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Protein data
function: oxidoreductaseexperiment: X-RAY DIFFRACTION
resolution: 1.8 Å
axial ligand #1: HIS
chainID: A,resSeq: 231,
Coordination distance[Å]: 1.967
molecule: Eight-heme nitrite reductase
Organism: Thioalkalivibrio nitratireducens
axial ligand #2: HIS
chainID: A,resSeq: 398,
Coordination distance[Å]: 1.967
molecule: same as ligand #1
List of other hemes in pdb:3d1i
ID of heme | Distortion | Axial ligands on heme | Function & structure | |
---|---|---|---|---|
3d1i-A-1004 |
sad. +0.60 ruf. -0.39 dom. +0.08 bre. -0.04 |
LYS | chainID: A, resSeq: 188, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 414.0 Å3 d(Fe-oop): 0.019 Å |
NO2 | chainID: A, resSeq: 528, molecule: NITRITE ION |
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3d1i-A-1006 |
sad. -0.18 ruf. -0.79 dom. +0.20 bre. -0.01 |
HIS | chainID: A, resSeq: 119, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 403.0 Å3 d(Fe-oop): 0.001 Å |
HIS | chainID: A, resSeq: 300, molecule: Eight-heme nitrite reductase |
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3d1i-A-1007 |
sad. +0.74 ruf. -0.66 dom. -0.12 bre. +0.07 |
HIS | chainID: A, resSeq: 383, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 443.0 Å3 d(Fe-oop): 0.026 Å |
HIS | chainID: A, resSeq: 491, molecule: Eight-heme nitrite reductase |
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3d1i-A-1008 |
sad. -0.34 ruf. -0.82 dom. +0.17 bre. +0.17 |
HIS | chainID: A, resSeq: 372, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 547.0 Å3 d(Fe-oop): 0.072 Å |
HIS | chainID: A, resSeq: 415, molecule: Eight-heme nitrite reductase |
|||
3d1i-A-1002 |
sad. -0.12 ruf. -0.50 dom. +0.00 bre. -0.06 |
HIS | chainID: A, resSeq: 39, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 359.0 Å3 d(Fe-oop): 0.027 Å |
HIS | chainID: A, resSeq: 234, molecule: Eight-heme nitrite reductase |
|||
3d1i-A-1003 |
sad. +0.45 ruf. -0.48 dom. +0.01 bre. +0.06 |
HIS | chainID: A, resSeq: 30, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 498.0 Å3 d(Fe-oop): 0.047 Å |
HIS | chainID: A, resSeq: 70, molecule: Eight-heme nitrite reductase |
|||
3d1i-A-1001 |
sad. +0.07 ruf. -0.34 dom. -0.02 bre. -0.12 |
HIS | chainID: A, resSeq: 18, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 406.0 Å3 d(Fe-oop): 0.031 Å |
HIS | chainID: A, resSeq: 44, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1004 |
sad. +0.55 ruf. -0.44 dom. +0.14 bre. -0.07 |
LYS | chainID: B, resSeq: 188, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 404.0 Å3 d(Fe-oop): 0.022 Å |
NO2 | chainID: B, resSeq: 528, molecule: NITRITE ION |
|||
3d1i-B-1005 |
sad. +1.10 ruf. -0.33 dom. -0.01 bre. +0.07 |
HIS | chainID: B, resSeq: 231, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 486.0 Å3 d(Fe-oop): 0.030 Å |
HIS | chainID: B, resSeq: 398, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1006 |
sad. -0.21 ruf. -0.84 dom. +0.23 bre. +0.06 |
HIS | chainID: B, resSeq: 119, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 411.0 Å3 d(Fe-oop): 0.008 Å |
HIS | chainID: B, resSeq: 300, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1007 |
sad. +0.79 ruf. -0.68 dom. -0.14 bre. +0.07 |
HIS | chainID: B, resSeq: 383, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 432.0 Å3 d(Fe-oop): 0.026 Å |
HIS | chainID: B, resSeq: 491, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1008 |
sad. -0.34 ruf. -0.80 dom. +0.18 bre. +0.12 |
HIS | chainID: B, resSeq: 372, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 547.0 Å3 d(Fe-oop): 0.040 Å |
HIS | chainID: B, resSeq: 415, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1002 |
sad. -0.08 ruf. -0.39 dom. -0.01 bre. -0.08 |
HIS | chainID: B, resSeq: 39, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 352.0 Å3 d(Fe-oop): 0.048 Å |
HIS | chainID: B, resSeq: 234, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1003 |
sad. +0.33 ruf. -0.50 dom. +0.01 bre. +0.06 |
HIS | chainID: B, resSeq: 30, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 498.0 Å3 d(Fe-oop): 0.026 Å |
HIS | chainID: B, resSeq: 70, molecule: Eight-heme nitrite reductase |
|||
3d1i-B-1001 |
sad. -0.15 ruf. -0.39 dom. -0.05 bre. -0.11 |
HIS | chainID: B, resSeq: 18, molecule: Eight-heme nitrite reductase |
oxidoreductase oligomeric count: 6 pocket vol.: 409.0 Å3 d(Fe-oop): 0.045 Å |
HIS | chainID: B, resSeq: 44, molecule: Eight-heme nitrite reductase |