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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE PEPTIDOGLYCAN GLYCOSYLTRANSFERASE FROM ATOPOBIUM PARVULUM DSM 20469
 
Authors :  E. V. Filippova, Z. Wawrzak, O. Kiryukhina, G. Babnigg, S. Clancy, A. Jo W. F. Anderson, Midwest Center For Structural Genomics (Mcsg)
Date :  21 Feb 14  (Deposition) - 12 Mar 14  (Release) - 13 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, D, D-Transpeptidase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. V. Filippova, Z. Wawrzak, O. Kiryukhina, G. Babnigg, S. Clancy, A. Joachimiak, W. F. Anderson, Midwest Center For Structural Genomics (Mcsg)
Crystal Structure Of A Putative Peptidoglycan Glycosyltransferase From Atopobium Parvulum Dsm 20469
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PEPTIDOGLYCAN GLYCOSYLTRANSFERASE
    Chains: A
    EC Number: 2.4.1.129
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG68
    Expression System Strain: BL21MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: APAR_0480
    Organism Common: STREPTOCOCCUS PARVULUS
    Organism Scientific: ATOPOBIUM PARVULUM
    Organism Taxid: 521095
    Strain: DSM 20469
    Synonym: D,D-TRANSPEPTIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 15)

Asymmetric Unit (2, 15)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2MSE14Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 14)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MSE14Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 28)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MSE28Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:305 , THR A:501BINDING SITE FOR RESIDUE CA A 601

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Tyr A:276 -Pro A:277

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:422
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4ovda1 A:61-231 automated matches                                                     d4ovda2 A:232-571 automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......ee.....eeeeee......eee......hhhhhh.........hhhhhhhhhhhh...eee...ee.......eee..hhhhhhhhhhhhhhhhhhhh....eeeeee......eeeeeee......hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.......eeee..eeee..eeee........eeeehhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...................hhhhh..hhhhhhh.......hhhhhhhhhhhhhh..ee.....eeee..ee.....ee..hhhhhhhhhhhhhhhhhhh.hhhhh.....eeeeeeeee..............eeeeeeeee.hhhh.eeeeeeee....hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ovd A  61 NDIVLHARRGTIYDRNGNVLAmSVDCKNNTKRVYPYGNVGVQILGFVNADNEGASGLEYYYNDILAGTNGHmISNITEAQNGQDIVLSIDIELQKKAEEQLTAAVKDFEAKQGGSImAmNPRTGEIYAAASYPLPDFVDYESLNLKLVSSIYEPGSVFKVITTSIGVDNNLFGPNSTFNIPTELQVGDNKVTDDDWRTSAmDmSVREmLRRSSNVGmAFLETQLIGDKRFAEGIDKFGIGHTTGIDFPGEATGIVRSLDQYEGPTGGNmAFGQGLAIPFIQVIRAYTAVANKGTmVTPHFmVSKGGQEVSWPTKDVISSSTASAELDmmTTVVKEGTGVRAGIYGYTVAGKTGTGQQVVEETGSYGENSGFVASFCGIVNPSESDLmVYVGLNDTHQLASQSAAVVFSQFAKDAATRLNIQP 571
                                    70        80 |    |160       170       180       190       200 |||   224       234       244       254      |264       274      |289       299       309       319       329       339       349| |    359      |369       379       389       399       409       419       429       439    |  449|      459       469       479       489       499       509       519       529      |539       549       559       569  
                                                82-MSE7|                                         202-MSE                                      261-MSE             281|                                                            350-MSE  |      366-MSE                                             418-MSE                   444-MSE |                        477-MSE                                                    536-MSE                               
                                                     158                                          203|                                          263-MSE            287                                                              352-MSE|                                                                                          450-MSE                     478-MSE                                                                                         
                                                                                                   218                                                                                                                                   357-MSE
   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  (2, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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