5KNN	Ligase	date	Jun 28, 2016
title	Evolutionary Gain Of Alanine Mischarging To Non-Cognate Trna G4:U69 Base Pair
authors	L.Sun, W.He, X.L.Yang
compound		source
Molecule: Alanine--Trna Ligase, Cytoplasmic Chain: A, B, C, D, E, F, G, H Fragment: Residues 4-453 Synonym: Alanyl-Trna Synthetase,Alars,Renal Carcinoma Antig 42; Ec: 6.1.1.7 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Aars Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4; Expression_system_taxid: 1182032
symmetry	Space Group: P 1	R_factor 0.216 R_Free 0.254
crystal cell	length a length b length c angle alpha angle beta angle gamma 52.167 98.260 201.385 90.07 89.95 90.11
method	X-Ray Diffraction	resolution	2.68 Å
ligand	A5A	enzyme	Ligase E.C.6.1.1.7 BRENDA
Gene Ontology	Chain Function Process Component F, A, E, B, H, C, D, G
Primary reference	Evolutionary gain of alanine mischarging to non-cognate tRNAs with a G4:U69 base pair., Sun L, Gomes AC, He W, Zhou H, Wang X, Pan DW, Schimmel P, Pan T, Yang XL, J Am Chem Soc. 2016 Sep 13. PMID:27622773

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (575 Kb) [Save to disk] Biological Unit Coordinates (5knn.pdb1.gz) 76 Kb Biological Unit Coordinates (5knn.pdb2.gz) 77 Kb Biological Unit Coordinates (5knn.pdb3.gz) 77 Kb Biological Unit Coordinates (5knn.pdb4.gz) 77 Kb Biological Unit Coordinates (5knn.pdb5.gz) 78 Kb Biological Unit Coordinates (5knn.pdb6.gz) 78 Kb Biological Unit Coordinates (5knn.pdb7.gz) 77 Kb Biological Unit Coordinates (5knn.pdb8.gz) 77 Kb LPC: Ligand-Protein Contacts for 5KNN CSU: Contacts of Structural Units for 5KNN Structure Factors (2395 Kb) Retrieve 5KNN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5KNN from S2C, [Save to disk] Re-refined 5knn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5KNN 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 5KNN

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5knn_D] [5knn] [5knn_B] [5knn_C] [5knn_H] [5knn_E] [5knn_A] [5knn_F] [5knn_G] SWISS-PROT database: Domain organization of by SWISSPFAM

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