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PyDISH No: 08973

PDB: 4l3y,
chainID: A, resSeq: 607
heme type: C

distortion

Protein data

function: oxidoreductase
experiment: X-RAY DIFFRACTION
resolution: 1.95 Å

axial ligand #1: HIS

chainID: A,
resSeq: 30,
Coordination distance[Å]: 1.969
molecule: Eight-heme nitrite reductase
EC number: 1.7.2.2
Organism: Thioalkalivibrio nitratireducens

axial ligand #2: HIS

chainID: A,
resSeq: 70,
Coordination distance[Å]: 1.961
molecule: same as ligand #1

List of other hemes in pdb:4l3y

ID of heme Distortion Axial ligands on heme Function & structure
4l3y-A-601
sad. +0.58
ruf. -0.60
dom. +0.08
bre. -0.43
LYS chainID: A,
resSeq: 188,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 424.0 Å3
d(Fe-oop): 0.008 Å
NO2 chainID: A, resSeq: 609,
molecule: NITRITE ION
4l3y-A-602
sad. +1.04
ruf. -0.49
dom. -0.10
bre. -0.37
HIS chainID: A,
resSeq: 231,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 490.0 Å3
d(Fe-oop): 0.005 Å
HIS chainID: A, resSeq: 398,
molecule: Eight-heme nitrite reductase
4l3y-A-603
sad. -0.19
ruf. -0.90
dom. +0.13
bre. -0.42
HIS chainID: A,
resSeq: 119,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 423.0 Å3
d(Fe-oop): 0.012 Å
HIS chainID: A, resSeq: 300,
molecule: Eight-heme nitrite reductase
4l3y-A-604
sad. +0.75
ruf. -0.82
dom. -0.19
bre. -0.32
HIS chainID: A,
resSeq: 383,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 440.0 Å3
d(Fe-oop): 0.011 Å
HIS chainID: A, resSeq: 491,
molecule: Eight-heme nitrite reductase
4l3y-A-605
sad. -0.36
ruf. -1.15
dom. +0.03
bre. -0.56
HIS chainID: A,
resSeq: 372,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 482.0 Å3
d(Fe-oop): 0.002 Å
HIS chainID: A, resSeq: 415,
molecule: Eight-heme nitrite reductase
4l3y-A-606
sad. -0.13
ruf. -0.62
dom. -0.06
bre. -0.52
HIS chainID: A,
resSeq: 39,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 379.0 Å3
d(Fe-oop): 0.009 Å
HIS chainID: A, resSeq: 234,
molecule: Eight-heme nitrite reductase
4l3y-A-608
sad. +0.02
ruf. -0.49
dom. -0.15
bre. -0.58
HIS chainID: A,
resSeq: 18,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 431.0 Å3
d(Fe-oop): 0.014 Å
HIS chainID: A, resSeq: 44,
molecule: Eight-heme nitrite reductase
4l3y-B-601
sad. +0.55
ruf. -0.56
dom. +0.07
bre. -0.41
LYS chainID: B,
resSeq: 188,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 409.0 Å3
d(Fe-oop): 0.002 Å
NO2 chainID: B, resSeq: 609,
molecule: NITRITE ION
4l3y-B-602
sad. +1.08
ruf. -0.53
dom. -0.11
bre. -0.27
HIS chainID: B,
resSeq: 231,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 515.0 Å3
d(Fe-oop): 0.004 Å
HIS chainID: B, resSeq: 398,
molecule: Eight-heme nitrite reductase
4l3y-B-603
sad. -0.18
ruf. -0.82
dom. +0.12
bre. -0.35
HIS chainID: B,
resSeq: 119,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 414.0 Å3
d(Fe-oop): 0.008 Å
HIS chainID: B, resSeq: 300,
molecule: Eight-heme nitrite reductase
4l3y-B-604
sad. +0.73
ruf. -0.82
dom. -0.20
bre. -0.34
HIS chainID: B,
resSeq: 383,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 460.0 Å3
d(Fe-oop): 0.007 Å
HIS chainID: B, resSeq: 491,
molecule: Eight-heme nitrite reductase
4l3y-B-605
sad. -0.40
ruf. -1.14
dom. -0.01
bre. -0.53
HIS chainID: B,
resSeq: 372,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 492.0 Å3
d(Fe-oop): 0.005 Å
HIS chainID: B, resSeq: 415,
molecule: Eight-heme nitrite reductase
4l3y-B-606
sad. -0.12
ruf. -0.56
dom. -0.10
bre. -0.52
HIS chainID: B,
resSeq: 39,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 373.0 Å3
d(Fe-oop): 0.002 Å
HIS chainID: B, resSeq: 234,
molecule: Eight-heme nitrite reductase
4l3y-B-607
sad. +0.32
ruf. -0.64
dom. -0.10
bre. -0.42
HIS chainID: B,
resSeq: 30,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 513.0 Å3
d(Fe-oop): 0.003 Å
HIS chainID: B, resSeq: 70,
molecule: Eight-heme nitrite reductase
4l3y-B-608
sad. -0.05
ruf. -0.53
dom. -0.16
bre. -0.55
HIS chainID: B,
resSeq: 18,
molecule: Eight-heme nitrite reductase
oxidoreductase
oligomeric count: 6
pocket vol.: 437.0 Å3
d(Fe-oop): 0.013 Å
HIS chainID: B, resSeq: 44,
molecule: Eight-heme nitrite reductase