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Zinc in PDB 5nqz: Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.

Protein crystallography data

The structure of Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309., PDB code: 5nqz was solved by S.Johnson, S.Hollingshead, S.M.Lea, C.M.Tang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 58.55 / 1.63
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 91.370, 76.270, 83.900, 90.00, 91.26, 90.00
R / Rfree (%) 16.2 / 19.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. (pdb code 5nqz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309., PDB code: 5nqz:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 5nqz

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Zinc binding site 1 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:22.4
occ:1.00
OE1 A:GLU202 1.8 21.7 1.0
ND1 A:HIS168 2.1 20.9 1.0
OXT A:ACT406 2.1 44.6 1.0
NE2 B:HIS91 2.2 22.4 1.0
O A:ACT406 2.2 22.5 1.0
C A:ACT406 2.5 16.9 1.0
CD A:GLU202 2.8 23.4 1.0
CE1 A:HIS168 2.9 21.4 1.0
OE2 A:GLU202 3.0 33.1 1.0
CE1 B:HIS91 3.1 26.6 1.0
CG A:HIS168 3.2 19.5 1.0
CD2 B:HIS91 3.2 21.1 1.0
CB A:HIS168 3.7 16.4 1.0
O A:HOH516 3.8 22.7 1.0
CD2 B:LEU89 3.9 31.7 1.0
CH3 A:ACT406 4.0 28.4 1.0
NE2 A:HIS168 4.1 20.5 1.0
CG A:GLU202 4.2 20.4 1.0
CD2 A:HIS168 4.2 18.5 1.0
ND1 B:HIS91 4.3 26.3 1.0
CA A:HIS168 4.3 14.7 1.0
CG B:HIS91 4.3 22.8 1.0
CG B:LEU89 4.5 36.3 1.0
O A:SER167 4.5 16.5 1.0
CB A:GLU202 4.5 16.7 1.0
CA A:GLY293 4.7 14.7 1.0

Zinc binding site 2 out of 9 in 5nqz

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Zinc binding site 2 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:19.8
occ:1.00
O A:ACT408 1.3 39.5 1.0
OD2 A:ASP266 1.9 18.8 1.0
O A:ACT407 2.0 25.9 1.0
ND1 A:HIS270 2.1 15.7 1.0
C A:ACT408 2.1 26.9 1.0
OXT A:ACT408 2.1 20.3 1.0
C A:ACT407 2.8 34.0 1.0
OXT A:ACT407 2.8 41.0 1.0
CG A:ASP266 2.9 17.3 1.0
CE1 A:HIS270 2.9 15.3 1.0
CG A:HIS270 3.1 15.8 1.0
OD1 A:ASP266 3.2 18.2 1.0
CB A:HIS270 3.5 15.5 1.0
CH3 A:ACT408 3.5 39.0 1.0
O A:HOH502 4.0 58.9 1.0
O A:HOH628 4.0 30.3 1.0
O A:HOH542 4.1 39.5 1.0
NE2 A:HIS270 4.1 14.5 1.0
CD2 A:HIS270 4.2 14.2 1.0
CH3 A:ACT407 4.3 34.9 1.0
CE1 A:HIS203 4.3 18.0 1.0
CB A:ASP266 4.3 17.4 1.0
ND1 A:HIS203 4.5 18.2 1.0
CB A:LYS268 4.5 18.7 1.0
NE2 A:HIS203 4.6 18.6 1.0
CA A:HIS270 4.8 14.2 1.0
CG A:HIS203 5.0 15.5 1.0
CD2 A:HIS203 5.0 18.0 1.0
N A:HIS270 5.0 14.7 1.0

Zinc binding site 3 out of 9 in 5nqz

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Zinc binding site 3 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:27.3
occ:1.00
NE2 A:HIS326 2.1 27.3 1.0
NE2 A:HIS324 2.2 32.6 1.0
CE1 A:HIS326 3.1 27.1 1.0
CD2 A:HIS324 3.1 34.6 1.0
CD2 A:HIS326 3.1 26.2 1.0
CE1 A:HIS324 3.1 33.2 1.0
ND1 A:HIS326 4.2 27.5 1.0
ND1 A:HIS324 4.2 34.1 1.0
CG A:HIS326 4.2 27.9 1.0
CG A:HIS324 4.3 37.3 1.0

Zinc binding site 4 out of 9 in 5nqz

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Zinc binding site 4 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn404

b:42.7
occ:1.00
NE2 A:HIS327 2.1 38.8 1.0
NE2 A:HIS325 2.3 37.5 1.0
CE1 A:HIS327 3.1 46.6 1.0
CD2 A:HIS327 3.1 38.9 1.0
CE1 A:HIS325 3.2 37.0 1.0
CD2 A:HIS325 3.2 37.5 1.0
ND1 A:HIS327 4.2 46.6 1.0
CG A:HIS327 4.2 40.2 1.0
ND1 A:HIS325 4.3 35.5 1.0
CG A:HIS325 4.4 33.6 1.0

Zinc binding site 5 out of 9 in 5nqz

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Zinc binding site 5 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn405

b:49.6
occ:1.00
OE1 A:GLU304 2.5 33.9 1.0
O A:ACT409 2.6 53.7 1.0
OXT A:ACT409 2.6 55.0 1.0
OE2 A:GLU304 2.6 30.0 1.0
CD A:GLU304 2.8 30.4 1.0
C A:ACT409 2.9 59.9 1.0
CG A:GLU304 4.3 27.9 1.0
CH3 A:ACT409 4.4 59.3 1.0
CE1 A:HIS313 4.5 25.6 1.0
O A:HOH506 5.0 40.1 1.0

Zinc binding site 6 out of 9 in 5nqz

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Zinc binding site 6 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


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 Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn411

b:22.9
occ:1.00
OE1 B:GLU202 1.8 19.9 1.0
ND1 B:HIS168 2.1 19.8 1.0
NE2 A:HIS91 2.1 25.1 1.0
O A:ACT412 2.2 44.8 1.0
OXT A:ACT412 2.3 18.4 1.0
C A:ACT412 2.5 31.2 1.0
CD B:GLU202 2.8 19.7 1.0
CE1 B:HIS168 2.9 22.6 1.0
OE2 B:GLU202 3.0 30.1 1.0
CE1 A:HIS91 3.0 30.4 1.0
CD2 A:HIS91 3.1 24.2 1.0
CG B:HIS168 3.2 19.2 1.0
CB B:HIS168 3.7 16.6 1.0
O B:HOH526 3.8 26.2 1.0
CH3 A:ACT412 4.0 45.6 1.0
CD2 A:LEU89 4.0 32.5 1.0
NE2 B:HIS168 4.1 24.1 1.0
ND1 A:HIS91 4.2 31.8 1.0
CG B:GLU202 4.2 17.1 1.0
CD2 B:HIS168 4.2 22.3 1.0
CG A:HIS91 4.3 25.4 1.0
CA B:HIS168 4.4 13.0 1.0
O B:SER167 4.5 15.8 1.0
CG A:LEU89 4.6 33.0 1.0
CB B:GLU202 4.6 15.9 1.0
CA B:GLY293 4.8 15.3 1.0

Zinc binding site 7 out of 9 in 5nqz

Go back to Zinc Binding Sites List in 5nqz
Zinc binding site 7 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:22.3
occ:1.00
OD2 B:ASP266 2.0 20.4 1.0
OXT B:ACT406 2.0 25.2 1.0
ND1 B:HIS270 2.1 16.8 1.0
OXT B:ACT405 2.1 31.5 1.0
C B:ACT406 2.3 33.8 1.0
C B:ACT405 2.8 39.3 1.0
O B:ACT405 2.9 39.7 1.0
O B:ACT406 2.9 47.3 1.0
CG B:ASP266 2.9 20.0 1.0
CE1 B:HIS270 3.0 18.5 1.0
CG B:HIS270 3.1 17.1 1.0
CH3 B:ACT406 3.2 49.7 1.0
OD1 B:ASP266 3.2 19.4 1.0
CB B:HIS270 3.5 17.0 1.0
O B:HOH630 4.0 31.9 1.0
NE2 B:HIS270 4.1 19.2 1.0
O B:HOH517 4.2 38.0 1.0
CD2 B:HIS270 4.2 16.3 1.0
CE1 B:HIS203 4.2 18.5 1.0
CH3 B:ACT405 4.3 42.5 1.0
CB B:ASP266 4.3 20.0 1.0
ND1 B:HIS203 4.5 18.3 1.0
NE2 B:HIS203 4.5 19.6 1.0
CB B:LYS268 4.6 20.5 1.0
CA B:HIS270 4.8 15.0 1.0
CG1 B:VAL272 4.9 19.3 1.0
CG B:HIS203 4.9 16.7 1.0
O B:HOH604 5.0 41.6 1.0
N B:HIS270 5.0 16.5 1.0

Zinc binding site 8 out of 9 in 5nqz

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Zinc binding site 8 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:30.5
occ:1.00
O B:ACT404 1.9 28.7 1.0
OE2 B:GLU183 2.1 34.0 1.0
CD B:GLU183 2.7 35.3 1.0
OE1 B:GLU183 2.8 39.7 1.0
C B:ACT404 2.9 33.1 1.0
OXT B:ACT404 3.1 33.8 1.0
CG B:GLU183 4.2 33.2 1.0
CH3 B:ACT404 4.2 28.5 1.0
O B:HOH600 4.5 24.0 1.0
CB B:GLU183 4.9 33.5 1.0

Zinc binding site 9 out of 9 in 5nqz

Go back to Zinc Binding Sites List in 5nqz
Zinc binding site 9 out of 9 in the Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of A Fhbp(V1.1):Pora(P1.16) Chimera. Fusion at Fhbp Position 309. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:41.5
occ:1.00
NE2 B:HIS326 1.8 34.7 1.0
NE2 B:HIS324 2.2 53.0 1.0
CD2 B:HIS326 2.8 44.4 1.0
CE1 B:HIS326 2.9 49.0 1.0
CD2 B:HIS324 3.1 56.1 1.0
CE1 B:HIS324 3.2 53.4 1.0
CG B:HIS326 3.9 44.2 1.0
ND1 B:HIS326 4.0 38.6 1.0
ND1 B:HIS324 4.2 52.2 1.0
CG B:HIS324 4.2 54.9 1.0
O B:HIS325 5.0 52.5 1.0

Reference:

S.Hollingshead, I.Jongerius, R.M.Exley, S.Johnson, S.M.Lea, C.M.Tang. Structure-Based Design of Chimeric Antigens For Multivalent Protein Vaccines. Nat Commun V. 9 1051 2018.
ISSN: ESSN 2041-1723
PubMed: 29535307
DOI: 10.1038/S41467-018-03146-7
Page generated: Wed Dec 16 06:36:31 2020

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