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Biol. Unit 2
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Asym.Unit (669 KB)
Biol.Unit 1 (340 KB)
Biol.Unit 2 (330 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A HYPERACTIVE ESCHERICHIA COLI GLYCEROL KINASE MUTANT GLY230 --> ASP OBTAINED USING MICROFLUIDIC CRYSTALLIZATION DEVICES
Authors
:
M. J. Anderson, B. Delabarre, P. Dunten, A. T. Brunger, S. R. Quake
Date
:
23 Oct 08 (Deposition) - 04 Nov 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,E,G (1x)
Biol. Unit 2: C,D,F,H (1x)
Keywords
:
Glycerol Kinase, Glycerol Metabolism, Allosteric Regulation, Microfluidics, In Situ Data Collection, Atp-Binding, Kinase, Metal- Binding, Nucleotide-Binding, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. J. Anderson, B. Delabarre, A. Raghunathan, B. O. Palsson, A. T. Brunger, S. R. Quake
Crystal Structure Of A Hyperactive Escherichia Coli Glycero Kinase Mutant Gly230 --> Asp Obtained Using Microfluidic Crystallization Devices.
Biochemistry V. 46 5722 2007
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
4a: MAGNESIUM ION (MGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
4
Ligand/Ion
GLYCEROL
4
MG
-1
Ligand/Ion
MAGNESIUM ION
[
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]
Sites
(19, 19)
Info
All Sites
01: AC2 (SOFTWARE)
02: CC1 (SOFTWARE)
03: CC2 (SOFTWARE)
04: CC3 (SOFTWARE)
05: CC4 (SOFTWARE)
06: CC5 (SOFTWARE)
07: CC6 (SOFTWARE)
08: CC7 (SOFTWARE)
09: CC8 (SOFTWARE)
10: CC9 (SOFTWARE)
11: DC1 (SOFTWARE)
12: DC2 (SOFTWARE)
13: DC3 (SOFTWARE)
14: DC4 (SOFTWARE)
15: DC5 (SOFTWARE)
16: DC6 (SOFTWARE)
17: DC7 (SOFTWARE)
18: DC8 (SOFTWARE)
19: DC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
ARG A:177 , VAL A:178 , GLN A:226 , HOH A:9099 , HOH C:2663
BINDING SITE FOR RESIDUE CL A2648
02
CC1
SOFTWARE
ARG C:83 , GLU C:84 , TRP C:103 , TYR C:135 , ASP C:245 , GLN C:246 , HOH C:2775
BINDING SITE FOR RESIDUE GOL C2649
03
CC2
SOFTWARE
ARG C:177 , GLY C:225 , GLN C:226
BINDING SITE FOR RESIDUE CL C2650
04
CC3
SOFTWARE
GLU C:121 , ARG C:125 , HOH C:2690 , HOH C:2705
BINDING SITE FOR RESIDUE EDO C2651
05
CC4
SOFTWARE
TRP C:103 , GLN C:104 , ARG C:106 , PHE C:307 , THR C:349 , HOH C:2776
BINDING SITE FOR RESIDUE EDO C2652
06
CC5
SOFTWARE
HIS C:195 , LYS C:278 , ALA C:279 , TYR C:300
BINDING SITE FOR RESIDUE EDO C2653
07
CC6
SOFTWARE
ASP C:182 , TYR C:183 , THR C:184 , SER C:220 , GLY C:296 , GLU C:297
BINDING SITE FOR RESIDUE EDO C2654
08
CC7
SOFTWARE
ARG D:83 , GLU D:84 , TRP D:103 , TYR D:135 , ASP D:245 , GLN D:246 , PHE D:270 , HOH D:2709
BINDING SITE FOR RESIDUE GOL D2640
09
CC8
SOFTWARE
ARG D:177 , VAL D:178 , GLN D:226
BINDING SITE FOR RESIDUE CL D2641
10
CC9
SOFTWARE
TRP D:103 , GLN D:104 , ARG D:106 , PHE D:307 , THR D:349 , HOH D:2743
BINDING SITE FOR RESIDUE EDO D2642
11
DC1
SOFTWARE
GLU D:121 , ARG D:125 , TRP D:356 , HOH D:2671 , HOH D:2734 , HOH D:2737
BINDING SITE FOR RESIDUE EDO D2643
12
DC2
SOFTWARE
ARG F:83 , GLU F:84 , TRP F:103 , TYR F:135 , ASP F:245 , GLN F:246 , HOH F:2670
BINDING SITE FOR RESIDUE GOL F2642
13
DC3
SOFTWARE
ARG F:177 , GLN F:226
BINDING SITE FOR RESIDUE CL F2643
14
DC4
SOFTWARE
HIS F:195 , LYS F:278 , ALA F:279 , TYR F:300 , HOH F:2807
BINDING SITE FOR RESIDUE EDO F2644
15
DC5
SOFTWARE
MET F:260 , ALA F:261 , ALA F:405
BINDING SITE FOR RESIDUE EDO F2645
16
DC6
SOFTWARE
ARG H:83 , GLU H:84 , TRP H:103 , TYR H:135 , ASP H:245 , GLN H:246 , HOH H:2681
BINDING SITE FOR RESIDUE GOL H2644
17
DC7
SOFTWARE
ARG H:177 , GLN H:226
BINDING SITE FOR RESIDUE CL H2645
18
DC8
SOFTWARE
HIS H:195 , GLU H:277 , LYS H:278 , ALA H:279 , TYR H:300 , HOH H:2799
BINDING SITE FOR RESIDUE EDO H2646
19
DC9
SOFTWARE
ASP H:182 , TYR H:183 , THR H:184 , ARG H:219 , SER H:220 , ALA H:291 , GLY H:296 , GLU H:297
BINDING SITE FOR RESIDUE EDO H2647
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: FGGY_KINASES_1 (C:135-147,D:135-147,F:135-147,H:13...)
2: FGGY_KINASES_2 (C:362-382,D:362-382,F:362-382,H:36...)
;
View:
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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_ECOLI
136-148
4
-
-
C:135-147
D:135-147
-
F:135-147
-
H:135-147
2
FGGY_KINASES_2
PS00445
FGGY family of carbohydrate kinases signature 2.
GLPK_ECOLI
363-383
4
-
-
C:362-382
D:362-382
-
F:362-382
-
H:362-382
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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, 16)
Info
All SCOP Domains
1a: SCOP_d3ezwa1 (A:3-253)
1b: SCOP_d3ezwa2 (A:254-500)
1c: SCOP_d3ezwf1 (F:2-253)
1d: SCOP_d3ezwf2 (F:254-499)
1e: SCOP_d3ezwg1 (G:1-253)
1f: SCOP_d3ezwg2 (G:254-498)
1g: SCOP_d3ezwh1 (H:2-253)
1h: SCOP_d3ezwh2 (H:254-499)
1i: SCOP_d3ezwb1 (B:1-253)
1j: SCOP_d3ezwb2 (B:254-500)
1k: SCOP_d3ezwc1 (C:2-253)
1l: SCOP_d3ezwc2 (C:254-500)
1m: SCOP_d3ezwd1 (D:2-253)
1n: SCOP_d3ezwd2 (D:254-500)
1o: SCOP_d3ezwe1 (E:1-253)
1p: SCOP_d3ezwe2 (E:254-499)
View:
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Classes
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(
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Folds
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(
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Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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)
Escherichia coli [TaxId: 562]
(13)
1a
d3ezwa1
A:3-253
1b
d3ezwa2
A:254-500
1c
d3ezwf1
F:2-253
1d
d3ezwf2
F:254-499
1e
d3ezwg1
G:1-253
1f
d3ezwg2
G:254-498
1g
d3ezwh1
H:2-253
1h
d3ezwh2
H:254-499
1i
d3ezwb1
B:1-253
1j
d3ezwb2
B:254-500
1k
d3ezwc1
C:2-253
1l
d3ezwc2
C:254-500
1m
d3ezwd1
D:2-253
1n
d3ezwd2
D:254-500
1o
d3ezwe1
E:1-253
1p
d3ezwe2
E:254-499
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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