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(-) Description

Title :  FKBI FOR BIOSYNTHESIS OF METHOXYMALONYL EXTENDER UNIT OF FK520 POLYKETIDE IMMUNOSUPPRESANT
 
Authors :  K. Watanabe, C. Khosla, R. M. Stroud, S. -C. Tsai
Date :  28 Sep 03  (Deposition) - 25 Nov 03  (Release) - 02 Mar 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Fk520; Fk506; Polyketide Synthase; Polyketide; Acyl-Coa Dehydrogenase; Crystal Structure; Aldehyde Dehydrogenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Watanabe, C. Khosla, R. M. Stroud, S. -C. Tsai
Crystal Structure Of An Acyl-Acp Dehydrogenase From The Fk520 Polyketide Biosynthetic Pathway: Insights Into Extender Unit Biosynthesis
J. Mol. Biol. V. 334 435 2003
PubMed-ID: 14623185  |  Reference-DOI: 10.1016/J.JMB.2003.10.021

(-) Compounds

Molecule 1 - PROTEIN FKBI
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: STREPTOMYCES HYGROSCOPICUS
    Organism Taxid: 1912
    Other Details: PROBABLE ACYL-COA DEHYDROGENASE
    Strain: ASCOMYCETICUS

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:109 , PHE A:111 , SER A:112 , GLY A:117 , SER A:118 , TRP A:142 , THR A:144 , HIS A:191 , LEU A:342 , ILE A:345 , ILE A:346 , SER A:349 , GLU A:351 , HOH A:430 , HOH A:488 , HOH A:497BINDING SITE FOR RESIDUE FAD A 399

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1R2J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1R2J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1R2J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1R2J)

(-) Exons   (0, 0)

(no "Exon" information available for 1R2J)

(-) 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:353
 aligned with Q9KIE5_STRHY | Q9KIE5 from UniProtKB/TrEMBL  Length:366

    Alignment length:363
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362   
         Q9KIE5_STRHY     3 ERDALLTDLVGDRAAEWDTSGELPRDLLVRLGADGLLCAEVAAEHGGLGLGSRENGEFTAHVGSLCSSLRSVMTSQGMAAWTVQRLGDAGQRATFLKELTSGKLAAVGFSERQAGSDLSAMRTRVRLDGDTAVVDGHKVWTTAAAYADHLVVFGLQEDGSGAVVVVPADTPGVRVERVPKPSGCRAAGHADLHLDQVRVPAGAVLAGSGASLPMLVAASLAYGRKSVAWGCVGILRACRTAAVAHARTREQFGRPLGDHQLVAGHIADLWTAEQIAARVCEYASDHWDEGSPEMVPATILAKHVAAERAAAGAATAAQVLASAGAREGHVVERAYRDAKLMEIIEGSSEMCRVMLAQHALALP 365
               SCOP domains d1r2ja2 A:3-212 Protein FkbI                                                                                                                                                                                      d1r2ja1 A:213-365 Protein FkbI                                                                                                                            SCOP domains
               CATH domains 1r2jA01 A:3-106 Butyryl-Coa Dehydrogenase, subunit A, domain 1                                          1r2jA02 A:107-212 Butyryl-CoA Dehydrogenase, subunit A, domain 2                                          1r2jA03 A:213-365 Butyryl-CoA Dehydrogenase, subunit A, domain 3                                                                                          CATH domains
               Pfam domains -Acyl-CoA_dh_N-1r2jA03 A:4-104                                                                         --Acyl-CoA_dh_M-1r2jA02 A:108-160                      ------------------------------------------------------Acyl-CoA_dh_1-1r2jA01 A:215-362                                                                                                                     --- Pfam domains
         Sec.struct. author .hhhhhhhhhh.hhhhhhhhh..hhhhhhhhhhh.......hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...-.eeee........hhhhh..eeeee..eeeeeeeeeee.......eeeeee.......eeeeee.....eeeee............eeeeeeeeeee.hhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee..ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh-------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh--.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1r2j A   3 ERDALLTDLVGDRAAEWDTSGELPRDLLVRLGADGLLCAEVAAEHGGLGLGSRENGEFTAHVGSLCSSLRSVMTSQGMAAWTVQRLGDAGQRATFLKELTSG-LAAVGFSERQAGSDLSAMRTRVRLDGDTAVVDGHKVWTTAAAYADHLVVFGLQEDGSGAVVVVPADTPGVRVERVPKPSGCRAAGHADLHLDQVRVPAGAVLAGSGASLPMLVAASLAYGRKSVAWGCVGILRACRTAAVAHARTREQFGRPLGDHQLVAGHIADLWTAEQIAARVCEYASDH-------MVPATILAKHVAAERAAAGAATAAQVLASAGA--GHVVERAYRDAKLMEIIEGSSEMCRVMLAQHALALP 365
                                    12        22        32        42        52        62        72        82        92       102 | |   112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282     |   -   |   302       312       322    |  332       342       352       362   
                                                                                                                               104 |                                                                                                                                                                                   288     296                            327  |                                   
                                                                                                                                 106                                                                                                                                                                                                                             330
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Clan: Acyl-CoA_dh (32)
(-)
Clan: no clan defined [family: Acyl-CoA_dh_M] (24)
(-)
Clan: no clan defined [family: Acyl-CoA_dh_N] (23)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9KIE5_STRHY | Q9KIE5)
molecular function
    GO:0003995    acyl-CoA dehydrogenase activity    Catalysis of the reaction: acyl-CoA + acceptor = 2,3-dehydroacyl-CoA + reduced acceptor.
    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: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:0016627    oxidoreductase activity, acting on the CH-CH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    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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