6CIL	Recombination Dna	date	Feb 24, 2018
title	Pre-Reaction Complex, Rag1(E962q)2-Intactintact 1223rss C Mn2+
authors	W.Chuenchor, X.Chen, M.S.Kim, M.Gellert, W.Yang
compound		source
Molecule: V(D)J Recombination-Activating Protein 1 Chain: A, C Synonym: Rag-1 Ec: 3.1.-.-,2.3.2.27 Engineered: Yes Mutation: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Rag1 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_plasmid: Plexm
Molecule: V(D)J Recombination-Activating Protein 2 Chain: B, D Synonym: Rag-2 Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Rag2, Rag-2 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_plasmid: Plexm
Molecule: High Mobility Group Protein B1 Chain: N Synonym: High Mobility Group Protein 1,Hmg-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hmgb1, Hmg1 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_cell_line: Bl21(De3)
Molecule: Intact 12rss Substrate Reverse Strand Chain: F Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
Molecule: Intact 12rss Substrate Forward Strand Chain: I Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
Molecule: Intact 23rss Substrate Reverse Strand Chain: G Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
Molecule: Intact 23rss Substrate Forward Strand Chain: J Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
symmetry	Space Group: C 1 2 1	R_factor 0.206 R_Free 0.231
crystal cell	length a length b length c angle alpha angle beta angle gamma 157.332 118.830 198.960 90.00 100.59 90.00
method	X-Ray Diffraction	resolution	4.15 Å
ligand	MN, ZN	enzyme	Hydrolase E.C.3.1 BRENDA
Gene Ontology	Chain Function Process Component A, C D, B N
Primary reference	Cracking the DNA Code for V(D)J Recombination., Kim MS, Chuenchor W, Chen X, Cui Y, Zhang X, Zhou ZH, Gellert M, Yang W, Mol Cell. 2018 Apr 19;70(2):358-370.e4. doi: 10.1016/j.molcel.2018.03.008. Epub, 2018 Apr 5. PMID:29628308

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (375 Kb) [Save to disk] Biological Unit Coordinates (6cil.pdb1.gz) 366 Kb LPC: Ligand-Protein Contacts for 6CIL CSU: Contacts of Structural Units for 6CIL Structure Factors (770 Kb) Retrieve 6CIL in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 6CIL from S2C, [Save to disk]

View 6CIL 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 6CIL

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: [6cil_G] [6cil_F] [6cil_J] [6cil_N] [6cil_B] [6cil_D] [6cil_I] [6cil_C] [6cil_A] SWISS-PROT database: Domain organization of by SWISSPFAM

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