Iron in PDB 5yce: Sperm Whale Myoglobin Swmb

Protein crystallography data

The structure of Sperm Whale Myoglobin Swmb, PDB code: 5yce was solved by Y.Isogai, H.Imamura, S.Nakae, T.Sumi, K.Takahashi, T.Nakagawa, A.Tsuneshige, T.Shirai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 9.95 / 0.77
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 34.180, 30.660, 63.570, 90.00, 105.49, 90.00
R / Rfree (%) 14.4 / 16.2

Iron Binding Sites:

The binding sites of Iron atom in the Sperm Whale Myoglobin Swmb (pdb code 5yce). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the Sperm Whale Myoglobin Swmb, PDB code: 5yce:

Iron binding site 1 out of 1 in 5yce

Go back to Iron Binding Sites List in 5yce
Iron binding site 1 out of 1 in the Sperm Whale Myoglobin Swmb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Sperm Whale Myoglobin Swmb within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:4.8
occ:1.00
FE A:HEM201 0.0 4.8 1.0
NA A:HEM201 2.0 5.4 1.0
ND A:HEM201 2.0 5.1 1.0
NC A:HEM201 2.0 4.9 1.0
NB A:HEM201 2.1 5.2 1.0
O A:HOH365 2.1 6.0 1.0
NE2 A:HIS93 2.1 5.4 1.0
C1D A:HEM201 3.0 5.9 1.0
C4C A:HEM201 3.0 5.3 1.0
C1A A:HEM201 3.1 6.3 1.0
C4A A:HEM201 3.1 5.9 1.0
C4D A:HEM201 3.1 5.8 1.0
C1C A:HEM201 3.1 4.9 1.0
CE1 A:HIS93 3.1 6.6 1.0
C4B A:HEM201 3.1 4.9 1.0
C1B A:HEM201 3.1 5.3 1.0
CD2 A:HIS93 3.2 5.1 1.0
CHD A:HEM201 3.4 5.5 1.0
CHB A:HEM201 3.4 5.8 1.0
CHA A:HEM201 3.4 6.7 1.0
CHC A:HEM201 3.4 5.3 1.0
ND1 A:HIS93 4.2 6.9 1.0
NE2 A:HIS64 4.3 7.1 1.0
C3C A:HEM201 4.3 5.5 1.0
C2C A:HEM201 4.3 5.5 1.0
C3A A:HEM201 4.3 6.7 1.0
C2A A:HEM201 4.3 6.5 1.0
CG A:HIS93 4.3 5.9 1.0
C2D A:HEM201 4.3 6.2 1.0
C3D A:HEM201 4.3 6.8 1.0
C3B A:HEM201 4.3 5.6 1.0
C2B A:HEM201 4.3 5.5 1.0
CG2 A:VAL68 4.8 5.3 1.0
CE1 A:HIS64 4.8 7.2 1.0
CZ A:PHE43 4.9 8.0 1.0

Reference:

Y.Isogai, H.Imamura, S.Nakae, T.Sumi, K.I.Takahashi, T.Nakagawa, A.Tsuneshige, T.Shirai. Tracing Whale Myoglobin Evolution By Resurrecting Ancient Proteins. Sci Rep V. 8 16883 2018.
ISSN: ESSN 2045-2322
PubMed: 30442991
DOI: 10.1038/S41598-018-34984-6
Page generated: Sun Dec 13 16:18:37 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy