2BGI - JenaLib

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./Biol. Unit : A

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
PubMed-ID: 16128574 | Reference-DOI: 10.1021/BI0508183
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

Asymmetric Unit (7, 7)

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

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:257
 aligned with Q9L6V3_RHOCA | Q9L6V3 from UniProtKB/TrEMBL  Length:272

    Alignment length:257
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       
         Q9L6V3_RHOCA    16 PDAQTVTSVRHWTDTLFSFRVTRPQTLRFRSGEFVMIGLLDDNGKPIMRAYSIASPAWDEELEFYSIKVPDGPLTSRLQHIKVGEQIILRPKPVGTLVIDALLPGKRLWFLATGTGIAPFASLMREPEAYEKFDEVIMMHACRTVAELEYGRQLVEALQEDPLIGELVEGKLKYYPTTTREEFHHMGRITDNLASGKVFEDLGIAPMNPETDRAMVCGSLAFNVDVMKVLESYGLREGANSEPREFVVEKAFVGEGI 272
               SCOP domains d2bgia1 A:16-113 automated matches                                                                d2bgia2 A:114-272 automated matches                                                                                                                             SCOP domains
               CATH domains ----2bgiA01 A:20-106 Translation factors                                                   ------2bgiA02 A:113-266 Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module                                                                     ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..eeeeeee...........eeeeeee.....eeeeeee........eeeeeee......hhhhhh......eeeeeeeee...hhhh.....eeeeeee...hhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhhhhhhh..........eeeeeee.........hhhhhhhhhhhhhhhh........eeeeeeehhhhhhhhhhhhhh.............eeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bgi A  16 PDAQTVTSVRHWTDTLFSFRVTRPQTLRFRSGEFVMIGLLDDNGKPIMRAYSIASPAWDEELEFYSIKVPDGPLTSRLQHIKVGEQIILRPKPVGTLVIDALLPGKRLWFLATGTGIAPFASLMREPEAYEKFDEVIMMHACRTVAELEYGRQLVEALQEDPLIGELVEGKLKYYPTTTREEFHHMGRITDNLASGKVFEDLGIAPMNPETDRAMVCGSLAFNVDVMKVLESYGLREGANSEPREFVVEKAFVGEGI 272
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265

Legend:		→ Mismatch	(orange background)
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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (2, 2)

CATH Domains (2, 2)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q9L6V3_RHOCA | Q9L6V3)

molecular function
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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