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Xenon in PDB 2z8y: Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica

Enzymatic activity of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica

All present enzymatic activity of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica:
1.2.7.4; 1.2.99.2; 2.3.1.169;

Protein crystallography data

The structure of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica, PDB code: 2z8y was solved by T.I.Doukov, L.C.Blasiak, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.00 / 2.51
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 99.540, 136.600, 141.750, 101.29, 109.22, 103.91
R / Rfree (%) 17.8 / 25

Other elements in 2z8y:

The structure of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica also contains other interesting chemical elements:

Nickel (Ni) 8 atoms
Iron (Fe) 56 atoms
Copper (Cu) 4 atoms

Xenon Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 42;

Binding sites:

The binding sites of Xenon atom in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica (pdb code 2z8y). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 42 binding sites of Xenon where determined in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica, PDB code: 2z8y:
Jump to Xenon binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Xenon binding site 1 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 1 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1001

b:23.8
occ:0.15
CG2 A:THR602 3.3 10.1 1.0
CA A:GLY592 3.7 13.5 1.0
SG A:CYS468 3.7 23.4 1.0
CD1 A:TRP595 3.7 15.9 1.0
CB A:ALA580 3.8 16.2 1.0
N A:ALA580 3.9 16.1 1.0
O A:HIS603 4.1 15.9 1.0
N A:GLY592 4.1 14.8 1.0
CB A:ALA578 4.2 14.9 1.0
C A:SER579 4.2 16.3 1.0
NE1 A:TRP595 4.3 19.8 1.0
CG2 A:ILE591 4.4 11.6 1.0
N A:SER579 4.5 14.4 1.0
CA A:ALA580 4.5 16.4 1.0
C A:ALA578 4.6 15.8 1.0
CA A:SER579 4.6 14.9 1.0
CB A:THR602 4.7 14.0 1.0
C A:ILE591 4.7 14.4 1.0
CG A:TRP595 4.8 15.9 1.0
O A:SER579 4.8 15.7 1.0
CG2 A:VAL604 4.8 14.8 1.0
O A:ILE591 4.8 16.2 1.0
C A:GLY592 4.9 13.0 1.0
O A:ALA588 4.9 17.3 1.0
O A:ALA578 5.0 17.2 1.0

Xenon binding site 2 out of 42 in 2z8y

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Xenon binding site 2 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1002

b:27.3
occ:1.00
CZ A:PHE632 3.7 2.5 1.0
CG2 A:VAL102 3.8 10.4 1.0
CG A:PRO608 3.9 11.5 1.0
OG1 A:THR593 4.0 15.8 1.0
O A:ALA589 4.0 12.8 1.0
CB A:PRO608 4.0 10.8 1.0
CB A:ALA589 4.1 14.2 1.0
CA A:ALA589 4.1 14.6 1.0
CE1 A:PHE632 4.2 11.9 1.0
CE2 A:PHE632 4.3 6.5 1.0
C A:ALA589 4.5 13.7 1.0
CG1 A:ILE106 4.8 11.6 1.0
CD1 A:ILE106 4.8 2.0 1.0
CZ A:PHE634 5.0 9.2 1.0

Xenon binding site 3 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 3 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 3 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1003

b:30.5
occ:0.60
XE A:XE1003 0.0 30.5 0.6
XE A:XE1003 2.8 14.0 0.2
CD1 A:ILE106 3.6 2.0 1.0
CD2 A:LEU620 3.6 15.3 1.0
CB A:ALA234 4.0 7.6 1.0
CG1 A:VAL102 4.1 9.1 1.0
CG1 A:VAL231 4.2 13.7 1.0
OG1 A:THR593 4.3 15.8 1.0
CD1 A:LEU620 4.4 18.7 1.0
CG2 A:THR593 4.4 11.7 1.0
XE A:XE1004 4.4 30.1 0.8
CG A:LEU620 4.6 17.6 1.0
CG2 A:VAL102 4.9 10.4 1.0

Xenon binding site 4 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 4 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 4 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1003

b:14.0
occ:0.19
XE A:XE1003 0.0 14.0 0.2
XE A:XE1003 2.8 30.5 0.6
CG1 A:VAL102 3.2 9.1 1.0
CB A:ALA234 3.6 7.6 1.0
O A:ALA99 4.0 14.4 1.0
CA A:ALA99 4.1 10.3 1.0
CG2 A:VAL231 4.2 13.9 1.0
CA A:VAL231 4.2 13.4 1.0
CB A:ALA99 4.3 9.0 1.0
N A:GLY103 4.4 11.1 1.0
CB A:VAL102 4.6 12.8 1.0
C A:ALA99 4.6 11.7 1.0
CB A:VAL231 4.6 13.5 1.0
CD1 A:ILE106 4.6 2.0 1.0
CG1 A:VAL231 4.6 13.7 1.0
CA A:GLY103 4.7 11.0 1.0
O A:LEU230 4.8 12.7 1.0
N A:VAL231 4.8 11.7 1.0
C A:VAL102 5.0 11.3 1.0

Xenon binding site 5 out of 42 in 2z8y

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Xenon binding site 5 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 5 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1004

b:30.1
occ:0.84
CD2 A:LEU620 3.3 15.3 1.0
CD1 A:ILE235 3.9 3.9 1.0
CG1 A:VAL231 3.9 13.7 1.0
CG1 A:VAL596 3.9 7.9 1.0
CG1 A:ILE235 4.2 14.3 1.0
CE2 A:PHE632 4.3 6.5 1.0
XE A:XE1003 4.4 30.5 0.6
CB A:VAL596 4.5 12.4 1.0
CG2 A:THR593 4.6 11.7 1.0
CA A:LEU620 4.6 15.6 1.0
CB A:ALA624 4.6 16.0 1.0
CG A:LEU620 4.7 17.6 1.0
CD2 A:PHE632 4.8 5.9 1.0
CB A:LEU620 5.0 16.3 1.0

Xenon binding site 6 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 6 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 6 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1005

b:24.5
occ:1.00
CG2 M:THR31 3.8 8.9 1.0
CG2 A:ILE623 3.8 11.5 1.0
CG1 A:VAL228 4.0 10.5 1.0
CG2 A:VAL627 4.0 13.4 1.0
CE1 A:PHE232 4.1 14.0 1.0
CZ A:PHE232 4.4 8.0 1.0
CG2 A:VAL228 4.4 12.4 1.0
CG M:TYR35 4.5 15.4 1.0
CD1 A:ILE619 4.5 9.4 1.0
CD1 M:TYR35 4.5 10.6 1.0
CB A:ILE623 4.6 14.4 1.0
CG2 A:ILE619 4.6 11.6 1.0
CB M:TYR35 4.6 15.0 1.0
CG1 A:ILE619 4.7 10.0 1.0
CB A:VAL627 4.8 13.4 1.0
CB A:VAL228 4.8 13.2 1.0
CG1 A:VAL627 4.9 12.4 1.0
CD2 M:TYR35 4.9 17.2 1.0

Xenon binding site 7 out of 42 in 2z8y

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Xenon binding site 7 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 7 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe1010

b:32.0
occ:0.41
O A:SER396 3.3 18.7 1.0
C A:SER396 3.6 21.4 1.0
CD1 A:LEU287 3.6 22.9 1.0
CG2 A:THR374 3.7 10.8 1.0
CB A:ALA400 3.8 18.9 1.0
CB A:SER396 3.8 23.7 1.0
CD1 A:TYR388 3.9 28.5 1.0
CD1 A:ILE386 4.0 16.1 1.0
CE1 A:TYR388 4.0 36.3 1.0
N A:ALA397 4.0 20.2 1.0
CA A:ALA397 4.1 20.0 1.0
CA A:SER396 4.2 22.7 1.0
SG A:CYS350 4.2 16.8 1.0
CG2 A:ILE386 4.4 15.6 1.0
CD1 A:ILE291 4.4 26.9 1.0
CB A:ILE386 4.5 16.9 1.0
CB A:THR374 4.8 12.2 1.0
CG1 A:ILE386 4.9 18.3 1.0
CA A:ALA400 4.9 21.3 1.0
N A:ALA400 5.0 21.0 1.0
C A:ALA397 5.0 20.7 1.0

Xenon binding site 8 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 8 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 8 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe1001

b:32.3
occ:0.13
SG B:CYS468 3.3 21.7 1.0
CB B:ALA580 3.4 14.3 1.0
CG2 B:THR602 3.5 8.9 1.0
N B:ALA580 3.7 14.4 1.0
CD1 B:TRP595 3.9 11.6 1.0
CA B:GLY592 3.9 13.8 1.0
O B:HIS603 4.0 15.8 1.0
C B:SER579 4.0 14.9 1.0
CA B:ALA580 4.1 15.6 1.0
N B:SER579 4.2 13.6 1.0
N B:GLY592 4.3 14.9 1.0
CA B:SER579 4.4 14.5 1.0
CG2 B:ILE591 4.4 12.9 1.0
CB B:ALA578 4.5 10.9 1.0
O B:SER579 4.5 15.0 1.0
C B:ALA578 4.5 13.8 1.0
NE1 B:TRP595 4.5 10.7 1.0
O B:ALA578 4.8 12.0 1.0
C B:ILE591 4.8 15.1 1.0
CG B:TRP595 4.8 10.0 1.0
CB B:THR602 4.9 13.8 1.0
O B:ILE591 5.0 17.5 1.0

Xenon binding site 9 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 9 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 9 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe1002

b:25.3
occ:1.00
CG B:PRO608 3.7 16.5 1.0
CZ B:PHE632 3.8 7.6 1.0
O B:ALA589 3.8 12.9 1.0
OG1 B:THR593 3.9 16.5 1.0
CG2 B:VAL102 3.9 10.1 1.0
CB B:PRO608 4.0 12.4 1.0
CB B:ALA589 4.0 9.4 1.0
CA B:ALA589 4.1 11.6 1.0
CE1 B:PHE632 4.2 5.0 1.0
C B:ALA589 4.4 12.6 1.0
CE2 B:PHE632 4.5 7.5 1.0
CD1 B:ILE106 4.8 3.4 1.0
CG1 B:ILE106 4.9 6.8 1.0

Xenon binding site 10 out of 42 in 2z8y

Go back to Xenon Binding Sites List in 2z8y
Xenon binding site 10 out of 42 in the Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 10 of Xenon-Bound Structure of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase(Codh/Acs) From Moorella Thermoacetica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe1003

b:26.6
occ:0.56
XE B:XE1003 0.0 26.6 0.6
XE B:XE1003 2.7 25.7 0.3
CD1 B:ILE106 3.7 3.4 1.0
CD2 B:LEU620 3.7 18.5 1.0
CB B:ALA234 4.1 12.7 1.0
CG2 B:THR593 4.1 10.1 1.0
OG1 B:THR593 4.3 16.5 1.0
CG1 B:VAL102 4.4 10.9 1.0
CD1 B:LEU620 4.4 14.0 1.0
XE B:XE1004 4.5 29.9 0.9
CG1 B:VAL231 4.5 8.7 1.0
CG B:LEU620 4.7 17.1 1.0
O B:VAL231 4.9 13.7 1.0
CB B:THR593 4.9 14.5 1.0

Reference:

T.I.Doukov, L.C.Blasiak, J.Seravalli, S.W.Ragsdale, C.L.Drennan. Xenon in and at the End of the Tunnel of Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase Biochemistry V. 47 3474 2008.
ISSN: ISSN 0006-2960
PubMed: 18293927
DOI: 10.1021/BI702386T
Page generated: Wed Dec 16 02:39:45 2020

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