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(-) Description

Title :  CO-COMPLEX STRUCTURE OF ACHROMOBACTIN SYNTHETASE PROTEIN D ( ACSD) WITH CITRATE IN ATP BINDING SITE FROM PECTOBACTERIUM CHRYSANTHEMI
 
Authors :  S. Schmelz, S. A. Mcmahon, N. Kadi, L. Song, D. Oves-Costales, M. Oke, H. Liu, K. A. Johnson, L. Carter, M. F. White, G. L. Challis, J. H. Naismith
Date :  08 Aug 08  (Deposition) - 13 Jan 09  (Release) - 03 Mar 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Acsd, Pectobacterium Chrysanthemi, Achromobactin Biosynthesis, Sspf, Metal Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Schmelz, N. Kadi, S. A. Mcmahon, L. Song, D. Oves-Costales, M. Oke, H. Liu, K. A. Johnson, L. Carter, C. H. Botting, M. F. White, G. L. Challis, J. H. Naismith
Acsd Catalyzes Enantioselective Citrate Desymmetrization In Siderophore Biosynthesis
Nat. Chem. Biol. V. 5 174 2009
PubMed-ID: 19182782  |  Reference-DOI: 10.1038/NCHEMBIO.145

(-) Compounds

Molecule 1 - ACSD
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET151/D-TOPO
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Organism Scientific: ERWINIA CHRYSANTHEMI
    Organism Taxid: 556

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER B:279 , ARG B:281 , THR B:282 , LYS B:293 , ARG B:305 , ARG B:369 , HIS B:444 , ASP B:464 , GLU B:466 , HOH B:2068BINDING SITE FOR RESIDUE FLC B1588

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2W04)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2W04)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2W04)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2W04)

(-) Exons   (0, 0)

(no "Exon" information available for 2W04)

(-) 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:575
 aligned with Q93AT8_DICCH | Q93AT8 from UniProtKB/TrEMBL  Length:620

    Alignment length:582
                                    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       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585  
         Q93AT8_DICCH     6 HDVLSRMISEKAALHGLLNCLIKEFAIPEGYLRYEWPDEMKGIPPGAYFDGADWKGIPMMIGLPDQLQLFVMVDRRDTFGSQHYLSDVYLRQAQGDWQCPDFEPLVARLLAACEHIAGRKNPELYEQILQSQRLVSAIVSHNGRQRADAPLQHYLQSEQGLWFGHPSHPAPKARLWPAHLGQEQWAPEFQARAALHQFEVPVDGLHIGANGLTPQQVLDGFADQQPASPGHAIICMHPVQAQLFMQDARVQQLLRDNVIRDLGQSGRVASPTASIRTWFIDDHDYFIKGSLNVRITNCVRKNAWYELESTVLIDRLFRQLLDQHADTLGGLVAAAEPGVVSWSPAAAGELDSHWFREQTGGILRENFCRRTGAERSIMAGTLFARGVDLQPMIQTFLRTHYGEALDDNALLYWFDDYQTRLLRPVLSLFFNHGVVMEPHLQNSVLVHQQGRPQQVLLRDFEGVKLTDDLGIRYIDDDIHPRVRQSLLYSREQGWNRIMYCLFINHLSETILALSQGRPQLAPLMWRRVQQQLRAIQGELKQPSPELDALIAGHPVACKTNLKVRLAAEADRQASYVRLPSPW 587
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh......ee..........hhhhh........eeeeeee...eeeeeee...............eee..-......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.............ee.hhhhhhhhhhhhhh..ee.eeeeee...eeeee...hhhhhhhhhh........eeeeeehhhhhhhhhhhhhhhhhhhh...ee......eeee.....eee.....eeeee.eeeee..eee..hhhhhhhhhhhhhhhhhhhhhhhhhh.........eeeee.....hhhhhhhhhhhhheeeeehhhhhhh...eeehhhhh........hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhee...hhh.eeeeee..eeeeeee.hhhhheee..hhhhhh....hhhhhhhheehhhhhhhhhhhhhhh.hhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh..eeee...hhhhh------..eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2w04 A   6 HDVLSRMISEKAALHGLLNCLIKEFAIPEGYLRYEWPDEMKGIPPGAYFDGADWKGIPMMIGLPDQLQLFVMVDRRDTFGSQHYLSDVYLRQA-GDWQCPDFEPLVARLLAACEHIAGRKNPELYEQILQSQRLVSAIVSHNGRQRADAPLQHYLQSEQGLWFGHPSHPAPKARLWPAHLGQEQWAPEFQARAALHQFEVPVDGLHIGANGLTPQQVLDGFADQQPASPGHAIICMHPVQAQLFMQDARVQQLLRDNVIRDLGQSGRVASPTASIRTWFIDDHDYFIKGSLNVRITNCVRKNAWYELESTVLIDRLFRQLLDQHADTLGGLVAAAEPGVVSWSPAAAGELDSHWFREQTGGILRENFCRRTGAERSIMAGTLFARGVDLQPMIQTFLRTHYGEALDDNALLYWFDDYQTRLLRPVLSLFFNHGVVMEPHLQNSVLVHQQGRPQQVLLRDFEGVKLTDDLGIRYIDDDIHPRVRQSLLYSREQGWNRIMYCLFINHLSETILALSQGRPQLAPLMWRRVQQQLRAIQGELKQPSPELDALIAGHPVACKTNLKVRLA------ASYVRLPSPW 587
                                    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       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565     |   -  |    585  
                                                                                                                       98 |                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    571    578         
                                                                                                                        100                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:575
 aligned with Q93AT8_DICCH | Q93AT8 from UniProtKB/TrEMBL  Length:620

    Alignment length:581
                                    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       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586 
         Q93AT8_DICCH     7 DVLSRMISEKAALHGLLNCLIKEFAIPEGYLRYEWPDEMKGIPPGAYFDGADWKGIPMMIGLPDQLQLFVMVDRRDTFGSQHYLSDVYLRQAQGDWQCPDFEPLVARLLAACEHIAGRKNPELYEQILQSQRLVSAIVSHNGRQRADAPLQHYLQSEQGLWFGHPSHPAPKARLWPAHLGQEQWAPEFQARAALHQFEVPVDGLHIGANGLTPQQVLDGFADQQPASPGHAIICMHPVQAQLFMQDARVQQLLRDNVIRDLGQSGRVASPTASIRTWFIDDHDYFIKGSLNVRITNCVRKNAWYELESTVLIDRLFRQLLDQHADTLGGLVAAAEPGVVSWSPAAAGELDSHWFREQTGGILRENFCRRTGAERSIMAGTLFARGVDLQPMIQTFLRTHYGEALDDNALLYWFDDYQTRLLRPVLSLFFNHGVVMEPHLQNSVLVHQQGRPQQVLLRDFEGVKLTDDLGIRYIDDDIHPRVRQSLLYSREQGWNRIMYCLFINHLSETILALSQGRPQLAPLMWRRVQQQLRAIQGELKQPSPELDALIAGHPVACKTNLKVRLAAEADRQASYVRLPSPW 587
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh......ee..........hhhhh........eeeeeee...eeeeeee...............eee.--......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh................hhhhhhhhhhhhhh..eeeeeeeee......ee...hhhhhhhhhh........eeeeeehhhhhhhhh.hhhhhhhhhh...eeeeeeeeeeee.....eee.....eeeee.eeeee..eee..hhhhhhhhhhhhhhhhhhhhhhhhhh.........eee.......hhhhhhhhhhhhheeeeehhhhhhh...eeehhhhh........hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhee...hhh.eeeeee..eeeeeee......eee..hhhhhh....hhhhhhhheehhhhhhhhhhhhhhh.hhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh..eeee.........----...eeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w04 B   7 DVLSRMISEKAALHGLLNCLIKEFAIPEGYLRYEWPDEMKGIPPGAYFDGADWKGIPMMIGLPDQLQLFVMVDRRDTFGSQHYLSDVYLRQ--GDWQCPDFEPLVARLLAACEHIAGRKNPELYEQILQSQRLVSAIVSHNGRQRADAPLQHYLQSEQGLWFGHPSHPAPKARLWPAHLGQEQWAPEFQARAALHQFEVPVDGLHIGANGLTPQQVLDGFADQQPASPGHAIICMHPVQAQLFMQDARVQQLLRDNVIRDLGQSGRVASPTASIRTWFIDDHDYFIKGSLNVRITNCVRKNAWYELESTVLIDRLFRQLLDQHADTLGGLVAAAEPGVVSWSPAAAGELDSHWFREQTGGILRENFCRRTGAERSIMAGTLFARGVDLQPMIQTFLRTHYGEALDDNALLYWFDDYQTRLLRPVLSLFFNHGVVMEPHLQNSVLVHQQGRPQQVLLRDFEGVKLTDDLGIRYIDDDIHPRVRQSLLYSREQGWNRIMYCLFINHLSETILALSQGRPQLAPLMWRRVQQQLRAIQGELKQPSPELDALIAGHPVACKTNLKVRLAA----QASYVRLPSPW 587
                                    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       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566     |   -|      586 
                                                                                                                     97  |                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     572  577          
                                                                                                                       100
   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 2W04)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2W04)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2W04)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q93AT8_DICCH | Q93AT8)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0015343    siderophore transmembrane transporter activity    Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: siderophore-iron(out) + H+(out) = siderophore-iron(in) + H+(in).
biological process
    GO:0019290    siderophore biosynthetic process    The chemical reactions and pathways resulting in the formation of siderophores, low molecular weight Fe(III)-chelating substances made by aerobic or facultatively anaerobic bacteria, especially when growing under iron deficient conditions. The complexes of Fe(3+)-siderophores have very high stability constants and are taken up by specific transport systems by microorganisms; the subsequent release of iron requires enzymatic action.
    GO:0044718    siderophore transmembrane transport    The directed movement of siderophores, low molecular weight Fe(III)-chelating substances, from one side of a membrane to the other, by means of some agent such as a transporter or pore.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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  2w04
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 Related Entries

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

UniProtKB/TrEMBL
        Q93AT8_DICCH | Q93AT8: 2w02 2w03 2x3j 2x3k 3ffe

(-) Related Entries Specified in the PDB File

2w02 CO-COMPLEX STRUCTURE OF ACHROMOBACTIN SYNTHETASE PROTEIN D (ACSD) WITH ATP FROM PECTOBACTERIUM CHRYSANTHEMI
2w03 CO-COMPLEX STRUCTURE OF ACHROMOBACTIN SYNTHETASE PROTEIN D (ACSD) WITH ADENOSINE, SULFATE AND CITRATE FROM PECTOBACTERIUM CHRYSANTHEMI