BMRB: 6609

Solution structure of the ubiquitin-like domain of human DC-UBP from dendritic cells

Authors

Gao, Y., Song, A., Shi, Y., Chang, Y., Lin, D., Hu, H.

Assembly

dendritic cell-derived ubiquitin-like protein

Entity

1. dendritic cell-derived ubiquitin-like protein (polymer, Thiol state: all free), 114 monomers, 13228.91 Da Detail

MIEEKSDIET LDIPEPPPNS GYECQLRLRL STGKDLKLVV RSTDTVFHMK RRLHAAEGVE PGSQRWFFSG RPLTDKMKFE ELKIPKDYVV QVIVSQPVQN PTPVENLEHH HHHH

Formula weight

13228.91 Da

Source organism

Homo sapiens

Exptl. method

NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 79.8 %, Completeness: 43.6 %, Completeness (bb): 63.7 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	43.6 % (599 of 1374)	43.8 % (317 of 724)	36.3 % (195 of 537)	77.0 % (87 of 113)
Backbone	63.7 % (423 of 664)	74.4 % (166 of 223)	50.4 % (170 of 337)	83.7 % (87 of 104)
Sidechain	30.8 % (252 of 819)	30.1 % (151 of 501)	32.7 % (101 of 309)	0.0 % (0 of 9)
Aromatic	5.0 % (5 of 100)	10.0 % (5 of 50)	0.0 % (0 of 49)	0.0 % (0 of 1)
Methyl	39.7 % (46 of 116)	48.3 % (28 of 58)	31.0 % (18 of 58)

1. dendritic cell-derived ubiquitin-like protein

MIEEKSDIET LDIPEPPPNS GYECQLRLRL STGKDLKLVV RSTDTVFHMK RRLHAAEGVE PGSQRWFFSG RPLTDKMKFE ELKIPKDYVV QVIVSQPVQN PTPVENLEHH HHHH

Show sample condition

Sample

Temperature 298 (±1) K, pH 5.6 (±0.2)

#	Name	Isotope labeling	Type	Concentration
1	dendritic cell-derived ubiquitin-like protein	[U-15N]		1.2 mM
2	NaAc			10 mM
3	NaCl			100 mM
4	DTT			5 mM
5	sodium azide			0.02 %
6	H2O			92 %
7	D2O			8 %

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LACS Plot; CA

Referencing offset: -0.02 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
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495

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LACS Plot; CB

Referencing offset: -0.02 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
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495

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LACS Plot; HA

Referencing offset: -0.1 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
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495

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Protein Blocks Logo

Calculated from 15 models in PDB: 1TTN, Strand ID: A Detail

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Release date

2005-09-21

Citation

Solution structure of the ubiquitin-like domain of human DC-UbP from dendritic cells
Gao, Y., Song, A., Shi, Y., Chang, Y., Liu, S., Yu, Y., Cao, X., Lin, D., Hu, H.
Protein Sci. (2005), 14, 2044-2050, PubMed 15987890 , DOI 10.1110/ps.051455505 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Related entities 1. dendritic cell-derived ubiquitin-like protein, : 1 : 2 : 11 entities Detail

Experiments performed 3 experiments Detail