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EBI PDBe PDBeView

PDBe Entry: 1vq4 view

The structure of the transition state analogue "DAA" bound to the large ribosomal subunit of Haloarcula marismortui
Summary
Header RIBOSOMEsearch
Method X-RAY DIFFRACTION
Experiment Resolution: 2.7 Å, R-factor: 20.65%, Free R-factor: 23.02%, Spacegroup: C 2 2 21
Released 29/11/2005, deposition: 16/12/2004, last revision: 24/02/2009
Authors Schmeing, T.M.search; Steitz, T.A.search
Primary citation Structural Insights into the Roles of Water and the 2' Hydroxyl of the P Site tRNA in the Peptidyl Transferase Reaction.
MOL.CELLsearch vol:20, pag:437-448 (2005) [PubMed ID 16285925 ]search
Keywords ribosome 50Ssearch, PROTEIN-PROTEIN COMPLEXsearch, RNA-RNA COMPLEXsearch, PROTEIN-RNA COMPLEXsearch, PEPTIDYL TRANSFERASE REACTIONsearch
Organism Haloarcula marismortui 2238search(0 9 A B C D E F G H J K L M N O P Q R S T U V W X Y Z 1 2 3 I)
UniProt 50S ribosomal protein L2P (Hmal2) (Hl4) P20276search (A)
50S ribosomal protein L3P (Hmal3) (Hl1) P20279search (B)
50S ribosomal protein L4P (Hmal4) (Hl6) P12735search (C)
50S ribosomal protein L5P (Hmal5) (Hl13) P14124search (D)
50S ribosomal protein L6P (Hmal6) (Hl10) P14135search (E)
50S ribosomal protein L7Ae (Hs6) P12743search (F)
50S ribosomal protein L10E (Ribosomal protein L10) (Acidic ribosomal protein P0 homolog) (L10E) (HMal10) P15825search (G)
50S ribosomal protein L10e P60617search (H)
50S ribosomal protein L13P (Hmal13) P29198search (J)
50S ribosomal protein L14P (Hmal14) (Hl27) P22450search (K)
50S ribosomal protein L15P (Hmal15) (Hl9) P12737search (L)
50S ribosomal protein L15e (50S ribosomal protein LC12) P60618search (M)
50S ribosomal protein L18P (Hmal18) (Hl12) P14123search (N)
50S ribosomal protein L18e (Hl29) (L19) P12733search (O)
50S ribosomal protein L19e (Hmal19) (Hl24) P14119search (P)
50S ribosomal protein L21e (Hl31) P12734search (Q)
50S ribosomal protein L22P (Hmal22) (Hl23) P10970search (R)
50S ribosomal protein L23P (Hmal23) (Hl25) (L21) P12732search (S)
50S ribosomal protein L24P (Hmal24) (Hl16) (Hl15) P10972search (T)
50S ribosomal protein L24e (Hl21/Hl22) P14116search (U)
50S ribosomal protein L29P (Hmal29) (Hl33) P10971search (V)
50S ribosomal protein L30P (Hmal30) (Hl20) (Hl16) P14121search (W)
50S ribosomal protein L31e (L34) (Hl30) P18138search (X)
50S ribosomal protein L32e (Hl5) P12736search (Y)
50S ribosomal protein L37Ae P60619search (Z)
50S ribosomal protein L37e (L35e) P32410search (1)
50S ribosomal protein L39e (Hl39e) (Hl46e) P22452search (2)
50S ribosomal protein L44E (La) (Hla) P32411search (3)
50S ribosomal protein L11P (Hmal11) P14122search (I)
Solvent 0, 1, 2, 3, 4, 9, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z
Related entries 1s72, 1jj2, 1kqs, 1m90, 1q7y, 1q81, 1q82, 1q86, 1qvf, 1qvg, 1ffk, 1ffz, 1fgo, 1vq5, 1vq6, 1vq7, 1vq8, 1vq9, 1vqk, 1vql, 1vqm, 1vqn, 1vqo, 1vqp
Polymers
Id Name Type UniProt Residues Observed
0 23S ribosomal rna RNA
2922 94%
9 5S ribosomal RNA RNA
122 100%
4 5'-R(*CP*CP*(5AA)P*(2OP)P*(PO2)P*(DA)P*C*C)-3') Mixed
8 100%
A 50S ribosomal protein L2P Protein P20276 (RL2_HALMA)search
 240 98%
B 50S ribosomal protein L3P Protein P20279 (RL3_HALMA)search
 338 99%
C 50S ribosomal protein L4E Protein P12735 (RL4_HALMA)search
 246 100%
D 50S ribosomal protein L5P Protein P14124 (RL5_HALMA)search
 177 79%
E 50S ribosomal protein L6P Protein P14135 (RL6_HALMA)search
 178 96%
F 50S ribosomal protein L7AE Protein P12743 (RL7A_HALMA)search
 120 99%
G ACIDIC RIBOSOMAL PROTEIN P0 HOMOLOG Protein P15825 (RLA0_HALMA)search
 348 8%
H 50S RIBOSOMAL PROTEIN L10E Protein P60617 (RL10_HALMA)search
 171 93%
J 50S ribosomal protein L13P Protein P29198 (RL13_HALMA)search
 145 97%
K 50S ribosomal protein L14P Protein P22450 (RL14_HALMA)search
 132 100%
L 50S ribosomal protein L15P Protein P12737 (RL15_HALMA)search
 165 87%
M 50S Ribosomal Protein L15E Protein P60618 (RL15E_HALMA)search
 194 100%
N 50S ribosomal protein L18P Protein P14123 (RL18_HALMA)search
 187 99%
O 50S ribosomal protein L18e Protein P12733 (RL18E_HALMA)search
 116 99%
P 50S ribosomal protein L19E Protein P14119 (RL19_HALMA)search
 149 95%
Q 50S ribosomal protein L21e Protein P12734 (RL21_HALMA)search
 96 98%
R 50S ribosomal protein L22P Protein P10970 (RL22_HALMA)search
 155 96%
S 50S ribosomal protein L23P Protein P12732 (RL23_HALMA)search
 85 95%
T 50S ribosomal protein L24P Protein P10972 (RL24_HALMA)search
 120 99%
U 50S ribosomal protein L24E Protein P14116 (RL24E_HALMA)search
 66 80%
V 50S ribosomal protein L29P Protein P10971 (RL29_HALMA)search
 71 91%
W 50S ribosomal protein L30P Protein P14121 (RL30_HALMA)search
 154 100%
X 50S ribosomal protein L31e Protein P18138 (RL31_HALMA)search
 92 89%
Y 50S ribosomal protein L32E Protein P12736 (RL32_HALMA)search
 241 58%
Z 50S ribosomal protein L37Ae Protein P60619 (RL37A_HALMA)search
 83 87%
1 50S ribosomal protein L37e Protein P32410 (RL37_HALMA)search
 57 98%
2 50S ribosomal protein L39e Protein P22452 (RL39_HALMA)search
 50 92%
3 50S ribosomal protein L44E Protein P32411 (RL44_HALMA)search
 92 100%
I 50S RIBOSOMAL PROTEIN L11P Protein P14122 (RL11_HALMA)search
 162 43%
Heterogens
Id Name Ligands
0, 9, A, B, K, T, Y, 3 MAGNESIUM ION MG search
0 POTASSIUM ION K search
0, 9, A, C, H, J, L, M, Q, R, S SODIUM ION NA search
0, A, B, J, K, L, M, N, O, R, 3 CHLORIDE ION CL search
O, U, Z, 1, 3 CADMIUM ION CD search
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