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(-) Description

Title :  CRYSTAL STRUCTURE OF ANTD, AN N-ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP AND 3-HYDROXYBUTYRYL-COA
 
Authors :  R. L. Kubiak, H. M. Holden
Date :  02 Jan 12  (Deposition) - 25 Jan 12  (Release) - 22 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,C,E
Keywords :  Anthrose, Acylated Sugar, Left-Handed Beta Helix, Sugar N-Acylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. L. Kubiak, H. M. Holden
Structural Studies Of Antd: An N-Acyltransferase Involved I The Biosynthesis Of D-Anthrose.
Biochemistry V. 51 867 2012
PubMed-ID: 22220494  |  Reference-DOI: 10.1021/BI201650C

(-) Compounds

Molecule 1 - GALACTOSIDE O-ACETYLTRANSFERASE
    Chains: A, C, E
    EC Number: 2.3.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: ROSETTA2 DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ANTD, BCSJ1_02085
    Organism Scientific: BACILLUS CEREUS
    Organism Taxid: 699184
    Strain: SJ1
    Synonym: ANTD

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ACE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
13HC3Ligand/Ion3-HYDROXYBUTANOYL-COENZYME A
2CL1Ligand/IonCHLORIDE ION
3TYD3Ligand/IonTHYMIDINE-5'-DIPHOSPHATE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:86 , ARG C:86 , ARG E:86BINDING SITE FOR RESIDUE CL A 189
2AC2SOFTWAREMET A:1 , SER A:3 , PHE A:4 , ARG A:43 , ASP A:45 , ASP A:46 , HOH A:341 , HOH A:453 , TYR C:31 , SER C:51 , TYR C:69 , HOH C:203BINDING SITE FOR RESIDUE TYD A 301
3AC3SOFTWAREHIS A:61 , ILE A:83 , SER A:84 , GLY A:127 , ALA A:128 , GLY A:145 , ALA A:146 , VAL A:161 , ARG A:166 , LYS A:169 , HOH A:236 , HOH A:241 , HOH A:267 , HOH A:269 , HOH A:273 , HOH A:275 , HOH A:276 , HOH A:279 , HOH A:315 , HOH A:388 , HOH A:389 , TYR C:90 , ASP C:94 , PHE C:96 , PHE C:133 , LYS C:151 , VAL C:163 , PRO C:164 , HOH C:189 , HOH C:242BINDING SITE FOR RESIDUE 3HC A 310
4AC4SOFTWAREMET C:1 , ASN C:2 , SER C:3 , ARG C:43 , ASP C:45 , ASP C:46 , HOH C:314 , HOH C:317 , HOH C:403 , TYR E:31 , SER E:51 , TYR E:69BINDING SITE FOR RESIDUE TYD C 301
5AC5SOFTWAREHIS C:61 , ASN C:82 , SER C:84 , GLY C:127 , ALA C:128 , GLY C:145 , ALA C:146 , VAL C:161 , LYS C:169 , HOH C:195 , HOH C:261 , HOH C:265 , HOH C:269 , HOH C:288 , HOH C:290 , HOH C:324 , HOH C:325 , HOH C:425 , HOH C:442 , TYR E:90 , ASP E:94 , PHE E:96 , PRO E:104 , PHE E:133 , MET E:149 , LYS E:151 , VAL E:163 , PRO E:164 , HOH E:198 , HOH E:263BINDING SITE FOR RESIDUE 3HC C 310
6AC6SOFTWARETYR A:31 , SER A:51 , ASN E:2 , SER E:3 , ARG E:43 , ASP E:45 , ASP E:46 , HOH E:219 , HOH E:228 , HOH E:230 , HOH E:360BINDING SITE FOR RESIDUE TYD E 301
7AC7SOFTWARETYR A:90 , ILE A:93 , ASP A:94 , PHE A:96 , PRO A:104 , PHE A:133 , LYS A:151 , VAL A:163 , PRO A:164 , HOH A:260 , HOH A:270 , HIS E:61 , SER E:84 , GLY E:127 , ALA E:128 , GLY E:145 , ALA E:146 , VAL E:161 , LYS E:169 , HOH E:194 , HOH E:203 , HOH E:222 , HOH E:223 , HOH E:227 , HOH E:231 , HOH E:449BINDING SITE FOR RESIDUE 3HC E 310

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Val A:163 -Pro A:164
2Val C:163 -Pro C:164
3Val E:163 -Pro E:164

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3VBJ)

(-) Exons   (0, 0)

(no "Exon" information available for 3VBJ)

(-) 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:186
                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhh..ee...eee....eeehhh.eee...eee....eeeeeeee...eee....eeeeeeeeeee....ee....eee.ee.............hhhhh..ee..eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3vbj A   1 MNSFYSQEELKKIGFLSVGKNVLISKKASIYNPGVISIGNNVRIDDFCILSGKVTIGSYSHIAAYTALYGGEVGIEMYDFANISSRTIVYAAIDDFSGNALMGPTIPNQYKNVKTGKVILKKHVIIGAHSIIFPNVVIGEGVAVGAMSMVKESLDDWYIYVGVPVRKIKARKRKIVELENEFLKSM 186
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180      


Chain C from PDB  Type:PROTEIN  Length:188
                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhh....ee...eee....ee.hhh.eee...eee....eee..eee...eee....eee.....eee....ee....eee.ee.............hhhhh..ee..eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vbj C   1 MNSFYSQEELKKIGFLSVGKNVLISKKASIYNPGVISIGNNVRIDDFCILSGKVTIGSYSHIAAYTALYGGEVGIEMYDFANISSRTIVYAAIDDFSGNALMGPTIPNQYKNVKTGKVILKKHVIIGAHSIIFPNVVIGEGVAVGAMSMVKESLDDWYIYVGVPVRKIKARKRKIVELENEFLKSMNS 188
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180        


Chain E from PDB  Type:PROTEIN  Length:186
                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhh....ee...eee....eeehhh.eee...eee....eee..eee...eee....eee.....eee....ee....eee.ee.............hhhhh..ee..eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3vbj E   1 MNSFYSQEELKKIGFLSVGKNVLISKKASIYNPGVISIGNNVRIDDFCILSGKVTIGSYSHIAAYTALYGGEVGIEMYDFANISSRTIVYAAIDDFSGNALMGPTIPNQYKNVKTGKVILKKHVIIGAHSIIFPNVVIGEGVAVGAMSMVKESLDDWYIYVGVPVRKIKARKRKIVELENEFLKSM 186
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180
   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 3VBJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VBJ)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Val A:163 - Pro A:164   [ RasMol ]  
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(-) Related Entries Specified in the PDB File

3vbi CRYSTAL STRUCTURE OF ANTD, AN N-ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP-4-AMINO-4,6- DIDEOXYGLUCOSE AND COENZYME A
3vbk CRYSTAL STRUCTURE OF THE S84A MUTANT OF ANTD, AN N- ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP- 4-AMINO-4,6-DIDEOXYGLUCOSE AND COENZYME A
3vbl CRYSTAL STRUCTURE OF THE S84C MUTANT OF ANTD, AN N- ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP- 4-AMINO-4,6-DIDEOXYGLUCOSE AND COENZYME A
3vbm CRYSTAL STRUCTURE OF THE S84T MUTANT OF ANTD, AN N- ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP AND COENZYME A
3vbn CRYSTAL STRUCTURE OF THE D94A MUTANT OF ANTD, AN N- ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP AND COENZYME A
3vbp CRYSTAL STRUCTURE OF THE D94N MUTANT OF ANTD, AN N- ACYLTRANSFERASE FROM BACILLUS CEREUS IN COMPLEX WITH DTDP AND COENZYME A