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(-) Description

Title :  PRPP COMPLEXED WITH TWO MN2+ IN THE ACTIVE SITE OF MYCOBACTERIUM TUBERCULOSIS ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE (ANPRT; TRPD)
 
Authors :  G. L. Evans, E. N. Baker, J. S. Lott, Tb Structural Genomics Consorti (Tbsgc)
Date :  24 Jun 15  (Deposition) - 29 Jun 16  (Release) - 29 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Anthranilate Phosphoribosyltransferase, Phosphoribosyl Pyrophosphate, Magnesium Binding, Tbsgc, Tb Structural Genomics Consortium, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. L. Evans, E. N. Baker, J. S. Lott
Binding And Mimicking Of The Phosphate-Rich Substrate, Prpp
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.2.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET23A
    Expression System Strain: C41(DE3)PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TRPD, RV2192C, MTCY190.03C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: ATCC 25618 / H37RV

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1MN4Ligand/IonMANGANESE (II) ION
2PRP2Ligand/IonALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:119 , GLU A:252 , MN A:402 , PRP A:403 , HOH A:507 , HOH A:530binding site for residue MN A 401
2AC2SOFTWAREASP A:251 , GLU A:252 , MN A:401 , HOH A:507 , HOH A:520 , HOH A:529 , HOH A:602binding site for residue MN A 402
3AC3SOFTWAREVAL A:106 , GLY A:107 , GLY A:109 , GLY A:110 , ASN A:117 , LEU A:118 , SER A:119 , THR A:120 , LYS A:135 , ASN A:138 , ARG A:139 , ALA A:140 , ALA A:141 , SER A:142 , SER A:143 , GLY A:146 , GLY A:147 , GLU A:252 , MN A:401 , HOH A:507 , HOH A:520 , HOH A:535 , HOH A:541 , HOH A:587 , HOH A:598 , HOH A:602 , HOH A:610binding site for residue PRP A 403
4AC4SOFTWAREASP B:251 , GLU B:252 , MN B:402 , HOH B:502 , HOH B:509 , HOH B:546 , HOH B:584 , HOH B:594binding site for residue MN B 401
5AC5SOFTWARESER B:119 , GLU B:252 , MN B:401 , PRP B:403 , HOH B:502 , HOH B:537binding site for residue MN B 402
6AC6SOFTWAREVAL B:106 , GLY B:107 , GLY B:109 , GLY B:110 , ASN B:117 , LEU B:118 , SER B:119 , THR B:120 , LYS B:135 , ASN B:138 , ARG B:139 , ALA B:140 , ALA B:141 , SER B:142 , SER B:143 , GLY B:146 , GLY B:147 , GLU B:252 , MN B:402 , HOH B:502 , HOH B:546 , HOH B:571 , HOH B:573 , HOH B:594binding site for residue PRP B 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5C7S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5C7S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C7S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C7S)

(-) Exons   (0, 0)

(no "Exon" information available for 5C7S)

(-) 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:344
                                                                                                                                                                                                                                                                                                                                                                                        
               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...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c7s A  24 VPSWPQILGRLTDNRDLARGQAAWAMDQIMTGNARPAQIAAFAVAMTMKAPTADEVGELAGVMLSHAHPLPADTVPDDAVDVVGTGGDGVNTVNLSTMAAIVVAAAGVPVVKHGNRAASSLSGGADTLEALGVRIDLGPDLVARSLAEVGIGFCFAPRFHPSYRHAAAVRREIGVPTVFNLLGPLTNPARPRAGLIGCAFADLAEVMAGVFAARRSSVLVVHGDDGLDELTTTTTSTIWRVAAGSVDKLTFDPAGFGFARAQLDQLAGGDAQANAAAVRAVLGGARGPVRDAVVLNAAGAIVAHAGLSSEWLPAWEEGLRRASAAIDTGAAEQLLARWVRFGRQ 369
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       335       345       355       365    
                                                                                                                                                                                                                                                                                                                                              332|                                  
                                                                                                                                                                                                                                                                                                                                               335                                  


Chain B from PDB  Type:PROTEIN  Length:343
                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh......hhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh............eeeee.........hhhhhhhhhhhhh...eeeee........hhhhhhhhh......hhhhhhhhhhhh.eeeeehhhhh..hhhhhhhhhhhh..hhhhhhhhhh......eeeee..hhhhhhhhhhhhhhh..eeeeeee............eeeeeee..eeeeeeehhhhhh....hhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c7s B  23 SVPSWPQILGRLTDNRDLARGQAAWAMDQIMTGNARPAQIAAFAVAMTMKAPTADEVGELAGVMLSHAHPLPADTVPDDAVDVVGTGGDGVNTVNLSTMAAIVVAAAGVPVVKHGNRAASSLSGGADTLEALGVRIDLGPDLVARSLAEVGIGFCFAPRFHPSYRHAAAVRREIGVPTVFNLLGPLTNPARPRAGLIGCAFADLAEVMAGVFAARRSSVLVVHGDDGLDELTTTTTSTIWRVAAGSVDKLTFDPAGFGFARAQLDQLAGGDAQANAAAVRAVLGGARGPVRDAVVLNAAGAIVAHAGLEWLPAWEEGLRRASAAIDTGAAEQLLARWVRFGRQ 369
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       336       346       356       366   
                                                                                                                                                                                                                                                                                                                                             330|                                  
                                                                                                                                                                                                                                                                                                                                              335
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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  (0, 0)

(no "SCOP Domain" information available for 5C7S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C7S)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C7S)

(-) Gene Ontology  (14, 14)

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

(-) Related Entries Specified in the PDB File

1zvw ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE WITH PRPP AND TWO MG2+ BOUND AT THE ACTIVE SITE, BUT DIFFERENT CRYSTALLIZATION CONDITIONS, SPACE GROUP AND UNIT CELL
2byt ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE WITH PRPP AND ONE MG2+ BOUND AT THE ACTIVE SITE IN SAME CRYSTALLIZATION CONDITIONS, BUT DIFFERENT SPACE GROUP AND UNIT CELL
3qr9 UNLIGANDED ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE IN SAME CRYSTALLIZATION CONDITIONS, BUT DIFFERENT SPACE GROUP AND UNIT CELL
5c1r ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE WITH STEREOISOMER OF PRPP AND TWO MG2+ BOUND IN THE ACTIVE SITE IN SAME CRYSTALLIZATION CONDITIONS, SPACE GROUP AND UNIT CELL
5c2l MG2+ SOAKED INTO ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE IN SAME CRYSTALLIZATION CONDITIONS, BUT DIFFERENT SPACE GROUP AND UNIT CELL