BMRB: 11131

Solution structure of the FYVE domain from human FYVE domain containing 27 isoform b protein

Authors

Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Assembly

Zinc finger, FYVE domain containing 27 isoform b

Entity

1. FYVE domain (polymer, Thiol state: free and other bound), 84 monomers, 8651.599 Da Detail

GSSGSSGRYP TNNFGNCTGC SATFSVLKKR RSCSNCGNSF CSRCCSFKVP KSSMGATAPE AQRETVFVCA SCNQTLSKSG PSSG

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

8782.417 Da

Max. entity weight

8651.599 Da

Entity Connection

na 8 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS17:SG	2:ZN1:ZN
2	na	sing	1:CYS20:SG	2:ZN1:ZN
3	na	sing	1:CYS41:SG	2:ZN1:ZN
4	na	sing	1:CYS44:SG	2:ZN1:ZN
5	na	sing	1:CYS33:SG	2:ZN1:ZN
6	na	sing	1:CYS36:SG	2:ZN1:ZN
7	na	sing	1:CYS69:SG	2:ZN1:ZN
8	na	sing	1:CYS72:SG	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics, restrainted molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 95.2 %, Completeness: 88.6 %, Completeness (bb): 88.1 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	88.6 % (774 of 874)	85.5 % (389 of 455)	92.4 % (306 of 331)	89.8 % (79 of 88)
Backbone	88.1 % (437 of 496)	84.4 % (146 of 173)	90.5 % (220 of 243)	88.7 % (71 of 80)
Sidechain	89.6 % (406 of 453)	86.2 % (243 of 282)	95.1 % (155 of 163)	100.0 % (8 of 8)
Aromatic	96.6 % (56 of 58)	100.0 % (29 of 29)	93.1 % (27 of 29)
Methyl	100.0 % (46 of 46)	100.0 % (23 of 23)	100.0 % (23 of 23)

1. FYVE domain

GSSGSSGRYP TNNFGNCTGC SATFSVLKKR RSCSNCGNSF CSRCCSFKVP KSSMGATAPE AQRETVFVCA SCNQTLSKSG PSSG

Show sample condition

Sample

Solvent system 90% H2O, 10% D2O, Pressure 1 (±0.001) atm, Temperature 298 (±0.1) K, pH 7.0 (±0.05), Details 1.83mM zf-AN1 domain {U-15N,13C;} 20mM d-Tris-HCl(pH {7.0);} 100mM {NaCl;} 1mM {d-DTT;} 50uM {EDTA-2ZN;} 0.02% {NaN3;} 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	zf-AN1 domain	[U-13C; U-15N]	protein	1.83 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	ZnCl2	natural abundance	salt	0.25 mM
6	IDA	natural abundance	salt	1 mM
7	NaN3	natural abundance	salt	0.02 %
8	H2O		solvent	90 %
9	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: 2.2 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	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: 2.2 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; HA

Referencing offset: 0.11 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; CO

Referencing offset: 2.48 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: 1X4U, Strand ID: A Detail

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Release date

2011-03-31

Citation

Solution structure of the FYVE domain from human FYVE domain containing 27 isoform b protein
Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. FYVE domain, : 1 : 3 : 67 entities Detail

Interaction partners 1. FYVE domain, : 6 interactors Detail

Experiments performed 2 experiments Detail