BMRB Entry 16782

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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/BMR16782
MolProbity Validation Chart

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Title:
Solution NMR structure of Photosystem II reaction center Psb28 protein from Synechocystis sp.(strain PCC 6803), Northeast Structural Genomics Consortium Target SgR171
Deposition date:
2010-03-22
Original release date:
2010-04-21
Authors:
Yang, Yunhuang; Ramelot, Theresa; Cort, John; Wang, Dongyan; Ciccosanti, Colleen; Hamilton, Keith; Nair, R.; Rost, B.; Acton, Thomas; Xiao, Rong; Everett, John; Montelione, Gaetano; Kennedy, Michael
Citation:

Citation: Yang, Yunhuang; Ramelot, Theresa; Cort, John; Wang, Dongyan; Ciccosanti, Colleen; Hamilton, Keith; Nair, Rajesh; Rost, Burkhard; Acton, Thomas; Xiao, Rong; Everett, John; Montelione, Gaetano; Kennedy, Michael. "Solution NMR structure of photosystem II reaction center protein Psb28 from Synechocystis sp. Strain PCC 6803."  Proteins 79, 340-344 (2011).
PubMed: 21058299

Assembly members:

Assembly members:
Photosystem II reaction center Psb28 protein, polymer, 120 residues, 13655 Da.

Natural source:

Natural source:   Common Name: Synechocystis sp.   Taxonomy ID: 1143   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Synechocystis sp.

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET 21-23C

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Photosystem II reaction center Psb28 protein: MAEIQFSKGVAETVVPEVRL SKSKNGQSGMAKFYFLEPTI LAKESTDDITGMYLIDDEGE IITREVKGKFINGRPTAIEA TVILNSQPEWDRFMRFMERY GAENGLGFSKSELEHHHHHH

Data typeCount
13C chemical shifts515
15N chemical shifts123
1H chemical shifts813

Time Domain Data

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1Photosystem II reaction center Psb28 protein1

Entities:

Entity 1, Photosystem II reaction center Psb28 protein 120 residues - 13655 Da.

Photosystem II reaction center Psb28 protein from Synechocystis sp.(strain PCC 6803), preceded by non-native N-terminal Met and followed by 8 non-native C-terminal residues (LEHHHHHH)

1   METALAGLUILEGLNPHESERLYSGLYVAL
2   ALAGLUTHRVALVALPROGLUVALARGLEU
3   SERLYSSERLYSASNGLYGLNSERGLYMET
4   ALALYSPHETYRPHELEUGLUPROTHRILE
5   LEUALALYSGLUSERTHRASPASPILETHR
6   GLYMETTYRLEUILEASPASPGLUGLYGLU
7   ILEILETHRARGGLUVALLYSGLYLYSPHE
8   ILEASNGLYARGPROTHRALAILEGLUALA
9   THRVALILELEUASNSERGLNPROGLUTRP
10   ASPARGPHEMETARGPHEMETGLUARGTYR
11   GLYALAGLUASNGLYLEUGLYPHESERLYS
12   SERGLULEUGLUHISHISHISHISHISHIS

Samples:

NC_sample: Photosystem II reaction center Psb28 protein from Synechocystis sp.(strain PCC 6803), [U-100% 13C; U-100% 15N], 0.58 ± 0.06 mM; MES 20 ± 1 mM; sodium chloride 100 ± 5 mM; calcium chloride 5 ± 0.2 mM; DTT 10 ± 0.5 mM; sodium azide 0.02 ± 0.001 %; H2O 90%; D2O 10%

NC5_sample: Photosystem II reaction center Psb28 protein from Synechocystis sp.(strain PCC 6803), [U-5% 13C; U-100% 15N], 0.44 ± 0.04 mM; MES 20 ± 1 mM; sodium chloride 100 ± 5 mM; calcium chloride 5 ± 0.2 mM; DTT 10 ± 0.5 mM; sodium azide 0.02 ± 0.001 %; H2O 90%; D2O 10%

NC_sample_in_D2O: Photosystem II reaction center Psb28 protein from Synechocystis sp.(strain PCC 6803), [U-100% 13C; U-100% 15N], 0.58 ± 0.06 mM; MES 20 ± 1 mM; sodium chloride 100 ± 5 mM; calcium chloride 5 ± 0.2 mM; DTT 10 ± 0.5 mM; sodium azide 0.02 ± 0.001 %; D2O 100%

sample_conditions_1: ionic strength: 0.2 M; pH: 6.5; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCNC_sampleisotropicsample_conditions_1
2D 1H-13C HSQC_CTNC5_sampleisotropicsample_conditions_1
3D 1H-15N NOESYNC_sampleisotropicsample_conditions_1
3D 1H-13C NOESY aliphaticNC_sampleisotropicsample_conditions_1
3D HNCONC_sampleisotropicsample_conditions_1
3D HNCANC_sampleisotropicsample_conditions_1
3D HNCACBNC_sampleisotropicsample_conditions_1
3D CBCA(CO)NHNC_sampleisotropicsample_conditions_1
3D HN(CO)CANC_sampleisotropicsample_conditions_1
3D HBHA(CO)NHNC_sampleisotropicsample_conditions_1
3D H(CCO)NHNC_sampleisotropicsample_conditions_1
3D C(CO)NHNC_sampleisotropicsample_conditions_1
3D HCCH-TOCSYNC_sampleisotropicsample_conditions_1
3D HCCH-COSYNC_sampleisotropicsample_conditions_1
3D (H)CCH-TOCSYNC_sample_in_D2Oisotropicsample_conditions_1
4D CC NOESYNC_sample_in_D2Oisotropicsample_conditions_1
2D 1H-15N HSQC_swN150ppmNC_sampleisotropicsample_conditions_1
2D 1H-13C HSQC_HiResNC5_sampleisotropicsample_conditions_1
3D 1H-13C NOESY aromaticNC_sampleisotropicsample_conditions_1
2D 1H-13C HSQC aromaticNC5_sampleisotropicsample_conditions_1
2D 1H-15N HSQC_NH2NC_sampleisotropicsample_conditions_1

Software:

NMRPipe v2008, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

VNMR v6.1C, Varian - collection

TOPSPIN v2.1.4, Bruker Biospin - collection

AutoStruct v2.2.1, Huang, Tejero, Powers and Montelione - data analysis

X-PLOR NIH v2.20, Schwieters, Kuszewski, Tjandra and Clore - structure solution

CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement

SPARKY v3.113, Goddard - data analysis

PSVS v1.4, Bhattacharya and Montelione - refinement

AutoAssign v2.30, Zimmerman, Moseley, Kulikowski and Montelione - chemical shift assignment

PDBStat v5.1, (PdbStat)-Roberto Tejero and Gaetano T. Montelione - structure solution

PINE v1.0, Bahrami, A., Assadi, A., Markley, J. L. & Eghbalnia, H. - autoassignment

NMR spectrometers:

  • Varian INOVA 600 MHz
  • Bruker AvanceIII 850 MHz

Related Database Links:

PDB
DBJ BAA11641 BAA16618 BAK48788 BAL27787 BAL30957
GB AGF50307 AIE72824 ALJ66405
REF WP_010871246 WP_028946740
SP Q55356
AlphaFold Q55356

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