BMRB Entry 16869

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR16869

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Title:
Backbone assignment of the catalytic core of a Y-family DNA polymerase
Deposition date:
2010-04-15
Original release date:
2010-07-27
Authors:
Ma, Dejian; Fowler, Jason; Yuan, Chunhua; Suo, Zucai
Citation:

Citation: Ma, Dejian; Fowler, Jason; Yuan, Chunhua; Suo, Zucai. "Backbone assignment of the catalytic core of a Y-family DNA polymerase."  Biomol. NMR Assignments 4, 207-209 (2010).
PubMed: 20582735

Assembly members:

Assembly members:
Dpo4, polymer, 250 residues, 27957.5 Da.

Natural source:

Natural source:   Common Name: Sulfolobus solfataricus   Taxonomy ID: 2287   Superkingdom: Archaea   Kingdom: not available   Genus/species: Sulfolobus solfataricus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET22b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Dpo4: MGSSHHHHHHSSGLVPRGSH MIVLFVDFDYFYAQVEEVLN PSLKGKPVVVCVFSGRFEDS GAVATANYEARKFGVKAGIP IVEAKKILPNAVYLPMRKEV YQQVSSRIMNLLREYSEKIE IASIDEAYLDISDKVRDYRE AYNLGLEIKNKILEKEKITV TVGISKNKVFAKIAADMAKP NGIKVIDDEEVKRLIRELDI ADVPGIGNITAEKLKKLGIN KLVDTLSIEFDKLKGMIGEA KAKYLISLAR

Data sets:
Data typeCount
13C chemical shifts513
15N chemical shifts185
1H chemical shifts185

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1catalytic core of Dpo41

Entities:

Entity 1, catalytic core of Dpo4 250 residues - 27957.5 Da.

First 20 residues, -19 to 0, represent a non-native affinity tag.

1   METGLYSERSERHISHISHISHISHISHIS
2   SERSERGLYLEUVALPROARGGLYSERHIS
3   METILEVALLEUPHEVALASPPHEASPTYR
4   PHETYRALAGLNVALGLUGLUVALLEUASN
5   PROSERLEULYSGLYLYSPROVALVALVAL
6   CYSVALPHESERGLYARGPHEGLUASPSER
7   GLYALAVALALATHRALAASNTYRGLUALA
8   ARGLYSPHEGLYVALLYSALAGLYILEPRO
9   ILEVALGLUALALYSLYSILELEUPROASN
10   ALAVALTYRLEUPROMETARGLYSGLUVAL
11   TYRGLNGLNVALSERSERARGILEMETASN
12   LEULEUARGGLUTYRSERGLULYSILEGLU
13   ILEALASERILEASPGLUALATYRLEUASP
14   ILESERASPLYSVALARGASPTYRARGGLU
15   ALATYRASNLEUGLYLEUGLUILELYSASN
16   LYSILELEUGLULYSGLULYSILETHRVAL
17   THRVALGLYILESERLYSASNLYSVALPHE
18   ALALYSILEALAALAASPMETALALYSPRO
19   ASNGLYILELYSVALILEASPASPGLUGLU
20   VALLYSARGLEUILEARGGLULEUASPILE
21   ALAASPVALPROGLYILEGLYASNILETHR
22   ALAGLULYSLEULYSLYSLEUGLYILEASN
23   LYSLEUVALASPTHRLEUSERILEGLUPHE
24   ASPLYSLEULYSGLYMETILEGLYGLUALA
25   LYSALALYSTYRLEUILESERLEUALAARG

Samples:

sample_1: Dpo4, [U-100% 13C; U-100% 15N], 0.2 mM; H2O 95%; D2O 5%

sample_conditions_1: ionic strength: 170 mM; pH: 7.0; pressure: 1 atm; temperature: 323 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1

Software:

xwinnmr, Bruker Biospin - collection

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - peak picking, processing

SPARKY, Goddard - chemical shift assignment, data analysis, peak picking

MARS, Jung and Zweckstetter - chemical shift assignment, data analysis

NMR spectrometers:

  • Bruker DRX 800 MHz

Related Database Links:

PDB
GB AAK42588 ACX90547 AKA72680 AKA75380 AKA78071
REF WP_009993137
SP Q97W02
AlphaFold Q97W02

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