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2ZBT
Asym. Unit
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Asym.Unit (185 KB)
Biol.Unit 1 (533 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PYRIDOXINE BIOSYNTHESIS PROTEIN FROM THERMUS THERMOPHILUS HB8
Authors
:
M. Manzoku, A. Ebihara, Y. Fujimoto, S. Yokoyama, S. Kuramitsu, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
29 Oct 07 (Deposition) - 18 Dec 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (3x)
Keywords
:
Pyridoxine Biosynthesis, Lyase, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Manzoku, A. Ebihara, Y. Fujimoto, S. Yokoyama, S. Kuramitsu
Crystal Structure Of Pyridoxine Biosynthesis Protein From Thermus Thermophilus Hb8
To Be Published
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
1b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
1c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
1d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
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No.
Name
Count
Type
Full Name
1
MPD
4
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP C:27 , LYS C:84 , ASP C:105 , GLY C:216 , PHE C:236 , VAL C:237 , GLY C:238
BINDING SITE FOR RESIDUE MPD C 901
2
AC2
SOFTWARE
ASP D:27 , LYS D:84 , ASP D:105 , GLY D:216 , PHE D:236 , VAL D:237 , GLY D:238
BINDING SITE FOR RESIDUE MPD D 902
3
AC3
SOFTWARE
ASP A:27 , LYS A:84 , ASP A:105 , GLY A:216 , PHE A:236 , VAL A:237 , GLY A:238
BINDING SITE FOR RESIDUE MPD A 903
4
AC4
SOFTWARE
ASP B:27 , LYS B:84 , ASP B:105 , GLY B:216 , PHE B:236 , VAL B:237 , GLY B:238
BINDING SITE FOR RESIDUE MPD B 904
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: PDXS_SNZ_2 (A:12-278,B:12-278,C:12-278,D:12-27...)
2: PDXS_SNZ_1 (A:208-226,B:208-226,C:208-226,D:20...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PDXS_SNZ_2
PS51129
PdxS/SNZ family profile.
PDXS_THET8
8-293
4
A:12-278
B:12-278
C:12-278
D:12-278
2
PDXS_SNZ_1
PS01235
PdxS/SNZ family signature.
PDXS_THET8
204-222
4
A:208-226
B:208-226
C:208-226
D:208-226
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2zbta_ (A:)
1b: SCOP_d2zbtb_ (B:)
1c: SCOP_d2zbtc_ (C:)
1d: SCOP_d2zbtd_ (D:)
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Ribulose-phoshate binding barrel
(356)
Family
:
PdxS-like
(6)
Protein domain
:
automated matches
(5)
Thermus thermophilus HB8 [TaxId: 300852]
(1)
1a
d2zbta_
A:
1b
d2zbtb_
B:
1c
d2zbtc_
C:
1d
d2zbtd_
D:
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CATH Domains
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Pfam Domains
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