6PAX	Gene Regulation Dna	date	Apr 22, 1999
title	Crystal Structure Of The Human Pax-6 Paired Domain-Dna Complex Reveals A General Model For Pax Protein-Dna Interactions
authors	H.E.Xu, M.A.Rould, W.Xu, J.A.Epstein, R.L.Maas, C.O.Pabo
compound		source
Molecule: 26 Nucleotide Dna Chain: B Engineered: Yes		Synthetic: Yes
Molecule: 26 Nucleotide Dna Chain: C Engineered: Yes		Synthetic: Yes
Molecule: Homeobox Protein Pax-6 Chain: A Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pax6 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3)
symmetry	Space Group: P 21 21 21	R_factor 0.233 R_Free 0.256
crystal cell	length a length b length c angle alpha angle beta angle gamma 33.840 61.686 171.111 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
related structures	by homologous chain: 1K78, 1PDN
Primary reference	Crystal structure of the human Pax6 paired domain-DNA complex reveals specific roles for the linker region and carboxy-terminal subdomain in DNA binding., Xu HE, Rould MA, Xu W, Epstein JA, Maas RL, Pabo CO, Genes Dev 1999 May 15;13(10):1263-75. PMID:10346815

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk] Biological Unit Coordinates (6pax.pdb1.gz) 51 Kb CSU: Contacts of Structural Units for 6PAX Likely Quarternary Molecular Structure file(s) for 6PAX Structure Factors (141 Kb) Retrieve 6PAX in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 6PAX from S2C, [Save to disk] Re-refined 6pax structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 6PAX 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 6PAX

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 6PAX, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d6paxa1, region A:1-68 [Jmol] [rasmolscript] [script source]     - Domain d6paxa2, region A:69-133 [Jmol] [rasmolscript] [script source] Fold representative 6pax from FSSP and Dali (Families of Structurally Similar Proteins) 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: [6pax_A] [6pax_B] [6pax_C] SWISS-PROT database: [P26367] Domain organization of [PAX6_HUMAN] by SWISSPFAM Domain found in 6PAX: [PAX ] by SMART Alignments of the sequence of 6PAX with the sequences similar proteins can be viewed for 6PAX's classification [PAX6_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PAX6_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 6PAX

Community annotation for 6PAX at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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