BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.2731.p (299 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981592|ref|YP_001355201.1| RNA pseudouridylate synthase fa... 304 4e-84 gi|152981207|ref|YP_001353037.1| ribosomal large subunit pseudou... 70 2e-13 gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudou... 56 2e-09 >gi|152981592|ref|YP_001355201.1| RNA pseudouridylate synthase family protein [Janthinobacterium sp. Marseille] Length = 316 Score = 304 bits (779), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 155/293 (52%), Positives = 203/293 (69%), Gaps = 3/293 (1%) Query: 8 PMRDGLSPSYLWLQPGPWRDMLSFLAEHFTAVPAEIWRERLLRGEVRNQRGEDLRPDSAY 67 P +DG+ PS + L G W +L+FL EHF A+P W R+ RG+V + G L PDS Y Sbjct: 24 PSKDGVGPSSVALPAGTWPSILAFLTEHFPAIPHAEWLARMQRGDVIDAAGRLLTPDSIY 83 Query: 68 RSGDCIFYYRELPQGEERIPVEEKILHLDEHLLVADKPHFLPVIPTGRFVQETLLVRLKK 127 + I+YYR LP E RIP +E +L+ D++L+ DKPHFLPV P GR++QETLLVRLK+ Sbjct: 84 QPHSKIYYYRSLPD-EPRIPFDEVVLYQDDYLVAVDKPHFLPVTPAGRYLQETLLVRLKR 142 Query: 128 ATGLQDLVPIHRLDRETAGVIVFSHQRASRGKYQSMFRERSMFKVYEAIAPLRPELQLPR 187 + + L P+HR+DRETAG+++F+ Q +R YQ++FRERS+ K YEAIAPLR +L+LP Sbjct: 143 SLDIDTLAPMHRIDRETAGLVLFTIQPQTRNLYQTLFRERSVSKEYEAIAPLRADLELPT 202 Query: 188 VHRSRVEELPEQFFKMHEAQGAPNSETHISLLEARGELGLYQLEPVTGRRHQLRVHMAAL 247 +RSR+ E E F KM E G NSET ISLLE RG G Y L+PV+G++HQLR HMAAL Sbjct: 203 TYRSRLLE-SEAFMKMCEVAGEANSETAISLLETRGNFGRYLLQPVSGQKHQLRAHMAAL 261 Query: 248 GIPILNDLFYPHAVP-VGVADDLDKPLKLLARSLFFIDPLDGSERHFVSQRSL 299 GIPI+ND YPH P G D +PL+LLA+S+ F DPL G F S+++L Sbjct: 262 GIPIVNDRIYPHLYPDEGATQDYSQPLQLLAKSISFTDPLSGKLHRFDSRQAL 314 >gi|152981207|ref|YP_001353037.1| ribosomal large subunit pseudouridine synthase C [Janthinobacterium sp. Marseille] Length = 339 Score = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 108/239 (45%), Gaps = 19/239 (7%) Query: 30 SFLAEHFTAVPAEIWRERLLRGEVRNQRGEDLRPDSAYR--SGDCIFY--YRELPQGEER 85 +FL VP L GEVR +G R D YR GD + R + Sbjct: 47 NFLLRICKGVPKSHIYRVLRSGEVRVNKG---RIDQTYRLVEGDIVRIPPIRIAEKAPST 103 Query: 86 IPVEE-KILHLDEHLLVADKPHFLPVIPTGRFVQETLLVRLKKAT-GLQDLVPIHRLDRE 143 P E KIL D HLLV DKP + V G V ++ +L+ A + L +HRLDR+ Sbjct: 104 APGAEFKILLEDNHLLVIDKPAGVAV-HGGSGVSYGVIEQLRAARPDAKFLELVHRLDRD 162 Query: 144 TAGVIVFSHQRASRGKYQSMFR-----ERSMFKVYEAIAPLRPELQLPRVHRSRVEELPE 198 T+GV+V + +R++ R +R + V+ R ++LP +H+ PE Sbjct: 163 TSGVLVLAKKRSALTNLHEQIRGGEPDKRYLVLVHGDWKNARQHIKLP-LHKYTT---PE 218 Query: 199 QFFKMHEAQGAPNSETHISLLEARGELGLYQLEPVTGRRHQLRVHMAALGIPILNDLFY 257 ++ S T +L++ G L + E TGR HQ+RVH+A+ G I D Y Sbjct: 219 GERRVRVQADGMESHTVFNLIQRYGPFSLLEAELKTGRTHQIRVHLASSGFAIAGDDKY 277 >gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] Length = 342 Score = 56.2 bits (134), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 56/211 (26%), Positives = 94/211 (44%), Gaps = 26/211 (12%) Query: 65 SAYRSGDCIFYYRELPQGEERIP--VEEKILHLDEHLLVADKPHFLPVIPTGRFVQETLL 122 + Y + Y + P+ E P ++ I+H D +LV +KP L V P TLL Sbjct: 88 TVYGDEKVVIYPQPAPEDEAFKPEAMDLAIVHEDAEMLVINKPAGLVVHPAAGNWSGTLL 147 Query: 123 VRL----KKATGLQDLVPIHRLDRETAGVIVFSHQRASRGKYQSMFRERSMFKVYEAIAP 178 L +G+ +HRLD++T+G++V + + + R++ + Y A+ Sbjct: 148 NGLLHYLPSISGVPRAGIVHRLDKDTSGLMVVAKTLIAHTDLVRQLQARTVKREYLALVW 207 Query: 179 LRPEL------QLPRVHRSRVEELPEQFFKMHEAQGAPNSETH-----ISLLEAR-GELG 226 P + + R R R++ + E A + TH +L+ R L Sbjct: 208 GTPNITGKIDASIGRHARDRIK------MAVSENLTAKPAVTHFQRLATGMLDGRPVSLM 261 Query: 227 LYQLEPVTGRRHQLRVHMAALGIPILNDLFY 257 L +LE TGR HQ+RVHM ++G ++ D Y Sbjct: 262 LCRLE--TGRTHQIRVHMQSIGFALVGDGLY 290 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.323 0.141 0.427 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 733,103 Number of extensions: 31137 Number of successful extensions: 73 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 68 Number of HSP's successfully gapped: 3 Length of query: 299 Length of database: 1,221,021 Length adjustment: 83 Effective length of query: 216 Effective length of database: 914,170 Effective search space: 197460720 Effective search space used: 197460720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 129 (54.3 bits)