Current Protein Identity:P07598 New Search
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
1GX7 Best model of the electron transfer complex between cytochrome c3 and [Fe]-hydrogenase Deposited 2002-03-28 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 27–397(371 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 PDT 1,3-PROPANEDITHIOL × 1 FE2 FE (II) ION × 2 CYN CYANIDE ION × 2 CMO CARBON MONOXIDE × 2 HEC HEME C × 4 Not declared
NMR measurement conditions pH 5.9;296 K;Ionic strength (raw mmCIF value) 10 MM PHOSPHATE BUFFER;Pressure 1
Resolution not provided
1HFE 1.6 A RESOLUTION STRUCTURE OF THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS Deposited 1998-11-11 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain L 1–421(421 aa)
Not recorded ZN ZINC ION × 1 FE2 FE (II) ION × 2 CYN CYANIDE ION × 2 SF4 IRON/SULFUR CLUSTER × 3 PDT 1,3-PROPANEDITHIOL × 1 CMO CARBON MONOXIDE × 2 CYS CYSTEINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.6;pH 7.60
Resolution 1.60 Å R-free 0.182
1HFE 1.6 A RESOLUTION STRUCTURE OF THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS Deposited 1998-11-11 Assembly 2 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain M 1–421(421 aa)
Not recorded FE2 FE (II) ION × 2 CYN CYANIDE ION × 2 SF4 IRON/SULFUR CLUSTER × 3 PDT 1,3-PROPANEDITHIOL × 1 CMO CARBON MONOXIDE × 2 CYS CYSTEINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.6;pH 7.60
Resolution 1.60 Å R-free 0.182
1HFE 1.6 A RESOLUTION STRUCTURE OF THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS Deposited 1998-11-11 Assembly 3 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain L 1–421(421 aa)
Chain M 1–421(421 aa)
Not recorded ZN ZINC ION × 1 FE2 FE (II) ION × 4 CYN CYANIDE ION × 4 SF4 IRON/SULFUR CLUSTER × 6 PDT 1,3-PROPANEDITHIOL × 2 CMO CARBON MONOXIDE × 4 CYS CYSTEINE × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.6;pH 7.60
Resolution 1.60 Å R-free 0.182
8BJ7 Nitratidesulfovibrio vulgaris FeFe Hydrogenase C178A mutant in Hinact-like state Deposited 2022-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 VHR Binuclear [FeFe], di(thiomethyl)amine, carbon monoxide, cyanide cluster (-CN form) × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;281.15 K;1 M Lithium chloride, 0.1 M Sodium acetate, 30 % Polyethylene glycol 4000
Resolution 1.04 Å R-free 0.167
8BJ8 Nitratidesulfovibrio vulgaris FeFe Hydrogenase C178A mutant in Htrans-like state Deposited 2022-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Not recorded VHR Binuclear [FeFe], di(thiomethyl)amine, carbon monoxide, cyanide cluster (-CN form) × 1 SF4 IRON/SULFUR CLUSTER × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;295.15 K;1 M Lithium chloride, 0.1 M Sodium acetate, 30 % Polyethylene glycol 4000
Resolution 1.01 Å R-free 0.163
8RTG Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase [FeFe]-hydrogenase in apo form Deposited 2024-01-26 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 NA SODIUM ION × 1 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;1 M Lithium chloride, 0.1 M Sodium acetate, 27.5 % Polyethylene glycol 4000
Resolution 1.46 Å R-free 0.189
8RTI Nitratidesulfovibrio vulgaris [FeFe] hydrogenase in the apo form derivatized with krypton Deposited 2024-01-26 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded KR KRYPTON × 2 SF4 IRON/SULFUR CLUSTER × 3 PGE TRIETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;1 M Lithium chloride, 0.1 M Sodium acetate, 35 % Polyethylene glycol 4000
Resolution 1.50 Å R-free 0.194
8RU6 Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase [FeFe]-hydrogenase variant with both subunits linked by a 4 amino acid linker peptide derived from CpI of Clostridium pasteurianum Deposited 2024-01-30 Assembly 1 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain B 1–392(392 aa)
Not recorded PG4 TETRAETHYLENE GLYCOL × 4 SF4 IRON/SULFUR CLUSTER × 3 MHX Binuclear [FeFe], di(thiomethyl)amine, carbon monoxide, cyanide cluster (-CO form) × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;0.2 M Lithium chloride, 0.1 M Sodium acetate, 25 % Polyethylene glycol 4000
Resolution 1.15 Å R-free 0.158
8RXI Nitratidesulfovibrio vulgaris [FeFe] hydrogenase in Hinact state derivatized with krypton Deposited 2024-02-07 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded KR KRYPTON × 2 SF4 IRON/SULFUR CLUSTER × 3 TOE 2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL × 1 LFH dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) sulphide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;1 M Lithium chloride, 0.1 M Sodium acetate, 40 % Polyethylene glycol 4000
Resolution 1.48 Å R-free 0.181
8RXJ Nitratidesulfovibrio vulgaris [FeFe] hydrogenase C178A mutant in Hinact-like state derivatized with krypton Deposited 2024-02-07 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded KR KRYPTON × 10 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 SF4 IRON/SULFUR CLUSTER × 3 CYN CYANIDE ION × 1 TOE 2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;1 M Lithium chloride, 0.1 M Sodium acetate, 35 % Polyethylene glycol 4000
Resolution 1.51 Å R-free 0.186
8RYH Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase [FeFe]-hydrogenase variant with both subunits linked by a linker peptide derived from a group A1 type [FeFe]-hydrogenase of Veillonella atypica Deposited 2024-02-08 Assembly 1 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 1–389(389 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;1 M Lithium chloride, 0.1 M Sodium acetate, 25 % Polyethylene glycol 4000
Resolution 1.77 Å R-free 0.246
9GBU Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase variant with both subunits linked by a 13 amino acid linker peptide derived from a group A1 type [FeFe]-hydrogenase of Solobacterium moorei Deposited 2024-07-31 Assembly 1 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 1–389(389 aa)
Not recorded MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 SF4 IRON/SULFUR CLUSTER × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;50% MPD, 0.1 HEPES pH 7.6
Resolution 1.78 Å R-free 0.242
9GBU Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase variant with both subunits linked by a 13 amino acid linker peptide derived from a group A1 type [FeFe]-hydrogenase of Solobacterium moorei Deposited 2024-07-31 Assembly 2 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain B 1–389(389 aa)
Not recorded MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 SF4 IRON/SULFUR CLUSTER × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;50% MPD, 0.1 HEPES pH 7.6
Resolution 1.78 Å R-free 0.242
9GNK Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase variant with both subunits linked by a 13 amino acid linker peptide derived from CpI of Clostridium pasteurianum Deposited 2024-09-03 Assembly 1 Insufficient information Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–390(390 aa)
Not recorded CMO CARBON MONOXIDE × 2 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 2 SF4 IRON/SULFUR CLUSTER × 6 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 2 PG4 TETRAETHYLENE GLYCOL × 6 PEG DI(HYDROXYETHYL)ETHER × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.5;293 K;0.1 M HEPES pH 7.5, 20 % Polyethylene glycol 1500
Resolution 1.05 Å R-free 0.185
9GZ0 FeFe Hydrogenase from Desulfovibrio desulfuricans labelled with cyanophenylalanine - oxidised state Deposited 2024-10-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Non-standard monomer:Yes (specific site not provided by mmCIF) SF4 IRON/SULFUR CLUSTER × 3 4WW bis(cyanido-kappaC)(dicarbonyl)-mu-(oxomethylidene)[mu-propane-1,3-bis(thiolate)-1kappa~2~S~1~,S~3~:2kappa~2~S~1~,S~3~] diiron(2+) × 1 CL CHLORIDE ION × 3 LI LITHIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;296 K;0.9 M LiSO4 100 mM Na Acetate 24-30% PEG 6000
Resolution 1.02 Å R-free 0.166
9GZ4 FeFe Hydrogenase from Desulfovibrio desulfuricans labelled with cyanophenylalanine - reduced state Deposited 2024-10-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Non-standard monomer:Yes (specific site not provided by mmCIF) SF4 IRON/SULFUR CLUSTER × 3 4WW bis(cyanido-kappaC)(dicarbonyl)-mu-(oxomethylidene)[mu-propane-1,3-bis(thiolate)-1kappa~2~S~1~,S~3~:2kappa~2~S~1~,S~3~] diiron(2+) × 1 CL CHLORIDE ION × 3 LI LITHIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;296 K;0.9 M LiSO4 100 mM Na Acetate 24-30% Peg 6000
Resolution 0.96 Å R-free 0.152
9GZL Apo FeFe Hydrogenase from Desulfovibrio desulfuricans labelled with cyanophenylalanine Deposited 2024-10-04 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Non-standard monomer:Yes (specific site not provided by mmCIF) SF4 IRON/SULFUR CLUSTER × 3 CL CHLORIDE ION × 7 LI LITHIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;296 K;0.9 M LiSO4 100 mM Na Acetate 24-30% Peg 6000
Resolution 1.02 Å R-free 0.153
9HPX [FeFe]-hydrogenase from D. desulfuricans with synthetic active site containing only one cyanide ligand. Deposited 2024-12-16 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–397(396 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 A1IW2 6,6,7,7-tetrakis($l^{3}-oxidanylidynemethyl)-1$l^{3},5$l^{3}-dithia-3-aza-6$l^{5},7$l^{4}-diferrabicyclo[3.1.1]heptane-6-carbonitrile × 1 CL CHLORIDE ION × 10 LI LITHIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;296 K;0.9 M LiCl 0.1 M Sodium Acetate 26-32% PEG 6000
Resolution 0.96 Å R-free 0.144
9QD6 High resolution structure of the artificially maturated [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough Deposited 2025-03-06 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 SF4 IRON/SULFUR CLUSTER × 3 TAM TRIS(HYDROXYETHYL)AMINOMETHANE × 1 PG4 TETRAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;30% (w/v) PEG 4000, 1M LiCl, 0.1M sodium acetate
Resolution 1.18 Å R-free 0.169
9QDC Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase crystallized in the sodium formate buffer at pH 4.6 Deposited 2025-03-06 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 4.6;293 K;35% (w/v) PEG 4000, 1M LiCl, 0.1M sodium formate pH 4.6
Resolution 1.49 Å R-free 0.181
9QDD Nitratidesulfovibrio vulgaris [FeFe]-hydrogenase crystallized in the sodium acetate buffer at pH 5.3 Deposited 2025-03-06 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 5.3;293 K;30% (w/v) PEG 4000, 1M LiCl, 0.1M sodium acetate pH 5.3
Resolution 1.20 Å R-free 0.220
9QDG Nitratidesulfovibrio vulgaris [FeFe] hydrogenase crystallized in the sodium propionate buffer at pH 5.0 Deposited 2025-03-06 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 SF4 IRON/SULFUR CLUSTER × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 5;293 K;30% (w/v) PEG 4000, 1M LiCl, 0.1M sodium propionate pH 5.0
Resolution 1.02 Å R-free 0.207
9QIS CO-bound [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris Deposited 2025-03-17 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded SF4 IRON/SULFUR CLUSTER × 3 402 dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) × 1 CMO CARBON MONOXIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.6;293 K;37% (w/v) PEG 4000, 1M LiCl, 0.1M sodium acetate
Resolution 1.49 Å R-free 0.176
9R9Q [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 5.04 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.62 Å R-free 0.197
9R9R [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 5.21 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.58 Å R-free 0.202
9R9S [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 5.45 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.71 Å R-free 0.174
9R9T [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 5.81 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.08 Å R-free 0.242
9R9U [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 6.62 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–397(397 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.31 Å R-free 0.162
9R9V [FeFe]-hydrogenase from Nitratidesulfovibrio vulgaris str. Hildenborough at pH 7.00 Deposited 2025-05-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 2–395(394 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.25 Å R-free 0.153