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1YIR
Biol. Unit 4
Info
Asym.Unit (274 KB)
Biol.Unit 1 (70 KB)
Biol.Unit 2 (71 KB)
Biol.Unit 3 (70 KB)
Biol.Unit 4 (71 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A NICOTINATE PHOSPHORIBOSYLTRANSFERASE
Authors
:
J. Seetharaman, S. Swaminathan, S. K. Burley, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date
:
12 Jan 05 (Deposition) - 01 Feb 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
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, Protein Structure Initiative, Hypothetical Protein, Nysgxrc, T1804, Psi, New York Sgx Research Center For Structural Genomics, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Seetharaman, S. Swaminathan
Crystal Structure Of A Nicotinate Phosphoribosyltransferase
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
1l: SULFATE ION (SO4l)
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No.
Name
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Type
Full Name
1
SO4
3
Ligand/Ion
SULFATE ION
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Sites
(3, 3)
Info
All Sites
1: BC1 (SOFTWARE)
2: BC2 (SOFTWARE)
3: BC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
BC1
SOFTWARE
ARG D:11 , ASN D:15 , HIS D:211 , HOH D:5022 , HOH D:5055 , HOH D:5057 , HOH D:5129 , HOH D:5168
BINDING SITE FOR RESIDUE SO4 D 5000
2
BC2
SOFTWARE
TYR D:22 , ALA D:225 , HIS D:226 , LEU D:262 , ARG D:287 , HOH D:5162
BINDING SITE FOR RESIDUE SO4 D 5001
3
BC3
SOFTWARE
ARG D:182 , GLY D:321 , GLY D:345 , THR D:346 , HOH D:5016 , HOH D:5217 , HOH D:5218
BINDING SITE FOR RESIDUE SO4 D 5002
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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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_d1yira2 (A:4-144)
1b: SCOP_d1yirb2 (B:3-144)
1c: SCOP_d1yirc2 (C:3-144)
1d: SCOP_d1yird2 (D:3-144)
2a: SCOP_d1yira1 (A:145-399)
2b: SCOP_d1yirb1 (B:145-399)
2c: SCOP_d1yirc1 (C:145-399)
2d: SCOP_d1yird1 (D:145-399)
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Protein Domains
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(
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)
(
)
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)
Pseudomonas aeruginosa [TaxId: 287]
(1)
1a
d1yira2
A:4-144
1b
d1yirb2
B:3-144
1c
d1yirc2
C:3-144
1d
d1yird2
D:3-144
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)
Pseudomonas aeruginosa [TaxId: 287]
(1)
2a
d1yira1
A:145-399
2b
d1yirb1
B:145-399
2c
d1yirc1
C:145-399
2d
d1yird1
D:145-399
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1yirA00 (A:3-399)
1b: CATH_1yirB00 (B:3-399)
1c: CATH_1yirC00 (C:3-399)
1d: CATH_1yirD00 (D:3-399)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
nicotinate phosphoribosyltransferase
(4)
Homologous Superfamily
:
nicotinate phosphoribosyltransferase
(4)
Pseudomonas aeruginosa. Organism_taxid: 287.
(1)
1a
1yirA00
A:3-399
1b
1yirB00
B:3-399
1c
1yirC00
C:3-399
1d
1yirD00
D:3-399
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_NAPRTase_1yirD01 (D:173-399)
1b: PFAM_NAPRTase_1yirD02 (D:173-399)
1c: PFAM_NAPRTase_1yirD03 (D:173-399)
1d: PFAM_NAPRTase_1yirD04 (D:173-399)
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Clan
:
TIM_barrel
(694)
Family
:
NAPRTase
(3)
Pseudomonas aeruginosa
(1)
1a
NAPRTase-1yirD01
D:173-399
1b
NAPRTase-1yirD02
D:173-399
1c
NAPRTase-1yirD03
D:173-399
1d
NAPRTase-1yirD04
D:173-399
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Asymmetric Unit 1
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Asym.Unit (274 KB)
Header - Asym.Unit
Biol.Unit 1 (70 KB)
Header - Biol.Unit 1
Biol.Unit 2 (71 KB)
Header - Biol.Unit 2
Biol.Unit 3 (70 KB)
Header - Biol.Unit 3
Biol.Unit 4 (71 KB)
Header - Biol.Unit 4
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