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(-) Description

Title :  CRYSTAL STRUCTURE OF PEPTIDOGLYCAN GLYCOSYLTRANSFERASE FROM ATOPOBIUM PARVULUM DSM 20469.
 
Authors :  E. V. Filippova, Z. Wawrzak, G. Minasov, L. Shuvalova, O. Kiryukhina, G E. Rubin, J. Sacchettini, A. Joachimiak, W. F. Anderson, Midwest Cen Structural Genomics (Mcsg), Structures Of Mtb Proteins Confe Susceptibility To Known Mtb Inhibitors (Mtbi)
Date :  19 Feb 13  (Deposition) - 20 Mar 13  (Release) - 20 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Structures Of Mtb Proteins Conferring Susceptibility To Known Mtb Inhibitors, Mtbi, Glycosyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. V. Filippova, Z. Wawrzak, G. Minasov, L. Shuvalova, O. Kiryukhina, G. Babnigg, E. Rubin, J. Sacchettini, A. Joachimiak, W. F. Anderson, Midwest Center For Structural Genomics (Mcsg), Structures Of Mtb Proteins Conferring Susceptibility To Known Mtb Inhibitors (Mtbi)
Crystal Structure Of Peptidoglycan Glycosyltransferase From Atopobium Parvulum Dsm 20469.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PEPTIDOGLYCAN GLYCOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.1.129
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG68
    Expression System Strain: BL21(DE3) MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 505-954
    Gene: APAR_1344
    Organism Common: STREPTOCOCCUS PARVULUS
    Organism Scientific: ATOPOBIUM PARVULUM
    Organism Taxid: 521095
    Strain: DSM 20469

 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  (2, 27)

Asymmetric Unit (2, 27)
No.NameCountTypeFull Name
1MSE26Mod. Amino AcidSELENOMETHIONINE
2PG41Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 1 (1, 13)
No.NameCountTypeFull Name
1MSE13Mod. Amino AcidSELENOMETHIONINE
2PG4-1Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 2 (2, 14)
No.NameCountTypeFull Name
1MSE13Mod. Amino AcidSELENOMETHIONINE
2PG41Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR B:785 , TRP B:787BINDING SITE FOR RESIDUE PG4 B 1001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JBF)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Ser A:649 -Pro A:650
2Gly A:806 -Pro A:807
3Ala A:909 -Pro A:910
4Ser B:649 -Pro B:650
5Gly B:806 -Pro B:807
6Ala B:909 -Pro B:910

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JBF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JBF)

(-) Exons   (0, 0)

(no "Exon" information available for 4JBF)

(-) 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:410
                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........ee.....eee.................hhhhhheee...eeehhhhhhhhhhh.....hhhhhhhhh...eeee..hhhhhhhhhhhhh..eeeeeee......eeeeeee....hhhhhh.............hhhhhhhhhhhhhhhh.......eee...eeee..eeee.hhhh...eeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhh................hhhhhhhhhhhhhh..eee....eeeee....eeee....eeee..hhhhhhhhhhhhhhhhhhh.hhhhh......eeeeee........eeeeeee......eeeeeeee......hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jbf A 523 SAYVQRGAIITSDGVTLAESVQDDTYVRNYPHDGmASHTVGYISTQYGTAGIESSmNETLTDWRSALYSmAGINTTGSSVVLTINSQmQAVAEAALQGYSGSIVVmDPSTGAVLAKASSPSYTHAELGTSQLVDRTTQALYSPGSSFKTVTLAAGIDTHKTTLDTTYSAPGTmEIGGGTIHNYANEDmGTIPLREAFARSSNTALAQLGVALGADNLVSYARAFGYGTALGQDFSTTPSLmPNPAEmTTWELAWASCGLPVGEHASPAGPQTTVmQNAVIAAAIANGGVVmNPYIVDRVLSPEAVVSTTSPKSLGQAVSADTAAQVREAmLGVVESGTGmGARVPGVKIAGKTGTADVNGNFNSFFIGFAPYDHPTLVVSVVIEGNGNVLGYGAQVGGRVLAQCLNIQAL 950
                                   532       542|| ||  554    |  564       574     | 584||     600       610       620       630     | 640       650       667       677       687       697       707  |    717       727       737       747       757       767       777|     |787       797       807    |  817       827|      837  ||   848       858       868       878       888       899       909       919      |930       940       950
                                              543| ||       559-MSE              580-MSE5|     600-MSE           618-MSE           636-MSE                659|                                        710-MSE        725-MSE                                              778-MSE |                         812-MSE         828-MSE     840|                       868-MSE   878-MSE           896|                         926|                      
                                               545 ||                                  592                                                                 667                                                                                                                  784-MSE                                                  842                                                    898                          928                      
                                                 547|                                                                                                                                                                                                                                                                                                                                                                                                 
                                                  549                                                                                                                                                                                                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:410
                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........ee.....eee...............hhhhhheee...eeehhhhhhhhhhhhhhhhhhhh......eeee..hhhhhhhhhhhhh...eeeeee......eeeeeee....hhhhhh..............hhhhhhhhhhhhhhhh.......eee...eeee..eeee.hhhh...eeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhh................hhhhhhhhhhhhhh..eeee...eeeee.....eeee...eeeee..hhhhhhhhhhhhhhhhhhh.hhhhh......eeeeee.hhhhh...eeeeeee......eeeeeee........hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jbf B 523 SAYVQRGAIITSDGVTLAESVQDDVRNYPHDGmASHTVGYISTQYGTAGIESSmNETLTWRSALYSmAGITTGSSVVLTINSQmQAVAEAALQGYSGSIVVmDPSTGAVLAKASSPSYTHAELGTISQLVDRTTQALYSPGSSFKTVTLAAGIDTHKTTLDTTYSAPGTmEIGGGTIHNYANEDmGTIPLREAFARSSNTALAQLGVALGADNLVSYARAFGYGTALGQDFSTTPSLmPNPAEmTTWELAWASCGLPVGEHASPAGPQTTVmQNAVIAAAIANGGVVmNPYIVDRVLSPEGAVVSTTSPKSLGQAVSADTAAQVREAmLGVVESGTGmGARVPGVKIAGKTGTADVENGNFNSFFIGFAPYDHPTLVVSVVIEGNGENVLGYGAQVGGRVLAQCLNIQAL 950
                                   532       542|| ||  556  |    566       576   |   593      |603|      614   |   624       634 |     644       654     ||670       680       690       700       710       720    |  730       740       750       760       770       780   |   790       800       810 |     820       830       840       850       860       870       880       890       900       910       920       930       940       950
                                              543| ||     559-MSE              580-MSE5|      |  ||          618-MSE           636-MSE                 660|                                        710-MSE        725-MSE                                              778-MSE |                         812-MSE         828-MSE                                 868-MSE   878-MSE                                                                    
                                               545 ||                                593      |  ||                                                     667                                                                                                                  784-MSE                                                                                                                                                                  
                                                 547|                                       600-MSE                                                                                                                                                                                                                                                                                                                                                   
                                                  551                                          603|                                                                                                                                                                                                                                                                                                                                                   
                                                                                                605
   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 4JBF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JBF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JBF)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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    Gly A:806 - Pro A:807   [ RasMol ]  
    Gly B:806 - Pro B:807   [ RasMol ]  
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        C8W8H7_ATOPD | C8W8H7: 4n1x 4qjg 4r0q 4r1g 4r23 4r3j 4ra7

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