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(-) Description

Title :  ACTINORHODIN POLYKETIDE KETOREDUCTASE MUTANT P94L BOUND TO NADPH AND THE INHIBITOR EMODIN
 
Authors :  P. Javidpour, S. -C. Tsai
Date :  12 Apr 11  (Deposition) - 29 Jun 11  (Release) - 29 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Actinorhodin, Polyketide, Ketoreductase, Short-Chain Dehydrogenase/Reductase, Rossmann Fold, Type Ii Polyketide Ketoreductase, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Javidpour, T. P. Korman, G. Shakya, S. C. Tsai
Structural And Biochemical Analyses Of Regio- And Stereospecificities Observed In A Type Ii Polyketide Ketoreductase.
Biochemistry V. 50 4638 2011
PubMed-ID: 21506596  |  Reference-DOI: 10.1021/BI200335F

(-) Compounds

Molecule 1 - KETOACYL REDUCTASE
    ChainsB, A
    EC Number1.3.1.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneACTIII, SCBAC28G1.12C, SCO5086
    Organism ScientificSTREPTOMYCES COELICOLOR
    Organism Taxid1902

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (2x)AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1EMO4Ligand/Ion3-METHYL-1,6,8-TRIHYDROXYANTHRAQUINONE
2NDP2Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1EMO8Ligand/Ion3-METHYL-1,6,8-TRIHYDROXYANTHRAQUINONE
2NDP4Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY B:13 , THR B:15 , SER B:16 , ILE B:18 , ARG B:38 , GLY B:39 , CYS B:62 , ASP B:63 , VAL B:64 , ASN B:90 , ALA B:91 , ILE B:142 , ALA B:143 , SER B:144 , TYR B:157 , LYS B:161 , PRO B:187 , GLY B:188 , VAL B:190 , THR B:192 , PRO B:193 , MET B:194 , HOH B:296 , EMO B:303BINDING SITE FOR RESIDUE NDP B 301
2AC2SOFTWARESER B:144 , THR B:145 , GLN B:149 , TYR B:157 , VAL B:198 , LEU B:258 , EMO B:303BINDING SITE FOR RESIDUE EMO B 302
3AC3SOFTWARESER B:144 , TYR B:157 , GLY B:188 , PHE B:189 , MET B:194 , VAL B:198 , ILE B:217 , LEU B:258 , NDP B:301 , EMO B:302BINDING SITE FOR RESIDUE EMO B 303
4AC4SOFTWAREGLY A:13 , THR A:15 , SER A:16 , GLY A:17 , ILE A:18 , ALA A:37 , ARG A:38 , GLY A:39 , CYS A:62 , ASP A:63 , VAL A:64 , ASN A:90 , ALA A:91 , GLY A:92 , ILE A:142 , ALA A:143 , SER A:144 , TYR A:157 , LYS A:161 , PRO A:187 , GLY A:188 , VAL A:190 , THR A:192 , PRO A:193 , MET A:194 , HOH A:264 , HOH A:265 , HOH A:297 , EMO A:302 , HOH A:309 , HOH A:312 , ARG B:51 , HOH B:290BINDING SITE FOR RESIDUE NDP A 301
5AC5SOFTWARELEU A:94 , SER A:144 , THR A:145 , TYR A:157 , GLY A:188 , PHE A:189 , VAL A:198 , ILE A:217 , NDP A:301 , EMO A:303BINDING SITE FOR RESIDUE EMO A 302
6AC6SOFTWARELEU A:94 , SER A:144 , THR A:145 , GLY A:146 , GLN A:149 , VAL A:151 , EMO A:302BINDING SITE FOR RESIDUE EMO A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RI3)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Arg B:-3 -Gly B:-2
2Glu B:200 -His B:201

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RI3)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADH_SHORTPS00061 Short-chain dehydrogenases/reductases family signature.ACT3_STRCO144-172
 
  2A:144-172
B:144-172
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADH_SHORTPS00061 Short-chain dehydrogenases/reductases family signature.ACT3_STRCO144-172
 
  4A:144-172
B:144-172

(-) Exons   (0, 0)

(no "Exon" information available for 3RI3)

(-) 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:256
 aligned with ACT3_STRCO | P16544 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:256
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255      
           ACT3_STRCO     6 SEVALVTGATSGIGLEIARRLGKEGLRVFVCARGEEGLRTTLKELREAGVEADGRTCDVRSVPEIEALVAAVVERYGPVDVLVNNAGRPGGGATAELADELWLDVVETNLTGVFRVTKQVLKAGGMLERGTGRIVNIASTGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETPMAASVREHYSDIWEVSTEEAFDRITARVPIGRYVQPSEVAEMVAYLIGPGAAAVTAQALNVCGGLGNY 261
               SCOP domains d3ri3a_ A: automated matches                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhheeeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee....hhhhhhhhhhhhhhh..hhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ADH_SHORT  PDB: A:144-172    ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ri3 A   6 SEVALVTGATSGIGLEIARRLGKEGLRVFVCARGEEGLRTTLKELREAGVEADGRTCDVRSVPEIEALVAAVVERYGPVDVLVNNAGRLGGGATAELADELWLDVVETNLTGVFRVTKQVLKAGGMLERGTGRIVNIASTGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETPMAASVREHYSDIWEVSTEEAFDRITARVPIGRYVQPSEVAEMVAYLIGPGAAAVTAQALNVCGGLGNY 261
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255      

Chain B from PDB  Type:PROTEIN  Length:257
 aligned with ACT3_STRCO | P16544 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:265
                                1                                                                                                                                                                                                                                                                    
                                |    6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256     
           ACT3_STRCO     - ----MATQDSEVALVTGATSGIGLEIARRLGKEGLRVFVCARGEEGLRTTLKELREAGVEADGRTCDVRSVPEIEALVAAVVERYGPVDVLVNNAGRPGGGATAELADELWLDVVETNLTGVFRVTKQVLKAGGMLERGTGRIVNIASTGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETPMAASVREHYSDIWEVSTEEAFDRITARVPIGRYVQPSEVAEMVAYLIGPGAAAVTAQALNVCGGLGNY 261
               SCOP domains d3ri3b_ B: automated matches                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------adh_short-3ri3B01 B:7-176                                                                                                                                                 ------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------adh_short-3ri3B02 B:7-176                                                                                                                                                 ------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...........eeee....hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhheeeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee....hhhhhhhh..--------..hhhhhhh.........hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------ADH_SHORT  PDB: B:144-172    ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ri3 B  -3 RGSHMATQDSEVALVTGATSGIGLEIARRLGKEGLRVFVCARGEEGLRTTLKELREAGVEADGRTCDVRSVPEIEALVAAVVERYGPVDVLVNNAGRLGGGATAELADELWLDVVETNLTGVFRVTKQVLKAGGMLERGTGRIVNIASTGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETPMAASVREH--------TEEAFDRITARVPIGRYVQPSEVAEMVAYLIGPGAAAVTAQALNVCGGLGNY 261
                                     6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196    |    -   |   216       226       236       246       256     
                                                                                                                                                                                                                                      201      210                                                   

   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, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RI3)

(-) Pfam Domains  (1, 2)

Asymmetric Unit

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ACT3_STRCO | P16544)
molecular function
    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:0017000    antibiotic biosynthetic process    The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
    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
        ACT3_STRCO | P165441w4z 1x7g 1x7h 1xr3 2rh4 2rhc 2rhr 3csd 3qrw 4dbz 4dc0 4dc1

(-) Related Entries Specified in the PDB File

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