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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE ACETOIN UTILIZATION PROTEIN (ACUB) FROM VIBRIO CHOLERAE
 
Authors :  Y. Patskovsky, J. B. Bonanno, M. Rutter, K. T. Bain, A. Powell, A. Slocom J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Research Center Structural Genomics (Nysgxrc)
Date :  28 Nov 06  (Deposition) - 12 Dec 06  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A (1x),B (1x)
Biol. Unit 4:  A,B  (1x)
Keywords :  Structural Genomics, Unknown Function, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Patskovsky, J. B. Bonanno, M. Rutter, K. T. Bain, A. Powell, A. Slocombe, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of A Putative Acetoin Utilization Protein (Acub) From Vibrio Cholerae
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ACETOIN UTILIZATION PROTEIN ACUB, PUTATIVE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: MODIFIED PET26
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: VC0737
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): A (1x)B (1x)
Biological Unit 4 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 7)

Asymmetric Unit (1, 7)
No.NameCountTypeFull Name
1PO47Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION
Biological Unit 3 (1, 4)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION
Biological Unit 4 (1, 7)
No.NameCountTypeFull Name
1PO47Ligand/IonPHOSPHATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:52 , ARG A:53 , HIS A:54 , THR A:141 , ASP A:142 , SER A:143 , HOH A:189 , HOH A:274BINDING SITE FOR RESIDUE PO4 A 1
2AC2SOFTWAREILE B:52 , ARG B:53 , HIS B:54 , THR B:141 , ASP B:142 , SER B:143 , HOH B:208BINDING SITE FOR RESIDUE PO4 B 2
3AC3SOFTWARETYR A:119 , LYS A:122 , HOH A:200 , PO4 B:4 , SER B:69 , ARG B:71 , ASP B:72 , HIS B:101 , HOH B:180 , HOH B:203BINDING SITE FOR RESIDUE PO4 B 3
4AC4SOFTWARETYR A:119 , LYS A:122 , HIS A:123 , PO4 B:3 , PO4 B:5 , HIS B:54 , SER B:69 , HIS B:101 , HOH B:196BINDING SITE FOR RESIDUE PO4 B 4
5AC5SOFTWARELYS A:122 , HIS A:123 , PO4 B:4 , ARG B:53 , HIS B:54 , LYS B:124 , GLY B:126 , HOH B:180 , HOH B:191BINDING SITE FOR RESIDUE PO4 B 5
6AC6SOFTWAREARG A:53 , ASP A:142 , HOH A:265 , HOH A:271BINDING SITE FOR RESIDUE PO4 A 6
7AC7SOFTWARESER A:69 , ARG A:71 , ASP A:72 , HIS A:101 , HOH A:196 , HOH A:293 , LYS B:122BINDING SITE FOR RESIDUE PO4 A 7

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O16)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O16)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O16)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O16)

(-) Exons   (0, 0)

(no "Exon" information available for 2O16)

(-) 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:132
 aligned with Q9KTZ3_VIBCH | Q9KTZ3 from UniProtKB/TrEMBL  Length:169

    Alignment length:147
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       
         Q9KTZ3_VIBCH    13 SLRRKELAMIKVEDMMTRHPHTLLRTHTLNDAKHLMEALDIRHVPIVDANKKLLGIVSQRDLLAAQESSLQRSAQGDSLAFETPLFEVMHTDVTSVAPQAGLKESAIYMQKHKIGCLPVVAKDVLVGIITDSDFVTIAINLLELQEE 159
               SCOP domains --      d2o16a3 A:20-158 Hypothetical protein VC0737                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------..hhhhh.ee.........hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhhh.---------...hhhhhh...eee.....hhhhhhhhhhhh....eeeee..eeeeeehhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o16 A  18 SL------MIKVEDMMTRHPHTLLRTHTLNDAKHLMEALDIRHVPIVDANKKLLGIVSQRDLLAAQESSLQ---------FETPLFEVMHTDVTSVAPQAGLKESAIYMQKHKIGCLPVVAKDVLVGIITDSDFVTIAINLLELQEE 158
                             |      21        31        41        51        61        71        81|        -|      101       111       121       131       141       151       
                             |     20                                                            82        92                                                                  
                            19                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:135
 aligned with Q9KTZ3_VIBCH | Q9KTZ3 from UniProtKB/TrEMBL  Length:169

    Alignment length:143
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159   
         Q9KTZ3_VIBCH    20 AMIKVEDMMTRHPHTLLRTHTLNDAKHLMEALDIRHVPIVDANKKLLGIVSQRDLLAAQESSLQRSAQGDSLAFETPLFEVMHTDVTSVAPQAGLKESAIYMQKHKIGCLPVVAKDVLVGIITDSDFVTIAINLLELQEESEP 162
               SCOP domains -d2o16b3 B:20-158 Hypothetical protein VC0737                                                                                               --- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhee....ee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhh--------.hhhhhhhhhh....eee.....hhhhhhhhhhhh...eeeeee..eeeeeee..hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o16 B  19 LMIKVEDMMTRHPHTLLRTHTLNDAKHLMEALDIRHVPIVDANKKLLGIVSQRDLLAAQESS--------SLAFETPLFEVMHTDVTSVAPQAGLKESAIYMQKHKIGCLPVVAKDVLVGIITDSDFVTIAINLLELQEESEP 161
                                    28        38        48        58        68        78 |       -|       98       108       118       128       138       148       158   
                                                                                        80       89
   Legend:   → Mismatch (orange background)
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  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
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O16)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2O16)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9KTZ3_VIBCH | Q9KTZ3)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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