VNFD_AZOVI
ID VNFD_AZOVI Reviewed; 474 AA.
AC P16855;
DT 01-AUG-1990, integrated into UniProtKB/Swiss-Prot.
DT 23-JAN-2007, sequence version 2.
DT 03-AUG-2022, entry version 95.
DE RecName: Full=Nitrogenase vanadium-iron protein alpha chain;
DE EC=1.18.6.1;
DE AltName: Full=Dinitrogenase 2 subunit alpha;
DE AltName: Full=Nitrogenase component I;
GN Name=vnfD;
OS Azotobacter vinelandii.
OC Bacteria; Proteobacteria; Gammaproteobacteria; Pseudomonadales;
OC Pseudomonadaceae; Azotobacter.
OX NCBI_TaxID=354;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=2345152; DOI=10.1128/jb.172.6.3400-3408.1990;
RA Joerger R.D., Loveless T.M., Pau R.N., Mitchenall L.A., Simon B.H.,
RA Bishop P.E.;
RT "Nucleotide sequences and mutational analysis of the structural genes for
RT nitrogenase 2 of Azotobacter vinelandii.";
RL J. Bacteriol. 172:3400-3408(1990).
CC -!- FUNCTION: This vanadium-iron protein is part of the nitrogenase complex
CC that catalyzes the key enzymatic reactions in nitrogen fixation.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=16 ATP + 16 H2O + N2 + 8 reduced [2Fe-2S]-[ferredoxin] = 16
CC ADP + 6 H(+) + H2 + 2 NH4(+) + 8 oxidized [2Fe-2S]-[ferredoxin] + 16
CC phosphate; Xref=Rhea:RHEA:21448, Rhea:RHEA-COMP:10000, Rhea:RHEA-
CC COMP:10001, ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:17997,
CC ChEBI:CHEBI:18276, ChEBI:CHEBI:28938, ChEBI:CHEBI:30616,
CC ChEBI:CHEBI:33737, ChEBI:CHEBI:33738, ChEBI:CHEBI:43474,
CC ChEBI:CHEBI:456216; EC=1.18.6.1;
CC -!- COFACTOR:
CC Name=[8Fe-7S] cluster; Xref=ChEBI:CHEBI:21143; Evidence={ECO:0000250};
CC Note=Binds 1 [8Fe-7S] cluster per heterodimer. {ECO:0000250};
CC -!- COFACTOR:
CC Name=[7Fe-V-9S-C-homocitryl] cluster; Xref=ChEBI:CHEBI:60357;
CC Evidence={ECO:0000250};
CC Note=Binds 1 [7Fe-V-9S-C-homocitryl] cluster per subunit.
CC {ECO:0000250};
CC -!- SUBUNIT: Hexamer of two alpha, two beta, and two delta chains.
CC -!- MISCELLANEOUS: The structure of the 7Fe-V-9S-C-homocitryl cluster is
CC assumed to be analogous to the 7Fe-Mo-9S-C-homocitryl cluster.
CC -!- SIMILARITY: Belongs to the NifD/NifK/NifE/NifN family. {ECO:0000305}.
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DR EMBL; M32371; AAA22172.1; -; Genomic_DNA.
DR PIR; C35405; C35405.
DR RefSeq; WP_012698950.1; NZ_FPKM01000002.1.
DR PDB; 5N6Y; X-ray; 1.35 A; A/D=1-474.
DR PDB; 7ADR; X-ray; 1.00 A; A/D=1-474.
DR PDB; 7ADY; X-ray; 1.05 A; A/D=1-474.
DR PDB; 7AIZ; X-ray; 1.05 A; A/D=1-474.
DR PDBsum; 5N6Y; -.
DR PDBsum; 7ADR; -.
DR PDBsum; 7ADY; -.
DR PDBsum; 7AIZ; -.
DR AlphaFoldDB; P16855; -.
DR SMR; P16855; -.
DR DIP; DIP-48893N; -.
DR IntAct; P16855; 2.
DR OMA; LWHWTKS; -.
DR BRENDA; 1.18.6.2; 49.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0018697; F:carbonyl sulfide nitrogenase activity; IEA:UniProtKB-EC.
DR GO; GO:0051536; F:iron-sulfur cluster binding; IEA:UniProtKB-KW.
DR GO; GO:0016163; F:nitrogenase activity; IEA:UniProtKB-EC.
DR GO; GO:0051212; F:vanadium ion binding; IEA:InterPro.
DR GO; GO:0009399; P:nitrogen fixation; IEA:UniProtKB-KW.
DR InterPro; IPR000510; Nase/OxRdtase_comp1.
DR InterPro; IPR005974; Nase_asu.
DR InterPro; IPR010143; Nase_comp1_asu.
DR InterPro; IPR000318; Nase_comp1_CS.
DR InterPro; IPR010142; Nase_V-Fe_asu.
DR PANTHER; PTHR43457; PTHR43457; 1.
DR Pfam; PF00148; Oxidored_nitro; 1.
DR TIGRFAMs; TIGR01284; alt_nitrog_alph; 1.
DR TIGRFAMs; TIGR01862; N2-ase-Ialpha; 1.
DR TIGRFAMs; TIGR01860; VNFD; 1.
DR PROSITE; PS00699; NITROGENASE_1_1; 1.
DR PROSITE; PS00090; NITROGENASE_1_2; 1.
PE 1: Evidence at protein level;
KW 3D-structure; ATP-binding; Iron; Iron-sulfur; Metal-binding;
KW Nitrogen fixation; Nucleotide-binding; Oxidoreductase; Vanadium.
FT INIT_MET 1
FT /note="Removed"
FT CHAIN 2..474
FT /note="Nitrogenase vanadium-iron protein alpha chain"
FT /id="PRO_0000153060"
FT BINDING 49
FT /ligand="[8Fe-7S] cluster"
FT /ligand_id="ChEBI:CHEBI:21143"
FT /ligand_note="ligand shared with beta chain"
FT /evidence="ECO:0000250"
FT BINDING 75
FT /ligand="[8Fe-7S] cluster"
FT /ligand_id="ChEBI:CHEBI:21143"
FT /ligand_note="ligand shared with beta chain"
FT /evidence="ECO:0000250"
FT BINDING 138
FT /ligand="[8Fe-7S] cluster"
FT /ligand_id="ChEBI:CHEBI:21143"
FT /ligand_note="ligand shared with beta chain"
FT /evidence="ECO:0000250"
FT BINDING 257
FT /ligand="[7Fe-V-9S-C-homocitryl] cluster"
FT /ligand_id="ChEBI:CHEBI:60357"
FT /evidence="ECO:0000250"
FT BINDING 423
FT /ligand="[7Fe-V-9S-C-homocitryl] cluster"
FT /ligand_id="ChEBI:CHEBI:60357"
FT /evidence="ECO:0000250"
FT HELIX 7..9
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 13..18
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 19..21
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 28..30
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 50..55
FT /evidence="ECO:0007829|PDB:7ADR"
FT TURN 56..58
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 59..61
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 66..71
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 73..77
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 88..90
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 92..95
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 104..109
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 112..125
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 131..136
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 138..142
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 147..157
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 162..166
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 172..175
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 177..190
FT /evidence="ECO:0007829|PDB:7ADR"
FT TURN 191..193
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 204..210
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 213..215
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 216..227
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 230..236
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 241..244
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 245..249
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 251..256
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 258..272
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 276..278
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 281..283
FT /evidence="ECO:0007829|PDB:7ADY"
FT HELIX 284..298
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 301..326
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 330..337
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 338..351
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 354..362
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 365..374
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 380..384
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 387..397
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 400..404
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 406..412
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 413..415
FT /evidence="ECO:0007829|PDB:7ADR"
FT STRAND 419..421
FT /evidence="ECO:0007829|PDB:7ADR"
FT TURN 422..424
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 432..447
FT /evidence="ECO:0007829|PDB:7ADR"
FT HELIX 450..456
FT /evidence="ECO:0007829|PDB:7ADR"
SQ SEQUENCE 474 AA; 53878 MW; D1AB7275E6E033B0 CRC64;
MPMVLLECDK DIPERQKHIY LKAPNEDTRE FLPIANAATI PGTLSERGCA FCGAKLVIGG
VLKDTIQMIH GPLGCAYDTW HTKRYPTDNG HFNMKYVWST DMKESHVVFG GEKRLEKSMH
EAFDEMPDIK RMIVYTTCPT ALIGDDIKAV AKKVMKDRPD VDVFTVECPG FSGVSQSKGH
HVLNIGWINE KVETMEKEIT SEYTMNFIGD FNIQGDTQLL QTYWDRLGIQ VVAHFTGNGT
YDDLRCMHQA QLNVVNCARS SGYIANELKK RYGIPRLDID SWGFNYMAEG IRKICAFFGI
EEKGEELIAE EYAKWKPKLD WYKERLQGKK MAIWTGGPRL WHWTKSVEDD LGVQVVAMSS
KFGHEEDFEK VIARGKEGTY YIDDGNELEF FEIIDLVKPD VIFTGPRVGE LVKKLHIPYV
NGHGYHNGPY MGFEGFVNLA RDMYNAVHNP LRHLAAVDIR DKSQTTPVIV RGAA
