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2BGI
Asym. Unit
Info
Asym.Unit (56 KB)
Biol.Unit 1 (51 KB)
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(1)
Title
:
X-RAY STRUCTURE OF THE FERREDOXIN-NADP(H) REDUCTASE FROM RHODOBACTER CAPSULATUS COMPLEXED WITH THREE MOLECULES OF THE DETERGENT N-HEPTYL-BETA-D-THIOGLUCOSIDE AT 1.7 ANGSTROMS
Authors
:
J. I. Perez-Dorado, J. A. Hermoso, I. Nogues, S. Frago, C. Bittel, S. G. Mayhew, C. Gomez-Moreno, M. Medina, N. Cortez, N. Carrillo
Date
:
23 Dec 04 (Deposition) - 07 Sep 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.68
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Ferredoxin(Flavodoxin)-Nadp(H) Reductase, Flavoproteins, Electron Transfer, Rhodobacter Capsulatus, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Nogues, J. I. Perez-Dorado, S. Frago, C. Bittel, S. G. Mayhew, C. Gomez-Moreno, J. A. Hermoso, M. Medina, N. Cortez, N. Carrillo
The Ferredoxin-Nadp(H) Reductase From Rhodobacter Capsulatus: Molecular Structure And Catalytic Mechanism
Biochemistry V. 44 11730 2005
(for further references see the
PDB file header
)
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Hetero Components
(4, 7)
Info
All Hetero Components
1a: CARBON DIOXIDE (CO2a)
1b: CARBON DIOXIDE (CO2b)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
3a: HEPTYL 1-THIOHEXOPYRANOSIDE (HTGa)
3b: HEPTYL 1-THIOHEXOPYRANOSIDE (HTGb)
3c: HEPTYL 1-THIOHEXOPYRANOSIDE (HTGc)
4a: SULFATE ION (SO4a)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CO2
2
Ligand/Ion
CARBON DIOXIDE
2
FAD
1
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
HTG
3
Ligand/Ion
HEPTYL 1-THIOHEXOPYRANOSIDE
4
SO4
1
Ligand/Ion
SULFATE ION
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:158 , ARG A:195 , ARG A:203 , HOH A:2176
BINDING SITE FOR RESIDUE SO4 A1276
2
AC2
SOFTWARE
PHE A:49 , ARG A:64 , ALA A:65 , TYR A:66 , SER A:67 , TYR A:80 , SER A:81 , ILE A:82 , VAL A:84 , GLY A:87 , PRO A:88 , LEU A:89 , THR A:90 , THR A:130 , ALA A:133 , LYS A:265 , ALA A:266 , PHE A:267 , VAL A:268 , GLY A:271 , ILE A:272 , HOH A:2072 , HOH A:2245 , HOH A:2251 , HOH A:2252 , HOH A:2253 , HOH A:2254 , HOH A:2255 , HOH A:2257
BINDING SITE FOR RESIDUE FAD A1273
3
AC3
SOFTWARE
ARG A:35 , PRO A:71 , TRP A:73 , ASP A:74 , ARG A:140 , LEU A:173 , ASP A:176 , LEU A:178 , ILE A:179 , HOH A:2088 , HOH A:2258 , HOH A:2259
BINDING SITE FOR RESIDUE HTG A1274
4
AC4
SOFTWARE
PRO A:16 , LEU A:55 , GLU A:100 , GLN A:101 , HOH A:2117 , HOH A:2260
BINDING SITE FOR RESIDUE HTG A1275
5
AC5
SOFTWARE
ARG A:140 , PRO A:142 , TYR A:145 , GLU A:146 , ILE A:179 , LYS A:186
BINDING SITE FOR RESIDUE HTG A1277
6
AC6
SOFTWARE
ARG A:64 , PRO A:88 , ALA A:220 , HOH A:2262 , HOH A:2263
BINDING SITE FOR RESIDUE CO2 A1278
7
AC7
SOFTWARE
SER A:23 , ARG A:25 , SER A:33
BINDING SITE FOR RESIDUE CO2 A1279
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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, 2)
Info
All SCOP Domains
1a: SCOP_d2bgia1 (A:16-113)
2a: SCOP_d2bgia2 (A:114-272)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Riboflavin synthase domain-like
(130)
Family
:
automated matches
(37)
Protein domain
:
automated matches
(37)
Rhodobacter capsulatus [TaxId: 1061]
(7)
1a
d2bgia1
A:16-113
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ferredoxin reductase-like, C-terminal NADP-linked domain
(120)
Superfamily
:
Ferredoxin reductase-like, C-terminal NADP-linked domain
(120)
Family
:
automated matches
(36)
Protein domain
:
automated matches
(36)
Rhodobacter capsulatus [TaxId: 1061]
(7)
2a
d2bgia2
A:114-272
[
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2bgiA02 (A:113-266)
2a: CATH_2bgiA01 (A:20-106)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module
(85)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: 37b4. Variant: dsm938.
(6)
1a
2bgiA02
A:113-266
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
Translation factors
(223)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: 37b4. Variant: dsm938.
(6)
2a
2bgiA01
A:20-106
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Pfam Domains
(0, 0)
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Chain A
Asymmetric Unit 1
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