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1GLF
Asym. Unit
Info
Asym.Unit (329 KB)
Biol.Unit 1 (322 KB)
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(1)
Title
:
CRYSTAL STRUCTURES OF ESCHERICHIA COLI GLYCEROL KINASE AND THE MUTANT A65T IN AN INACTIVE TETRAMER: CONFORMATIONAL CHANGES AND IMPLICATIONS FOR ALLOSTERIC REGULATION
Authors
:
M. D. Feese, H. R. Faber, C. E. Bystrom, D. W. Pettigrew, S. J. Remington
Date
:
30 Aug 98 (Deposition) - 16 Oct 98 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.62
Chains
:
Asym. Unit : O,X,Y,Z
Biol. Unit 1: O,X,Y,Z (1x)
Keywords
:
Allostery, Cooperativity, Glycerol Kinase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. D. Feese, H. R. Faber, C. E. Bystrom, D. W. Pettigrew, S. J. Remington
Glycerol Kinase From Escherichia Coli And An Ala65-->Thr Mutant: The Crystal Structures Reveal Conformational Change With Implications For Allosteric Regulation.
Structure V. 6 1407 1998
(for further references see the
PDB file header
)
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
4
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
GOL
4
Ligand/Ion
GLYCEROL
3
PO4
2
Ligand/Ion
PHOSPHATE ION
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Sites
(11, 11)
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: PO4 (AUTHOR)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY O:233 , GLY O:234 , ARG O:236 , HOH O:624 , HOH O:652 , ASN X:228 , GLY X:233 , GLY X:234 , ARG X:236 , ASP Z:198 , ARG Z:211
BINDING SITE FOR RESIDUE PO4 O 601
02
AC2
SOFTWARE
ASP O:198 , ARG O:211 , GLY Y:233 , GLY Y:234 , ARG Y:236 , HOH Y:658 , GLY Z:233 , GLY Z:234 , ARG Z:236 , HOH Z:613
BINDING SITE FOR RESIDUE PO4 Y 602
03
AC3
SOFTWARE
THR O:13 , ARG O:17 , GLY O:266 , THR O:267 , GLY O:310 , ALA O:311 , ILE O:313 , GLN O:314 , ALA O:326 , GLY O:411 , ALA O:412 , ASN O:415 , HOH O:613 , HOH O:630 , HOH O:646
BINDING SITE FOR RESIDUE ADP O 607
04
AC4
SOFTWARE
GLY Y:12 , ARG Y:17 , GLY Y:266 , THR Y:267 , GLY Y:310 , ALA Y:311 , ALA Y:326 , GLY Y:411 , ALA Y:412 , ASN Y:415 , HOH Y:642 , HOH Y:647 , HOH Y:654
BINDING SITE FOR RESIDUE ADP Y 608
05
AC5
SOFTWARE
THR Z:13 , ARG Z:17 , GLY Z:266 , THR Z:267 , GLY Z:310 , ALA Z:311 , ALA Z:326 , TYR Z:327 , SER Z:329 , GLY Z:411 , ALA Z:412 , ASN Z:415 , HOH Z:611 , HOH Z:616 , HOH Z:621 , HOH Z:632 , HOH Z:639 , HOH Z:659
BINDING SITE FOR RESIDUE ADP Z 609
06
AC6
SOFTWARE
GLY X:12 , THR X:13 , ARG X:17 , GLY X:266 , THR X:267 , GLY X:310 , ALA X:311 , ALA X:326 , TYR X:327 , GLY X:411 , ALA X:412 , HOH X:613 , HOH X:616 , HOH X:617 , HOH X:639 , HOH X:646
BINDING SITE FOR RESIDUE ADP X 610
07
AC7
SOFTWARE
ARG O:83 , GLU O:84 , TYR O:135 , ASP O:245 , GLN O:246 , PHE O:270
BINDING SITE FOR RESIDUE GOL O 603
08
AC8
SOFTWARE
THR Y:13 , GLN Y:82 , ARG Y:83 , GLU Y:84 , TRP Y:103 , TYR Y:135 , ASP Y:245 , GLN Y:246 , HOH Y:642
BINDING SITE FOR RESIDUE GOL Y 604
09
AC9
SOFTWARE
ASN Z:81 , GLN Z:82 , ARG Z:83 , GLU Z:84 , TYR Z:135 , ASP Z:245 , GLN Z:246 , PHE Z:270
BINDING SITE FOR RESIDUE GOL Z 605
10
BC1
SOFTWARE
GLN X:82 , ARG X:83 , GLU X:84 , TRP X:103 , TYR X:135 , ASP X:245 , GLN X:246 , PHE X:270 , HOH X:639
BINDING SITE FOR RESIDUE GOL X 606
11
PO4
AUTHOR
ARG O:236 , ARG Y:236 , ARG Z:236 , ARG X:236
NULL
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: FGGY_KINASES_1 (O:135-147,X:135-147,Y:135-147,Z:13...)
2: FGGY_KINASES_2 (O:362-382,X:362-382,Y:362-382,Z: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
O:135-147
X:135-147
Y:135-147
Z:135-147
2
FGGY_KINASES_2
PS00445
FGGY family of carbohydrate kinases signature 2.
GLPK_ECOLI
363-383
4
O:362-382
X:362-382
Y:362-382
Z: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.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1glfo1 (O:2-253)
1b: SCOP_d1glfo2 (O:254-499)
1c: SCOP_d1glfx1 (X:3-253)
1d: SCOP_d1glfx2 (X:254-500)
1e: SCOP_d1glfy1 (Y:2-253)
1f: SCOP_d1glfy2 (Y:254-500)
1g: SCOP_d1glfz1 (Z:3-253)
1h: SCOP_d1glfz2 (Z:254-500)
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Protein Domains
(
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(
)
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
d1glfo1
O:2-253
1b
d1glfo2
O:254-499
1c
d1glfx1
X:3-253
1d
d1glfx2
X:254-500
1e
d1glfy1
Y:2-253
1f
d1glfy2
Y:254-500
1g
d1glfz1
Z:3-253
1h
d1glfz2
Z:254-500
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1glfO02 (O:254-499)
1b: CATH_1glfZ02 (Z:245-500)
1c: CATH_1glfX02 (X:254-494)
1d: CATH_1glfY02 (Y:245-498)
1e: CATH_1glfY01 (Y:4-244)
1f: CATH_1glfZ01 (Z:3-244)
1g: CATH_1glfX01 (X:3-253)
1h: CATH_1glfO01 (O:2-253)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.40, no name defined]
(217)
Escherichia coli. Organism_taxid: 562.
(5)
1a
1glfO02
O:254-499
1b
1glfZ02
Z:245-500
1c
1glfX02
X:254-494
1d
1glfY02
Y:245-498
1e
1glfY01
Y:4-244
1f
1glfZ01
Z:3-244
1g
1glfX01
X:3-253
1h
1glfO01
O:2-253
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Pfam Domains
(0, 0)
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all PFAM domains
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Asymmetric Unit 1
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