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(-) Description

Title :  CRYSTAL STRUCTURE OF HLTF HIRAN DOMAIN BOUND TO DNA
 
Authors :  D. A. Chavez, B. F. Eichman
Date :  02 Jan 15  (Deposition) - 27 May 15  (Release) - 01 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H
Keywords :  Alpha+Beta, Dna 3'-End Binding, Dna Binding Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. C. Kile, D. A. Chavez, J. Bacal, S. Eldirany, D. M. Korzhnev, I. Bezsonova, B. F. Eichman, K. A. Cimprich
Hltf'S Ancient Hiran Domain Binds 3' Dna Ends To Drive Replication Fork Reversal.
Mol. Cell V. 58 1090 2015
PubMed-ID: 26051180  |  Reference-DOI: 10.1016/J.MOLCEL.2015.05.013

(-) Compounds

Molecule 1 - HELICASE-LIKE TRANSCRIPTION FACTOR
    Chains: A, B, C, D
    EC Number: 3.6.4.-, 6.3.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: HIRAN DOMAIN, UNP RESIDUES 55-180
    Gene: HLTF, HIP116A, RNF80, SMARCA3, SNF2L3, ZBU1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DNA-BINDING PROTEIN/PLASMINOGEN ACTIVATOR INHIBITOR 1 REGULATOR, HIP116, RING FINGER PROTEIN 80, SWI/SNF-RELATED MATRIX- ASSOCIATED ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY A MEMBER 3, SUCROSE NONFERMENTING PROTEIN 2-LIKE 3
 
Molecule 2 - 5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'
    Chains: E, F, G, H
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric/Biological Unit : ABCDEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
1DT2Ligand/IonTHYMIDINE-5'-MONOPHOSPHATE
2GOL2Ligand/IonGLYCEROL
3NA4Ligand/IonSODIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:86 , ARG A:87 , ASP A:88 , PRO A:89 , ASN A:90 , LYS A:99 , DT A:202BINDING SITE FOR RESIDUE DT A 201
2AC2SOFTWAREDT A:201BINDING SITE FOR RESIDUE DT A 202
3AC3SOFTWARESER A:62 , ARG A:64 , GLY A:172 , PRO A:173 , ALA A:174 , HOH A:313 , HOH A:333 , HOH A:406BINDING SITE FOR RESIDUE GOL A 203
4AC4SOFTWARELEU A:70 , TYR A:73 , HOH A:301 , HOH A:342 , HOH A:366 , HOH A:377BINDING SITE FOR RESIDUE NA A 204
5AC5SOFTWARESER B:62 , ARG B:64 , GLY B:172 , PRO B:173 , ALA B:174 , HOH B:324 , HOH B:360 , HOH B:439BINDING SITE FOR RESIDUE GOL B 201
6AC6SOFTWARELEU B:70 , TYR B:73 , HOH B:367 , HOH B:403 , HOH B:448 , HOH B:464BINDING SITE FOR RESIDUE NA B 202
7AC7SOFTWARELEU C:70 , TYR C:73 , HOH C:302 , HOH C:328 , HOH C:338 , HOH C:410BINDING SITE FOR RESIDUE NA C 201
8AC8SOFTWARELEU D:70 , TYR D:73 , HOH D:311 , HOH D:317 , HOH D:319 , HOH D:368BINDING SITE FOR RESIDUE NA D 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S0N)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4S0N)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S0N)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S0N)

(-) Exons   (0, 0)

(no "Exon" information available for 4S0N)

(-) 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:122
                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeehhhhh.......eeeeeee..........eeee.....eeeeehhhhhhhhhhhhhh...eeeeee.........eeeeeeeeehhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0n A  56 DSVLFGSLRGHVVGLRYYTGVVNNNEMVALQRDPNNPYDKNAIKVNNVNGNQVGHLKKELAGALAYIMDNKLAQIEGVVPFGANNAFTMPLHMTFWGKEENRKAVSDQLKKHGFKLGPAPKT 177
                                    65        75        85        95       105       115       125       135       145       155       165       175  


Chain B from PDB  Type:PROTEIN  Length:125
                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeehhhhh........eeeeee..........eeee.....eeeeehhhhhhhhhhhhhh...eeeee..........eeeeeeeeehhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0n B  56 DSVLFGSLRGHVVGLRYYTGVVNNNEMVALQRDPNNPYDKNAIKVNNVNGNQVGHLKKELAGALAYIMDNKLAQIEGVVPFGANNAFTMPLHMTFWGKEENRKAVSDQLKKHGFKLGPAPKTLGF 180
                                    65        75        85        95       105       115       125       135       145       155       165       175     


Chain C from PDB  Type:PROTEIN  Length:124
                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeeeehhhhh.......eeeeeee..........eeee.....eeeeehhhhhhhhhhhhhh...eeeeee.........eeeeeeeeehhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0n C  51 GPGSVDSVLFGSLRGHVVGLRYYTGVVNNNEMVALQRDPNNPYDKNAIKVNNVNGNQVGHLKKELAGALAYIMDNKLAQIEGVVPFGANNAFTMPLHMTFWGKEENRKAVSDQLKKHGFKLGPA 174
                                    60        70        80        90       100       110       120       130       140       150       160       170    


Chain D from PDB  Type:PROTEIN  Length:126
                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeeeeee.hhhh.......eeeeeee..........eeee.....eeeeehhhhhhhhhhhhhh...eeeeee........eeeeeeeeeehhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s0n D  51 GPGSVDSVLFGSLRGHVVGLRYYTGVVNNNEMVALQRDPNNPYDKNAIKVNNVNGNQVGHLKKELAGALAYIMDNKLAQIEGVVPFGANNAFTMPLHMTFWGKEENRKAVSDQLKKHGFKLGPAPK 176
                                    60        70        80        90       100       110       120       130       140       150       160       170      


Chain E from PDB  Type:DNA  Length:6
                                      
                 4s0n E   5 TTTTTT  10


Chain F from PDB  Type:DNA  Length:4
                                    
                 4s0n F   7 TTTT  10


Chain G from PDB  Type:DNA  Length:4
                                    
                 4s0n G   7 TTTT  10


Chain H from PDB  Type:DNA  Length:4
                                    
                 4s0n H   7 TTTT  10
   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 4S0N)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S0N)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S0N)

(-) Gene Ontology  (31, 31)

Asymmetric/Biological Unit(hide GO term definitions)

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  4s0n
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  HLTF_HUMAN | Q14527
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 Related Entries

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

UniProtKB/Swiss-Prot
        HLTF_HUMAN | Q14527: 2mzn 4hre 4hrh 4xzf 4xzg 5bnh 5k5f

(-) Related Entries Specified in the PDB File

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