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1PGJ
Asym. Unit
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Asym.Unit (158 KB)
Biol.Unit 1 (154 KB)
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(1)
Title
:
X-RAY STRUCTURE OF 6-PHOSPHOGLUCONATE DEHYDROGENASE FROM THE PROTOZOAN PARASITE T. BRUCEI
Authors
:
J. Dohnalek, C. Phillips, S. Gover, M. P. Barrett, M. J. Adams
Date
:
16 Mar 98 (Deposition) - 11 Nov 98 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.82
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Oxidoreductase, Choh(D)-Nadp+(B)
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
C. Phillips, J. Dohnalek, S. Gover, M. P. Barrett, M. J. Adams
A 2. 8 A Resolution Structure Of 6-Phosphogluconate Dehydrogenase From The Protozoan Parasite Trypanosoma Brucei: Comparison With The Sheep Enzyme Accounts For Differences In Activity With Coenzyme And Substrate Analogues.
J. Mol. Biol. V. 282 667 1998
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
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No.
Name
Count
Type
Full Name
1
SO4
4
Ligand/Ion
SULFATE ION
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:193 , SER A:261 , LYS A:262 , ARG A:289 , HOH A:542 , ARG B:453 , HIS B:459
BINDING SITE FOR RESIDUE SO4 A 505
2
AC2
SOFTWARE
ASN A:104 , LYS A:185 , ASN A:189 , HOH A:519 , HOH A:555
BINDING SITE FOR RESIDUE SO4 A 507
3
AC3
SOFTWARE
ARG A:453 , HIS A:459 , TYR B:193 , SER B:261 , LYS B:262 , ARG B:289 , HOH B:554
BINDING SITE FOR RESIDUE SO4 B 505
4
AC4
SOFTWARE
ASN B:104 , LYS B:185 , ASN B:189 , HOH B:521
BINDING SITE FOR RESIDUE SO4 B 507
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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
(1, 2)
Info
All PROSITE Patterns/Profiles
1: 6PGD (A:255-267,B:255-267)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
6PGD
PS00461
6-phosphogluconate dehydrogenase signature.
6PGD_TRYBB
256-268
2
A:255-267
B:255-267
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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.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1pgja1 (A:179-478)
1b: SCOP_d1pgjb1 (B:179-478)
2a: SCOP_d1pgja2 (A:1-178)
2b: SCOP_d1pgjb2 (B:1-178)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
6-phosphogluconate dehydrogenase C-terminal domain-like
(119)
Superfamily
:
6-phosphogluconate dehydrogenase C-terminal domain-like
(119)
Family
:
Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain
(13)
Protein domain
:
6-phosphogluconate dehydrogenase (6PGD)
(6)
Trypanosome (Trypanosoma brucei) [TaxId: 5691]
(1)
1a
d1pgja1
A:179-478
1b
d1pgjb1
B:179-478
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
:
6-phosphogluconate dehydrogenase-like, N-terminal domain
(69)
Protein domain
:
6-phosphogluconate dehydrogenase
(6)
Trypanosome (Trypanosoma brucei) [TaxId: 5691]
(1)
2a
d1pgja2
A:1-178
2b
d1pgjb2
B:1-178
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1pgjA01 (A:1-186)
1b: CATH_1pgjB01 (B:1-186)
2a: CATH_1pgjA02 (A:187-444)
2b: CATH_1pgjB02 (B:187-444)
3a: CATH_1pgjA03 (A:445-478)
3b: CATH_1pgjB03 (B:445-478)
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)
Organisms
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)
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)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Trypanosoma brucei. Organism_taxid: 5691. Strain: brucei. Variant: truc427. Cell_line: bl21.
(1)
1a
1pgjA01
A:1-186
1b
1pgjB01
B:1-186
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
(60)
Homologous Superfamily
:
N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
(59)
Trypanosoma brucei. Organism_taxid: 5691. Strain: brucei. Variant: truc427. Cell_line: bl21.
(1)
2a
1pgjA02
A:187-444
2b
1pgjB02
B:187-444
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
6-Phosphogluconate Dehydrogenase, domain 3
(20)
Trypanosoma brucei. Organism_taxid: 5691. Strain: brucei. Variant: truc427. Cell_line: bl21.
(1)
3a
1pgjA03
A:445-478
3b
1pgjB03
B:445-478
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_6PGD_1pgjB01 (B:181-475)
1b: PFAM_6PGD_1pgjB02 (B:181-475)
2a: PFAM_NAD_binding_2_1pgjB03 (B:1-177)
2b: PFAM_NAD_binding_2_1pgjB04 (B:1-177)
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Clan
:
6PGD_C
(47)
Family
:
6PGD
(10)
Trypanosoma brucei brucei
(1)
1a
6PGD-1pgjB01
B:181-475
1b
6PGD-1pgjB02
B:181-475
Clan
:
NADP_Rossmann
(1239)
Family
:
NAD_binding_2
(15)
Trypanosoma brucei brucei
(1)
2a
NAD_binding_2-1pgjB03
B:1-177
2b
NAD_binding_2-1pgjB04
B:1-177
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Asym.Unit (158 KB)
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