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Getting 'Biological Unit' information from database.
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Getting 'PROSITE' information from database.
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Getting 'Exon' information from database.
3EOH
Asym. Unit
Info
Asym.Unit (357 KB)
Biol.Unit 1 (352 KB)
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(1)
Title
:
REFINED GROUP II INTRON STRUCTURE
Authors
:
N. Toor, K. Rajashankar, K. S. Keating, A. M. Pyle
Date
:
26 Sep 08 (Deposition) - 28 Oct 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.12
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Rna, Ribonucleic Acid, Intron, Group Ii, Exon
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Toor, K. Rajashankar, K. S. Keating, A. M. Pyle
Structural Basis For Exon Recognition By A Group Ii Intron.
Nat. Struct. Mol. Biol. V. 15 1221 2008
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 40)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
1b: POTASSIUM ION (Kb)
1c: POTASSIUM ION (Kc)
1d: POTASSIUM ION (Kd)
1e: POTASSIUM ION (Ke)
1f: POTASSIUM ION (Kf)
1g: POTASSIUM ION (Kg)
1h: POTASSIUM ION (Kh)
1i: POTASSIUM ION (Ki)
2a: MAGNESIUM ION (MGa)
2aa: MAGNESIUM ION (MGaa)
2ab: MAGNESIUM ION (MGab)
2ac: MAGNESIUM ION (MGac)
2ad: MAGNESIUM ION (MGad)
2ae: MAGNESIUM ION (MGae)
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)
2t: MAGNESIUM ION (MGt)
2u: MAGNESIUM ION (MGu)
2v: MAGNESIUM ION (MGv)
2w: MAGNESIUM ION (MGw)
2x: MAGNESIUM ION (MGx)
2y: MAGNESIUM ION (MGy)
2z: MAGNESIUM ION (MGz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
9
Ligand/Ion
POTASSIUM ION
2
MG
31
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
C A:119 , A A:174 , U A:238 , G A:239 , MG A:424
BINDING SITE FOR RESIDUE MG A 413
02
AC2
SOFTWARE
G A:374 , U A:375 , C A:377 , U B:4 , U B:5
BINDING SITE FOR RESIDUE MG B 7
03
AC3
SOFTWARE
C A:358 , G A:359 , C A:377 , U B:5
BINDING SITE FOR RESIDUE MG A 414
04
AC4
SOFTWARE
G A:107
BINDING SITE FOR RESIDUE MG A 415
05
AC5
SOFTWARE
A A:110 , G A:111
BINDING SITE FOR RESIDUE MG A 416
06
AC6
SOFTWARE
C A:372
BINDING SITE FOR RESIDUE MG A 417
07
AC7
SOFTWARE
G A:284
BINDING SITE FOR RESIDUE MG A 419
08
AC8
SOFTWARE
G A:46
BINDING SITE FOR RESIDUE MG A 420
09
AC9
SOFTWARE
A A:61
BINDING SITE FOR RESIDUE MG A 421
10
BC1
SOFTWARE
U A:66 , A A:67
BINDING SITE FOR RESIDUE MG A 422
11
BC2
SOFTWARE
C A:116 , G A:117
BINDING SITE FOR RESIDUE MG A 423
12
BC3
SOFTWARE
G A:239 , MG A:413
BINDING SITE FOR RESIDUE MG A 424
13
BC4
SOFTWARE
A A:154 , G A:155 , G A:156
BINDING SITE FOR RESIDUE MG A 425
14
BC5
SOFTWARE
G A:170
BINDING SITE FOR RESIDUE MG A 426
15
BC6
SOFTWARE
A A:184
BINDING SITE FOR RESIDUE MG A 427
16
BC7
SOFTWARE
A A:186
BINDING SITE FOR RESIDUE MG A 428
17
BC8
SOFTWARE
A A:181 , A A:223
BINDING SITE FOR RESIDUE MG A 429
18
BC9
SOFTWARE
G A:135 , G A:136
BINDING SITE FOR RESIDUE MG A 430
19
CC1
SOFTWARE
U A:285
BINDING SITE FOR RESIDUE MG A 433
20
CC2
SOFTWARE
C A:286 , A A:287 , G A:288
BINDING SITE FOR RESIDUE MG A 434
21
CC3
SOFTWARE
A A:355 , A A:356
BINDING SITE FOR RESIDUE MG A 435
22
CC4
SOFTWARE
G A:288 , C A:358 , G A:359 , C A:377
BINDING SITE FOR RESIDUE MG A 436
23
CC5
SOFTWARE
C A:360 , G A:373 , G A:374
BINDING SITE FOR RESIDUE MG A 437
24
CC6
SOFTWARE
G A:369 , A A:370
BINDING SITE FOR RESIDUE MG A 438
25
CC7
SOFTWARE
U A:4 , G A:107 , U A:375 , A A:376
BINDING SITE FOR RESIDUE MG A 439
26
CC8
SOFTWARE
G A:320 , G A:321
BINDING SITE FOR RESIDUE MG A 440
27
CC9
SOFTWARE
G A:269
BINDING SITE FOR RESIDUE MG A 441
28
DC1
SOFTWARE
A A:67 , G A:68
BINDING SITE FOR RESIDUE MG A 442
29
DC2
SOFTWARE
C A:86 , G A:87 , A A:95 , U A:96 , G A:97
BINDING SITE FOR RESIDUE K A 444
30
DC3
SOFTWARE
G A:275
BINDING SITE FOR RESIDUE K A 448
31
DC4
SOFTWARE
U A:365
BINDING SITE FOR RESIDUE K A 449
32
DC5
SOFTWARE
U A:4 , G A:5 , A A:376
BINDING SITE FOR RESIDUE K A 450
[
close Site info
]
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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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
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
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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]
Atom Selection
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all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
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Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
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
show bonds with a radius of 100 units (=0.4Å)
[
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Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
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Show PDB file:
Asym.Unit (357 KB)
Header - Asym.Unit
Biol.Unit 1 (352 KB)
Header - Biol.Unit 1
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