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Gold in PDB 6ird: Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm

Enzymatic activity of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm

All present enzymatic activity of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm:
3.1.4.11;

Protein crystallography data

The structure of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm, PDB code: 6ird was solved by F.Ye, J.Li, Y.Huang, W.Liu, M.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.81
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 69.089, 69.089, 200.375, 90.00, 90.00, 120.00
R / Rfree (%) 24.4 / 30.2

Gold Binding Sites:

The binding sites of Gold atom in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm (pdb code 6ird). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 5 binding sites of Gold where determined in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm, PDB code: 6ird:
Jump to Gold binding site number: 1; 2; 3; 4; 5;

Gold binding site 1 out of 5 in 6ird

Go back to Gold Binding Sites List in 6ird
Gold binding site 1 out of 5 in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au301

b:32.0
occ:0.82
SG B:CYS136 2.3 23.9 1.0
CB B:CYS136 3.2 23.4 1.0
C B:CYS136 3.3 12.8 1.0
N B:GLU137 3.4 6.3 1.0
O B:CYS136 3.6 10.6 1.0
CA B:GLU137 3.7 9.8 1.0
CA B:CYS136 3.9 19.6 1.0
CD B:ARG140 4.1 12.7 1.0
CB B:GLU137 4.4 20.9 1.0
CB B:ARG140 4.5 9.5 1.0
ND2 B:ASN240 4.7 29.9 1.0
CG B:ARG140 4.9 12.8 1.0
C B:GLU137 5.0 16.9 1.0

Gold binding site 2 out of 5 in 6ird

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Gold binding site 2 out of 5 in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au302

b:25.3
occ:0.27
SG B:CYS47 2.5 35.7 1.0
OD2 B:ASP51 3.1 36.6 1.0
N B:THR48 3.5 15.1 1.0
C B:CYS47 3.5 18.9 1.0
CA B:THR48 3.6 14.7 1.0
O B:CYS47 3.6 18.8 1.0
CG B:ASP51 3.8 37.7 1.0
CB B:CYS47 3.8 23.5 1.0
CB B:ASP51 3.9 28.0 1.0
OG1 B:THR48 4.1 39.3 1.0
CA B:CYS47 4.3 21.4 1.0
O C:GLY385 4.4 52.0 1.0
CB B:THR48 4.5 22.4 1.0
C B:THR48 4.6 17.3 1.0
CA C:GLY385 4.8 44.9 1.0
O B:LYS44 4.8 27.6 1.0
O B:THR48 4.8 16.2 1.0
OD1 B:ASP51 4.8 25.5 1.0
C C:GLY385 4.9 42.6 1.0

Gold binding site 3 out of 5 in 6ird

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Gold binding site 3 out of 5 in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm within 5.0Å range:

Gold binding site 4 out of 5 in 6ird

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Gold binding site 4 out of 5 in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au304

b:88.0
occ:0.52
NE2 B:GLN239 3.3 28.3 1.0
CD1 B:LEU139 3.8 12.2 1.0
N B:ASN240 4.0 25.6 1.0
CB B:GLN239 4.1 17.2 1.0
CA B:ASN240 4.2 19.6 1.0
C B:GLN239 4.3 12.8 1.0
CD B:GLN239 4.3 31.1 1.0
CB B:ASN240 4.3 21.1 1.0
O B:LEU236 4.4 23.8 1.0
CG B:GLN239 4.4 21.8 1.0
CA B:CYS136 4.5 19.6 1.0
CB B:CYS136 4.7 23.4 1.0
O B:GLN239 4.7 12.0 1.0
N B:CYS136 4.8 22.6 1.0
CA B:GLN239 4.8 17.2 1.0
OD1 B:ASN240 4.9 28.8 1.0
CG B:ASN240 5.0 19.6 1.0

Gold binding site 5 out of 5 in 6ird

Go back to Gold Binding Sites List in 6ird
Gold binding site 5 out of 5 in the Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 5 of Complex Structure of Inadl PDZ89 and PLCB4 C-Terminal Cc-Pbm within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Au501

b:0.7
occ:1.00
CB C:CYS446 4.0 8.8 1.0
CG2 C:THR442 4.2 33.7 1.0
CD1 C:ILE443 4.4 33.3 1.0
SG C:CYS446 4.4 19.4 1.0
O C:THR442 4.4 23.6 1.0
C C:THR442 4.9 22.5 1.0

Reference:

F.Ye, Y.Huang, J.Li, Y.Ma, C.Xie, Z.Liu, X.Deng, J.Wan, T.Xue, W.Liu, M.Zhang. An Unexpected Inad Pdz Tandem-Mediated Plc Beta Binding Indrosophilaphoto Receptors. Elife V. 7 2018.
ISSN: ESSN 2050-084X
PubMed: 30526850
DOI: 10.7554/ELIFE.41848
Page generated: Sat Dec 12 01:54:35 2020

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