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(-) Description

Title :  CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYA IN COMPLEX WITH UMP AND PEMETREXED
 
Authors :  M. C. M. Reddy, J. B. Bruning, W. Harshbarger, J. C. Sacchettini
Date :  25 Jun 12  (Deposition) - 07 Aug 13  (Release) - 07 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Folate Binding, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. C. M. Reddy, J. B. Bruning, W. Harshbarger, J. C. Sacchettini
Crystal Structure Of Binary And Ternary Complexes Of Thymidylate Synthase (Thya) From Mycobacterium Tuberculosis Insights Into The Selectivity And Mode Of Inhibition
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - THYMIDYLATE SYNTHASE
    Chains: A, B
    EC Number: 2.1.1.45
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MT2834, MTV002.29C, RV2764C, THYA
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Synonym: TS, TSASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1LYA2Ligand/Ion2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-PENTANEDIOICACID
2UMP2Ligand/Ion2'-DEOXYURIDINE 5'-MONOPHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:21 , TYR A:94 , CYS A:146 , HIS A:147 , GLN A:165 , ARG A:166 , SER A:167 , ALA A:168 , ASP A:169 , ASN A:177 , HIS A:207 , TYR A:209 , LYA A:302 , HOH A:405 , HOH A:407 , ARG B:126 , ARG B:127BINDING SITE FOR RESIDUE UMP A 301
2AC2SOFTWAREGLU A:58 , ILE A:79 , TRP A:80 , TRP A:83 , LEU A:143 , ASP A:169 , LEU A:172 , GLY A:173 , PHE A:176 , VAL A:261 , ALA A:262 , UMP A:301 , HOH A:404 , HOH A:413 , HOH A:426 , HOH A:429 , HOH A:433 , HOH A:436 , HOH A:443 , HOH A:469 , HOH A:541 , HOH A:805 , HOH A:867 , HOH A:880BINDING SITE FOR RESIDUE LYA A 302
3AC3SOFTWAREARG A:126 , ARG A:127 , ARG B:21 , TYR B:94 , CYS B:146 , HIS B:147 , GLN B:165 , ARG B:166 , SER B:167 , ALA B:168 , ASP B:169 , ASN B:177 , HIS B:207 , TYR B:209 , LYA B:302 , HOH B:411 , HOH B:430BINDING SITE FOR RESIDUE UMP B 301
4AC4SOFTWAREGLU B:58 , ILE B:79 , TRP B:80 , TRP B:83 , LEU B:143 , ASP B:169 , LEU B:172 , GLY B:173 , PHE B:176 , TYR B:209 , VAL B:261 , ALA B:262 , UMP B:301 , HOH B:416 , HOH B:420 , HOH B:424 , HOH B:426 , HOH B:428 , HOH B:433 , HOH B:454 , HOH B:455 , HOH B:468 , HOH B:540 , HOH B:636 , HOH B:842BINDING SITE FOR RESIDUE LYA B 302

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FQS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FQS)

(-) Sequences/Alignments

Asymmetric/Biological 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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains d4fqsa_ A: automated matches                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhheee.......eeeeeeeeeeee.hhh.........hhhhhhhhhhhhhhh...hhhhhhh....hhhhh........hhhhhhhhee.....eehhhhhhhhhhhhh......eee.....hhhhh.....eeeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeeeee..hhhhhhhhhh.......eeee....hhhhhhhh.eeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fqs A   1 MTPYEDLLRFVLETGTPKSDRTGTGTRSLFGQQMRYDLSAGFPLLTTKKVHFKSVAYELLWFLRGDSNIGWLHEHGVTIWDEWASDTGELGPIYGVQWRSWPAPSGEHIDQISAALDLLRTDPDSRRIIVSAWNVGEIERMALPPCHAFFQFYVADGRLSCQLYQRSADLFLGVPFNIASYALLTHMMAAQAGLSVGEFIWTGGDCHIYDNHVEQVRLQLSREPRPYPKLLLADRDSIFEYTYEDIVVKNYDPHPAIKAPVAV 263
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260   


Chain B from PDB  Type:PROTEIN  Length:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains d4fqsb_ B: automated matches                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhheee.......eeeeeeeeeeee.hhh.........hhhhhhhhhhhhhh....hhhhhhh....hhhhh........hhhhhhhhee.....eehhhhhhhhhhhhh......eee..hhhhhhhh.....eeeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeeeee..hhhhhhhhhh.......eeee....hhhhhhhh.eeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fqs B   1 MTPYEDLLRFVLETGTPKSDRTGTGTRSLFGQQMRYDLSAGFPLLTTKKVHFKSVAYELLWFLRGDSNIGWLHEHGVTIWDEWASDTGELGPIYGVQWRSWPAPSGEHIDQISAALDLLRTDPDSRRIIVSAWNVGEIERMALPPCHAFFQFYVADGRLSCQLYQRSADLFLGVPFNIASYALLTHMMAAQAGLSVGEFIWTGGDCHIYDNHVEQVRLQLSREPRPYPKLLLADRDSIFEYTYEDIVVKNYDPHPAIKAPVAV 263
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260
   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  (1, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 17)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        TYSY_MYCTO | P9WFR8: 3qj7 4foa 4fog 4fox
        TYSY_MYCTU | P9WFR9: 3qj7 4foa 4fog 4fox

(-) Related Entries Specified in the PDB File

3qj7 CRYSTAL STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE SYNTHASE (THYA) BOUND TO DUMP
4foa 'CRYSTAL STRUCTURE OF THE MTB THYA IN COMPLEX WITH 5-FLUORO -DUMP'
4fog 'CRYSTAL STRUCTURE OF MTB THYA IN COMPLEX WITH 5-FLUORO- DUMP AND 5-METHYLTETRAHYDROFOLIC ACID'
4fox 'CRYSTAL STRUCTURE OF MTB THYA IN COMPLEX WITH UMP AND RALTITREXED'