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(-) Description

Title :  CRYSTAL STRUCTURE OF THE I-SMAMI LAGLIDADG HOMING ENDONUCLEASE BOUND TO CLEAVED DNA
 
Authors :  J. Chik, B. Shen, B. Stoddard
Date :  14 Jul 13  (Deposition) - 24 Sep 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Lhe, Homing Endonuclease, Protein-Dna Complex, Endonuclease, Dna Binding, Mitochrodrial, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Chik, B. Shen, B. Stoddard
Crystal Structure Of A Laglidadg Endonuclease From The Sordaria Macrospore.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LAGLIDADG HOMING ENDONUCLEASE I-SMAMI
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15
    Expression System Strain: BL21 (DE3), IRL+
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: LHE HOMING ENDNUCLEASE, UNP RESIDUES 114-415
    Gene: CYTOCHROME C OXIDASE SUBUNIT 1, MITOCHONDRIAL INTRONE ENCODED, SMAC_12671
    Organism Scientific: SORDARIA MACROSPORA
    Organism Taxid: 771870
    Strain: ATCC MYA-333 / DSM 997 / K(L3346) / K-HELL
 
Molecule 2 - DNA (5'-D(*CP*GP*TP*AP*CP*AP*CP*CP*TP*GP*AP*TP*AP*A)-3')
    Chains: B
    Engineered: YES
    Fragment: PRODUCT OF LHE CLEAVAGE
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(P*TP*GP*GP*AP*GP*GP*AP*TP*AP*CP*C)-3')
    Chains: C
    Engineered: YES
    Fragment: PRODUCT OF LHE CLEAVAGE
    Synthetic: YES
 
Molecule 4 - DNA (5'-D(*GP*GP*TP*AP*TP*CP*CP*TP*CP*CP*AP*TP*TP*AP*T)- 3')
    Chains: D
    Engineered: YES
    Fragment: PRODUCT OF LHE CLEAVAGE
    Synthetic: YES
 
Molecule 5 - DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3')
    Chains: E
    Engineered: YES
    Fragment: PRODUCT OF LHE CLEAVAGE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCDE

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
1AC1SOFTWAREALA A:19 , ASP A:179 , HOH A:501 , DT C:15 , DT D:15 , HOH D:101BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREGLU A:20 , GLY A:178 , ASP A:179 , DA B:14 , DT C:15 , DT D:15 , DC E:16BINDING SITE FOR RESIDUE MG A 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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    
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Chain A from PDB  Type:PROTEIN  Length:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhheeeeeeeee.......eeeeeeeeeeee..hhhhhhhhhhhh....eeeeee..eeeeee.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhh.................hhhhhhhhhhhheeeeeeeee.......eeeeeeeeeeee..hhhhhhhhhhhhh..eeee.....eeeeee.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4lox A   3 GENGKLNPWAVVGFIDAEGSFMVRVRKNSKYKTGWLVVAIFSVTVDKKDLFLLESLKTFFGGLGSIKKSGNSTFSYRIESSEQLTKIILPFFDKYSLITEKLGDYLLFKKVLELMGTKEHLTQRGLEKIVSLKASINKGLSEELQAAFPQCVPTPRPEINNKLIPDPFWLAGFVSGDGSFKSILKKSESIKVGFQSILVFQITQHARDVKLMESLISYLGCGFIEKDSRGPWLYYTVTNFSDIQGKIIPFFHQYKIIGSKYGDYMDWCKIALIMQNKNHLTPEGLNEIRALKGGMNKGRL 302
                                    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


Chain B from PDB  Type:DNA  Length:14
                                              
                 4lox B   1 CGTACACCTGATAA  14
                                    10    


Chain C from PDB  Type:DNA  Length:11
                                           
                 4lox C  15 TGGAGGATACC  25
                                    24 


Chain D from PDB  Type:DNA  Length:15
                                               
                 4lox D   1 GGTATCCTCCATTAT  15
                                    10     


Chain E from PDB  Type:DNA  Length:10
                                          
                 4lox E  16 CAGGTGTACG  25
                                    25
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (3, 3)

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4lq0