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5KTJ
Biol. Unit 1
Info
Asym.Unit (134 KB)
Biol.Unit 1 (64 KB)
Biol.Unit 2 (64 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PISTOL, A CLASS OF SELF-CLEAVING RIBOZYME
Authors
:
L. A. Nguyen, J. Wang, T. A. Steitz
Date
:
11 Jul 16 (Deposition) - 05 Oct 16 (Release) - 15 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.97
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Ribozyme, Self-Cleavage, Internal Transesterification, Rna
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. A. Nguyen, J. Wang, T. A. Steitz
Crystal Structure Of Pistol, A Class Of Self-Cleaving Ribozyme.
Proc. Natl. Acad. Sci. V. 114 1021 2017 U. S. A.
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Hetero Components
(2, 7)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
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: COBALT HEXAMMINE(III) (NCOa)
3b: COBALT HEXAMMINE(III) (NCOb)
3c: COBALT HEXAMMINE(III) (NCOc)
3d: COBALT HEXAMMINE(III) (NCOd)
3e: COBALT HEXAMMINE(III) (NCOe)
3f: COBALT HEXAMMINE(III) (NCOf)
3g: COBALT HEXAMMINE(III) (NCOg)
3h: COBALT HEXAMMINE(III) (NCOh)
3i: COBALT HEXAMMINE(III) (NCOi)
3j: COBALT HEXAMMINE(III) (NCOj)
4a: SAMARIUM (III) ION (SMa)
4b: SAMARIUM (III) ION (SMb)
4c: SAMARIUM (III) ION (SMc)
4d: SAMARIUM (III) ION (SMd)
4e: SAMARIUM (III) ION (SMe)
4f: SAMARIUM (III) ION (SMf)
4g: SAMARIUM (III) ION (SMg)
4h: SAMARIUM (III) ION (SMh)
4i: SAMARIUM (III) ION (SMi)
4j: SAMARIUM (III) ION (SMj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Mod. Nucleotide
ADENOSINE-5'-TRIPHOSPHATE
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
NCO
6
Ligand/Ion
COBALT HEXAMMINE(III)
4
SM
-1
Ligand/Ion
SAMARIUM (III) ION
[
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Sites
(26, 26)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC5 (SOFTWARE)
05: AC6 (SOFTWARE)
06: AC7 (SOFTWARE)
07: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: AD1 (SOFTWARE)
10: AD2 (SOFTWARE)
11: AD3 (SOFTWARE)
12: AD4 (SOFTWARE)
13: AD5 (SOFTWARE)
14: AD6 (SOFTWARE)
15: AD7 (SOFTWARE)
16: AD8 (SOFTWARE)
17: AD9 (SOFTWARE)
18: AE1 (SOFTWARE)
19: AE3 (SOFTWARE)
20: AE4 (SOFTWARE)
21: AF1 (SOFTWARE)
22: AF5 (SOFTWARE)
23: AF6 (SOFTWARE)
24: AF7 (SOFTWARE)
25: AF8 (SOFTWARE)
26: AF9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
C A:41 , G A:42 , HOH A:205 , HOH A:212
binding site for residue SM A 101
02
AC2
SOFTWARE
C A:22 , A A:23 , G C:50
binding site for residue SM A 102
03
AC3
SOFTWARE
G A:32 , SM C:102
binding site for residue SM A 103
04
AC5
SOFTWARE
U A:18
binding site for residue SM A 105
05
AC6
SOFTWARE
C A:2 , U A:3
binding site for residue MG A 106
06
AC7
SOFTWARE
G A:24
binding site for residue MG A 107
07
AC8
SOFTWARE
U A:6 , G A:33
binding site for residue MG A 109
08
AC9
SOFTWARE
G A:27 , G A:28 , U A:29 , U B:11
binding site for residue NCO A 110
09
AD1
SOFTWARE
A A:49 , G A:50 , U C:30 , G C:32
binding site for residue NCO A 111
10
AD2
SOFTWARE
A A:37 , A A:38 , G A:40 , U B:11 , C B:12
binding site for residue NCO A 112
11
AD3
SOFTWARE
A A:46 , G A:47 , U C:29 , U C:30 , A C:31
binding site for residue NCO A 113
12
AD4
SOFTWARE
A A:14 , G A:15 , U A:16 , A C:14 , G C:15 , U C:16
binding site for residue NCO A 114
13
AD5
SOFTWARE
HOH A:210 , HOH A:213 , HOH B:201 , HOH B:202 , HOH B:203 , HOH D:201
binding site for residue MG A 115
14
AD6
SOFTWARE
HOH A:218 , HOH A:226 , HOH A:228 , HOH A:229 , HOH B:207 , HOH B:208
binding site for residue MG A 116
15
AD7
SOFTWARE
A A:31 , A A:44 , HOH A:201 , HOH A:202 , HOH A:203 , HOH A:207 , HOH D:202 , HOH D:203
binding site for residue MG A 117
16
AD8
SOFTWARE
HOH A:206 , HOH A:214 , HOH A:217 , HOH C:201 , HOH C:213 , HOH C:222
binding site for residue MG A 118
17
AD9
SOFTWARE
HOH A:204 , HOH A:209 , HOH A:220 , HOH A:221 , HOH A:223 , HOH A:227
binding site for residue MG A 119
18
AE1
SOFTWARE
G A:40 , C B:9 , G B:10
binding site for residue NCO B 101
19
AE3
SOFTWARE
SM A:103 , G C:50
binding site for residue SM C 102
20
AE4
SOFTWARE
A A:31 , C D:13
binding site for residue SM C 103
21
AF1
SOFTWARE
C A:48 , A A:49 , U C:29
binding site for residue NCO C 110
22
AF5
SOFTWARE
HOH A:222 , HOH C:205 , HOH C:211 , HOH C:225 , HOH D:204 , HOH D:206
binding site for residue MG C 114
23
AF6
SOFTWARE
HOH A:208 , HOH B:206 , HOH C:203 , HOH C:226 , HOH D:205 , HOH D:209
binding site for residue MG C 115
24
AF7
SOFTWARE
HOH A:211 , HOH A:215 , HOH A:216 , HOH A:224 , HOH C:214 , HOH C:223
binding site for residue MG C 116
25
AF8
SOFTWARE
HOH A:219 , HOH A:230 , HOH C:208 , HOH C:216 , HOH C:221 , HOH C:224
binding site for residue MG C 117
26
AF9
SOFTWARE
HOH B:205 , A D:15
binding site for residue SM D 101
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(0, 0)
Info
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CATH Domains
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Pfam Domains
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Info
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Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
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)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Asym.Unit (134 KB)
Header - Asym.Unit
Biol.Unit 1 (64 KB)
Header - Biol.Unit 1
Biol.Unit 2 (64 KB)
Header - Biol.Unit 2
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