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3V7E
Biol. Unit 2
Info
Asym.Unit (141 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (67 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YBXF BOUND TO THE SAM-I RIBOSWITCH APTAMER
Authors
:
N. J. Baird, J. Zhang, T. Hamma, A. R. Ferre-D'Amare
Date
:
21 Dec 11 (Deposition) - 07 Mar 12 (Release) - 18 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Rna-Protein Complex, Riboswitch, K-Turn, L7Ae-Like, A Member Of The L7Ae/L30E Superfamily, Unknown Function, K-Turn Motif, Ribosomal Protein-Rna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. J. Baird, J. Zhang, T. Hamma, A. R. Ferre-D'Amare
Ybxf And Ylxq Are Bacterial Homologs Of L7Ae And Bind K-Turns But Not K-Loops.
Rna V. 18 759 2012
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Hetero Components
(2, 7)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
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)
2a: COBALT HEXAMMINE(III) (NCOa)
2b: COBALT HEXAMMINE(III) (NCOb)
2c: COBALT HEXAMMINE(III) (NCOc)
2d: COBALT HEXAMMINE(III) (NCOd)
2e: COBALT HEXAMMINE(III) (NCOe)
2f: COBALT HEXAMMINE(III) (NCOf)
2g: COBALT HEXAMMINE(III) (NCOg)
2h: COBALT HEXAMMINE(III) (NCOh)
2i: COBALT HEXAMMINE(III) (NCOi)
2j: COBALT HEXAMMINE(III) (NCOj)
2k: COBALT HEXAMMINE(III) (NCOk)
2l: COBALT HEXAMMINE(III) (NCOl)
2m: COBALT HEXAMMINE(III) (NCOm)
2n: COBALT HEXAMMINE(III) (NCOn)
2o: COBALT HEXAMMINE(III) (NCOo)
2p: COBALT HEXAMMINE(III) (NCOp)
2q: COBALT HEXAMMINE(III) (NCOq)
2r: COBALT HEXAMMINE(III) (NCOr)
3a: S-ADENOSYLMETHIONINE (SAMa)
3b: S-ADENOSYLMETHIONINE (SAMb)
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Label:
No.
Name
Count
Type
Full Name
1
MG
-1
Ligand/Ion
MAGNESIUM ION
2
NCO
6
Ligand/Ion
COBALT HEXAMMINE(III)
3
SAM
1
Ligand/Ion
S-ADENOSYLMETHIONINE
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Sites
(16, 16)
Info
All Sites
01: BC8 (SOFTWARE)
02: CC6 (SOFTWARE)
03: CC7 (SOFTWARE)
04: CC8 (SOFTWARE)
05: CC9 (SOFTWARE)
06: DC1 (SOFTWARE)
07: DC2 (SOFTWARE)
08: DC3 (SOFTWARE)
09: DC4 (SOFTWARE)
10: DC5 (SOFTWARE)
11: DC6 (SOFTWARE)
12: DC7 (SOFTWARE)
13: DC8 (SOFTWARE)
14: DC9 (SOFTWARE)
15: EC1 (SOFTWARE)
16: EC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
BC8
SOFTWARE
G C:1 , HOH C:1003 , HOH D:501 , HOH D:502
BINDING SITE FOR RESIDUE MG C 919
02
CC6
SOFTWARE
U D:204 , U D:205 , A D:319 , U D:320 , G D:321
BINDING SITE FOR RESIDUE NCO D 401
03
CC7
SOFTWARE
A D:210 , G D:211 , A D:294 , U D:295 , U D:296
BINDING SITE FOR RESIDUE NCO D 402
04
CC8
SOFTWARE
A D:245 , A D:246 , U D:286 , G D:287 , G D:288 , U D:289
BINDING SITE FOR RESIDUE NCO D 403
05
CC9
SOFTWARE
G D:223 , C D:225 , U D:226 , G D:227 , G D:228 , C D:229 , HOH D:502
BINDING SITE FOR RESIDUE NCO D 404
06
DC1
SOFTWARE
U D:313 , G D:314 , A D:315
BINDING SITE FOR RESIDUE NCO D 405
07
DC2
SOFTWARE
C D:259 , G D:260 , U D:261 , G D:273
BINDING SITE FOR RESIDUE NCO D 406
08
DC3
SOFTWARE
U D:207 , C D:208 , G D:211 , A D:245 , A D:246 , C D:247 , U D:289 , G D:290 , C D:291 , U D:320 , G D:321
BINDING SITE FOR RESIDUE SAM D 407
09
DC4
SOFTWARE
U D:299 , G D:300 , HOH D:506 , HOH D:507
BINDING SITE FOR RESIDUE MG D 408
10
DC5
SOFTWARE
G D:201
BINDING SITE FOR RESIDUE MG D 409
11
DC6
SOFTWARE
G D:300
BINDING SITE FOR RESIDUE MG D 410
12
DC7
SOFTWARE
G D:213 , G D:242
BINDING SITE FOR RESIDUE MG D 412
13
DC8
SOFTWARE
C D:203 , C D:324
BINDING SITE FOR RESIDUE MG D 413
14
DC9
SOFTWARE
HOH D:503 , HOH D:504
BINDING SITE FOR RESIDUE MG D 414
15
EC1
SOFTWARE
U D:217 , G D:218 , HOH D:505
BINDING SITE FOR RESIDUE MG D 415
16
EC2
SOFTWARE
A D:316
BINDING SITE FOR RESIDUE MG D 416
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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
(0, 0)
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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.
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SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (141 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (67 KB)
Header - Biol.Unit 2
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