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(-) Description

Title :  Y94F FLAVODOXIN FROM ANABAENA
 
Authors :  A. Romero, A. Ramon, C. Fernandez-Cabrera, M. P. Irun, J. Sancho
Date :  31 Jan 03  (Deposition) - 24 Apr 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Electron Transfer, Flavoprotein, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Lostao, F. Daoudi, M. P. Irun, A. Ramon, C. Fernandez-Cabrera, A. Romero, J. Sancho
How Fmn Binds To Anabaena Apoflavodoxin: A Hydrophobic Encounter At An Open Binding Site
J. Biol. Chem. V. 278 24053 2003
PubMed-ID: 12682068  |  Reference-DOI: 10.1074/JBC.M301049200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FLAVODOXIN
    Cell Line: E.COLI JM109
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Strain: TG1
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ANABAENA SP.
    Organism Taxid: 1168
    Strain: PCC 7119

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
2SO43Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:1147 , GLN A:1148 , HOH A:2083 , HOH A:2101 , HOH A:2106 , HOH A:2134BINDING SITE FOR RESIDUE SO4 A1171
2AC2SOFTWAREGLN A:1011 , ARG A:1134 , ASN A:1135 , GLY A:1136 , HOH A:2136 , HOH A:2137 , HOH A:2138BINDING SITE FOR RESIDUE SO4 A1172
3AC3SOFTWARELYS A:1131 , HOH A:2090 , HOH A:2139 , HOH A:2140BINDING SITE FOR RESIDUE SO4 A1173
4AC4SOFTWARETHR A:1010 , GLN A:1011 , THR A:1012 , GLY A:1013 , LYS A:1014 , THR A:1015 , PRO A:1055 , THR A:1056 , TRP A:1057 , ASN A:1058 , ILE A:1059 , GLY A:1060 , THR A:1088 , GLY A:1089 , ASP A:1090 , PHE A:1094 , ASN A:1097 , PHE A:1098 , GLN A:1099 , TYR A:1119 , ARG A:1134 , ASP A:1146 , HOH A:2056BINDING SITE FOR RESIDUE FMN A1170

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OBV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1OBV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OBV)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FLAVODOXIN_LIKEPS50902 Flavodoxin-like domain profile.FLAV_NOSS15-165  1A:1004-1164
FLAV_NOSSO5-165  1A:1004-1164
2FLAVODOXINPS00201 Flavodoxin signature.FLAV_NOSS17-23  1A:1006-1022
FLAV_NOSSO7-23  1A:1006-1022

(-) Exons   (0, 0)

(no "Exon" information available for 1OBV)

(-) 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
(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:169
 aligned with FLAV_NOSS1 | P0A3D9 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSS1      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1obva_ A: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1obvA00 A:1001-1169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
               Pfam domains -----Flavodoxin_1-1obvA01 A:1006-1159                                                                                                                          ---------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.eeeee..ee...eehhhhhhhhhhhh.......eeeeeee..........hhhhhhhhhhhhhh..ee...ee...........ee..ee..eee....hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---FLAVODOXIN_LIKE  PDB: A:1004-1164 UniProt: 5-165                                                                                                                 ----- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obv A 1001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGFADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 1169
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160         


Chain A from PDB  Type:PROTEIN  Length:169
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSSO      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1obva_ A: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1obvA00 A:1001-1169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
               Pfam domains -----Flavodoxin_1-1obvA01 A:1006-1159                                                                                                                          ---------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.eeeee..ee...eehhhhhhhhhhhh.......eeeeeee..........hhhhhhhhhhhhhh..ee...ee...........ee..ee..eee....hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---FLAVODOXIN_LIKE  PDB: A:1004-1164 UniProt: 5-165                                                                                                                 ----- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obv A 1001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGFADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 1169
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Flavoprotein (71)

(-) Gene Ontology  (5, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FLAV_NOSS1 | P0A3D9)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    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.
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.

Chain A   (FLAV_NOSSO | P0A3E0)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    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: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:0010106    cellular response to iron ion starvation    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of iron ions.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        FLAV_NOSS1 | P0A3D9: 1dx9 1flv 1obo 1rcf
        FLAV_NOSSO | P0A3E0: 1dx9 1ftg 1obo 1qhe 2kqu 2v5u 2v5v 3esx 3esy 3esz

(-) Related Entries Specified in the PDB File

1dx9 W57A APOFLAVODOXIN FROM ANABAENA
1flv FLAVODOXIN
1ftg STRUCTURE OF APOFLAVODOXIN: CLOSURE OF A TYROSINE/TRYPTOPHAN AROMATIC GATE LEADS TO A COMPACT FOLD
1obo W57L FLAVODOXIN FROM ANABAENA
1qhe ENERGETICS OF A HYDROGEN BOND (CHARGED AND NEUTRAL) AND OF A CATION-PI INTERACTION IN APOFLAVODOXIN
1rcf FLAVODOXIN COMPLEXED WITH FLAVIN MONONUCLEOTIDE (FMN)