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(-) Description

Title :  STRUCTURES OF MYCOBACTERIUM TUBERCULOSIS 6-OXOPURINE PHOSPHORIBOSYLTRANSFERASE WHICH IS A POTENTIAL TARGET FOR DRUG DEVELOPMENT AGAINST THIS DISEASE
 
Authors :  W. S. Eng, D. Hockova, P. Spacek, N. P. West, K. Woods, L. M. J. Naesens, D. L. W. Guddat
Date :  03 Oct 14  (Deposition) - 20 May 15  (Release) - 24 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  A,B  (1x)
Biol. Unit 3:  C,D  (1x)
Keywords :  6-Oxopurine Phosphoribosyltransferase, Cytoplasmic, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. S. Eng, D. Hockova, P. Spacek, Z. Janeba, N. P. West, K. Woods, L. M. Naesens, D. T. Keough, L. W. Guddat
First Crystal Structures Of Mycobacterium Tuberculosis 6-Oxopurine Phosphoribosyltransferase: Complexes With Gmp And Pyrophosphate And With Acyclic Nucleoside Phosphonates Whose Prodrugs Have Antituberculosis Activity.
J. Med. Chem. V. 58 4822 2015
PubMed-ID: 25915781  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00611

(-) Compounds

Molecule 1 - HYPOXANTHINE-GUANINE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B, C, D
    Engineered: YES
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 419947
    Other Details: THIS SEQUENCE OCCURS NATURALLY IN MYCOBACTERIUM TUBERCULOSIS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (1x): AB  
Biological Unit 3 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
13QF4Ligand/Ion[2-([2-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)ETHYL]{2-[(2-OXOETHYL)(2-PHOSPHONOETHYL)AMINO]ETHYL}AMINO)ETHYL]PHOSPHONIC ACID
2MG8Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
13QF4Ligand/Ion[2-([2-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)ETHYL]{2-[(2-OXOETHYL)(2-PHOSPHONOETHYL)AMINO]ETHYL}AMINO)ETHYL]PHOSPHONIC ACID
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
13QF2Ligand/Ion[2-([2-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)ETHYL]{2-[(2-OXOETHYL)(2-PHOSPHONOETHYL)AMINO]ETHYL}AMINO)ETHYL]PHOSPHONIC ACID
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
13QF2Ligand/Ion[2-([2-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)ETHYL]{2-[(2-OXOETHYL)(2-PHOSPHONOETHYL)AMINO]ETHYL}AMINO)ETHYL]PHOSPHONIC ACID
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:64 , LEU A:65 , LYS A:66 , GLY A:67 , VAL A:90 , SER A:92 , VAL A:124 , ASP A:126 , SER A:127 , GLY A:128 , LEU A:129 , THR A:130 , LYS A:154 , ASP A:174 , PHE A:175 , VAL A:176 , LEU A:181 , ASP A:182 , ARG A:188 , MG A:302 , HOH A:402 , HOH A:405 , HOH A:408 , HOH A:410 , HOH A:412 , HOH A:418 , HOH A:419 , HOH A:428 , HOH A:431 , HOH A:449 , HOH A:472 , HOH A:474 , HOH A:513 , HOH A:526 , HOH A:585 , HOH A:586BINDING SITE FOR RESIDUE 3QF A 301
02AC2SOFTWAREASP A:182 , 3QF A:301 , HOH A:410 , HOH A:419 , HOH A:421 , HOH A:585BINDING SITE FOR RESIDUE MG A 302
03AC3SOFTWAREGLU A:122 , ASP A:123 , HOH A:402 , HOH A:405 , HOH A:408 , HOH A:586BINDING SITE FOR RESIDUE MG A 303
04AC4SOFTWARELYS B:66 , GLY B:67 , VAL B:90 , SER B:92 , VAL B:124 , ASP B:126 , SER B:127 , GLY B:128 , LEU B:129 , THR B:130 , LYS B:154 , ASP B:174 , PHE B:175 , VAL B:176 , LEU B:181 , ASP B:182 , ARG B:188 , MG B:302 , HOH B:401 , HOH B:403 , HOH B:404 , HOH B:405 , HOH B:406 , HOH B:407 , HOH B:408 , HOH B:409 , HOH B:412 , HOH B:422 , HOH B:425 , HOH B:451 , HOH B:516 , HOH B:518BINDING SITE FOR RESIDUE 3QF B 301
05AC5SOFTWAREASP B:182 , 3QF B:301 , HOH B:402 , HOH B:405 , HOH B:406 , HOH B:407BINDING SITE FOR RESIDUE MG B 302
06AC6SOFTWAREGLU B:122 , ASP B:123 , HOH B:401 , HOH B:403 , HOH B:404 , HOH B:408BINDING SITE FOR RESIDUE MG B 303
07AC7SOFTWAREVAL C:64 , LEU C:65 , LYS C:66 , GLY C:67 , VAL C:90 , VAL C:124 , ASP C:126 , SER C:127 , GLY C:128 , LEU C:129 , THR C:130 , LYS C:154 , ASP C:174 , PHE C:175 , VAL C:176 , LEU C:181 , ASP C:182 , ARG C:188 , MG C:303 , HOH C:402 , HOH C:404 , HOH C:406 , HOH C:407 , HOH C:409 , HOH C:410 , HOH C:416 , HOH C:420 , HOH C:433 , HOH C:440 , HOH C:442 , HOH C:507 , HOH C:508 , HOH C:509BINDING SITE FOR RESIDUE 3QF C 301
08AC8SOFTWAREGLU C:122 , ASP C:123 , HOH C:402 , HOH C:406 , HOH C:407 , HOH C:409BINDING SITE FOR RESIDUE MG C 302
09AC9SOFTWAREASP C:182 , 3QF C:301 , HOH C:404 , HOH C:410 , HOH C:412 , HOH C:508BINDING SITE FOR RESIDUE MG C 303
10BC1SOFTWAREVAL D:64 , LEU D:65 , LYS D:66 , GLY D:67 , VAL D:90 , ASP D:126 , SER D:127 , GLY D:128 , THR D:130 , LYS D:154 , ASP D:174 , PHE D:175 , VAL D:176 , ASP D:182 , ARG D:188 , MG D:303 , HOH D:401 , HOH D:402 , HOH D:403 , HOH D:404 , HOH D:405 , HOH D:406 , HOH D:413 , HOH D:420 , HOH D:421 , HOH D:471 , HOH D:479 , HOH D:513BINDING SITE FOR RESIDUE 3QF D 301
11BC2SOFTWAREGLU D:122 , ASP D:123 , HOH D:401 , HOH D:402 , HOH D:404 , HOH D:406BINDING SITE FOR RESIDUE MG D 302
12BC3SOFTWAREASP D:182 , 3QF D:301 , HOH D:403 , HOH D:405 , HOH D:409 , HOH D:534BINDING SITE FOR RESIDUE MG D 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:65 -Lys A:66
2Leu B:65 -Lys B:66
3Leu C:65 -Lys C:66
4Leu D:65 -Lys D:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RHX)

(-) 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:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeehhhhhhhhhhhhhhhhhhhh.hhhhhhh..eeeeee...hhhhhhhhhhhh...eeeeeeee..........eee.........eeeeeeeee..hhhhhhhhhhhhh....eeeeeeeee.hhhhhh.....eeeee.....ee...............eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rhx A  17 ELYPGDIKSVLLTAEQIQARIAELGEQIGNDYRELSATTGQDLLLITVLKGAVLFVTDLARAIPVPTQFEFMAVSSYGSSGVVRILKDLDRDIHGRDVLIVEDVVDSGLTLSWLSRNLTSRNPRSLRVCTLLRKPDAVHANVEIAYVGFDIPNDFVVGYGLDYDERYRDLSYIGTLDPRVY 201
                                    26        36        46        56        66        76        86       100       110       120       130       140       150       160       170       180       190       200 
                                                                                                        94|                                                                                                      
                                                                                                         99                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeehhhhhhhhhhhhhhhhhhhh........eeeeee...hhhhhhhhhhhh...eeeeeeee....eee.........eeeeeeeee..hhhhhhhhhhhhh....eeeeeeeee.hhhhhh.....eeeee.....ee...............eeee.hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rhx B  16 AELYPGDIKSVLLTAEQIQARIAELGEQIGNDYRSATTGQDLLLITVLKGAVLFVTDLARAIPVPTQFEFMAVSSVRILKDLDRDIHGRDVLIVEDVVDSGLTLSWLSRNLTSRNPRSLRVCTLLRKPDAVHANVEIAYVGFDIPNDFVVGYGLDYDERYRDLSYIGTLDPRVYQ 202
                                    25        35        45   ||   57        67        77        87    || 107       117       127       137       147       157       167       177       187       197     
                                                            49|                                      92|                                                                                                   
                                                             52                                      103                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhh...eeeeeeee....eee.........eeeeeeeee..hhhhhhhhhhhhh....eeeeeeeee.hhhh......eeeee.....ee...............eeee.hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rhx C  16 AELYPGDIKSVLLTAEQIQARIAELGEQIGNDYRELSATTGQDLLLITVLKGAVLFVTDLARAIPVPTQFEFMAVSSVRILKDLDRDIHGRDVLIVEDVVDSGLTLSWLSRNLTSRNPRSLRVCTLLRKPDAVHNVEIAYVGFDIPNDFVVGYGLDYDERYRDLSYIGTLDPRVYQ 202
                                    25        35        45        55        65        75        85      |105       115       125       135       145       155   ||  166       176       186       196      
                                                                                                       92|                                                     159|                                         
                                                                                                       103                                                      161                                         


Chain D from PDB  Type:PROTEIN  Length:174
                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhh.....eeeeeeee....eee.........eeeeeeeee..hhhhhhhhhhhhh....eeeeeeeeehhhhhhh.....eeeee.....ee...............eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4rhx D  18 LYPGDIKSVLLTAEQIQARIAELGEQIGNDYRELSATTGQDLLLITVLKGAVLFVTDLARAIPVPTQFEFMAVSSVRILKDLDRDIHGRDVLIVEDVVDSGLTLSWLSRNLTSRNPRSLRVCTLLRKPDAVHANVEIAYVGFDIPNDFVVGYGLDYDERYRDLSYIGTLDPRVY 201
                                    27        37        47        57        67        77        87    || 107       117       127       137       147       157       167       177       187       197    
                                                                                                     92|                                                                                                  
                                                                                                     103
   Legend:   → Mismatch (orange background)
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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 4RHX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 20)

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 Related Entries

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