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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SMALL TERMINASE OLIGOMERIZATION DOMAIN FROM A SPP1-LIKE BACTERIOPHAGE
 
Authors :  C. R. Buttner, M. Chechik, M. Ortiz-Lombardia, C. Smits, V. Chechik, G. E. Dykeman, S. Benini, J. C. Alonso, A. A. Antson
Date :  10 Jun 11  (Deposition) - 28 Dec 11  (Release) - 15 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,I
Keywords :  Dna-Binding Protein, Dna Packaging (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. R. Buttner, M. Chechik, M. Ortiz-Lombardia, C. Smits, I. O. Ebong, V. Chechik, G. Jeschke, E. Dykeman, S. Benini, C. V. Robinson, J. C. Alonso, A. A. Antson
Structural Basis For Dna Recognition And Loading Into A Viral Packaging Motor.
Proc. Natl. Acad. Sci. Usa V. 109 811 2012
PubMed-ID: 22207627  |  Reference-DOI: 10.1073/PNAS.1110270109

(-) Compounds

Molecule 1 - TERMINASE SMALL SUBUNIT
    Chains: A, B, C, D, E, F, G, H, I
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS PHAGE SF6
    Organism Taxid: 10773
    Synonym: SF6 SMALL TERMINASE G1P

 Structural Features

(-) Chains, Units

  123456789
Asymmetric/Biological Unit : ABCDEFGHI

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3ZQP)

(-) Sites  (0, 0)

(no "Site" information available for 3ZQP)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3ZQP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3ZQP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ZQP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3ZQP)

(-) Exons   (0, 0)

(no "Exon" information available for 3ZQP)

(-) 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:75
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:75
                                    75        85        95       105       115       125       135     
           TERS_BPSF6    66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                 3zqp A  66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
                                    75        85        95       105       115       125       135     


Chain B from PDB  Type:PROTEIN  Length:76
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:76
                                    75        85        95       105       115       125       135      
           TERS_BPSF6    66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 3zqp B  66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
                                    75        85        95       105       115       125       135      


Chain C from PDB  Type:PROTEIN  Length:77
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:77
                                    74        84        94       104       114       124       134       
           TERS_BPSF6    65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                 3zqp C  65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
                                    74        84        94       104       114       124       134       


Chain D from PDB  Type:PROTEIN  Length:75
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:75
                                    75        85        95       105       115       125       135     
           TERS_BPSF6    66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                 3zqp D  66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
                                    75        85        95       105       115       125       135     


Chain E from PDB  Type:PROTEIN  Length:76
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:76
                                    74        84        94       104       114       124       134      
           TERS_BPSF6    65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 3zqp E  65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
                                    74        84        94       104       114       124       134      


Chain F from PDB  Type:PROTEIN  Length:75
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:75
                                    75        85        95       105       115       125       135     
           TERS_BPSF6    66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                 3zqp F  66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
                                    75        85        95       105       115       125       135     


Chain G from PDB  Type:PROTEIN  Length:76
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:76
                                    75        85        95       105       115       125       135      
           TERS_BPSF6    66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 3zqp G  66 KILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
                                    75        85        95       105       115       125       135      


Chain H from PDB  Type:PROTEIN  Length:77
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:77
                                    74        84        94       104       114       124       134       
           TERS_BPSF6    65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                 3zqp H  65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDDS 141
                                    74        84        94       104       114       124       134       


Chain I from PDB  Type:PROTEIN  Length:76
 aligned with TERS_BPSF6 | P68928 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:76
                                    74        84        94       104       114       124       134      
           TERS_BPSF6    65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh...eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 3zqp I  65 KKILQANEVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSAKDRIKALELLGKAHAVFTDKQKVETNQVIIVDD 140
                                    74        84        94       104       114       124       134
   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 3ZQP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3ZQP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZQP)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H,I   (TERS_BPSF6 | P68928)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006323    DNA packaging    Any process in which DNA and associated proteins are formed into a compact, orderly structure.
    GO:0019076    viral release from host cell    The dissemination of mature viral particles from the host cell, e.g. by cell lysis or the budding of virus particles from the cell membrane.

 Visualization

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(no "Sites" information available for 3zqp)
 
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(no "Cis Peptide Bonds" information available for 3zqp)
 

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  3zqp
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  TERS_BPSF6 | P68928
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 Related Entries

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

UniProtKB/Swiss-Prot
        TERS_BPSF6 | P68928: 2cmp 3zqm 3zqn 3zqo 3zqq 4zc3

(-) Related Entries Specified in the PDB File

3zqm CRYSTAL STRUCTURE OF THE SMALL TERMINASE OLIGOMERIZATION CORE DOMAIN FROM A SPP1-LIKE BACTERIOPHAGE (CRYSTAL FORM 1)
3zqn CRYSTAL STRUCTURE OF THE SMALL TERMINASE OLIGOMERIZATION CORE DOMAIN FROM A SPP1-LIKE BACTERIOPHAGE (CRYSTAL FORM 2)
3zqo CRYSTAL STRUCTURE OF THE SMALL TERMINASE OLIGOMERIZATION CORE DOMAIN FROM A SPP1-LIKE BACTERIOPHAGE (CRYSTAL FORM 3)
3zqq CRYSTAL STRUCTURE OF THE FULL-LENGTH SMALL TERMINASE FROM A SPP1-LIKE BACTERIOPHAGE