BMRB Entry 18728

Name: SOLUTION STRUCTURE
Published: 2013-01-03

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PDB ID: 2lyv
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR18728
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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: SOLUTION STRUCTURE PubMed: 23247503

Deposition date: 2012-09-19 Original release date: 2013-01-03

Authors: Barraud, Pierre; Allain, Frederic

Citation: Barraud, Pierre; Allain, Frederic H-T. "Solution structure of the two RNA recognition motifs of hnRNP A1 using segmental isotope labeling: how the relative orientation between RRMs influences the nucleic acid binding topology." J. Biomol. NMR 55, 119-138 (2013).

Assembly members:
UP1, polymer, 197 residues, 22229.115 Da.

Natural source: Common Name: Humans Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source: Production method: recombinant technology Host organism: Escherichia coli

Entity Sequences (FASTA):
UP1: GGSKSESPKEPEQLRKLFIG GLSFETTDESLRSHFEQWGT LTDCVVMRDPNTKRSRGFGF VTYATVEEVDAAMNARPHKV DGRVVEPKRAVSREDSQRPG AHLTVKKIFVGGIKEDTEEH HLRDYFEQYGKIEVIEIMTD RGSGKKRGFAFVTFDDHDSV DKIVIQKYHTVNGHNCEVRK ALSKQEMASASSSQRGR

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	801
15N chemical shifts	198
1H chemical shifts	1267

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	UP1	1

Entities:

Entity 1, UP1 197 residues - 22229.115 Da.

1

GLY

SER

LYS

SER

GLU

SER

PRO

LYS

GLU

2

PRO

GLU

GLN

LEU

ARG

LYS

LEU

PHE

ILE

GLY

3

GLY

LEU

SER

PHE

GLU

THR

ASP

GLU

SER

4

LEU

ARG

SER

HIS

PHE

GLU

GLN

TRP

GLY

THR

5

LEU

THR

ASP

CYS

VAL

MET

ARG

ASP

PRO

6

ASN

THR

LYS

ARG

SER

ARG

GLY

PHE

GLY

PHE

7

VAL

THR

TYR

ALA

THR

VAL

GLU

VAL

ASP

8

ALA

MET

ASN

ALA

ARG

PRO

HIS

LYS

VAL

9

ASP

GLY

ARG

VAL

GLU

PRO

LYS

ARG

ALA

10

VAL

SER

ARG

GLU

ASP

SER

GLN

ARG

PRO

GLY

11

ALA

HIS

LEU

THR

VAL

LYS

ILE

PHE

VAL

12

GLY

ILE

LYS

GLU

ASP

THR

GLU

HIS

13

HIS

LEU

ARG

ASP

TYR

PHE

GLU

GLN

TYR

GLY

14

LYS

ILE

GLU

VAL

ILE

GLU

ILE

MET

THR

ASP

15

ARG

GLY

SER

GLY

LYS

ARG

GLY

PHE

ALA

16

PHE

VAL

THR

PHE

ASP

HIS

ASP

SER

VAL

17

ASP

LYS

ILE

VAL

ILE

GLN

LYS

TYR

HIS

THR

18

VAL

ASN

GLY

HIS

ASN

CYS

GLU

VAL

ARG

LYS

19

ALA

LEU

SER

LYS

GLN

GLU

MET

ALA

SER

ALA

20

SER

GLN

ARG

GLY

ARG

Samples:

segmental-labelled: UP1, RRM1[U-13C, U-15N]-RRM2[natural abundance], 1.0 mM; sodium phosphate 10 mM; DTT 1 mM; D2O 100%

15n_h2o: UP1, [U-15N], 0.8 – 1.2 mM; sodium phosphate 10 mM; DTT 1 mM; D2O 10%; H2O 90%

15n_d2o: UP1, [U-15N], 0.8 – 1.2 mM; sodium phosphate 10 mM; DTT 1 mM; D2O 100%

13c15n_h2o: UP1, [U-13C; U-15N], 0.8 – 1.2 mM; sodium phosphate 10 mM; DTT 1 mM; D2O 10%; H2O 90%

sample_conditions_1: ionic strength: 10 mM; pH: 6.5; pressure: 1 atm; temperature: 303 K

sample_conditions_2: ionic strength: 10 mM; pH: 6.5; pressure: 1 atm; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	15n_h2o	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	13c15n_h2o	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	13c15n_h2o	isotropic	sample_conditions_1
3D HNCA	13c15n_h2o	isotropic	sample_conditions_1
3D HNCACB	13c15n_h2o	isotropic	sample_conditions_1
3D CBCA(CO)NH	13c15n_h2o	isotropic	sample_conditions_1
3D HNCO	13c15n_h2o	isotropic	sample_conditions_1
3D HN(CA)CO	13c15n_h2o	isotropic	sample_conditions_1
3D H(CCO)NH	13c15n_h2o	isotropic	sample_conditions_1
3D C(CO)NH	13c15n_h2o	isotropic	sample_conditions_1
3D 1H-15N NOESY	15n_h2o	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	13c15n_h2o	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	13c15n_h2o	isotropic	sample_conditions_1
2D 1H-1H NOESY	15n_d2o	isotropic	sample_conditions_1
2D 1H-1H TOCSY	15n_d2o	isotropic	sample_conditions_1
2D 1H-15N IPAP HSQC	15n_h2o	anisotropic	sample_conditions_2
2D long-range 1H-15N HSQC	15n_h2o	isotropic	sample_conditions_1
3D 13C F1-edited F3-filtered NOESY-HSQC	segmental-labelled	isotropic	sample_conditions_1
2D 1H-15N IPAP HSQC	15n_h2o	isotropic	sample_conditions_1

Software:

TOPSPIN v2.1, Bruker Biospin - collection, processing

SPARKY, Goddard - chemical shift assignment, data analysis

CYANA v3.0, Guntert - structure solution

CNS v1.3, Brunger, Adams, Clore, Gros, Nilges and Read - refinement

TALOS vtalos+, Cornilescu, Delaglio and Bax - data analysis

ProcheckNMR, Laskowski and MacArthur - data analysis

NMR spectrometers:

Bruker Avance 500 MHz
Bruker Avance 600 MHz
Bruker Avance 700 MHz
Bruker Avance 750 MHz
Bruker Avance 900 MHz

UNP	P09651
PDB	1L3K 1PGZ 1U1K 1U1L 1U1M 1U1N 1U1O 1U1P 1U1Q 1U1R 2LYV 4YOE
DBJ	BAA13161 BAA13162 BAB25267 BAC40273 BAE00617
EMBL	CAA29922 CAA31191 CAA56072 CAG31480 CAH18571
GB	AAA37633 AAA41314 AAB01436 AAH02355 AAH09600
PIR	DDRT S04617
REF	NP_001011724 NP_001011725 NP_001034218 NP_001036248 NP_001039376
SP	A5A6H4 P04256 P09651 P09867 P49312
TPG	DAA30020

Biological Magnetic Resonance Data Bank