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Zinc in PDB 2my1: Solution Structure of BUD31P

Zinc Binding Sites:

The binding sites of Zinc atom in the Solution Structure of BUD31P (pdb code 2my1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Solution Structure of BUD31P, PDB code: 2my1:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 2my1

Go back to Zinc Binding Sites List in 2my1
Zinc binding site 1 out of 3 in the Solution Structure of BUD31P


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Solution Structure of BUD31P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1000

b:0.0
occ:1.00
SG A:CYS148 2.3 0.0 1.0
SG A:CYS104 2.3 0.0 1.0
SG A:CYS108 2.3 0.0 1.0
SG A:CYS105 2.3 0.0 1.0
HB3 A:CYS108 2.9 0.0 1.0
CB A:CYS108 3.0 0.0 1.0
HB2 A:CYS108 3.2 0.0 1.0
HB3 A:CYS148 3.2 0.0 1.0
HB2 A:CYS104 3.3 0.0 1.0
HB2 A:CYS105 3.4 0.0 1.0
CB A:CYS148 3.4 0.0 1.0
CB A:CYS104 3.5 0.0 1.0
CB A:CYS105 3.5 0.0 1.0
HB2 A:CYS150 3.5 0.0 1.0
H A:CYS105 3.7 0.0 1.0
ZN A:ZN1002 3.7 0.0 1.0
N A:CYS105 3.8 0.0 1.0
HB2 A:CYS148 3.9 0.0 1.0
ZN A:ZN1001 3.9 0.0 1.0
HB3 A:CYS150 4.0 0.0 1.0
C A:CYS104 4.0 0.0 1.0
CB A:CYS150 4.2 0.0 1.0
H A:CYS148 4.2 0.0 1.0
HB3 A:CYS104 4.3 0.0 1.0
CA A:CYS105 4.3 0.0 1.0
HB3 A:CYS105 4.3 0.0 1.0
CA A:CYS104 4.3 0.0 1.0
HB2 A:HIS147 4.4 0.0 1.0
SG A:CYS145 4.5 0.0 1.0
SG A:CYS122 4.5 0.0 1.0
CA A:CYS108 4.5 0.0 1.0
O A:CYS104 4.6 0.0 1.0
N A:CYS148 4.6 0.0 1.0
CA A:CYS148 4.7 0.0 1.0
H A:CYS104 4.7 0.0 1.0
HE3 A:MET53 4.9 0.0 1.0
HG23 A:ILE109 4.9 0.0 1.0
HB3 A:HIS147 4.9 0.0 1.0
HA A:CYS108 4.9 0.0 1.0
HE1 A:MET53 4.9 0.0 1.0
SG A:CYS150 4.9 0.0 1.0
O A:CYS108 5.0 0.0 1.0
HA A:CYS105 5.0 0.0 1.0

Zinc binding site 2 out of 3 in 2my1

Go back to Zinc Binding Sites List in 2my1
Zinc binding site 2 out of 3 in the Solution Structure of BUD31P


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Solution Structure of BUD31P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:0.0
occ:1.00
SG A:CYS153 2.3 0.0 1.0
SG A:CYS150 2.3 0.0 1.0
SG A:CYS104 2.3 0.0 1.0
SG A:CYS122 2.3 0.0 1.0
HB3 A:CYS104 3.1 0.0 1.0
H A:CYS153 3.1 0.0 1.0
HB2 A:CYS122 3.2 0.0 1.0
HB3 A:CYS153 3.2 0.0 1.0
CB A:CYS150 3.3 0.0 1.0
CB A:CYS104 3.3 0.0 1.0
HB2 A:CYS150 3.4 0.0 1.0
CB A:CYS122 3.4 0.0 1.0
CB A:CYS153 3.4 0.0 1.0
HB3 A:CYS150 3.4 0.0 1.0
N A:CYS153 3.9 0.0 1.0
ZN A:ZN1002 3.9 0.0 1.0
H A:CYS104 3.9 0.0 1.0
ZN A:ZN1000 3.9 0.0 1.0
HB2 A:CYS104 4.0 0.0 1.0
HB3 A:CYS122 4.0 0.0 1.0
HB2 A:CYS153 4.2 0.0 1.0
CA A:CYS153 4.3 0.0 1.0
HG21 A:ILE109 4.4 0.0 1.0
N A:CYS104 4.4 0.0 1.0
C A:CYS122 4.4 0.0 1.0
HG23 A:ILE109 4.5 0.0 1.0
SG A:CYS108 4.5 0.0 1.0
CA A:CYS122 4.5 0.0 1.0
CA A:CYS104 4.5 0.0 1.0
HB3 A:CYS108 4.6 0.0 1.0
O A:CYS108 4.6 0.0 1.0
N A:ARG123 4.6 0.0 1.0
H A:GLY152 4.6 0.0 1.0
HA2 A:GLY152 4.7 0.0 1.0
O A:CYS153 4.7 0.0 1.0
CA A:CYS150 4.7 0.0 1.0
HA A:ARG123 4.7 0.0 1.0
O A:CYS122 4.7 0.0 1.0
SG A:CYS148 4.8 0.0 1.0
HG22 A:ILE109 4.8 0.0 1.0
CG2 A:ILE109 4.8 0.0 1.0
H A:ARG123 4.8 0.0 1.0
SG A:CYS145 4.8 0.0 1.0
C A:GLY152 4.9 0.0 1.0
H A:CYS105 4.9 0.0 1.0

Zinc binding site 3 out of 3 in 2my1

Go back to Zinc Binding Sites List in 2my1
Zinc binding site 3 out of 3 in the Solution Structure of BUD31P


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Solution Structure of BUD31P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1002

b:0.0
occ:1.00
SG A:CYS120 2.3 0.0 1.0
SG A:CYS122 2.3 0.0 1.0
SG A:CYS108 2.3 0.0 1.0
SG A:CYS145 2.3 0.0 1.0
HB3 A:CYS122 3.0 0.0 1.0
HB3 A:CYS120 3.3 0.0 1.0
CB A:CYS122 3.3 0.0 1.0
CB A:CYS145 3.3 0.0 1.0
HB3 A:CYS145 3.3 0.0 1.0
CB A:CYS120 3.3 0.0 1.0
HB2 A:HIS147 3.4 0.0 1.0
HB2 A:CYS145 3.4 0.0 1.0
H A:CYS122 3.5 0.0 1.0
HB2 A:CYS120 3.7 0.0 1.0
ZN A:ZN1000 3.7 0.0 1.0
HD2 A:HIS147 3.8 0.0 1.0
O A:CYS108 3.8 0.0 1.0
CB A:CYS108 3.8 0.0 1.0
ZN A:ZN1001 3.9 0.0 1.0
HA A:CYS108 4.0 0.0 1.0
HB3 A:CYS150 4.0 0.0 1.0
HB2 A:CYS122 4.0 0.0 1.0
HB3 A:CYS108 4.1 0.0 1.0
N A:CYS122 4.2 0.0 1.0
CA A:CYS108 4.2 0.0 1.0
H A:ARG123 4.3 0.0 1.0
H A:CYS148 4.3 0.0 1.0
SG A:CYS148 4.3 0.0 1.0
CA A:CYS122 4.3 0.0 1.0
SG A:CYS104 4.4 0.0 1.0
CB A:HIS147 4.4 0.0 1.0
CD2 A:HIS147 4.4 0.0 1.0
C A:CYS108 4.5 0.0 1.0
HB2 A:CYS108 4.6 0.0 1.0
CA A:CYS120 4.7 0.0 1.0
H A:CYS145 4.7 0.0 1.0
CG A:HIS147 4.7 0.0 1.0
CA A:CYS145 4.7 0.0 1.0
HB3 A:HIS147 4.8 0.0 1.0
H A:ILE121 4.8 0.0 1.0
CB A:CYS150 4.8 0.0 1.0
N A:ARG123 4.9 0.0 1.0
H A:HIS147 4.9 0.0 1.0
C A:CYS120 4.9 0.0 1.0
HZ A:PHE142 4.9 0.0 1.0
HB2 A:CYS150 5.0 0.0 1.0
N A:ILE121 5.0 0.0 1.0
HG22 A:ILE121 5.0 0.0 1.0

Reference:

A.M.Van Roon, J.C.Yang, D.Mathieu, W.Bermel, K.Nagai, D.Neuhaus. (113) Cd uc(Nmr) Experiments Reveal An Unusual Metal Cluster in the Solution Structure of the Yeast Splicing Protein BUD31P. Angew.Chem.Int.Ed.Engl. 2015.
ISSN: ESSN 1521-3773
PubMed: 25703931
DOI: 10.1002/ANIE.201412210
Page generated: Wed Dec 16 03:41:24 2020

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