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1VLP
Biol. Unit 4
Info
Asym.Unit (305 KB)
Biol.Unit 1 (80 KB)
Biol.Unit 2 (77 KB)
Biol.Unit 3 (79 KB)
Biol.Unit 4 (77 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A PUTATIVE NICOTINATE PHOSPHORIBOSYLTRANSFERASE (YOR209C, NPT1) FROM SACCHAROMYCES CEREVISIAE AT 1.75 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
06 Aug 04 (Deposition) - 24 Aug 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. S. Chappie, J. M. Canaves, G. W. Han, C. L. Rife, Q. Xu, R. C. Stevens
The Structure Of A Eukaryotic Nicotinic Acid Phosphoribosyltransferase Reveals Structural Heterogeneity Among Type Ii Prtases.
Structure V. 13 1385 2005
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
4a: SELENOMETHIONINE (MSEa)
4aa: SELENOMETHIONINE (MSEaa)
4ab: SELENOMETHIONINE (MSEab)
4ac: SELENOMETHIONINE (MSEac)
4ad: SELENOMETHIONINE (MSEad)
4ae: SELENOMETHIONINE (MSEae)
4af: SELENOMETHIONINE (MSEaf)
4ag: SELENOMETHIONINE (MSEag)
4ah: SELENOMETHIONINE (MSEah)
4ai: SELENOMETHIONINE (MSEai)
4aj: SELENOMETHIONINE (MSEaj)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
4l: SELENOMETHIONINE (MSEl)
4m: SELENOMETHIONINE (MSEm)
4n: SELENOMETHIONINE (MSEn)
4o: SELENOMETHIONINE (MSEo)
4p: SELENOMETHIONINE (MSEp)
4q: SELENOMETHIONINE (MSEq)
4r: SELENOMETHIONINE (MSEr)
4s: SELENOMETHIONINE (MSEs)
4t: SELENOMETHIONINE (MSEt)
4u: SELENOMETHIONINE (MSEu)
4v: SELENOMETHIONINE (MSEv)
4w: SELENOMETHIONINE (MSEw)
4x: SELENOMETHIONINE (MSEx)
4y: SELENOMETHIONINE (MSEy)
4z: SELENOMETHIONINE (MSEz)
5a: PHOSPHATE ION (PO4a)
5b: PHOSPHATE ION (PO4b)
5c: PHOSPHATE ION (PO4c)
5d: PHOSPHATE ION (PO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
EDO
-1
Ligand/Ion
1,2-ETHANEDIOL
3
MES
-1
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4
MSE
9
Mod. Amino Acid
SELENOMETHIONINE
5
PO4
1
Ligand/Ion
PHOSPHATE ION
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Sites
(1, 1)
Info
All Sites
1: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC4
SOFTWARE
SER D:327 , SER D:329 , GLY D:354 , THR D:355 , HOH D:544 , HOH D:556 , HOH D:637
BINDING SITE FOR RESIDUE PO4 D 500
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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)
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1vlpa1 (A:1-149)
1b: SCOP_d1vlpb1 (B:1-149)
1c: SCOP_d1vlpc1 (C:1-149)
1d: SCOP_d1vlpd1 (D:1-149)
2a: SCOP_d1vlpa2 (A:150-415)
2b: SCOP_d1vlpb2 (B:150-415)
2c: SCOP_d1vlpc2 (C:150-415)
2d: SCOP_d1vlpd2 (D:150-415)
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Protein Domains
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
alpha/beta-Hammerhead
(191)
Superfamily
:
Nicotinate/Quinolinate PRTase N-terminal domain-like
(25)
Family
:
Monomeric nicotinate phosphoribosyltransferase N-terminal domain-like
(4)
Protein domain
:
Nicotinate phosphoribosyltransferase, N-terminal domain
(4)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(1)
1a
d1vlpa1
A:1-149
1b
d1vlpb1
B:1-149
1c
d1vlpc1
C:1-149
1d
d1vlpd1
D:1-149
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Nicotinate/Quinolinate PRTase C-terminal domain-like
(25)
Family
:
Monomeric nicotinate phosphoribosyltransferase C-terminal domain
(4)
Protein domain
:
Nicotinate phosphoribosyltransferase, C-terminal domain
(4)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(1)
2a
d1vlpa2
A:150-415
2b
d1vlpb2
B:150-415
2c
d1vlpc2
C:150-415
2d
d1vlpd2
D:150-415
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1vlpD00 (D:0-415)
1b: CATH_1vlpA00 (A:-2-415)
1c: CATH_1vlpC00 (C:-1-416)
1d: CATH_1vlpB00 (B:2-419)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
nicotinate phosphoribosyltransferase
(4)
Homologous Superfamily
:
nicotinate phosphoribosyltransferase
(4)
Baker's yeast (Saccharomyces cerevisiae)
(1)
1a
1vlpD00
D:0-415
1b
1vlpA00
A:-2-415
1c
1vlpC00
C:-1-416
1d
1vlpB00
B:2-419
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_NAPRTase_1vlpD01 (D:172-415)
1b: PFAM_NAPRTase_1vlpD02 (D:172-415)
1c: PFAM_NAPRTase_1vlpD03 (D:172-415)
1d: PFAM_NAPRTase_1vlpD04 (D:172-415)
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Clan
:
TIM_barrel
(694)
Family
:
NAPRTase
(3)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(1)
1a
NAPRTase-1vlpD01
D:172-415
1b
NAPRTase-1vlpD02
D:172-415
1c
NAPRTase-1vlpD03
D:172-415
1d
NAPRTase-1vlpD04
D:172-415
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Asymmetric Unit 1
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Asym.Unit (305 KB)
Header - Asym.Unit
Biol.Unit 1 (80 KB)
Header - Biol.Unit 1
Biol.Unit 2 (77 KB)
Header - Biol.Unit 2
Biol.Unit 3 (79 KB)
Header - Biol.Unit 3
Biol.Unit 4 (77 KB)
Header - Biol.Unit 4
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