1KA8	Transferase	date	Oct 31, 2001
title	Crystal Structure Of The Phage P4 Origin-Binding Domain
authors	H.J.Yeo, G.Ziegelin, S.Korolev, R.Calendar, E.Lanka, G.Waksman
compound		source
Molecule: Putative P4-Specific Dna Primase Chain: A, B, C, D, E, F Fragment: Origin-Binding Domain Ec: 2.7.7.- Engineered: Yes		Organism_scientific: Enterobacteria Phage P4 Organism_taxid: 10680 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 31 2 1	R_factor 0.241 R_Free 0.284
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.549 82.549 232.629 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.95 Å
ligand		enzyme	Transferase E.C.2.7.7 BRENDA
Primary reference	Phage P4 origin-binding domain structure reveals a mechanism for regulation of DNA-binding activity by homo- and heterodimerization of winged helix proteins., Yeo HJ, Ziegelin G, Korolev S, Calendar R, Lanka E, Waksman G, Mol Microbiol 2002 Feb;43(4):855-67. PMID:11929537

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk] Biological Unit Coordinates (1ka8.pdb1.gz) 33 Kb Biological Unit Coordinates (1ka8.pdb2.gz) 33 Kb Biological Unit Coordinates (1ka8.pdb3.gz) 33 Kb CSU: Contacts of Structural Units for 1KA8 Likely Quarternary Molecular Structure file(s) for 1KA8 Retrieve 1KA8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KA8 from S2C, [Save to disk]

View 1KA8 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 1KA8

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1KA8, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ka8a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1ka8b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1ka8c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1ka8d_, region D [Jmol] [rasmolscript] [script source]     - Domain d1ka8e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1ka8f_, region F [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: [1ka8_E] [1ka8_C] [1ka8_B] [1ka8_A] [1ka8_D] [1ka8_F] [1ka8] SWISS-PROT database: [P10277] Domain organization of [PRIM_BPP4] by SWISSPFAM

Other resources with information on 1KA8

Community annotation for 1KA8 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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