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3IEB
Biol. Unit 3
Info
Asym.Unit (201 KB)
Biol.Unit 1 (74 KB)
Biol.Unit 2 (77 KB)
Biol.Unit 3 (77 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 3-KETO-L-GULONATE-6-PHOSPHATE DECARBOXYLASE FROM VIBRIO CHOLERAE O1 BIOVAR EL TOR STR. N16961
Authors
:
B. Nocek, N. Maltseva, J. Osipiuk, J. Stam, W. Anderson, A. Joachimiak
Date
:
22 Jul 09 (Deposition) - 18 Aug 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,E (1x)
Biol. Unit 3: D (2x)
Keywords
:
3-Keto-L-Gulonate-6-Phosphate Decarboxylase, Ulad, Csgid, Niaid, Structural Genomics, National Institute Of Allergy And Infectious Diseases (Niaid), Center For Structural Genomics Of Infectious Diseases, Biosynthetic Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Nocek, N. Maltseva, J. Osipiuk, J. Stam, W. Anderson, A. Joachimiak
Crystal Structure Of 3-Keto-L-Gulonate-6-Phosphate Decarboxylase From Vibrio Cholerae O1 Biovar El Tor Str. N16961
To Be Published
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
2a: SELENOMETHIONINE (MSEa)
2aa: SELENOMETHIONINE (MSEaa)
2ab: SELENOMETHIONINE (MSEab)
2ac: SELENOMETHIONINE (MSEac)
2ad: SELENOMETHIONINE (MSEad)
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)
2y: SELENOMETHIONINE (MSEy)
2z: SELENOMETHIONINE (MSEz)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
4
Ligand/Ion
GLYCEROL
2
MSE
12
Mod. Amino Acid
SELENOMETHIONINE
3
SO4
8
Ligand/Ion
SULFATE ION
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Sites
(6, 6)
Info
All Sites
1: BC8 (SOFTWARE)
2: BC9 (SOFTWARE)
3: CC1 (SOFTWARE)
4: CC2 (SOFTWARE)
5: CC3 (SOFTWARE)
6: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
BC8
SOFTWARE
ARG D:51 , ASN D:56 , HIS D:57 , ASP D:82
BINDING SITE FOR RESIDUE GOL D 2001
2
BC9
SOFTWARE
ALA D:88 , ALA D:89 , ALA D:90 , ILE D:95 , TRP D:125 , HOH D:587 , HOH D:760
BINDING SITE FOR RESIDUE GOL D 2003
3
CC1
SOFTWARE
GLY D:191 , ARG D:192 , HOH D:301
BINDING SITE FOR RESIDUE SO4 D 216
4
CC2
SOFTWARE
ARG B:192 , HIS D:54 , PRO D:55 , ASN D:56 , HIS D:57 , HOH D:524 , HOH D:616
BINDING SITE FOR RESIDUE SO4 D 217
5
CC3
SOFTWARE
ASP D:67 , GLY D:68 , GLY D:69 , ALA D:70 , THR D:94 , ALA D:97 , ARG D:139 , HOH D:260 , HOH D:615
BINDING SITE FOR RESIDUE SO4 D 218
6
CC4
SOFTWARE
GLY D:170 , GLY D:171 , HOH D:286 , HOH D:540 , HOH D:541
BINDING SITE FOR RESIDUE SO4 D 219
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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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, 5)
Info
All SCOP Domains
1a: SCOP_d3ieba_ (A:)
1b: SCOP_d3iebb_ (B:)
1c: SCOP_d3iebc_ (C:)
1d: SCOP_d3iebd_ (D:)
1e: SCOP_d3iebe_ (E:)
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(
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(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Ribulose-phoshate binding barrel
(356)
Family
:
automated matches
(38)
Protein domain
:
automated matches
(38)
Vibrio cholerae [TaxId: 666]
(2)
1a
d3ieba_
A:
1b
d3iebb_
B:
1c
d3iebc_
C:
1d
d3iebd_
D:
1e
d3iebe_
E:
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CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_3iebB00 (B:2-215)
1b: CATH_3iebC00 (C:2-215)
1c: CATH_3iebE00 (E:2-215)
1d: CATH_3iebA00 (A:2-214)
1e: CATH_3iebD00 (D:3-215)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Vibrio cholerae. Organism_taxid: 666. Strain: n16961.
(2)
1a
3iebB00
B:2-215
1b
3iebC00
C:2-215
1c
3iebE00
E:2-215
1d
3iebA00
A:2-214
1e
3iebD00
D:3-215
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Pfam Domains
(0, 0)
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Sorry, no Info available
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Chain D
Asymmetric Unit 1
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Miscellaneous
Script
Example Commands
Example Command
Action
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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Show PDB file:
Asym.Unit (201 KB)
Header - Asym.Unit
Biol.Unit 1 (74 KB)
Header - Biol.Unit 1
Biol.Unit 2 (77 KB)
Header - Biol.Unit 2
Biol.Unit 3 (77 KB)
Header - Biol.Unit 3
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