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(-) Description

Title :  CRYSTAL STRUCTURE OF DNA LIGASE
 
Authors :  Y. Wei, T. Wang, P. Charifson, W. Xu
Date :  29 Mar 12  (Deposition) - 03 Apr 13  (Release) - 01 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Dna Ligase, Alpha-Beta Protein, Adenylation, Ligase-Ligase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Wang, W. Xu, P. Charifson, Y. Wei
Crystal Structure Of Dna Ligase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DNA LIGASE
    Chains: A
    EC Number: 6.5.1.2
    Organism Scientific: ENTEROCOCCUS FAECALIS
    Organism Taxid: 1351
    Synonym: POLYDEOXYRIBONUCLEOTIDE SYNTHASE [NAD(+)]

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
10OV1Ligand/Ion[4-AMINO-2-{[(1S,2R)-2-METHYLCYCLOHEXYL]OXY}-5-OXOPYRIDO[2,3-D]PYRIMIDIN-8(5H)-YL]ACETONITRILE
2NMN1Ligand/IonBETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
3SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:124 , ALA A:125 , ARG A:141 , ARG A:202 , HOH A:529 , HOH A:619 , HOH A:772 , HOH A:811 , HOH A:959BINDING SITE FOR RESIDUE SO4 A 401
2AC2SOFTWAREARG A:129 , ARG A:137 , HOH A:531 , HOH A:746 , HOH A:786 , HOH A:913BINDING SITE FOR RESIDUE SO4 A 402
3AC3SOFTWARETYR A:25 , TYR A:29 , TYR A:30 , VAL A:37 , ASP A:39 , TYR A:42 , ASP A:43 , ARG A:158 , HOH A:505 , HOH A:560 , HOH A:652 , HOH A:701 , HOH A:721 , HOH A:724 , HOH A:785 , HOH A:876 , HOH A:948BINDING SITE FOR RESIDUE NMN A 403
4AC4SOFTWARELEU A:89 , GLU A:118 , LEU A:119 , LYS A:120 , ILE A:121 , GLU A:175 , TYR A:227 , LYS A:291 , HOH A:523BINDING SITE FOR RESIDUE 0OV A 404

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EFE)

(-) 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:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains d4efea_ A: automated matches                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh........eee.........ee.hhhhhhhhhhhhhhhhh....eeeeeee..eeeeeeee..eeeeeee.....eee.hhhhhh..............eeeeeeee.hhhhhhhhhhhhhhh......hhhhhhhhhhh..hhhhhh....eeeeeeeee.......hhhhhhhhhhhh........eee.hhhhhhhhhhhhhhhhhhh...eeeeeeee.hhhhhhhhh........eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4efe A   5 PLTLTAATTRAQELRKQLNQYSHEYYVKDQPSVEDYVYDRLYKELVDIETEFPDLITPDSPTQRVGGKVLSGFEKAPHDIPMYSLNDGFSKEDIFAFDERVRKAIGKPVAYCCELKIDGLAISLRYENGVFVRGATRGDGTVGENITENLRTVRSVPMRLTEPISVEVRGECYMPKQSFVALNEEREENGQDIFANPRNAAAGSLRQLDTKIVAKRNLNTFLYTVADFGPMKAKTQFEALEELSAIGFRTNPERQLCQSIDEVWAYIEEYHEKRSTLPYEIDGIVIKVNEFALQDELGFTVKAPRWAIAYKFP 317
                                    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
   Legend:   → Mismatch (orange background)
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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  (1, 1)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4efe)
 

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  4efe
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  DNLJ_ENTFA | Q837V6
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  6.5.1.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        DNLJ_ENTFA | Q837V6: 1ta8 1tae 3ba8 3ba9 3baa 3bab 4eeq 4efb 4lh6 4lh7

(-) Related Entries Specified in the PDB File

4eeq