BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 19410

Title: Conformation and dynamics of the periplasmic membrane-protein chaperone complexes OmpX Skp and tOmpA Skp   PubMed: 24077225

Authors: Burmann, Bjoern; Wang, Congwei; Hiller, Sebastian

Citation: Burmann, Bjoern; Wang, Congwei; Hiller, Sebastian. "Conformation and dynamics of the periplasmic membrane-protein-chaperone complexes OmpX-Skp and tOmpA-Skp"  Nat. Struct. Mol. Biol. 20, 1265-1272 (2013).

Assembly members:
Escherichia_Coli_tOmpA, polymer, 177 residues, Formula weight is not available
Escherichia_Coli_Skp, polymer, 162 residues, Formula weight is not available

Natural source:   Common Name: E. coli   Taxonomy ID: 562   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Escherichia coli

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
Escherichia_Coli_tOmpA: MAPKDNTWYTGAKLGWSQYH DTGFINNNGPTHENQLGAGA FGGYQVNPYVGFEMGYDWLG RMPYKGSVENGAYKAQGVQL TAKLGYPITDDLDIYTRLGG MVWRADTKSNVYGKNHDTGV SPVFAGGVEYAITPEIATRL EYQWTNNIGDAHTIGTRPDN GMLSLGVSYRFGQGEAA
Escherichia_Coli_Skp: MGSSHHHHHHSSGLVPRGSH MADKIAIVNMGSLFQQVAQK TGVSNTLENEFKGRASELQR METDLQAKMKKLQSMKAGSD RTKLEKDVMAQRQTFAQKAQ AFEQDRARRSNEERGKLVTR IQTAVKSVANSQDIDLVVDA NAVAYNSSDVKDITADVLKQ VK

Data sets:
Data typeCount
13C chemical shifts424
15N chemical shifts167
1H chemical shifts167

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1tOmpA1
2Skp, chain 12
3Skp, chain 22
4Skp, chain 32

Entities:

Entity 1, tOmpA 177 residues - Formula weight is not available

native processed transmembrane domain of E. coli OmpA (residues 22 - 197) + initiator methionine

1   METALAPROLYSASPASNTHRTRPTYRTHR
2   GLYALALYSLEUGLYTRPSERGLNTYRHIS
3   ASPTHRGLYPHEILEASNASNASNGLYPRO
4   THRHISGLUASNGLNLEUGLYALAGLYALA
5   PHEGLYGLYTYRGLNVALASNPROTYRVAL
6   GLYPHEGLUMETGLYTYRASPTRPLEUGLY
7   ARGMETPROTYRLYSGLYSERVALGLUASN
8   GLYALATYRLYSALAGLNGLYVALGLNLEU
9   THRALALYSLEUGLYTYRPROILETHRASP
10   ASPLEUASPILETYRTHRARGLEUGLYGLY
11   METVALTRPARGALAASPTHRLYSSERASN
12   VALTYRGLYLYSASNHISASPTHRGLYVAL
13   SERPROVALPHEALAGLYGLYVALGLUTYR
14   ALAILETHRPROGLUILEALATHRARGLEU
15   GLUTYRGLNTRPTHRASNASNILEGLYASP
16   ALAHISTHRILEGLYTHRARGPROASPASN
17   GLYMETLEUSERLEUGLYVALSERTYRARG
18   PHEGLYGLNGLYGLUALAALA

Entity 2, Skp, chain 1 162 residues - Formula weight is not available

native processed E. coli Skp (rseidues 21 - 162) + initiator methionine + hexa-histidin tag + thrombin cleavage site (coming from pET28b)

1   METGLYSERSERHISHISHISHISHISHIS
2   SERSERGLYLEUVALPROARGGLYSERHIS
3   METALAASPLYSILEALAILEVALASNMET
4   GLYSERLEUPHEGLNGLNVALALAGLNLYS
5   THRGLYVALSERASNTHRLEUGLUASNGLU
6   PHELYSGLYARGALASERGLULEUGLNARG
7   METGLUTHRASPLEUGLNALALYSMETLYS
8   LYSLEUGLNSERMETLYSALAGLYSERASP
9   ARGTHRLYSLEUGLULYSASPVALMETALA
10   GLNARGGLNTHRPHEALAGLNLYSALAGLN
11   ALAPHEGLUGLNASPARGALAARGARGSER
12   ASNGLUGLUARGGLYLYSLEUVALTHRARG
13   ILEGLNTHRALAVALLYSSERVALALAASN
14   SERGLNASPILEASPLEUVALVALASPALA
15   ASNALAVALALATYRASNSERSERASPVAL
16   LYSASPILETHRALAASPVALLEULYSGLN
17   VALLYS

Samples:

sample_1: Escherichia Coli tOmpA, [U-13C; U-15N; U-2H], 0.6 – 1.05 mM; Escherichia Coli Skp (trimer), [U-99% 2H], 0.6 – 1.05 mM; D2O 5%; MES 25 mM; NaCl 150 mM

sample_conditions_1: ionic strength: 0.150 M; pH: 6.5; pressure: 1 atm; temperature: 310 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D HN(CA)COsample_1isotropicsample_conditions_1

Software:

TOPSPIN v3.2, Bartels et al., Bruker Biospin, Guntert, Keller and Wuthrich - chemical shift assignment, collection, data analysis, processing

NMR spectrometers:

  • Bruker AscendII 700 MHz
  • Bruker Avance 800 MHz

Related Database Links:

UNP P0A910 P0AEU7
BMRB 19940
PDB
DBJ BAA35715 BAB34464 BAG76542 BAI24400 BAI29850
EMBL CAA23588 CAP75420 CAQ31485 CAR02310 CAR07182
GB AAC74043 AAF37887 AAG55443 AAP74759 AAT02227
REF NP_309068 NP_415477 WP_000315442 WP_000630860 WP_000750416
SP P0A910 P0A911