BMRB Entry 7261

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR7261
MolProbity Validation Chart

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Title:
Solution NMR structure of protein ykfF from Escherichia coli. Northeast Structural Genomics target ER397. (CASP Target)
Deposition date:
2006-08-10
Original release date:
2007-04-24
Authors:
Swapna, G.; Aramini, J.; Zhao, L.; Cunningham, K.; Janjua, H.; Ma, L.-C.; Xiao, R.; Baran, M.; Acton, T.; Liu, J.; Rost, B.; Montelione, G.
Citation:

Citation: Swapna, G.; Aramini, J.; Zhao, L.; Cunningham, K.; Janjua, H.; Ma, L.-C.; Xiao, R.; Baran, M.; Acton, T.; Liu, J.; Rost, B.; Montelione, G.. "Solution NMR structure of protein ykfF from Escherichia coli. Northeast Structural Genomics target ER397"  .

Assembly members:

Assembly members:
Hypothetical protein ykfF, polymer, 87 residues, Formula weight is not available

Natural source:

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

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Hypothetical protein ykfF: MTQSVLLPPGPFTRRQAQAV TTTYSNITLEDDQGSHFRLV VRDTEGRMVWRAWNFEPDAG EGLNRYIRTSGIRTDTATRL EHHHHHH

Data sets:
Data typeCount
13C chemical shifts349
15N chemical shifts95
1H chemical shifts568

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1Hypothetical protein ykfF1

Entities:

Entity 1, Hypothetical protein ykfF 87 residues - Formula weight is not available

1   METTHRGLNSERVALLEULEUPROPROGLY
2   PROPHETHRARGARGGLNALAGLNALAVAL
3   THRTHRTHRTYRSERASNILETHRLEUGLU
4   ASPASPGLNGLYSERHISPHEARGLEUVAL
5   VALARGASPTHRGLUGLYARGMETVALTRP
6   ARGALATRPASNPHEGLUPROASPALAGLY
7   GLUGLYLEUASNARGTYRILEARGTHRSER
8   GLYILEARGTHRASPTHRALATHRARGLEU
9   GLUHISHISHISHISHISHIS

Samples:

sample_1: Hypothetical protein ykfF, [U-13C; U-15N], 0.95 mM; CaCl2 5 mM; NaCl 100 mM; NH4OAc 20 mM; DTT 10 mM; NaN3 0.02%; D2O 5%; H2O 95%

sample_2: Hypothetical protein ykfF, [U-13C; U-15N], 0.95 mM; CaCl2 5 mM; NaCl 100 mM; NH4OAc 20 mM; DTT 10 mM; NaN3 0.02%; D2O 100%

sample_3: Hypothetical protein ykfF, [U-5% 13C; U-15N], 0.95 mM; CaCl2 5 mM; NaCl 100 mM; NH4OAc 20 mM; DTT 10 mM; NaN3 0.02%; D2O 5%; H2O 95%

sample_cond_1: ionic strength: 0.1 M; pH: 5.5; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
3D 13C-separated NOESYnot availablenot availablenot available
3D 15N-separated NOESYnot availablenot availablenot available
HNHAnot availablenot availablenot available
high resolution CH-HSQC (stereospecific assignment of Val/Leu methyls)not availablenot availablenot available
3D GFT backbone exptsnot availablenot availablenot available
3D HCCH-COSY and HCCH-TOCSYsnot availablenot availablenot available

Software:

VNMR v6.1C - collection

TOPSPIN v1.3 - collection

AutoAssign v2.1.1 - refinement

X-PLOR NIH v2.11.2 - refinement

AutoStruct v2.1.1 - refinement

AGNUS v2.0 - processing

PDBStat v4.1 - data analysis

PSVS v1.3 - data analysis

CNS v1.1 - refinement

NMR spectrometers:

  • Bruker AVANCE 800 MHz
  • Varian INOVA 600 MHz

Related Database Links:

PDB
DBJ BAA77918 BAJ42093
EMBL CDJ70819 CDY55032 CDZ19142 CEE10794
GB AAC73352 ACB01416 ACR62646 ACX40977 AGX32420
REF NP_414783 WP_000194654 WP_001489226 WP_001490535 WP_016239822
SP P75677
AlphaFold P75677

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks