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(-) Description

Title :  CRYSTAL STRUCTURE OF CALG3, CALICHEAMICIN GLYCOSTYLTRANSFERASE, TDP AND CALICHEAMICIN T0 BOUND FORM
 
Authors :  A. Chang, S. Singh, C. A. Bingman, J. S. Thorson, G. N. Phillips Jr. , Cen Eukaryotic Structural Genomics (Cesg), Enzyme Discovery For Product Biosynthesis (Natpro)
Date :  11 Sep 10  (Deposition) - 15 Dec 10  (Release) - 08 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Calicheamicin, Tdp, Structural Genomics, Psi-2, Protein Structure Initiative, Center For Eukaryotic Structural Genomics, Cesg, Gt-B Fold, Glycosyltransferase, Transferase-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Chang, S. Singh, K. E. Helmich, R. D. Goff, C. A. Bingman, J. S. Thorson, G. N. Phillips
Complete Set Of Glycosyltransferase Structures In The Calicheamicin Biosynthetic Pathway Reveals The Origin Of Regiospecificity.
Proc. Natl. Acad. Sci. Usa V. 108 17649 2011
PubMed-ID: 21987796  |  Reference-DOI: 10.1073/PNAS.1108484108

(-) Compounds

Molecule 1 - CALG3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET16B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CALG3
    Organism Common: MICROMONOSPORA PURPUREA
    Organism Scientific: MICROMONOSPORA ECHINOSPORA
    Organism Taxid: 1877

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1C0T2Ligand/IonCALICHEAMICIN T0
2CL2Ligand/IonCHLORIDE ION
3TYD2Ligand/IonTHYMIDINE-5'-DIPHOSPHATE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1C0T1Ligand/IonCALICHEAMICIN T0
2CL-1Ligand/IonCHLORIDE ION
3TYD1Ligand/IonTHYMIDINE-5'-DIPHOSPHATE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1C0T1Ligand/IonCALICHEAMICIN T0
2CL-1Ligand/IonCHLORIDE ION
3TYD1Ligand/IonTHYMIDINE-5'-DIPHOSPHATE
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1C0T2Ligand/IonCALICHEAMICIN T0
2CL-1Ligand/IonCHLORIDE ION
3TYD2Ligand/IonTHYMIDINE-5'-DIPHOSPHATE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:10 , GLY A:195 , GLY A:218 , THR A:219 , ILE A:220 , GLY A:249 , TRP A:268 , THR A:269 , PRO A:270 , LEU A:271 , HIS A:284 , GLY A:286 , GLY A:287 , GLY A:288 , THR A:289 , C0T A:378 , HOH A:380 , HOH A:388 , HOH A:416 , HOH A:472 , HOH A:496 , HOH A:498BINDING SITE FOR RESIDUE TYD A 377
2AC2SOFTWAREPRO A:7 , GLY A:10 , PHE A:60 , GLN A:88 , GLN A:116 , GLY A:117 , GLN A:137 , SER A:138 , TRP A:140 , GLY A:286 , GLY A:287 , ASP A:308 , PHE A:310 , GLN A:311 , TYD A:377 , HOH A:527 , HOH A:689BINDING SITE FOR RESIDUE C0T A 378
3AC3SOFTWARETYR A:194 , GLY A:195 , LEU A:271 , HIS A:272 , HOH A:498BINDING SITE FOR RESIDUE CL A 379
4AC4SOFTWAREGLY B:10 , GLY B:195 , GLY B:218 , THR B:219 , ILE B:220 , GLY B:249 , TRP B:268 , THR B:269 , PRO B:270 , LEU B:271 , HIS B:284 , GLY B:286 , GLY B:287 , GLY B:288 , THR B:289 , C0T B:378 , HOH B:384 , HOH B:391 , HOH B:413 , HOH B:453 , HOH B:512 , HOH B:547BINDING SITE FOR RESIDUE TYD B 377
5AC5SOFTWAREPRO B:7 , GLY B:10 , PHE B:60 , LEU B:82 , GLN B:88 , ILE B:89 , GLN B:116 , GLY B:117 , GLN B:137 , SER B:138 , TRP B:140 , ILE B:220 , GLY B:286 , GLY B:287 , ASP B:308 , PHE B:310 , GLN B:311 , TYD B:377 , HOH B:481 , HOH B:666BINDING SITE FOR RESIDUE C0T B 378
6AC6SOFTWARETYR B:194 , GLY B:195 , LEU B:271 , HIS B:272 , HOH B:547BINDING SITE FOR RESIDUE CL B 379

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OTI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3OTI)

(-) 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:379
 aligned with Q8KND7_MICEC | Q8KND7 from UniProtKB/TrEMBL  Length:376

    Alignment length:379
                                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       266       276       286       296       306       316       326       336       346       356       366         
         Q8KND7_MICEC     - ----MLFVSSPGIGHLFPLIQLAWGFRTAGHDVLIAVAEHADRAAAAGLEVVDVAPDYSAVKVFEQVAKDNPRFAETVATRPAIDLEEWGVQIAAVNRPLVDGTMALVDDYRPDLVVYEQGATVGLLAADRAGVPAVQRNQSAWRTRGMHRSIASFLTDLMDKHQVSLPEPVATIESFPPSLLLEAEPEGWFMRWVPYGGGAVLGDRLPPVPARPEVAITMGTIELQAFGIGAVEPIIAAAGEVDADFVLALGDLDISPLGTLPRNVRAVGWTPLHTLLRTCTAVVHHGGGGTVMTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDESLRTAAREVREEMVALPTPAETVRRIVERIS 375
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhh.hhhhhhhhhhh..eeeeee..hhhhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh..eeee........hhhhhhhh.hhhhhhhh........eee...hhhhhh.................ee............eeee....hhhhhhh..hhhhhhhhhhh...eeeee.....hhhhh.....eeee...hhhhhhh...eeee..hhhhhhhhhhhh..eee...........hhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oti A  -3 RHMRVLFVSSPGIGHLFPLIQLAWGFRTAGHDVLIAVAEHADRAAAAGLEVVDVAPDYSAVKVFEQVAKDNPRFAETVATRPAIDLEEWGVQIAAVNRPLVDGTMALVDDYRPDLVVYEQGATVGLLAADRAGVPAVQRNQSAWRTRGMHRSIASFLTDLMDKHQVSLPEPVATIESFPPSLLLEAEPEGWFMRWVPYGGGAVLGDRLPPVPARPEVAITMGTIELQAFGIGAVEPIIAAAGEVDADFVLALGDLDISPLGTLPRNVRAVGWTPLHTLLRTCTAVVHHGGGGTVMTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDESLRTAAREVREEMVALPTPAETVRRIVERIS 375
                                     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       266       276       286       296       306       316       326       336       346       356       366         


Chain B from PDB  Type:PROTEIN  Length:379
 aligned with Q8KND7_MICEC | Q8KND7 from UniProtKB/TrEMBL  Length:376

    Alignment length:379
                                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       266       276       286       296       306       316       326       336       346       356       366         
         Q8KND7_MICEC     - ----MLFVSSPGIGHLFPLIQLAWGFRTAGHDVLIAVAEHADRAAAAGLEVVDVAPDYSAVKVFEQVAKDNPRFAETVATRPAIDLEEWGVQIAAVNRPLVDGTMALVDDYRPDLVVYEQGATVGLLAADRAGVPAVQRNQSAWRTRGMHRSIASFLTDLMDKHQVSLPEPVATIESFPPSLLLEAEPEGWFMRWVPYGGGAVLGDRLPPVPARPEVAITMGTIELQAFGIGAVEPIIAAAGEVDADFVLALGDLDISPLGTLPRNVRAVGWTPLHTLLRTCTAVVHHGGGGTVMTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDESLRTAAREVREEMVALPTPAETVRRIVERIS 375
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----Glyco_transf_28-3otiB03 B:2-146                                                                                                                  ------------------------DUF1205-3otiB01 B:171-264                                                                     --------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----Glyco_transf_28-3otiB04 B:2-146                                                                                                                  ------------------------DUF1205-3otiB02 B:171-264                                                                     --------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...eeeee...hhhhhh.hhhhhhhhhhh..eeeeee..hhhhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh..eeee........hhhhhhhh.hhhhhhhh........eee...hhhhhh.................eeee..........eeee....hhhhhhh..hhhhhhhhhhh...eeeee.....hhhhh.....eeee...hhhhhhh...eeee..hhhhhhhhhhhh..eee...........hhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oti B  -3 RHMRVLFVSSPGIGHLFPLIQLAWGFRTAGHDVLIAVAEHADRAAAAGLEVVDVAPDYSAVKVFEQVAKDNPRFAETVATRPAIDLEEWGVQIAAVNRPLVDGTMALVDDYRPDLVVYEQGATVGLLAADRAGVPAVQRNQSAWRTRGMHRSIASFLTDLMDKHQVSLPEPVATIESFPPSLLLEAEPEGWFMRWVPYGGGAVLGDRLPPVPARPEVAITMGTIELQAFGIGAVEPIIAAAGEVDADFVLALGDLDISPLGTLPRNVRAVGWTPLHTLLRTCTAVVHHGGGGTVMTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDESLRTAAREVREEMVALPTPAETVRRIVERIS 375
                                     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       266       276       286       296       306       316       326       336       346       356       366
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  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 3OTI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: GT-B (132)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8KND7_MICEC | Q8KND7)
molecular function
    GO:0046527    glucosyltransferase activity    Catalysis of the transfer of a glucosyl group to an acceptor molecule, typically another carbohydrate or a lipid.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8KND7_MICEC | Q8KND7: 3d0q 3d0r

(-) Related Entries Specified in the PDB File

3d0q CRYSTAL STRUCTURE OF CALG3 FROM MICROMONOSPORA ECHINOSPORA DETERMINED IN SPACE GROUP I222
3d0r CRYSTAL STRUCTURE OF CALG3 FROM MICROMONOSPORA ECHINOSPORA DETERMINED IN SPACE GROUP P2(1)
3otg CRYSTAL STRUCTURE OF CALG1, CALICHEAMICIN GLYCOSTYLTRANSFERASE, TDP BOUND FORM
3oth CRYSTAL STRUCTURE OF CALG1, CALICHEAMICIN GLYCOSTYLTRANSFERASE, TDP AND CALICHEAMICIN ALPHA3I BOUND FORM RELATED ID: NATPRO-GO.119385 RELATED DB: TARGETTRACK