39A1-574[»]
ProteinModelPortalP29166.
SMRP29166. Positions 1-574.
ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

InterProIPR017896. 4Fe4S_Fe-S-bd.
IPR017900. 4Fe4S_Fe_S_CS.
IPR012675. Beta-grasp_ferredoxin-type.
IPR009016. Fe_hydrogenase.
IPR004108. Fe_hydrogenase_lsu_C.
IPR003149. Fe_hydrogenase_ssu-like.
IPR013352. Fe_hydrogenase_subset.
IPR001041. Ferredoxin.
[Graphical view]
Gene3DG3DSA:4.10.260.20. Fe_hyd_ssu-like. 1 hit.
G3DSA:3.10.20.30. Ferredoxin_fold. 1 hit.
PfamPF02906. Fe_hyd_lg_C. 1 hit.
PF02256. Fe_hyd_SSU. 1 hit.
[Graphical view]
SMARTSM00902. Fe_hyd_SSU. 1 hit.
[Graphical view]
SUPFAMSSF53920. Fe_hydrog. 1 hit.
SSF54292. Ferredoxin. 1 hit.
TIGRFAMsTIGR02512. Fe_only_hydrog. 1 hit.
PROSITEPS00197. 2FE2S_FER_1. False negative.
PS51085. 2FE2S_FER_2. 1 hit.
PS00198. 4FE4S_FER_1. 2 hits.
PS51379. 4FE4S_FER_2. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

DrugBankDB00916. Metronidazole.

Entry information

Entry namePHF1_CLOPA
AccessionPrimary (citable) accession number: P29166
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: June 28, 2011
This is version 97 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

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