OCA Atlas for 4V8U

4V8U

Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex.

date

authors

Gao, Y.G., Feng, S., Chen, Y.

compound

source

symmetry

R_factor

R_Free

0.249

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma

method

X-Ray Diffraction

resolution

3.70

note

4V8U supersedes 4B8F, 4B8G, 4B8H, 4B8I

Gene
Ontology

Chain	Function	Process	Component
AB, CB
AC, CC
AH, CH
AI, CI
AL, CL
AM, CM
AN, CN
AO, CO
AS, CS
AT, CT
AU, CU
AY, CY
B0, D0
B1, D1
B3, D3
B4, D4
B6, D6
B7, D7
BC, DC
BE, DE
BF, DF
BN, DN
BO, DO
BQ, DQ
BS, DS
BT, DT
BW, DW
BX, DX
BY, DY
CD, AD
CE, AE
CF, AF
CG, AG
CJ, AJ
CK, AK
CP, AP
CQ, AQ
CR, AR
D2, B2
D5, B5
D8, B8
D9, B9
DD, BD
DG, BG
DH, BH
DP, BP
DR, BR
DU, BU
DV, BV
DZ, BZ

Primary reference

Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex., Feng S, Chen Y, Gao YG, PLoS One. 2013;8(3):e58829. doi: 10.1371/journal.pone.0058829. Epub 2013 Mar 19. PMID:23527033

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1294 Kb) [Save to disk]

CSU: Contacts of Structural Units for 4V8U

Structure Factors (6749 Kb)

Retrieve 4V8U in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 4V8U from S2C, [Save to disk]

View 4V8U 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 4V8U

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: [4v8u_CN] [4v8u_CX] [4v8u_CE] [4v8u_BV] [4v8u_DN] [4v8u_DH] [4v8u_D7] [4v8u_DO] [4v8u_AA] [4v8u_AD] [4v8u_AW] [4v8u_AR] [4v8u_CD] [4v8u_D4] [4v8u_DU] [4v8u_DQ] [4v8u_CO] [4v8u_DP] [4v8u_BD] [4v8u_DX] [4v8u_DJ] [4v8u_D3] [4v8u_BN] [4v8u_CJ] [4v8u_DC] [4v8u_DR] [4v8u_AO] [4v8u_B2] [4v8u_AQ] [4v8u_B6] [4v8u_DT] [4v8u_BB] [4v8u_D1] [4v8u_CC] [4v8u_DF] [4v8u_AC] [4v8u_DG] [4v8u_AL] [4v8u_AM] [4v8u_AK] [4v8u_CF] [4v8u_D0] [4v8u_CB] [4v8u_CK] [4v8u_BE] [4v8u_CT] [4v8u_BU] [4v8u_CL] [4v8u_DS] [4v8u_B9] [4v8u_BA] [4v8u] [4v8u_BO] [4v8u_D9] [4v8u_CH] [4v8u_AF] [4v8u_DD] [4v8u_D6] [4v8u_CG] [4v8u_DB] [4v8u_CQ] [4v8u_BY] [4v8u_BG] [4v8u_BR] [4v8u_BZ] [4v8u_B8] [4v8u_AP] [4v8u_AH] [4v8u_AB] [4v8u_AJ] [4v8u_BJ] [4v8u_CM] [4v8u_DA] [4v8u_AG] [4v8u_B7] [4v8u_CW] [4v8u_CI] [4v8u_B1] [4v8u_BP] [4v8u_DE] [4v8u_DZ] [4v8u_BC] [4v8u_B4] [4v8u_BQ] [4v8u_B5] [4v8u_CU] [4v8u_CR] [4v8u_BX] [4v8u_BH] [4v8u_AY] [4v8u_D2] [4v8u_B3] [4v8u_BF] [4v8u_DY] [4v8u_B0] [4v8u_D5] [4v8u_CV] [4v8u_BW] [4v8u_AU] [4v8u_BT] [4v8u_CA] [4v8u_BS] [4v8u_AE] [4v8u_AS] [4v8u_AN] [4v8u_AI] [4v8u_AX] [4v8u_D8] [4v8u_DW] [4v8u_CS] [4v8u_AT] [4v8u_DV] [4v8u_AV] [4v8u_CY] [4v8u_CP]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 4V8U: [EFG_C] [EFG_IV] [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART

Other resources with information on 4V8U

Community annotation for 4V8U at PDBWiki (http://pdbwiki.org)

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