1YFL	Transferase Dna	date	Jan 03, 2005
title	T4dam In Complex With Sinefungin And 16-Mer Oligonucleotide Semi-Specific And Specific Contact And Flipped Base
authors	J.R.Horton, K.Liebert, S.Hattman, A.Jeltsch, X.Cheng
compound		source
Molecule: 5'-D(Ptpcpapcpapgpgpaptpcpcptpgptp Chain: F, G, H, I Engineered: Yes		Synthetic: Yes Other_details: Synthesized By New England Biolabs
Molecule: Dna Adenine Methylase Chain: A, B, D, E Synonym: Deoxyadenosyl-Methyltransferase, M.Ecot4dam Ec: 2.1.1.72 Engineered: Yes		Organism_scientific: Enterobacteria Phage T4 Organism_taxid: 10665 Gene: Dam Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Gm 2971 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pjw2
symmetry	Space Group: P 1 21 1	R_factor 0.214 R_Free 0.265
crystal cell	length a length b length c angle alpha angle beta angle gamma 87.871 117.648 87.865 90.00 90.02 90.00
method	X-Ray Diffraction	resolution	3.09 Å
ligand	SFG	enzyme	Transferase E.C.2.1.1.72 BRENDA
Gene Ontology	Chain Function Process Component A, D, E, B
Primary reference	Transition from nonspecific to specific DNA interactions along the substrate-recognition pathway of dam methyltransferase., Horton JR, Liebert K, Hattman S, Jeltsch A, Cheng X, Cell 2005 May 6;121(3):349-61. PMID:15882618

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (193 Kb) [Save to disk] Biological Unit Coordinates (1yfl.pdb1.gz) 94 Kb Biological Unit Coordinates (1yfl.pdb2.gz) 96 Kb LPC: Ligand-Protein Contacts for 1YFL CSU: Contacts of Structural Units for 1YFL Likely Quarternary Molecular Structure file(s) for 1YFL Retrieve 1YFL in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YFL from S2C, [Save to disk]

View 1YFL 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 1YFL

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1YFL, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yfl_E] [1yfl_I] [1yfl_B] [1yfl_F] [1yfl_G] [1yfl_H] [1yfl] [1yfl_A] [1yfl_D] SWISS-PROT database: [P04392] Domain organization of [DMA_BPT4] by SWISSPFAM

Other resources with information on 1YFL

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

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