BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 5691

Title: Solution Structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Northeast Structural Genomics Consortium target JR19   PubMed: 14627742

Authors: Aramini, James; Cort, John; Huang, Y.; Xiao, Rong; Acton, Thomas; Ho, Chi; Shih, Liang-yu; Kennedy, Micheal; Montelione, Gaetano

Citation: Aramini, James; Huang, Y.; Cort, John; Goldsmith-Fischman, S.; Xiao, Rong; Shih, Liang-yu; Ho, Chi; Liu, J.; Rost, B.; Honig, B.; Kennedy, M.; Acton, Thomas; Montelione, Gaetano. "Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. "  Protein Sci. 12, 2823-2830 (2003).

Assembly members:
RS28_PYRHO, polymer, 82 residues, 9365 Da.

Natural source:   Common Name: P. horikoshii   Taxonomy ID: 53953   Superkingdom: Archaea   Kingdom: not available   Genus/species: Pyrococcus horikoshii

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

Entity Sequences (FASTA):
RS28_PYRHO: MAEDEGYPAEVIEIIGRTGT TGDVTQVKVRILEGRDKGRV IRRNVRGPVRVGDILILRET EREAREIKSRRAAALEHHHH HH

Data sets:
Data typeCount
1H chemical shifts543
13C chemical shifts333
15N chemical shifts76
coupling constants45

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RS28_PYRHO, JR191

Entities:

Entity 1, RS28_PYRHO, JR19 82 residues - 9365 Da.

1   METALAGLUASPGLUGLYTYRPROALAGLU
2   VALILEGLUILEILEGLYARGTHRGLYTHR
3   THRGLYASPVALTHRGLNVALLYSVALARG
4   ILELEUGLUGLYARGASPLYSGLYARGVAL
5   ILEARGARGASNVALARGGLYPROVALARG
6   VALGLYASPILELEUILELEUARGGLUTHR
7   GLUARGGLUALAARGGLUILELYSSERARG
8   ARGALAALAALALEUGLUHISHISHISHIS
9   HISHIS

Samples:

sample_1: RS28_PYRHO, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 5%

sample_2: RS28_PYRHO, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 100%

sample_3: RS28_PYRHO, [U-5% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 5%

sample_conditions_1: pH: 6.5; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
1H,15N-HSQC (regular)not availablenot availablesample_conditions_1
1H,15N-HSQC (NH2 only)not availablenot availablesample_conditions_1
1H,15N-HSQC (full SW)not availablenot availablesample_conditions_1
1H,13C-HSQC (aliph)not availablenot availablesample_conditions_1
1H,13C-HSQC (arom)not availablenot availablesample_conditions_1
3D 1H-15N NOESYnot availablenot availablesample_conditions_1
3D 1H-13C NOESY (aliph)not availablenot availablesample_conditions_1
3D 1H-13C NOESY (arom)not availablenot availablesample_conditions_1
4D 13C NOESYnot availablenot availablesample_conditions_1
HNCOnot availablenot availablesample_conditions_1
CBCA(CO)NHnot availablenot availablesample_conditions_1
HNCACBnot availablenot availablesample_conditions_1
CBCACO(CA)HAnot availablenot availablesample_conditions_1
HA(CA)NHnot availablenot availablesample_conditions_1
HA(CACO)NHnot availablenot availablesample_conditions_1
(H)CC(CO)NH TOCSYnot availablenot availablesample_conditions_1
H(CCCO)NH TOCSYnot availablenot availablesample_conditions_1
HcCH COSYnot availablenot availablesample_conditions_1
HcCH TOCSYnot availablenot availablesample_conditions_1
HNHAnot availablenot availablesample_conditions_1
1H,13C-HSQC (high res)not availablenot availablesample_conditions_1
H/D exchange (6 min)not availablenot availablesample_conditions_1
H/D exchange (60 min)not availablenot availablesample_conditions_1
H/D exchange (8 hrs)not availablenot availablesample_conditions_1

Software:

VNMR v6.1B - spectrometer, acquisition

NMRPipe v2.1 - data processing

Sparky v3.106 - peak picking

AUTOASSIGN v1.9 - automated assignment of backbone 1H, 13C, 15N chemical shifts

AUTOSTRUCTURE v1.1.2 - automated NOESY assignment, structure determination

HYPER v3.2 - data analysis

TALOS v2.1 - data analysis

DYANA v1.5 - structure refinement

PDBStat v3.27 - structure analysis

NMR spectrometers:

  • Varian INOVA 800 MHz
  • Varian INOVA 750 MHz
  • Varian UNITY 600 MHz
  • Varian INOVA 600 MHz
  • Varian INOVA 500 MHz

Related Database Links:

SWISS-PROT P61030 Q8U159 P61029
REF NP_579097 NP_126358 NP_143359
EMBL CAB49589
GenBank AAL81492
PDB
DBJ BAA30603