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(-) Description

Title :  CRYSTAL STRUCTURE OF FERREDOXIN-NADP+ OXIDOREDUCTASE FROM BACILLUS SUBTILIS (FORM I)
 
Authors :  H. Komori, D. Seo, T. Sakurai, Y. Higuchi
Date :  02 Mar 10  (Deposition) - 08 Dec 10  (Release) - 08 Dec 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ferredoxin Reductase, Fad, Nadph, Flavoprotein, Nadp, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Komori, D. Seo, T. Sakurai, Y. Higuchi
Crystal Structure Analysis Of Bacillus Subtilis Ferredoxin-Nadp(+) Oxidoreductase And The Structural Basis For Its Substrate Selectivity
Protein Sci. V. 19 2279 2010
PubMed-ID: 20878669  |  Reference-DOI: 10.1002/PRO.508

(-) Compounds

Molecule 1 - FERREDOXIN--NADP REDUCTASE 2
    Chains: A
    EC Number: 1.18.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETBLUE-1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: FERREDOXIN-NADP+ OXIDOREDUCTASE, FD-NADP+ REDUCTASE 2, FNR 2

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2NA2Ligand/IonSODIUM ION
3NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2NA-1Ligand/IonSODIUM ION
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:13 , GLY A:14 , GLY A:16 , PRO A:17 , VAL A:18 , ILE A:36 , GLU A:37 , SER A:38 , GLY A:44 , GLN A:45 , LEU A:46 , TYR A:50 , ILE A:55 , ASP A:57 , GLN A:88 , ALA A:89 , VAL A:90 , THR A:118 , ALA A:119 , GLY A:120 , GLY A:122 , ALA A:123 , PHE A:124 , GLY A:284 , ASP A:285 , LEU A:295 , ILE A:296 , HIS A:324 , SER A:325 , THR A:326 , HOH A:334 , HOH A:335 , HOH A:340 , HOH A:346 , HOH A:406BINDING SITE FOR RESIDUE FAD A 1000
2AC2SOFTWAREALA A:48 , LEU A:49 , GLU A:52 , LYS A:140 , GLY A:162 , GLY A:163 , ASP A:164 , SER A:165 , ASP A:168 , HIS A:184 , ARG A:185 , ARG A:186 , ARG A:190 , HIS A:192 , ASN A:245 , TYR A:246 , GLY A:247 , HOH A:343 , HOH A:349 , HOH A:383 , HOH A:402 , HOH A:416 , HOH A:454 , HOH A:535 , HOH A:567 , NA A:3002BINDING SITE FOR RESIDUE NAP A 2000
3AC3SOFTWARESER A:266 , ASP A:285 , HOH A:336 , HOH A:356 , HOH A:374BINDING SITE FOR RESIDUE NA A 3001
4AC4SOFTWAREHOH A:379 , HOH A:396 , HOH A:486 , HOH A:518 , NAP A:2000BINDING SITE FOR RESIDUE NA A 3002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LZW)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr A:208 -Pro A:209

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LZW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LZW)

(-) Exons   (0, 0)

(no "Exon" information available for 3LZW)

(-) Sequences/Alignments

Asymmetric 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
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:329
 aligned with FENR2_BACSU | O05268 from UniProtKB/Swiss-Prot  Length:332

    Alignment length:329
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320         
          FENR2_BACSU     1 MREDTKVYDITIIGGGPVGLFTAFYGGMRQASVKIIESLPQLGGQLSALYPEKYIYDVAGFPKIRAQELINNLKEQMAKFDQTICLEQAVESVEKQADGVFKLVTNEETHYSKTVIITAGNGAFKPRKLELENAEQYEGKNLHYFVDDLQKFAGRRVAILGGGDSAVDWALMLEPIAKEVSIIHRRDKFRAHEHSVENLHASKVNVLTPFVPAELIGEDKIEQLVLEEVKGDRKEILEIDDLIVNYGFVSSLGPIKNWGLDIEKNSIVVKSTMETNIEGFFAAGDICTYEGKVNLIASGFGEAPTAVNNAKAYMDPKARVQPLHSTSLF 329
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------Pyr_redox_2-3lzwA01 A:9-291                                                                                                                                                                                                                                                                -------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..hhhhhhhhhhhhhh...eeee......hhhhhhhh...ee........eehhhhhhhhhhhhh....eee....eeeeee.....eeeee..eeeeeeeeee.......ee......hhhhhh...ee....hhhhhh..eeeee..hhhhhhhhhhhh....eeeee........hhhhhhhhhhh..eee..eeeeeee......eeeeee.....eeeee..eeee...ee..hhhhhhh...ee..eee...........eee....ee......hhhhhhhhhhhhhhhhhhhhh........hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lzw A   1 MREDTKVYDITIIGGGPVGLFTAFYGGMRQASVKIIESLPQLGGQLSALYPEKYIYDVAGFPKIRAQELINNLKEQMAKFDQTICLEQAVESVEKQADGVFKLVTNEETHYSKTVIITAGNGAFKPRKLELENAEQYEGKNLHYFVDDLQKFAGRRVAILGGGDSAVDWALMLEPIAKEVSIIHRRDKFRAHEHSVENLHASKVNVLTPFVPAELIGEDKIEQLVLEEVKGDRKEILEIDDLIVNYGFVSSLGPIKNWGLDIEKNSIVVKSTMETNIEGFFAAGDICTYEGKVNLIASGFGEAPTAVNNAKAYMDPKARVQPLHSTSLF 329
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320
   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  (0, 0)

(no "SCOP Domain" information available for 3LZW)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LZW)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (FENR2_BACSU | O05268)
molecular function
    GO:0050661    NADP binding    Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
    GO:0004324    ferredoxin-NADP+ reductase activity    Catalysis of the reaction: reduced ferredoxin + NADP+ = oxidized ferredoxin + NADPH + H+.
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
    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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  1.18.1.2
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 Related Entries

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UniProtKB/Swiss-Prot
        FENR2_BACSU | O05268: 3lzx

(-) Related Entries Specified in the PDB File

3lzx