Search

The structure of chaperone SecB in complex with unstructured proPhoA
Authors
Huang, C., Saio, T., Rossi, P., Kalodimos, C.G.
Assembly
Protein-export protein SecB, Alkaline phosphatase (E.C.3.1.3.1)
Entity
1. Protein-export protein SecB (polymer), 155 monomers, 17277.16 × 4 Da Detail

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA


2. Alkaline phosphatase (polymer), 471 monomers, 49437.97 Da Detail

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K


Total weight
118546.61 Da
Max. entity weight
49437.97 Da
Source organism
Escherichia coli O157:H7 , Escherichia coli K-12
Exptl. method
solution NMR
Refine. method
molecular dynamics
Data set
assigned_chemical_shifts
Chem. Shift Complete1
Sequence coverage: 49.0 %, Completeness: 32.4 %, Completeness (bb): 40.7 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All32.4 % (2237 of 6896)27.3 % (969 of 3546)36.7 % (986 of 2686)42.5 % (282 of 664)
Backbone40.7 % (1505 of 3696)35.5 % (453 of 1276)42.5 % (775 of 1824)46.5 % (277 of 596)
Sidechain26.1 % (983 of 3772)22.8 % (517 of 2270)32.1 % (461 of 1434) 7.4 % (5 of 68)
Aromatic23.8 % (97 of 408)26.0 % (53 of 204)21.5 % (43 of 200)25.0 % (1 of 4)
Methyl37.9 % (277 of 730)37.3 % (136 of 365)38.6 % (141 of 365)

1. Protein-export protein SecB

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA

2. Alkaline phosphatase

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 301 K, pH 7, Details 300 uM [U-100% 13C; U-100% 15N] E.coli Chaperone SecB, 300 uM [U-100% 13C; U-100% 15N] E. Coli Alkaline Phosphatase (PhoA), 150 mM potassium chloride, 50 mM sodium phosphate, 50 mM potassium phosphate, 90% H2O/10% D2O


#NameIsotope labelingTypeConcentration
1E. Coli Alkaline Phosphatase (PhoA)[U-100% 13C; U-100% 15N]300 uM
2E.coli Chaperone SecB[U-100% 13C; U-100% 15N]300 uM
3potassium chloridenatural abundance150 mM
4potassium phosphatenatural abundance50 mM
5sodium phosphatenatural abundance50 mM
6H2Onatural abundance90 %
7D2Onatural abundance10 %

Chem. Shift Complete2
Sequence coverage: 53.4 %, Completeness: 34.4 %, Completeness (bb): 42.3 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All34.4 % (4748 of 13792)29.6 % (2101 of 7092)38.4 % (2062 of 5372)44.1 % (585 of 1328)
Backbone42.3 % (3128 of 7392)37.1 % (948 of 2552)44.1 % (1609 of 3648)47.9 % (571 of 1192)
Sidechain28.6 % (2155 of 7544)25.4 % (1155 of 4540)34.4 % (986 of 2868)10.3 % (14 of 136)
Aromatic25.0 % (204 of 816)28.9 % (118 of 408)21.0 % (84 of 400)25.0 % (2 of 8)
Methyl40.7 % (594 of 1460)40.3 % (294 of 730)41.1 % (300 of 730)

1. Protein-export protein SecB

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA

2. Alkaline phosphatase

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 301 K, pH 7, Details 300 uM [U-100% 13C; U-100% 15N] E.coli Chaperone SecB, 300 uM [U-100% 13C; U-100% 15N] E. Coli Alkaline Phosphatase (PhoA), 150 mM potassium chloride, 50 mM sodium phosphate, 50 mM potassium phosphate, 90% H2O/10% D2O


#NameIsotope labelingTypeConcentration
1E. Coli Alkaline Phosphatase (PhoA)[U-100% 13C; U-100% 15N]300 uM
2E.coli Chaperone SecB[U-100% 13C; U-100% 15N]300 uM
3potassium chloridenatural abundance150 mM
4potassium phosphatenatural abundance50 mM
5sodium phosphatenatural abundance50 mM
6H2Onatural abundance90 %
7D2Onatural abundance10 %

Chem. Shift Complete3
Sequence coverage: 45.8 %, Completeness: 33.8 %, Completeness (bb): 41.0 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All33.8 % (6986 of 20688)28.9 % (3079 of 10638)37.9 % (3054 of 8058)42.8 % (853 of 1992)
Backbone41.0 % (4548 of 11088)35.7 % (1368 of 3828)43.0 % (2354 of 5472)46.2 % (826 of 1788)
Sidechain28.3 % (3207 of 11316)25.1 % (1711 of 6810)34.1 % (1469 of 4302)13.2 % (27 of 204)
Aromatic27.4 % (335 of 1224)31.0 % (190 of 612)23.7 % (142 of 600)25.0 % (3 of 12)
Methyl39.6 % (867 of 2190)39.1 % (428 of 1095)40.1 % (439 of 1095)

1. Protein-export protein SecB

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA

2. Alkaline phosphatase

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 301 K, pH 7, Details 300 uM [U-100% 13C; U-100% 15N] E.coli Chaperone SecB, 300 uM [U-100% 13C; U-100% 15N] E. Coli Alkaline Phosphatase (PhoA), 150 mM potassium chloride, 50 mM sodium phosphate, 50 mM potassium phosphate, 90% H2O/10% D2O


#NameIsotope labelingTypeConcentration
1E. Coli Alkaline Phosphatase (PhoA)[U-100% 13C; U-100% 15N]300 uM
2E.coli Chaperone SecB[U-100% 13C; U-100% 15N]300 uM
3potassium chloridenatural abundance150 mM
4potassium phosphatenatural abundance50 mM
5sodium phosphatenatural abundance50 mM
6H2Onatural abundance90 %
7D2Onatural abundance10 %

Chem. Shift Complete4
Sequence coverage: 51.6 %, Completeness: 34.4 %, Completeness (bb): 41.6 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All34.4 % (9486 of 27584)29.7 % (4216 of 14184)38.3 % (4115 of 10744)43.5 % (1155 of 2656)
Backbone41.6 % (6147 of 14784)36.5 % (1864 of 5104)43.4 % (3165 of 7296)46.9 % (1118 of 2384)
Sidechain29.0 % (4370 of 15088)25.9 % (2352 of 9080)34.5 % (1981 of 5736)13.6 % (37 of 272)
Aromatic29.1 % (475 of 1632)33.0 % (269 of 816)25.2 % (202 of 800)25.0 % (4 of 16)
Methyl40.2 % (1173 of 2920)39.9 % (583 of 1460)40.4 % (590 of 1460)

1. Protein-export protein SecB

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA

2. Alkaline phosphatase

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 301 K, pH 7, Details 300 uM [U-100% 13C; U-100% 15N] E.coli Chaperone SecB, 300 uM [U-100% 13C; U-100% 15N] E. Coli Alkaline Phosphatase (PhoA), 150 mM potassium chloride, 50 mM sodium phosphate, 50 mM potassium phosphate, 90% H2O/10% D2O


#NameIsotope labelingTypeConcentration
1E. Coli Alkaline Phosphatase (PhoA)[U-100% 13C; U-100% 15N]300 uM
2E.coli Chaperone SecB[U-100% 13C; U-100% 15N]300 uM
3potassium chloridenatural abundance150 mM
4potassium phosphatenatural abundance50 mM
5sodium phosphatenatural abundance50 mM
6H2Onatural abundance90 %
7D2Onatural abundance10 %

Chem. Shift Complete5
Sequence coverage: 79.1 %, Completeness: 36.2 %, Completeness (bb): 45.2 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All36.2 % (12472 of 34480)30.6 % (5423 of 17730)40.4 % (5429 of 13430)48.8 % (1620 of 3320)
Backbone45.2 % (8357 of 18480)39.7 % (2532 of 6380)46.6 % (4254 of 9120)52.7 % (1571 of 2980)
Sidechain29.5 % (5568 of 18860)25.5 % (2893 of 11350)36.6 % (2626 of 7170)14.4 % (49 of 340)
Aromatic28.0 % (571 of 2040)32.0 % (326 of 1020)23.9 % (239 of 1000)30.0 % (6 of 20)
Methyl40.8 % (1489 of 3650)39.7 % (724 of 1825)41.9 % (765 of 1825)

1. Protein-export protein SecB

MSEQNNTEMT FQIQRIYTKD ISFEAPNAPH VFQKDWQPEV KLDLDTASSQ LADDVYEVVL RVTVTASLGE ETAFLCEVQQ GGIFSIAGIE GTQMAHCLGA YCPNILFPYA RECITSMVSR GTFPQLNLAP VNFDALFMNY LQQQAGEGTE EHQDA

2. Alkaline phosphatase

MKQSTIALAL LPLLFTPVTK ARTPEMPVLE NRAAQGDITA PGGARRLTGD QTAALRDSLS DKPAKNIILL IGDGMGDSEI TAARNYAEGA GGFFKGIDAL PLTGQYTHYA LNKKTGKPDY VTDSAASATA WSTGVKTYNG ALGVDIHEKD HPTILEMAKA AGLATGNVST AELQDATPAA LVAHVTSRKC YGPSATSEKC PGNALEKGGK GSITEQLLNA RADVTLGGGA KTFAETATAG EWQGKTLREQ AQARGYQLVS DAASLNSVTE ANQQKPLLGL FADGNMPVRW LGPKATYHGN IDKPAVTCTP NPQRNDSVPT LAQMTDKAIE LLSKNEKGFF LQVEGASIDK QDHAANPCGQ IGETVDLDEA VQRALEFAKK EGNTLVIVTA DHAHASQIVA PDTKAPGLTQ ALNTKDGAVM VMSYGNSEED SQEHTGSQLR IAAYGPHAAN VVGLTDQTDL FYTMKAALGL K

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 301 K, pH 7, Details 300 uM [U-100% 13C; U-100% 15N] E.coli Chaperone SecB, 300 uM [U-100% 13C; U-100% 15N] E. Coli Alkaline Phosphatase (PhoA), 150 mM potassium chloride, 50 mM sodium phosphate, 50 mM potassium phosphate, 90% H2O/10% D2O


#NameIsotope labelingTypeConcentration
1E. Coli Alkaline Phosphatase (PhoA)[U-100% 13C; U-100% 15N]300 uM
2E.coli Chaperone SecB[U-100% 13C; U-100% 15N]300 uM
3potassium chloridenatural abundance150 mM
4potassium phosphatenatural abundance50 mM
5sodium phosphatenatural abundance50 mM
6H2Onatural abundance90 %
7D2Onatural abundance10 %

LACS Plot; CA
Referencing offset: -0.01 ppm, Outliers: 2 Detail
LACS Plot; CB
Referencing offset: -0.01 ppm, Outliers: 2 Detail
LACS Plot; HA
Referencing offset: 0.07 ppm, Outliers: 1 Detail
LACS Plot; CO
Referencing offset: 0.16 ppm, Outliers: 1 Detail
Protein Blocks Logo
Calculated from 20 models in PDB: 5JTL, Strand ID: A, B, C, D, E Detail


Release date
2016-08-17
Citation
Structural basis for the antifolding activity of a molecular chaperone
Huang, C., Saio, T., Rossi, P., Kalodimos, C.G.
Nature (2016), 537, 202-206, PubMed 27501151 , DOI 10.1038/nature18965 ,
Entries sharing articles BMRB: 6 entries Detail
  BMRB: 30081 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured PhoA binding site a
  BMRB: 30082 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured proPhoA binding site c
  BMRB: 30083 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured proPhoA binding site d
  BMRB: 30084 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured proPhoA binding site e
  BMRB: 30085 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured MBP binding site d
  BMRB: 30086 released on 2016-08-17
    Title The structure of chaperone SecB in complex with unstructured MBP binding site e
Related entities 1. Protein-export protein SecB, : 1 : 8 : 3 : 1 : 99 entities Detail
Related entities 2. Alkaline phosphatase, : 1 : 16 entities Detail
Experiments performed 6 experiments Detail
NMR combined restraints 8 contents Detail
Keywords molecular Chaperone