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Zinc in PDB 2jho: Cyanomet Sperm Whale Myoglobin at 1.4A Resolution

Protein crystallography data

The structure of Cyanomet Sperm Whale Myoglobin at 1.4A Resolution, PDB code: 2jho was solved by A.Arcovito, M.Benfatto, M.Cianci, S.S.Hasnain, K.Nienhaus, G.U.Nienhaus, C.Savino, R.W.Strange, B.Vallone, S.Della Longa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 61.43 / 1.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 34.409, 29.786, 63.633, 90.00, 104.93, 90.00
R / Rfree (%) 18 / 23.4

Other elements in 2jho:

The structure of Cyanomet Sperm Whale Myoglobin at 1.4A Resolution also contains other interesting chemical elements:

Iron (Fe) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Cyanomet Sperm Whale Myoglobin at 1.4A Resolution (pdb code 2jho). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cyanomet Sperm Whale Myoglobin at 1.4A Resolution, PDB code: 2jho:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2jho

Go back to Zinc Binding Sites List in 2jho
Zinc binding site 1 out of 2 in the Cyanomet Sperm Whale Myoglobin at 1.4A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cyanomet Sperm Whale Myoglobin at 1.4A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1157

b:21.8
occ:0.25
O A:HOH2186 1.6 20.9 0.5
ND1 A:HIS36 2.0 20.6 1.0
O A:HOH2184 2.4 27.3 1.0
O A:HOH2185 2.5 40.7 1.0
CG A:HIS36 2.8 22.6 1.0
CE1 A:HIS36 2.9 20.8 1.0
CB A:HIS36 3.1 22.6 1.0
CA A:HIS36 3.2 25.2 1.0
O A:SER35 3.2 23.9 1.0
OE1 A:GLU38 3.5 21.3 1.0
OE2 A:GLU38 3.6 22.5 1.0
CD A:GLU38 3.9 22.1 1.0
CD2 A:HIS36 3.9 22.9 1.0
NE2 A:HIS36 3.9 20.1 1.0
C A:SER35 4.0 23.7 1.0
N A:HIS36 4.0 24.6 1.0
CZ A:PHE106 4.3 24.4 1.0
C A:HIS36 4.3 23.1 1.0
CE2 A:PHE106 4.3 24.4 1.0
CD A:PRO37 4.5 22.4 1.0
N A:PRO37 4.7 23.1 1.0
CD2 A:PHE106 4.7 23.9 1.0
CE1 A:PHE106 4.8 24.6 1.0

Zinc binding site 2 out of 2 in 2jho

Go back to Zinc Binding Sites List in 2jho
Zinc binding site 2 out of 2 in the Cyanomet Sperm Whale Myoglobin at 1.4A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cyanomet Sperm Whale Myoglobin at 1.4A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1158

b:23.4
occ:0.50
NE2 A:HIS36 1.9 20.1 1.0
O A:HOH2187 2.7 36.1 1.0
CE1 A:HIS36 2.9 20.8 1.0
O A:HOH2188 3.0 35.4 1.0
CD2 A:HIS36 3.0 22.9 1.0
ND1 A:HIS36 4.0 20.6 1.0
CG A:HIS36 4.1 22.6 1.0
CD1 A:PHE106 4.3 22.8 1.0
CB A:GLU109 4.3 22.6 1.0
CB A:SER35 4.4 26.5 1.0
O A:PHE106 4.6 27.8 1.0
CA A:PHE106 4.7 24.6 1.0
CB A:PHE106 4.7 25.5 1.0
CG A:PHE106 4.8 23.9 1.0
OG A:SER35 4.8 29.7 1.0
CE1 A:PHE106 5.0 24.6 1.0

Reference:

A.Arcovito, M.Benfatto, M.Cianci, S.S.Hasnain, K.Nienhaus, G.U.Nienhaus, C.Savino, R.W.Strange, B.Vallone, S.Della Longa. X-Ray Structure Analysis of A Metalloprotein with Enhanced Active-Site Resolution Using in Situ X-Ray Absorption Near Edge Structure Spectroscopy. Proc. Natl. Acad. Sci. V. 104 6211 2007U.S.A..
ISSN: ISSN 0027-8424
PubMed: 17404234
DOI: 10.1073/PNAS.0608411104
Page generated: Wed Dec 16 03:32:03 2020

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