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1MMS
Asym. Unit
Info
Asym.Unit (96 KB)
Biol.Unit 1 (50 KB)
Biol.Unit 2 (41 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE RIBOSOMAL PROTEIN L11-RNA COMPLEX
Authors
:
B. T. Wimberly, R. Guymon, J. P. Mccutcheon, S. W. White, V. Ramakrishna
Date
:
14 Apr 99 (Deposition) - 17 Apr 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.57
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Rna-Protein Complex, Rna, Ribosome, Translocation, Thiostrepton
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. T. Wimberly, R. Guymon, J. P. Mccutcheon, S. W. White, V. Ramakrishnan
A Detailed View Of A Ribosomal Active Site: The Structure O The L11-Rna Complex.
Cell(Cambridge, Mass. ) V. 97 491 1999
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 35)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
1g: CADMIUM ION (CDg)
1h: CADMIUM ION (CDh)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
2i: MAGNESIUM ION (MGi)
2j: MAGNESIUM ION (MGj)
2k: MAGNESIUM ION (MGk)
2l: MAGNESIUM ION (MGl)
2m: MAGNESIUM ION (MGm)
2n: MAGNESIUM ION (MGn)
2o: MAGNESIUM ION (MGo)
2p: MAGNESIUM ION (MGp)
2q: MAGNESIUM ION (MGq)
2r: MAGNESIUM ION (MGr)
2s: MAGNESIUM ION (MGs)
3a: METHYL MERCURY ION (MMCa)
3b: METHYL MERCURY ION (MMCb)
3c: METHYL MERCURY ION (MMCc)
3d: METHYL MERCURY ION (MMCd)
3e: METHYL MERCURY ION (MMCe)
3f: METHYL MERCURY ION (MMCf)
3g: METHYL MERCURY ION (MMCg)
3h: METHYL MERCURY ION (MMCh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
8
Ligand/Ion
CADMIUM ION
2
MG
19
Ligand/Ion
MAGNESIUM ION
3
MMC
8
Ligand/Ion
METHYL MERCURY ION
[
close Hetero Component info
]
Sites
(36, 36)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: TSR (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH C:262 , HOH C:264 , G C:1071
BINDING SITE FOR RESIDUE CD C 201
02
AC2
SOFTWARE
HOH C:445 , HOH C:446 , HOH C:447 , A C:1086 , G C:1087
BINDING SITE FOR RESIDUE CD C 202
03
AC3
SOFTWARE
HOH C:268 , HOH C:269 , HOH C:270 , A C:1073 , G C:1093 , U C:1094 , C C:1097
BINDING SITE FOR RESIDUE MG C 210
04
AC4
SOFTWARE
HOH C:254 , A C:1067 , HOH D:255 , HOH D:256 , A D:1095
BINDING SITE FOR RESIDUE CD C 211
05
AC5
SOFTWARE
LYS A:103 , GLU A:106 , GLU B:122 , C C:1076
BINDING SITE FOR RESIDUE MG A 214
06
AC6
SOFTWARE
HOH C:424 , HOH C:425 , U C:1061 , G C:1062 , G C:1063 , A C:1070
BINDING SITE FOR RESIDUE MG C 215
07
AC7
SOFTWARE
A C:1106
BINDING SITE FOR RESIDUE MG C 223
08
AC8
SOFTWARE
G C:1051
BINDING SITE FOR RESIDUE MG C 225
09
AC9
SOFTWARE
A C:1069 , A C:1070 , C C:1072 , A C:1073
BINDING SITE FOR RESIDUE MG C 226
10
BC1
SOFTWARE
A C:1084
BINDING SITE FOR RESIDUE MG C 228
11
BC2
SOFTWARE
HOH C:258 , HOH C:259 , HOH C:260 , HOH C:261 , A C:1070 , C C:1072
BINDING SITE FOR RESIDUE MG C 257
12
BC3
SOFTWARE
HOH C:274 , HOH C:275 , HOH C:276 , HOH C:277 , HOH C:278 , U C:1083
BINDING SITE FOR RESIDUE MG C 273
13
BC4
SOFTWARE
HOH D:460 , HOH D:461 , HOH D:462 , HOH D:463 , A D:1086 , G D:1087
BINDING SITE FOR RESIDUE CD D 302
14
BC5
SOFTWARE
A C:1095 , A D:1067
BINDING SITE FOR RESIDUE CD D 311
15
BC6
SOFTWARE
HOH D:305 , HOH D:391 , U D:1101
BINDING SITE FOR RESIDUE MG D 318
16
BC7
SOFTWARE
A D:1069 , A D:1070 , C D:1072 , A D:1073
BINDING SITE FOR RESIDUE MG D 326
17
BC8
SOFTWARE
HOH D:355 , HOH D:356 , HOH D:357 , HOH D:358 , G D:1051
BINDING SITE FOR RESIDUE MG D 354
18
BC9
SOFTWARE
HOH D:361 , HOH D:362 , HOH D:363 , HOH D:364 , G D:1107
BINDING SITE FOR RESIDUE MG D 360
19
CC1
SOFTWARE
HOH D:367 , HOH D:368
BINDING SITE FOR RESIDUE MG D 365
20
CC2
SOFTWARE
HOH D:377 , HOH D:378 , HOH D:379 , U D:1061 , G D:1062 , G D:1063 , A D:1070
BINDING SITE FOR RESIDUE MG D 375
21
CC3
SOFTWARE
HOH D:381 , HOH D:382 , HOH D:383 , HOH D:384 , A D:1070 , G D:1071 , C D:1072
BINDING SITE FOR RESIDUE MG D 380
22
CC4
SOFTWARE
HOH D:386 , HOH D:387 , HOH D:388 , HOH D:389 , A D:1073 , U D:1094
BINDING SITE FOR RESIDUE MG D 385
23
CC5
SOFTWARE
HOH D:392 , HOH D:394 , HOH D:396 , G D:1071
BINDING SITE FOR RESIDUE CD D 390
24
CC6
SOFTWARE
HOH D:399 , HOH D:400 , HOH D:401 , HOH D:402 , HOH D:403
BINDING SITE FOR RESIDUE MG D 397
25
CC7
SOFTWARE
MET A:113 , ALA A:118
BINDING SITE FOR RESIDUE CD A 413
26
CC8
SOFTWARE
THR A:72 , LYS A:112 , ASP A:115 , G C:1059 , U C:1060
BINDING SITE FOR RESIDUE CD A 414
27
CC9
SOFTWARE
HOH C:438 , HOH C:440 , HOH C:441 , HOH C:442 , HOH C:443 , G C:1054
BINDING SITE FOR RESIDUE MG C 437
28
DC1
SOFTWARE
A C:1077 , U C:1078 , G C:1089
BINDING SITE FOR RESIDUE MMC C 227
29
DC2
SOFTWARE
U C:1061 , A C:1069 , A C:1070
BINDING SITE FOR RESIDUE MMC C 230
30
DC3
SOFTWARE
U D:1061 , A D:1069 , A D:1070
BINDING SITE FOR RESIDUE MMC D 332
31
DC4
SOFTWARE
A D:1077 , U D:1078 , G D:1089
BINDING SITE FOR RESIDUE MMC D 347
32
DC5
SOFTWARE
THR A:19 , CYS A:39
BINDING SITE FOR RESIDUE MMC A 415
33
DC6
SOFTWARE
ALA A:18 , THR A:19 , VAL A:24 , ILE A:35 , CYS A:39
BINDING SITE FOR RESIDUE MMC A 416
34
DC7
SOFTWARE
HIS A:31 , C C:1097
BINDING SITE FOR RESIDUE MMC A 448
35
DC8
SOFTWARE
C D:1097
BINDING SITE FOR RESIDUE MMC D 451
36
TSR
AUTHOR
A C:1067 , A C:1095 , A D:1067 , A D:1095 , PRO A:22 , PRO A:23 , PRO A:26
PUTATIVE THIOSTREPTON/MICROCOCCIN BINDING SITE
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: RIBOSOMAL_L11 (A:126-140,B:126-140)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_L11
PS00359
Ribosomal protein L11 signature.
RL11_THEMA
126-141
2
A:126-140
B:126-140
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 3)
Info
All SCOP Domains
1a: SCOP_d1mmsa1 (A:71-140)
1b: SCOP_d1mmsb_ (B:)
2a: SCOP_d1mmsa2 (A:8-70)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Ribosomal protein L11, C-terminal domain
(96)
Family
:
Ribosomal protein L11, C-terminal domain
(96)
Protein domain
:
Ribosomal protein L11, C-terminal domain
(96)
Thermotoga maritima [TaxId: 2336]
(1)
1a
d1mmsa1
A:71-140
1b
d1mmsb_
B:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ribosomal L11/L12e N-terminal domain
(53)
Superfamily
:
Ribosomal L11/L12e N-terminal domain
(53)
Family
:
Ribosomal L11/L12e N-terminal domain
(53)
Protein domain
:
Ribosomal protein L11, N-terminal domain
(52)
Thermotoga maritima [TaxId: 2336]
(2)
2a
d1mmsa2
A:8-70
[
close SCOP info
]
CATH Domains
(2, 3)
Info
all CATH domains
1a: CATH_1mmsA01 (A:8-71)
2a: CATH_1mmsB00 (B:71-140)
2b: CATH_1mmsA02 (A:72-140)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Ribosomal protein L11, N-terminal domain
(16)
Homologous Superfamily
:
Ribosomal protein L11, N-terminal domain
(16)
[unclassified]
(1)
1a
1mmsA01
A:8-71
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
[code=1.10.10.250, no name defined]
(69)
[unclassified]
(3)
2a
1mmsB00
B:71-140
2b
1mmsA02
A:72-140
[
close CATH info
]
Pfam Domains
(2, 3)
Info
all PFAM domains
1a: PFAM_Ribosomal_L11_1mmsB01 (B:71-139)
1b: PFAM_Ribosomal_L11_1mmsB02 (B:71-139)
2a: PFAM_Ribosomal_L11_N_1mmsA01 (A:8-66)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Ribosomal_L11]
(35)
Family
:
Ribosomal_L11
(35)
Thermotoga maritima
(3)
1a
Ribosomal_L11-1mmsB01
B:71-139
1b
Ribosomal_L11-1mmsB02
B:71-139
Clan
:
no clan defined [family: Ribosomal_L11_N]
(8)
Family
:
Ribosomal_L11_N
(8)
Thermotoga maritima
(3)
2a
Ribosomal_L11_N-1mmsA01
A:8-66
[
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]
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