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3CJT
Asym. Unit
Info
Asym.Unit (489 KB)
Biol.Unit 1 (74 KB)
Biol.Unit 2 (61 KB)
Biol.Unit 3 (73 KB)
Biol.Unit 4 (61 KB)
Biol.Unit 5 (72 KB)
Biol.Unit 6 (60 KB)
Biol.Unit 7 (72 KB)
Biol.Unit 8 (60 KB)
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(1)
Title
:
RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH DIMETHYLATED RIBOSOMAL PROTEIN L11
Authors
:
H. Demirci, S. T. Gregory, A. E. Dahlberg, G. Jogl
Date
:
13 Mar 08 (Deposition) - 20 May 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Biol. Unit 5: I,J (1x)
Biol. Unit 6: K,L (1x)
Biol. Unit 7: M,N (1x)
Biol. Unit 8: O,P (1x)
Keywords
:
S-Adenosyl-L-Methionine Dependent Methyltransferase, Post- Translational Modification, Multi-Specific Trimethylation, Ribonucleoprotein, Ribosomal Protein, Rna-Binding, Rrna-Binding, Transferase-Ribosomal Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Demirci, S. T. Gregory, A. E. Dahlberg, G. Jogl
Multiple-Site Trimethylation Of Ribosomal Protein L11 By Th Prma Methyltransferase.
Structure V. 16 1059 2008
[
close entry info
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Hetero Components
(6, 26)
Info
All Hetero Components
1a: N,N-DIMETHYL-L-METHIONINE (2MMa)
1b: N,N-DIMETHYL-L-METHIONINE (2MMb)
1c: N,N-DIMETHYL-L-METHIONINE (2MMc)
1d: N,N-DIMETHYL-L-METHIONINE (2MMd)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
4a: NITRATE ION (NO3a)
4b: NITRATE ION (NO3b)
4c: NITRATE ION (NO3c)
4d: NITRATE ION (NO3d)
4e: NITRATE ION (NO3e)
4f: NITRATE ION (NO3f)
4g: NITRATE ION (NO3g)
4h: NITRATE ION (NO3h)
5a: S-ADENOSYL-L-HOMOCYSTEINE (SAHa)
5b: S-ADENOSYL-L-HOMOCYSTEINE (SAHb)
5c: S-ADENOSYL-L-HOMOCYSTEINE (SAHc)
5d: S-ADENOSYL-L-HOMOCYSTEINE (SAHd)
6a: S-ADENOSYLMETHIONINE (SAMa)
6b: S-ADENOSYLMETHIONINE (SAMb)
6c: S-ADENOSYLMETHIONINE (SAMc)
6d: S-ADENOSYLMETHIONINE (SAMd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2MM
4
Ligand/Ion
N,N-DIMETHYL-L-METHIONINE
2
CL
4
Ligand/Ion
CHLORIDE ION
3
EDO
2
Ligand/Ion
1,2-ETHANEDIOL
4
NO3
8
Ligand/Ion
NITRATE ION
5
SAH
4
Ligand/Ion
S-ADENOSYL-L-HOMOCYSTEINE
6
SAM
4
Ligand/Ion
S-ADENOSYLMETHIONINE
[
close Hetero Component info
]
Sites
(26, 26)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:193 , LYS B:2 , HOH B:193 , ARG G:223 , LEU G:226
BINDING SITE FOR RESIDUE NO3 B 148
02
AC2
SOFTWARE
PHE A:99 , ALA A:104 , GLU A:105 , THR A:106 , TRP A:247 , HOH A:462 , HOH B:184
BINDING SITE FOR RESIDUE NO3 A 255
03
AC3
SOFTWARE
ARG C:223 , LEU C:226 , TYR E:193 , LYS F:2 , HOH F:756
BINDING SITE FOR RESIDUE NO3 F 148
04
AC4
SOFTWARE
PHE E:99 , ALA E:104 , GLU E:105 , THR E:106 , TRP E:247 , HOH E:379 , HOH E:380 , ALA F:61
BINDING SITE FOR RESIDUE NO3 E 255
05
AC5
SOFTWARE
TYR I:193 , LYS J:2 , ARG O:223
BINDING SITE FOR RESIDUE NO3 I 255
06
AC6
SOFTWARE
PHE I:99 , ALA I:104 , GLU I:105 , THR I:106 , TRP I:247 , HOH I:353 , ALA J:61 , HOH J:164
BINDING SITE FOR RESIDUE NO3 I 256
07
AC7
SOFTWARE
ARG K:223 , LEU K:226 , LYS N:2
BINDING SITE FOR RESIDUE NO3 N 148
08
AC8
SOFTWARE
PHE M:99 , ALA M:104 , GLU M:105 , THR M:106 , TRP M:247 , HOH M:323 , HOH M:418 , ALA N:61
BINDING SITE FOR RESIDUE NO3 M 255
09
AC9
SOFTWARE
ARG A:170 , ARG E:170
BINDING SITE FOR RESIDUE CL A 256
10
BC1
SOFTWARE
ARG A:170 , ARG E:170
BINDING SITE FOR RESIDUE CL A 257
11
BC2
SOFTWARE
ARG I:170 , ARG M:170
BINDING SITE FOR RESIDUE CL I 257
12
BC3
SOFTWARE
ARG I:170 , ARG M:170
BINDING SITE FOR RESIDUE CL I 258
13
BC4
SOFTWARE
HIS C:103 , THR C:107 , GLY C:128 , THR C:129 , LEU C:134 , ASP C:149 , ILE C:150 , ASP C:151 , GLY C:174 , SER C:175 , ASN C:191 , LEU C:192 , LEU C:196 , HOH C:311 , HOH C:314 , HOH C:330 , HOH C:404 , HOH C:449
BINDING SITE FOR RESIDUE SAM C 302
14
BC5
SOFTWARE
HOH A:391 , HIS G:103 , GLY G:128 , THR G:129 , GLY G:130 , SER G:131 , LEU G:134 , ASP G:149 , ILE G:150 , ASP G:151 , GLY G:174 , SER G:175 , ASN G:191 , LEU G:196 , HOH G:316 , HOH G:369 , HOH G:378 , HOH G:471
BINDING SITE FOR RESIDUE SAM G 302
15
BC6
SOFTWARE
HIS K:103 , GLY K:128 , THR K:129 , SER K:131 , LEU K:134 , ASP K:149 , ILE K:150 , ASP K:151 , GLY K:174 , SER K:175 , ASN K:191 , LEU K:192 , LEU K:196 , HOH K:317 , HOH K:325 , HOH K:326 , HOH K:354 , HOH K:386 , HOH K:413 , HOH K:414 , HOH M:385 , HOH M:392
BINDING SITE FOR RESIDUE SAM K 302
16
BC7
SOFTWARE
HOH I:445 , HIS O:103 , GLY O:128 , THR O:129 , SER O:131 , LEU O:134 , ASP O:149 , ILE O:150 , ASP O:151 , GLY O:174 , SER O:175 , ASN O:191 , LEU O:192 , LEU O:196 , HOH O:309 , HOH O:313 , HOH O:322 , HOH O:342 , HOH O:438 , HOH O:440
BINDING SITE FOR RESIDUE SAM O 302
17
BC8
SOFTWARE
PHE A:99 , GLY A:100 , THR A:107 , GLY A:128 , THR A:129 , GLY A:130 , LEU A:134 , ASP A:149 , ILE A:150 , ASP A:151 , GLY A:174 , SER A:175 , ASN A:191 , LEU A:192 , LEU A:196 , HOH A:315 , HOH A:377 , HOH A:426 , HOH A:429 , HOH A:481
BINDING SITE FOR RESIDUE SAH A 258
18
BC9
SOFTWARE
PHE E:99 , GLY E:100 , THR E:107 , LEU E:127 , GLY E:128 , THR E:129 , GLY E:130 , LEU E:134 , ASP E:149 , ILE E:150 , ASP E:151 , SER E:175 , ASN E:191 , LEU E:192 , LEU E:196 , HOH E:378 , HOH E:383 , HOH E:384 , HOH E:411 , HOH E:412 , HOH E:500 , HOH F:1158
BINDING SITE FOR RESIDUE SAH E 256
19
CC1
SOFTWARE
PHE I:99 , GLY I:100 , THR I:107 , GLY I:128 , THR I:129 , GLY I:130 , LEU I:134 , ASP I:149 , ILE I:150 , ASP I:151 , GLY I:174 , SER I:175 , ASN I:191 , LEU I:192 , LEU I:196 , HOH I:265 , HOH I:267 , HOH I:278 , HOH I:284 , HOH I:309 , HOH I:347
BINDING SITE FOR RESIDUE SAH I 259
20
CC2
SOFTWARE
PHE M:99 , GLY M:100 , THR M:107 , GLY M:128 , THR M:129 , GLY M:130 , LEU M:134 , ASP M:149 , ILE M:150 , ASP M:151 , GLY M:174 , SER M:175 , ASN M:191 , LEU M:192 , LEU M:196 , HOH M:270 , HOH M:279 , HOH M:302 , HOH M:320 , HOH M:382 , HOH M:430 , HOH N:162
BINDING SITE FOR RESIDUE SAH M 256
21
CC3
SOFTWARE
THR A:106 , ASN A:191 , LEU A:192 , TYR A:193 , GLY A:218 , LEU A:220 , TRP A:247 , LYS B:2 , LYS B:3 , HOH B:184
BINDING SITE FOR RESIDUE 2MM B 149
22
CC4
SOFTWARE
THR E:106 , ASN E:191 , LEU E:192 , GLY E:218 , LEU E:220 , TRP E:247 , HOH E:380 , HOH E:415 , LYS F:2 , LYS F:3
BINDING SITE FOR RESIDUE 2MM F 149
23
CC5
SOFTWARE
THR I:106 , ASN I:191 , LEU I:192 , TYR I:193 , GLY I:218 , LEU I:220 , TRP I:247 , LYS J:2 , LYS J:3 , HOH J:164
BINDING SITE FOR RESIDUE 2MM J 148
24
CC6
SOFTWARE
THR M:106 , ASN M:191 , LEU M:192 , TYR M:193 , GLY M:218 , LEU M:220 , TRP M:247 , LYS N:2 , LYS N:3
BINDING SITE FOR RESIDUE 2MM M 257
25
CC7
SOFTWARE
PRO B:13 , ASP B:50 , HOH B:189
BINDING SITE FOR RESIDUE EDO B 150
26
CC8
SOFTWARE
PRO A:210 , GLY A:211
BINDING SITE FOR RESIDUE EDO A 259
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: RIBOSOMAL_L11 (B:125-140,F:125-140,J:125-140,N:12...)
;
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_THETH
125-140
4
B:125-140
F:125-140
J:125-140
N:125-140
[
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]
Exons
(0, 0)
Info
All Exons
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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, 8)
Info
All SCOP Domains
1a: SCOP_d3cjtb1 (B:70-139)
1b: SCOP_d3cjtf1 (F:70-139)
1c: SCOP_d3cjtj1 (J:70-139)
1d: SCOP_d3cjtn1 (N:70-139)
2a: SCOP_d3cjtb2 (B:2-68)
2b: SCOP_d3cjtf2 (F:2-68)
2c: SCOP_d3cjtj2 (J:2-68)
2d: SCOP_d3cjtn2 (N:2-68)
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)
Thermus thermophilus [TaxId: 274]
(15)
1a
d3cjtb1
B:70-139
1b
d3cjtf1
F:70-139
1c
d3cjtj1
J:70-139
1d
d3cjtn1
N:70-139
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)
Thermus thermophilus [TaxId: 274]
(17)
2a
d3cjtb2
B:2-68
2b
d3cjtf2
F:2-68
2c
d3cjtj2
J:2-68
2d
d3cjtn2
N:2-68
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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