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PDB ID Mentions in PubMed Central Article count: 2

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PDB ID Mentions in PubMed Central

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Structure of the S100A4/myosin-IIA complex.

(2013) BMC Struct Biol 13

PubMed: 24252706 | PubMedCentral: PMC3924328 | DOI: 10.1186/1472-6807-13-31

The final Ca 2+ -S100A4Δ8C model contained 4 subunit chains (Cys3-Gly92), 8 calcium ions and 10 water molecules with a R work and R free of 22.8% and 27.7%, respectively (PDB 4HSZ).

Table 2 Crystallographic data and refinement statistics   S100A4Δ8C S100A4Δ8C/MIIA 1908-1923 PDB ID 4HSZ 4ETO Source X29, BNL X4A, BNL Wavelength (Å) 1.075 0.979 Resolution limits (Å) 46.9 – 2.25 50 – 1.54 Space group P1 P2 1 Unit cell (Å) a, b, c and α, β, γ (°) a = 28.80, b = 34.36, c = 95.31 and α = 95.48, β = 95.30, γ = 114.82 a = 30.28, b = 91.99, c = 32.86 and β = 112.6 Number of observations 31076 87461 Number of unique reflections 14935 24461 a Completeness (%) 96.4 (94.1) 99.6 (100) Mean I/σI 19.6 (2.4) 27.8 (2.76) b R merge on I 6.3 (42.2) 6.3 (49.6) B wilson (Å 2 ) 30.023 18.4 Refinement statistics     Resolution limits (Å) 46.9 – 2.25 46.0 – 1.54 Number of reflections (work/free) 14159/750 23168/1247 Cutoff criteria I/σI 0 0 Protein/water atoms 2904/9 1530/86 R work /R free (5% of data) 0.228/0.277 0.209/0.251 c Bonds (Å)/angles (°) 0.007/0.984 0.020/1.823 Mean B (Å 2 ) 56.2 20.14 a Parentheses indicate statistics for the high–resolution data bin for x–ray and refinement data.

The calculated rms deviations for Cα atoms for residues 3–86 from the Ca 2+ -bound S100A4 (2Q91) with the Ca 2+ -bound S100A4Δ8C (4HSZ), the S100A4Δ8C/MIIA 1908-1923 peptide complex (4ETO) and the previously reported S100A4/MIIA 1893-1935 complex (3ZWH) were 1.2 Å, 1.3 Å and 1.1 Å, respectively; indicating that neither myosin-IIA binding, nor the C-terminal truncation, alters the overall conformation of the S100A4 dimer.

Publication Year: 2013


The C-terminal random coil region tunes the CaČ?-binding affinity of S100A4 through conformational activation.

(2014) PLoS One 9

PubMed: 24830809 | PubMedCentral: PMC4022583 | DOI: 10.1371/journal.pone.0097654

Notation Experimental data Substitutions Deletion High resolution structures Ca 2+ - and MPT-bound F45WSer F45WSer X-ray C3S, C81S, C86S, F45W - Ca 2+ - and MPT-bound Δ13 Δ13Ser X-ray ... 3S, C81S, C86S F89-K101 Ca 2+ -bound WT 3C1V X-ray [12] - - Ca 2+ -bound Δ8 4HSZ X-ray [9] - F93-K101 Ca 2+ - and MPT-bound WT 2LNK NMR [7] - - (Ca 2+ ions not modeled) Ca 2+ -free WT 1M31 NMR [14] - - Solution scattering and NMR data WT WT SAXS/NMR - Ca 2+ -bound WT Ca 2+ -WT SAXS/NMR - Δ13 Δ13 SAXS/NMR - F89-K101 Ca 2+ -bound Δ13 Ca 2+ -Δ13 SAXS/NMR - F89-K101 Ca 2+ -and MPT-bound WT Ca 2+ -WT +MPT SAXS - - Ca 2+ -and MPT-bound Δ13 Ca 2+ -Δ13+MPT SAXS - F89-K101 The relationship between the obtained hydrodynamic radius and radius of gyration for spherical molecules is R g  = (3/5) 1/2 R h [25] .

Publication Year: 2014