5IM5	Protein Binding	date	Mar 05, 2016
title	Crystal Structure Of Designed Two-Component Self-Assembling Icosahedral Cage I53-40
authors	Y.A.Liu, D.Cascio, M.R.Sawaya, J.B.Bale, M.J.Collazo, C.Thomas, W. N.P.King, D.Baker, T.O.Yeates
compound		source
Molecule: Designed Riboflavin Synthase Chain: K, M, O, Q, S, A, B, C, D, E, F, G, H, I, J Fragment: Riboflavin Synthase Ec: 2.5.1.9 Engineered: Yes Mutation: Yes		Organism_scientific: Methanocaldococcus Jannaschii (Strain 43067 Dsm 2661 Jal-1 Jcm 10045 Nbrc 100440); Organism_taxid: 243232 Strain: Atcc 43067 Dsm 2661 Jal-1 Jcm 10045 Nbrc 10 Gene: Ribc, Mj1184 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet29b
Molecule: Designed Keto-Hydroxyglutarate-Aldolaseketo-Deox Phosphogluconate Aldolase; Chain: P, T, N, V, W, U, Y, Z, X, 2, 4, 1, L, R, 3 Fragment: Keto-Hydroxyglutarate-Aldolaseketo-Deoxy-Phospho Aldolase; Ec: 4.1.3.16 Engineered: Yes Mutation: Yes		Organism_scientific: Vibrionales Bacterium (Strain Swat-3) Organism_taxid: 391574 Strain: Swat-3 Gene: Vswat3_13722 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet29b
symmetry	Space Group: I 2 2 2	R_factor 0.240 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 265.620 279.810 301.330 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.70 Å
ligand		enzyme	Transferase E.C.2.5.1.9 BRENDA
Gene	VSWAT3
Gene Ontology	Chain Function Process Component S, F, K, E, Q, M, C, A, O, J, B, H, D, I, G T, N, Y, 2, V, Z, 1, L, W, X, 3, P, 4, R, U

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1683 Kb) [Save to disk] Biological Unit Coordinates (5im5.pdb1.gz) 6641 Kb CSU: Contacts of Structural Units for 5IM5 Structure Factors (1935 Kb) Retrieve 5IM5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5IM5 from S2C, [Save to disk] Re-refined 5im5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5IM5 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 5IM5

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5im5_O] [5im5_4] [5im5_E] [5im5_Y] [5im5_W] [5im5_1] [5im5_A] [5im5_Q] [5im5_H] [5im5_D] [5im5_P] [5im5_G] [5im5_2] [5im5_F] [5im5_C] [5im5_J] [5im5_S] [5im5_L] [5im5_X] [5im5_K] [5im5_U] [5im5_Z] [5im5_T] [5im5_B] [5im5_I] [5im5_M] [5im5_R] [5im5_3] [5im5_V] [5im5_N] [5im5] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5IM5

Community annotation for 5IM5 at PDBWiki (http://pdbwiki.org)

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