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Protein

Capsid decoration protein

Gene

D

Organism
Enterobacteria phage lambda (Bacteriophage lambda)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Stabilizes the expansion of the capsid head shell after genome packaging. The packaging of viral genome in the procapsid triggers a dramatic reconfiguration of the capsid shell, expanding from roughly 50nm to 60nm while the capsid thickness decreases. 415 capsid decoration protein molecules cooperatively bind the expanded capsid, thereby stabilizing the mature capsid shell.3 Publications

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Viral capsid assembly, Virus exit from host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Capsid decoration protein
Alternative name(s):
Auxiliary protein D
Gene product D
Short name:
gpD
Major capsid protein D
Gene namesi
Name:D
Ordered Locus Names:lambdap07
OrganismiEnterobacteria phage lambda (Bacteriophage lambda)
Taxonomic identifieri10710 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageCaudoviralesSiphoviridaeLambdalikevirus
Virus hostiEscherichia coli [TaxID: 562]
Proteomesi
  • UP000001711 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid decoration protein, Capsid protein, Host cytoplasm, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 110110Capsid decoration proteinPRO_0000077597Add
BLAST

Expressioni

Keywords - Developmental stagei

Late protein

Interactioni

Subunit structurei

Homotrimer. Interacts with major capsid protein.2 Publications

Protein-protein interaction databases

IntActiP03712. 1 interaction.

Structurei

Secondary structure

1
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi21 – 266Combined sources
Beta strandi37 – 404Combined sources
Turni42 – 443Combined sources
Beta strandi47 – 493Combined sources
Beta strandi52 – 543Combined sources
Beta strandi58 – 625Combined sources
Beta strandi71 – 766Combined sources
Beta strandi78 – 825Combined sources
Turni83 – 853Combined sources
Helixi95 – 995Combined sources
Turni100 – 1045Combined sources
Beta strandi105 – 1106Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C5EX-ray1.10A/B/C16-110[»]
1TCZX-ray1.85A/B/C/D/E/F16-110[»]
1VD0NMR-A2-110[»]
ProteinModelPortaliP03712.
SMRiP03712. Positions 2-110.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP03712.

Family & Domainsi

Sequence similaritiesi

Belongs to the lambda phage gpD family.Curated

Family and domain databases

Gene3Di2.40.300.10. 1 hit.
InterProiIPR004195. Head_decoration_D.
[Graphical view]
PfamiPF02924. HDPD. 1 hit.
[Graphical view]
ProDomiPD020518. Head_decor_prot. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF51274. SSF51274. 1 hit.

Sequencei

Sequence statusi: Complete.

P03712-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTSKETFTHY QPQGNSDPAH TATAPGGLSA KAPAMTPLML DTSSRKLVAW
60 70 80 90 100
DGTTDGAAVG ILAVAADQTS TTLTFYKSGT FRYEDVLWPE AASDETKKRT
110
AFAGTAISIV
Length:110
Mass (Da):11,572
Last modified:July 21, 1986 - v1
Checksum:iF8552FBA2B107801
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02459 Genomic DNA. Translation: AAA96539.1.
PIRiG04333. VHBPDL.
RefSeqiNP_040586.1. NC_001416.1.

Genome annotation databases

GeneIDi2703529.
KEGGivg:2703529.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02459 Genomic DNA. Translation: AAA96539.1.
PIRiG04333. VHBPDL.
RefSeqiNP_040586.1. NC_001416.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C5EX-ray1.10A/B/C16-110[»]
1TCZX-ray1.85A/B/C/D/E/F16-110[»]
1VD0NMR-A2-110[»]
ProteinModelPortaliP03712.
SMRiP03712. Positions 2-110.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP03712. 1 interaction.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi2703529.
KEGGivg:2703529.

Miscellaneous databases

EvolutionaryTraceiP03712.

Family and domain databases

Gene3Di2.40.300.10. 1 hit.
InterProiIPR004195. Head_decoration_D.
[Graphical view]
PfamiPF02924. HDPD. 1 hit.
[Graphical view]
ProDomiPD020518. Head_decor_prot. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF51274. SSF51274. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "Structural transitions during maturation of bacteriophage lambda capsids."
    Dokland T., Murialdo H.
    J. Mol. Biol. 233:682-694(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBUNIT, TRIMERIZATION, INTERACTION WITH MAJOR CAPSID PROTEIN.
  3. "Bacteriophage lambda stabilization by auxiliary protein gpD: timing, location, and mechanism of attachment determined by cryo-EM."
    Lander G.C., Evilevitch A., Jeembaeva M., Potter C.S., Carragher B., Johnson J.E.
    Structure 16:1399-1406(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  4. "The bacteriophage lambda gpNu3 scaffolding protein is an intrinsically disordered and biologically functional procapsid assembly catalyst."
    Medina E.M., Andrews B.T., Nakatani E., Catalano C.E.
    J. Mol. Biol. 412:723-736(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, PROTEIN DISORDER, INTERACTION WITH MAJOR CAPSID PROTEIN.
  5. "The head protein D of bacterial virus lambda is related to eukaryotic chromosomal proteins."
    Witkiewicz H., Schweiger M.
    EMBO J. 1:1559-1564(1982) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE.
  6. "Novel fold and capsid-binding properties of the lambda-phage display platform protein gpD."
    Yang F., Forrer P., Dauter Z., Conway J.F., Cheng N., Cerritelli M.E., Steven A.C., Pluckthun A., Wlodawer A.
    Nat. Struct. Biol. 7:230-237(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.1 ANGSTROMS) OF 16-110.
  7. "Crystal structure of a truncated version of the phage lambda protein gpD."
    Chang C., Pluckthun A., Wlodawer A.
    Proteins 57:866-868(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.85 ANGSTROMS) OF 16-110.
  8. "NMR solution structure of the monomeric form of the bacteriophage lambda capsid stabilizing protein gpD."
    Iwai H., Forrer P., Pluckthun A., Guntert P.
    J. Biomol. NMR 31:351-356(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 2-110.

Entry informationi

Entry nameiDECO_LAMBD
AccessioniPrimary (citable) accession number: P03712
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 21, 1986
Last modified: February 17, 2016
This is version 94 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.