1LD4 Virus date Apr 08, 2002
title Placement Of The Structural Proteins In Sindbis Virus
authors W.Zhang, S.Mukhopadhyay, S.V.Pletnev, T.S.Baker, R.J.Kuhn, M.G.Ro
compound source
Molecule: Coat Protein C
Chain: A, B, C, D
Synonym: Capsid Protein C
Ec: 3.4.21.-
Organism_scientific: Sindbis Virus
Organism_taxid: 11034

Molecule: General Control Protein Gcn4
Chain: E, F, G, H, I, J, K, L
Fragment: Leucine-Zipper (Residues 225-281)
Synonym: Amino Acid Biosynthesis Regulatory Protein

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Spike Glycoprotein E1
Chain: M, N, O, P
Synonym: Fusion Protein E1

Organism_scientific: Sindbis Virus
Organism_taxid: 11034
symmetry Space Group: P 1
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 11.40 Å
ligand UNX enzyme Hydrolase E.C.3.4.21 BRENDA
C, A, B, D

F, K, E, L, J, H, I, G

N, M, O, P

Primary referencePlacement of the structural proteins in Sindbis virus., Zhang W, Mukhopadhyay S, Pletnev SV, Baker TS, Kuhn RJ, Rossmann MG, J Virol 2002 Nov;76(22):11645-58. PMID:12388725
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (327 Kb) [Save to disk]
  • Biological Unit Coordinates (1ld4.pdb1.gz) 18933 Kb
  • LPC: Ligand-Protein Contacts for 1LD4
  • CSU: Contacts of Structural Units for 1LD4
  • Likely Quarternary Molecular Structure file(s) for 1LD4
  • Retrieve 1LD4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LD4 from S2C, [Save to disk]
  • View 1LD4 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1LD4
  • VIPERdb: visual, structural and computational analysis of 1LD4
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1LD4, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ld4a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1ld4b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1ld4c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1ld4d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1ld4e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1ld4f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1ld4g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1ld4h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1ld4i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1ld4j_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1ld4k_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1ld4l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1ld4m_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1ld4n_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1ld4o_, region O [Jmol] [rasmolscript] [script source]
        - Domain d1ld4p_, region P [Jmol] [rasmolscript] [script source]
  • Fold representative 1ld4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ld4_F] [1ld4_L] [1ld4_M] [1ld4_N] [1ld4_A] [1ld4_K] [1ld4_G] [1ld4] [1ld4_J] [1ld4_C] [1ld4_B] [1ld4_H] [1ld4_I] [1ld4_E] [1ld4_O] [1ld4_D] [1ld4_P]
  • SWISS-PROT database: [P03069] [P03316]
  • Domain organization of [GCN4_YEAST] [POLS_SINDV] by SWISSPFAM
  • Domain found in 1LD4: [BRLZ ] by SMART
  • Other resources with information on 1LD4
  • Community annotation for 1LD4 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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