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(-) Description

Title :  THE SELENOMETHIONINE DERIVATIVE OF P3, THE MAJOR COAT PROTEIN OF THE LIPID-CONTAINING BACTERIOPHAGE PRD1.
 
Authors :  S. D. Benson, J. K. H. Bamford, D. H. Bamford, R. M. Burnett
Date :  18 Dec 00  (Deposition) - 17 Jan 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Bacteriophage Prd1, Coat Protein, Jelly Roll, Viral Beta Barrel, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. D. Benson, J. K. Bamford, D. H. Bamford, R. M. Burnett
The X-Ray Crystal Structure Of P3, The Major Coat Protein Of The Lipid-Containing Bacteriophage Prd1, At 1. 65 A Resolution.
Acta Crystallogr. , Sect. D V. 58 39 2002
PubMed-ID: 11752778  |  Reference-DOI: 10.1107/S0907444901017279
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MAJOR CAPSID PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: SALMONELLA TYPHIMURIUM
    Expression System Taxid: 602
    Organism Scientific: ENTEROBACTERIA PHAGE PRD1
    Organism Taxid: 10658
    Synonym: PROTEIN P3

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 15)

Asymmetric/Biological Unit (1, 15)
No.NameCountTypeFull Name
1MSE15Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1HQN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1HQN)

(-) 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:369
 aligned with CAPSD_BPPRD | P22535 from UniProtKB/Swiss-Prot  Length:395

    Alignment length:369
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375         
          CAPSD_BPPRD    16 RNQQAMAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSMVTDSPIKYGDVMNVIDAPATIAAGATGELTMYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLMGYEYFTSRT 384
               SCOP domains d1hqna1 A:16-244 Coat protein p3                                                                                                                                                                                                     d1hqna2 A:245-384 Coat protein p3                                                                                                            SCOP domains
               CATH domains 1hqnA01 A:16-243 Viral coat protein p3                                                                                                                                                                                              1hqnA02 A:244-384  [code=2.60.120.20, no name defined]                                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhheeeeeeeeeeee......eeee......eeeeeeeeeeeeeee......eee..hhhhh.eeeeeee.....eeeeeehhhhhhhhhhhhh..........................ee....eeeeeeeeeee...........ee........eeeeee......ee..........ee..hhh.eeeeeeeeeeeeeeee...ee..ee..hhhhhheeeeeeeeeee.......eeee.....eeeeeeeeeee.........eeeeeee..........hhhhhhhhhhhhhh......eeeee..............eeeeee......eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hqn A  16 RNQQAmAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSmVTDSPIKYGDVmNVIDAPATIAAGATGELTmYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLmGYEYFTSRT 384
                                 |  25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375         
                                 |                                                                                                             133-MSE     145-MSE            164-MSE                                                                                                                                                                                                            375-MSE     
                                21-MSE                                                                                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:370
 aligned with CAPSD_BPPRD | P22535 from UniProtKB/Swiss-Prot  Length:395

    Alignment length:370
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384
          CAPSD_BPPRD    15 LRNQQAMAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSMVTDSPIKYGDVMNVIDAPATIAAGATGELTMYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLMGYEYFTSRT 384
               SCOP domains d1hqnb1 B:15-244 Coat protein p3                                                                                                                                                                                                      d1hqnb2 B:245-384 Coat protein p3                                                                                                            SCOP domains
               CATH domains 1hqnB01 B:15-243 Viral coat protein p3                                                                                                                                                                                               1hqnB02 B:244-384  [code=2.60.120.20, no name defined]                                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee......eeee.....eeeeeeeeeeeeeeee......eee..hhhhh.eeeeeee.....eeeeeehhhhhhhhhhhhh..........................ee....eeeeeeeeeee...........eee.......eeeeee......ee..........ee..hhh.eeeeeeeeeeeeeeee...ee..ee....hhh.eeeeeeeeeee.......eeee.....eeeeeeeeeee.........eeeeeeee.........hhhhhhhhhhhhhh......eeeee.............eeeeeee......eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hqn B  15 LRNQQAmAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSmVTDSPIKYGDVmNVIDAPATIAAGATGELTmYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLmGYEYFTSRT 384
                                  | 24        34        44        54        64        74        84        94       104       114       124       134       144|      154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374|      384
                                 21-MSE                                                                                                         133-MSE     145-MSE            164-MSE                                                                                                                                                                                                            375-MSE     


Chain C from PDB  Type:PROTEIN  Length:372
 aligned with CAPSD_BPPRD | P22535 from UniProtKB/Swiss-Prot  Length:395

    Alignment length:372
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383  
          CAPSD_BPPRD    14 ALRNQQAMAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSMVTDSPIKYGDVMNVIDAPATIAAGATGELTMYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLMGYEYFTSRTE 385
               SCOP domains d1hqnc1 C:14-244 Coat protein p3                                                                                                                                                                                                       d1hqnc2 C:245-385 Coat protein p3                                                                                                             SCOP domains
               CATH domains 1hqnC01 C:14-243 Viral coat protein p3                                                                                                                                                                                                1hqnC02 C:244-385  [code=2.60.120.20, no name defined]                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee......eeee......eeeeeeeeeeeeeee......eee..hhhhh.eeeeeee.....eeeeeehhhhhhhhhhhhh..........................ee....eeeeeeeeeee...........ee........eeeeee......ee..........ee..hhh.eeeeeeeeeeeeeeee...ee..ee..hhhhhheeeeeeeeeee.......eeee.....eeeeeeeeeee.........eeeeeee..........hhhhhhhhhhhhhh......eeeee..............eeeeee......eeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1hqn C  14 ALRNQQAmAANLQARQIVLQQSYPVIQQVETQTFDPANRSVFDVTPANVGIVKGFLVKVTAAITNNHATEAVALTDFGPANLVQRVIYYDPDNQRHTETSGWHLHFVNTAKQGAPFLSSmVTDSPIKYGDVmNVIDAPATIAAGATGELTmYYWVPLAYSETDLTGAVLANVPQSKQRLKLEFANNNTAFAAVGANPLEAIYQGAGAADCEFEEISYTVYQSYLDQLPVGQNGYILPLIDLSTLYNLENSAQAGLTPNVDFVVQYANLYRYLSTIAVFDNGGSFNAGTDINYLSQRTANFSDTRKLDPKTWAAQTRRRIATDFPKGVYYCDNRDKPIYTLQYGNVGFVVNPKTVNQNARLLmGYEYFTSRTE 385
                                   |23        33        43        53        63        73        83        93       103       113       123       133       143 |     153       163|      173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373 |     383  
                                  21-MSE                                                                                                         133-MSE     145-MSE            164-MSE                                                                                                                                                                                                            375-MSE
   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  (1, 6)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 6)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (CAPSD_BPPRD | P22535)
molecular function
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
cellular component
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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  1hqn
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 Related Entries

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

UniProtKB/Swiss-Prot
        CAPSD_BPPRD | P22535: 1cjd 1gw7 1gw8 1hb5 1hb7 1hb9 1hx6 1w8x

(-) Related Entries Specified in the PDB File

1cjd THE NATIVE P3 STRUCTURE AT 1.85 RESOLUTION.