1RPZ	Transferase Dna	date	Dec 03, 2003
title	T4 Polynucleotide Kinase Bound To 5'-Tgcac-3' Ssdna
authors	J.H.Eastberg, J.Pelletier, B.L.Stoddard
compound		source
Molecule: 5'-D(Tpgpcpapc)-3' Chain: B Engineered: Yes		Synthetic: Yes
Molecule: Polynucleotide Kinase Chain: A Synonym: Pnk, Polynucleotide 5'-Hydroxyl-Kinase Ec: 2.7.1.78 Engineered: Yes		Organism_scientific: Enterobacteria Phage T4 Organism_taxid: 10665 Gene: Pset Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pall17
symmetry	Space Group: I 2 2 2	R_factor 0.233 R_Free 0.302
crystal cell	length a length b length c angle alpha angle beta angle gamma 80.565 92.633 122.665 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.90 Å
ligand	ADP, CA, DMS, MSE	enzyme	Transferase E.C.2.7.1.78 BRENDA
related structures	by homologous chain: 1RC8
Gene Ontology	Chain Function Process Component A deoxynucleotide 3'-phosphata...
Primary reference	Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase., Eastberg JH, Pelletier J, Stoddard BL, Nucleic Acids Res 2004 Jan 30;32(2):653-60 Print 2004. PMID:14754987

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk] Biological Unit Coordinates (1rpz.pdb1.gz) 175 Kb LPC: Ligand-Protein Contacts for 1RPZ CSU: Contacts of Structural Units for 1RPZ Likely Quarternary Molecular Structure file(s) for 1RPZ Structure Factors (82 Kb) Retrieve 1RPZ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1RPZ from S2C, [Save to disk] Re-refined 1rpz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1RPZ 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 1RPZ

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 3D motif for 1RPZ, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1rpza2, region A:1-152 [Jmol] [rasmolscript] [script source]     - Domain d1rpza1, region A:153-301 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1rpz] [1rpz_A] [1rpz_B] SWISS-PROT database: [P06855] Domain organization of [KIPN_BPT4] by SWISSPFAM

Other resources with information on 1RPZ

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---