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(-) Description

Title :  BIANTHRANILATE-LIKE ANALOGUE BOUND IN THE OUTER SITE OF ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE (ANPRT; TRPD)
 
Authors :  G. L. Evans, E. N. Baker, J. S. Lott, Tb Structural Genomics Consorti (Tbsgc)
Date :  13 Aug 12  (Deposition) - 14 Aug 13  (Release) - 21 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.67
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Magnesium Binding, Phosphoribosylpyrophosphate, Prpp, Inhibitor Complex, Bi-Anthranilate-Like Analogue, Tb Structural Genomics Consortium, Tbsgc, Phosphoribosyltransferase, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. L. Evans, S. A. Gamage, E. M. Bulloch, E. N. Baker, W. A. Denny, J. S. Lott
Repurposing The Chemical Scaffold Of The Anti-Arthritic Dru Lobenzarit To Target Tryptophan Biosynthesis In Mycobacterium Tuberculosis.
Chembiochem V. 15 852 2014
PubMed-ID: 24623674  |  Reference-DOI: 10.1002/CBIC.201300628

(-) Compounds

Molecule 1 - ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.2.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23A
    Expression System Strain: BL21(DE3) PGROESL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MT2248, MTCY190.03C, RV2192C, TRPD
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 18)

Asymmetric/Biological Unit (5, 18)
No.NameCountTypeFull Name
16832Ligand/Ion2-[(2-CARBOXYPHENYL)AMINO]-5-METHYLBENZOIC ACID
2DMS3Ligand/IonDIMETHYL SULFOXIDE
3GOL7Ligand/IonGLYCEROL
4MG4Ligand/IonMAGNESIUM ION
5PRP2Ligand/IonALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:106 , GLY A:107 , GLY A:109 , GLY A:110 , ASN A:117 , SER A:119 , THR A:120 , LYS A:135 , ASN A:138 , ALA A:141 , SER A:142 , SER A:143 , GLY A:146 , GLY A:147 , GLU A:252 , MG A:402 , MG A:403 , GOL A:407 , HOH A:679 , HOH A:681 , HOH A:683 , HOH A:697 , HOH A:705 , HOH A:711 , HOH A:713BINDING SITE FOR RESIDUE PRP A 401
02AC2SOFTWARESER A:119 , GLU A:252 , PRP A:401 , MG A:403 , HOH A:677 , HOH A:679BINDING SITE FOR RESIDUE MG A 402
03AC3SOFTWAREASP A:251 , GLU A:252 , PRP A:401 , MG A:402 , HOH A:679 , HOH A:680 , HOH A:681 , HOH A:682BINDING SITE FOR RESIDUE MG A 403
04AC4SOFTWAREASN A:138 , ALA A:179 , PRO A:180 , HIS A:183 , TYR A:186 , ARG A:187 , ALA A:190 , ARG A:193 , ARG A:194 , GLY A:206 , GOL A:407 , HOH A:684BINDING SITE FOR RESIDUE 683 A 404
05AC5SOFTWAREARG A:263 , VAL A:325 , ALA A:334 , TRP A:336BINDING SITE FOR RESIDUE GOL A 405
06AC6SOFTWAREGLY A:43 , ALA A:46 , TRP A:47 , GLU B:342 , ARG B:346BINDING SITE FOR RESIDUE GOL A 406
07AC7SOFTWAREVAL A:106 , GLY A:107 , ASN A:138 , GLY A:206 , PRP A:401 , 683 A:404BINDING SITE FOR RESIDUE GOL A 407
08AC8SOFTWAREARG A:215 , ARG A:238 , ALA A:266 , GLY A:329 , LEU A:330BINDING SITE FOR RESIDUE DMS A 408
09AC9SOFTWAREGLY B:107 , GLY B:109 , GLY B:110 , ASN B:117 , SER B:119 , THR B:120 , LYS B:135 , ASN B:138 , ALA B:140 , ALA B:141 , SER B:142 , SER B:143 , GLY B:146 , GLY B:147 , GLU B:252 , MG B:402 , MG B:403 , GOL B:407 , HOH B:702 , HOH B:706 , HOH B:707 , HOH B:712 , HOH B:713 , HOH B:714 , HOH B:740 , HOH B:745BINDING SITE FOR RESIDUE PRP B 401
10BC1SOFTWARESER B:119 , GLU B:252 , PRP B:401 , MG B:403 , HOH B:702 , HOH B:703BINDING SITE FOR RESIDUE MG B 402
11BC2SOFTWAREASP B:251 , GLU B:252 , PRP B:401 , MG B:402 , HOH B:702 , HOH B:704 , HOH B:705 , HOH B:706BINDING SITE FOR RESIDUE MG B 403
12BC3SOFTWAREASN B:138 , ALA B:179 , PRO B:180 , HIS B:183 , TYR B:186 , ARG B:187 , ALA B:190 , ARG B:193 , ARG B:194 , GLY B:206 , GOL B:407 , HOH B:584BINDING SITE FOR RESIDUE 683 B 404
13BC4SOFTWAREARG B:263 , VAL B:325 , ALA B:328 , GLY B:329 , HOH B:722BINDING SITE FOR RESIDUE GOL B 405
14BC5SOFTWAREGLU A:342 , ARG A:346 , GLY B:43 , ALA B:46 , TRP B:47 , ASP B:50 , HOH B:663BINDING SITE FOR RESIDUE GOL B 406
15BC6SOFTWAREVAL B:106 , GLY B:107 , HIS B:136 , ASN B:138 , GLY B:206 , PRO B:207 , PRP B:401 , 683 B:404BINDING SITE FOR RESIDUE GOL B 407
16BC7SOFTWAREARG A:237 , ARG A:238 , LEU B:305 , GLY B:306 , GLY B:307 , ILE B:351 , GLU B:357 , HOH B:568BINDING SITE FOR RESIDUE GOL B 408
17BC8SOFTWAREARG B:215 , ARG B:238 , ALA B:266 , GLY B:329BINDING SITE FOR RESIDUE DMS B 409
18BC9SOFTWAREPRO B:99 , ALA B:212 , ARG B:213 , HOH B:613BINDING SITE FOR RESIDUE DMS B 410

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GKM)

(-) 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:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh......hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh............eeeee.........hhhhhhhhhhhhh...eeeee........hhhhhhhhhh.....hhhhhhhhhhhhheeeeehhhhh..hhhhhhhhhhhh..hhhhhhhhhh......eeeee.....hhhhhhhhhhhh..eeeeeee............eeeeeee..eeeeeeehhhhhh....hhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gkm A  25 PSWPQILGRLTDNRDLARGQAAWAMDQIMTGNARPAQIAAFAVAMTMKAPTADEVGELAGVMLSHAHPLPADTVPDDAVDVVGTGGDGVNTVNLSTMAAIVVAAAGVPVVKHGNRAASSLSGGADTLEALGVRIDLGPDLVARSLAEVGIGFCFAPRFHPSYRHAAAVRREIGVPTVFNLLGPLTNPARPRAGLIGCAFADLAEVMAGVFAARRSSVLVVHGDDGLDELTTTTTSTIWRVAAGSVDKLTFDPAGFGFARAQLDQLAGGDAQANAAAVRAVLGGARGPVRDAVVLNAAGAIVAHAGLSSRAEWLPAWEEGLRRASAAIDTGAAEQLLARWVRFGRQI 370
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364      


Chain B from PDB  Type:PROTEIN  Length:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh......hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh............eeeee.........hhhhhhhhhhhhh...eeeee........hhhhhhhhh......hhhhhhhhhhhhheeeeehhhhh..hhhhhhhhhhhh..hhhhhhhhhh......eeeee.....hhhhhhhhhhhh..eeeeeee............eeeeeee..eeeeeeehhhhhh....hhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gkm B  25 PSWPQILGRLTDNRDLARGQAAWAMDQIMTGNARPAQIAAFAVAMTMKAPTADEVGELAGVMLSHAHPLPADTVPDDAVDVVGTGGDGVNTVNLSTMAAIVVAAAGVPVVKHGNRAASSLSGGADTLEALGVRIDLGPDLVARSLAEVGIGFCFAPRFHPSYRHAAAVRREIGVPTVFNLLGPLTNPARPRAGLIGCAFADLAEVMAGVFAARRSSVLVVHGDDGLDELTTTTTSTIWRVAAGSVDKLTFDPAGFGFARAQLDQLAGGDAQANAAAVRAVLGGARGPVRDAVVLNAAGAIVAHAGLSSRAEWLPAWEEGLRRASAAIDTGAAEQLLARWVRFGRQI 370
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364
   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 4GKM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 23)

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
        TRPD_MYCTO | P9WFX4: 1zvw 2bpq 3qqs 3qr9 3qs8 3qsa 3r6c 3r88 3twp 3uu1 4giu 4ij1 4m0r 4n5v 4n8q 4n93 4owm 4own 4owo 4owq 4ows 4owu 4owv
        TRPD_MYCTU | P9WFX5: 1zvw 2bpq 3qqs 3qr9 3qs8 3qsa 3r6c 3r88 3twp 3uu1 4giu 4ij1 4m0r 4n5v 4n8q 4n93 4owm 4own 4owo 4owq 4ows 4owu 4owv 4x58 4x59 4x5a 4x5b 4x5c 4x5d 4x5e 5bne 5byt 5c1r 5c2l 5c7s

(-) Related Entries Specified in the PDB File

4giu THE SAME PROTEIN COMPLEXED WITH A DIFFERENT INHIBITOR. RELATED ID: TB-RV2192C RELATED DB: TARGETTRACK