BMRBj - BMREntryMaster

Found 1 Document (1.388 seconds)

BMRB: 6077

1R7Z

Loop B RNAs from the Stem-Loop IV domain of the Enterovirus Internal Ribosome Entry Site with a Six-nucleotide Bulge AUUCCU

Authors

Du, Z., Ulyanov, N.B., Yu, J., James, T.L.

Assembly

stem-loop RNA

Entity

1. stem-loop RNA (polymer, Thiol state: not present), 34 monomers, 10961.47 Da Detail

GGAGGACAUU CCUCACGGGU GACCGUGGUC CUCC

Formula weight

10961.47 Da

Source organism

Enterovirus C

Exptl. method

NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 100.0 %, Completeness: 61.7 %, Completeness (bb): 59.9 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C
All	61.7 % (326 of 528)	78.7 % (237 of 301)	39.2 % (89 of 227)
Suger, PO4	59.9 % (224 of 374)	88.2 % (180 of 204)	25.9 % (44 of 170)
Nucleobase	66.2 % (102 of 154)	58.8 % (57 of 97)	78.9 % (45 of 57)
Aromatic	77.3 % (102 of 132)	76.0 % (57 of 75)	78.9 % (45 of 57)

1. RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES

GGAGGACAUU CCUCACGGGU GACCGUGGUC CUCC

Show sample condition

Sample #1

Pressure 1 atm, Temperature 298 K

#	Name	Concentration
6	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
7	NaCl	25 mM
8	sodium phosphate buffer	25 mM
9	D2O	100 %

Sample #2

Pressure 1 atm, Temperature 298 K

#	Name	Isotope labeling	Concentration
10	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
11	NaCl		25 mM
12	sodium phosphate buffer		25 mM
13	D2O		100 %

Chem. Shift Complete2

Sequence coverage: 100.0 %, Completeness: 45.9 %, Completeness (bb): 39.8 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C
All	45.9 % (485 of 1056)	65.8 % (396 of 602)	19.6 % (89 of 454)
Suger, PO4	39.8 % (298 of 748)	62.3 % (254 of 408)	12.9 % (44 of 340)
Nucleobase	60.7 % (187 of 308)	73.2 % (142 of 194)	39.5 % (45 of 114)
Aromatic	64.8 % (171 of 264)	84.0 % (126 of 150)	39.5 % (45 of 114)

1. RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES

GGAGGACAUU CCUCACGGGU GACCGUGGUC CUCC

Show sample condition

Sample

Pressure 1 atm, Temperature 278 K

#	Name	Concentration
1	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
2	NaCl	25 mM
3	sodium phosphate buffer	25 mM
4	H2O	90 %
5	D2O	10 %

Release date

2004-06-29

Citation

NMR structures of loop B RNAs from the stem-loop IV domain of the enterovirus internal ribosome entry site: a single C to U substitution drastically changes the shape and flexibility of RNA
Du, Z., Ulyanov, N.B., Yu, J., Andino, R., James, T.L.
Biochemistry (2004), 43, 5757-5771, PubMed 15134450 , DOI 10.1021/bi0363228 , Abstract

Entries sharing articles BMRB: 1 entries Detail

BMRB: 6076 released on 2004-06-29
Title Loop B RNAs from the Stem-Loop IV domain of the Enterovirus Internal Ribosome Entry Site with a Six-nucleotide Bulge AUCCCU

Related entities 1. stem-loop RNA, : 1 : 1 entities Detail

Experiments performed 3 experiments Detail

1 2D NOESY

Instrument

Model Varian INOVA (600 MHz)

Sample #1

Pressure 1 atm

#	Name	Concentration
1	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
2	NaCl	25 mM
3	sodium phosphate buffer	25 mM
4	H2O	90 %
5	D2O	10 %

Sample #2

Pressure 1 atm

#	Name	Concentration
6	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
7	NaCl	25 mM
8	sodium phosphate buffer	25 mM
9	D2O	100 %

Sample #3

Pressure 1 atm

#	Name	Isotope labeling	Concentration
10	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
11	NaCl		25 mM
12	sodium phosphate buffer		25 mM
13	D2O		100 %

Sample #4

Pressure 1 atm

#	Name	Isotope labeling	Concentration
14	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
15	NaCl		25 mM
16	sodium phosphate buffer		25 mM
17	D2O		100 %
18	C12E6/N-HEXANOL MIXTURE (MOLAR RATIO 0.64)		5 %

2 DQF-COSY

Instrument

Model Varian INOVA (600 MHz)

Sample #1

Pressure 1 atm

#	Name	Concentration
1	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
2	NaCl	25 mM
3	sodium phosphate buffer	25 mM
4	H2O	90 %
5	D2O	10 %

Sample #2

Pressure 1 atm

#	Name	Concentration
6	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
7	NaCl	25 mM
8	sodium phosphate buffer	25 mM
9	D2O	100 %

Sample #3

Pressure 1 atm

#	Name	Isotope labeling	Concentration
10	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
11	NaCl		25 mM
12	sodium phosphate buffer		25 mM
13	D2O		100 %

Sample #4

Pressure 1 atm

#	Name	Isotope labeling	Concentration
14	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
15	NaCl		25 mM
16	sodium phosphate buffer		25 mM
17	D2O		100 %
18	C12E6/N-HEXANOL MIXTURE (MOLAR RATIO 0.64)		5 %

3 1H-13C CONSTANT TIME HSQC

Instrument

Model Varian INOVA (600 MHz)

Sample #1

Pressure 1 atm

#	Name	Concentration
1	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
2	NaCl	25 mM
3	sodium phosphate buffer	25 mM
4	H2O	90 %
5	D2O	10 %

Sample #2

Pressure 1 atm

#	Name	Concentration
6	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	1.0 ~ 2.0 mM
7	NaCl	25 mM
8	sodium phosphate buffer	25 mM
9	D2O	100 %

Sample #3

Pressure 1 atm

#	Name	Isotope labeling	Concentration
10	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
11	NaCl		25 mM
12	sodium phosphate buffer		25 mM
13	D2O		100 %

Sample #4

Pressure 1 atm

#	Name	Isotope labeling	Concentration
14	RNA FRAGMENT OF DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES	[U-13C; U-15N]-A, U	1.0 ~ 2.0 mM
15	NaCl		25 mM
16	sodium phosphate buffer		25 mM
17	D2O		100 %
18	C12E6/N-HEXANOL MIXTURE (MOLAR RATIO 0.64)		5 %

nullKeywords GUGA TETRALOOP, SIX-NUCLEOTIDE BULGE, STEM-AND-LOOP STRUCTURE

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Found 1 Document (1.388 seconds)

BMRB: 6077

Sample #1

Sample #2

Sample

Entries sharing articles BMRB: 1 entries Detail

Related entities 1. stem-loop RNA, : 1 : 1 entities Detail

Experiments performed 3 experiments Detail

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Sample #1

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Sample #4

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