... Shibata, N., Morimoto, Y., Toraya, T & Yasuoka, N (20 00) How a protein generates a catalytic radical from Ó FEBS 20 02 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 Structureof B 12- dependent ... dehydratase a subunit was amplified by PCR using pUSI2E(GD) [28 ], pfu DNA polymerase (Stratagene) and pairs of primers 5 -TCTGAGTGCGGTGGAAGAGATG ATGAAGCG-3¢ and 5 -AGATCTTATTCAATGGTGT CGGGCTGAACC-3¢ ... pUSI2E(aG) DNA segments encoding the b and c subunits of glycerol dehydratase were amplified by PCR using pairs of primers 5 -CATATGCAACAGACAACCCAAATTCAGCCC-3¢ and 5 -AGATCTTATCACTCCCTTACTAAGTCGATG-3¢...
... Generously allowed (%) Disallowed (%) ˚ Averaged B-value (A2 ) PDB code 1.0000 P2 121 2 1 35 .2 161 .2 84.8 50 .0–1.90 720 55 4 138 56 8 6 .5 (36 .5) 95. 6 (81.0) 11.3 (1.9) 20 –1.91 130 634 65 32 11 29 7 621 21 .1 25 .9 ... The DASA of the AB dimer is defined as [(ASA of A) + (ASA of B) ) (ASA of AB dimer)] ⁄ The number of water molecules in the dimer interface was detected with ASV CALCULATOR [34] ASA was calculated ... Yamauchi F, Sato K & Yamagishi T (1984) Isolation and partial characterization ofa salt extractable globulin from soybean seeds Agric Biol Chem 48, 6 45 650 Hanada K, Nishiuchi Y & Hirano H (20 03)...
... programs for protein crystallography Acta Crystallogr D 50 , 760–763 18 Navaza J (1994) AMoRe: an automated package for molecular replacement Acta Crystallogr A 50 , 157 –163 19 Brunger AT, Adams ... Acta Crystallogr D 54 , 9 05 921 20 Brunger AT (19 92) Free R-value – a novel statistical ¨ quantity for assessing the accuracy ofcrystal structures Nature 355 , 4 72 4 75 21 Emsley P & Cowtan K (20 04) ... refinement against the 20 2.5A intensity data A randomly selected portion of the diffraction data (5. 0%) was used to calculate the free R factor [20 ] The program coot [21 ] was used to display and correct...
... in AtCyP38 are: Arg290, Phe294, Gln297, Gly307, Ala 358 , Ala360, Gln3 72, Phe374 and Leu3 82, which correspond to Arg 55, Phe60, Gln63, Gly 72, Ala101, Ala103, Gln111, Phe113 and Leu 122 of hCyPA Of ... present in the crystal and no part of it has got cleaved off during the crystallization process 4 .5 .2 Data collection and analysis The native and selenomethionylated crystal data sets for all the five ... and MAD data collection at the NSLS synchrotron was planned for MALDI-TOF mass spectrometric analysis of the crystals gave a mass of 40470 .24 + 1.06 for the native multiple mutant and 411 02. 15 +...
... Interacting Atoms ASP 44 OD1 ASP 46 OD1 ASP 48 OD1 ILE 50 O ASP 52 OD2 WAT 27 Distance in Å 2. 47 2. 49 2. 50 2. 45 2. 48 2. 70 Calcium No Interacting Atoms ASP 65 OD1 ASP 67 O THR 70 O THR 70 OG1 ASP ... 51 5 Thermus Sp pI Asp/Glu Surface charge Arg/Lys His Out In Out In Out In Out In 5. 34 +0 .5 -8 .5 48 23 45 11 7 58 8 5. 52 -7 .5 -0 .5 66 19 51 15 15 Thermoactinomyces Vulgaris R- 47 58 55. 52 +5.5 ... entire salinity range (Fig 2. 10) The activity profiles of AmyA at different temperatures and pH are shown in Figs 2. 11 and 2. 12 Figure 2. 13 AmyA activity profile Activity assay of AmyA using 20 mM...
... Journal 27 8 (20 11) 22 83 22 95 ª 20 11 The Authors Journal compilation ª 20 11 FEBS 22 85 Crystalstructureofa Thielavia arenaria laccase J P Kallio et al thermostability of the enzyme [34] On the basis ... Journal compilation ª 20 11 FEBS 22 93 Crystalstructureofa Thielavia arenaria laccase J P Kallio et al 15 Lyashenko AV, Zhukova Y, Zhukhlistova N, Zaitsev V, Stepanova E, Kachalova G, Koroleva ... biology: structureofa metallo-oxidase Fet3p Proc Natl Acad Sci USA 1 02, 154 59– 154 64 Smith AW, Camara-Artigas A, Wang M, Allen JP & Francisco WA (20 06) Structureof phenoxazinone synthase from...
... families database Nucleic Acids Res 30, 27 6 28 0 Handa N, Terada T, Kamewari Y, Hamana H, Tame JRH, Park S-Y, Kinoshita K, Ota M, Nakamura H, Kuramitsu S et al (20 03) Crystalstructureof the conserved ... types of GAB catalysis have been identified to date [ 12] which are based either on a single, bifunctional GAB catalyst or on a GAB catalysts pair The available biochemical data on MshB and LpxC are ... method Acta Crystallogr D 53 , 24 0 25 5 Kabsch W (1976) A solution for the best rotation to relate two sets of vectors Acta Crystallogr A 32, 922 – 923 Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat...
... atoms of Asp11 and Asn23 (Fig 3) in an arrangement similar to what is observed in VPRK Both PRK and VPRK have calcium bound at Ca3 SPRK also has an aspartic acid residue at position at 20 0, and ... the same conformation as in the two other structures, but Asp200 forms a salt bridge to Lys 253 (Ala 253 and Asn 250 in PRK and VPRK, respectively), and probably loses some of its potential as calcium ... methoxysuccinyl-Ala-Ala-Pro-Ala-chloro˚ methyl ketone: an x-ray study at 2.2 -A resolution J Biol Chem 26 6, 176 95 17699 FEBS Journal 27 3 (20 06) 61–71 ª 20 05 The Authors Journal compilation ª 20 05 FEBS R Helland...
... E28–K 95 D 124 –K 153 D188–R270 D201–R249 E 253 –R249 D 257 –R270 D 257 –K2 75 2. 97 3.00 3.91 2. 79 3 .20 2. 81 3.41 2. 98 2. 80 2. 78 ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A ˚ Aa The criterion of conserved ion pairs ... D187–R 12 (E27–87 E48–R80 E50–R 52 D98–K94 D1 12 R147 D117–R 121 D184–R188 D260–R 12 1THM 2. 77 4. 65 3.93 2. 95 2. 75 2. 76 2. 94 3. 02 3. 02 ˚ A ˚ A) a ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A ˚ A D57–R1 02 D60–R1 02 D188–K17 E28–K 95 ... compared enzymes are underlined 1SH7 1IC6 D56–R 95 D59–R 95 D183–R10 ˚ 2. 99 A ˚ 3.03 A ˚ 2. 74 A D138–R169 E236–R2 52 E 255 –K267 D260–R1 85 D274–R14 3. 02 2.83 2. 81 2. 92 3 .28 ˚ A ˚ A ˚ A ˚ A ˚ A D187–R12...
... 3if5) There are disordered regions in the F ( 354 -403 and 449 456 aa), N ( 354 -376, 3 95- 401 and 446- 456 aa), G ( 353 - 359 , 397-4 02 and 449- 456 aa), T (449- 456 aa) and TG ( 451 - 456 aa) structures Fig Active ... l-glutamate in an extended form ˚ (Fig 7A) with a contact area of 28 8 A2 Asparaginase binds l-glutamate in a folded form (Fig 7B) in an apparently much smaller pocket with a contact area of ˚ 23 3 A2 ... glutaminase A B Fig L-Glutamate in complex with Mglu and asparaginase of Erwinia carotovora LGlutamate (cylinder) on the surfaces of the structures of TG (A) and asparaginase of E carotovora (B)...