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Chlorine in PDB 1lvw: Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp

Enzymatic activity of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp

All present enzymatic activity of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp:
2.7.7.24;

Protein crystallography data

The structure of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp, PDB code: 1lvw was solved by A.Dong, D.Christendat, E.F.Pai, Northeast Structural Genomics Consortium(Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.52 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 112.680, 115.880, 116.910, 90.00, 90.00, 90.00
R / Rfree (%) 18.7 / 21.5

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp (pdb code 1lvw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp, PDB code: 1lvw:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 1lvw

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Chlorine binding site 1 out of 5 in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl4001

b:17.5
occ:1.00
 O A:HOH1053 3.1 19.8 1.0
OG1 A:THR198 3.1 16.9 1.0
O A:HOH1149 3.1 16.2 1.0
ND2 A:ASN201 3.2 13.1 1.0
CA A:THR198 3.6 14.2 1.0
CB A:THR198 3.7 15.7 1.0
CG2 A:THR198 3.9 16.4 1.0
CG1 A:VAL170 3.9 8.6 1.0
N A:THR198 4.1 13.5 1.0
CG2 A:ILE157 4.2 16.1 1.0
CD1 A:ILE157 4.2 15.9 1.0
CG A:ASN201 4.3 12.5 1.0
CG2 A:ILE197 4.4 13.3 1.0
CB A:ASN201 4.4 9.7 1.0
O A:HOH1663 4.5 46.0 1.0
C A:ILE197 4.5 12.0 1.0
O A:ILE197 4.6 11.5 1.0
CE2 A:TYR174 4.6 11.3 1.0
CB A:VAL170 4.6 11.6 1.0
OE2 A:GLU159 4.8 19.8 1.0
C A:THR198 4.8 14.3 1.0
CG2 A:VAL170 5.0 10.5 1.0

Chlorine binding site 2 out of 5 in 1lvw

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Chlorine binding site 2 out of 5 in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl4002

b:16.4
occ:1.00
 O B:HOH1151 3.1 18.7 1.0
OG1 B:THR198 3.1 13.3 0.5
O B:HOH1084 3.1 16.0 1.0
ND2 B:ASN201 3.2 11.4 1.0
CA B:THR198 3.6 13.9 0.5
CG2 B:THR198 3.6 16.2 0.5
CA B:THR198 3.7 15.1 0.5
CB B:THR198 3.8 14.8 0.5
CD1 B:ILE157 4.0 14.8 1.0
CG2 B:THR198 4.1 12.7 0.5
CG1 B:VAL170 4.1 12.2 1.0
CG2 B:ILE157 4.1 12.6 1.0
CB B:THR198 4.1 16.9 0.5
CG B:ASN201 4.2 12.2 1.0
N B:THR198 4.2 13.8 0.5
CB B:ASN201 4.2 12.2 1.0
N B:THR198 4.3 14.4 0.5
O B:HOH1512 4.5 38.8 1.0
CG2 B:ILE197 4.5 13.4 1.0
O B:ILE197 4.6 13.2 1.0
C B:ILE197 4.7 12.9 1.0
CE2 B:TYR174 4.8 11.8 1.0
CB B:VAL170 4.8 11.2 1.0
C B:THR198 4.8 15.0 0.5
C B:THR198 4.8 14.4 0.5
O B:HOH1167 4.9 21.5 1.0
O B:THR198 4.9 14.0 0.5
O B:THR198 4.9 13.5 0.5
CG2 B:VAL170 5.0 11.1 1.0
CG1 B:ILE157 5.0 14.4 1.0

Chlorine binding site 3 out of 5 in 1lvw

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Chlorine binding site 3 out of 5 in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl4003

b:26.8
occ:1.00
 O C:HOH1250 3.0 30.2 1.0
O C:HOH1247 3.1 26.3 1.0
ND2 C:ASN201 3.2 20.5 1.0
CG2 C:THR198 3.2 25.9 1.0
CA C:THR198 3.6 25.2 1.0
CB C:THR198 3.9 26.3 1.0
CG2 C:ILE157 4.0 23.8 1.0
CG C:ASN201 4.1 19.0 1.0
CG1 C:VAL170 4.2 18.2 1.0
N C:THR198 4.2 21.9 1.0
CB C:ASN201 4.2 21.6 1.0
CD1 C:ILE157 4.3 23.3 1.0
CG2 C:ILE197 4.4 21.4 1.0
C C:ILE197 4.6 21.2 1.0
O C:ILE197 4.6 21.4 1.0
CE2 C:TYR174 4.7 19.1 1.0
OE2 C:GLU159 4.7 31.9 1.0
CB C:VAL170 4.7 18.3 1.0
C C:THR198 4.8 25.9 1.0
CG2 C:VAL170 4.9 17.8 1.0
O C:THR198 5.0 25.1 1.0

Chlorine binding site 4 out of 5 in 1lvw

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Chlorine binding site 4 out of 5 in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl4005

b:24.6
occ:1.00
 O A:HOH1444 3.0 34.3 1.0
O A:HOH1186 3.2 23.8 1.0
CE1 C:HIS291 3.3 23.8 1.0
NE2 C:HIS291 3.6 23.0 1.0
CD A:LYS165 3.7 18.3 1.0
CA A:LYS165 4.0 14.5 1.0
O A:PRO164 4.1 17.2 1.0
CB A:LYS165 4.5 14.2 1.0
O A:HOH1399 4.5 30.5 1.0
ND1 C:HIS291 4.6 23.7 1.0
O A:LYS165 4.6 17.3 1.0
CE A:LYS165 4.7 18.9 1.0
CG A:LYS165 4.7 15.1 1.0
C A:LYS165 4.7 14.9 1.0
C A:PRO164 4.9 16.3 1.0
N A:LYS165 4.9 14.9 1.0
CD2 C:HIS291 4.9 22.9 1.0

Chlorine binding site 5 out of 5 in 1lvw

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Chlorine binding site 5 out of 5 in the Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl4004

b:44.8
occ:1.00
 OD1 D:ASN201 3.1 29.6 1.0
CG2 D:THR198 3.3 35.9 1.0
O D:HOH1728 3.4 45.0 1.0
CA D:THR198 3.6 34.6 1.0
CG D:ASN201 3.9 31.5 1.0
CB D:THR198 3.9 35.7 1.0
CB D:ASN201 3.9 31.6 1.0
N D:THR198 4.1 33.0 1.0
CG1 D:VAL170 4.2 21.5 1.0
CG2 D:ILE157 4.2 32.1 1.0
CD1 D:ILE157 4.3 32.8 1.0
CG2 D:ILE197 4.4 32.5 1.0
O D:ILE197 4.4 32.5 1.0
C D:ILE197 4.5 33.1 1.0
OE2 D:GLU159 4.7 45.7 1.0
CB D:VAL170 4.7 21.7 1.0
C D:THR198 4.7 34.7 1.0
CE2 D:TYR174 4.8 22.3 1.0
O D:THR198 4.8 34.0 1.0
CG2 D:VAL170 4.9 21.3 1.0

Reference:

A.Dong, D.Christendat, E.F.Pai. Crystal Structure of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex with Dtdp To Be Published.
Page generated: Sat Dec 12 08:42:02 2020

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