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2G8Y
Asym. Unit
Info
Asym.Unit (143 KB)
Biol.Unit 1 (134 KB)
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(1)
Title
:
THE STRUCTURE OF A PUTATIVE MALATE/LACTATE DEHYDROGENASE FROM E. COLI.
Authors
:
M. E. Cuff, T. Skarina, A. Edwards, A. Savchenko, M. Cymborowski, W. Min A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date
:
03 Mar 06 (Deposition) - 25 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Malate, Lactate, Dehydrogenase, Nad, E. Coli, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. E. Cuff, T. Skarina, A. Edwards, A. Savchenko, M. Cymborowski, W. Minor, A. Joachimiak
The Structure Of A Putative Malate/Lactate Dehydrogenase From E. Coli.
To Be Published
[
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Hetero Components
(5, 37)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
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)
3a: SELENOMETHIONINE (MSEa)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
4a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
4b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
1
Ligand/Ion
PENTAETHYLENE GLYCOL
2
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
3
MSE
16
Mod. Amino Acid
SELENOMETHIONINE
4
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
5
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(21, 21)
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: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:48 , THR A:162 , ALA A:187 , PHE A:188 , GLY A:189 , NAD A:1001 , SO4 A:1007 , EDO A:1018 , EDO A:1019
BINDING SITE FOR RESIDUE SO4 A 1003
02
AC2
SOFTWARE
ARG A:6 , ARG A:323 , HOH A:1334
BINDING SITE FOR RESIDUE SO4 A 1004
03
AC3
SOFTWARE
HIS B:45 , ASP B:46 , SER B:47 , HIS B:48 , SO4 B:1008 , HOH B:1041 , HOH B:1119 , HOH B:1127 , HOH B:1444
BINDING SITE FOR RESIDUE SO4 B 1005
04
AC4
SOFTWARE
ARG B:58 , ARG B:192 , ALA B:337 , HOH B:1179 , HOH B:1224 , HOH B:1325
BINDING SITE FOR RESIDUE SO4 B 1006
05
AC5
SOFTWARE
HIS A:45 , ASP A:46 , SER A:47 , HIS A:48 , NAD A:1001 , SO4 A:1003 , HOH A:1295 , HOH A:1451
BINDING SITE FOR RESIDUE SO4 A 1007
06
AC6
SOFTWARE
HIS B:48 , PHE B:188 , GLY B:189 , NAD B:1002 , SO4 B:1005 , EDO B:1013 , HOH B:1378 , HOH B:1380 , HOH B:1422
BINDING SITE FOR RESIDUE SO4 B 1008
07
AC7
SOFTWARE
ARG B:320 , GLN B:324 , HOH B:1301
BINDING SITE FOR RESIDUE SO4 B 1009
08
AC8
SOFTWARE
ARG B:21
BINDING SITE FOR RESIDUE SO4 B 1010
09
AC9
SOFTWARE
HIS A:45 , HIS A:48 , HIS A:120 , GLY A:122 , ARG A:123 , ILE A:124 , VAL A:144 , THR A:162 , PRO A:164 , LEU A:178 , LEU A:179 , ASP A:180 , TYR A:181 , ALA A:182 , ALA A:187 , ASN A:270 , GLY A:313 , GLU A:316 , SO4 A:1003 , SO4 A:1007 , EDO A:1019 , HOH A:1023 , HOH A:1025 , HOH A:1071 , HOH A:1112 , HOH A:1138 , HOH A:1256 , HOH A:1295 , HOH A:1312 , HOH A:1347 , PHE B:153 , HIS B:234 , LYS B:235 , TYR B:237 , HOH B:1135 , HOH B:1243
BINDING SITE FOR RESIDUE NAD A 1001
10
BC1
SOFTWARE
PHE A:153 , HIS A:234 , LYS A:235 , TYR A:237 , HOH A:1130 , HIS B:45 , HIS B:48 , HIS B:120 , GLY B:122 , ARG B:123 , ILE B:124 , VAL B:144 , THR B:162 , PRO B:164 , LEU B:178 , LEU B:179 , ASP B:180 , TYR B:181 , ALA B:182 , ALA B:187 , ASN B:270 , GLY B:313 , GLU B:316 , SO4 B:1008 , EDO B:1013 , HOH B:1127 , HOH B:1134 , HOH B:1201 , HOH B:1241 , HOH B:1262 , HOH B:1306 , HOH B:1378
BINDING SITE FOR RESIDUE NAD B 1002
11
BC2
SOFTWARE
GLN A:221 , GLU A:350
BINDING SITE FOR RESIDUE EDO A 1011
12
BC3
SOFTWARE
HIS B:106 , ALA B:134 , GLY B:135 , ASN B:278 , GLU B:280 , HOH B:1034
BINDING SITE FOR RESIDUE EDO B 1012
13
BC4
SOFTWARE
HIS B:48 , HIS B:120 , MSE B:149 , THR B:162 , NAD B:1002 , SO4 B:1008 , HOH B:1374
BINDING SITE FOR RESIDUE EDO B 1013
14
BC5
SOFTWARE
ARG B:6 , GLU B:322 , ARG B:323 , HOH B:1331 , HOH B:1332 , HOH B:1432
BINDING SITE FOR RESIDUE EDO B 1014
15
BC6
SOFTWARE
GLN A:290 , LYS B:254 , HIS B:257 , GLU B:259 , THR B:260 , HOH B:1443
BINDING SITE FOR RESIDUE EDO B 1015
16
BC7
SOFTWARE
GLN A:10 , HOH A:1305 , HOH A:1396 , HOH A:1397 , HOH A:1400 , HOH A:1433
BINDING SITE FOR RESIDUE EDO A 1016
17
BC8
SOFTWARE
HIS A:154 , HOH A:1370 , HOH A:1449 , LYS B:307
BINDING SITE FOR RESIDUE EDO A 1017
18
BC9
SOFTWARE
ARG A:192 , SO4 A:1003 , HOH A:1257
BINDING SITE FOR RESIDUE EDO A 1018
19
CC1
SOFTWARE
HIS A:48 , HIS A:120 , MSE A:149 , THR A:162 , NAD A:1001 , SO4 A:1003
BINDING SITE FOR RESIDUE EDO A 1019
20
CC2
SOFTWARE
SER B:47 , GLY B:189 , ARG B:192 , HOH B:1320
BINDING SITE FOR RESIDUE EDO B 1020
21
CC3
SOFTWARE
TRP A:60 , SER A:61 , HOH A:1043 , HOH A:1342 , HOH A:1355 , HOH A:1358 , HOH A:1398 , HOH A:1418
BINDING SITE FOR RESIDUE 1PE A 1021
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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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, 2)
Info
All SCOP Domains
1a: SCOP_d2g8ya_ (A:)
1b: SCOP_d2g8yb_ (B:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
L-sulfolactate dehydrogenase-like
(12)
Superfamily
:
L-sulfolactate dehydrogenase-like
(12)
Family
:
automated matches
(5)
Protein domain
:
automated matches
(5)
Escherichia coli K-12 [TaxId: 83333]
(1)
1a
d2g8ya_
A:
1b
d2g8yb_
B:
[
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]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_2g8yA02 (A:64-281)
1b: CATH_2g8yB02 (B:64-281)
2a: CATH_2g8yB01 (B:4-63,B:310-361)
2b: CATH_2g8yA01 (A:3-63,A:310-361)
3a: CATH_2g8yA03 (A:282-309)
3b: CATH_2g8yB03 (B:282-309)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Ribosomal Protein S8; Chain: A, domain 1
(139)
Homologous Superfamily
:
Hypothetical oxidoreductase yiak; domain 2
(3)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(1)
1a
2g8yA02
A:64-281
1b
2g8yB02
B:64-281
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Hypothetical Oxidoreductase Yiak; Chain: A, domain 1
(3)
Homologous Superfamily
:
[code=1.10.1530.10, no name defined]
(3)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(1)
2a
2g8yB01
B:4-63,B:310-361
2b
2g8yA01
A:3-63,A:310-361
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
Single helix bin
(7)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(1)
3a
2g8yA03
A:282-309
3b
2g8yB03
B:282-309
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asym.Unit (143 KB)
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