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Gold in PDB 3k1l: Crystal Structure of Fancl

Enzymatic activity of Crystal Structure of Fancl

All present enzymatic activity of Crystal Structure of Fancl:
6.3.2.19;

Protein crystallography data

The structure of Crystal Structure of Fancl, PDB code: 3k1l was solved by A.R.Cole, H.Walden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 77.93 / 3.20
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 188.680, 188.680, 259.360, 90.00, 90.00, 120.00
R / Rfree (%) 20.5 / 24.7

Other elements in 3k1l:

The structure of Crystal Structure of Fancl also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Gold Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Gold atom in the Crystal Structure of Fancl (pdb code 3k1l). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 13 binding sites of Gold where determined in the Crystal Structure of Fancl, PDB code: 3k1l:
Jump to Gold binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Gold binding site 1 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 1 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au384

b:79.0
occ:0.23
CB B:CYS125 3.0 77.5 1.0
SG B:CYS125 3.4 78.4 1.0
NE2 B:GLN127 3.6 0.0 1.0
CG B:GLN127 4.4 0.9 1.0
CA B:CYS125 4.4 82.2 1.0
CD B:GLN127 4.5 0.0 1.0
OG B:SER138 4.5 68.1 1.0
CG B:GLU139 4.6 0.5 1.0
C B:CYS125 4.9 77.9 1.0

Gold binding site 2 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 2 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au385

b:79.0
occ:0.60
SG B:CYS165 2.3 62.3 1.0
O7 B:CIT2502 2.8 0.3 0.8
O B:CYS165 3.1 62.0 1.0
C B:CYS165 3.1 62.1 1.0
CB B:CYS165 3.2 60.2 1.0
N B:VAL166 3.4 72.8 1.0
CA B:CYS165 3.7 60.9 1.0
CA B:VAL166 3.8 76.4 1.0
CD B:PRO239 3.8 69.6 1.0
CG2 B:VAL166 3.8 61.3 1.0
C3 B:CIT2502 4.2 0.3 0.8
CG B:PRO239 4.2 68.3 1.0
O6 B:CIT2502 4.5 0.3 0.8
CB B:VAL166 4.5 59.7 1.0
N B:CYS165 4.5 63.5 1.0
C1 B:CIT2502 4.7 0.3 0.8
O B:ALA237 4.7 69.0 1.0
C6 B:CIT2502 4.7 0.3 0.8
O2 B:CIT2502 4.8 0.3 0.8
O1 B:CIT2502 4.8 0.3 0.8
NZ B:LYS220 4.9 73.8 1.0
C4 B:CIT2502 5.0 0.3 0.8

Gold binding site 3 out of 13 in 3k1l

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Gold binding site 3 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au386

b:79.0
occ:0.15
CB B:CYS288 3.0 93.4 1.0
SG B:CYS288 3.3 94.5 1.0
CA B:CYS288 4.5 0.3 1.0
N B:CYS288 4.8 0.9 1.0

Gold binding site 4 out of 13 in 3k1l

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Gold binding site 4 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au387

b:79.0
occ:0.11
CA B:CYS12 2.9 0.8 1.0
O B:CYS12 2.9 0.1 1.0
SG B:CYS12 3.0 0.7 1.0
CB B:CYS12 3.1 1.0 1.0
C B:CYS12 3.3 0.2 1.0
N A:TRP346 4.1 76.0 1.0
CA B:PRO16 4.1 0.5 1.0
N B:CYS12 4.2 0.1 1.0
O B:HOH397 4.3 79.0 1.0
CB B:PRO16 4.3 97.2 1.0
CB A:TRP346 4.3 88.3 1.0
CA A:TRP346 4.4 83.7 1.0
CB A:GLU345 4.4 0.3 1.0
O B:LEU11 4.5 1.0 1.0
N B:GLN13 4.6 0.8 1.0
C B:LEU11 4.8 0.7 1.0
CD1 A:TRP346 4.9 69.4 1.0
N B:PRO16 4.9 95.2 1.0
C A:GLU345 4.9 0.4 1.0
CG B:PRO16 4.9 90.8 1.0
O B:PRO16 5.0 0.1 1.0

Gold binding site 5 out of 13 in 3k1l

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Gold binding site 5 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 5 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au388

b:79.0
occ:0.13
SG B:CYS28 2.5 0.4 1.0
CD1 B:LEU22 3.0 97.2 1.0
CB B:CYS28 3.5 89.2 1.0
N B:LEU22 3.8 0.6 1.0
CA B:LEU22 3.9 0.4 1.0
CB B:LEU22 3.9 0.6 1.0
CG1 B:VAL7 3.9 0.3 1.0
ND1 B:HIS50 3.9 0.9 1.0
CB B:ALA20 4.0 0.0 1.0
CE1 B:HIS50 4.0 1.0 1.0
CG B:LEU22 4.1 0.2 1.0
C B:GLU21 4.1 0.3 1.0
O B:ALA20 4.2 0.9 1.0
C B:ALA20 4.2 0.6 1.0
CA B:CYS28 4.4 0.0 1.0
O B:GLU21 4.4 0.4 1.0
N B:GLU21 4.5 0.2 1.0
CA B:ALA20 4.6 0.5 1.0
CA B:GLU21 4.8 0.9 1.0
CB B:VAL7 4.9 0.8 1.0

Gold binding site 6 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 6 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 6 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au389

b:79.0
occ:0.25
CE1 B:TYR119 3.2 0.9 1.0
CD1 B:TYR119 3.3 93.9 1.0
CZ B:TYR119 3.4 0.1 1.0
CG B:TYR119 3.5 88.5 1.0
CE2 B:TYR119 3.5 0.6 1.0
CD2 B:TYR119 3.6 93.5 1.0
OH B:TYR119 4.1 0.9 1.0
CD2 B:LEU116 4.2 62.1 1.0
CB B:TYR119 4.3 78.0 1.0

Gold binding site 7 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 7 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 7 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au390

b:79.0
occ:0.14
SG B:CYS242 2.6 77.8 1.0
ND2 B:ASN199 2.7 99.3 1.0
CG1 B:ILE243 3.0 83.4 1.0
CD1 B:ILE277 3.2 76.4 1.0
CB B:CYS242 3.3 79.6 1.0
CG1 B:ILE277 3.4 80.5 1.0
C B:CYS242 3.5 98.5 1.0
CG B:ASN199 3.5 98.7 1.0
O B:CYS242 3.6 93.9 1.0
N B:ILE243 3.6 92.8 1.0
CA B:ILE243 3.9 98.6 1.0
CA B:CYS242 3.9 93.8 1.0
CD1 B:ILE243 4.0 0.5 1.0
CB B:ILE243 4.0 86.6 1.0
OD1 B:ASN199 4.1 0.1 1.0
CB B:ASN199 4.3 88.9 1.0
CD1 B:ILE236 4.7 70.2 1.0
CB B:ILE277 4.8 84.3 1.0

Gold binding site 8 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 8 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 8 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Au391

b:79.0
occ:0.20
N A:CYS12 3.2 94.1 1.0
OG1 B:THR349 3.3 0.8 1.0
CA A:CYS12 3.6 0.2 1.0
O A:GLU8 3.6 87.5 1.0
C A:LEU11 3.7 0.6 1.0
CB A:LEU11 3.7 77.3 1.0
CB A:CYS12 3.9 0.6 1.0
O A:LEU11 4.2 0.3 1.0
CA A:LEU11 4.3 85.8 1.0
CB B:THR349 4.3 0.2 1.0
O B:THR349 4.4 0.2 1.0
C A:GLU8 4.5 81.8 1.0
O A:LEU18 4.6 69.9 1.0
CA B:THR349 4.7 0.2 1.0
CA A:GLU8 4.7 76.1 1.0
SG A:CYS12 4.9 0.3 1.0
N A:LEU11 5.0 87.4 1.0
CG A:LEU11 5.0 77.3 1.0

Gold binding site 9 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 9 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 9 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au384

b:79.0
occ:0.23
CB A:CYS125 2.7 0.5 1.0
SG A:CYS125 3.2 0.2 1.0
NE2 A:GLN127 3.6 0.2 1.0
CA A:CYS125 4.1 77.0 1.0
CG A:GLN127 4.2 0.3 1.0
CD A:GLN127 4.4 0.7 1.0
C A:CYS125 4.5 73.2 1.0
OG A:SER138 4.5 72.2 1.0
O A:HOH391 4.8 79.0 1.0
O A:CYS125 4.8 73.4 1.0
CG A:GLU139 4.9 85.2 1.0

Gold binding site 10 out of 13 in 3k1l

Go back to Gold Binding Sites List in 3k1l
Gold binding site 10 out of 13 in the Crystal Structure of Fancl


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 10 of Crystal Structure of Fancl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au385

b:79.0
occ:0.68
SG A:CYS165 2.4 56.8 1.0
O7 A:CIT2504 3.0 0.3 0.8
C A:CYS165 3.3 60.5 1.0
O A:CYS165 3.4 61.1 1.0
CB A:CYS165 3.4 59.5 1.0
N A:VAL166 3.5 72.9 1.0
CD A:PRO239 3.6 59.6 1.0
CG2 A:VAL166 3.7 62.5 1.0
CA A:VAL166 3.8 76.5 1.0
CA A:CYS165 4.0 59.5 1.0
CG A:PRO239 4.1 58.1 1.0
O2 A:CIT2504 4.1 0.3 0.8
CB A:VAL166 4.3 60.5 1.0
C3 A:CIT2504 4.4 0.3 0.8
C1 A:CIT2504 4.6 0.3 0.8
N A:CYS165 4.7 60.8 1.0
O A:ALA237 4.7 58.5 1.0
C4 A:CIT2504 4.7 0.3 0.8

Reference:

A.R.Cole, L.P.C.Lewis, H.Walden. The Structure of the Catalytic Subunit Fancl of the Fanconi Anemia Core Complex Nat.Struct.Mol.Biol. V. 17 294 2010.
ISSN: ISSN 1545-9993
PubMed: 20154706
DOI: 10.1038/NSMB.1759
Page generated: Sat Dec 12 01:53:36 2020

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