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EBI PDBe PDBeView

PDBe Entry: 1kd1 view

Co-crystal Structure of Spiramycin bound to the 50S Ribosomal Subunit of Haloarcula marismortui
Summary
Header RIBOSOMEsearch
Method X-RAY DIFFRACTION
Experiment Resolution: 3.0 Å, R-factor: 22.0%, Free R-factor: 26.9%, Spacegroup: C 2 2 21
Released 19/07/2002, deposition: 12/11/2001, last revision: 24/02/2009
Authors Hansen, J.L.search; Ippolito, J.A.search; Ban, N.search; Nissen, P.search; Moore, P.B.search; Steitz, T.A.search
Primary citation The structures of four macrolide antibiotics bound to the large ribosomal subunit.
MOL.CELLsearch vol:10, pag:117-128 (2002) [PubMed ID 12150912 ]search
Keywords 50s subunitsearch, spiramycinsearch, antibioticsearch, macrolidesearch, carbinolaminesearch, RIBOSOMEsearch
Organism Haloarcula marismortui 2238search(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 1 2 3 4)
UniProt 50S ribosomal protein L2P (Hmal2) (Hl4) P20276search (C)
50S ribosomal protein L3P (Hmal3) (Hl1) P20279search (D)
50S ribosomal protein L4P (Hmal4) (Hl6) P12735search (E)
50S ribosomal protein L5P (Hmal5) (Hl13) P14124search (F)
50S ribosomal protein L6P (Hmal6) (Hl10) P14135search (G)
50S ribosomal protein L7Ae (Hs6) P12743search (H)
50S ribosomal protein L10E (Ribosomal protein L10) (Acidic ribosomal protein P0 homolog) (L10E) (HMal10) P15825search (I)
50S ribosomal protein L10e P60617search (J)
50S ribosomal protein L13P (Hmal13) P29198search (K)
50S ribosomal protein L14P (Hmal14) (Hl27) P22450search (L)
50S ribosomal protein L15P (Hmal15) (Hl9) P12737search (M)
50S ribosomal protein L15e (50S ribosomal protein LC12) P60618search (N)
50S ribosomal protein L18P (Hmal18) (Hl12) P14123search (O)
50S ribosomal protein L18e (Hl29) (L19) P12733search (P)
50S ribosomal protein L19e (Hmal19) (Hl24) P14119search (Q)
50S ribosomal protein L21e (Hl31) P12734search (R)
50S ribosomal protein L22P (Hmal22) (Hl23) P10970search (S)
50S ribosomal protein L23P (Hmal23) (Hl25) (L21) P12732search (T)
50S ribosomal protein L24P (Hmal24) (Hl16) (Hl15) P10972search (U)
50S ribosomal protein L24e (Hl21/Hl22) P14116search (V)
50S ribosomal protein L29P (Hmal29) (Hl33) P10971search (W)
50S ribosomal protein L30P (Hmal30) (Hl20) (Hl16) P14121search (X)
50S ribosomal protein L31e (L34) (Hl30) P18138search (Y)
50S ribosomal protein L32e (Hl5) P12736search (Z)
50S ribosomal protein L37Ae P60619search (1)
50S ribosomal protein L37e (L35e) P32410search (2)
50S ribosomal protein L39e (Hl39e) (Hl46e) P22452search (3)
50S ribosomal protein L44E (La) (Hla) P32411search (4)
Solvent 1, 2, 3, 4, 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 1k73, 1k8a, 1k9m, 1kc8, 1m1k
Polymers
Id Name Type UniProt Residues Observed
A 23S RRNA RNA
2922 94%
B 5S RRNA RNA
122 100%
C RIBOSOMAL PROTEIN L2 Protein P20276 (RL2_HALMA)search
 239 99%
D RIBOSOMAL PROTEIN L3 Protein P20279 (RL3_HALMA)search
 337 100%
E RIBOSOMAL PROTEIN L4 Protein P12735 (RL4_HALMA)search
 246 100%
F RIBOSOMAL PROTEIN L5 Protein P14124 (RL5_HALMA)search
 176 79%
G RIBOSOMAL PROTEIN L6 Protein P14135 (RL6_HALMA)search
 177 97%
H RIBOSOMAL PROTEIN L7AE Protein P12743 (RL7A_HALMA)search
 119 100%
I RIBOSOMAL PROTEIN L10 Protein P15825 (RLA0_HALMA)search
 348 8%
J RIBOSOMAL PROTEIN L10E Protein P60617 (RL10_HALMA)search
 167 93%
K RIBOSOMAL PROTEIN L13 Protein P29198 (RL13_HALMA)search
 145 97%
L RIBOSOMAL PROTEIN L14 Protein P22450 (RL14_HALMA)search
 132 100%
M RIBOSOMAL PROTEIN L15 Protein P12737 (RL15_HALMA)search
 164 88%
N RIBOSOMAL PROTEIN L15E Protein P60618 (RL15E_HALMA)search
 194 100%
O RIBOSOMAL PROTEIN L18 Protein P14123 (RL18_HALMA)search
 186 100%
P RIBOSOMAL PROTEIN L18E Protein P12733 (RL18E_HALMA)search
 115 100%
Q RIBOSOMAL PROTEIN L19E Protein P14119 (RL19_HALMA)search
 148 96%
R RIBOSOMAL PROTEIN L21E Protein P12734 (RL21_HALMA)search
 95 100%
S RIBOSOMAL PROTEIN L22 Protein P10970 (RL22_HALMA)search
 154 97%
T RIBOSOMAL PROTEIN L23 Protein P12732 (RL23_HALMA)search
 84 96%
U RIBOSOMAL PROTEIN L24 Protein P10972 (RL24_HALMA)search
 119 100%
V RIBOSOMAL PROTEIN L24E Protein P14116 (RL24E_HALMA)search
 66 80%
W RIBOSOMAL PROTEIN L29 Protein P10971 (RL29_HALMA)search
 70 92%
X RIBOSOMAL PROTEIN L30 Protein P14121 (RL30_HALMA)search
 154 100%
Y RIBOSOMAL PROTEIN L31E Protein P18138 (RL31_HALMA)search
 91 90%
Z RIBOSOMAL PROTEIN L32E Protein P12736 (RL32_HALMA)search
 240 59%
1 RIBOSOMAL PROTEIN L37Ae Protein P60619 (RL37A_HALMA)search
 73 100%
2 RIBOSOMAL PROTEIN L37E Protein P32410 (RL37_HALMA)search
 56 100%
3 RIBOSOMAL PROTEIN L39E Protein P22452 (RL39_HALMA)search
 48 95%
4 RIBOSOMAL PROTEIN L44E Protein P32411 (RL44_HALMA)search
 92 100%
Heterogens
Id Name Ligands
A SPIRAMYCIN I SPR search
A, B, C, L, U, Z, 1, 4 MAGNESIUM ION MG search
A, B, C, E, J, K, M, N, R, S, T SODIUM ION NA search
A, C, D, K, M, N, O, P, R, S, Z, 4 CHLORIDE ION CL search
A POTASSIUM ION K search
P, V, 1, 2, 4 CADMIUM ION CD search
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