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(-) Description

Title :  CRYSTAL STRUCTURE OF ATP BOUND MATB FROM RHODOPSEUDOMONAS PALUSTRIS
 
Authors :  K. C. Rank, H. A. Crosby, J. C. Escalante-Semerena, I. Rayment
Date :  28 Jun 12  (Deposition) - 25 Jul 12  (Release) - 12 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Anl Superfamily, Methymalonyl-Coa Synthetase, Coa, Methylmalonate, Malonate, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. A. Crosby, K. C. Rank, I. Rayment, J. C. Escalante-Semerena
Structure-Guided Expansion Of The Substrate Range Of Methylmalonyl Coenzyme A Synthetase (Matb) Of Rhodopseudomonas Palustris.
Appl. Environ. Microbiol. V. 78 6619 2012
PubMed-ID: 22773649  |  Reference-DOI: 10.1128/AEM.01733-12

(-) Compounds

Molecule 1 - MALONYL COA SYNTHETASE
    Chains: A
    EC Number: 6.2.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTEV5
    Expression System Strain: JE9314
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: MATB
    Gene: MATB, RPA0221
    Mutation: YES
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 258594
    Strain: CGA009

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 36)

Asymmetric/Biological Unit (4, 36)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2GOL6Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
4MLY28Mod. Amino AcidN-DIMETHYL-LYSINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:8 , HOH A:937 , HOH A:1103BINDING SITE FOR RESIDUE GOL A 601
2AC2SOFTWARETHR A:368 , PHE A:372 , HOH A:1306BINDING SITE FOR RESIDUE GOL A 602
3AC3SOFTWAREALA A:282 , ARG A:286 , HOH A:1192BINDING SITE FOR RESIDUE GOL A 603
4AC4SOFTWAREALA A:325 , LEU A:326 , GLY A:328 , VAL A:329 , HOH A:787 , HOH A:1018 , HOH A:1033 , HOH A:1299BINDING SITE FOR RESIDUE GOL A 604
5AC5SOFTWAREPRO A:204 , THR A:251 , ARG A:255 , THR A:485 , GLY A:487BINDING SITE FOR RESIDUE GOL A 605
6AC6SOFTWAREVAL A:52 , ARG A:152BINDING SITE FOR RESIDUE GOL A 606
7AC7SOFTWAREATP A:608 , HOH A:775 , HOH A:802 , HOH A:1064 , HOH A:1065BINDING SITE FOR RESIDUE MG A 607
8AC8SOFTWARETHR A:163 , SER A:164 , GLY A:165 , THR A:166 , THR A:167 , HIS A:207 , SER A:277 , ALA A:278 , PRO A:279 , GLU A:298 , ARG A:299 , GLY A:301 , MET A:302 , THR A:303 , VAL A:322 , ASP A:382 , ILE A:394 , ARG A:397 , MG A:607 , HOH A:713 , HOH A:735 , HOH A:775 , HOH A:802 , HOH A:882 , HOH A:886 , HOH A:1065 , HOH A:1067 , HOH A:1168 , HOH A:1242BINDING SITE FOR RESIDUE ATP A 608

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FUT)

(-) 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:503
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains d4futa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh.......eeee.....eeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeee...hhhhhhhhhhh...eeee......hhhhhhhhhh.............eeeeee.........eeeeehhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhhh.eeee....hhhhhhhhhh...eeeehhhhhhhhh.....hhhhhh...eeee.....hhhhhhhhhhhhh...eeeeee...eeeee...................eeeee.............eeeeee..........hhhhhhhh......eeeeeeeee.....eeeeee.hhheee..eeehhhhhhhhhhh...eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhh..hhhhh..eeee............hhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fut A   1 MNANLFARLFDkLDDPHkLAIETAAGDkISYAELVARAGRVANVLVARGLQVGDRVAAQTEkSVEALVLYLATVRAGGVYLPLNTAYTLHELDYFITDAEPkIVVCDPSkRDGIAAIAAkVGATVETLGPDGRGSLTDAAAGASEAFATIDRGADDLAAILYTSGTTGRSkGAMLSHDNLASNSLTLVDYWRFTPDDVLIHALPIYHTHGLFVASNVTLFARGSMIFLPkFDPDkILDLMARATVLMGVPTFYTRLLQSPRLTkETTGHMRLFISGSAPLLADTHREWSAkTGHAVLERYGMTETNMNTSNPYDGDRVPGAVGPALPGVSARVTDPETGkELPRGDIGMIEVkGPNVFkGYWRMPEkTkSEFRDDGFFITGDLGkIDERGYVHILGRGkDLVITGGFNVYPkEIESEIDAMPGVVESAVIGVPHADFGEGVTAVVVRDkGATIDEAQVLHGLDGQLAkFkMPkkVIFVDDLPRNTMGAVQkNVLRETYkDIYk 503
                                    10 |     |20       |30        40        50        60 |      70        80        90       100 |     110       120       130       140       150       160       170|      180       190       200       210       220       230    |  240       250       260   |   270       280       290|      300       310       320       330       340       350  |    360      |370       380    |  390       400       410 |     420       430       440       450       460       470  ||   480       490|      500  |
                                      12-MLY |        28-MLY                            62-MLY                                 102-MLY 110-MLY   120-MLY                                            171-MLY                                                    230-MLY|                          264-MLY                    291-MLY                                          340-MLY      353-MLY |     367-MLY           385-MLY       399-MLY      412-MLY                              449-MLY            468-MLY||              491-MLY 499-MLY
                                            18-MLY                                                                                                                                                                                                                  235-MLY                                                                                                                     359-MLY   369-MLY                                                                                              470-MLY                          503-MLY
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  473-MLY                          
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   474-MLY
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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/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        Q6ND88_RHOPA | Q6ND88: 4fuq 4gxq 4gxr

(-) Related Entries Specified in the PDB File

3nyq STRUCTURE OF SCMATB WITH AMP AND METHYLMALONYL-COA BOUND
3nyr STRUCTURE OF SCMATB WITH AMP AND MALONYL-COA BOUND