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Zinc in PDB 6hau: Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57

Protein crystallography data

The structure of Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57, PDB code: 6hau was solved by R.B.Tunnicliffe, C.Levy, H.D.Ruiz Nivia, R.M.Sandri-Goldin, A.P.Golovanov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 78.71 / 1.86
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.657, 105.261, 118.554, 90.00, 90.00, 90.00
R / Rfree (%) 15.8 / 19.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57 (pdb code 6hau). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57, PDB code: 6hau:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6hau

Go back to Zinc Binding Sites List in 6hau
Zinc binding site 1 out of 2 in the Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:37.1
occ:1.00
NE2 A:HIS385 2.0 48.7 1.0
SG A:CYS293 2.1 47.4 1.0
SG A:CYS389 2.3 42.7 1.0
SG A:CYS394 2.4 40.0 1.0
CE1 A:HIS385 2.9 48.4 1.0
HE1 A:HIS385 2.9 58.1 1.0
HB2 A:CYS389 3.0 54.5 1.0
CB A:CYS389 3.1 45.4 1.0
HB2 A:CYS394 3.1 49.7 1.0
CB A:CYS394 3.2 41.4 1.0
CD2 A:HIS385 3.2 43.0 1.0
HB3 A:CYS389 3.2 54.5 1.0
HB3 A:CYS394 3.2 49.7 1.0
HB2 A:CYS293 3.4 55.5 1.0
HD2 A:HIS385 3.5 51.6 1.0
CB A:CYS293 3.5 46.2 1.0
HB3 A:CYS293 4.0 55.5 1.0
HB3 A:SER391 4.0 57.5 1.0
ND1 A:HIS385 4.0 43.3 1.0
HB2 A:PRO291 4.2 47.2 1.0
CG A:HIS385 4.2 42.2 1.0
HE2 A:HIS294 4.5 43.8 1.0
CA A:CYS389 4.6 50.9 1.0
NE2 A:HIS294 4.6 36.5 1.0
CA A:CYS394 4.6 39.0 1.0
HD2 A:HIS294 4.7 44.1 1.0
CA A:CYS293 4.7 50.5 1.0
CD2 A:HIS294 4.7 36.7 1.0
H A:SER391 4.7 73.0 1.0
HA A:CYS389 4.8 61.1 1.0
HE1 A:MET297 4.8 73.6 1.0
HD1 A:HIS385 4.8 52.0 1.0
HA A:CYS394 4.9 46.9 1.0
C A:CYS293 4.9 47.6 1.0
H A:CYS293 4.9 63.0 0.6
H A:CYS293 4.9 63.0 0.5
CB A:SER391 5.0 47.9 1.0
HG2 A:PRO291 5.0 44.6 1.0
SD A:MET297 5.0 56.5 1.0
CB A:PRO291 5.0 39.3 1.0

Zinc binding site 2 out of 2 in 6hau

Go back to Zinc Binding Sites List in 6hau
Zinc binding site 2 out of 2 in the Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Kshv Pan Rna Mta-Response Element Fragment Complexed with the Globular Domain of Herpesvirus Saimiri ORF57 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:24.2
occ:1.00
NE2 B:HIS385 2.1 29.4 1.0
SG B:CYS389 2.3 26.9 1.0
SG B:CYS394 2.3 28.9 1.0
SG B:CYS293 2.4 31.1 1.0
CE1 B:HIS385 3.1 27.4 1.0
HB2 B:CYS389 3.1 29.6 1.0
HB2 B:CYS394 3.1 35.2 1.0
CD2 B:HIS385 3.1 26.4 1.0
HE1 B:HIS385 3.2 32.9 1.0
CB B:CYS394 3.2 29.3 1.0
CB B:CYS389 3.2 24.7 1.0
HB2 B:CYS293 3.3 38.9 1.0
HB3 B:CYS394 3.3 35.2 1.0
HD2 B:HIS385 3.3 31.6 1.0
HB3 B:CYS389 3.5 29.6 1.0
CB B:CYS293 3.5 32.4 1.0
HB3 B:SER391 4.0 40.7 1.0
HB3 B:CYS293 4.0 38.9 1.0
O B:HOH800 4.1 28.9 1.0
HB2 B:PRO291 4.1 40.5 1.0
ND1 B:HIS385 4.2 26.5 1.0
CG B:HIS385 4.3 25.0 1.0
O B:HOH827 4.3 43.5 1.0
HD2 B:HIS294 4.5 30.0 1.0
NE2 B:HIS294 4.6 23.9 1.0
CD2 B:HIS294 4.6 25.0 1.0
CA B:CYS389 4.6 23.3 1.0
CA B:CYS394 4.7 27.1 1.0
CA B:CYS293 4.7 31.6 1.0
H B:SER391 4.7 44.2 1.0
HA B:CYS389 4.7 28.0 1.0
HG2 B:PRO291 4.8 38.1 1.0
C B:CYS293 4.8 28.8 1.0
HG1 B:THR398 4.9 25.4 1.0
CB B:SER391 4.9 33.9 1.0
H B:HIS294 4.9 32.5 1.0
CB B:PRO291 4.9 33.7 1.0
N B:HIS294 4.9 27.1 1.0
HA B:CYS394 4.9 32.5 1.0
H B:CYS293 4.9 37.8 0.5
H B:CYS293 4.9 37.8 0.5
HD1 B:HIS385 5.0 31.8 1.0
HB2 B:SER391 5.0 40.7 1.0
SD B:MET297 5.0 39.7 1.0

Reference:

R.B.Tunnicliffe, C.Levy, H.D.Ruiz Nivia, R.M.Sandri-Goldin, A.P.Golovanov. Structural Identification of Conserved Rna Binding Sites in Herpesvirus ORF57 Homologs: Implications For Pan Rna Recognition. Nucleic Acids Res. V. 47 1987 2019.
ISSN: ESSN 1362-4962
PubMed: 30462297
DOI: 10.1093/NAR/GKY1181
Page generated: Wed Dec 16 11:56:18 2020

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