BMRB Entry 11408

Title:
Assigned chemical shifts of RNA-binding domain 3 of CUGBP1 in complex with RNA (UG)3   PubMed: 19553194
Deposition date:
2010-09-09
Original release date:
2011-06-24
Authors:
Tsuda, K.; Kuwasako, K.; Takahashi, M.; Someya, T.; Muto, Y.; Inoue, M.; Kigawa, T.; Terada, T.; Shirouzu, M.; Yokoyama, S.
Citation:

Citation: Tsuda, K.; Kuwasako, K.; Takahashi, M.; Someya, T.; Inoue, M.; Terada, T.; Kobayashi, N.; Shirouzu, M.; Kigawa, T.; Tanaka, A.; Sugano, S.; Guntert, P.; Muto, Y.; Yokoyama, S.. "Structural basis for the sequence-specific RNA-recognition mechanism of human CUG-BP1 RRM3."  Nucleic Acids Res. 37, 5151-5166 (2009).

Assembly members:

Assembly members:
RNA RECOGNITION MOTIF, RESIDUES 383-484, polymer, 115 residues, Formula weight is not available
5'-R(*UP*GP*UP*GP*UP*G)-3, polymer, 6 residues, Formula weight is not available

Natural source:

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

Experimental source:   Production method: cell free synthesis   Host organism: E. coli - cell free   Vector: P040329-21

Experimental source:

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

Experimental source:   Production method: cell free synthesis   Host organism: E. coli - cell free   Vector: P040329-21

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RNA RECOGNITION MOTIF, RESIDUES 383-484: GSSGSSGLTQQSIGAAGSQK EGPEGANLFIYHLPQEFGDQ DLLQMFMPFGNVVSAKVFID KQTNLSKCFGFVSYDNPVSA QAAIQSMNGFQIGMKRLKVQ LKRSKNDSKSGPSSG
5'-R(*UP*GP*UP*GP*UP*G)-3: UGUGUG

Data sets:
Data typeCount
13C chemical shifts463
15N chemical shifts118
1H chemical shifts755

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA RECOGNITION MOTIF, RESIDUES 383-4841
25'-R(*UP*GP*UP*GP*UP*G)-32

Entities:

Entity 1, RNA RECOGNITION MOTIF, RESIDUES 383-484 115 residues - Formula weight is not available

1   GLYSERSERGLYSERSERGLYLEUTHRGLN
2   GLNSERILEGLYALAALAGLYSERGLNLYS
3   GLUGLYPROGLUGLYALAASNLEUPHEILE
4   TYRHISLEUPROGLNGLUPHEGLYASPGLN
5   ASPLEULEUGLNMETPHEMETPROPHEGLY
6   ASNVALVALSERALALYSVALPHEILEASP
7   LYSGLNTHRASNLEUSERLYSCYSPHEGLY
8   PHEVALSERTYRASPASNPROVALSERALA
9   GLNALAALAILEGLNSERMETASNGLYPHE
10   GLNILEGLYMETLYSARGLEULYSVALGLN
11   LEULYSARGSERLYSASNASPSERLYSSER
12   GLYPROSERSERGLY

Entity 2, 5'-R(*UP*GP*UP*GP*UP*G)-3 6 residues - Formula weight is not available

1   UGUGUG

Samples:

sample_1: RNA RECOGNITION MOTIF, RESIDUES 383-484, [U-13C; U-15N], 0.800 mM; RNA, 5'-R(*UP*GP*UP*GP*UP*G)-3 0.800 mM; salt 100 mM; H2O 90%; D2O 10%

sample_2: RNA RECOGNITION MOTIF, RESIDUES 383-484, [U-13C; U-15N], 0.800 mM; RNA, 5'-R(*UP*GP*UP*GP*UP*G)-3 0.800 mM; D2O 100%

condition_1: ionic strength: 100 mM; pH: 7.0; pressure: 1 atm; temperature: 288 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-13C NOESY no.1sample_1isotropiccondition_1
3D 1H-15N NOESYsample_1isotropiccondition_1
2D 1H-1H NOESY no.1sample_1isotropiccondition_1
3D 1H-13C NOESY no.2sample_2isotropiccondition_1
2D 1H-1H NOESY no.2sample_2isotropiccondition_1

Software:

AMBER v9, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm - refinement

xwinnmr v3.5, Bruker, Biospin - collection

NMRPipe v20060702, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer, and, Bax - processing

NMRView v5.0.4, Johnson, One, Moon, Scientific - data analysis

Kujira v0.9825, Kobayashi, N. - data analysis

CYANA v2.1, Guntert, Mumenthaler, and, Wuthrich - structure solution

NMR spectrometers:

  • BRUKER AVANCE 800 MHz

Related Database Links:

BMRB 11405 11406 11407
PDB
DBJ BAB29392 BAE06101 BAE22391 BAE25504 BAE33820
EMBL CAC20566 CAC20707 CAH65197 CAH91665 CAJ82289
GB AAC50895 AAF78955 AAF78956 AAF78957 AAF86230
REF NP_001012539 NP_001017152 NP_001020592 NP_001020767 NP_001094682
SP P28659 Q28HE9 Q4QQT3 Q5F3T7 Q5R995
TPG DAA21780
AlphaFold Q5F3T7

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts