4V88	The structure of the eukaryotic ribosome at 3.0 A resolution.	date
authors	Ben-Shem, A., Loubresse, N.Garreau.de., Melnikov, S., Jenner, L., Yusupova, G., Yusupov, M.
compound		source
symmetry		R_factor R_Free 0.2285
crystal cell	length a length b length c angle alpha angle beta angle gamma
method	X-Ray Diffraction	resolution	3.00
note	4V88 supersedes 3U5B, 3U5C, 3U5D, 3U5E, 3U5F, 3U5G, 3U5H, 3U5I
Gene Ontology	Chain Function Process Component AA, CA AC, CC AE, CE cytosolic small ribosomal su... AH, CH AJ, CJ cytosolic small ribosomal su... AL, CL cytosolic small ribosomal su... AM, CM cytosolic small ribosomal su... AN, CN cytosolic small ribosomal su... AO, CO AR, CR AT, CT cytosolic small ribosomal su... AU, CU cytosolic small ribosomal su... AX, CX AY, CY AZ, CZ cytosolic small ribosomal su... Ae, Ce Af, Cf cytosolic small ribosomal su... Ah BA, DA BC, DC cytosolic large ribosomal su... BE, DE BF, DF BH, DH BL, DL cytosolic large ribosomal su... BN, DN BQ, DQ cytosolic large ribosomal su... BR, DR cytosolic large ribosomal su... BT, DT cytosolic large ribosomal su... BW, DW cytosolic large ribosomal su... BY, DY Ba, Da cytosolic large ribosomal su... Bc, Dc cytosolic large ribosomal su... Bd, Dd Bf, Df Bg, Dg preribosome, large subunit p... Bj, Dj cytosolic large ribosomal su... Bl, Dl cytosolic large ribosomal su... Bn, Dn Bp, Dp cytosolic large ribosomal su... CB, AB CD, AD cytosolic small ribosomal su... CF, AF cytosolic small ribosomal su... CG, AG cytosolic small ribosomal su... CI, AI cytosolic small ribosomal su... CK, AK CP, AP CQ, AQ CS, AS CV, AV cytosolic small ribosomal su... CW, AW cytosolic small ribosomal su... Ca, Aa Cb, Ab cytosolic small ribosomal su... Cc, Ac cytosolic small ribosomal su... Cd, Ad cytosolic small ribosomal su... Cg, Ag GDP-dissociation inhibitor a... DB, BB cytosolic large ribosomal su... DD, BD cytosolic large ribosomal su... DG, BG cytosolic large ribosomal su... DI, BI cytosolic large ribosomal su... DJ, BJ cytosolic large ribosomal su... DM, BM cytosolic large ribosomal su... DO, BO cytosolic large ribosomal su... DP, BP DS, BS cytosolic large ribosomal su... DU, BU DV, BV cytosolic large ribosomal su... DX, BX cytosolic large ribosomal su... DZ, BZ cytosolic large ribosomal su... Db, Bb De, Be cytosolic large ribosomal su... Dh, Bh cytosolic large ribosomal su... Di, Bi Dk, Bk cytosolic large ribosomal su... Dm, Bm cytosolic large ribosomal su... Do, Bo cytosolic large ribosomal su... Dq
Primary reference	The structure of the eukaryotic ribosome at 3.0 A resolution., Ben-Shem A, Garreau de Loubresse N, Melnikov S, Jenner L, Yusupova G, Yusupov M, Science. 2011 Dec 16;334(6062):1524-9. Epub 2011 Nov 17. PMID:22096102

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2372 Kb) [Save to disk] CSU: Contacts of Structural Units for 4V88 Structure Factors (13508 Kb) Retrieve 4V88 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4V88 from S2C, [Save to disk]

View 4V88 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 4V88

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: [4v88_DA] [4v88_AI] [4v88_Cb] [4v88_Ab] [4v88_Dp] [4v88_Dj] [4v88_A2] [4v88_DN] [4v88_CV] [4v88_CD] [4v88_Cd] [4v88_BW] [4v88_Bh] [4v88_AO] [4v88_CP] [4v88_A4] [4v88_DY] [4v88_BV] [4v88_DO] [4v88_DI] [4v88_Bp] [4v88_BY] [4v88_BU] [4v88_CL] [4v88_CB] [4v88_DC] [4v88_A5] [4v88_Dh] [4v88_Da] [4v88_CX] [4v88_DW] [4v88_A7] [4v88_Dd] [4v88_CJ] [4v88_Di] [4v88_DH] [4v88_Bf] [4v88_Dm] [4v88_A8] [4v88_CU] [4v88_DE] [4v88_AH] [4v88_Bo] [4v88_DT] [4v88_Bb] [4v88_BT] [4v88_CT] [4v88_Ah] [4v88_Ch] [4v88_CC] [4v88_BX] [4v88_DJ] [4v88_CM] [4v88_Bm] [4v88_BJ] [4v88_AV] [4v88_AN] [4v88_BA] [4v88_Ce] [4v88_Cf] [4v88_DD] [4v88_DP] [4v88_CE] [4v88_Db] [4v88_AP] [4v88_Bg] [4v88_AK] [4v88_BC] [4v88_DM] [4v88_BG] [4v88_AW] [4v88_Ba] [4v88_AA] [4v88_CH] [4v88_DZ] [4v88_DU] [4v88_BN] [4v88_BE] [4v88_De] [4v88_Bi] [4v88_Aa] [4v88_AR] [4v88_AQ] [4v88_CI] [4v88_AF] [4v88_Ds] [4v88_AB] [4v88_Cg] [4v88_BP] [4v88_Dk] [4v88_BI] [4v88_A6] [4v88_Do] [4v88_Bj] [4v88_Af] [4v88_DF] [4v88_DR] [4v88_Df] [4v88_Bc] [4v88_AX] [4v88_Ae] [4v88_AS] [4v88_BO] [4v88_Dc] [4v88_Ca] [4v88_Dq] [4v88_Bd] [4v88_Ac] [4v88_CA] [4v88_Dn] [4v88_AJ] [4v88_Ad] [4v88_Dr] [4v88_DV] [4v88_AL] [4v88_CS] [4v88_DB] [4v88_DS] [4v88_Ag] [4v88_BS] [4v88_CO] [4v88_Bl] [4v88_Dl] [4v88_CK] [4v88_Bk] [4v88_Be] [4v88_Cc] [4v88_CG] [4v88_AY] [4v88_DX] [4v88_AE] [4v88_AU] [4v88_DG] [4v88_CW] [4v88_AD] [4v88_CR] [4v88_BL] [4v88_CN] [4v88_AM] [4v88_CF] [4v88_Dg] [4v88_BB] [4v88_CZ] [4v88_BH] [4v88_AT] [4v88_BZ] [4v88_DL] [4v88_BQ] [4v88_AG] [4v88_Bn] [4v88] [4v88_BF] [4v88_AZ] [4v88_BM] [4v88_A1] [4v88_AC] [4v88_CY] [4v88_DK] [4v88_A3] [4v88_CQ] [4v88_BD] [4v88_BR] [4v88_DQ] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4V88: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L15e] [Ribosomal_L19e] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_L31e] [Ribosomal_L32e] [Ribosomal_L40e] [Ribosomal_S10] [Ribosomal_S13_N] [Ribosomal_S15] [Ribosomal_S19e] [Ribosomal_S27] [Ribosomal_S3Ae] [Ribosomal_S4] [Ribosomal_S6e] [S4] [UBQ] [WD40 ] by SMART

Other resources with information on 4V88

Community annotation for 4V88 at PDBWiki (http://pdbwiki.org)

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

---