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4E8M
Asym. Unit
Info
Asym.Unit (374 KB)
Biol.Unit 1 (366 KB)
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(1)
Title
:
STRUCTURE OF OCEANOBACILLUS IHEYENSIS GROUP II INTRON IN A LIGAND-FREE STATE IN THE PRESENCE OF K+ AND MG2+
Authors
:
M. Marcia, A. M. Pyle
Date
:
20 Mar 12 (Deposition) - 14 Nov 12 (Release) - 14 Nov 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Ribozyme, Metalloenzyme, Self-Splicing, Retrotransposition, Rna
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Marcia, A. M. Pyle
Visualizing Group Ii Intron Catalysis Through The Stages Of Splicing.
Cell(Cambridge, Mass. ) V. 151 497 2012
[
close entry info
]
Hetero Components
(4, 50)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
1b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
1c: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEc)
1d: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEd)
1e: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEe)
1f: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEf)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
2c: POTASSIUM ION (Kc)
2d: POTASSIUM ION (Kd)
2e: POTASSIUM ION (Ke)
2f: POTASSIUM ION (Kf)
2g: POTASSIUM ION (Kg)
2h: POTASSIUM ION (Kh)
2i: POTASSIUM ION (Ki)
2j: POTASSIUM ION (Kj)
2k: POTASSIUM ION (Kk)
2l: POTASSIUM ION (Kl)
2m: POTASSIUM ION (Km)
2n: POTASSIUM ION (Kn)
2o: POTASSIUM ION (Ko)
2p: POTASSIUM ION (Kp)
2q: POTASSIUM ION (Kq)
2r: POTASSIUM ION (Kr)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
3g: MAGNESIUM ION (MGg)
3h: MAGNESIUM ION (MGh)
3i: MAGNESIUM ION (MGi)
3j: MAGNESIUM ION (MGj)
3k: MAGNESIUM ION (MGk)
3l: MAGNESIUM ION (MGl)
3m: MAGNESIUM ION (MGm)
3n: MAGNESIUM ION (MGn)
3o: MAGNESIUM ION (MGo)
3p: MAGNESIUM ION (MGp)
3q: MAGNESIUM ION (MGq)
3r: MAGNESIUM ION (MGr)
3s: MAGNESIUM ION (MGs)
3t: MAGNESIUM ION (MGt)
3u: MAGNESIUM ION (MGu)
3v: MAGNESIUM ION (MGv)
3w: MAGNESIUM ION (MGw)
3x: MAGNESIUM ION (MGx)
4a: SPERMINE (SPMa)
4b: SPERMINE (SPMb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPE
6
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2
K
18
Ligand/Ion
POTASSIUM ION
3
MG
24
Ligand/Ion
MAGNESIUM ION
4
SPM
2
Ligand/Ion
SPERMINE
[
close Hetero Component info
]
Sites
(48, 48)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
G A:142 , C A:145
BINDING SITE FOR RESIDUE MG A 401
02
AC2
SOFTWARE
G A:359 , U A:375 , C A:377 , MG A:403
BINDING SITE FOR RESIDUE MG A 402
03
AC3
SOFTWARE
C A:358 , G A:359 , C A:377 , MG A:402 , HOH A:508
BINDING SITE FOR RESIDUE MG A 403
04
AC4
SOFTWARE
G A:3 , U A:4
BINDING SITE FOR RESIDUE MG A 404
05
AC5
SOFTWARE
C A:360 , G A:374
BINDING SITE FOR RESIDUE MG A 405
06
AC6
SOFTWARE
G A:324 , G A:325
BINDING SITE FOR RESIDUE MG A 406
07
AC7
SOFTWARE
G A:46 , U A:47 , U A:59 , HOH A:513 , HOH A:514
BINDING SITE FOR RESIDUE MG A 407
08
AC8
SOFTWARE
G A:107
BINDING SITE FOR RESIDUE MG A 408
09
AC9
SOFTWARE
C A:372
BINDING SITE FOR RESIDUE MG A 409
10
BC1
SOFTWARE
U A:363 , U A:379
BINDING SITE FOR RESIDUE MG A 410
11
BC2
SOFTWARE
C A:119 , A A:174 , U A:238 , G A:239
BINDING SITE FOR RESIDUE MG A 411
12
BC3
SOFTWARE
A A:105
BINDING SITE FOR RESIDUE MG A 412
13
BC4
SOFTWARE
G A:136 , U A:225
BINDING SITE FOR RESIDUE MG A 413
14
BC5
SOFTWARE
U A:66 , A A:67
BINDING SITE FOR RESIDUE MG A 414
15
BC6
SOFTWARE
U A:96
BINDING SITE FOR RESIDUE MG A 415
16
BC7
SOFTWARE
U A:26
BINDING SITE FOR RESIDUE MG A 416
17
BC8
SOFTWARE
U A:66 , A A:67 , G A:68
BINDING SITE FOR RESIDUE MG A 417
18
BC9
SOFTWARE
A A:154 , G A:155
BINDING SITE FOR RESIDUE MG A 418
19
CC1
SOFTWARE
G A:5 , U A:285
BINDING SITE FOR RESIDUE MG A 419
20
CC2
SOFTWARE
G A:382 , G A:383
BINDING SITE FOR RESIDUE MG A 420
21
CC3
SOFTWARE
A A:283
BINDING SITE FOR RESIDUE MG A 421
22
CC4
SOFTWARE
G A:142
BINDING SITE FOR RESIDUE MG A 422
23
CC5
SOFTWARE
C A:286 , A A:287 , G A:288 , G A:321
BINDING SITE FOR RESIDUE MG A 423
24
CC6
SOFTWARE
A A:290 , G A:354 , A A:355 , A A:356
BINDING SITE FOR RESIDUE MG A 424
25
CC7
SOFTWARE
G A:266
BINDING SITE FOR RESIDUE K A 425
26
CC8
SOFTWARE
G A:14 , G A:15
BINDING SITE FOR RESIDUE K A 426
27
CC9
SOFTWARE
G A:269
BINDING SITE FOR RESIDUE K A 427
28
DC1
SOFTWARE
G A:275
BINDING SITE FOR RESIDUE K A 428
29
DC2
SOFTWARE
G A:275 , A A:277
BINDING SITE FOR RESIDUE K A 430
30
DC3
SOFTWARE
G A:28
BINDING SITE FOR RESIDUE K A 431
31
DC4
SOFTWARE
G A:264
BINDING SITE FOR RESIDUE K A 432
32
DC5
SOFTWARE
C A:86 , G A:87 , U A:96 , G A:97
BINDING SITE FOR RESIDUE K A 433
33
DC6
SOFTWARE
G A:3 , U A:4 , G A:5 , A A:376
BINDING SITE FOR RESIDUE K A 434
34
DC7
SOFTWARE
G A:79
BINDING SITE FOR RESIDUE K A 435
35
DC8
SOFTWARE
G A:32 , G A:34 , A A:50
BINDING SITE FOR RESIDUE K A 436
36
DC9
SOFTWARE
G A:288 , C A:358 , G A:359 , C A:377
BINDING SITE FOR RESIDUE K A 437
37
EC1
SOFTWARE
U A:332
BINDING SITE FOR RESIDUE K A 438
38
EC2
SOFTWARE
G A:90 , G A:92
BINDING SITE FOR RESIDUE K A 439
39
EC3
SOFTWARE
G A:194 , U A:195
BINDING SITE FOR RESIDUE K A 440
40
EC4
SOFTWARE
A A:319 , G A:320
BINDING SITE FOR RESIDUE K A 441
41
EC5
SOFTWARE
U A:47 , G A:48 , A A:49 , G A:55 , A A:56 , G A:58 , HOH A:506
BINDING SITE FOR RESIDUE SPM A 443
42
EC6
SOFTWARE
G A:30 , U A:31 , G A:32 , A A:35 , G A:36 , U A:37
BINDING SITE FOR RESIDUE SPM A 444
43
EC7
SOFTWARE
U A:301 , G A:315 , G A:316 , G A:317
BINDING SITE FOR RESIDUE EPE A 445
44
EC8
SOFTWARE
C A:38 , C A:39 , G A:242 , G A:243 , G A:244
BINDING SITE FOR RESIDUE EPE A 446
45
EC9
SOFTWARE
U A:71 , G A:111 , C A:112 , G A:113 , G A:114 , A A:115
BINDING SITE FOR RESIDUE EPE A 447
46
FC1
SOFTWARE
C A:76 , A A:77 , U A:103 , G A:104
BINDING SITE FOR RESIDUE EPE A 448
47
FC2
SOFTWARE
G A:97 , G A:98
BINDING SITE FOR RESIDUE EPE A 449
48
FC3
SOFTWARE
C A:116 , G A:117 , HOH A:510
BINDING SITE FOR RESIDUE EPE 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
[
close SNP/Variant info
]
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:
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Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Atom Selection
(currently selected atoms:
all
)
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Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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