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Zipcode-binding-protein-1 KH3KH4(DD) domains in complex with the RNA target CACACCC
Authors
Nicastro, G., Candel, A.M., Ramos, A., Hollingworth, D.
Assembly
Zipcode-binding-protein-1 KH3KH4(DD) domains in complex with the RNA target CACACCC
Entity
1. Zipcode-binding-protein-1 KH3KH4(DD) domains in complex with the RNA target CACACCC, entity 1 (polymer, Thiol state: not present), 191 monomers, 20657.36 Da Detail

GAMGPSSVSG AAPFSSFMPP EQETVHVFIP AQAVGAIIGK KGQHIKQLSR FASASIKIAP PETPDSKVRM VVITGPPEAQ FKAQGRIYGK LKEENFFGPK EEVKLETHIR VPASAAGRVI GDDGKTVNEL QNLTAAEVVV PRDQTPDENE QVIVKIIGHF YASQMAQRKI RDILAQVKQQ HQKGQSGQLQ A


2. Zipcode-binding-protein-1 KH3KH4(DD) domains in complex with the RNA target CACACCC, entity 2 (polymer, Thiol state: not present), 7 monomers, 2202.335 Da Detail

CACACCC


Total weight
22859.695 Da
Max. entity weight
20657.36 Da
Source organism
Escherichia coli
Exptl. method
solution NMR
Refine. method
torsion angle dynamics
Data set
assigned_chemical_shifts
Chem. Shift Complete
Sequence coverage: 83.3 %, Completeness: 60.4 %, Completeness (bb): 55.7 % Detail

Polymer type: polypeptide(L) polyribonucleotide

Total1H13C
All60.4 % (1282 of 2124)66.0 % (808 of 1225)52.7 % (474 of 899)
Backbone55.7 % (567 of 1018)60.8 % (259 of 426)52.0 % (308 of 592)
Sidechain66.0 % (846 of 1281)68.7 % (549 of 799)61.6 % (297 of 482)
Aromatic22.2 % (32 of 144)44.4 % (32 of 72) 0.0 % (0 of 72)
Methyl84.8 % (178 of 210)86.7 % (91 of 105)82.9 % (87 of 105)

1. entity 1

GAMGPSSVSG AAPFSSFMPP EQETVHVFIP AQAVGAIIGK KGQHIKQLSR FASASIKIAP PETPDSKVRM VVITGPPEAQ FKAQGRIYGK LKEENFFGPK EEVKLETHIR VPASAAGRVI GDDGKTVNEL QNLTAAEVVV PRDQTPDENE QVIVKIIGHF YASQMAQRKI RDILAQVKQQ HQKGQSGQLQ A

2. entity 2

CACACCC

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 310 K, pH 6.5, Details 20mM phosphate buffer and 20mM of NaCl at pH 6.5


#NameIsotope labelingTypeConcentration
1entity_1[U-100% 13C; U-100% 15N]0.3 mM
2entity_2natural abundance0.3 mM
3phosphate buffernatural abundance20 mM
4potassium phosphatenatural abundance20 mM

LACS Plot; CA
Referencing offset: 0.18 ppm, Outliers: 1 Detail
LACS Plot; CB
Referencing offset: 0.18 ppm, Outliers: 1 Detail
LACS Plot; HA
Referencing offset: -0.06 ppm, Outliers: 3 Detail
Protein Blocks Logo
Calculated from 12 models in PDB: 2N8L, Strand ID: A Detail


Release date
2015-10-22
Citation 1
ZBP1 recognition of beta-actin zipcode induces RNA looping
Chao, J.A., Patskovsky, Y., Patel, V., Levy, M., Almo, S.C., Singer, R.H.
Genes. Dev. (2010), 24, 148-158, PubMed 20080952 , DOI 10.1101/gad.1862910 ,
Citation 2
Spatial arrangement of an RNA zipcode identifies mRNAs under post-transcriptional control
Patel, V.L., Mitra, S., Harris, R., Buxbaum, A.R., Lionnet, T., Brenowitz, M., Girvin, M., Levy, M., Almo, S.C., Singer, R.H., Chao, J.A.
Genes. Dev. (2012), 26, 43-53, PubMed 22215810 , DOI 10.1101/gad.177428.111 ,
Citation 3
KH domains with impaired nucleic acid binding as a tool for functional analysis
Hollingworth, D., Candel, A.M., Nicastro, G., Martin, S.R., Briata, P., Gherzi, R., Ramos, A.
Nucleic Acids Res. (2012), 40, 6873-6886, PubMed 22547390 , DOI 10.1093/nar/gks368 ,
Related entities 1. Zipcode-binding-protein-1 KH3KH4(DD) domains in complex with the RNA target CACACCC, entity 1, : 1 : 2 : 94 entities Detail
Experiments performed 5 experiments Detail
NMR combined restraints 4 contents Detail
Keywords KH Domain, NMR Solution Structure, RNA Binding Protein