BMRB: 11289

Solution structure of the LIM domain of human Leupaxin

Authors

Yoneyama, M., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Assembly

Leupaxin

Entity

1. LIM domain (polymer, Thiol state: all other bound), 80 monomers, 8690.585 Da Detail

GSSGSSGKDF LAMFSPKCGG CNRPVLENYL SAMDTVWHPE CFVCGDCFTS FSTGSFFELD GRPFCELHYH HRRGSGPSSG

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

8821.403 Da

Max. entity weight

8690.585 Da

Entity Connection

na 8 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS18:SG	2:ZN1:ZN
2	na	sing	1:CYS21:SG	2:ZN1:ZN
3	na	sing	1:HIS38:ND1	2:ZN1:ZN
4	na	sing	1:CYS41:SG	2:ZN1:ZN
5	na	sing	1:CYS44:SG	2:ZN1:ZN
6	na	sing	1:CYS47:SG	2:ZN1:ZN
7	na	sing	1:CYS65:SG	2:ZN1:ZN
8	na	sing	1:HIS68:ND1	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

TORSION ANGLE DYNAMICS

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 93.8 %, Completeness: 92.7 %, Completeness (bb): 91.7 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	92.7 % (812 of 876)	92.0 % (416 of 452)	93.9 % (325 of 346)	91.0 % (71 of 78)
Backbone	91.7 % (431 of 470)	88.6 % (147 of 166)	94.3 % (216 of 229)	90.7 % (68 of 75)
Sidechain	94.1 % (447 of 475)	94.1 % (269 of 286)	94.1 % (175 of 186)	100.0 % (3 of 3)
Aromatic	87.9 % (109 of 124)	88.7 % (55 of 62)	86.9 % (53 of 61)	100.0 % (1 of 1)
Methyl	100.0 % (42 of 42)	100.0 % (21 of 21)	100.0 % (21 of 21)

1. LIM domain

GSSGSSGKDF LAMFSPKCGG CNRPVLENYL SAMDTVWHPE CFVCGDCFTS FSTGSFFELD GRPFCELHYH HRRGSGPSSG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05), Details 1.06mM LIM domain U-15N, {13C;} 20mM {d-Tris-HCl;} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 0.05mM {ZnCl2;} 10%D2O

#	Name	Isotope labeling	Type	Concentration
1	LIM domain	[U-13C; U-15N]	protein	1.06 mM
2	d-Tris-HCl	natural abundance	buffer	20 mM
3	NaCl	natural abundance	salt	100 mM
4	d-DTT	natural abundance	salt	1 mM
5	NaN3	natural abundance	salt	0.02 %
6	ZnCl2	natural abundance	salt	0.05 mM
7	H2O		solvent	90 %
8	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: 0.07 ppm, Outliers: 2 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	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: 0.07 ppm, Outliers: 2 Detail

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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	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; HA

Referencing offset: 0.01 ppm, Outliers: 1 Detail

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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	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CO

Referencing offset: 0.5 ppm, Outliers: 3 Detail

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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	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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Protein Blocks Logo

Calculated from 20 models in PDB: 1X3H, Strand ID: A Detail

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Release date

2011-08-17

Citation

Solution structure of the LIM domain of human Leupaxin
Yoneyama, M., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Related entities 1. LIM domain, : 1 : 120 entities Detail

Interaction partners 1. LIM domain, : 30 interactors Detail

Experiments performed 2 experiments Detail