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Gold in PDB 3swm: The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative

Protein crystallography data

The structure of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative, PDB code: 3swm was solved by D.Welner, L.Lo Leggio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.20 / 4.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.530, 109.070, 173.940, 90.00, 90.00, 90.00
R / Rfree (%) 25 / 30.9

Gold Binding Sites:

The binding sites of Gold atom in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative (pdb code 3swm). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 9 binding sites of Gold where determined in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative, PDB code: 3swm:
Jump to Gold binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Gold binding site 1 out of 9 in 3swm

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Gold binding site 1 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au169

b:0.6
occ:1.00
SG A:CYS33 3.6 0.6 1.0
AU A:AU171 3.6 0.6 1.0
CB A:CYS33 4.7 1.0 1.0
CD2 A:LEU139 5.0 0.2 1.0

Gold binding site 2 out of 9 in 3swm

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Gold binding site 2 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Au169

b:0.5
occ:1.00
CG1 C:VAL111 3.0 0.6 1.0
SG C:CYS33 3.1 0.9 1.0
CB C:VAL111 3.6 0.3 1.0
CG2 C:VAL111 4.6 0.3 1.0
CA C:VAL111 4.7 0.3 1.0
CG2 C:VAL29 4.8 0.0 1.0
CB C:CYS33 4.9 0.3 1.0

Gold binding site 3 out of 9 in 3swm

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Gold binding site 3 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au170

b:0.7
occ:0.82
ND2 A:ASN61 3.3 0.4 1.0
CG1 A:VAL58 3.9 0.4 1.0
O A:TRP57 4.1 0.4 1.0
CA A:VAL58 4.2 0.2 1.0
CB A:VAL58 4.4 0.6 1.0
CG A:ASN61 4.6 0.6 1.0
C A:TRP57 4.8 0.7 1.0
N A:VAL58 4.8 0.5 1.0

Gold binding site 4 out of 9 in 3swm

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Gold binding site 4 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Au170

b:0.8
occ:0.69
CD1 C:TRP57 4.9 0.2 1.0

Gold binding site 5 out of 9 in 3swm

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Gold binding site 5 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 5 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au171

b:0.6
occ:0.99
SG A:CYS33 3.0 0.6 1.0
CG1 A:VAL111 3.1 0.1 1.0
AU A:AU169 3.6 0.6 1.0
CB A:VAL111 3.7 0.3 1.0
CG2 A:VAL29 3.8 0.5 1.0
CG2 A:VAL111 4.4 0.0 1.0
CG2 A:THR106 4.6 0.2 1.0
CA A:VAL29 4.6 0.6 1.0
CB A:VAL29 4.7 1.0 1.0
CB A:CYS33 4.7 1.0 1.0
CG1 A:VAL29 5.0 0.7 1.0
CA A:VAL111 5.0 0.9 1.0

Gold binding site 6 out of 9 in 3swm

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Gold binding site 6 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 6 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Au171

b:0.2
occ:0.57
OH C:TYR52 2.4 0.3 1.0
SG C:CYS157 2.8 0.1 1.0
SD C:MET134 3.1 0.7 1.0
OE1 C:GLU136 3.1 0.8 1.0
CZ C:TYR52 3.3 0.5 1.0
CE1 C:TYR52 3.3 0.7 1.0
CG C:GLU136 3.6 0.5 1.0
CB C:GLU136 3.8 0.3 1.0
CD C:GLU136 3.8 0.5 1.0
CD2 C:LEU51 4.2 0.3 1.0
CG2 C:VAL155 4.3 0.3 1.0
CE C:MET134 4.4 0.1 1.0
CE2 C:TYR52 4.6 0.9 1.0
CG C:MET134 4.6 1.0 1.0
CB C:CYS157 4.6 0.2 1.0
CD1 C:TYR52 4.6 0.4 1.0
CA C:GLU136 4.7 0.9 1.0
CB C:VAL155 5.0 0.6 1.0

Gold binding site 7 out of 9 in 3swm

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Gold binding site 7 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 7 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Au172

b:0.7
occ:0.50
OD2 C:ASP55 2.6 0.5 1.0
CG C:ASP55 3.5 0.0 1.0
NE1 C:TRP57 3.7 0.0 1.0
CB C:ASP55 4.2 0.1 1.0
OD1 C:ASP55 4.2 0.1 1.0
CE2 C:TRP57 4.5 0.3 1.0
CZ2 C:TRP57 4.5 0.1 1.0
CD1 C:TRP57 4.8 0.2 1.0
CG1 C:VAL58 5.0 0.1 1.0

Gold binding site 8 out of 9 in 3swm

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Gold binding site 8 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 8 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Au169

b:0.1
occ:0.44
CG1 D:VAL111 2.9 0.0 1.0
SG D:CYS33 3.0 0.7 1.0
CB D:VAL111 3.5 0.8 1.0
CD2 D:LEU139 4.1 0.1 1.0
CB D:CYS33 4.3 0.5 1.0
CA D:VAL111 4.3 0.7 1.0
O D:VAL111 4.6 0.8 1.0
CG2 D:VAL111 4.7 0.1 1.0
C D:VAL111 4.9 0.8 1.0

Gold binding site 9 out of 9 in 3swm

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Gold binding site 9 out of 9 in the The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 9 of The Nac Domain of ANAC019 in Complex with Dna, Gold Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au169

b:0.1
occ:0.52
SG B:CYS33 3.2 0.4 1.0
CG1 B:VAL111 3.4 1.0 1.0
CB B:CYS33 4.1 0.3 1.0
CB B:VAL111 4.3 0.2 1.0
CG2 B:VAL29 4.9 0.3 1.0
CD2 B:LEU139 5.0 0.5 1.0

Reference:

D.H.Welner, S.Lindemose, J.G.Grossmann, N.E.Mollegaard, A.N.Olsen, C.Helgstrand, K.Skriver, L.Lo Leggio. Dna Binding By the Plant-Specific Nac Transcription Factors in Crystal and Solution: A Firm Link to Wrky and Gcm Transcription Factors. Biochem.J. V. 444 395 2012.
ISSN: ISSN 0264-6021
PubMed: 22455904
DOI: 10.1042/BJ20111742
Page generated: Sat Dec 12 01:53:53 2020

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