UniProtKB - P00466 (NIFD_KLEPN)
Protein
Nitrogenase molybdenum-iron protein alpha chain
Gene
nifD
Organism
Klebsiella pneumoniae
Status
Functioni
This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.
Caution
The authors of PubMed:3211766 originally stated that their sequence was from Frankia sp.Curated
Catalytic activityi
- 16 ATP + 16 H2O + N2 + 8 reduced [2Fe-2S]-[ferredoxin] = 16 ADP + 6 H+ + H2 + 2 NH4+ + 8 oxidized [2Fe-2S]-[ferredoxin] + 16 phosphateEC:1.18.6.1
Cofactori
Protein has several cofactor binding sites:- [8Fe-7S] clusterNote: Binds 1 [8Fe-7S] cluster per heterodimer.
- [7Fe-Mo-9S-C-homocitryl] clusterNote: Binds 1 [7Fe-Mo-9S-C-homocitryl] cluster per subunit.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 63 | Iron-sulfur (8Fe-7S); shared with beta chain | 1 | |
Metal bindingi | 89 | Iron-sulfur (8Fe-7S); shared with beta chain | 1 | |
Metal bindingi | 155 | Iron-sulfur (8Fe-7S); shared with beta chain | 1 | |
Metal bindingi | 275 | Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl) | 1 | |
Metal bindingi | 442 | Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl); via pros nitrogen | 1 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-KW
- carbonyl sulfide nitrogenase activity Source: UniProtKB-EC
- iron-sulfur cluster binding Source: UniProtKB-KW
- metal ion binding Source: UniProtKB-KW
- nitrogenase activity Source: UniProtKB-EC
GO - Biological processi
- nitrogen fixation Source: UniProtKB-KW
Keywordsi
Molecular function | Oxidoreductase |
Biological process | Nitrogen fixation |
Ligand | ATP-binding, Iron, Iron-sulfur, Metal-binding, Molybdenum, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | MetaCyc:NIFDKLEB-MONOMER |
Names & Taxonomyi
Protein namesi | Recommended name: Nitrogenase molybdenum-iron protein alpha chain (EC:1.18.6.1)Alternative name(s): Dinitrogenase Nitrogenase component I |
Gene namesi | Name:nifD |
Organismi | Klebsiella pneumoniae |
Taxonomic identifieri | 573 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Klebsiella |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000153069 | 1 – 483 | Nitrogenase molybdenum-iron protein alpha chainAdd BLAST | 483 |
Interactioni
Subunit structurei
Tetramer of two alpha and two beta chains. Forms complex with the iron protein (nitrogenase component 2).
2 PublicationsProtein-protein interaction databases
DIPi | DIP-6206N |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P00466 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P00466 |
Family & Domainsi
Sequence similaritiesi
Belongs to the NifD/NifK/NifE/NifN family.Curated
Family and domain databases
CDDi | cd01976, Nitrogenase_MoFe_alpha, 1 hit |
InterProi | View protein in InterPro IPR000510, Nase/OxRdtase_comp1 IPR010143, Nase_comp1_asu IPR000318, Nase_comp1_CS IPR005972, Nase_Mo-Fe_asu |
PANTHERi | PTHR43457, PTHR43457, 1 hit |
Pfami | View protein in Pfam PF00148, Oxidored_nitro, 1 hit |
TIGRFAMsi | TIGR01862, N2-ase-Ialpha, 1 hit TIGR01282, nifD, 1 hit |
PROSITEi | View protein in PROSITE PS00699, NITROGENASE_1_1, 1 hit PS00090, NITROGENASE_1_2, 1 hit |
i Sequence
Sequence statusi: Complete.
P00466-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MMTNATGERN LALIQEVLEV FPETARKERR KHMMVSDPKM KSVGKCIISN
60 70 80 90 100
RKSQPGVMTV RGCAYAGSKG VVFGPIKDMA HISHGPAGCG QYSRAERRNY
110 120 130 140 150
YTGVSGVDSF GTLNFTSDFQ ERDIVFGGDK KLSKLIEEME LLFPLTKGIT
160 170 180 190 200
IQSECPVGLI GDDISAVANA SSKALDKPVI PVRCEGFRGV SQSLGHHIAN
210 220 230 240 250
DVVRDWILNN REGQPFETTP YDVAIIGDYN IGGDAWASRI LLEEMGLRVV
260 270 280 290 300
AQWSGDGTLV EMENTPFVKL NLVHCYRSMN YIARHMEEKH QIPWMEYNFF
310 320 330 340 350
GPTKIAESLR KIADQFDDTI RANAEAVIAR YEGQMAAIIA KYRPRLEGRK
360 370 380 390 400
VLLYMGGLRP RHVIGAYEDL GMEIIAAGYE FAHNDDYDRT LPDLKEGTLL
410 420 430 440 450
FDDASSYELE AFVKALKPDL IGSGIKEKYI FQKMGVPFRQ MHSWDYSGPY
460 470 480
HGYDGFAIFA RDMDMTLNNP AWNELTAPWL KSA
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 16 | E → Q (PubMed:3322262).Curated | 1 | |
Sequence conflicti | 261 – 264 | EMEN → GDGD in CAA31179 (PubMed:3211766).Curated | 4 | |
Sequence conflicti | 288 | E → D in CAA31179 (PubMed:3211766).Curated | 1 | |
Sequence conflicti | 341 – 343 | KYR → NIA in CAA31179 (PubMed:3211766).Curated | 3 | |
Sequence conflicti | 349 – 361 | RKVLL…GLRPR → LRCCSIWRLP in CAA31179 (PubMed:3211766).CuratedAdd BLAST | 13 | |
Sequence conflicti | 355 | M → I in CAA31667 (Ref. 2) Curated | 1 | |
Sequence conflicti | 469 | N → T in CAA31179 (PubMed:3211766).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y00316 Genomic DNA Translation: CAA68413.1 X07748 Genomic DNA Translation: CAA30571.1 X13303 Genomic DNA Translation: CAA31667.1 V00631 Genomic DNA Translation: CAA23904.1 X12649 Genomic DNA Translation: CAA31179.1 X06243 Genomic DNA Translation: CAA29587.1 |
PIRi | S01729, NIKBMA |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y00316 Genomic DNA Translation: CAA68413.1 X07748 Genomic DNA Translation: CAA30571.1 X13303 Genomic DNA Translation: CAA31667.1 V00631 Genomic DNA Translation: CAA23904.1 X12649 Genomic DNA Translation: CAA31179.1 X06243 Genomic DNA Translation: CAA29587.1 |
PIRi | S01729, NIKBMA |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1H1L | X-ray | 1.90 | A/C | 3-483 | [»] | |
1QGU | X-ray | 1.60 | A/C | 3-480 | [»] | |
1QH1 | X-ray | 1.60 | A/C | 3-480 | [»] | |
1QH8 | X-ray | 1.60 | A/C | 3-480 | [»] | |
SMRi | P00466 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
DIPi | DIP-6206N |
Enzyme and pathway databases
BioCyci | MetaCyc:NIFDKLEB-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P00466 |
Family and domain databases
CDDi | cd01976, Nitrogenase_MoFe_alpha, 1 hit |
InterProi | View protein in InterPro IPR000510, Nase/OxRdtase_comp1 IPR010143, Nase_comp1_asu IPR000318, Nase_comp1_CS IPR005972, Nase_Mo-Fe_asu |
PANTHERi | PTHR43457, PTHR43457, 1 hit |
Pfami | View protein in Pfam PF00148, Oxidored_nitro, 1 hit |
TIGRFAMsi | TIGR01862, N2-ase-Ialpha, 1 hit TIGR01282, nifD, 1 hit |
PROSITEi | View protein in PROSITE PS00699, NITROGENASE_1_1, 1 hit PS00090, NITROGENASE_1_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | NIFD_KLEPN | |
Accessioni | P00466Primary (citable) accession number: P00466 Secondary accession number(s): P09770 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 21, 1986 |
Last sequence update: | July 1, 1989 | |
Last modified: | April 7, 2021 | |
This is version 113 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structureDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families