1YSG	Apoptosis	date	Feb 08, 2005
title	Solution Structure Of The Anti-Apoptotic Protein Bcl-Xl In Complex With "Sar By Nmr" Ligands
authors	T.Oltersdorf, S.W.Elmore, A.R.Shoemaker, R.C.Armstrong, D.J.Augeri, B.A.Belli, M.Bruncko, T.L.Deckwerth, J.Dinges, P.J.Hajduk, M.K.Joseph, S.Kitada, S.J.Korsmeyer, A.R.Kunzer, A.Letai, C.Li, M.J.Mitten, D.G.Nettesheim, S.Ng, P.M.Nimmer, J.M.O'Connor, A.Oleksijew, A.M.Petros, J.C.Reed, W.Shen, S.K.Tahir, C.B.Thompson, K.J.Tomaselli, B.Wang, M.D.Wendt, H.Zhang, S.W.Fesik, S.H.Rosenberg
compound		source
Molecule: Apoptosis Regulator Bcl-X Chain: A Synonym: Bcl-2-Like 1 Protein Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Bcl2l1, Bcl2l, Bclx Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30b
method	Solution NMR
ligand	4FC, TN1	enzyme
related structures	by homologous chain: 1G5J, 1YSI
Gene Ontology	Chain Function Process Component A protein binding protein kinase binding protein heterodimerization a... cytokinesis ovarian follicle development... in utero embryonic developme... release of cytochrome c from... apoptotic process mitotic cell cycle checkpoin... germ cell development spermatogenesis cell proliferation positive regulation of cell ... male gonad development negative regulation of survi... apoptotic mitochondrial chan... response to radiation fertilization response to virus response to cytokine stimulu... nucleotide-binding domain, l... growth positive regulation of apopt... negative regulation of apopt... negative regulation of neuro... innate immune response response to cycloheximide regulation of mitochondrial ... regulation of mitochondrial ... cellular process regulating ... cellular response to amino a... cellular response to alkaloi... cellular response to gamma r... negative regulation of estab... negative regulation of relea... intrinsic apoptotic signalin... positive regulation of intri... intracellular nucleus cytoplasm mitochondrion mitochondrial outer membrane... centrosome microtubule organizing cente... cytosol cytoskeleton membrane integral to membrane nuclear membrane mitochondrial membrane mitochondrial part Bcl-2 family protein complex...
Primary reference	An inhibitor of Bcl-2 family proteins induces regression of solid tumours., Oltersdorf T, Elmore SW, Shoemaker AR, Armstrong RC, Augeri DJ, Belli BA, Bruncko M, Deckwerth TL, Dinges J, Hajduk PJ, Joseph MK, Kitada S, Korsmeyer SJ, Kunzer AR, Letai A, Li C, Mitten MJ, Nettesheim DG, Ng S, Nimmer PM, O'Connor JM, Oleksijew A, Petros AM, Reed JC, Shen W, Tahir SK, Thompson CB, Tomaselli KJ, Wang B, Wendt MD, Zhang H, Fesik SW, Rosenberg SH, Nature 2005 Jun 2;435(7042):677-81. Epub 2005 May 15. PMID:15902208

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk] LPC: Ligand-Protein Contacts for 1YSG CSU: Contacts of Structural Units for 1YSG Retrieve 1YSG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YSG from S2C, [Save to disk]

View 1YSG 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1YSG

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 1YSG, from MSDmotif at EBI Fold representative 1ysg from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ysg_A] SWISS-PROT database: [Q07817] Belongs to the bcl-2 (bcl-2) family according to TCDB. Domain organization of [B2CL1_HUMAN] by SWISSPFAM Domains found in 1YSG: [BCL] [BH4 ] by SMART Alignments of the sequence of 1YSG with the sequences similar proteins can be viewed for 1YSG's classification [B2CL1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [B2CL1_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1YSG

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

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