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(-) Description

Title :  MEAB, A BACTERIAL HOMOLOG OF MMAA, IN THE NUCLEOTIDE FREE FORM
 
Authors :  P. A. Hubbard, D. Padovani, T. Labunska, S. A. Mahlstedt, R. Banerjee, C. L. Drennan
Date :  14 Jul 07  (Deposition) - 28 Aug 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  G Protein, Gtpase, G3E, Metallochaperone, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. A. Hubbard, D. Padovani, T. Labunska, S. A. Mahlstedt, R. Banerjee, C. L. Drennan
Crystal Structure And Mutagenesis Of The Metallochaperone Meab: Insight Into The Causes Of Methylmalonic Aciduria.
J. Biol. Chem. V. 282 31308 2007
PubMed-ID: 17728257  |  Reference-DOI: 10.1074/JBC.M704850200

(-) Compounds

Molecule 1 - GTPASE/ATPASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21D
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MEAB
    Mutation: YES
    Organism Scientific: METHYLOBACTERIUM EXTORQUENS
    Organism Taxid: 272630
    Strain: AM1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 16)

Asymmetric/Biological Unit (2, 16)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
2PO44Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:64 , GLY A:65 , VAL A:66 , GLY A:67 , LYS A:68 , SER A:69 , HOH A:1531 , HOH A:1618 , HOH A:1847 , HOH A:1982BINDING SITE FOR RESIDUE PO4 A 1501
2AC2SOFTWAREARG A:38 , ARG A:42 , ARG A:287 , HOH A:1539 , HOH A:1816 , HOH A:1834BINDING SITE FOR RESIDUE PO4 A 1502
3AC3SOFTWAREARG A:20 , LYS A:106 , ARG A:121BINDING SITE FOR RESIDUE PO4 A 1503
4AC4SOFTWAREVAL B:63 , GLY B:65 , VAL B:66 , GLY B:67 , LYS B:68 , SER B:69 , HOH B:1531 , HOH B:1598 , HOH B:1643BINDING SITE FOR RESIDUE PO4 B 1500

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QM8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QM8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QM8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2QM8)

(-) Exons   (0, 0)

(no "Exon" information available for 2QM8)

(-) 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:320
 aligned with Q8RPA0_METEX | Q8RPA0 from UniProtKB/TrEMBL  Length:329

    Alignment length:326
                                    13        23        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      
         Q8RPA0_METEX     4 TLPDMDTLRERLLAGDRAALARAITLAESRRADHRAAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETMLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGILELADMIAVNKADDGDGERRASAAASEYRAALRILTPPSATWTPPVVTISGLHGKGLDSLWSRIEGHRSKLTATGEIAGKRREQDVKWMWALVHERLHQRLVGSAEVRQATAEAERAVAGGEHSPAAGADAIATLIGL 329
               SCOP domains d2qm8a_ A: Metallochaperone MeaB                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 2qm8A01 A:4-52                                   2qm8A02 A:53-264 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                               ----------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhh...eeeeeehhhhhh.......hhhhh.hhhhh..eeee......hhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhh...eeeeee....------...hhhhhh.eeeee......hhhhhhhhhhhhhhhhh............eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2qm8 A   4 TLPDmDTLRERLLAGDRAALARAITLAESRRADHRAAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRmARLAIDRNAFIRPSPSSGTLGGVAAKTRETmLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLmLPGA------IKKGIFELADmIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTATGEIAGKRREQDVKWmWALVHERLHQRLVGSAEVRQATAEAERAVAGGEHSPAAGADAIATLIGL 329
                                |   13        23        33        43        53        63        73        83        93       103     | 113       123       133      |143       153       163       173  |   |  -   |   193   |   203       213       223       233       243       253       263       273      |283       293       303       313       323      
                                |                                                                                                  109-MSE                        140-MSE                             176-MSE    187       197-MSE                                                                            280-MSE                                             
                                8-MSE                                                                                                                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:318
 aligned with Q8RPA0_METEX | Q8RPA0 from UniProtKB/TrEMBL  Length:329

    Alignment length:324
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325    
         Q8RPA0_METEX     6 PDMDTLRERLLAGDRAALARAITLAESRRADHRAAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETMLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGILELADMIAVNKADDGDGERRASAAASEYRAALRILTPPSATWTPPVVTISGLHGKGLDSLWSRIEGHRSKLTATGEIAGKRREQDVKWMWALVHERLHQRLVGSAEVRQATAEAERAVAGGEHSPAAGADAIATLIGL 329
               SCOP domains d2qm8b_ B: Metallochaperone MeaB                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 2qm8B01 B:6-52                                 2qm8B02 B:53-264 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                               ----------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------ArgK-2qm8B01 B:23-297                                                                                                                                                                                                                                                              -------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------ArgK-2qm8B02 B:23-297                                                                                                                                                                                                                                                              -------------------------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhh...eeeeee..hhhhhh......hhhhhhhhh...eee.......hhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhh...eeeeee...hhhhh.....hhhhhh.eeee...------hhhhhhhhhhhhhhhhhh.........eee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2qm8 B   6 PDmDTLRERLLAGDRAALARAITLAESRRADHRAAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRmARLAIDRNAFIRPSPSSGTLGGVAAKTRETmLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLmLPGAGDELQGIKKGIFELADmIAVNKA------RRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTATGEIAGKRREQDVKWmWALVHERLHQRLVGSAEVRQATAEAERAVAGGEHSPAAGADAIATLIGL 329
                              |     15        25        35        45        55        65        75        85        95       105   |   115       125       135    |  145       155       165       175|      185       195 |     | -    |  215       225       235       245       255       265       275    |  285       295       305       315       325    
                              8-MSE                                                                                              109-MSE                        140-MSE                             176-MSE              197-MSE03    210                                                                   280-MSE
   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) (23833)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: P-loop_NTPase (1112)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8RPA0_METEX | Q8RPA0)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0003924    GTPase activity    Catalysis of the reaction: GTP + H2O = GDP + phosphate.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8RPA0_METEX | Q8RPA0: 2qm7

(-) Related Entries Specified in the PDB File

2hf8 HYPB - A DISTANTLY RELATED G3E GTPASE
2hf9 HYPB - A DISTANTLY RELATED G3E GTPASE
2qm7 MEAB BOUND TO GDP