1PDP	Structural Protein	date	May 19, 2003
title	Fitting Of Gp9 Structure Into The Bacteriophage T4 Baseplate Reconstruction
authors	V.A.Kostyuchenko, P.G.Leiman, P.R.Chipman, S.Kanamaru, M.J.Van R F.Arisaka, V.V.Mesyanzhinov, M.G.Rossmann
compound		source
Molecule: Baseplate Structural Protein Gp9 Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R Synonym: Baseplate Wedge Protein 9		Organism_scientific: Enterobacteria Phage T4 Organism_taxid: 10665
symmetry	Space Group: P 1	R_factor R_Free
crystal cell	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 Microscopy	resolution	12.00 Å
Gene Ontology	Chain Function Process Component F, N, K, E, Q, M, C, L, A, J, O, P, B, H, D, R, I, G
Primary reference	Three-dimensional structure of bacteriophage T4 baseplate., Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG, Nat Struct Biol 2003 Sep;10(9):688-93. Epub 2003 Aug 17. PMID:12923574

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (112 Kb) [Save to disk] Biological Unit Coordinates (1pdp.pdb1.gz) 110 Kb CSU: Contacts of Structural Units for 1PDP Likely Quarternary Molecular Structure file(s) for 1PDP Retrieve 1PDP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PDP from S2C, [Save to disk]

View 1PDP 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 1PDP

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1PDP, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pdpa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1pdpb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1pdpc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1pdpd_, region D [Jmol] [rasmolscript] [script source]     - Domain d1pdpe_, region E [Jmol] [rasmolscript] [script source]     - Domain d1pdpf_, region F [Jmol] [rasmolscript] [script source]     - Domain d1pdpg_, region G [Jmol] [rasmolscript] [script source]     - Domain d1pdph_, region H [Jmol] [rasmolscript] [script source]     - Domain d1pdpi_, region I [Jmol] [rasmolscript] [script source]     - Domain d1pdpj_, region J [Jmol] [rasmolscript] [script source]     - Domain d1pdpk_, region K [Jmol] [rasmolscript] [script source]     - Domain d1pdpl_, region L [Jmol] [rasmolscript] [script source]     - Domain d1pdpm_, region M [Jmol] [rasmolscript] [script source]     - Domain d1pdpn_, region N [Jmol] [rasmolscript] [script source]     - Domain d1pdpo_, region O [Jmol] [rasmolscript] [script source]     - Domain d1pdpp_, region P [Jmol] [rasmolscript] [script source]     - Domain d1pdpq_, region Q [Jmol] [rasmolscript] [script source]     - Domain d1pdpr_, region R [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1pdp_O] [1pdp_M] [1pdp_N] [1pdp_B] [1pdp_C] [1pdp_Q] [1pdp_G] [1pdp_H] [1pdp_J] [1pdp_K] [1pdp_P] [1pdp_F] [1pdp] [1pdp_I] [1pdp_E] [1pdp_R] [1pdp_D] [1pdp_A] [1pdp_L] SWISS-PROT database: [P10927] Belongs to the gp27/5 t4-baseplate (t4-bp) family according to TCDB. Domain organization of [VG09_BPT4] by SWISSPFAM

Other resources with information on 1PDP

Community annotation for 1PDP at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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