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(-) Description

Title :  FERREDOXIN-NADP+ REDUCTASE FROM PLASMODIUM FALCIPARUM
 
Authors :  M. Milani, E. Mastrangelo, M. Bolognesi
Date :  16 Jan 07  (Deposition) - 13 Feb 07  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Disulfide-Stabilized Dimer, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Milani, E. Balconi, A. Aliverti, E. Mastrangelo, F. Seeber, M. Bolognesi, G. Zanetti
Ferredoxin-Nadp(+) Reductase From Plasmodium Falciparum Undergoes Nadp(+)-Dependent Dimerization And Inactivation: Functional And Crystallographic Analysis.
J. Mol. Biol. V. 367 501 2007
PubMed-ID: 17258767  |  Reference-DOI: 10.1016/J.JMB.2007.01.005

(-) Compounds

Molecule 1 - PUTATIVE FERREDOXIN--NADP REDUCTASE
    ChainsA, B, C, D
    EC Number1.18.1.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneORF PFF1115W
    Organism ScientificPLASMODIUM FALCIPARUM 3D7
    Organism Taxid36329
    StrainISOLATE 3D7
    SynonymFERREDOXIN--NADP REDUCTASE, PUTATIVE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1FAD4Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2FLC2Ligand/IonCITRATE ANION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2FLC2Ligand/IonCITRATE ANION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2FLC-1Ligand/IonCITRATE ANION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:267 , HIS A:300 , TYR B:218 , TYR B:248 , LYS B:249 , GLN B:250 , HOH B:9022 , HOH B:9066 , HOH B:9070 , HOH B:9075 , HOH B:9077 , PHE C:257 , TYR C:258 , TYR D:264BINDING SITE FOR RESIDUE FLC B 9001
2AC2SOFTWAREASN A:275 , ASN A:276 , LYS A:278 , GLU B:220 , LEU B:226 , GLU B:230 , TYR B:244 , PHE B:246 , HOH B:9044BINDING SITE FOR RESIDUE FLC A 9002
3AC3SOFTWAREARG A:101 , LEU A:102 , TYR A:103 , SER A:104 , ALA A:117 , ILE A:118 , LYS A:119 , HIS A:121 , TYR A:123 , GLY A:136 , TYR A:137 , CYS A:138 , SER A:139 , THR A:180 , TYR A:316 , HOH A:9006 , HOH A:9008 , HOH A:9013 , HOH A:9018 , HOH A:9029 , LYS B:13BINDING SITE FOR RESIDUE FAD A 415
4AC4SOFTWARELYS A:13 , ARG B:101 , LEU B:102 , TYR B:103 , SER B:104 , ALA B:117 , ILE B:118 , LYS B:119 , HIS B:121 , TYR B:123 , GLY B:136 , TYR B:137 , CYS B:138 , SER B:139 , THR B:180 , GLU B:314 , TYR B:316 , HOH B:9003 , HOH B:9004 , HOH B:9008 , HOH B:9011 , HOH B:9034 , HOH B:9038 , HOH B:9080BINDING SITE FOR RESIDUE FAD B 415
5AC5SOFTWARETHR C:53 , ARG C:101 , LEU C:102 , TYR C:103 , SER C:104 , ALA C:117 , ILE C:118 , LYS C:119 , HIS C:121 , TYR C:123 , GLY C:136 , TYR C:137 , CYS C:138 , SER C:139 , THR C:180 , TYR C:316 , HOH C:416 , HOH C:417 , HOH C:419 , HOH C:428 , HOH C:432 , HOH C:470 , LYS D:13BINDING SITE FOR RESIDUE FAD C 415
6AC6SOFTWARELYS C:13 , ARG D:101 , LEU D:102 , TYR D:103 , SER D:104 , ALA D:117 , ILE D:118 , LYS D:119 , HIS D:121 , TYR D:123 , GLY D:136 , TYR D:137 , CYS D:138 , SER D:139 , THR D:180 , TYR D:316 , HOH D:416 , HOH D:417 , HOH D:420 , HOH D:421BINDING SITE FOR RESIDUE FAD D 415

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:99 -B:99
2C:99 -D:99

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:155 -Ala A:156
2Gly D:155 -Ala D:156

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OK8)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FAD_FRPS51384 Ferredoxin reductase-type FAD binding domain profile.FENR_PLAF768-218
 
 
 
  4A:13-163
B:13-163
C:13-163
D:13-163
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FAD_FRPS51384 Ferredoxin reductase-type FAD binding domain profile.FENR_PLAF768-218
 
 
 
  2A:13-163
B:13-163
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FAD_FRPS51384 Ferredoxin reductase-type FAD binding domain profile.FENR_PLAF768-218
 
 
 
  2-
-
C:13-163
D:13-163

(-) Exons   (0, 0)

(no "Exon" information available for 2OK8)

(-) 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:263
 aligned with FENR_PLAF7 | C6KT68 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:312
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369  
           FENR_PLAF7    60 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNELDNNPNNQINKDHNIINTTNHTNHNNIALSHIKKQRCARLYSISSSNNMENLSVAIKIHKYEQTENAPNITNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYDKNNLYNRNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 371
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee.........eeeeeee...........eeee......-----------------------------------...eeee.........eeeeee..ee.--------.eehhhhhhhhhh....eeeeeeee.......hhhhhh..eeeeee...hhhhhhhhhhhh...------........eeeeeee.hhhhh.hhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhh..hhhhhh.eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------FAD_FR  PDB: A:13-163 UniProt: 68-218                                                                                                                  --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ok8 A   5 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNE-----------------------------------RCARLYSISSSNNMENLSVAIKIHKYE--------TNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYD------RNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 316
                                    14        24        34        44        54       | -         -         -         -   |   104       114       124       134       144       154       164       174       184       194 |     204       214       224       234       244       254       264       274       284       294       304       314  
                                                                                    62                                  98                       124      133                                                            196    203                                                                                                                 

Chain B from PDB  Type:PROTEIN  Length:262
 aligned with FENR_PLAF7 | C6KT68 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:312
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369  
           FENR_PLAF7    60 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNELDNNPNNQINKDHNIINTTNHTNHNNIALSHIKKQRCARLYSISSSNNMENLSVAIKIHKYEQTENAPNITNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYDKNNLYNRNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 371
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee.........eeeeeee...........eeee.......----------------------------------...eeee.........eeeeee..ee..------..eehhhhhhhhhh....eeeeeeee...............eeeeee...hhhhhhhhhhhh.----------......eeeeeee.hhhhh.hhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhh.......hhh.eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------FAD_FR  PDB: B:13-163 UniProt: 68-218                                                                                                                  --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ok8 B   5 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNEL----------------------------------RCARLYSISSSNNMENLSVAIKIHKYEQ------ITNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFA----------SNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 316
                                    14        24        34        44        54        |-         -         -         -   |   104       114       124|      134       144       154       164       174       184       194         -|      214       224       234       244       254       264       274       284       294       304       314  
                                                                                     63                                 98                        125    132                                                           194        205                                                                                                               

Chain C from PDB  Type:PROTEIN  Length:257
 aligned with FENR_PLAF7 | C6KT68 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:312
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369  
           FENR_PLAF7    60 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNELDNNPNNQINKDHNIINTTNHTNHNNIALSHIKKQRCARLYSISSSNNMENLSVAIKIHKYEQTENAPNITNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYDKNNLYNRNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 371
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee.........eeeeeee...........eeee.....------------------------------------...eeee.........eeeeee.....--------...hhhhhhhhhh....eeeeeeee.......hhhhhh..eeeeee...hhhhhhhhhhhh..--------.......eeeeeee.hhhhh.hhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhh.---....hhh.eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------FAD_FR  PDB: C:13-163 UniProt: 68-218                                                                                                                  --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ok8 C   5 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYN------------------------------------RCARLYSISSSNNMENLSVAIKIHKYE--------TNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAY--------NSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKS---FDEKKKKRVHVEVY 316
                                    14        24        34        44        54      |  -         -         -         -   |   104       114       124       134       144       154       164       174       184       194|      204       214       224       234       244       254       264       274       284       294    |  304       314  
                                                                                   61                                   98                       124      133                                                           195      204                                                                                            299 303             

Chain D from PDB  Type:PROTEIN  Length:261
 aligned with FENR_PLAF7 | C6KT68 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:312
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369  
           FENR_PLAF7    60 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNELDNNPNNQINKDHNIINTTNHTNHNNIALSHIKKQRCARLYSISSSNNMENLSVAIKIHKYEQTENAPNITNYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYDKNNLYNRNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILKSHDQFDEKKKKRVHVEVY 371
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee.........eeeeeee...........eeee......-----------------------------------...eeee.........eeeeee....----------..hhhhhhhhhh....eeeeeeee.......hhhhhh..eeeeee...hhhhhhhhhhhh...---...........eeeeeee.hhhhh.hhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeehhhhhhhhhhhh---.....hhh.eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------FAD_FR  PDB: D:13-163 UniProt: 68-218                                                                                                                  --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ok8 D   5 NFINLYTVKNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNE-----------------------------------RCARLYSISSSNNMENLSVAIKIHKY----------NYGYCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNFIFIATGTGISPYISFLKKLFAYD---LYNRNSNYTGYITIYYGVYNEDSILYLNELEYFQKMYPNNINIHYVFSYKQNSDATSFYVQDEIYKRKTEFLNLFNNYKCELYICGHKSIRYKVMDILK---QFDEKKKKRVHVEVY 316
                                    14        24        34        44        54       | -         -         -         -   |   104       114        |-       134       144       154       164       174       184       194 |   | 204       214       224       234       244       254       264       274       284       294   |   304       314  
                                                                                    62                                  98                      123        134                                                           196 200                                                                                               298 302              

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 2OK8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OK8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2OK8)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (FENR_PLAF7 | C6KT68)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0008937    ferredoxin-NAD(P) reductase activity    Catalysis of the reaction: reduced ferredoxin + NAD(P)+ = oxidized ferredoxin + NAD(P)H + H+.
    GO:0004324    ferredoxin-NADP+ reductase activity    Catalysis of the reaction: reduced ferredoxin + NADP+ = oxidized ferredoxin + NADPH + H+.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
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.
cellular component
    GO:0020011    apicoplast    The plastid organelle found in apicomplexans.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FENR_PLAF7 | C6KT682ok7 3jqp 3jqq 3jqr

(-) Related Entries Specified in the PDB File

2ok7