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(-) Description

Title :  CRYSTAL STRUCTURE OF A TRUNCATED VERSION OF THE PHAGE LAMDA PROTEIN GPD
 
Authors :  C. Chang, A. Plueckthun, A. Wlodawer
Date :  21 May 04  (Deposition) - 15 Jun 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Phage Lamda Protein Gpd, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, A. Plueckthun, A. Wlodawer
Crystal Structure Of A Truncated Version Of The Phage Lambda Protein Gpd.
Proteins V. 57 866 2004
PubMed-ID: 15317025  |  Reference-DOI: 10.1002/PROT.20254
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HEAD DECORATION PROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINAL TRUNCATION
    Gene: D
    Organism Scientific: ENTEROBACTERIA PHAGE LAMBDA
    Organism Taxid: 10710
    Synonym: GPD, MAJOR CAPSID PROTEIN D

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1TCZ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1TCZ)

(-) 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:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tcza_ A: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczA00 A:15-109  [code=2.40.300.10, no name defined]                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee..........eee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz A   15 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  109
                                    24        34        44        54        64        74        84        94       104     


Chain B from PDB  Type:PROTEIN  Length:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tczb_ B: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczB00 B:215-309  [code=2.40.300.10, no name defined]                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee........eeeee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz B  215 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  309
                                   224       234       244       254       264       274       284       294       304     


Chain C from PDB  Type:PROTEIN  Length:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tczc_ C: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczC00 C:415-509  [code=2.40.300.10, no name defined]                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee........eeeee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz C  415 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  509
                                   424       434       444       454       464       474       484       494       504     


Chain D from PDB  Type:PROTEIN  Length:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tczd_ D: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczD00 D:615-709  [code=2.40.300.10, no name defined]                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee..........eee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz D  615 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  709
                                   624       634       644       654       664       674       684       694       704     


Chain E from PDB  Type:PROTEIN  Length:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tcze_ E: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczE00 E:815-909  [code=2.40.300.10, no name defined]                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee........eeeee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz E  815 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  909
                                   824       834       844       854       864       874       884       894       904     


Chain F from PDB  Type:PROTEIN  Length:95
 aligned with DECO_LAMBD | P03712 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:95
                                    25        35        45        55        65        75        85        95       105     
          DECO_LAMBD     16 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV  110
               SCOP domains d1tczf_ F: Head decoration protein D (gpD, major capsid protein D)                              SCOP domains
               CATH domains 1tczF00 F:1015-1109  [code=2.40.300.10, no name defined]                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...........eeee......eee........eeeee.........eeeee.eeeee...........hhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                1tcz F 1015 SDPAHTATAPGGLSAKAPAMTPLMLDTSSRKLVAWDGTTDGAAVGILAVAADQTSTTLTFYKSGTFRYEDVLWPEAASDETKKRTAFAGTAISIV 1109
                                  1024      1034      1044      1054      1064      1074      1084      1094      1104
   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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 6)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (DECO_LAMBD | P03712)
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:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    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:0098021    viral capsid, decoration    Component of the virus capsid (head), located on the outer head surface. Involved in the stabilization of the head structure and usually non-essential.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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  1tcz
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  DECO_LAMBD | P03712
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 Related Entries

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UniProtKB/Swiss-Prot
        DECO_LAMBD | P03712: 1c5e 1vd0

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