BMRB Entry 34012

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34012
MolProbity Validation Chart

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Title:
In situ atomic-resolution structure of the baseplate antenna complex in Chlorobaculum tepidum obtained combining solid-state NMR spectroscopy, cryo electron microscopy and polarization spectroscopy
Deposition date:
2016-06-20
Original release date:
2016-12-15
Authors:
Nielsen, J.; Kulminskaya, N.; Bjerring, M.; Linnanto, J.; Ratsep, M.; Pedersen, M.; Lambrev, P.; Dorogi, M.; Garab, G.; Thomsen, K.; Jegerschold, C.; Frigaard, N.; Lindahl, M.; Nielsen, N.
Citation:

Citation: Nielsen, J.; Kulminskaya, N.; Bjerring, M.; Linnanto, J.; Ratsep, M.; Pedersen, M.; Lambrev, P.; Dorogi, M.; Garab, G.; Thomsen, K.; Jegerschold, C.; Frigaard, N.; Lindahl, M.; Nielsen, N.. "In situ high-resolution structure of the baseplate antenna complex in Chlorobaculum tepidum"  Nat. Commun. 7, 12454-12454 (2016).
PubMed: 27534696

Assembly members:

Assembly members:
entity_1, polymer, 59 residues, 6160.034 Da.
entity_BCL, non-polymer, 911.504 Da.

Natural source:

Natural source:   Common Name: green sulfur bacteria   Taxonomy ID: 194439   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Chlorobium tepidum

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Chlorobaculum tepidum

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MSGGGVFTDILAAAGRIFEV MVEGHWETVGMLFDSLGKGT MRINRNAYGSMGGGSLRGS

Data sets:
Data typeCount
13C chemical shifts163
15N chemical shifts44

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1entity_1, 11
2entity_1, 21
3entity_1, 31
4entity_1, 41
5entity_1, 51
6entity_1, 61
7entity_1, 71
8entity_1, 81
9entity_1, 91
10entity_1, 101
11entity_1, 111
12entity_1, 121
13entity_1, 131
14entity_1, 141
15entity_2, 12
16entity_2, 22
17entity_2, 32
18entity_2, 42
19entity_2, 52
20entity_2, 62
21entity_2, 72
22entity_2, 82
23entity_2, 92
24entity_2, 102
25entity_2, 112
26entity_2, 122
27entity_2, 132
28entity_2, 142

Entities:

Entity 1, entity_1, 1 59 residues - 6160.034 Da.

1   METSERGLYGLYGLYVALPHETHRASPILE
2   LEUALAALAALAGLYARGILEPHEGLUVAL
3   METVALGLUGLYHISTRPGLUTHRVALGLY
4   METLEUPHEASPSERLEUGLYLYSGLYTHR
5   METARGILEASNARGASNALATYRGLYSER
6   METGLYGLYGLYSERLEUARGGLYSER

Entity 2, entity_2, 1 - C55 H74 Mg N4 O6 - 911.504 Da.

1   BCL

Samples:

sample_1: CsmA, [U-13C; U-15N], 10.0%; BACTERIOCHLOROPHYLL A, [U-13C; U-15N], 10.0%; Carotenoids, [U-13C], 35.0%; Lipids, [U-13C], 35.0%; Magnesium ion, n.a., 10.0%

sample_conditions_1: ionic strength: 0.0 M; pH: 7.0; pressure: 1 atm; temperature: 280 K

Experiments:

NameSampleSample stateSample conditions
2D 13C-13C DARRsample_1isotropicsample_conditions_1
3D NCACXsample_1isotropicsample_conditions_1
3D NCOCXsample_1isotropicsample_conditions_1
3D CANCOsample_1isotropicsample_conditions_1
3D CONCAsample_1isotropicsample_conditions_1
2D NCAsample_1isotropicsample_conditions_1
2D NCOsample_1isotropicsample_conditions_1
2D 13C-13C DARRsample_1isotropicsample_conditions_1

Software:

X-PLOR NIH v2.33, Charles Schwieters, Marius Clore - refinement

GASyCS, Nielsen - structure calculation

SPARKY, Goddard - peak picking

NMR spectrometers:

  • Bruker AvanceII 700 MHz
  • Bruker AvanceII 500 MHz