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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PRE-ASSEMBLY SCAFFOLDING PROTEIN GP7 FROM THE DOUBLE-STRANDED DNA BACTERIOPHAGE PHI29
 
Authors :  M. C. Morais, S. Kanamaru, M. O. Badasso, J. S. Koti, B. A. L. Owen, C. T. Mcmurray, D. L. Anderson, M. G. Rossmann
Date :  15 Jan 03  (Deposition) - 01 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Coiled-Coil, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. C. Morais, S. Kanamaru, M. O. Badasso, J. S. Koti, B. A. L. Owen, C. T. Mcmurray, D. L. Anderson, M. G. Rossmann
Bacteriophage F29 Scaffolding Protein Gp7 Before And After Prohead Assembly
Nat. Struct. Biol. V. 10 572 2003
PubMed-ID: 12778115  |  Reference-DOI: 10.1038/NSB939
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HEAD MORPHOGENESIS PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PARGP7
    Expression System Strain: HMS174(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GP7
    Organism Scientific: BACILLUS PHAGE PHI29
    Organism Taxid: 10756
    Synonym: BACTERIOPHAGE PHI29 SCAFFOLDING PROTEIN GP7

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1NO4)

(-) Sites  (0, 0)

(no "Site" information available for 1NO4)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NO4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1NO4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NO4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1NO4)

(-) Exons   (0, 0)

(no "Exon" information available for 1NO4)

(-) Sequences/Alignments

Asymmetric 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:77
 aligned with SCAF_BPPH2 | P13848 from UniProtKB/Swiss-Prot  Length:98

    Alignment length:77
                                    11        21        31        41        51        61        71       
            SCAF_BPPH2    2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLTDKQE 78
               SCOP domains d1no4a_ A: Head morphogenesis protein gp7                                     SCOP domains
               CATH domains 1no4A00 A:2-78  [code=1.20.5.400, no name defined]                            CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                  1no4 A  2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLTEKQE 78
                                    11        21        31        41        51        61        71       


Chain B from PDB  Type:PROTEIN  Length:75
 aligned with SCAF_BPPH2 | P13848 from UniProtKB/Swiss-Prot  Length:98

    Alignment length:75
                                    11        21        31        41        51        61        71     
            SCAF_BPPH2    2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLTDK 76
               SCOP domains d1no4b_ B: Head morphogenesis protein gp7                                   SCOP domains
               CATH domains 1no4B00 B:2-76  [code=1.20.5.400, no name defined]                          CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  1no4 B  2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLTEK 76
                                    11        21        31        41        51        61        71     


Chain C from PDB  Type:PROTEIN  Length:73
 aligned with SCAF_BPPH2 | P13848 from UniProtKB/Swiss-Prot  Length:98

    Alignment length:73
                                    11        21        31        41        51        61        71   
            SCAF_BPPH2    2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLT 74
               SCOP domains d1no4c_ C: Head morphogenesis protein gp7                                 SCOP domains
               CATH domains 1no4C00 C:2-74  [code=1.20.5.400, no name defined]                        CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  1no4 C  2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLT 74
                                    11        21        31        41        51        61        71   


Chain D from PDB  Type:PROTEIN  Length:73
 aligned with SCAF_BPPH2 | P13848 from UniProtKB/Swiss-Prot  Length:98

    Alignment length:73
                                    11        21        31        41        51        61        71   
            SCAF_BPPH2    2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLT 74
               SCOP domains d1no4d_ D: Head morphogenesis protein gp7                                 SCOP domains
               CATH domains 1no4D00 D:2-74  [code=1.20.5.400, no name defined]                        CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  1no4 D  2 PLKPEEHEDILNKLLDPELAQSERTEALQQLRVNYGSFVSEYNDLTKSHEKLAAEKDDLIVSNSKLFRQIGLT 74
                                    11        21        31        41        51        61        71
   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, 4)

Asymmetric Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1NO4)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (SCAF_BPPH2 | P13848)
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: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.
cellular component
    GO:0046806    viral scaffold    A complex of proteins that form a scaffold around which the viral capsid is constructed.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SCAF_BPPH2 | P13848: 1noh 3mtu 3oa7 4iff 4xa1 4xa3 4xa6 5cj1

(-) Related Entries Specified in the PDB File

1noh GP7 SCAFFOLDING PROTEIN AFTER PROHEAD ASSEMBLY