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PyDISH No: 05729

PDB: 3gm6,
chainID: B, resSeq: 1003
heme type: C

distortion

Protein data

function: oxidoreductase
experiment: X-RAY DIFFRACTION
resolution: 1.8 Å

axial ligand #1: HIS

chainID: B,
resSeq: 30,
Coordination distance[Å]: 1.97
molecule: Eight-heme nitrite reductase
Organism: Thioalkalivibrio nitratireducens

axial ligand #2: HIS

chainID: B,
resSeq: 70,
Coordination distance[Å]: 1.988
molecule: same as ligand #1

List of other hemes in pdb:3gm6

ID of heme Distortion Axial ligands on heme Function & structure
3gm6-A-1004
sad. +0.58
ruf. -0.41
dom. +0.10
bre. -0.44
LYS chainID: A,
resSeq: 188,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 428.0 Å3
d(Fe-oop): 0.166 Å
PO4 chainID: A, resSeq: 526,
molecule: PHOSPHATE ION
3gm6-A-1005
sad. +1.12
ruf. -0.28
dom. +0.02
bre. -0.22
HIS chainID: A,
resSeq: 231,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 480.0 Å3
d(Fe-oop): 0.022 Å
HIS chainID: A, resSeq: 398,
molecule: Eight-heme nitrite reductase
3gm6-A-1006
sad. -0.24
ruf. -0.73
dom. +0.22
bre. -0.28
HIS chainID: A,
resSeq: 119,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 433.0 Å3
d(Fe-oop): 0.005 Å
HIS chainID: A, resSeq: 300,
molecule: Eight-heme nitrite reductase
3gm6-A-1007
sad. +0.75
ruf. -0.60
dom. -0.09
bre. -0.20
HIS chainID: A,
resSeq: 383,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 473.0 Å3
d(Fe-oop): 0.036 Å
HIS chainID: A, resSeq: 491,
molecule: Eight-heme nitrite reductase
3gm6-A-1008
sad. -0.46
ruf. -0.62
dom. +0.10
bre. -0.13
HIS chainID: A,
resSeq: 372,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 578.0 Å3
d(Fe-oop): 0.045 Å
HIS chainID: A, resSeq: 415,
molecule: Eight-heme nitrite reductase
3gm6-A-1002
sad. -0.10
ruf. -0.47
dom. +0.05
bre. -0.32
HIS chainID: A,
resSeq: 39,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 416.0 Å3
d(Fe-oop): 0.071 Å
HIS chainID: A, resSeq: 234,
molecule: Eight-heme nitrite reductase
3gm6-A-1003
sad. +0.34
ruf. -0.48
dom. +0.05
bre. -0.24
HIS chainID: A,
resSeq: 30,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 532.0 Å3
d(Fe-oop): 0.048 Å
HIS chainID: A, resSeq: 70,
molecule: Eight-heme nitrite reductase
3gm6-A-1001
sad. +0.04
ruf. -0.29
dom. -0.02
bre. -0.34
HIS chainID: A,
resSeq: 18,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 452.0 Å3
d(Fe-oop): 0.057 Å
HIS chainID: A, resSeq: 44,
molecule: Eight-heme nitrite reductase
3gm6-B-1004
sad. +0.55
ruf. -0.38
dom. +0.11
bre. -0.40
LYS chainID: B,
resSeq: 188,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 445.0 Å3
d(Fe-oop): 0.160 Å
PO4 chainID: B, resSeq: 526,
molecule: PHOSPHATE ION
3gm6-B-1005
sad. +1.13
ruf. -0.31
dom. +0.02
bre. -0.17
HIS chainID: B,
resSeq: 231,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 512.0 Å3
d(Fe-oop): 0.059 Å
HIS chainID: B, resSeq: 398,
molecule: Eight-heme nitrite reductase
3gm6-B-1006
sad. -0.15
ruf. -0.72
dom. +0.24
bre. -0.28
HIS chainID: B,
resSeq: 119,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 440.0 Å3
d(Fe-oop): 0.021 Å
HIS chainID: B, resSeq: 300,
molecule: Eight-heme nitrite reductase
3gm6-B-1007
sad. +0.71
ruf. -0.66
dom. -0.08
bre. -0.21
HIS chainID: B,
resSeq: 383,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 454.0 Å3
d(Fe-oop): 0.046 Å
HIS chainID: B, resSeq: 491,
molecule: Eight-heme nitrite reductase
3gm6-B-1008
sad. -0.40
ruf. -0.60
dom. +0.15
bre. -0.14
HIS chainID: B,
resSeq: 372,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 576.0 Å3
d(Fe-oop): 0.045 Å
HIS chainID: B, resSeq: 415,
molecule: Eight-heme nitrite reductase
3gm6-B-1002
sad. -0.07
ruf. -0.32
dom. +0.05
bre. -0.33
HIS chainID: B,
resSeq: 39,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 379.0 Å3
d(Fe-oop): 0.035 Å
HIS chainID: B, resSeq: 234,
molecule: Eight-heme nitrite reductase
3gm6-B-1001
sad. -0.16
ruf. -0.25
dom. -0.08
bre. -0.33
HIS chainID: B,
resSeq: 18,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 417.0 Å3
d(Fe-oop): 0.028 Å
HIS chainID: B, resSeq: 44,
molecule: Eight-heme nitrite reductase