OCA Atlas for 4V5A

4V5A

Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet

date

authors

Weixlbaumer, A., Petry, S., Dunham, C.M., Selmer, M., Kelley, A.C., Ramakrishnan, V.

compound

source

symmetry

R_factor

R_Free

0.326

crystal
cell

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

method

X-Ray Diffraction

resolution

3.50

note

4V5A supersedes 2V46, 2V47, 2V48, 2V49

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
DD, BD
DG, BG
DH, BH
DI, BI
DP, BP
DR, BR
DU, BU
DV, BV
DZ, BZ

Primary reference

Crystal structure of the ribosome recycling factor bound to the ribosome., Weixlbaumer A, Petry S, Dunham CM, Selmer M, Kelley AC, Ramakrishnan V, Nat Struct Mol Biol. 2007 Aug;14(8):733-7. Epub 2007 Jul 29. PMID:17660830

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1159 Kb) [Save to disk]

CSU: Contacts of Structural Units for 4V5A

Structure Factors (5980 Kb)

Retrieve 4V5A in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 4V5A from S2C, [Save to disk]

View 4V5A 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 4V5A

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: [4v5a_B1] [4v5a_CF] [4v5a_DO] [4v5a_DH] [4v5a_AP] [4v5a_BV] [4v5a_CG] [4v5a_AT] [4v5a_CN] [4v5a_DS] [4v5a_BU] [4v5a_D4] [4v5a_B8] [4v5a_BS] [4v5a_AB] [4v5a_D5] [4v5a_CQ] [4v5a_AJ] [4v5a_AL] [4v5a_BC] [4v5a_CI] [4v5a_DR] [4v5a_CB] [4v5a_AV] [4v5a_AO] [4v5a_DZ] [4v5a_DI] [4v5a_CE] [4v5a_BE] [4v5a_B5] [4v5a_AU] [4v5a_BP] [4v5a_D0] [4v5a_AC] [4v5a_BQ] [4v5a_BT] [4v5a_D2] [4v5a_DC] [4v5a_D3] [4v5a_CO] [4v5a_DY] [4v5a_DU] [4v5a_CH] [4v5a_DW] [4v5a_CM] [4v5a_CK] [4v5a_B4] [4v5a_DA] [4v5a_D6] [4v5a_DV] [4v5a_BY] [4v5a_D7] [4v5a_DP] [4v5a_AD] [4v5a_DN] [4v5a_CT] [4v5a_B6] [4v5a_CV] [4v5a_DF] [4v5a_AF] [4v5a_BF] [4v5a_DE] [4v5a_BA] [4v5a_AW] [4v5a_CY] [4v5a_AK] [4v5a_CP] [4v5a_BW] [4v5a_AY] [4v5a_B7] [4v5a] [4v5a_B2] [4v5a_CR] [4v5a_CX] [4v5a_BN] [4v5a_DT] [4v5a_DG] [4v5a_AX] [4v5a_BD] [4v5a_BR] [4v5a_AN] [4v5a_D1] [4v5a_B3] [4v5a_BO] [4v5a_CA] [4v5a_BZ] [4v5a_DB] [4v5a_DQ] [4v5a_CJ] [4v5a_CL] [4v5a_CW] [4v5a_CU] [4v5a_CD] [4v5a_AS] [4v5a_CC] [4v5a_AH] [4v5a_D8] [4v5a_DX] [4v5a_AG] [4v5a_AQ] [4v5a_AM] [4v5a_AE] [4v5a_B0] [4v5a_BX] [4v5a_DD] [4v5a_AR] [4v5a_BB] [4v5a_BH] [4v5a_BI] [4v5a_AA] [4v5a_CS] [4v5a_BG] [4v5a_AI]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 4V5A: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART

Other resources with information on 4V5A

Community annotation for 4V5A at PDBWiki (http://pdbwiki.org)

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]