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(-) Description

Title :  MSPJI RESTRICTION ENDONUCLEASE - P31 FORM
 
Authors :  J. R. Horton, M. Mabuchi, D. Cohen-Karni, X. Zhang, R. Griggs, M. Samara R. J. Roberts, Y. Zheng, X. Cheng
Date :  04 May 12  (Deposition) - 08 Aug 12  (Release) - 07 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.79
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Endonuclease, Dna Methylation Dependent, Sra Domain, Epigenetics Tool, Cytosine Methylation-Dependent Endonuclease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. R. Horton, M. Y. Mabuchi, D. Cohen-Karni, X. Zhang, R. M. Griggs, M. Samaranayake, R. J. Roberts, Y. Zheng, X. Cheng
Structure And Cleavage Activity Of The Tetrameric Mspji Dna Modification-Dependent Restriction Endonuclease.
Nucleic Acids Res. V. 40 9763 2012
PubMed-ID: 22848107  |  Reference-DOI: 10.1093/NAR/GKS719

(-) Compounds

Molecule 1 - RESTRICTION ENDONUCLEASE
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTXB1
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MJLS_0822
    Organism Scientific: MYCOBACTERIUM SP.
    Organism Taxid: 164757
    Strain: JLS

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:330 , ASP A:334 , GLN A:355 , ALA A:356 , HOH A:631BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREGLU B:301 , ASP B:334 , GLN B:355 , ALA B:356BINDING SITE FOR RESIDUE MG B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F0P)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Pro A:126 -Gly A:127
2Pro B:126 -Gly B:127
3Pro C:91 -Trp C:92
4Pro C:126 -Gly C:127
5Glu D:97 -Thr D:98
6Pro D:126 -Gly D:127
7Gly D:214 -Glu D:215

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F0P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F0P)

(-) Exons   (0, 0)

(no "Exon" information available for 4F0P)

(-) 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:450
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhh..eee...eee..........ee..eeehhhhhh.............eee....ee....ee...eeeee..............eeehhh.eeeee.............hhhhhhhhhhhhhhh..hhhhhhhh..eeeeeeeee......eeeeeeeeeeeeeeeeeeeeeee......eeeeeeeeeee.......eeehhhhhhhhh...hhhhh....hhhhhhhhhhh..hhhhhh..ee.....hhhhhh....hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...eeeeee...........eeeeeeee....eeeeeeeeeee......eehhhhhhhhhh......eeeeee..eehhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.......hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4f0p A   7 DIAWAASAEVANKPRLVFVGDELRYAQGANQRDVELDGFVNYHWLTSPGGLGLPKVMLEAGINAPAEVVGPDRSRRALIAIRSSPWKAGHETNPWHDEFDLDHGHVRYFGDHKPSTVGLPGETKGNRLLLEAARLHAGTTREERLLAPPLFLFRAVTVHRAGRAVVKGHVEFCGAAIIERLEHVVQRDPETGRSFPNLSLDLAVVSGGEIDGVDFRWIDDRRNAALAAGETLRHAPESWIRWVRQGRLAIPGIRRRVLASAVQSSKEQQPASGSAEAATLQTLYKFYDGRKHAFELLASRVAAEVFRESGARYKEGWLSRSSGDGGVDFIGRIDMGSLKASTPVVVLGQAKCIQPTSSVSPEQVARVVARLRRGWIGVYVTTGSFSRQAQVEIIDDQYPVVLIAGGTLAATVRRMVQANYGGDLDALLASTVDEYGAAVTHRRPEEVISL 456
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456


Chain B from PDB  Type:PROTEIN  Length:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh...eee...eee..........ee..eeehhhhhhhhhhh........eee....ee....ee...eeeee..............eeehhh.eeeee.............hhhhhhhhhhhhhhh..hhhhhhhh..eeeeee.............eeeeeeeeeeeeeeeeeee......eeeeeeeeeee.......eeehhhhhhhhh...hhhhh....hhhhhhhhhhh..hhhhhh..ee...............hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..eeeeee..........eeeeeeee....eeeeeeeeeee......eehhhhhhhhhh.....eeeeeee..eehhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhh..hhhhhhhhhhhh........hhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f0p B   5 KADIAWAASAEVANKPRLVFVGDELRYAQGANQRDVELDGFVNYHWLTSPGGLGLPKVMLEAGINAPAEVVGPDRSRRALIAIRSSPWKAGHETNPWHDEFDLDHGHVRYFGDHKPSTVGLPGETKGNRLLLEAARLHAGTTREERLLAPPLFLFRAVTVHRAGRAVVKGHVEFCGAAIIERLEHVVQRDPETGRSFPNLSLDLAVVSGGEIDGVDFRWIDDRRNAALAAGETLRHAPESWIRWVRQGRLAIPGIRRRVLASAVQSSKEQQPASGSAEAATLQTLYKFYDGRKHAFELLASRVAAEVFRESGARYKEGWLSRSSGDGGVDFIGRIDMGSLKASTPVVVLGQAKCIQPTSSVSPEQVARVVARLRRGWIGVYVTTGSFSRQAQVEIIDDQYPVVLIAGGTLAATVRRMVQANYGGDLDALLASTVDEYGAAVTHRRPEEVISL 456
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454  


Chain C from PDB  Type:PROTEIN  Length:449
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh....ee....eee..........ee..eeehhhhhh.............eee...eee....eee..eeeee..............eeehhh.eeeee.............hhhhhhhhhhhhhhhh.hhhhhhhh..eeeee...eee..eee...eeeeeeeeeeeeeeeeeee......eeeeeeeeeee........eehhhhhhhh....hhhhh....hhhhhhhhhh..................hhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh....eeeee..........eeeeeeee......eeeeeeeeee......eehhhhhhhhhhhh...eeeeeee..eehhhhhhhhhhh...eeeehhhhhhhhhhhhhh.....hhhhhhhhh...........hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f0p C   8 IAWAASAEVANKPRLVFVGDELRYAQGANQRDVELDGFVNYHWLTSPGGLGLPKVMLEAGINAPAEVVGPDRSRRALIAIRSSPWKAGHETNPWHDEFDLDHGHVRYFGDHKPSTVGLPGETKGNRLLLEAARLHAGTTREERLLAPPLFLFRAVTVHRAGRAVVKGHVEFCGAAIIERLEHVVQRDPETGRSFPNLSLDLAVVSGGEIDGVDFRWIDDRRNAALAAGETLRHAPESWIRWVRQGRLAIPGIRRRVLASAVQSSKEQQPASGSAEAATLQTLYKFYDGRKHAFELLASRVAAEVFRESGARYKEGWLSRSSGDGGVDFIGRIDMGSLKASTPVVVLGQAKCIQPTSSVSPEQVARVVARLRRGWIGVYVTTGSFSRQAQVEIIDDQYPVVLIAGGTLAATVRRMVQANYGGDLDALLASTVDEYGAAVTHRRPEEVISL 456
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447         


Chain D from PDB  Type:PROTEIN  Length:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..eee...eee..........ee..eeehhhhhh.............eee...............eeeee..............eee....eeeee.............hhhhhhhhhhhhhhh..hhhhhh....eeeeee..ee....ee...eeeeeeeeeeeeeeeeeeee....eeeeeeeeeeee.......eeehhhhhhhhh....hhhhh...hhhhhhhhhhhhhhhhhhh.........hhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.eeeeeee..........eeeeeee......eeeeeeeeee......eehhhhhhhhhh.....eeeeeee..eehhhhhhhhhhh...eeeehhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhh....hhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f0p D   5 KADIAWAASAEVANKPRLVFVGDELRYAQGANQRDVELDGFVNYHWLTSPGGLGLPKVMLEAGINAPAEVVGPDRSRRALIAIRSSPWKAGHETNPWHDEFDLDHGHVRYFGDHKPSTVGLPGETKGNRLLLEAARLHAGTTREERLLAPPLFLFRAVTVHRAGRAVVKGHVEFCGAAIIERLEHVVQRDPETGRSFPNLSLDLAVVSGGEIDGVDFRWIDDRRNAALAAGETLRHAPESWIRWVRQGRLAIPGIRRRVLASAVQSSKEQQPASGSAEAATLQTLYKFYDGRKHAFELLASRVAAEVFRESGARYKEGWLSRSSGDGGVDFIGRIDMGSLKASTPVVVLGQAKCIQPTSSVSPEQVARVVARLRRGWIGVYVTTGSFSRQAQVEIIDDQYPVVLIAGGTLAATVRRMVQANYGGDLDALLASTVDEYGAAVTHRRPEEVISL 456
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4F0P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F0P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F0P)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4F0P)

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 Related Entries

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        A0A0J9X157_M | A0A0J9X157: 4f0q 4r28

(-) Related Entries Specified in the PDB File

4f0q