BMRB Entry 19548

Name: Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL4)/RsmE(dimer) 2:1 complex
Published: 2014-02-24

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PDB ID: 2mfg
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19548
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL4)/RsmE(dimer) 2:1 complex

Deposition date:

2013-10-11

Original release date:

2014-02-24

Authors:

Duss, Olivier; Diarra Dit Konte, Nana; Michel, Erich; Schubert, Mario; Allain, Frederic

Citation:

Citation: Duss, Olivier; Michel, Erich; Diarra Dit Konte, Nana; Schubert, Mario; Allain, Frederic H-T. "Molecular basis for the wide range of affinity found in Csr/Rsm protein-RNA recognition." Nucleic Acids Res. ., .-. (2014).
PubMed: 24561806

Assembly members:

Assembly members:
RsmE, polymer, 65 residues, 6405.423 Da.
SL4(RsmZ), polymer, 21 residues, 6767.146 Da.

Natural source:

Natural source: Common Name: g-proteobacteria Taxonomy ID: 294 Superkingdom: Bacteria Kingdom: not available Genus/species: Pseudomonas fluorescens

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET28a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RsmE: MLILTRKVGESINIGDDITI TILGVSGQQVRIGINAPKDV AVHREEIYQRIQAGLTAPDK RETPH
SL4(RsmZ): GGGUCAUCAGGACGAUGACC C

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1
- assigned_chem_shift_list_2

Data type	Count
13C chemical shifts	355
15N chemical shifts	81
1H chemical shifts	639

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RsmE_1	1
2	SL4(RsmZ)_1	2
3	RsmE_2	1
4	SL4(RsmZ)_2	2

Entities:

Entity 1, RsmE_1 65 residues - 6405.423 Da.

1

MET

LEU

ILE

LEU

THR

ARG

LYS

VAL

GLY

GLU

2

SER

ILE

ASN

ILE

GLY

ASP

ILE

THR

ILE

3

THR

ILE

LEU

GLY

VAL

SER

GLY

GLN

VAL

4

ARG

ILE

GLY

ILE

ASN

ALA

PRO

LYS

ASP

VAL

5

ALA

VAL

HIS

ARG

GLU

ILE

TYR

GLN

ARG

6

ILE

GLN

ALA

GLY

LEU

THR

ALA

PRO

ASP

LYS

7

ARG

GLU

THR

PRO

HIS

Entity 2, SL4(RsmZ)_1 21 residues - 6767.146 Da.

1

G

U

C

A

U

C

A

G

2

G

A

C

G

A

U

G

A

C

3

C

Samples:

sample_1: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ) 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; H2O 95%; D2O, [U-100% 2H], 5%

sample_2: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ) 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; D2O, [U-100% 2H], 100%

sample_3: RsmE, [U-100% 13C; U-100% 15N], 1 mM; SL4(RsmZ) 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; H2O 95%; D2O, [U-100% 2H], 5%

sample_4: RsmE, [U-100% 13C; U-100% 15N], 1 mM; SL4(RsmZ) 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; D2O, [U-100% 2H], 100%

sample_5: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ), [U-100% 13C; U-100% 15N]-Ade/Ura RNA, 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; H2O 95%; D2O, [U-100% 2H], 5%

sample_6: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ), [U-100% 13C; U-100% 15N]-Ade/Ura RNA, 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; D2O, [U-100% 2H], 100%

sample_7: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ), [U-100% 13C; U-100% 15N]-Cyt/Gua RNA, 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; H2O 95%; D2O, [U-100% 2H], 5%

sample_8: RsmE, [U-100% 15N], 1 mM; SL4(RsmZ), [U-100% 13C; U-100% 15N]-Cyt/Gua RNA, 1 mM; potassium phosphate 0.05 mM; sodium chloride 0.03 mM; D2O, [U-100% 2H], 100%

sample_conditions_1: ionic strength: 0.18 M; pH: 7.2; pressure: 1 atm; temperature: 313 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_4	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_3	isotropic	sample_conditions_1
3D 1Fe3Ff NOESY	sample_4	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_4	isotropic	sample_conditions_1
3D HNCA	sample_3	isotropic	sample_conditions_1
3D HNCACB	sample_3	isotropic	sample_conditions_1
2D 1H-1H TOCSY	sample_2	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_5	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_7	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_6	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_8	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_6	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_8	isotropic	sample_conditions_1
3D 1Fe3Ff NOESY	sample_6	isotropic	sample_conditions_1
3D 1Fe3Ff NOESY	sample_8	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_6	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_8	isotropic	sample_conditions_1

BMRB	15257 19534 19544 19546 19547 19549
PDB	2JPP 2MF0 2MF1 2MFC 2MFE 2MFF 2MFG 2MFH
DBJ	BAO61455 BAQ73744 BAQ80031
GB	AAT27429 AAY91370 AEL31265 AGL83913 AIC19187
REF	WP_007920550 WP_017337657 WP_045057924 WP_057444113

BMRB Entry 19548

Additional metadata:

Assembly:

Entities:

Samples:

Experiments:

Software:

NMR spectrometers:

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