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Asym. Unit
Info
Asym.Unit (365 KB)
Biol.Unit 1 (91 KB)
Biol.Unit 2 (93 KB)
Biol.Unit 3 (90 KB)
Biol.Unit 4 (92 KB)
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(1)
Title
:
STRUCTURE OF THE TETRAHYMENA RIBOZYME: BASE TRIPLE SANDWICH AND METAL ION AT THE ACTIVE SITE
Authors
:
F. Guo, A. R. Gooding, T. R. Cech
Date
:
18 Aug 04 (Deposition) - 09 Nov 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Catalytic Rna, Ribozyme, Group I Intron, Crystal Structure, Guanosine Binding Site, Metal Ions, Active Site, Catalytic Mechanism, Base Triples, Conformational Changes
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Guo, A. R. Gooding, T. R. Cech
Structure Of The Tetrahymena Ribozyme: Base Triple Sandwich And Metal Ion At The Active Site.
Mol. Cell V. 16 351 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 38)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1aa: MAGNESIUM ION (MGaa)
1ab: MAGNESIUM ION (MGab)
1ac: MAGNESIUM ION (MGac)
1ad: MAGNESIUM ION (MGad)
1ae: MAGNESIUM ION (MGae)
1af: MAGNESIUM ION (MGaf)
1ag: MAGNESIUM ION (MGag)
1ah: MAGNESIUM ION (MGah)
1ai: MAGNESIUM ION (MGai)
1aj: MAGNESIUM ION (MGaj)
1ak: MAGNESIUM ION (MGak)
1al: MAGNESIUM ION (MGal)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
1f: MAGNESIUM ION (MGf)
1g: MAGNESIUM ION (MGg)
1h: MAGNESIUM ION (MGh)
1i: MAGNESIUM ION (MGi)
1j: MAGNESIUM ION (MGj)
1k: MAGNESIUM ION (MGk)
1l: MAGNESIUM ION (MGl)
1m: MAGNESIUM ION (MGm)
1n: MAGNESIUM ION (MGn)
1o: MAGNESIUM ION (MGo)
1p: MAGNESIUM ION (MGp)
1q: MAGNESIUM ION (MGq)
1r: MAGNESIUM ION (MGr)
1s: MAGNESIUM ION (MGs)
1t: MAGNESIUM ION (MGt)
1u: MAGNESIUM ION (MGu)
1v: MAGNESIUM ION (MGv)
1w: MAGNESIUM ION (MGw)
1x: MAGNESIUM ION (MGx)
1y: MAGNESIUM ION (MGy)
1z: MAGNESIUM ION (MGz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
38
Ligand/Ion
MAGNESIUM ION
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Sites
(31, 31)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
A C:184 , A C:186 , A C:187 , G C:188
BINDING SITE FOR RESIDUE MG C 1
02
AC2
SOFTWARE
A B:183 , A B:184 , A B:186 , A B:187 , G B:188
BINDING SITE FOR RESIDUE MG B 2
03
AC3
SOFTWARE
A A:183 , A A:184 , A A:186 , A A:187 , G A:188
BINDING SITE FOR RESIDUE MG A 3
04
AC4
SOFTWARE
A D:184 , A D:186 , A D:187 , G D:188
BINDING SITE FOR RESIDUE MG D 4
05
AC5
SOFTWARE
A B:256 , U B:273 , C B:274
BINDING SITE FOR RESIDUE MG B 5
06
AC6
SOFTWARE
C B:209 , G B:210
BINDING SITE FOR RESIDUE MG B 6
07
AC7
SOFTWARE
C C:208 , C C:262 , A C:306 , G C:414
BINDING SITE FOR RESIDUE MG C 7
08
AC8
SOFTWARE
A D:256 , U D:273 , C D:274
BINDING SITE FOR RESIDUE MG D 8
09
AC9
SOFTWARE
C A:209 , G A:210 , G A:303
BINDING SITE FOR RESIDUE MG A 9
10
BC1
SOFTWARE
A C:256 , U C:273
BINDING SITE FOR RESIDUE MG C 10
11
BC2
SOFTWARE
MG A:2 , A A:173
BINDING SITE FOR RESIDUE MG A 11
12
BC3
SOFTWARE
U D:249 , G D:250
BINDING SITE FOR RESIDUE MG D 12
13
BC4
SOFTWARE
A B:172 , A B:173
BINDING SITE FOR RESIDUE MG B 13
14
BC5
SOFTWARE
C A:255 , A A:256 , U A:273
BINDING SITE FOR RESIDUE MG A 14
15
BC6
SOFTWARE
A D:173
BINDING SITE FOR RESIDUE MG D 15
16
BC7
SOFTWARE
C B:262 , U B:305 , A B:306 , G B:414
BINDING SITE FOR RESIDUE MG B 16
17
BC8
SOFTWARE
C A:262 , U A:305 , A A:306 , G A:414
BINDING SITE FOR RESIDUE MG A 17
18
BC9
SOFTWARE
U C:249 , G C:250
BINDING SITE FOR RESIDUE MG C 18
19
CC1
SOFTWARE
C D:209 , G D:210
BINDING SITE FOR RESIDUE MG D 19
20
CC2
SOFTWARE
A C:172 , A C:173
BINDING SITE FOR RESIDUE MG C 20
21
CC3
SOFTWARE
A B:248 , U B:249 , G B:250
BINDING SITE FOR RESIDUE MG B 21
22
CC4
SOFTWARE
G D:304 , U D:305 , A D:306 , G D:414
BINDING SITE FOR RESIDUE MG D 22
23
CC5
SOFTWARE
MG A:11
BINDING SITE FOR RESIDUE MG A 2
24
CC6
SOFTWARE
G B:147
BINDING SITE FOR RESIDUE MG B 3
25
CC7
SOFTWARE
G D:147
BINDING SITE FOR RESIDUE MG D 415
26
CC8
SOFTWARE
G B:174 , G B:176
BINDING SITE FOR RESIDUE MG B 415
27
CC9
SOFTWARE
G C:147 , G C:148
BINDING SITE FOR RESIDUE MG C 6
28
DC1
SOFTWARE
U A:202
BINDING SITE FOR RESIDUE MG A 7
29
DC2
SOFTWARE
G C:118 , G C:119 , G C:201
BINDING SITE FOR RESIDUE MG C 415
30
DC3
SOFTWARE
G C:174
BINDING SITE FOR RESIDUE MG C 11
31
DC4
SOFTWARE
G D:281
BINDING SITE FOR RESIDUE MG D 417
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
View:
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(0, 0)
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Sorry, no Info available
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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all PFAM domains
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Sorry, no Info available
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Chain D
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (365 KB)
Header - Asym.Unit
Biol.Unit 1 (91 KB)
Header - Biol.Unit 1
Biol.Unit 2 (93 KB)
Header - Biol.Unit 2
Biol.Unit 3 (90 KB)
Header - Biol.Unit 3
Biol.Unit 4 (92 KB)
Header - Biol.Unit 4
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