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Zinc in PDB 1g2d: Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)

Protein crystallography data

The structure of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2), PDB code: 1g2d was solved by S.A.Wolfe, R.A.Grant, M.Elrod-Erickson, C.O.Pabo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.20
Space group P 64
Cell size a, b, c (Å), α, β, γ (°) 105.100, 105.100, 104.600, 90.00, 90.00, 120.00
R / Rfree (%) 22.5 / 26.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) (pdb code 1g2d). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2), PDB code: 1g2d:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 1g2d

Go back to Zinc Binding Sites List in 1g2d
Zinc binding site 1 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:53.8
occ:1.00
NE2 C:HIS129 2.0 30.1 1.0
NE2 C:HIS125 2.1 35.5 1.0
SG C:CYS107 2.3 42.9 1.0
SG C:CYS112 2.4 47.3 1.0
CD2 C:HIS129 2.8 38.4 1.0
CD2 C:HIS125 3.0 36.3 1.0
CB C:CYS112 3.1 50.2 1.0
CE1 C:HIS125 3.1 32.9 1.0
CE1 C:HIS129 3.2 37.4 1.0
CB C:CYS107 3.3 39.9 1.0
CG C:HIS129 4.0 36.9 1.0
ND1 C:HIS129 4.2 36.4 1.0
CG C:HIS125 4.2 33.7 1.0
ND1 C:HIS125 4.2 34.4 1.0
CA C:CYS112 4.5 56.6 1.0
CB C:VAL109 4.5 51.2 1.0
N C:ASP113 4.7 58.4 1.0
CB C:ARG114 4.7 46.1 1.0
CA C:CYS107 4.7 45.9 1.0
CG2 C:VAL109 4.7 48.4 1.0
N C:ARG114 4.9 56.8 1.0
C C:CYS112 4.9 57.0 1.0

Zinc binding site 2 out of 6 in 1g2d

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Zinc binding site 2 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn302

b:51.0
occ:1.00
NE2 C:HIS153 2.1 36.7 1.0
NE2 C:HIS157 2.2 35.0 1.0
SG C:CYS137 2.2 36.8 1.0
SG C:CYS140 2.4 40.0 1.0
CD2 C:HIS157 2.9 33.4 1.0
CD2 C:HIS153 2.9 34.3 1.0
CB C:CYS137 3.1 37.3 1.0
CE1 C:HIS153 3.3 32.9 1.0
CE1 C:HIS157 3.4 29.1 1.0
CB C:CYS140 3.4 38.6 1.0
N C:CYS140 3.6 36.6 1.0
O C:HOH1322 4.0 50.2 1.0
CA C:CYS140 4.0 36.3 1.0
CG C:HIS153 4.1 33.0 1.0
CG C:HIS157 4.2 35.4 1.0
CB C:ILE139 4.2 35.7 1.0
ND1 C:HIS153 4.3 32.7 1.0
ND1 C:HIS157 4.3 33.3 1.0
CA C:CYS137 4.5 38.8 1.0
C C:ILE139 4.6 36.4 1.0
C C:CYS140 4.7 38.8 1.0
N C:ILE139 4.7 41.2 1.0
N C:MET141 4.8 38.4 1.0
CA C:ILE139 4.8 36.6 1.0
C C:CYS137 4.8 38.8 1.0
CG1 C:ILE139 4.8 35.6 1.0
CB C:ARG142 4.9 36.2 1.0
O C:CYS137 4.9 34.8 1.0
N C:ARG142 5.0 40.6 1.0

Zinc binding site 3 out of 6 in 1g2d

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Zinc binding site 3 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn303

b:56.8
occ:1.00
NE2 C:HIS185 2.0 47.0 1.0
SG C:CYS168 2.2 42.8 1.0
NE2 C:HIS181 2.2 39.4 1.0
SG C:CYS165 2.5 38.4 1.0
CE1 C:HIS185 3.0 43.5 1.0
CD2 C:HIS181 3.0 37.3 1.0
CD2 C:HIS185 3.0 44.3 1.0
CE1 C:HIS181 3.3 40.8 1.0
CB C:CYS165 3.3 39.4 1.0
CB C:CYS168 3.3 45.3 1.0
N C:CYS168 3.6 43.6 1.0
CA C:CYS168 4.0 43.9 1.0
ND1 C:HIS185 4.1 45.6 1.0
CG C:HIS185 4.1 41.0 1.0
CG C:HIS181 4.2 36.0 1.0
ND1 C:HIS181 4.3 42.0 1.0
CB C:ILE167 4.3 41.9 1.0
C C:ILE167 4.6 44.3 1.0
C C:CYS168 4.8 45.9 1.0
CA C:CYS165 4.8 39.3 1.0
CA C:ILE167 4.8 43.3 1.0
CB C:ARG170 4.9 48.0 1.0
CG1 C:ILE167 4.9 36.5 1.0
N C:GLY169 4.9 47.0 1.0
CA C:THR182 4.9 40.4 1.0
N C:ILE167 4.9 50.2 1.0

Zinc binding site 4 out of 6 in 1g2d

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Zinc binding site 4 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn304

b:53.8
occ:1.00
NE2 F:HIS229 2.1 36.3 1.0
NE2 F:HIS225 2.1 46.4 1.0
SG F:CYS212 2.3 63.3 1.0
SG F:CYS207 2.3 48.9 1.0
CE1 F:HIS229 2.9 34.7 1.0
CE1 F:HIS225 3.0 45.5 1.0
CB F:CYS212 3.1 67.7 1.0
CD2 F:HIS225 3.1 44.5 1.0
CD2 F:HIS229 3.2 34.9 1.0
CB F:CYS207 3.2 43.4 1.0
ND1 F:HIS229 4.1 34.3 1.0
ND1 F:HIS225 4.1 45.6 1.0
CG F:HIS225 4.2 42.8 1.0
CG F:HIS229 4.2 34.8 1.0
CB F:VAL209 4.5 50.2 1.0
CA F:CYS212 4.6 67.0 1.0
CB F:ARG214 4.6 59.8 1.0
CA F:CYS207 4.7 45.0 1.0
N F:ASP213 4.7 72.4 1.0
CG2 F:VAL209 4.8 47.5 1.0
N F:ARG214 4.8 69.4 1.0
O F:HIS225 4.9 40.1 1.0
C F:CYS212 4.9 69.7 1.0
CD1 F:ILE228 4.9 35.4 1.0

Zinc binding site 5 out of 6 in 1g2d

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Zinc binding site 5 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn305

b:47.8
occ:1.00
NE2 F:HIS257 2.1 36.5 1.0
NE2 F:HIS253 2.1 39.0 1.0
SG F:CYS237 2.4 43.9 1.0
SG F:CYS240 2.5 46.3 1.0
CD2 F:HIS257 3.0 38.9 1.0
CD2 F:HIS253 3.0 36.1 1.0
CE1 F:HIS253 3.1 33.7 1.0
CE1 F:HIS257 3.1 38.9 1.0
CB F:CYS237 3.2 30.4 1.0
CB F:CYS240 3.6 43.1 1.0
N F:CYS240 3.8 37.0 1.0
ND1 F:HIS253 4.2 32.8 1.0
CG F:HIS253 4.2 35.5 1.0
CG F:HIS257 4.2 35.4 1.0
ND1 F:HIS257 4.2 37.8 1.0
CA F:CYS240 4.3 40.3 1.0
CB F:ILE239 4.4 37.0 1.0
CA F:CYS237 4.7 33.8 1.0
C F:ILE239 4.7 36.0 1.0
CB F:ARG242 4.7 43.5 1.0
CA F:ILE239 4.9 36.0 1.0
CG2 F:ILE239 4.9 36.3 1.0
C F:CYS240 4.9 40.0 1.0
N F:ILE239 4.9 36.6 1.0

Zinc binding site 6 out of 6 in 1g2d

Go back to Zinc Binding Sites List in 1g2d
Zinc binding site 6 out of 6 in the Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of A CYS2HIS2 Zinc Finger/Tata Box Complex (Clone #2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn306

b:39.9
occ:1.00
NE2 F:HIS285 2.1 43.9 1.0
NE2 F:HIS281 2.2 25.1 1.0
SG F:CYS265 2.3 34.4 1.0
SG F:CYS268 2.4 40.7 1.0
CD2 F:HIS281 2.9 24.3 1.0
CE1 F:HIS285 3.0 42.1 1.0
CD2 F:HIS285 3.1 38.9 1.0
CB F:CYS265 3.2 29.6 1.0
CE1 F:HIS281 3.3 24.9 1.0
CB F:CYS268 3.5 37.6 1.0
N F:CYS268 3.8 38.5 1.0
ND1 F:HIS285 4.1 43.6 1.0
CG F:HIS281 4.1 24.9 1.0
CG F:HIS285 4.2 39.8 1.0
CA F:CYS268 4.2 39.8 1.0
ND1 F:HIS281 4.3 29.3 1.0
CB F:ILE267 4.6 37.2 1.0
CA F:CYS265 4.6 32.6 1.0
CA F:THR282 4.7 37.9 1.0
C F:ILE267 4.8 40.3 1.0
CB F:ARG270 4.8 38.0 1.0
CG2 F:THR282 4.9 34.9 1.0
N F:GLY269 4.9 37.9 1.0
O F:HIS281 4.9 31.1 1.0
C F:CYS268 5.0 40.3 1.0

Reference:

S.A.Wolfe, R.A.Grant, M.Elrod-Erickson, C.O.Pabo. Beyond the "Recognition Code": Structures of Two CYS2HIS2 Zinc Finger/Tata Box Complexes. Structure V. 9 717 2001.
ISSN: ISSN 0969-2126
PubMed: 11587646
DOI: 10.1016/S0969-2126(01)00632-3
Page generated: Wed Dec 16 02:49:47 2020

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