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1SM1
Asym. Unit
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Asym.Unit (1.1 MB)
Biol.Unit 1, α-C (1.1 MB)
Biol.Unit 1 (1.1 MB)
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(1)
Title
:
COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN
Authors
:
J. M. Harms, F. Schluenzen, P. Fucini, H. Bartels, A. Yonath
Date
:
08 Mar 04 (Deposition) - 03 Aug 04 (Release) - 27 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.42
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,W,X,Y,Z,0,1,2,3,4,5,9
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,W,X,Y,Z,0,1,2,3,4,5,9 (1x)
Keywords
:
Ribosome-Antibiotic Complex, Quinupristin, Dalfopristin, Streptogramins, Synercid, Ribosome, 50S Ribosomal Subunit, Ribosom- Antibiotic Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
J. M. Harms, F. Schlunzen, P. Fucini, H. Bartels, A. Yonath
Alterations At The Peptidyl Transferase Centre Of The Ribosome Induced By The Synergistic Action Of The Streptogramins Dalfopristin And Quinupristin.
Bmc Biol. V. 2 4 2004
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Hetero Components
(7, 7)
Info
All Hetero Components
1a: (2S)-AMINO(PHENYL)ETHANOIC ACID (004a)
2a: D-ALPHA-AMINOBUTYRIC ACID (DBBa)
3a: 5-(2-DIETHYLAMINO-ETHANESULFONYL)-... (DOLa)
4a: (3R)-3-(METHYLSULFANYL)-1-AZABICYC... (MHTa)
5a: 4-N,N-(DIMETHYLAMINO)-L-PHENYLALAN... (MHUa)
6a: 4-OXO-L-PIPECOLIC ACID (MHVa)
7a: 3-HYDROXYPICOLINIC ACID (MHWa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
004
1
Mod. Amino Acid
(2S)-AMINO(PHENYL)ETHANOIC ACID
2
DBB
1
Mod. Amino Acid
D-ALPHA-AMINOBUTYRIC ACID
3
DOL
1
Ligand/Ion
5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE
4
MHT
1
Mod. Amino Acid
(3R)-3-(METHYLSULFANYL)-1-AZABICYCLO[2.2.2]OCTANE
5
MHU
1
Mod. Amino Acid
4-N,N-(DIMETHYLAMINO)-L-PHENYLALANINE
6
MHV
1
Mod. Amino Acid
4-OXO-L-PIPECOLIC ACID
7
MHW
1
Mod. Amino Acid
3-HYDROXYPICOLINIC ACID
[
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
G 0:2044 , A 0:2045 , C 0:2046 , A 0:2430 , C 0:2431 , A 0:2482 , G 0:2484 , U 0:2485 , U 0:2563 , DBB 5:3
BINDING SITE FOR RESIDUE DOL 02882
2
AC2
SOFTWARE
C 0:765 , C 0:1773 , A 0:2041 , A 0:2045 , C 0:2565 , U 0:2588 , C 0:2589 , DOL 0:2882
BINDING SITE FOR CHAIN 5 OF QUINUPRISTIN
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(22, 22)
Info
All PROSITE Patterns/Profiles
01: RIBOSOMAL_L34 (2:2-21)
02: RIBOSOMAL_L35 (3:5-31)
03: RIBOSOMAL_L36 (4:11-36)
04: RIBOSOMAL_L9 (F:12-39)
05: RIBOSOMAL_L24 (S:19-36)
06: RIBOSOMAL_L33 (1:22-41)
07: RIBOSOMAL_L27 (U:34-48)
08: RIBOSOMAL_L31 (Y:34-55)
09: RIBOSOMAL_L17 (L:34-56)
10: RIBOSOMAL_L29 (W:39-53)
11: RIBOSOMAL_L20 (O:54-70)
12: RIBOSOMAL_L16_1 (K:60-71)
13: RIBOSOMAL_L14 (I:72-98)
14: RIBOSOMAL_L23 (R:76-91)
15: RIBOSOMAL_L16_2 (K:83-94)
16: RIBOSOMAL_L19 (N:93-108)
17: RIBOSOMAL_L3 (B:96-119)
18: RIBOSOMAL_L22 (Q:104-128)
19: RIBOSOMAL_L15 (J:107-137)
20: RIBOSOMAL_L11 (G:125-140)
21: RIBOSOMAL_L13 (H:131-153)
22: RIBOSOMAL_L2 (A:219-230)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_L34
PS00784
Ribosomal protein L34 signature.
RL34_DEIRA
2-21
1
2:2-21
2
RIBOSOMAL_L35
PS00936
Ribosomal protein L35 signature.
RL35_DEIRA
5-31
1
3:5-31
3
RIBOSOMAL_L36
PS00828
Ribosomal protein L36 signature.
RL36_DEIRA
11-36
1
4:11-36
4
RIBOSOMAL_L9
PS00651
Ribosomal protein L9 signature.
RL9_DEIRA
12-39
1
F:12-39
5
RIBOSOMAL_L24
PS01108
Ribosomal protein L24 signature.
RL24_DEIRA
19-36
1
S:19-36
6
RIBOSOMAL_L33
PS00582
Ribosomal protein L33 signature.
RL33_DEIRA
22-41
1
1:22-41
7
RIBOSOMAL_L27
PS00831
Ribosomal protein L27 signature.
RL27_DEIRA
34-48
1
U:34-48
8
RIBOSOMAL_L31
PS01143
Ribosomal protein L31 signature.
RL31_DEIRA
34-55
1
Y:34-55
9
RIBOSOMAL_L17
PS01167
Ribosomal protein L17 signature.
RL17_DEIRA
34-56
1
L:34-56
10
RIBOSOMAL_L29
PS00579
Ribosomal protein L29 signature.
RL29_DEIRA
39-53
1
W:39-53
11
RIBOSOMAL_L20
PS00937
Ribosomal protein L20 signature.
RL20_DEIRA
54-70
1
O:54-70
12
RIBOSOMAL_L16_1
PS00586
Ribosomal protein L16 signature 1.
RL16_DEIRA
59-70
1
K:60-71
13
RIBOSOMAL_L14
PS00049
Ribosomal protein L14 signature.
RL14_DEIRA
72-98
1
I:72-98
14
RIBOSOMAL_L23
PS00050
Ribosomal protein L23 signature.
RL23_DEIRA
76-91
1
R:76-91
15
RIBOSOMAL_L16_2
PS00701
Ribosomal protein L16 signature 2.
RL16_DEIRA
82-93
1
K:83-94
16
RIBOSOMAL_L19
PS01015
Ribosomal protein L19 signature.
RL19_DEIRA
93-108
1
N:93-108
17
RIBOSOMAL_L3
PS00474
Ribosomal protein L3 signature.
RL3_DEIRA
96-119
1
B:96-119
18
RIBOSOMAL_L22
PS00464
Ribosomal protein L22 signature.
RL22_DEIRA
104-128
1
Q:104-128
19
RIBOSOMAL_L15
PS00475
Ribosomal protein L15 signature.
RL15_DEIRA
107-137
1
J:107-137
20
RIBOSOMAL_L11
PS00359
Ribosomal protein L11 signature.
RL11_DEIRA
125-140
1
G:125-140
21
RIBOSOMAL_L13
PS00783
Ribosomal protein L13 signature.
RL13_DEIRA
131-153
1
H:131-153
22
RIBOSOMAL_L2
PS00467
Ribosomal protein L2 signature.
RL2_DEIRA
219-230
1
A:219-230
[
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]
Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 29)
Info
All SCOP Domains
1a: SCOP_d1sm11_ (1:)
1b: SCOP_d1sm12_ (2:)
1c: SCOP_d1sm13_ (3:)
1d: SCOP_d1sm14_ (4:)
1e: SCOP_d1sm1a_ (A:)
1f: SCOP_d1sm1b_ (B:)
1g: SCOP_d1sm1c_ (C:)
1h: SCOP_d1sm1d_ (D:)
1i: SCOP_d1sm1e_ (E:)
1j: SCOP_d1sm1f_ (F:)
1k: SCOP_d1sm1g_ (G:)
1l: SCOP_d1sm1h_ (H:)
1m: SCOP_d1sm1i_ (I:)
1n: SCOP_d1sm1j_ (J:)
1o: SCOP_d1sm1k_ (K:)
1p: SCOP_d1sm1l_ (L:)
1q: SCOP_d1sm1m_ (M:)
1r: SCOP_d1sm1n_ (N:)
1s: SCOP_d1sm1o_ (O:)
1t: SCOP_d1sm1p_ (P:)
1u: SCOP_d1sm1q_ (Q:)
1v: SCOP_d1sm1r_ (R:)
1w: SCOP_d1sm1s_ (S:)
1x: SCOP_d1sm1t_ (T:)
1y: SCOP_d1sm1u_ (U:)
1z: SCOP_d1sm1w_ (W:)
1aa: SCOP_d1sm1x_ (X:)
1ab: SCOP_d1sm1y_ (Y:)
1ac: SCOP_d1sm1z_ (Z:)
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Protein Domains
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(
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Organisms
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)
(
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Class
:
Low resolution protein structures
(283)
Fold
:
Ribosome and ribosomal fragments
(154)
Superfamily
:
Ribosome and ribosomal fragments
(154)
Family
:
Large subunit
(36)
Protein domain
:
50S subunit
(36)
Deinococcus radiodurans [TaxId: 1299]
(12)
1a
d1sm11_
1:
1b
d1sm12_
2:
1c
d1sm13_
3:
1d
d1sm14_
4:
1e
d1sm1a_
A:
1f
d1sm1b_
B:
1g
d1sm1c_
C:
1h
d1sm1d_
D:
1i
d1sm1e_
E:
1j
d1sm1f_
F:
1k
d1sm1g_
G:
1l
d1sm1h_
H:
1m
d1sm1i_
I:
1n
d1sm1j_
J:
1o
d1sm1k_
K:
1p
d1sm1l_
L:
1q
d1sm1m_
M:
1r
d1sm1n_
N:
1s
d1sm1o_
O:
1t
d1sm1p_
P:
1u
d1sm1q_
Q:
1v
d1sm1r_
R:
1w
d1sm1s_
S:
1x
d1sm1t_
T:
1y
d1sm1u_
U:
1z
d1sm1w_
W:
1aa
d1sm1x_
X:
1ab
d1sm1y_
Y:
1ac
d1sm1z_
Z:
[
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CATH Domains
(0, 0)
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Pfam Domains
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