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(-) Description

Title :  A SPINDLE-SHAPED VIRUS PROTEIN (CHYMOTRYPSIN TREATED)
 
Authors :  S. Ouyang, W. Liang, L. Huang, Z. -J. Liu
Date :  04 Feb 12  (Deposition) - 30 May 12  (Release) - 30 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Catalytic Domain, Integrase, The C174 Domain Of Ssv1 Int, Seven- Helices, Three-Stranded Antiparallel-Sheet', Recombination (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Z. Zhan, S. Ouyang, W. Liang, Z. Zhang, Z. -J. Liu, L. Huang
Structural And Functional Characterization Of The C-Termina Catalytic Domain Of Ssv1 Integrase
Acta Crystallogr. , Sect. D V. 68 659 2012
PubMed: search  |  Reference-DOI: 10.1107/S0907444912007202

(-) Compounds

Molecule 1 - PROBABLE INTEGRASE
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET30A(+)
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneD335
    Organism ScientificSULFOLOBUS VIRUS 1
    Organism Taxid244589

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

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(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:227 -A:232

(-) Cis Peptide Bonds  (0, 0)

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 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)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:145
 aligned with VINT_SSV1 | P20214 from UniProtKB/Swiss-Prot  Length:335

    Alignment length:161
                                   183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333 
            VINT_SSV1   174 ADIYIPTLEEIKRTLQLAKDYSENVYFIYRIALESGVRLSEILKVLKEPERDICGNDVCYYPLSWTRGYKGVFYVFHITPLKRVEVTKWAIADFERRHKDAIAIKYFRKFVASKMAELSVPLDIIDFIQGRKPTRVLTQHYVSLFGIAKEQYKKYAEWLKG 334
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhee....eeee..------...eeee.........hhhhhhhhhhh.--..hhhhhhhhhhhhhhhh..hhhhhhhhh....--------.hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dks A 174 ADIYIPTLEEIKRTLQLAKDYSENVYFIYRIALESGVRLSEILKVLKEPERDICGNDVCYYPLS------GVFYVFHITPLKRVEVTKWAIADFERRH--AIAIKYFRKFVASKMAELSVPLDIIDFIQGRKP--------VSLFGIAKEQYKKYAEWLKG 334
                                   183       193       203       213       223       233   |     -|      253       263       | -|      283       293       303  |      - |     323       333 
                                                                                         237    244                        271  |                             306      315                   
                                                                                                                              274                                                            

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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (VINT_SSV1 | P20214)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
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.
    GO:0075713    establishment of integrated proviral latency    A process by which the virus integrates into the host genome and establishes as a stable provirus or prophage.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.

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 Related Entries

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

UniProtKB/Swiss-Prot
        VINT_SSV1 | P202143uxu 3vcf

(-) Related Entries Specified in the PDB File

3vcf RE-CLONED