BMRB Entry 10011

Title:
SOLUTION STRUCTURE OF THE SWIRM DOMAIN OF HUMAN LSD1
Deposition date:
2005-11-07
Original release date:
2006-11-14
Authors:
Tochio, N.; Umehara, T.; Koshiba, S.; Inoue, M.; TANAKA, A.; Kigawa, T.; Yokoyama, S.
Citation:

Citation: Tochio, N.; Umehara, T.; Koshiba, S.; Inoue, M.; Yabuki, T.; Aoki, M.; Seki, E.; Watanabe, S.; Tomo, Y.; Hanada, M.; Ikari, M.; Sato, M.; Terada, T.; Nagase, T.; Ohara, O.; Shirouzu, M.; Tanaka, A.; Kigawa, T.; Yokoyama, S.. "Solution structure of the SWIRM domain of human histone demethylase LSD1"  Structure 14, 457-468 (2006).
PubMed: 16531230

Assembly members:

Assembly members:
SWIRM domain, polymer, 124 residues, 13710.63 Da.

Natural source:

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

Experimental source:

Experimental source:   Production method: cell free synthesis   Vector: P040401-21

Data sets:
Data typeCount
13C chemical shifts525
15N chemical shifts119
1H chemical shifts828

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1SWIRM domain1

Entities:

Entity 1, SWIRM domain 124 residues - 13710.63 Da.

1   GLYSERSERGLYSERSERGLYGLUGLUPRO
2   SERGLYVALGLUGLYALAALAPHEGLNSER
3   ARGLEUPROHISASPARGMETTHRSERGLN
4   GLUALAALACYSPHEPROASPILEILESER
5   GLYPROGLNGLNTHRGLNLYSVALPHELEU
6   PHEILEARGASNARGTHRLEUGLNLEUTRP
7   LEUASPASNPROLYSILEGLNLEUTHRPHE
8   GLUALATHRLEUGLNGLNLEUGLUALAPRO
9   TYRASNSERASPTHRVALLEUVALHISARG
10   VALHISSERTYRLEUGLUARGHISGLYLEU
11   ILEASNPHEGLYILETYRLYSARGILELYS
12   PROLEUPROTHRLYSLYSTHRGLYSERGLY
13   PROSERSERGLY

Samples:

sample_1: SWIRM domain, [U-13C, U-15N], 1.2 mM; D-Tris 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; D2O 10%; H2O 90%

condition_1: ionic strength: 0.12 M; pH: 7.0; pressure: 1 atm; temperature: 296 K

Experiments:

NameSampleSample stateSample conditions
3D_13C-separated_NOESYsample_1not availablecondition_1
3D_15N-separated_NOESYsample_1not availablecondition_1

Software:

xwinnmr v2.6, Bruker - collection

NMRPipe v20031121 - processing

NMRView v5.0.4 - data analysis

Kujira v0.8994 - data analysis

CYANA v2.0.17 - refinement, structure solution

NMR spectrometers:

  • Bruker AVANCE 800 MHz

Related Database Links:

BMRB 17171
PDB
DBJ BAA25527 BAC97980 BAF83017 BAG09773
EMBL CAH90077
GB AAH16639 AAH48134 AAI51757 ABX10191 AIC62107
REF NP_055828 NP_598633 XP_002685763 XP_003271633 XP_003415419
SP O60341 Q6ZQ88
TPG DAA32188
AlphaFold O60341 Q6ZQ88

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