BMRB Entry 7182

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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/BMR7182
MolProbity Validation Chart

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Title:
NMR Structure of YcgL, a Conserved Protein from Escherichia coli Representing the DUF709 Family with a Novel a/b/a Sandwich Fold
Deposition date:
2006-06-21
Original release date:
2007-03-05
Authors:
Minailiuc, O.; Vavelyuk, O.; Ekiel, I.; Hung, M.-Ni.; Cygler, M.; Gandhi, S.
Citation:

Citation: Minailiuc, O.; Vavelyuk, O.; Gandhi, S.; Hung, M-N; Cygler, M.; Ekiel, I.. "NMR structure of YcgL, a conserved protein from Escherichia coli representing the DUF709 family, with a novel alpha/beta/alpha sandwich fold"  Proteins 66, 1004-1007 (2007).
PubMed: 17221885

Assembly members:

Assembly members:
Hypothetical protein ycgL, polymer, 110 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source:   Production method: recombinant technology

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Hypothetical protein ycgL: GSMPKPGILKSKSMFCVIYR SSKRDQTYLYVEKKDDFSRV PEELMKGFGQPQLAMILPLD GRKKLVNADIEKVKQALTEQ GYYLQLPPPPEDLLKQHLSV MGQKTDDTNK

Data sets:
Data typeCount
13C chemical shifts422
15N chemical shifts99
1H chemical shifts612

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1Hypothetical protein ycgL1

Entities:

Entity 1, Hypothetical protein ycgL 110 residues - Formula weight is not available

1   GLYSERMETPROLYSPROGLYILELEULYS
2   SERLYSSERMETPHECYSVALILETYRARG
3   SERSERLYSARGASPGLNTHRTYRLEUTYR
4   VALGLULYSLYSASPASPPHESERARGVAL
5   PROGLUGLULEUMETLYSGLYPHEGLYGLN
6   PROGLNLEUALAMETILELEUPROLEUASP
7   GLYARGLYSLYSLEUVALASNALAASPILE
8   GLULYSVALLYSGLNALALEUTHRGLUGLN
9   GLYTYRTYRLEUGLNLEUPROPROPROPRO
10   GLUASPLEULEULYSGLNHISLEUSERVAL
11   METGLYGLNLYSTHRASPASPTHRASNLYS

Samples:

sample_1: Hypothetical protein ycgL; phosphate buffer 50 mM; DTT 15 mM; sodium azide 0.02 % (w/v); D2O 10%; H2O 90%

sample_cond_1: ionic strength: 150 mM; pH: 6.8; pressure: 1 atm; temperature: 308 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYsample_1not availablesample_cond_1
3D 15N-separated NOESYsample_1not availablesample_cond_1
3D 13C-separated NOESYsample_1not availablesample_cond_1
2D TOCSYsample_1not availablesample_cond_1
HNHAsample_1not availablesample_cond_1
HNCACBsample_1not availablesample_cond_1
CBCA(CO)NHsample_1not availablesample_cond_1
HN(CA)COsample_1not availablesample_cond_1
HBHA(CO)NHsample_1not availablesample_cond_1
3D-HCCH-TOCSYsample_1not availablesample_cond_1
1H-15N TOCSY-HMQCsample_1not availablesample_cond_1

Software:

xwinnmr - collection

NMRPipe - processing

CARA v135 - data analysis

XEASY - data analysis

CYANA v2.1 - structure solution

X-PLOR NIH v2112 - refinement

NMR spectrometers:

  • Varian INOVA 500 MHz

Related Database Links:

PDB
DBJ BAA36013 BAB35097 BAG76750 BAI24991 BAI30116
EMBL CAP75714 CAQ31681 CAQ98057 CAR02568 CAR07521
GB AAC74263 AAG56030 AAN42784 AAN80092 AAP16675
REF NP_287418 NP_309701 NP_415697 NP_707077 NP_753532
SP A1AAA3 A7ZKV0 A7ZZB3 B1IUB2 B1LHY8
AlphaFold A1AAA3 A7ZKV0 A7ZZB3 B1IUB2 B1LHY8

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