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(-) Description

Title :  STRUCTURE OF STREPTOCOCCUS PNEUMONIA PARE IN COMPLEX WITH AZ13102335
 
Authors :  D. Ogg, J. Tucker
Date :  19 Aug 13  (Deposition) - 16 Oct 13  (Release) - 29 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Atp Binding, Structure-Based Drug Design, Antimicrobial, Isomerase- Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. G. Kale, A. Raichurkar, S. P. Hameed, D. Waterson, D. Mckinney, M. R. Manjunatha, U. Kranthi, K. Koushik, L. K. Jena, V. Shinde, S. Rudrapatna, S. Barde, V. Humnabadkar, P. Madhavapeddi, H. Basavarajappa, A. Ghosh, V. Ramya, S. Guptha, S. Sharma, P. Vachaspati, K. N. Kumar, J. Giridhar, J. Reddy, V. Panduga, S. Ganguly, V. Ahuja, S. Gaonkar, C. N. Kumar, D. Ogg, J. A. Tucker, P. A. Boriack-Sjodin, S. M. De Sousa, V. K. Sambandamurthy, S. R. Ghorpade
Thiazolopyridine Ureas As Novel Antitubercular Agents Actin Through Inhibition Of Dna Gyrase B.
J. Med. Chem. V. 56 8834 2013
PubMed-ID: 24088190  |  Reference-DOI: 10.1021/JM401268F

(-) Compounds

Molecule 1 - DNA TOPOISOMERASE IV, B SUBUNIT
    Chains: A
    EC Number: 5.99.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: ATPASE DOMAIN (UNP RESIDUES 1-226)
    Gene: SPAR94_0831
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 760835
    Strain: GA47373

 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, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
128F1Ligand/Ion1-ETHYL-3-{6-(PYRIMIDIN-5-YL)-5-[(3R)-TETRAHYDROFURAN-3-YLMETHOXY][1,3]THIAZOLO[5,4-B]PYRIDIN-2-YL}UREA
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
128F1Ligand/Ion1-ETHYL-3-{6-(PYRIMIDIN-5-YL)-5-[(3R)-TETRAHYDROFURAN-3-YLMETHOXY][1,3]THIAZOLO[5,4-B]PYRIDIN-2-YL}UREA
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
128F2Ligand/Ion1-ETHYL-3-{6-(PYRIMIDIN-5-YL)-5-[(3R)-TETRAHYDROFURAN-3-YLMETHOXY][1,3]THIAZOLO[5,4-B]PYRIDIN-2-YL}UREA
2SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:151 , LYS A:154 , PRO A:155 , VAL A:156 , THR A:157 , HOH A:452BINDING SITE FOR RESIDUE SO4 A 301
2AC2SOFTWAREILE A:48 , ASN A:51 , ALA A:52 , GLU A:55 , VAL A:76 , ASP A:78 , ARG A:81 , GLY A:82 , MET A:83 , PRO A:84 , ARG A:140 , THR A:172 , HOH A:403 , HOH A:417BINDING SITE FOR RESIDUE 28F A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MB9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:118 -Leu A:119
2Gly A:121 -Val A:122

 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:198
                                                                                                                                                                                                                                      
               SCOP domains d4mb9a_ A: automated matches                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....eeeeee.....eeeee.........hhhhhhhhhhhhhh........hhhhhhhhheeeeeeeeee..eeeeeeee...ee....eeeee......eeeeeeee..........hhhhhhhhhhhhhhhhh..eeeeee.....eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mb9 A  17 QVLEGLDAVRKRPGMYIGSTDGAGLHHLVWEIVDNAVDEALSGFGDRIDVTINKDGSLTVQDHGRGMPTGMHAMGIPTVEVIFTILHAGGLHGVGSSVVNALSSWLEVEITRDGAVYKQRFENGGKPVTTLKKIGTALKSKTGTKVTFMPDATIFSTTDFKYNTISERLNESAFLLKNVTLSLTDKRTDEAIEFHYEN 226
                                    26        36        46        56        66        76        86        96       118       128       138       148       158       168       178       188       198       208       218        
                                                                                                                 104|                                                                                                             
                                                                                                                  117
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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, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MB9)

(-) Pfam Domains  (0, 0)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4em7 SAME PROTEIN COMPLEXED WITH DIFFERENT INHIBITOR
4emv SAME PROTEIN COMPLEXED WITH DIFFERENT INHIBITOR
4mbc