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Zinc in PDB 9fk8: The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant

Enzymatic activity of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant

All present enzymatic activity of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant:
3.2.1.8;

Protein crystallography data

The structure of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant, PDB code: 9fk8 was solved by N.Hadad, O.Chmelnik, M.Dessau, Y.Shoham, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.10
Space group I 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 88.871, 61.555, 110.771, 90, 105.32, 90
R / Rfree (%) 15.1 / 19

Other elements in 9fk8:

The structure of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant (pdb code 9fk8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant, PDB code: 9fk8:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 9fk8

Go back to Zinc Binding Sites List in 9fk8
Zinc binding site 1 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:13.8
occ:1.00
 NE2 A:HIS322 2.0 13.5 1.0
O A:HOH534 2.0 10.2 1.0
OE1 A:GLU58 2.0 16.5 1.0
CL A:CL407 2.2 14.2 1.0
CD A:GLU58 2.8 12.1 1.0
CE1 A:HIS322 2.8 19.1 1.0
OE2 A:GLU58 2.9 13.9 1.0
CD2 A:HIS322 3.0 15.5 1.0
OE2 A:GLU35 3.8 12.2 1.0
O A:HOH762 4.0 18.4 1.0
ND1 A:HIS322 4.0 18.5 1.0
CG A:GLU35 4.0 10.4 1.0
CG A:HIS322 4.1 16.8 1.0
CG A:GLU58 4.2 11.4 1.0
O A:HOH719 4.4 9.5 1.0
CD A:GLU35 4.4 13.3 1.0
CB A:GLU58 4.6 8.7 1.0
ND2 A:ASN59 4.6 11.1 1.0
O A:HOH848 4.8 26.8 1.0
O A:HOH961 4.9 32.9 1.0
O A:HOH658 5.0 8.4 1.0

Zinc binding site 2 out of 6 in 9fk8

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Zinc binding site 2 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:49.1
occ:1.00
 O A:GLU27 2.3 13.2 1.0
O A:SER307 2.4 12.9 1.0
O A:ILE310 2.4 11.4 1.0
O A:HOH878 2.5 16.6 1.0
O A:HOH872 2.6 12.1 1.0
O A:HOH749 2.7 15.0 1.0
C A:GLU27 3.5 11.2 1.0
C A:ILE310 3.5 10.0 1.0
C A:SER307 3.5 13.9 1.0
CA A:SER311 4.1 10.5 1.0
O A:HOH995 4.1 31.1 1.0
CA A:SER307 4.2 13.3 1.0
N A:SER311 4.2 10.7 1.0
O A:HOH528 4.2 22.9 1.0
N A:PHE28 4.3 9.9 1.0
CA A:PHE28 4.3 10.6 1.0
O A:HOH930 4.3 22.6 1.0
CB A:SER307 4.3 12.2 1.0
CB A:PHE28 4.4 7.7 1.0
N A:ILE310 4.4 10.5 1.0
CA A:GLU27 4.4 9.2 1.0
CA A:ILE310 4.5 12.8 1.0
N A:ASP308 4.5 11.6 1.0
CA A:ASP308 4.6 15.7 1.0
O A:HOH691 4.6 18.6 1.0
CD2 A:PHE28 4.8 9.6 1.0
C A:ASP308 4.9 15.2 1.0
C A:SER311 4.9 9.4 1.0
O A:ASN26 4.9 11.3 1.0

Zinc binding site 3 out of 6 in 9fk8

Go back to Zinc Binding Sites List in 9fk8
Zinc binding site 3 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:41.9
occ:1.00
 OD2 A:ASP282 2.2 22.8 1.0
O A:HOH845 2.5 24.6 1.0
CG A:ASP282 3.2 16.9 1.0
O A:HOH607 3.4 27.6 1.0
OD1 A:ASP282 3.8 24.9 1.0
CB A:ASP282 4.2 16.3 1.0
O A:HOH813 4.5 19.4 1.0
CB A:THR280 4.5 12.5 1.0
N A:ASP282 4.7 12.4 1.0
CG2 A:THR280 5.0 20.1 1.0
OG1 A:THR280 5.0 13.2 1.0

Zinc binding site 4 out of 6 in 9fk8

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Zinc binding site 4 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn404

b:29.7
occ:1.00
 O A:ALA374 2.3 11.4 1.0
OD1 A:ASP297 2.4 17.0 1.0
O A:HOH638 2.5 15.5 1.0
O A:LYS379 2.5 22.0 1.0
OD1 A:ASP377 2.5 17.4 1.0
O A:HOH566 2.5 17.8 1.0
O A:HOH675 2.6 10.6 1.0
C A:ALA374 3.5 13.6 1.0
CG A:ASP377 3.6 18.9 1.0
CG A:ASP297 3.6 16.5 1.0
C A:LYS379 3.6 30.9 1.0
OD2 A:ASP377 3.9 18.6 1.0
CE A:LYS301 4.2 27.2 1.0
N A:LYS379 4.3 20.9 1.0
OXT A:LYS379 4.3 37.5 1.0
NZ A:LYS301 4.3 28.5 1.0
CA A:ALA374 4.3 13.2 1.0
O A:HOH703 4.3 12.7 1.0
CB A:ASP297 4.4 13.8 1.0
O A:HOH811 4.4 35.7 1.0
CA A:ASP297 4.4 10.9 1.0
N A:ILE375 4.5 9.5 1.0
CA A:ILE375 4.5 10.2 1.0
OD2 A:ASP297 4.5 21.2 1.0
O A:ASP377 4.5 10.5 1.0
CA A:LYS379 4.5 23.9 1.0
O A:ASP297 4.6 11.2 1.0
C A:ASP377 4.7 16.4 1.0
CB A:ASP377 4.9 15.2 1.0
C A:ASP297 4.9 10.6 1.0
CB A:ALA374 5.0 9.8 1.0

Zinc binding site 5 out of 6 in 9fk8

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Zinc binding site 5 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn405

b:12.8
occ:1.00
 OD2 A:ASP21 2.1 10.4 1.0
O A:HOH802 2.1 10.0 1.0
O A:HOH911 2.1 12.3 1.0
O A:HOH544 2.1 7.5 1.0
O A:HOH581 2.1 8.7 1.0
O A:HOH773 2.1 12.2 1.0
CG A:ASP21 3.1 10.2 1.0
OD1 A:ASP21 3.4 7.6 1.0
O A:HOH892 4.1 29.7 1.0
O A:HOH860 4.1 27.1 1.0
O A:LYS49 4.1 11.0 1.0
O A:HOH673 4.1 10.2 1.0
O A:PHE52 4.2 8.7 1.0
O A:HOH876 4.3 28.4 1.0
O A:HOH908 4.4 20.9 1.0
NE2 A:GLN22 4.4 13.7 1.0
O A:ARG50 4.4 12.6 1.0
CB A:ASP21 4.4 9.0 1.0
O A:HOH918 4.6 35.9 1.0
CB A:ASN53 4.7 9.2 1.0
CG A:GLN22 4.8 11.4 1.0
C A:PHE52 4.8 9.3 1.0
C A:ARG50 5.0 11.9 1.0

Zinc binding site 6 out of 6 in 9fk8

Go back to Zinc Binding Sites List in 9fk8
Zinc binding site 6 out of 6 in the The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn406

b:12.2
occ:1.00
 OE2 A:GLU27 2.1 12.4 1.0
CL A:CL408 2.3 12.1 1.0
CD A:GLU27 2.9 10.8 1.0
OE1 A:GLU27 3.0 9.7 1.0
O A:HOH856 3.9 26.6 1.0
CB A:ASN26 4.0 11.0 1.0
O A:HOH574 4.0 14.4 1.0
O A:HOH668 4.3 9.4 1.0
CG A:GLU27 4.3 9.5 1.0
ND2 A:ASN26 4.5 14.4 1.0
CG A:ASN26 4.8 16.9 1.0
C A:ASN26 4.9 10.7 1.0

Reference:

N.Hadad, O.Chmelnik, M.Dessau, Y.Shoham, G.Shoham. The Structure of XT6 From G.Proteiniphilus T-6: the E265G/N158T Mutant To Be Published.
Page generated: Fri Aug 22 17:31:33 2025

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