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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DBD DOMAIN OF HUMAN DNA LIGASE IV BOUND TO ARTEMIS PEPTIDE
 
Authors :  P. E. De Ioannes, A. K. Aggarwal
Date :  01 Nov 12  (Deposition) - 26 Dec 12  (Release) - 16 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B,C,E
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,E  (1x)
Keywords :  Helical Domain, Dna Binding Domain, Dna, Artemis, Ligase-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. De Ioannes, S. Malu, P. Cortes, A. K. Aggarwal
Structural Basis Of Dna Ligase Iv-Artemis Interaction In Nonhomologous End-Joining.
Cell Rep V. 2 1505 2012
PubMed-ID: 23219551  |  Reference-DOI: 10.1016/J.CELREP.2012.11.004

(-) Compounds

Molecule 1 - DNA LIGASE 4
    ChainsA, B
    EC Number6.5.1.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3) CP RIPL
    Expression System Taxid562
    Expression System Vector TypePET15B
    FragmentDNA BINDING DOMAIN
    GeneLIG4
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymDNA LIGASE IV, POLYDEOXYRIBONUCLEOTIDE SYNTHASE [ATP] 4
 
Molecule 2 - PROTEIN ARTEMIS
    ChainsC, E
    EC Number3.1.-.-
    EngineeredYES
    FragmentC-TERMINAL
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsTHIS SEQUENCE OCCURS NATURALLY IN HUMANS
    SynonymDNA CROSS-LINK REPAIR 1C PROTEIN, PROTEIN A-SCID, SNM1 HOMOLOG C, HSNM1C, SNM1-LIKE PROTEIN
    SyntheticYES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCE
Biological Unit 1 (1x)A C 
Biological Unit 2 (1x) B E

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4HTP)

(-) Sites  (0, 0)

(no "Site" information available for 4HTP)

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:137 -B:137

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HTP)

(-) 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:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh........hhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4htp A   7 SQTVASHVPFADLCSTLERIQKSKGRAEKIRHFREFLDSWRKFHDALHKNHKDVTDSFYPAMRLILPQLERERMAYGIKETMLAKLYIELLNLPRDGKDALKLLNYGDFAMIAYFVLKPRCLQKGSLTIQQVNDLLDSIASNNSAKRKDLIKKSLLQLITQSSALEQKWLIRMIIKDLKLGVSQQTIFSVFHNDAAELHNVTTDLEKVCRQLHDPSVGLSD 237
                                    16        26        36        46        56        66        76        86        96       106     ||126       136       146       156       166       176       186       196       206       216       226       236 
                                                                                                                                   112|                                                                                                                  
                                                                                                                                    123                                                                                                                  

Chain B from PDB  Type:PROTEIN  Length:222
                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh........hhhhhhhhhhhhh.....hhhhhhhhh....hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4htp B   8 QTVASHVPFADLCSTLERIQKSKGRAEKIRHFREFLDSWRKFHDALHKNHKDVTDSFYPAMRLILPQLERERMAYGIKETMLAKLYIELLNLPRDGKDALKLLNYRTGDFAMIAYFVLKPRCLQKGSLTIQQVNDLLDSIASNNSAKRKDLIKKSLLQLITQSSALEQKWLIRMIIKDLKLGVSQQTIFSVFHNDAAELHNVTTDLEKVCRQLHDPSVGLSD 237
                                    17        27        37        47        57        67        77        87        97       107      |125       135       145       155       165       175       185       195       205       215       225       235  
                                                                                                                                    114|                                                                                                                  
                                                                                                                                     123                                                                                                                  

Chain C from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author ...hhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 4htp C 485 DVPQWEVFFK 494
                                   494

Chain E from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .... Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 4htp E 487 PQWE 490

   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (71, 84)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        DCR1C_HUMAN | Q96SD13w1b 3w1g
        DNLI4_HUMAN | P499171ik9 2e2w 3ii6 3vnn 3w1b 3w1g 3w5o 4hto

(-) Related Entries Specified in the PDB File

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