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(-) Description

Title :  MYCOBACTERIUM TUBERCULOSIS DIHYDROFOLATE REDUCTASE COMPLEXED WITH BETA- NADPH AND 3'-(3-(2,4-DIAMINO-6-ETHYLPYRIMIDIN-5-YL)PROP-2-YN-1-YL)-4'-METHOXY-[1,1'-B IPHENYL]-4-CARBOXYLIC ACID (UCP1106)
 
Authors :  B. Hajian, A. C. Anderson
Date :  11 Apr 16  (Deposition) - 24 Aug 16  (Release) - 14 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.81
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Dhfr, Antifolate, Folate Pathway, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Hajian, E. Scocchera, S. Keshipeddy, N. G-Dayanandan, C. Shoen, J. Krucinska, S. Reeve, M. Cynamon, A. C. Anderson, D. L. Wright
Propargyl-Linked Antifolates Are Potent Inhibitors Of Drug-Sensitive And Drug-Resistant Mycobacterium Tuberculosis.
Plos One V. 11 61740 2016
PubMed-ID: 27580226  |  Reference-DOI: 10.1371/JOURNAL.PONE.0161740

(-) Compounds

Molecule 1 - DIHYDROFOLATE REDUCTASE
    Chains: A, B, C, D
    EC Number: 1.5.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET41-A+
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: FOLA, DFRA, MT2833
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Strain: CDC 1551 / OSHKOSH

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric/Biological Unit (2, 8)
No.NameCountTypeFull Name
1NDP4Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
2U064Ligand/Ion4-[3-[3-[2,4-BIS(AZANYL)-6-ETHYL-PYRIMIDIN-5-YL]PROP-2-YNYL]-4-METHOXY-PHENYL]BENZOIC ACID

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:6 , ALA A:7 , ILE A:14 , GLY A:15 , GLY A:18 , ASP A:19 , ILE A:20 , GLY A:43 , ARG A:44 , ARG A:45 , THR A:46 , LEU A:65 , SER A:66 , ARG A:67 , GLN A:68 , GLY A:80 , ILE A:94 , GLY A:95 , GLY A:96 , GLY A:97 , GLN A:98 , VAL A:99 , TYR A:100 , LEU A:102 , ALA A:126 , U06 A:202binding site for residue NDP A 201
2AC2SOFTWAREILE A:5 , TRP A:6 , ALA A:7 , ASP A:19 , ILE A:20 , ASP A:27 , GLN A:28 , PHE A:31 , ARG A:32 , SER A:49 , LEU A:50 , PRO A:51 , LEU A:57 , ARG A:60 , ILE A:94 , TYR A:100 , NDP A:201 , HOH A:307binding site for residue U06 A 202
3AC3SOFTWARETRP B:6 , ALA B:7 , ILE B:14 , GLY B:15 , GLY B:18 , ASP B:19 , ILE B:20 , GLY B:43 , ARG B:44 , ARG B:45 , THR B:46 , LEU B:65 , SER B:66 , ARG B:67 , GLN B:68 , GLY B:95 , GLY B:96 , GLY B:97 , GLN B:98 , VAL B:99 , TYR B:100 , LEU B:102 , ALA B:126 , U06 B:202 , HOH B:308binding site for residue NDP B 201
4AC4SOFTWAREILE B:5 , TRP B:6 , ILE B:20 , ASP B:27 , GLN B:28 , PHE B:31 , ARG B:32 , SER B:49 , PRO B:51 , ILE B:94 , GLY B:95 , TYR B:100 , NDP B:201 , HOH B:304binding site for residue U06 B 202
5AC5SOFTWARETRP C:6 , ALA C:7 , ILE C:14 , GLY C:15 , GLY C:18 , ASP C:19 , ILE C:20 , GLY C:43 , ARG C:44 , ARG C:45 , THR C:46 , SER C:49 , LEU C:65 , SER C:66 , ARG C:67 , GLY C:80 , ILE C:94 , GLY C:96 , GLY C:97 , GLN C:98 , VAL C:99 , TYR C:100 , LEU C:102 , U06 C:202 , SER D:147binding site for residue NDP C 201
6AC6SOFTWAREILE C:5 , TRP C:6 , ALA C:7 , ASP C:19 , ILE C:20 , ASP C:27 , GLN C:28 , PHE C:31 , ARG C:32 , SER C:49 , LEU C:57 , ARG C:60 , ILE C:94 , TYR C:100 , NDP C:201binding site for residue U06 C 202
7AC7SOFTWARETRP D:6 , ALA D:7 , ILE D:14 , GLY D:18 , ASP D:19 , ILE D:20 , GLY D:43 , ARG D:44 , ARG D:45 , THR D:46 , LEU D:65 , SER D:66 , ARG D:67 , ILE D:94 , GLY D:95 , GLY D:96 , GLY D:97 , GLN D:98 , VAL D:99 , TYR D:100 , LEU D:102 , ALA D:126 , U06 D:202binding site for residue NDP D 201
8AC8SOFTWAREILE D:5 , TRP D:6 , ALA D:7 , ASP D:19 , ILE D:20 , ASP D:27 , GLN D:28 , PHE D:31 , ARG D:32 , SER D:49 , LEU D:50 , PRO D:51 , LEU D:57 , ARG D:60 , ILE D:94 , TYR D:100 , NDP D:201 , HOH D:307binding site for residue U06 D 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5JA3)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Arg A:55 -Pro A:56
2Arg B:55 -Pro B:56
3Arg C:55 -Pro C:56
4Arg D:55 -Pro D:56

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5JA3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5JA3)

(-) Exons   (0, 0)

(no "Exon" information available for 5JA3)

(-) 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:159
                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...eee........hhhhhhhhhhhhh..eeeeehhhhhhhhhhhh.....eeeee...........eee.hhhhhh....eeeeehhhhhhhhhhhh.eeeeeee..........ee........eeee...ee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ja3 A   1 MVGLIWAQATSGVIGRGGDIPWRLPEDQAHFREITMGHTIVMGRRTWDSLPAKVRPLPGRRNVVLSRQADFMASGAEVVGSLEEALTSPETWVIGGGQVYALALPYATRCEVTEVDIGLPREAGDALAPVLDETWRGETGEWRFSRSGLRYRLYSYHRS 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         


Chain B from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...eee........hhhhhhhhhhhhh..eeeeehhhhhhhhhhhh.....eeeee...........eee.hhhhhh....eee..hhhhhhhhhhhh.eeeeeeee.........ee........eeee...ee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ja3 B   1 MVGLIWAQATSGVIGRGGDIPWRLPEDQAHFREITMGHTIVMGRRTWDSLPAKVRPLPGRRNVVLSRQADFMASGAEVVGSLEEALTSPETWVIGGGQVYALALPYATRCEVTEVDIGLPREAGDALAPVLDETWRGETGEWRFSRSGLRYRLYSYHRS 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         


Chain C from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...eee........hhhhhhhhhhhhh..eeeeehhhhhhhhhhhh.....eeeee...........eee.hhhhhh....eeeeehhhhhhhhhhhh.eeeeeee..........ee........eeee...ee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ja3 C   1 MVGLIWAQATSGVIGRGGDIPWRLPEDQAHFREITMGHTIVMGRRTWDSLPAKVRPLPGRRNVVLSRQADFMASGAEVVGSLEEALTSPETWVIGGGQVYALALPYATRCEVTEVDIGLPREAGDALAPVLDETWRGETGEWRFSRSGLRYRLYSYHRS 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         


Chain D from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...eee........hhhhhhhhhhhhh..eeeeehhhhhhhhhhhh.....eeeee...........eee.hhhhhh....eeeeehhhhhhhhh..eeeeeeeee..........ee........eeee...ee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ja3 D   1 MVGLIWAQATSGVIGRGGDIPWRLPEDQAHFREITMGHTIVMGRRTWDSLPAKVRPLPGRRNVVLSRQADFMASGAEVVGSLEEALTSPETWVIGGGQVYALALPYATRCEVTEVDIGLPREAGDALAPVLDETWRGETGEWRFSRSGLRYRLYSYHRS 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   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 5JA3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5JA3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5JA3)

(-) Gene Ontology  (9, 17)

Asymmetric/Biological Unit(hide GO term definitions)

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  1.5.1.3
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 Related Entries

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

UniProtKB/Swiss-Prot
        DYR_MYCTO | P9WNX0: 1df7 1dg5 1dg7 1dg8 2cig 4kl9 4klx 4km0 4km2 4kne 4m2x
        DYR_MYCTU | P9WNX1: 1df7 1dg5 1dg7 1dg8 2cig 4kl9 4klx 4km0 4km2 4kne 4m2x 5u26 5u27 5ujf

(-) Related Entries Specified in the PDB File

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