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Solution Structure of the binary complex between the SH3 and SH2 domain of interleukin-2 tyrosine kinase
Authors
Andreotti, A.H., Severin, A.J., Fulton, D.B.
Assembly
Itk SH3 and Itk SH2 domains
Entity
1. Itk SH3 domain (polymer, Thiol state: all free), 64 monomers, 7463.988 Da Detail

GSPEETLVIA LYDYQTNDPQ ELALRCDEEY YLLDSSEIHW WRVQDKNGHE GYAPSSYLVE KSPN


2. Itk SH2 domain (polymer, Thiol state: all free), 117 monomers, 13422.99 Da Detail

GSNNLETYEW YNKSISRDKA EKLLLDTGKE GAFMVRDSRT PGTYTVSVFT KAIISENPCI KHYHIKETND SPKRYYVAEK YVFDSIPLLI QYHQYNGGGL VTRLRYPVCG SPGIHRD


Total weight
20886.979 Da
Max. entity weight
13422.99 Da
Source organism
Mus musculus
Exptl. method
solution NMR
Refine. method
simulated annealing
Data set
assigned_chemical_shifts
Chem. Shift Complete1
Sequence coverage: 72.4 %, Completeness: 64.7 %, Completeness (bb): 69.6 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All64.7 % (1381 of 2134)64.0 % (711 of 1111)64.9 % (542 of 835)68.1 % (128 of 188)
Backbone69.6 % (742 of 1066)70.3 % (256 of 364)69.1 % (367 of 531)69.6 % (119 of 171)
Sidechain61.3 % (758 of 1237)60.9 % (455 of 747)62.2 % (294 of 473)52.9 % (9 of 17)
Aromatic47.7 % (104 of 218)62.4 % (68 of 109)33.0 % (35 of 106)33.3 % (1 of 3)
Methyl66.7 % (116 of 174)66.7 % (58 of 87)66.7 % (58 of 87)

1. Itk SH3 domain

GSPEETLVIA LYDYQTNDPQ ELALRCDEEY YLLDSSEIHW WRVQDKNGHE GYAPSSYLVE KSPN

2. Itk SH2 domain

GSNNLETYEW YNKSISRDKA EKLLLDTGKE GAFMVRDSRT PGTYTVSVFT KAIISENPCI KHYHIKETND SPKRYYVAEK YVFDSIPLLI QYHQYNGGGL VTRLRYPVCG SPGIHRD

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
1Itk SH3 domain[U-100% 13C; U-100% 15N]3.4 mM
2Itk SH2 domainnatural abundance1.5 mM
3D2Onatural abundance5 %
4H2Onatural abundance95 %
Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
5Itk SH2 domain[U-100% 13C; U-100% 15N]3.4 mM
6Itk SH3 domainnatural abundance1.5 mM
7D2Onatural abundance5 %
8H2Onatural abundance95 %
Sample #3

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
9Itk SH2 domain[U-100% 13C; U-100% 15N]1.5 mM
10Itk SH3 domainnatural abundance3.4 mM
11D2Onatural abundance5 %
12H2Onatural abundance95 %
Sample #4

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
13Itk SH3 domain[U-100% 13C; U-100% 15N]1.5 mM
14Itk SH2 domainnatural abundance3.4 mM
15D2Onatural abundance5 %
16H2Onatural abundance95 %

Chem. Shift Complete2
Sequence coverage: 60.8 %, Completeness: 56.4 %, Completeness (bb): 62.7 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All56.4 % (2408 of 4268)54.9 % (1220 of 2222)56.8 % (948 of 1670)63.8 % (240 of 376)
Backbone62.7 % (1336 of 2132)63.5 % (462 of 728)61.4 % (652 of 1062)64.9 % (222 of 342)
Sidechain52.0 % (1287 of 2474)50.7 % (758 of 1494)54.0 % (511 of 946)52.9 % (18 of 34)
Aromatic34.9 % (152 of 436)43.1 % (94 of 218)25.9 % (55 of 212)50.0 % (3 of 6)
Methyl60.3 % (210 of 348)59.8 % (104 of 174)60.9 % (106 of 174)

1. Itk SH3 domain

GSPEETLVIA LYDYQTNDPQ ELALRCDEEY YLLDSSEIHW WRVQDKNGHE GYAPSSYLVE KSPN

2. Itk SH2 domain

GSNNLETYEW YNKSISRDKA EKLLLDTGKE GAFMVRDSRT PGTYTVSVFT KAIISENPCI KHYHIKETND SPKRYYVAEK YVFDSIPLLI QYHQYNGGGL VTRLRYPVCG SPGIHRD

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
1Itk SH3 domain[U-100% 13C; U-100% 15N]3.4 mM
2Itk SH2 domainnatural abundance1.5 mM
3D2Onatural abundance5 %
4H2Onatural abundance95 %
Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
5Itk SH2 domain[U-100% 13C; U-100% 15N]3.4 mM
6Itk SH3 domainnatural abundance1.5 mM
7D2Onatural abundance5 %
8H2Onatural abundance95 %
Sample #3

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
9Itk SH2 domain[U-100% 13C; U-100% 15N]1.5 mM
10Itk SH3 domainnatural abundance3.4 mM
11D2Onatural abundance5 %
12H2Onatural abundance95 %
Sample #4

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
13Itk SH3 domain[U-100% 13C; U-100% 15N]1.5 mM
14Itk SH2 domainnatural abundance3.4 mM
15D2Onatural abundance5 %
16H2Onatural abundance95 %

Chem. Shift Complete3
Sequence coverage: 73.5 %, Completeness: 58.3 %, Completeness (bb): 63.0 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All58.3 % (3732 of 6402)57.7 % (1923 of 3333)57.2 % (1434 of 2505)66.5 % (375 of 564)
Backbone63.0 % (2016 of 3198)66.2 % (723 of 1092)59.4 % (946 of 1593)67.6 % (347 of 513)
Sidechain55.3 % (2054 of 3711)53.5 % (1200 of 2241)58.2 % (826 of 1419)54.9 % (28 of 51)
Aromatic41.1 % (269 of 654)50.2 % (164 of 327)31.8 % (101 of 318)44.4 % (4 of 9)
Methyl64.9 % (339 of 522)64.4 % (168 of 261)65.5 % (171 of 261)

1. Itk SH3 domain

GSPEETLVIA LYDYQTNDPQ ELALRCDEEY YLLDSSEIHW WRVQDKNGHE GYAPSSYLVE KSPN

2. Itk SH2 domain

GSNNLETYEW YNKSISRDKA EKLLLDTGKE GAFMVRDSRT PGTYTVSVFT KAIISENPCI KHYHIKETND SPKRYYVAEK YVFDSIPLLI QYHQYNGGGL VTRLRYPVCG SPGIHRD

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
1Itk SH3 domain[U-100% 13C; U-100% 15N]3.4 mM
2Itk SH2 domainnatural abundance1.5 mM
3D2Onatural abundance5 %
4H2Onatural abundance95 %
Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
5Itk SH2 domain[U-100% 13C; U-100% 15N]3.4 mM
6Itk SH3 domainnatural abundance1.5 mM
7D2Onatural abundance5 %
8H2Onatural abundance95 %
Sample #3

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
9Itk SH2 domain[U-100% 13C; U-100% 15N]1.5 mM
10Itk SH3 domainnatural abundance3.4 mM
11D2Onatural abundance5 %
12H2Onatural abundance95 %
Sample #4

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
13Itk SH3 domain[U-100% 13C; U-100% 15N]1.5 mM
14Itk SH2 domainnatural abundance3.4 mM
15D2Onatural abundance5 %
16H2Onatural abundance95 %

Chem. Shift Complete4
Sequence coverage: 52.5 %, Completeness: 53.9 %, Completeness (bb): 59.5 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All53.9 % (4603 of 8536)52.6 % (2338 of 4444)53.7 % (1795 of 3340)62.5 % (470 of 752)
Backbone59.5 % (2537 of 4264)61.5 % (895 of 1456)56.9 % (1209 of 2124)63.3 % (433 of 684)
Sidechain50.1 % (2477 of 4948)48.1 % (1438 of 2988)53.0 % (1003 of 1892)52.9 % (36 of 68)
Aromatic35.0 % (305 of 872)42.2 % (184 of 436)27.1 % (115 of 424)50.0 % (6 of 12)
Methyl60.6 % (422 of 696)60.1 % (209 of 348)61.2 % (213 of 348)

1. Itk SH3 domain

GSPEETLVIA LYDYQTNDPQ ELALRCDEEY YLLDSSEIHW WRVQDKNGHE GYAPSSYLVE KSPN

2. Itk SH2 domain

GSNNLETYEW YNKSISRDKA EKLLLDTGKE GAFMVRDSRT PGTYTVSVFT KAIISENPCI KHYHIKETND SPKRYYVAEK YVFDSIPLLI QYHQYNGGGL VTRLRYPVCG SPGIHRD

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
1Itk SH3 domain[U-100% 13C; U-100% 15N]3.4 mM
2Itk SH2 domainnatural abundance1.5 mM
3D2Onatural abundance5 %
4H2Onatural abundance95 %
Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
5Itk SH2 domain[U-100% 13C; U-100% 15N]3.4 mM
6Itk SH3 domainnatural abundance1.5 mM
7D2Onatural abundance5 %
8H2Onatural abundance95 %
Sample #3

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
9Itk SH2 domain[U-100% 13C; U-100% 15N]1.5 mM
10Itk SH3 domainnatural abundance3.4 mM
11D2Onatural abundance5 %
12H2Onatural abundance95 %
Sample #4

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4


#NameIsotope labelingTypeConcentration
13Itk SH3 domain[U-100% 13C; U-100% 15N]1.5 mM
14Itk SH2 domainnatural abundance3.4 mM
15D2Onatural abundance5 %
16H2Onatural abundance95 %

LACS Plot; CA
Referencing offset: 2.38 ppm, Outliers: 1 Detail
LACS Plot; CB
Referencing offset: 2.38 ppm, Outliers: 1 Detail
LACS Plot; HA
Referencing offset: 0.07 ppm, Outliers: 2 Detail
LACS Plot; CO
Referencing offset: 3.15 ppm, Outliers: 2 Detail
Protein Blocks Logo
Calculated from 1 models in PDB: 2K79, Strand ID: A, B Detail


Release date
2009-05-17
Citation
Proline isomerization preorganizes the Itk SH2 domain for binding to the Itk SH3 domain
Severin, A.J., Joseph, R.E., Boyken, S.E., Fulton, D.B., Andreotti, A.H.
J. Mol. Biol. (2009), 387, 726-743, PubMed 19361414 , DOI 10.1016/j.jmb.2009.02.012 ,
Related entities 1. Itk SH3 domain, : 1 : 2 : 5 : 294 entities Detail
Related entities 2. Itk SH2 domain, : 1 : 9 : 196 entities Detail
Interaction partners 1. Itk SH3 domain, : 7 interactors Detail
Experiments performed 65 experiments Detail
NMR combined restraints 8 contents Detail
Keywords binary complex, cis/trans, isomerization, novel, proline, SH2, SH3