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(-) Description

Title :  TESTING THE WATER-MEDIATED HIN RECOMBINASE DNA RECOGNITION BY SYSTEMATIC MUTATIONS
 
Authors :  T. K. Chiu, C. Sohn, R. C. Johnson, R. E. Dickerson
Date :  03 Jul 01  (Deposition) - 22 Feb 02  (Release) - 04 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Water-Mediated Recognition, Protein-Dna Complex, Hin Recombinase, I4 Form 2, Dna Binding Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. K. Chiu, C. Sohn, R. E. Dickerson, R. C. Johnson
Testing Water-Mediated Dna Recognition By The Hin Recombinase.
Embo J. V. 21 801 2002
PubMed-ID: 11847127  |  Reference-DOI: 10.1093/EMBOJ/21.4.801
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'-D(*TP*GP*(5IT)P*TP*TP*TP*TP*GP*AP*TP*AP*AP*GP*A)-3'
    Chains: A
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - 5'-D(*AP*TP*CP*TP*TP*AP*TP*CP*AP*AP*AP*AP*AP*C)-3'
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - DNA-INVERTASE HIN
    Chains: C
    Engineered: YES
    Fragment: RESIDUES 139 TO 190
    Other Details: SYNTHETIC PEPTIDE
    Synonym: HIN RECOMBINASE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
15IU1Mod. Nucleotide5-IODO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE

(-) Sites  (0, 0)

(no "Site" information available for 1JJ8)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1JJ8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1JJ8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1JJ8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1JJ8)

(-) Exons   (0, 0)

(no "Exon" information available for 1JJ8)

(-) 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:DNA  Length:14
                                              
                 1jj8 A   2 TGuTTTTGATAAGA  15
                              |     11    
                              4-5IU       


Chain B from PDB  Type:DNA  Length:14
                                              
                 1jj8 B  16 ATCTTATCAAAAAC  29
                                    25    


Chain C from PDB  Type:PROTEIN  Length:49
 aligned with HIN_SALTY | P03013 from UniProtKB/Swiss-Prot  Length:190

    Alignment length:49
                                   148       158       168       178         
            HIN_SALTY   139 GRPRAINKHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYFPASRIKK 187
               SCOP domains d1jj8c_ C: HIN recombinase (DNA-binding domain)   SCOP domains
               CATH domains 1jj8C00 C:139-187 Homeodomain-like                CATH domains
               Pfam domains HTH_7-1jj8C01 C:139-183                      ---- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------- Transcript
                 1jj8 C 139 GRPRAINKHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYFPASSIKK 187
                                   148       158       168       178
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain C   (HIN_SALTY | P03013)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000150    recombinase activity    Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA.
biological process
    GO:0015074    DNA integration    The process in which a segment of DNA is incorporated into another, usually larger, DNA molecule such as a chromosome.
    GO:0006310    DNA recombination    Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.

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  1jj8
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 Related Entries

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

UniProtKB/Swiss-Prot
        HIN_SALTY | P03013: 1hcr 1ijw 1jj6 1jko 1jkp 1jkq 1jkr

(-) Related Entries Specified in the PDB File

1hcr NATIVE WILD-TYPE HIN RECOMBINASE DNA-BINDING DOMAIN BOUND TO UNDERIVATIZED HIXL HALF-SITE.
1ijw FORM1 BR18 DERIVATIVE
1jj6 FORM1 I5 DERIVATIVE
1jko FORM1 A10G MUTANT
1jkp FORM1 T11G MUTANT
1jkq FORM1 G9T MUTANT
1jkr FORM1 T11C MUTANT