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Chlorine in PDB 1yjx: Crystal Structure of Human B Type Phosphoglycerate Mutase

Enzymatic activity of Crystal Structure of Human B Type Phosphoglycerate Mutase

All present enzymatic activity of Crystal Structure of Human B Type Phosphoglycerate Mutase:
3.1.3.13; 5.4.2.1; 5.4.2.4;

Protein crystallography data

The structure of Crystal Structure of Human B Type Phosphoglycerate Mutase, PDB code: 1yjx was solved by Y.Wang, Z.Wei, L.Liu, W.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.91 / 2.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 130.534, 75.931, 186.978, 90.00, 94.42, 90.00
R / Rfree (%) 23.3 / 27.2

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Human B Type Phosphoglycerate Mutase (pdb code 1yjx). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Crystal Structure of Human B Type Phosphoglycerate Mutase, PDB code: 1yjx:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 1yjx

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Chlorine binding site 1 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


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 Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl263

b:22.2
occ:1.00
 NH2 A:ARG83 2.9 17.5 1.0
NH2 B:ARG83 3.1 18.9 1.0
NE1 A:TRP68 3.2 21.7 1.0
NE1 B:TRP68 3.2 21.8 1.0
NH1 A:ARG83 3.4 20.3 1.0
CZ A:ARG83 3.6 18.9 1.0
NH1 B:ARG83 3.6 19.7 1.0
CG2 B:VAL81 3.7 18.7 1.0
CG2 A:VAL81 3.8 17.4 1.0
CZ B:ARG83 3.8 19.2 1.0
CG1 B:VAL81 3.8 17.4 1.0
CE2 A:TRP68 4.0 22.0 1.0
CG1 A:VAL81 4.0 17.9 1.0
CD1 B:TRP68 4.1 21.1 1.0
CE2 B:TRP68 4.1 21.2 1.0
CD1 A:TRP68 4.1 22.2 1.0
CZ2 A:TRP68 4.2 20.5 1.0
CZ2 B:TRP68 4.4 21.1 1.0
CB B:VAL81 4.4 17.8 1.0
CB A:VAL81 4.6 19.2 1.0
NE A:ARG83 4.9 19.2 1.0

Chlorine binding site 2 out of 6 in 1yjx

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Chlorine binding site 2 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


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 Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl263

b:23.4
occ:1.00
 NH2 D:ARG83 2.9 20.4 1.0
NE1 D:TRP68 3.1 22.7 1.0
NH2 C:ARG83 3.1 21.1 1.0
NE1 C:TRP68 3.2 21.4 1.0
NH1 D:ARG83 3.5 22.6 1.0
NH1 C:ARG83 3.6 21.2 1.0
CZ D:ARG83 3.7 20.8 1.0
CZ C:ARG83 3.8 21.9 1.0
CG2 C:VAL81 3.8 20.7 1.0
CG2 D:VAL81 3.8 18.2 1.0
CG1 C:VAL81 3.9 18.3 1.0
CE2 D:TRP68 3.9 24.0 1.0
CD1 D:TRP68 4.0 22.5 1.0
CE2 C:TRP68 4.0 22.9 1.0
CD1 C:TRP68 4.0 22.9 1.0
CG1 D:VAL81 4.1 18.7 1.0
CZ2 D:TRP68 4.1 23.1 1.0
CZ2 C:TRP68 4.3 23.0 1.0
CB C:VAL81 4.5 19.3 1.0
CB D:VAL81 4.6 18.6 1.0
NE D:ARG83 5.0 20.3 1.0

Chlorine binding site 3 out of 6 in 1yjx

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Chlorine binding site 3 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


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 Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl263

b:31.7
occ:1.00
 NH2 F:ARG83 3.0 19.2 1.0
NH2 E:ARG83 3.1 20.5 1.0
NE1 F:TRP68 3.2 23.5 1.0
NE1 E:TRP68 3.3 24.3 1.0
NH1 F:ARG83 3.5 19.0 1.0
NH1 E:ARG83 3.5 22.2 1.0
CZ F:ARG83 3.7 19.4 1.0
CG2 F:VAL81 3.7 21.7 1.0
CZ E:ARG83 3.7 20.5 1.0
CG2 E:VAL81 3.8 19.4 1.0
CG1 E:VAL81 3.9 20.3 1.0
CG1 F:VAL81 4.0 20.8 1.0
CE2 F:TRP68 4.0 22.7 1.0
CD1 F:TRP68 4.1 22.8 1.0
CE2 E:TRP68 4.2 24.2 1.0
CD1 E:TRP68 4.2 24.5 1.0
CZ2 F:TRP68 4.3 22.6 1.0
CZ2 E:TRP68 4.4 24.3 1.0
CB F:VAL81 4.5 21.0 1.0
CB E:VAL81 4.5 21.5 1.0
NE F:ARG83 5.0 19.8 1.0

Chlorine binding site 4 out of 6 in 1yjx

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Chlorine binding site 4 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


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 Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl263

b:25.9
occ:1.00
 NH2 H:ARG83 2.9 24.6 1.0
NH2 G:ARG83 3.1 21.8 1.0
NE1 G:TRP68 3.2 22.7 1.0
NE1 H:TRP68 3.2 25.8 1.0
NH1 H:ARG83 3.5 25.0 1.0
NH1 G:ARG83 3.6 22.5 1.0
CZ H:ARG83 3.6 24.0 1.0
CG2 G:VAL81 3.7 20.2 1.0
CG2 H:VAL81 3.8 20.6 1.0
CZ G:ARG83 3.8 23.6 1.0
CG1 G:VAL81 3.8 19.9 1.0
CE2 H:TRP68 4.0 25.3 1.0
CG1 H:VAL81 4.0 19.7 1.0
CD1 G:TRP68 4.1 23.2 1.0
CE2 G:TRP68 4.1 23.1 1.0
CD1 H:TRP68 4.1 24.2 1.0
CZ2 H:TRP68 4.2 24.4 1.0
CZ2 G:TRP68 4.4 23.8 1.0
CB G:VAL81 4.4 20.5 1.0
CB H:VAL81 4.5 20.9 1.0
NE H:ARG83 4.9 21.9 1.0

Chlorine binding site 5 out of 6 in 1yjx

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Chlorine binding site 5 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


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 Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cl263

b:32.8
occ:1.00
 NH2 J:ARG83 3.0 20.3 1.0
NH2 I:ARG83 3.1 20.1 1.0
NH1 I:ARG83 3.3 19.1 1.0
NE1 J:TRP68 3.3 25.8 1.0
NH1 J:ARG83 3.4 23.9 1.0
CG2 J:VAL81 3.5 18.4 1.0
CG2 I:VAL81 3.6 21.6 1.0
NE1 I:TRP68 3.6 23.9 1.0
CZ J:ARG83 3.6 22.3 1.0
CZ I:ARG83 3.6 19.6 1.0
CG1 J:VAL81 3.8 17.6 1.0
CG1 I:VAL81 3.9 17.7 1.0
CE2 J:TRP68 4.2 25.8 1.0
CD1 J:TRP68 4.2 24.4 1.0
CB J:VAL81 4.3 20.2 1.0
CB I:VAL81 4.3 20.8 1.0
CE2 I:TRP68 4.4 23.5 1.0
CD1 I:TRP68 4.5 24.5 1.0
CZ2 J:TRP68 4.5 26.0 1.0
CZ2 I:TRP68 4.6 23.7 1.0
NE J:ARG83 4.9 21.2 1.0
NE I:ARG83 4.9 20.0 1.0

Chlorine binding site 6 out of 6 in 1yjx

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Chlorine binding site 6 out of 6 in the Crystal Structure of Human B Type Phosphoglycerate Mutase


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Human B Type Phosphoglycerate Mutase within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl263

b:21.9
occ:1.00
 NH2 L:ARG83 3.1 20.0 1.0
NH2 K:ARG83 3.1 19.8 1.0
NH1 L:ARG83 3.4 20.5 1.0
NH1 K:ARG83 3.4 21.6 1.0
NE1 L:TRP68 3.4 23.3 1.0
NE1 K:TRP68 3.4 23.9 1.0
CG2 L:VAL81 3.6 17.5 1.0
CG2 K:VAL81 3.6 18.2 1.0
CZ L:ARG83 3.7 20.5 1.0
CZ K:ARG83 3.7 21.0 1.0
CG1 K:VAL81 3.8 15.5 1.0
CG1 L:VAL81 3.8 18.2 1.0
CE2 L:TRP68 4.3 22.9 1.0
CE2 K:TRP68 4.3 23.2 1.0
CD1 K:TRP68 4.3 24.2 1.0
CB K:VAL81 4.3 19.0 1.0
CD1 L:TRP68 4.3 22.2 1.0
CB L:VAL81 4.3 18.5 1.0
CZ2 L:TRP68 4.5 22.6 1.0
CZ2 K:TRP68 4.5 21.9 1.0
NE L:ARG83 5.0 19.1 1.0

Reference:

Y.Wang, Z.Wei, L.Liu, Z.Cheng, Y.Lin, F.Ji, W.Gong. Crystal Structure of Human B-Type Phosphoglycerate Mutase Bound with Citrate. Biochem.Biophys.Res.Commun. V. 331 1207 2005.
ISSN: ISSN 0006-291X
PubMed: 15883004
DOI: 10.1016/J.BBRC.2005.03.243
Page generated: Thu Jul 10 20:41:05 2025

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