BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 17388

Title: Solution Structure of the Zinc Finger Domain of USP13

Deposition date: 2010-12-28 Original release date: 2011-12-14

Authors: Zhang, Yuhang; Zhou, Chenjie; Zhou, Ziren; Song, Aixin; Hu, Hongyu

Citation: Zhang, Yuhang; Song, Aixin; Zhou, Chenjie; Zhou, Ziren; Hu, Hongyu. "Biochemical Characterization of the Ubiquitin Receptors in USP13 Reveals Different Catalytic Activation of Deubiquitination from Its Analogue USP5"  Not known ., .-..

Assembly members:
entity, polymer, 114 residues, 12696.393 Da.

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

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

Entity Sequences (FASTA):
entity: VSKYANNLTQLDNGVRIPPS GWKCARCDLRENLWLNLTDG SVLCGKWFFDSSGGNGHALE HYRDMGYPLAVKLGTITPDG ADVYSFQEEEPVLDPHLAKH LAHFGIDMLHMHGT

Data sets:
Data typeCount
13C chemical shifts408
15N chemical shifts97
1H chemical shifts658

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1USP131

Entities:

Entity 1, USP13 114 residues - 12696.393 Da.

1   VALSERLYSTYRALAASNASNLEUTHRGLN
2   LEUASPASNGLYVALARGILEPROPROSER
3   GLYTRPLYSCYSALAARGCYSASPLEUARG
4   GLUASNLEUTRPLEUASNLEUTHRASPGLY
5   SERVALLEUCYSGLYLYSTRPPHEPHEASP
6   SERSERGLYGLYASNGLYHISALALEUGLU
7   HISTYRARGASPMETGLYTYRPROLEUALA
8   VALLYSLEUGLYTHRILETHRPROASPGLY
9   ALAASPVALTYRSERPHEGLNGLUGLUGLU
10   PROVALLEUASPPROHISLEUALALYSHIS
11   LEUALAHISPHEGLYILEASPMETLEUHIS
12   METHISGLYTHR

Samples:

sample_1: USP13, [U-15N], 1 mM; sodium phosphate 20 mM; sodium chloride 50 mM; H2O 90%; D2O 10%

sample_2: entity, [U-100% 13C; U-100% 15N], 1 mM; sodium phosphate 20 mM; sodium chloride 50 mM; H2O 90%; D2O 10%

sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_2isotropicsample_conditions_1
3D HNHAsample_1isotropicsample_conditions_1
3D HNCOsample_2isotropicsample_conditions_1
3D C(CO)NHsample_2isotropicsample_conditions_1
3D HCCH-TOCSYsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_2isotropicsample_conditions_1

Software:

ARIA, Linge, O, . - refinement, structure solution

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

TALOS, Cornilescu, Delaglio and Bax - data analysis

SPARKY, Goddard - chemical shift assignment, peak picking

ProcheckNMR, Laskowski and MacArthur - data analysis

NMR spectrometers:

  • Bruker Avance 600 MHz

Related Database Links:

PDB
DBJ BAF83027 BAG63715
EMBL CAL38193 CAL38270 CAL38486 CAL38655
GB AAC63405 AAH16146 ABM83398 ABM86610 ADM34989
REF NP_001178195 NP_001252567 NP_003931 XP_002912504 XP_003310172
SP E1BMF7 Q92995
TPG DAA33286

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