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(-) Description

Title :  STRUCTURE OF THE MT-ADPRASE IN COMPLEX WITH THREE MN2+ IONS AND AMPCPR, A NUDIX ENZYME
 
Authors :  L. -W. Kang, S. B. Gabelli, M. A. Bianchet, J. E. Cunningham, S. F. O'Hand L. M. Amzel
Date :  17 Sep 02  (Deposition) - 05 Aug 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Nudix Hydrolase, Rv1700, Adpr, Mycobacterium Tuberculosis, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. -W. Kang, S. B. Gabelli, J. E. Cunningham, S. F. O'Handley, L. M. Amze
Structure And Mechanism Of Mt-Adprase, A Nudix Hydrolase From Mycobacterium Tuberculosis
Structure V. 11 1015 2003
PubMed-ID: 12906832  |  Reference-DOI: 10.1016/S0969-2126(03)00154-0

(-) Compounds

Molecule 1 - ADPR PYROPHOSPHATASE
    Chains: A
    EC Number: 3.6.1.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11B
    Expression System Strain: BLR(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RV1700
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: ADPRASE, MUTT/NUDIX FAMILY PROTEIN, HYPOTHETICAL PROTEIN RV1700

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ADV1Ligand/IonALPHA-BETA METHYLENE ADP-RIBOSE
2MN3Ligand/IonMANGANESE (II) ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ADV2Ligand/IonALPHA-BETA METHYLENE ADP-RIBOSE
2MN-1Ligand/IonMANGANESE (II) ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:76 , GLU A:97 , ADV A:301 , MN A:402 , HOH A:406 , HOH A:412BINDING SITE FOR RESIDUE MN A 401
2AC2SOFTWAREGLU A:93 , GLU A:97 , GLU A:142 , ADV A:301 , MN A:401 , HOH A:407BINDING SITE FOR RESIDUE MN A 402
3AC3SOFTWAREARG A:92 , GLU A:93 , ADV A:301 , HOH A:404 , HOH A:405 , HOH A:407BINDING SITE FOR RESIDUE MN A 403
4AC4SOFTWAREARG A:37 , GLN A:62 , ARG A:64 , ALA A:76 , GLY A:77 , LEU A:78 , GLU A:93 , GLU A:97 , GLY A:116 , HIS A:139 , HIS A:140 , GLU A:142 , MN A:401 , MN A:402 , MN A:403 , HOH A:404 , HOH A:406 , HOH A:407 , HOH A:410 , HOH A:412 , HOH A:413BINDING SITE FOR RESIDUE ADV A 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MQW)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MQW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MQW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1MQW)

(-) Exons   (0, 0)

(no "Exon" information available for 1MQW)

(-) 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:200
 aligned with O33199_MYCTO | O33199 from UniProtKB/TrEMBL  Length:207

    Alignment length:200
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204
         O33199_MYCTO     5 DFETISSETLHTGAIFALRRDQVRMPGGGIVTREVVEHFGAVAIVAMDDNGNIPMVYQYRHTYGRRLWELPAGLLDVAGEPPHLTAARELREEVGLQASTWQVLVDLDTAPGFSDESVRVYLATGLREVGRPEAHHEEADMTMGWYPIAEAARRVLRGEIVNSIAIAGVLAVHAVTTGFAQPRPLDTEWIDRPTAFAARR 204
               SCOP domains d1mqwa_ A: ADP-ribose pyrophosphatase                                                                                                                                                                    SCOP domains
               CATH domains 1mqwA00 A:5-204 Nucleoside Triphosphate Pyrophosphohydrolase                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee...eeeeeeeee.....eeeeeeeee..eeeeee.....eeeeeeeee....eeeee..eee......hhhhhhhhhhhhhhheeeeeeeeeeee..........eeeeeeeeeee.......hhhhhheeeeeehhhhhhhhhh....hhhhhhhhhhhhhhhh................hhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mqw A   5 DFETISSETLHTGAIFALRRDQVRMPGGGIVTREVVEHFGAVAIVAMDDNGNIPMVYQYRHTYGRRLWELPAGLLDVAGEPPHLTAARELREEVGLQASTWQVLVDLDTAPGFSDESVRVYLATGLREVGRPEAHHEEADMTMGWYPIAEAARRVLRGEIVNSIAIAGVLAVHAVTTGFAQPRPLDTEWIDRPTAFAARR 204
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204
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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  (1, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1MQW)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (O33199_MYCTO | O33199)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0030145    manganese ion binding    Interacting selectively and non-covalently with manganese (Mn) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

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

UniProtKB/TrEMBL
        O33199_MYCTO | O33199: 1mk1 1mp2 1mqe 1mr2

(-) Related Entries Specified in the PDB File

1mk1 THE SAME PROTEIN COMPLEXED WITH ADPR
1mp2 THE SAME PROTEIN (APO ENZYME)
1mqw THE SAME PROTEIN COMPLEXED WITH THREE MN2+ IONS AND AMP-CP
1mr2 THE SAME PROTEIN COMPLEXED WITH 1 MN2+ ION AND AMP-CP