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Gold in PDB 5jjo: The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa

Protein crystallography data

The structure of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa, PDB code: 5jjo was solved by Z.Q.Li, Z.Q.Gao, Z.She, Y.H.Dong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.90 / 2.00
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 62.681, 62.681, 159.601, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 23

Gold Binding Sites:

The binding sites of Gold atom in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa (pdb code 5jjo). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 6 binding sites of Gold where determined in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa, PDB code: 5jjo:
Jump to Gold binding site number: 1; 2; 3; 4; 5; 6;

Gold binding site 1 out of 6 in 5jjo

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Gold binding site 1 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au300

b:63.5
occ:0.54
NE2 A:HIS82 2.4 29.1 1.0
CD2 A:HIS82 3.0 30.0 1.0
O A:HOH532 3.3 41.3 1.0
CE1 A:HIS82 3.5 34.2 1.0
O A:HOH556 3.9 38.6 1.0
CG A:HIS82 4.3 30.6 1.0
ND1 A:HIS82 4.5 28.8 1.0
O A:HOH450 4.7 28.2 1.0
OD1 A:ASN83 4.7 29.2 1.0
O A:HOH542 5.0 44.5 1.0

Gold binding site 2 out of 6 in 5jjo

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Gold binding site 2 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au301

b:54.8
occ:0.51
O A:HOH564 2.0 32.5 1.0
ND1 A:HIS35 2.2 37.4 1.0
CG A:HIS35 3.0 36.8 1.0
CB A:HIS35 3.2 32.7 1.0
CE1 A:HIS35 3.2 36.7 1.0
O A:HOH414 3.4 42.0 1.0
CA A:HIS35 3.6 34.3 1.0
CD2 A:LEU149 3.7 35.3 1.0
CD2 A:HIS35 4.2 39.7 1.0
NE2 A:HIS35 4.3 40.6 1.0
O A:HIS35 4.4 34.7 1.0
C A:HIS35 4.5 37.6 1.0
O A:ASP34 4.5 40.2 1.0
N A:HIS35 4.8 34.2 1.0
CG A:LEU149 4.9 25.8 1.0

Gold binding site 3 out of 6 in 5jjo

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Gold binding site 3 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au302

b:57.5
occ:0.48
NE2 A:HIS200 2.0 50.9 1.0
CD2 A:HIS200 2.8 43.0 1.0
CE1 A:HIS200 3.1 41.7 1.0
O A:VAL198 3.2 34.5 1.0
O A:LEU197 3.8 33.3 1.0
CG A:HIS200 4.0 38.5 1.0
ND1 A:HIS200 4.1 44.1 1.0
C A:VAL198 4.1 35.4 1.0
CA A:VAL198 4.4 26.4 1.0
O A:HOH474 4.4 40.0 1.0
C A:LEU197 4.7 30.7 1.0

Gold binding site 4 out of 6 in 5jjo

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Gold binding site 4 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au303

b:53.8
occ:0.55
ND1 A:HIS272 1.9 51.3 1.0
O A:HOH404 2.2 42.0 1.0
NZ A:LYS245 2.2 53.9 1.0
CE1 A:HIS272 2.8 53.4 1.0
CG A:HIS272 3.0 51.3 1.0
CE A:LYS245 3.4 59.5 1.0
CB A:HIS272 3.5 48.1 1.0
CD A:LYS245 3.7 56.8 1.0
NE2 A:HIS272 4.0 58.4 1.0
CA A:HIS272 4.1 48.6 1.0
CD2 A:HIS272 4.1 51.2 1.0
CD2 A:LEU246 4.1 40.0 1.0
CG A:LYS245 4.1 55.9 1.0
O A:ASP271 4.4 47.2 1.0
CD2 A:LEU249 4.4 40.8 1.0
O A:HOH519 4.8 50.2 1.0

Gold binding site 5 out of 6 in 5jjo

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Gold binding site 5 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 5 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au304

b:0.1
occ:0.42
NZ A:LYS248 1.9 76.7 1.0
ND1 A:HIS247 2.4 44.7 1.0
O A:HOH538 3.0 43.2 1.0
CG A:HIS247 3.0 37.9 1.0
CE A:LYS248 3.1 75.0 1.0
CB A:HIS247 3.2 35.0 1.0
CE1 A:HIS247 3.3 45.4 1.0
CD A:LYS248 3.4 64.9 1.0
CG A:LYS248 3.6 57.5 1.0
O A:GLU244 3.8 43.0 1.0
N A:LYS248 3.8 42.5 1.0
C A:HIS247 4.1 35.2 1.0
CD2 A:HIS247 4.1 36.5 1.0
NE2 A:HIS247 4.2 41.5 1.0
O A:HOH421 4.3 58.5 1.0
CA A:HIS247 4.3 35.1 1.0
CA A:LYS248 4.3 42.5 1.0
CB A:LYS248 4.6 47.8 1.0
CA A:GLU244 4.6 44.7 1.0
CG A:GLU244 4.6 62.3 1.0
C A:GLU244 4.6 39.8 1.0
O A:HIS247 4.7 35.8 1.0
O A:HOH487 4.9 33.6 1.0

Gold binding site 6 out of 6 in 5jjo

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Gold binding site 6 out of 6 in the The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 6 of The Crystal Structure of Immunity Protein PA5088 From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au305

b:86.7
occ:0.41
NE2 A:HIS272 2.2 58.4 1.0
CD2 A:HIS272 2.8 51.2 1.0
CE1 A:HIS272 3.4 53.4 1.0
CG A:HIS272 4.1 51.3 1.0
CB A:ASP271 4.2 52.3 1.0
CD1 A:LEU249 4.2 39.4 1.0
ND1 A:HIS272 4.3 51.3 1.0
OD2 A:ASP271 4.4 56.3 1.0
CG A:ASP271 4.9 54.4 1.0

Reference:

X.Y.Yang, Z.Q.Li, Z.She, Z.Geng, J.H.Xu, Z.Q.Gao, Y.H.Dong. Structural Analysis of Pseudomonas Aeruginosa H3-T6SS Immunity Proteins Febs Lett. V. 590 2787 2016.
ISSN: ISSN 0014-5793
PubMed: 27397502
DOI: 10.1002/1873-3468.12291
Page generated: Sat Dec 12 01:54:22 2020

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