BMRB: 10011

SOLUTION STRUCTURE OF THE SWIRM DOMAIN OF HUMAN LSD1

Authors

Tochio, N., Umehara, T., Koshiba, S., Inoue, M., TANAKA, A., Kigawa, T., Yokoyama, S.

Assembly

the SWIRM domain of human LSD1

Entity

1. the SWIRM domain of human LSD1 (polymer, Thiol state: all free), 124 monomers, 13710.29 Da Detail

GSSGSSGEEP SGVEGAAFQS RLPHDRMTSQ EAACFPDIIS GPQQTQKVFL FIRNRTLQLW LDNPKIQLTF EATLQQLEAP YNSDTVLVHR VHSYLERHGL INFGIYKRIK PLPTKKTGSG PSSG

Formula weight

13710.29 Da

Source organism

Homo sapiens

Exptl. method

NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 94.4 %, Completeness: 93.4 %, Completeness (bb): 92.8 % Detail

Download

• NMR-STAR v3.1 (partial)
• BMRB/XML (partial)
• CSV
• TSV

Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	93.4 % (1348 of 1444)	92.3 % (698 of 756)	94.8 % (530 of 559)	93.0 % (120 of 129)
Backbone	92.8 % (674 of 726)	90.8 % (227 of 250)	94.5 % (341 of 361)	92.2 % (106 of 115)
Sidechain	94.1 % (782 of 831)	93.1 % (471 of 506)	95.5 % (297 of 311)	100.0 % (14 of 14)
Aromatic	93.8 % (105 of 112)	94.6 % (53 of 56)	92.7 % (51 of 55)	100.0 % (1 of 1)
Methyl	100.0 % (124 of 124)	100.0 % (62 of 62)	100.0 % (62 of 62)

1. SWIRM domain

GSSGSSGEEP SGVEGAAFQS RLPHDRMTSQ EAACFPDIIS GPQQTQKVFL FIRNRTLQLW LDNPKIQLTF EATLQQLEAP YNSDTVLVHR VHSYLERHGL INFGIYKRIK PLPTKKTGSG PSSG

Show sample condition

Sample

Pressure 1 (±0.03) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Type	Concentration
1	SWIRM domain	[U-13C, U-15N]	protein	1.2 mM
2	D-Tris		buffer	20 mM
3	NaCl		salt	100 mM
4	d-DTT		salt	1 mM
5	NaN3		salt	0.02 %
6	D2O		solvent	10 %
7	H2O		solvent	90 %

Hide sample codition

LACS Plot; CA

Referencing offset: -0.06 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

Hide chemical shift referencing parameters

LACS Plot; CB

Referencing offset: -0.06 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

Hide chemical shift referencing parameters

LACS Plot; HA

Referencing offset: 0.08 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

Hide chemical shift referencing parameters

LACS Plot; CO

Referencing offset: 0.07 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

Hide chemical shift referencing parameters

Protein Blocks Logo

Calculated from 20 models in PDB: 2COM, Strand ID: A Detail

---

Release date

2006-11-13

Citation

Solution structure of the SWIRM domain of human histone demethylase LSD1
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.
Structure (2006), 14, 457-468, PubMed 16531230 , DOI 10.1016/j.str.2005.12.004 , Abstract

Related entities 1. the SWIRM domain of human LSD1, : 1 : 73 : 31 entities Detail

Interaction partners 1. the SWIRM domain of human LSD1, : 249 interactors Detail

Experiments performed 2 experiments Detail