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(-) Description

Title :  CRYSTAL STRUCTURE OF A PREDICTED METHYLTRANSFERASE FROM PYROCOCCUS FURIOSUS
 
Authors :  M. E. Cuff, E. Duggan, S. Clancy, A. Joachimiak, Midwest Center For S Genomics (Mcsg)
Date :  13 Jul 07  (Deposition) - 11 Sep 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Putative Methyltransferase, Structural Genomics, Pyrococcus Furiosus, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, E. Duggan, S. Clancy, A. Joachimiak
The Structure Of A Predicted Methyltransferase From Pyrococcus Furiosus.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PREDICTED METHYLTRANSFERASE
    Atcc: 43587
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PF1111
    Organism Scientific: PYROCOCCUS FURIOSUS DSM 3638
    Organism Taxid: 186497
    Strain: DSM 3638, JCM 8422, VC1
    Synonym: UNCHARACTERIZED PROTEIN PF1111

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1ACY3Ligand/IonACETIC ACID
2CA2Ligand/IonCALCIUM ION
3MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 14)
No.NameCountTypeFull Name
1ACY6Ligand/IonACETIC ACID
2CA-1Ligand/IonCALCIUM ION
3MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:127 , ASP A:158 , HOH A:514 , HOH A:517 , HOH A:521 , HOH A:529BINDING SITE FOR RESIDUE CA A 350
2AC2SOFTWAREHOH A:619 , HOH A:620 , HOH A:621 , HOH A:622 , HOH A:623 , HOH A:626BINDING SITE FOR RESIDUE CA A 351
3AC3SOFTWAREASN A:291 , TRP A:292 , GLY A:293 , TYR A:294 , ALA A:295 , TRP A:314 , HOH A:422BINDING SITE FOR RESIDUE ACY A 401
4AC4SOFTWAREVAL A:16 , HOH A:618BINDING SITE FOR RESIDUE ACY A 402
5AC5SOFTWAREHIS A:216 , ILE A:240 , LEU A:243 , GLY A:245 , SER A:328 , ARG A:329BINDING SITE FOR RESIDUE ACY A 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QM3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QM3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QM3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2QM3)

(-) Exons   (0, 0)

(no "Exon" information available for 2QM3)

(-) 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:338
 aligned with Q8U1U4_PYRFU | Q8U1U4 from UniProtKB/TrEMBL  Length:349

    Alignment length:350
                                    1                                                                                                                                                                                                                                                                                                                                                     
                                    |2        12        22        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       332       342
         Q8U1U4_PYRFU     - --------MKEIVERVKTKTKIPVYERSVENVLSAVLASDDIWRIVDLSEEPLPLVVAILESLNELGYVTFEDGVKLTEKGEELVAEYGIGKRYDFTCPHCQGKTVDLQAFADLLEQFREIVKDRPEPLHEFDQAYVTPETTVARVILMHTRGDLENKDIFVLGDDDLTSIALMLSGLPKRIAVLDIDERLTKFIEKAANEIGYEDIEIFTFDLRKPLPDYALHKFDTFITDPPETLEAIRAFVGRGIATLKGPRCAGYFGITRRESSLDKWREIQKLLLNEFNVVITDIIRNFNEYVNWGYAEETRAWKLIPIKKLPEYNWYKSYMFRIETLEGSRGYEDEIPEEDIYN 342
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------2qm3A01 A:0-82 'winged helix' repressor DNA binding domain                         -----------------2qm3A02 A:100-325 Vaccinia Virus protein VP39                                                                                                                                                                                     ----------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------DUF43-2qm3A01 A:105-342                                                                                                                                                                                                                        Pfam domains
         Sec.struct. author ......hhhhhhhhhhhh......hhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhhhhhhh..ee.....eehhhhhhhhhhhh......------------hhhhhhhhhhhhhhhh.....hhhhh....hhhhhhhhhhhhhhh......eeeee....hhhhhhhhhh...eeeee..hhhhhhhhhhhhhhhh...eeee.................eeee....hhhhhhhhhhhhhhh......eeeeee.....hhhhhhhhhhhhhhh...eeeeeeeeeee.....hhhhhhhhhhh...........eeeeeeee................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2qm3 A  -7 NLYFQSNAmKEIVERVKTKTKIPVYERSVENVLSAVLASDDIWRIVDLSEEPLPLVVAILESLNELGYVTFEDGVKLTEKGEELVAEYGIGKRYD------------LQAFADLLEQFREIVKDRPEPLHEFDQAYVTPETTVARVILmHTRGDLENKDIFVLGDDDLTSIALmLSGLPKRIAVLDIDERLTKFIEKAANEIGYEDIEIFTFDLRKPLPDYALHKFDTFITDPPETLEAIRAFVGRGIATLKGPRCAGYFGITRRESSLDKWREIQKLLLNEFNVVITDIIRNFNEYVNWGYAEETRAWKLIPIKKLPEYNWYKSYmFRIETLEGSRGYEDEIPEEDIYN 342
                                    |2        12        22        32        42        52        62        72        82    |    -       102       112       122       132       142       152       162   |   172       182       192       202       212       222       232       242       252       262       272       282       292       302       312      |322       332       342
                                    1-MSE                                                                                87          100                                      141-MSE                  166-MSE                                                                                                                                                  319-MSE
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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 2QM3)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8U1U4_PYRFU | Q8U1U4)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016765    transferase activity, transferring alkyl or aryl (other than methyl) groups    Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
biological process
    GO:0006596    polyamine biosynthetic process    The chemical reactions and pathways resulting in the formation of polyamines, any organic compound containing two or more amino groups.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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