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BMRB: 18277

2LPU

Solution structures of KmAtg10

Authors

Yamaguchi, M., Noda, N.N., Yamamoto, H., Shima, T., Kumeta, H., Kobashigawa, Y., Akada, R., Ohsumi, Y., Inagaki, F.

Assembly

KmAtg10

Entity

1. KmAtg10 (polymer, Thiol state: all free), 148 monomers, 17396.57 Da Detail

SMLTLPEYNE QIPNVRSLLT KWAKVERIQD VQDGLQLDVR LKTDTLLELH IYYDHVYHVP SIKFRLWSLD TEEDISSLRL LTLSDSELRS ILNLGTFSVT LSTDMEMKSV YYYINNCDTD ANVGSDVEHY LTRWISLYIR IFDLNFVP

Formula weight

17396.57 Da

Source organism

Kluyveromyces marxianus

Exptl. method

solution NMR

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 97.3 %, Completeness (bb): 98.4 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	97.3 % (1738 of 1786)	99.1 % (910 of 918)	94.8 % (673 of 710)	98.1 % (155 of 158)
Backbone	98.4 % (866 of 880)	99.0 % (292 of 295)	98.2 % (433 of 441)	97.9 % (141 of 144)
Sidechain	96.8 % (1017 of 1051)	99.2 % (618 of 623)	93.0 % (385 of 414)	100.0 % (14 of 14)
Aromatic	84.1 % (138 of 164)	100.0 % (82 of 82)	67.1 % (53 of 79)	100.0 % (3 of 3)
Methyl	100.0 % (202 of 202)	100.0 % (101 of 101)	100.0 % (101 of 101)

1. entity

SMLTLPEYNE QIPNVRSLLT KWAKVERIQD VQDGLQLDVR LKTDTLLELH IYYDHVYHVP SIKFRLWSLD TEEDISSLRL LTLSDSELRS ILNLGTFSVT LSTDMEMKSV YYYINNCDTD ANVGSDVEHY LTRWISLYIR IFDLNFVP

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Concentration
1	KmAtg10	[U-99% 13C; U-99% 15N]	0.5 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM
4	DTT	natural abundance	5 mM
5	H20	natural abundance	90 %
6	D20	natural abundance	10 %

LACS Plot; CA

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

Referencing offset: -0.12 ppm, Outliers: 2 Detail

LACS Plot; CB

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

Referencing offset: -0.12 ppm, Outliers: 2 Detail

LACS Plot; HA

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

Referencing offset: -0.08 ppm, Outliers: 2 Detail

LACS Plot; CO

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

Referencing offset: 0.36 ppm, Outliers: 4 Detail

Protein Blocks Logo

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

Release date

2012-06-12

Citation

Structural insights into Atg10-mediated formation of the autophagy-essential Atg12-Atg5 conjugate
Yamaguchi, M., Noda, N.N., Yamamoto, H., Shima, T., Kumeta, H., Kobashigawa, Y., Akada, R., Ohsumi, Y., Inagaki, F.
Structure (2012), 20, 1244-1254, PubMed 22682742 , DOI 10.1016/j.str.2012.04.018 , Abstract

Related entities 1. KmAtg10, : 1 : 1 : 7 entities Detail

Experiments performed 18 experiments Detail

1 2D 1H-15N HSQC