BMRB Entry 34692

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34692
MolProbity Validation Chart

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Title:
NMR structure of Npl3 RRM12 bound to the AUCCAGUGGAA RNA
Deposition date:
2021-11-26
Original release date:
2022-12-16
Authors:
Allain, F.; Clery, A.; Moursy, A.
Citation:

Citation: Moursy, Ahmed; Clery, Antoine; Gerhardy, Stefan; Betz, Katharina; Rao, Sanjana; Mazur, Jaroslaw; Campagne, Sebastien; Beusch, Irene; Duszczyk, Malgorzata; Robinson, Mark; Panse, Vikram Govind; Allain, Frederic H-T. "RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing"  Nat. Commun. 14, 7166-7166 (2023).
PubMed: 37935663

Assembly members:

Assembly members:
entity_1, polymer, 11 residues, 3530.178 Da.
entity_2, polymer, 169 residues, 19294.615 Da.

Natural source:

Natural source:   Common Name: Baker's yeast   Taxonomy ID: 559292   Superkingdom: Eukaryota   Kingdom: Fungi   Genus/species: Saccharomyces cerevisiae

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: unidentified plasmid

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: AUCCAGUGGAA
entity_2: MHHRQEGELSNTRLFVRPFP LDVQESELNEIFGPFGPMKE VKILNGFAFVEFEEAESAAK AIEEVHGKSFANQPLEVVYS KLPAKRYRITMKNLPEGCSW QDLKDLARENSLETTFSSVN TRDFDGTGALEFPSEEILVE ALERLNNIEFRGSVITVERD DNPPPIRRS

Data sets:
Data typeCount
13C chemical shifts356
15N chemical shifts146
1H chemical shifts618

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11
2unit_22

Entities:

Entity 1, unit_1 11 residues - 3530.178 Da.

1   AUCCAGUGGA
2   A

Entity 2, unit_2 169 residues - 19294.615 Da.

1   METHISHISARGGLNGLUGLYGLULEUSER
2   ASNTHRARGLEUPHEVALARGPROPHEPRO
3   LEUASPVALGLNGLUSERGLULEUASNGLU
4   ILEPHEGLYPROPHEGLYPROMETLYSGLU
5   VALLYSILELEUASNGLYPHEALAPHEVAL
6   GLUPHEGLUGLUALAGLUSERALAALALYS
7   ALAILEGLUGLUVALHISGLYLYSSERPHE
8   ALAASNGLNPROLEUGLUVALVALTYRSER
9   LYSLEUPROALALYSARGTYRARGILETHR
10   METLYSASNLEUPROGLUGLYCYSSERTRP
11   GLNASPLEULYSASPLEUALAARGGLUASN
12   SERLEUGLUTHRTHRPHESERSERVALASN
13   THRARGASPPHEASPGLYTHRGLYALALEU
14   GLUPHEPROSERGLUGLUILELEUVALGLU
15   ALALEUGLUARGLEUASNASNILEGLUPHE
16   ARGGLYSERVALILETHRVALGLUARGASP
17   ASPASNPROPROPROILEARGARGSER

Samples:

sample_1: Npl3 RRM12, [U-15N], 0.9 mM

sample_2: Npl3 RRM12, [U-100% 13C; U-100% 15N], 0.9 mM

sample_conditions_1: ionic strength: 50 mM; pH: 6.9; pressure: 0 Pa; temperature: 313 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_2isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_2isotropicsample_conditions_1
2D NOESYsample_1isotropicsample_conditions_1
2D NOESY F1F2fsample_2isotropicsample_conditions_1
2D NOESY F2fsample_2isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1

Software:

Amber, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

CYANA, Guntert, Mumenthaler and Wuthrich - peak picking, structure calculation

Sparky, Goddard - chemical shift assignment

NMR spectrometers:

  • Bruker AVANCE 900 MHz
  • Bruker AVANCE III 700 MHz
  • Bruker AVANCE III 600 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks