4 molecular structure and dynamics

... essential FEBS Journal 2 74 (2007) 42 23 42 37 ª 2007 The Authors Journal compilation ª 2007 FEBS 42 35 NMR structure and dynamics of eRF1 middle domain 33 34 35 36 37 38 39 40 41 42 43 44 E V Ivanova et ... )60 b 148 ± ± 110 )73 150 )41 ± ) 64 )42 b )42 ± )110 ± 23 ) 64 )42 The mean value in the family of 25 structures and the SD is no preferred conformation of the side-chain in the family 42 28 v1 ... 14 )40 ± 11 )90 ± 21 ) 64 )43 )60 13 128 ± 12 )63 ± 30 )70 130 )60 17 48 ± 68 )128 ± 93 )120 45 180 51 )4 ± 13 90 58 )22 ± 46 )62 ± 105 )63 )40 )60 1 04 )135 ± 73 )87 )170 44 )23 ± 16 )63 )35 23...

Ngày tải lên: 07/03/2014, 05:20

... substrate C Eigenbrot et al cleavage site of pro-HGF is KQLR-VVNG (49 1 49 8) (P4–P4¢) and that of pro-MSP is SKLR-VVNG (48 7– 48 0) (P4–P4¢), indicating a preference for a P1 Arg The potential roles of ... [4] Other key attributes of the catalytically competent structure are the ‘oxyanion hole’ formed by the amide nitrogens of Ser195 and Gly193, and substrate-binding subsites (S1, S2, S3, and S4), ... domain recognizes misfolded protein and activates a protease Cell 117, 48 3 49 4 14 Carvalho AL, Sanz L, Barettino D, Romero A, Calvete JJ & Romao MJ (2002) Crystal structure of a prostate kallikrein...

Ngày tải lên: 15/03/2014, 11:20

... residues K419–K423 and E425, giving a value of 3.1 34 ± 0 .43 5 for the G–H loop average (K419–I427) For CCP1, a high R2 ⁄ R1 value was observed for C 341 , D 344 , R 349 and A350 (R2 ⁄ R1 > 3 .4) and indicated ... exchange (Rex) was detected for residues E425, E421, G408, K423, T398 and K419 Distinct rapid local motion was indicated by the significant se of G4 24 and G401, for which residues the inclusion of ... the interfaces A–B (E300), D–E (Y325) and C–D (Y381), near the F–G turns of CCP2 (T411, C412, I417 and W418) and near the linker region (G360) For the tandem module, the model-free approach did...

Ngày tải lên: 15/03/2014, 23:20

... 8.10 4. 74 2.75, 7.09 6. 04 6 .44 7.70 3.51 1.86 1. 64 7 .42 6.75 8.50 7.78 3.87 1.06 7.79 4. 03 4. 45 1.05 8 .49 3.29 0.62 0.91 0.56 )0.81 )1.10 7.81 4. 60 1.70 7.93 3. 94 3.03 Phe36(B 14) Tyr42(C4) His45(C7) ... 2.37 8.17 3 .44 3. 04 0.15 9.80 na 3.33 6.08 2.8 2.63 2.09 7.10 3. 84 )0.03 8.62 6 .44 3.87 7 .41 3.27 2 .44 2.32 5.87 5 .48 8.12 8.07 4. 08 3.12, 6.99 6.08 5.81 8.20 4. 01 3.78, 7. 04 6.85 8.25 4. 45 3.21, ... 2.16 6.19 4. 95 4. 38 7 .49 4. 49 2.28 1.93 0 .48 4. 38 2.30 2.78 1.22 0. 54 2.76 7.71 7.16 7.66 3.11 2.26 7 .45 3 .47 1.62, 1 .49 1.09 1 .47 2.73 7.50 4. 08 2.57 1.50 6.66 2.71 0.91 0.67 6 .42 7 .45 3.55 3.91...

Ngày tải lên: 23/03/2014, 17:22

... where Cys 14 makes a link with Cys28 in sheet and Cys43 of b4 connects Cys 54 of b5 in sheet In the same structure for the abcabc pattern, the 14 43 and 28– 54 Cbi–Cbj distances are 44 2 and 525 pm, ... Tyr3HN–Val45O Tyr3O–Val45HN Ala1O–Thr47HN Gly5HN 43 CysO Asp46O–Ala50HN Asp46HN–Ala51O Thr44O–Asp53HN Lys6O–Lys15NH Ala1NH–Tyr45OH Gly5O–Cys40HN Cys7HN–Ala38O Cys14HN–Ile26O Asp18HN–Lys22O Tyr16O–Thr24HN ... class of AFP [ 14] The 3D molecular structure of PAF consists of five b-strands connected by three small loops involving b-turn motifs (loops 1, and 4) and the large loop (Fig 9) The b-strands create...

Ngày tải lên: 29/03/2014, 23:20

... lignin structure and monomeric composition have indeed been found and confirmed between plant species (Logan and Thomas, 1985), between plant organs and tissues grown either in vitro or in vivo and ... experiments by Bolker and Brener (1971) and by Yan et aL (19 84) According to these authors, the weak-bonds suggested by Freudenberg and Neish are mainly a-aryl ether linkintermolecular ages, respectively, ... detail, heterogeneity in lignin formation and molecular structure, has been demonstrated in the case of gymnosperms (Terashima and Fukushima, 1988) and in the case of angiosperms (Higuchi, 19135;...

Ngày tải lên: 09/08/2014, 03:24

... of mutation, recombination, population history, and selection on patterns Page 18 of 19 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 of genetic diversity in Neisseria meningitidis ... SP_1572 spr 143 0 178 Non-heme iron-containing ferritin (PppA) Surface 44 94. 5 Yes Yes Yes SP_1573 spr 143 1 49 0 Lysozyme (LytC) Choline binding, surface 44 96 .46 Yes No No SP_1650 spr 149 4 309 Manganese ... SP_2201 Absent 44 8 Choline binding protein D (CbpD) Choline binding, surface 43 98. 94 Yes No No 221 44 98 .42 Yes No No Putative protease maturation protein (PpmA) Lipoprotein 44 96.77 Yes Yes...

Ngày tải lên: 09/08/2014, 22:23

Ngày tải lên: 14/11/2014, 10:21

... in some low- and middle-income environments, are not present in others The sectoral and demand analyses of sections 4. 4 and 4. 5 should detect the absence of key markets or services, and those analyses ... Claessens and Laeven 20 04 and box 4. 2) In turn, ownership patterns are influenced by regulation and policy on entry, exit, and mergers and acquisitions Is the market structure segmented (with ... investors in securities, and the level and volatility of asset returns in the sectors depend on the microstructure and soundness of securities markets 10 11 12 A 4. 4 .4 Securities Markets The...

Ngày tải lên: 17/12/2013, 05:15

... of and s, and then the average 15N-1H NOE was obtained Additional R1 values (20, 40 , 80, 140 , 240 , 40 0, 800, and 1200 ms with a delay of s) and R2 values (16.8, 33.5, 50.3, 67.0, 100.5, 1 34. 0, ... The total surface area of all these structures is very similar; XPCB–hHR23B,  41 nm2, XPCB–hHR23As from Waters et al and Kamionka and Feigon,  41 and  43 nm2, respectively The diverse hydrophobic ... 2 84 330 All atoms 717 241 33 121 41 89 1 242 70 42 28 A a Summation of energies defined by AMBER B C )3087.9 ± 12.3 15.1 ± 1.6 0.0 ± 0.0 )3103.1 ± 11.7 78.5 20.2 1.3 0.0 0.83 2.00 0.90 2 .43 0 .45 ...

Ngày tải lên: 07/03/2014, 17:20

... 12 :49 -85 17 Sprinzl, M., Cramer, F 1975 Proc Natl ,4cad Sci USA72:3 049 -53 18 Fraser, T H., Rich, A 1975 Proc Natl ,4cad Sci US ,4 72:3 044 -48 19 Kiselev, L L., Favorova, O O 19 74 ,4dr Enzymol 40 : 141 -221 ... Lcnnarz, W J 1970 J Bacteriol 1 04: 1135 ~4 28 Strominger, J L 1970 Harvey Lect 64: 179-213 29 Roberts, R J 1972 Nature NewBiol 237 :44 -46 30 Softer, R L 19 74 ,4dr Enzymol 40 :91- 140 31 Sawyer, R C., Harada, ... CHANGES BIOLOGICAL FUNCTION BIOLOGICAL OF MYSTERIES RNA TRANSFER 838 840 841 841 842 843 845 847 848 " 850 852 INTRODUCTION Research in the field of transfer RNA (tRNA)has undergone...

Ngày tải lên: 13/03/2014, 19:38

... Ile12 and Thr15 were drastically reduced, and Asp 14 completely disappeared in Ó FEBS 20 04 Structure and topology of TM4 of DMT1 (Eur J Biochem 271) 1 947 the presence of 0.2 mM Mn2+ (Figs and 7) ... medium-range NOEs and the Ó FEBS 20 04 Structure and topology of TM4 of DMT1 (Eur J Biochem 271) 1 943 Table Structural statistics for DMT1-TM4 in the presence of SDS at pH 6.0 and in TFE SDS TFE ... Biochemistry 40 , 3 141 –3 149 56 Park, S.H., Kim, H.E., Kim, C.M., Yun, H.J., Choi, E.C & Lee, B.J (2002) Role of proline, cysteine and a disulphide bridge in the Ó FEBS 20 04 Structure and topology of TM4...

Ngày tải lên: 16/03/2014, 16:20

... 9.70 4. 22 4. 60 2.50 2.70 2.99 3.55 3.05 3.87 3.51 3.88 3. 74 4.26 4. 43 4. 76 4. 77 4. 90 5.07 5.00 3.90 3.80 4. 28 4. 39 4. 66 4. 79 5.29 5.28 4. 77 4. 87 4. 84 4.78 8.35 8.36 8. 34 9.13 9.31 8.75 9 .40 10.68 ... Obs Cal Obs Cal 5.3 5.11 4. 3 4. 43 3.98 3.76 3.83 3.65 9.6 9.52 9.15 9.31 4. 19 4. 35 4. 14 4. 34 9.92 9.77 4. 65 4. 59 4. 58 4. 59 10.06 9.96 4. 66 4. 66 10.13 10. 04 4.69 4. 69 SPARC pKa 18 -2 -1 -1 ... 9.93 4. 43 3.96 3.75 3.78 3.90 3.87 3.89 3.95 4. 00 4. 07 4. 07 4. 83 4. 9 4. 23 4. 12 3.75 3 .44 9.51 8.67 8.39 9 .40 - Calc 4. 20 3.95 3.80 3.80 3.86 3.87 3.86 3.90 3.96 3.95 3.98 4. 61 4. 51 4. 02 4. 12...

Ngày tải lên: 22/03/2014, 14:20

... ± 0.26 LP1 (10– 14) 0 .44 ± 0.17 1.15 ± 0 .43 LP2 (22– 24) 0.13 ± 0.05 1. 14 ± 0.29 LP3 (35 42 ) 1. 04 ± 0.32 1.51 ± 0.37 LP4 (50–53) 0 .49 ± 0.22 1 .45 ± 0 .44 LP5 (67–77) 1 .44 ± 0.57 2 .48 ± 0.80 ˚ Average ... the b-sheet (b4–b5) forming an arm (Fig 1A,B) The secondary structure elements, namely an a-helix, a1 (25– 32), and five b-strands, b1 (4 9), b2 (15–21), b3 (43 – 48 ), b4 (55–65), and b5 (79–90), ... composed of Val57, Glu87, and Arg88, is observed for all the structures The secondary structure elements are connected by loops LP1 (10– 14) , LP2 (22– 24) , LP3 (35 42 ), LP4 (50–53), and LP5 (67–77), referred...

Ngày tải lên: 22/03/2014, 17:20

... variants In detail, 14 Cys residues are present in C1R, all of which are involved in disulphide bonds (the Cys pairing being: 3–52, 32–65, 70–123, 100– 141 , 145 –271, 3 14 333 and 344 –3 74, numbered according ... Bioinformatics 23, 2 947 –2 948 Petrey D, Xiang Z, Tang CL, Xie L, Gimpelev M, Mitros T, Soto CS, Goldsmith-Fischman S, Kernytsky A, Schlessinger A et al (2003) Using multiple structure 5656 41 42 43 44 alignments, ... C1R (PDB code: 1GPZ [27]) and of the modelled structures of HPT1 and HPT2 HPT1 residue Cys15 and HPT2 residues Cys15 and Cys 74 are shown in spacefill representation This and the following figures...

Ngày tải lên: 23/03/2014, 06:20

... Proteins 41 , 46 047 4 34 Mandel AM, Akke M & Palmer AG III (1995) Backbone dynamics of Escherichia coli ribonuclease HI: correlations with structure and function in an active enzyme J Mol Biol 246 , 144 163 ... the backbone dynamics of a 2035 Structure and dynamics of NSCP in solution 45 46 47 48 49 50 51 folded and unfolded SH3 domain existing in equilibrium in aqueous buffer Biochemistry 34, 868878 Krudy ... three categories, 1.82.9, 2.9 3.7 and 3.75.0 A except for daN(i,i +2) and dNN(i,i +2) distances in regular helical fragments which fall into 4. 24. 6 and 4. 04. 4 A, respectively No restraints involving...

Ngày tải lên: 23/03/2014, 13:20

... Mesenchymal stem cells were dissociated from rat bone marrow and were marked by Brdu, and the expression of CD 44 CD 54 and double label of Brdu and CD 44 .The growth of rat mesenchymal stem cell under Seropharmacological ... of Nedd4 and Nedd4-2 mediate binding to SGK and that, despite their high homology, different WW domains of Nedd4 and Nedd4-2 are involved Our data also suggest that WW domains and of Nedd4-2 mediate ... mediated via Nedd4-2 and will decrease if competition between Nedd4 and Nedd4-2 for binding to SGK occurs We show that Nedd4 and Nedd4-2 are located in the same subcellular compartment and that they...

Ngày tải lên: 23/03/2014, 15:20

... 01983-9, 00 ⁄ 042 97-8, 01 ⁄ 07 544 -9 and 04 ⁄ 049 33-2), CNPq and CAPES, and NIH NS39892 and RR19325 (to MJG) PAGG and CCR were supported by studentships from FAPESP (02 ⁄ 09861 -4 and 97 ⁄ 05500-7, ... secondary structure of EP 24. 15 a-Helix TBS WT 42 .4% D93A 44 .3% D159A 57.5% D93 ⁄ 159A 50.3% TBS + 2.2 mM Ca2+ WT 38.7% D93A 40 .2% D159A 49 .1% D93 ⁄ 159A 47 .1% b-Strand Turn Unordered 13.9% 14. 7% 10.6% ... 3 .4. 24. 15) FEBS Lett 545 , 2 24 228 40 Oliveira V, Gatti R, Rioli V, Ferro ES, Spisni A, Camargo AC, Juliano MA & Juliano L (2002) Temperature 2992 V Oliveira et al 41 42 43 44 45 and salts effects...

Ngày tải lên: 30/03/2014, 16:20

... Resonance assignments for D16W-D 24) 37 GGN4 in 500 mM SDS micelles at pH 4. 0 Table S4 NMR restraints and structural statistics of D 24) 37 GGN4 and D16W-D 24) 37 GGN4 ... of the D16W substitution, the solution structures of D 24) 37 GGN4 and D16W-D 24) 37 GGN4 were investigated by NMR spectroscopy The structure of the native GGN4 in 50% TFE/water consists of two a helices ... TFE/water mixture (A), D16W-D 24) 37 GGN4 in the 50% TFE/water mixture (B), and D16W-D 24) 37 GGN4 in SDS micelles (C), respectively In panel D, the set of D16W-D 24) 37 GGN4 structures in the 50% TFE/...

Ngày tải lên: 31/03/2014, 09:20

... 2002 Xiao and Qi, 2007 Kuzio et al., 1999 Nai et al., 2010 155.060 169 Li et al., 2002b L22858 NC012672 L33180 DQ457003 AY 145 471 AP006270 EU591 746 EU8399 94 DQ123 841 FJ9 142 21 AY8 643 30 DQ5 044 28 DQ837165 ... of ORFs Size (bp) or CDS 168 158 .48 2 168 156.179 135 135.611 132.565 139 141 131.330 142 139. 342 141 SpltNPV II 148 .6 34 147 Trichoplusia ni SNPV TnSNPV 1 34. 3 94 145 Adoxophyes orana GV AdorGV 99.657 ... HzNV-1 GbNV OrNV 228,089 96, 944 127,615 41 .8 28.0 42 .0 1 54 98 139 Clockwise orientation* (No of ORF / ORF%) 69 /45 57/58 64/ 46 Gene density (kbp per ORF) No of Rsr 1 .47 0.93 0.82 17 20 Table Characteristics...

Ngày tải lên: 31/03/2014, 19:20