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Zinc in PDB 5bwk: 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae

Protein crystallography data

The structure of 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae, PDB code: 5bwk was solved by H.B.Gristick, J.W.Chartron, W.M.Clemons, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 6.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 152.430, 127.330, 210.260, 90.00, 110.23, 90.00
R / Rfree (%) 27.4 / 30.3

Zinc Binding Sites:

The binding sites of Zinc atom in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae (pdb code 5bwk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae, PDB code: 5bwk:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 5bwk

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Zinc binding site 1 out of 4 in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn500

b:0.8
occ:1.00
 SG B:CYS285 2.5 0.4 1.0
SG A:CYS285 2.8 0.8 1.0
SG B:CYS288 3.1 0.4 1.0
CB B:CYS288 3.4 0.4 1.0
SG A:CYS288 3.7 0.8 1.0
N B:CYS288 3.8 0.4 1.0
CB A:ARG287 3.9 0.8 1.0
CA B:CYS288 4.0 0.4 1.0
CB B:CYS285 4.1 0.4 1.0
N A:CYS288 4.1 0.8 1.0
CB A:CYS288 4.2 0.8 1.0
CB B:ARG287 4.2 0.4 1.0
C B:ARG287 4.5 0.4 1.0
CB A:CYS285 4.5 0.8 1.0
CA A:CYS288 4.5 0.8 1.0
C A:ARG287 4.6 0.8 1.0
CG A:ARG287 4.7 0.8 1.0
CA A:ARG287 4.9 0.8 1.0
CA B:ARG287 4.9 0.4 1.0

Zinc binding site 2 out of 4 in 5bwk

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Zinc binding site 2 out of 4 in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn501

b:0.6
occ:1.00
 SG C:CYS285 2.5 0.6 1.0
SG D:CYS285 2.5 0.2 1.0
SG D:CYS288 3.1 0.2 1.0
CB D:CYS288 3.3 0.2 1.0
SG C:CYS288 3.3 0.6 1.0
CB C:CYS288 3.4 0.6 1.0
N C:CYS288 3.4 0.6 1.0
N D:CYS288 3.6 0.2 1.0
CB C:ARG287 3.7 0.6 1.0
CA C:CYS288 3.8 0.6 1.0
CA D:CYS288 3.8 0.2 1.0
CB D:CYS285 4.1 0.2 1.0
C C:ARG287 4.1 0.6 1.0
CB C:CYS285 4.1 0.6 1.0
CB D:ARG287 4.1 0.2 1.0
C D:ARG287 4.3 0.2 1.0
CA C:ARG287 4.4 0.6 1.0
CG C:ARG287 4.6 0.6 1.0
CA D:ARG287 4.8 0.2 1.0
O C:ARG287 4.8 0.6 1.0
N C:ARG287 4.9 0.6 1.0
O C:CYS285 5.0 0.6 1.0

Zinc binding site 3 out of 4 in 5bwk

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Zinc binding site 3 out of 4 in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn401

b:0.8
occ:1.00
 SG M:CYS285 2.5 0.8 1.0
SG N:CYS285 2.6 0.4 1.0
SG N:CYS288 2.7 0.4 1.0
N N:CYS288 2.7 0.4 1.0
CB N:CYS288 2.7 0.4 1.0
CA N:CYS288 3.0 0.4 1.0
C N:ARG287 3.4 0.4 1.0
SG M:CYS288 3.4 0.8 1.0
CB N:ARG287 3.5 0.4 1.0
CB M:CYS288 3.7 0.8 1.0
N M:CYS288 3.8 0.8 1.0
CB M:ARG287 4.0 0.8 1.0
CA N:ARG287 4.0 0.4 1.0
CA M:CYS288 4.1 0.8 1.0
CB M:CYS285 4.1 0.8 1.0
O N:ARG287 4.1 0.4 1.0
CB N:CYS285 4.1 0.4 1.0
C M:ARG287 4.4 0.8 1.0
C N:CYS288 4.5 0.4 1.0
O N:CYS285 4.5 0.4 1.0
N N:ARG287 4.6 0.4 1.0
CG N:ARG287 4.6 0.4 1.0
CA M:ARG287 4.8 0.8 1.0
CG M:ARG287 4.8 0.8 1.0
C N:CYS285 5.0 0.4 1.0

Zinc binding site 4 out of 4 in 5bwk

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Zinc binding site 4 out of 4 in the 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of 6.0 A Crystal Structure of A GET3-GET4-GET5 Intermediate Complex From S.Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Zn401

b:0.9
occ:1.00
 SG P:CYS285 2.5 0.8 1.0
SG P:CYS288 2.7 0.8 1.0
SG O:CYS285 2.7 0.9 1.0
CB P:CYS288 2.9 0.8 1.0
N P:CYS288 2.9 0.8 1.0
CA P:CYS288 3.2 0.8 1.0
SG O:CYS288 3.3 0.9 1.0
CB P:ARG287 3.6 0.8 1.0
C P:ARG287 3.6 0.8 1.0
CB O:CYS288 3.8 0.9 1.0
N O:CYS288 4.0 0.9 1.0
CB P:CYS285 4.0 0.8 1.0
CA P:ARG287 4.1 0.8 1.0
CB O:ARG287 4.2 0.9 1.0
CA O:CYS288 4.3 0.9 1.0
CB O:CYS285 4.3 0.9 1.0
O P:ARG287 4.3 0.8 1.0
O P:CYS285 4.5 0.8 1.0
C O:ARG287 4.6 0.9 1.0
CG P:ARG287 4.6 0.8 1.0
N P:ARG287 4.7 0.8 1.0
C P:CYS288 4.7 0.8 1.0
C P:CYS285 5.0 0.8 1.0
CA O:ARG287 5.0 0.9 1.0

Reference:

H.B.Gristick, M.E.Rome, J.W.Chartron, M.Rao, S.Hess, S.O.Shan, W.M.Clemons. Mechanism of Assembly of A Substrate Transfer Complex During Tail-Anchored Protein Targeting. J.Biol.Chem. V. 290 30006 2015.
ISSN: ESSN 1083-351X
PubMed: 26451041
DOI: 10.1074/JBC.M115.677328
Page generated: Wed Dec 16 06:05:20 2020

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