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4E6P
Biol. Unit 5
Info
Asym.Unit (337 KB)
Biol.Unit 1 (326 KB)
Biol.Unit 2 (165 KB)
Biol.Unit 3 (166 KB)
Biol.Unit 4 (166 KB)
Biol.Unit 5 (165 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A PROBABLE SORBITOL DEHYDROGENASE (TARGET PSI-012078) FROM SINORHIZOBIUM MELILOTI 1021
Authors
:
P. R. Kumar, S. C. Almo, New York Structural Genomics Research Con (Nysgrc)
Date
:
15 Mar 12 (Deposition) - 11 Apr 12 (Release) - 11 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,D (1x)
Biol. Unit 3: A,B (1x)
Biol. Unit 4: B,C (1x)
Biol. Unit 5: C,D (1x)
Keywords
:
Nad(P)-Binding, Structural Genomics, Psi-Biology, New York Structural Genomics Research Consortium (Nysgrc), Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. R. Kumar, N. Banu, R. Bhosle, J. Bonanno, S. Chamala, S. Chowdhury, A. Gizzi, S. Glen, J. Hammonds, B. Hillerich, J. D. Love, B. Matikainen R. Seidel, R. Toro, W. Zencheck, S. C. Almo
Crystal Structure Of A Probable Sorbitol Dehydrogenase From Sinorhizobium Meliloti 1021
To Be Published
[
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Hetero Components
(2, 21)
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)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
2x: SELENOMETHIONINE (MSEx)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
2
MSE
12
Mod. Amino Acid
SELENOMETHIONINE
3
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(12, 12)
Info
All Sites
01: AC3 (SOFTWARE)
02: BC2 (SOFTWARE)
03: BC3 (SOFTWARE)
04: BC4 (SOFTWARE)
05: BC5 (SOFTWARE)
06: BC6 (SOFTWARE)
07: BC7 (SOFTWARE)
08: BC8 (SOFTWARE)
09: BC9 (SOFTWARE)
10: CC1 (SOFTWARE)
11: CC2 (SOFTWARE)
12: CC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC3
SOFTWARE
LYS A:2 , ARG A:3 , ARG D:3
BINDING SITE FOR RESIDUE EDO A 303
02
BC2
SOFTWARE
ALA C:47 , GLY C:51 , ALA C:54 , HOH C:492 , HOH C:497 , HOH C:512
BINDING SITE FOR RESIDUE NA C 301
03
BC3
SOFTWARE
TYR C:104 , PHE C:108 , ALA C:109 , HOH C:469 , TYR D:104 , GLU D:105 , PHE D:108
BINDING SITE FOR RESIDUE EDO C 302
04
BC4
SOFTWARE
ARG C:16 , ASP C:39 , GLU C:41 , ARG C:42
BINDING SITE FOR RESIDUE EDO C 303
05
BC5
SOFTWARE
LYS C:7 , ASP C:82 , GLY C:133 , HOH C:485 , HOH C:490
BINDING SITE FOR RESIDUE EDO C 304
06
BC6
SOFTWARE
SER C:8 , ALA C:78 , GLY C:80 , LEU C:81 , ASP C:82 , GLN C:129 , ARG C:131
BINDING SITE FOR RESIDUE EDO C 305
07
BC7
SOFTWARE
ALA D:47 , GLY D:51 , ALA D:54 , EDO D:304 , HOH D:415
BINDING SITE FOR RESIDUE NA D 301
08
BC8
SOFTWARE
ASP D:92 , LEU D:93 , ALA D:94 , ILE D:99 , LEU D:149 , VAL D:150 , ALA D:151 , ILE D:152 , TYR D:153 , HOH D:426
BINDING SITE FOR RESIDUE EDO D 302
09
BC9
SOFTWARE
PRO D:218 , GLY D:253 , ASN D:254 , TRP D:255 , HOH D:437
BINDING SITE FOR RESIDUE EDO D 303
10
CC1
SOFTWARE
GLY B:6 , ALA D:47 , PRO D:52 , ALA D:54 , NA D:301 , HOH D:444
BINDING SITE FOR RESIDUE EDO D 304
11
CC2
SOFTWARE
ILE C:99 , ARG C:101 , GLN D:64 , GLN D:120 , ARG D:124
BINDING SITE FOR RESIDUE EDO D 305
12
CC3
SOFTWARE
SER C:162 , GLN C:165 , HOH C:418 , GLY D:143 , ARG D:144 , ARG D:145 , HOH D:448
BINDING SITE FOR RESIDUE EDO D 306
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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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PROSITE Patterns/Profiles
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Exons
(0, 0)
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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, 4)
Info
All SCOP Domains
1a: SCOP_d4e6pa_ (A:)
1b: SCOP_d4e6pb_ (B:)
1c: SCOP_d4e6pc_ (C:)
1d: SCOP_d4e6pd_ (D:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
automated matches
(114)
Sinorhizobium meliloti [TaxId: 266834]
(1)
1a
d4e6pa_
A:
1b
d4e6pb_
B:
1c
d4e6pc_
C:
1d
d4e6pd_
D:
[
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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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Chain C
Chain D
Asymmetric Unit 1
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Example Commands
Example Command
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (337 KB)
Header - Asym.Unit
Biol.Unit 1 (326 KB)
Header - Biol.Unit 1
Biol.Unit 2 (165 KB)
Header - Biol.Unit 2
Biol.Unit 3 (166 KB)
Header - Biol.Unit 3
Biol.Unit 4 (166 KB)
Header - Biol.Unit 4
Biol.Unit 5 (165 KB)
Header - Biol.Unit 5
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