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(-) Description

Title :  METHIONINE-ADENOSYLTRANSFERASE FROM ENTAMOEBA HISTOLYTICA
 
Authors :  E. A. Merritt, Medical Structural Genomics Of Pathogenic Protoz (Msgpp)
Date :  29 Jun 11  (Deposition) - 20 Jul 11  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.18
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Medical Structural Genomics Of Pathogenic Protozoa, Msgpp, S-Adenosylmethionine Synthetase, Psi, Transferase, Protein Structure Initiative, Psi, Protein Structure Initiative (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. A. Merritt, T. Arakaki, L. Zhang, A. Napuli, W. C. Van Voorhis, F. S. Buckner, E. Fan, F. Zucker, C. L. M. J. Verlinde, W. G. J. Hol
Methionine-Adenosyltransferase From Entamoeba Histolytica
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - METHIONINE-ADENOSYLTRANSFERASE
    Chains: A, B, C, D
    EC Number: 2.5.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 4-397
    Gene: 103.M00148, EHI_174250
    Organism Scientific: ENTAMOEBA HISTOLYTICA
    Organism Taxid: 5759
    Synonym: S-ADENOSYLMETHIONINE SYNTHASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:18 , ARG A:251 , LYS A:252 , HOH A:401 , LYS B:272 , ASP B:278BINDING SITE FOR RESIDUE ACT A 400
2AC2SOFTWARELYS A:272 , ASP A:278 , ASP B:18 , LYS B:252 , HOH B:401BINDING SITE FOR RESIDUE ACT B 400
3AC3SOFTWARELYS C:252 , HOH C:401 , LYS D:272BINDING SITE FOR RESIDUE ACT C 400
4AC4SOFTWARELYS C:272 , ASP D:18 , ARG D:251 , LYS D:252 , HOH D:401BINDING SITE FOR RESIDUE ACT D 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SO4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SO4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SO4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SO4)

(-) Exons   (0, 0)

(no "Exon" information available for 3SO4)

(-) 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:379
 aligned with C4M272_ENTHI | C4M272 from UniProtKB/TrEMBL  Length:397

    Alignment length:390
                                    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       333       343       353       363       373       383       393
         C4M272_ENTHI     4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDIAKGVHVEKKEEDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
               SCOP domains d3so4a1 A:4-103 automated matches                                                                   -----------d3so4a2 A:115-238 automated matches                                                                                         d3so4a3 A:239-393 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhhhhhhhhhhhh...eeeeeeee...eeeeeeeee.....hhhhhhhhhhhhhh.eehhhhee....eeeeeeeee...-----------........eeeeeeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhh.........eeee...............ee...........................hhhhhhhhhhhhhhhhhhhh....eeeeeeee........eeeeee......hhhhhhhhhhhhh..hhhhhhhhhh......hhhhh.....................hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3so4 A   4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQD-----------EDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
                                    13        23        33        43        53        63        73        83        93       103         - |     123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393
                                                                                                                             103         115                                                                                                                                                                                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:379
 aligned with C4M272_ENTHI | C4M272 from UniProtKB/TrEMBL  Length:397

    Alignment length:390
                                    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       333       343       353       363       373       383       393
         C4M272_ENTHI     4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDIAKGVHVEKKEEDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
               SCOP domains d3so4b1 B:4-103 automated matches                                                                   -----------d3so4b2 B:115-238 automated matches                                                                                         d3so4b3 B:239-393 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhhhhhhhhhhhh...eeeeeeee...eeeeeeeee.....hhhhhhhhhhhhhh..hhhhh......eeeeeeeee...-----------........eeeeeeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhh.........eeee...............ee...........................hhhhhhhhhhhhhhhhhhhh....eeeeeeee........eeeeee......hhhhhhhhhhhhh..hhhhhhhhhh......hhhhh.............................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3so4 B   4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQD-----------EDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
                                    13        23        33        43        53        63        73        83        93       103         - |     123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393
                                                                                                                             103         115                                                                                                                                                                                                                                                                                      


Chain C from PDB  Type:PROTEIN  Length:379
 aligned with C4M272_ENTHI | C4M272 from UniProtKB/TrEMBL  Length:397

    Alignment length:390
                                    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       333       343       353       363       373       383       393
         C4M272_ENTHI     4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDIAKGVHVEKKEEDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
               SCOP domains d3so4c1 C:4-104 automated matches                                                                    -----------d3so4c2 C:116-238 automated matches                                                                                        d3so4c3 C:239-393 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhhhhhhhhhhhh...eeeeeeee...eeeeeeeee.....hhhhhhhhhhhhhh.eehhhhee....eeeeeeeee....-----------.......eeeeeeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhh.........eeee...............ee...........................hhhhhhhhhhhhhhhhhhhh....eeeeeeee........eeeeee......hhhhhhhhhhhhh..hhhhhhhhhh......hhhhh.....................hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3so4 C   4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDI-----------DIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
                                    13        23        33        43        53        63        73        83        93       103|        -  |    123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393
                                                                                                                              104         116                                                                                                                                                                                                                                                                                     


Chain D from PDB  Type:PROTEIN  Length:379
 aligned with C4M272_ENTHI | C4M272 from UniProtKB/TrEMBL  Length:397

    Alignment length:390
                                    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       333       343       353       363       373       383       393
         C4M272_ENTHI     4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDIAKGVHVEKKEEDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
               SCOP domains d3so4d1 D:4-102 automated matches                                                                  -----------d3so4d2 D:114-238 automated matches                                                                                          d3so4d3 D:239-393 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeee.....hhhhhhhhhhhhhh.eehhhhee....eeeeeeeee..-----------.........eeeeeeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhh.........eeee...............ee...........................hhhhhhhhhhhhhhhhhhhh....eeeeeeee........eeeeee......hhhhhhhhhhhhh..hhhhhhhhhh......hhhhh.....................hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3so4 D   4 RFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTNAVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQ-----------EEDIGAGDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVEGHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVIGGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCHRVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTRPIFQKTAVGGHFGRNDPDFKWEFPKELEIPAELKPKLL 393
                                    13        23        33        43        53        63        73        83        93        |-         -|      123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393
                                                                                                                            102         114
   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, 12)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SO4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SO4)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (C4M272_ENTHI | C4M272)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004478    methionine adenosyltransferase activity    Catalysis of the reaction: ATP + L-methionine + H2O = phosphate + diphosphate + S-adenosyl-L-methionine.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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.
biological process
    GO:0006556    S-adenosylmethionine biosynthetic process    The chemical reactions and pathways resulting in the formation of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.
    GO:0006730    one-carbon metabolic process    The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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