1B8I	Transcription Dna	date	Feb 01, 1999
title	Structure Of The Homeotic Ubxexddna Ternary Complex
authors	J.M.Passner, H.D.Ryoo, L.Shen, R.S.Mann, A.K.Aggarwal
compound		source
Molecule: Dna (5'-D(Gptpcpgpcpcpaptpapapaptpcp 3'); Chain: C Fragment: Ubxexd Consensus Binding Site Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'-D(Apcpgptpgpaptptptpaptpgpgp 3'); Chain: D Fragment: Ubxexd Consensus Binding Site Engineered: Yes		Synthetic: Yes
Molecule: Protein (Ultrabithorax Homeotic Protein Iv) Chain: A Fragment: Ypwm Motif And Homeodomain Synonym: Ultrabithorax Engineered: Yes Mutation: Yes		Organism_scientific: Drosophila Melanogaster Organism_common: Fruit Fly Organism_taxid: 7227 Cellular_location: Nucleus Gene: Ubx Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_variant: Plyss Expression_system_cellular_location: Cytoplasm Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-3a Other_details: Iva Splicing Isoform Of The Ubx Gene Was Use
Molecule: Protein (Homeobox Protein Extradenticle) Chain: B Fragment: Homeodomain Synonym: Pbx Protein Engineered: Yes		Organism_scientific: Drosophila Melanogaster Organism_common: Fruit Fly Organism_taxid: 7227 Cellular_location: Nucleus Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_cellular_location: Cytoplasm
symmetry	Space Group: P 43 21 2	R_factor 0.224 R_Free 0.304
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.430 69.430 100.700 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.40 Å
related structures	by homologous chain: 1B72, 1SAN, 9ANT
Gene Ontology	Chain Function Process Component A B
Primary reference	Structure of a DNA-bound Ultrabithorax-Extradenticle homeodomain complex., Passner JM, Ryoo HD, Shen L, Mann RS, Aggarwal AK, Nature 1999 Feb 25;397(6721):714-9. PMID:10067897

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk] Biological Unit Coordinates (1b8i.pdb1.gz) 35 Kb CSU: Contacts of Structural Units for 1B8I Likely Quarternary Molecular Structure file(s) for 1B8I Retrieve 1B8I in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1B8I from S2C, [Save to disk]

View 1B8I 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 1B8I

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1B8I, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1b8ia_, region A [Jmol] [rasmolscript] [script source]     - Domain d1b8ib_, region B [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1b8i] [1b8i_C] [1b8i_B] [1b8i_D] [1b8i_A] SWISS-PROT database: [P40427] [P83949] Domain organization of [EXD_DROME] [UBX_DROME] by SWISSPFAM Domain found in 1B8I: [HOX ] by SMART

Other resources with information on 1B8I

Community annotation for 1B8I at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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