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(-) Description

Title :  CRYSTAL STRUCTURE OF AN APO FORM OF A FLAVIN-BINDING PROTEIN FROM SHIGELLA FLEXNERI
 
Authors :  I. I. Vorontsov, G. Minasov, J. S. Brunzelle, L. Shuvalova, F. R. Collar A. Joachimiak, W. F. Anderson, Midwest Center For Structural Gen (Mcsg)
Date :  10 Feb 06  (Deposition) - 21 Feb 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  A,B,C,D  (2x)
Biol. Unit 3:  A (2x),B (2x),C (2x),D (2x)
Keywords :  Flavin Binding Protein, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. I. Vorontsov, G. Minasov, J. S. Brunzelle, L. Shuvalova, O. Kiryukhina, F. R. Collart, W. F. Anderson
Crystal Structure Of An Apo Form Of Shigella Flexneri Arsh Protein With An Nadph-Dependent Fmn Reductase Activity
Protein Sci. V. 16 2483 2007
PubMed-ID: 17962405  |  Reference-DOI: 10.1110/PS.073029607

(-) Compounds

Molecule 1 - PUTATIVE ARSENICAL RESISTANCE PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21-DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: AAP17869
    Organism Scientific: SHIGELLA FLEXNERI 2A
    Organism Taxid: 198215
    Strain: 2457T

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (2x): ABCD
Biological Unit 3 (2x): A (2x)B (2x)C (2x)D (2x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2CL2Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:10 , HOH A:289 , HOH A:409 , HOH A:609BINDING SITE FOR RESIDUE CA A 256
2AC2SOFTWAREGLN A:150 , SER A:175 , ARG A:197 , HOH A:353 , HOH A:367BINDING SITE FOR RESIDUE CL A 257
3AC3SOFTWAREARG A:159 , HOH A:279 , HOH A:315 , ARG C:159 , HOH C:461BINDING SITE FOR RESIDUE CL A 258

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FZV)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric Unit
No.Residues
1Ala A:0 -Met A:1
2Ala A:32 -Pro A:33
3Val A:232 -Ile A:233
4Ala B:32 -Pro B:33
5Ala C:32 -Pro C:33
6Ala D:32 -Pro D:33
7Ser D:241 -Ile D:242

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2FZV)

(-) Exons   (0, 0)

(no "Exon" information available for 2FZV)

(-) 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:235
 aligned with ARREH_SHIFL | Q7UC03 from UniProtKB/Swiss-Prot  Length:255

    Alignment length:235
                              1                                                                                                                                                                                                                                        
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228     
          ARREH_SHIFL     - --MRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVI 233
               SCOP domains --d2fzva1 A:1-233 Putative arsenical resistance protein                                                                                                                                                                                     SCOP domains
               CATH domains 2fzvA00 A:-1-233  [code=3.40.50.360, no name defined]                                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................................eeeeee......hhhhhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhh.eeeeeeeee..eehhhhhhhhhhh.............eeeeeee......hhhhhhhhhhhhhh..ee....eee.hhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fzv A  -1 NAMRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVI 233
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228     


Chain B from PDB  Type:PROTEIN  Length:247
 aligned with ARREH_SHIFL | Q7UC03 from UniProtKB/Swiss-Prot  Length:255

    Alignment length:247
                             1                                                                                                                                                                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       
          ARREH_SHIFL     - -MRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVIDEATDLSSIAIAP 246
               SCOP domains d2fzvb_ B: Putative arsenical resistance protein                                                                                                                                                                                                        SCOP domains
               CATH domains 2fzvB00 B:0-246  [code=3.40.50.360, no name defined]                                                                                                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................................eeeeee......hhhhhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhh.eeeeee.ee..eehhhhhhhhhh..............eeeeeee......hhhhhhhhhhhhhh..ee....eee.hhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhh...hhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fzv B   0 AMRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVIDEATDLSSIAIAP 246
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       


Chain C from PDB  Type:PROTEIN  Length:236
 aligned with ARREH_SHIFL | Q7UC03 from UniProtKB/Swiss-Prot  Length:255

    Alignment length:240
                                     1                                                                                                                                                                                                                                      
                                     1        11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231
          ARREH_SHIFL     - ---------MRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGH 231
               SCOP domains d2fzvc_ C: Putative arsenical resistance protein                                                                                                                                                                                                 SCOP domains
               CATH domains 2fzvC00 C:-8-231  [code=3.40.50.360, no name defined]                                                                                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............................................eeeeee......hhhhhhhhhhhhhhhhh..eeee................hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhh...----.......eeeeeee......hhhhhhhhhhhhhh..ee....eee.hhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2fzv C  -8 ENLYFQSNAMRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPL----IRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGH 231
                                     1        11        21        31        41        51        61        71        81        91       101       111       121     |   -|      141       151       161       171       181       191       201       211       221       231
                                                                                                                                                                 127  132                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:236
 aligned with ARREH_SHIFL | Q7UC03 from UniProtKB/Swiss-Prot  Length:255

    Alignment length:242
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240  
          ARREH_SHIFL     1 MRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLPLEMAGIRPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVIDEATDLSSI 242
               SCOP domains d2fzvd_ D: Putative arsenical resistance protein                                                                                                                                                                                                   SCOP domains
               CATH domains 2fzvD00 D:1-242  [code=3.40.50.360, no name defined]                                                                                                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................................eeeeee......hhhhhhhhhhhhhhhhh..eeee................hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh------hhhh..eeeeeee......hhhhhhhhhhhhhh..ee....eee.hhhhhh........hhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fzv D   1 MRLRHLSDPDSLPALDKSFAIERPALGLAPDAPPVRILLLYGSLRARSFSRLAVEEAARLLQFFGAETRIFDPSDLPLPDQVQSDDHPAVKELRALSEWSEGQVWCSPERHGQITSVMKAQIDHLP------RPTQGRTLAVMQVSGGSQSFNAVNTLRLLGRWMRMFTIPNQSSIAKAFQEFDAAGRMKPSPYYDRIADVMEELVRFTALVRPHREALTDRYSERKAAGHVIDEATDLSSI 242
                                    10        20        30        40        50        60        70        80        90       100       110       120     |   -  |    140       150       160       170       180       190       200       210       220       230       240  
                                                                                                                                                       126    133
   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, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (ARREH_SHIFL | Q7UC03)
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:0052873    FMN reductase (NADPH) activity    Catalysis of the reaction: FMNH2 + NADP+ = FMN + NADPH + 2 H+.
    GO:0050446    azobenzene reductase activity    Catalysis of the reaction: N,N-dimethyl-1,4-phenylenediamine + aniline + NADP+ = 4-(dimethylamino)azobenzene + NADPH + H+.
    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.
    GO:0051289    protein homotetramerization    The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.

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  2fzv
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  ARREH_SHIFL | Q7UC03
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 Related Entries

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