BMRB Entry 19410

Name: Conformation and dynamics of the periplasmic membrane-protein chaperone complexes OmpX Skp and tOmpA Skp
Published: 2013-09-10

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR19410

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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Conformation and dynamics of the periplasmic membrane-protein chaperone complexes OmpX Skp and tOmpA Skp

Deposition date:

2013-08-03

Original release date:

2013-09-10

Authors:

Burmann, Bjoern; Wang, Congwei; Hiller, Sebastian

Citation:

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).
PubMed: 24077225

Assembly members:

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:

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

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET28B-tOmpA

Entity Sequences (FASTA):

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:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	424
15N chemical shifts	167
1H chemical shifts	167

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	tOmpA	1
2	Skp, chain 1	2
3	Skp, chain 2	2
4	Skp, chain 3	2

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

MET

ALA

PRO

LYS

ASP

ASN

THR

TRP

TYR

THR

2

GLY

ALA

LYS

LEU

GLY

TRP

SER

GLN

TYR

HIS

3

ASP

THR

GLY

PHE

ILE

ASN

GLY

PRO

4

THR

HIS

GLU

ASN

GLN

LEU

GLY

ALA

GLY

ALA

5

PHE

GLY

TYR

GLN

VAL

ASN

PRO

TYR

VAL

6

GLY

PHE

GLU

MET

GLY

TYR

ASP

TRP

LEU

GLY

7

ARG

MET

PRO

TYR

LYS

GLY

SER

VAL

GLU

ASN

8

GLY

ALA

TYR

LYS

ALA

GLN

GLY

VAL

GLN

LEU

9

THR

ALA

LYS

LEU

GLY

TYR

PRO

ILE

THR

ASP

10

ASP

LEU

ASP

ILE

TYR

THR

ARG

LEU

GLY

11

MET

VAL

TRP

ARG

ALA

ASP

THR

LYS

SER

ASN

12

VAL

TYR

GLY

LYS

ASN

HIS

ASP

THR

GLY

VAL

13

SER

PRO

VAL

PHE

ALA

GLY

VAL

GLU

TYR

14

ALA

ILE

THR

PRO

GLU

ILE

ALA

THR

ARG

LEU

15

GLU

TYR

GLN

TRP

THR

ASN

ILE

GLY

ASP

16

ALA

HIS

THR

ILE

GLY

THR

ARG

PRO

ASP

ASN

17

GLY

MET

LEU

SER

LEU

GLY

VAL

SER

TYR

ARG

18

PHE

GLY

GLN

GLY

GLU

ALA

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

MET

GLY

SER

HIS

2

SER

GLY

LEU

VAL

PRO

ARG

GLY

SER

HIS

3

MET

ALA

ASP

LYS

ILE

ALA

ILE

VAL

ASN

MET

4

GLY

SER

LEU

PHE

GLN

VAL

ALA

GLN

LYS

5

THR

GLY

VAL

SER

ASN

THR

LEU

GLU

ASN

GLU

6

PHE

LYS

GLY

ARG

ALA

SER

GLU

LEU

GLN

ARG

7

MET

GLU

THR

ASP

LEU

GLN

ALA

LYS

MET

LYS

8

LYS

LEU

GLN

SER

MET

LYS

ALA

GLY

SER

ASP

9

ARG

THR

LYS

LEU

GLU

LYS

ASP

VAL

MET

ALA

10

GLN

ARG

GLN

THR

PHE

ALA

GLN

LYS

ALA

GLN

11

ALA

PHE

GLU

GLN

ASP

ARG

ALA

ARG

SER

12

ASN

GLU

ARG

GLY

LYS

LEU

VAL

THR

ARG

13

ILE

GLN

THR

ALA

VAL

LYS

SER

VAL

ALA

ASN

14

SER

GLN

ASP

ILE

ASP

LEU

VAL

ASP

ALA

15

ASN

ALA

VAL

ALA

TYR

ASN

SER

ASP

VAL

16

LYS

ASP

ILE

THR

ALA

ASP

VAL

LEU

LYS

GLN

17

VAL

LYS

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:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HN(CA)CO	sample_1	isotropic	sample_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

UNP	P0A910 P0AEU7
BMRB	19940
PDB	1BXW 1G90 1QJP 2GE4 3NB3
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
AlphaFold	P02934 P11457 P0A910 P0A911