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3IGI
Biol. Unit 1
Info
Asym.Unit (376 KB)
Biol.Unit 1 (368 KB)
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(1)
Title
:
TERTIARY ARCHITECTURE OF THE OCEANOBACILLUS IHEYENSIS GROUP II INTRON
Authors
:
N. Toor, K. S. Keating, O. Fedorova, K. Rajashankar, J. Wang, A. M. Pyle
Date
:
27 Jul 09 (Deposition) - 22 Dec 09 (Release) - 25 Sep 13 (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. S. Keating, O. Fedorova, K. Rajashankar, J. Wang, A. M. Pyle
Tertiary Architecture Of The Oceanobacillus Iheyensis Group Ii Intron.
Rna V. 16 57 2010
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close entry info
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Hetero Components
(0, 0)
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)
1j: POTASSIUM ION (Kj)
1k: POTASSIUM ION (Kk)
1l: POTASSIUM ION (Kl)
1m: POTASSIUM ION (Km)
1n: POTASSIUM ION (Kn)
1o: POTASSIUM ION (Ko)
1p: POTASSIUM ION (Kp)
1q: POTASSIUM ION (Kq)
1r: POTASSIUM ION (Kr)
1s: POTASSIUM ION (Ks)
1t: POTASSIUM ION (Kt)
1u: POTASSIUM ION (Ku)
1v: POTASSIUM ION (Kv)
2a: MAGNESIUM ION (MGa)
2aa: MAGNESIUM ION (MGaa)
2ab: MAGNESIUM ION (MGab)
2ac: MAGNESIUM ION (MGac)
2ad: MAGNESIUM ION (MGad)
2ae: MAGNESIUM ION (MGae)
2af: MAGNESIUM ION (MGaf)
2ag: MAGNESIUM ION (MGag)
2ah: MAGNESIUM ION (MGah)
2ai: MAGNESIUM ION (MGai)
2aj: MAGNESIUM ION (MGaj)
2ak: MAGNESIUM ION (MGak)
2al: MAGNESIUM ION (MGal)
2am: MAGNESIUM ION (MGam)
2an: MAGNESIUM ION (MGan)
2ao: MAGNESIUM ION (MGao)
2ap: MAGNESIUM ION (MGap)
2aq: MAGNESIUM ION (MGaq)
2ar: MAGNESIUM ION (MGar)
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:
Sorry, no Info available
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close Hetero component info
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Sites
(62, 62)
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: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
G A:374 , U A:375 , C A:377 , U B:6 , A B:7
BINDING SITE FOR RESIDUE MG A 413
02
AC2
SOFTWARE
C A:358 , G A:359 , C A:377 , A B:7
BINDING SITE FOR RESIDUE MG A 414
03
AC3
SOFTWARE
G A:3 , U A:4 , HOH A:533
BINDING SITE FOR RESIDUE MG A 415
04
AC4
SOFTWARE
G A:14 , G A:15 , U A:256
BINDING SITE FOR RESIDUE MG A 416
05
AC5
SOFTWARE
G A:244
BINDING SITE FOR RESIDUE MG A 417
06
AC6
SOFTWARE
HOH A:546
BINDING SITE FOR RESIDUE MG A 418
07
AC7
SOFTWARE
G A:385 , G A:386 , MG A:421
BINDING SITE FOR RESIDUE MG A 419
08
AC8
SOFTWARE
HOH A:501
BINDING SITE FOR RESIDUE MG A 420
09
AC9
SOFTWARE
A A:290 , G A:386 , MG A:419
BINDING SITE FOR RESIDUE MG A 421
10
BC1
SOFTWARE
C A:360 , G A:374 , HOH A:536
BINDING SITE FOR RESIDUE MG A 422
11
BC2
SOFTWARE
A A:260 , HOH A:519
BINDING SITE FOR RESIDUE MG A 423
12
BC3
SOFTWARE
G A:324 , G A:325 , HOH A:480 , HOH A:483
BINDING SITE FOR RESIDUE MG A 424
13
BC4
SOFTWARE
G A:46 , U A:47 , U A:59 , HOH A:511 , HOH A:549 , HOH A:558
BINDING SITE FOR RESIDUE MG A 425
14
BC5
SOFTWARE
HOH A:490
BINDING SITE FOR RESIDUE MG A 426
15
BC6
SOFTWARE
G A:107 , HOH A:486 , HOH A:513 , HOH A:539
BINDING SITE FOR RESIDUE MG A 427
16
BC7
SOFTWARE
C A:372 , G A:373 , HOH A:482 , HOH A:502 , HOH A:562
BINDING SITE FOR RESIDUE MG A 428
17
BC8
SOFTWARE
U A:379 , HOH A:527 , HOH A:563
BINDING SITE FOR RESIDUE MG A 429
18
BC9
SOFTWARE
C A:119 , A A:174 , G A:239 , HOH A:479 , HOH A:528 , HOH A:564
BINDING SITE FOR RESIDUE MG A 430
19
CC1
SOFTWARE
A A:186 , HOH A:506 , HOH A:548
BINDING SITE FOR RESIDUE MG A 431
20
CC2
SOFTWARE
G A:269 , G A:270 , HOH A:485 , HOH A:508 , HOH A:517
BINDING SITE FOR RESIDUE MG A 432
21
CC3
SOFTWARE
G A:275 , K A:459 , HOH A:504
BINDING SITE FOR RESIDUE MG A 433
22
CC4
SOFTWARE
A A:105
BINDING SITE FOR RESIDUE MG A 434
23
CC5
SOFTWARE
G A:136 , A A:137 , U A:225 , HOH A:494 , HOH A:523
BINDING SITE FOR RESIDUE MG A 435
24
CC6
SOFTWARE
U A:66 , A A:67 , HOH A:487 , HOH A:540
BINDING SITE FOR RESIDUE MG A 436
25
CC7
SOFTWARE
G A:284 , HOH A:498
BINDING SITE FOR RESIDUE MG A 437
26
CC8
SOFTWARE
A A:181 , A A:223
BINDING SITE FOR RESIDUE MG A 438
27
CC9
SOFTWARE
G A:111 , C A:112 , HOH A:522
BINDING SITE FOR RESIDUE MG A 439
28
DC1
SOFTWARE
HOH A:537 , HOH A:567
BINDING SITE FOR RESIDUE MG A 440
29
DC2
SOFTWARE
G A:266
BINDING SITE FOR RESIDUE MG A 441
30
DC3
SOFTWARE
C A:119 , G A:173
BINDING SITE FOR RESIDUE MG A 442
31
DC4
SOFTWARE
C A:6
BINDING SITE FOR RESIDUE MG A 443
32
DC5
SOFTWARE
G A:169 , G A:170
BINDING SITE FOR RESIDUE MG A 444
33
DC6
SOFTWARE
A A:61 , HOH A:557
BINDING SITE FOR RESIDUE MG A 445
34
DC7
SOFTWARE
C A:145 , U A:146
BINDING SITE FOR RESIDUE MG A 446
35
DC8
SOFTWARE
A A:184
BINDING SITE FOR RESIDUE MG A 447
36
DC9
SOFTWARE
A A:67 , G A:68
BINDING SITE FOR RESIDUE MG A 448
37
EC1
SOFTWARE
A A:154 , G A:155 , HOH A:503
BINDING SITE FOR RESIDUE MG A 449
38
EC2
SOFTWARE
G A:320
BINDING SITE FOR RESIDUE MG A 450
39
EC3
SOFTWARE
U A:285
BINDING SITE FOR RESIDUE MG A 451
40
EC4
SOFTWARE
A A:355 , A A:356
BINDING SITE FOR RESIDUE MG A 452
41
EC5
SOFTWARE
G A:170 , HOH A:555
BINDING SITE FOR RESIDUE MG A 453
42
EC6
SOFTWARE
C A:286 , A A:287 , G A:288
BINDING SITE FOR RESIDUE MG A 454
43
EC7
SOFTWARE
G A:382 , HOH A:552
BINDING SITE FOR RESIDUE MG A 455
44
EC8
SOFTWARE
A A:333 , U A:334 , G A:335
BINDING SITE FOR RESIDUE MG A 456
45
EC9
SOFTWARE
U A:4 , G A:107 , U A:375 , A A:376
BINDING SITE FOR RESIDUE K A 457
46
FC1
SOFTWARE
C A:116 , G A:117
BINDING SITE FOR RESIDUE K A 458
47
FC2
SOFTWARE
MG A:433
BINDING SITE FOR RESIDUE K A 459
48
FC3
SOFTWARE
G A:28
BINDING SITE FOR RESIDUE K A 460
49
FC4
SOFTWARE
G A:264 , G A:265
BINDING SITE FOR RESIDUE K A 462
50
FC5
SOFTWARE
A A:283 , G A:284
BINDING SITE FOR RESIDUE K A 463
51
FC6
SOFTWARE
G A:194
BINDING SITE FOR RESIDUE K A 464
52
FC7
SOFTWARE
C A:86 , G A:87 , A A:95 , U A:96 , G A:97
BINDING SITE FOR RESIDUE K A 466
53
FC8
SOFTWARE
U A:4 , G A:5 , A A:376
BINDING SITE FOR RESIDUE K A 467
54
FC9
SOFTWARE
G A:80
BINDING SITE FOR RESIDUE K A 468
55
GC1
SOFTWARE
G A:32 , G A:34
BINDING SITE FOR RESIDUE K A 469
56
GC2
SOFTWARE
G A:229
BINDING SITE FOR RESIDUE K A 470
57
GC3
SOFTWARE
A A:370
BINDING SITE FOR RESIDUE K A 471
58
GC4
SOFTWARE
G A:288 , C A:358 , G A:359 , C A:377
BINDING SITE FOR RESIDUE K A 472
59
GC5
SOFTWARE
G A:331 , U A:332
BINDING SITE FOR RESIDUE K A 473
60
GC6
SOFTWARE
A A:348 , A A:349 , G A:350 , C A:351
BINDING SITE FOR RESIDUE K A 474
61
GC7
SOFTWARE
A A:120
BINDING SITE FOR RESIDUE K A 475
62
GC8
SOFTWARE
G A:90
BINDING SITE FOR RESIDUE K A 476
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
close PROSITE info
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
[
close CATH info
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
[
close Pfam info
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Atom Selection
(currently selected atoms:
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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(selected part)
Molecule Coloring
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by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
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Example Commands
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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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View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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Asym.Unit (376 KB)
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Header - Biol.Unit 1
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