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3H3O
Biol. Unit 1
Info
Asym.Unit (323 KB)
Biol.Unit 1 (163 KB)
Biol.Unit 2 (161 KB)
Biol.Unit 3 (319 KB)
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(1)
Title
:
GLYCEROL KINASE H232R WITH ETHYLENE GLYCOL
Authors
:
J. I. Yeh, R. D. Kettering
Date
:
16 Apr 09 (Deposition) - 02 Jun 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : B,C,O,X
Biol. Unit 1: O,X (1x)
Biol. Unit 2: B,C (1x)
Biol. Unit 3: B,C,O,X (1x)
Keywords
:
Ethylene Glycol, Kinase, Atp-Binding, Glycerol Metabolism, Nucleotide-Binding, Phosphoprotein, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. I. Yeh, R. Kettering, R. Saxl, A. Bourand, E. Darbon, N. Joly, P. Briozzo, J. Deutscher
Structural Characterizations Of Glycerol Kinase: Unraveling Phosphorylation-Induced Long-Range Activation
Biochemistry V. 48 346 2009
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Hetero Components
(2, 11)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
2e: PHOSPHATE ION (PO4e)
2f: PHOSPHATE ION (PO4f)
2g: PHOSPHATE ION (PO4g)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EDO
6
Ligand/Ion
1,2-ETHANEDIOL
2
PO4
5
Ligand/Ion
PHOSPHATE ION
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG O:84 , GLU O:85 , TRP O:104 , TYR O:136 , ASP O:246 , PHE O:271
BINDING SITE FOR RESIDUE EDO O 1000
02
AC2
SOFTWARE
THR O:14 , ARG O:18 , GLY O:267 , THR O:268 , HOH O:530
BINDING SITE FOR RESIDUE PO4 O 507
03
AC3
SOFTWARE
TRP O:104 , GLN O:105 , ARG O:107 , TYR O:136 , PHE O:308 , THR O:350 , HOH O:513
BINDING SITE FOR RESIDUE PO4 O 508
04
AC4
SOFTWARE
ARG O:107 , SER O:110 , THR O:350 , SER O:359 , ARG O:362
BINDING SITE FOR RESIDUE PO4 O 509
05
AC5
SOFTWARE
ARG X:84 , GLU X:85 , TRP X:104 , TYR X:136 , ASP X:246 , PHE X:271
BINDING SITE FOR RESIDUE EDO X 1001
06
AC6
SOFTWARE
TRP X:104 , GLN X:105 , SER X:106 , ARG X:107 , PHE X:308 , THR X:350
BINDING SITE FOR RESIDUE EDO X 3125
07
AC7
SOFTWARE
TYR X:39 , ASN X:49 , ASN X:100
BINDING SITE FOR RESIDUE EDO X 3126
08
AC8
SOFTWARE
TYR X:193 , LEU X:198 , GLU X:199 , TRP X:200
BINDING SITE FOR RESIDUE EDO X 3132
09
AC9
SOFTWARE
PHE X:308 , VAL X:309 , PRO X:347 , ALA X:348 , PHE X:349 , THR X:350 , GLY X:351
BINDING SITE FOR RESIDUE EDO X 3133
10
BC1
SOFTWARE
THR X:14 , GLY X:267 , THR X:268 , HOH X:513
BINDING SITE FOR RESIDUE PO4 X 507
11
BC2
SOFTWARE
ARG X:107 , ASP X:134 , PHE X:308 , THR X:350 , GLY X:351 , LEU X:352 , GLY X:353 , TRP X:357 , ASP X:358 , SER X:359
BINDING SITE FOR RESIDUE PO4 X 508
12
BC4
SOFTWARE
ASN B:296 , LYS B:298 , LEU X:450
BINDING SITE FOR RESIDUE EDO B 3130
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: FGGY_KINASES_1 (O:136-148,X:136-148)
2: FGGY_KINASES_2 (O:363-383,X:363-383)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FGGY_KINASES_1
PS00933
FGGY family of carbohydrate kinases signature 1.
GLPK_ENTCA
136-148
2
-
-
O:136-148
X:136-148
2
FGGY_KINASES_2
PS00445
FGGY family of carbohydrate kinases signature 2.
GLPK_ENTCA
363-383
2
-
-
O:363-383
X:363-383
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d3h3ob1 (B:3-254)
1b: SCOP_d3h3ob2 (B:255-501)
1c: SCOP_d3h3oc1 (C:5-254)
1d: SCOP_d3h3oc2 (C:255-502)
1e: SCOP_d3h3oo1 (O:3-254)
1f: SCOP_d3h3oo2 (O:255-500)
1g: SCOP_d3h3ox1 (X:3-254)
1h: SCOP_d3h3ox2 (X:255-501)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Actin-like ATPase domain
(426)
Family
:
Glycerol kinase
(21)
Protein domain
:
Glycerol kinase
(21)
Enterococcus casseliflavus [TaxId: 37734]
(8)
1a
d3h3ob1
B:3-254
1b
d3h3ob2
B:255-501
1c
d3h3oc1
C:5-254
1d
d3h3oc2
C:255-502
1e
d3h3oo1
O:3-254
1f
d3h3oo2
O:255-500
1g
d3h3ox1
X:3-254
1h
d3h3ox2
X:255-501
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (323 KB)
Header - Asym.Unit
Biol.Unit 1 (163 KB)
Header - Biol.Unit 1
Biol.Unit 2 (161 KB)
Header - Biol.Unit 2
Biol.Unit 3 (319 KB)
Header - Biol.Unit 3
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