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= 0001.3528.p (560 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981088|ref|YP_001354188.1| ribosomal large subunit pseudou... 548 e-157 gi|152981336|ref|YP_001353751.1| pseudouridylate synthase [Janth... 75 9e-15 gi|152981396|ref|YP_001353640.1| ribosomal small subunit pseudou... 71 1e-13 gi|152980789|ref|YP_001354207.1| pseudouridylate synthase family... 65 1e-11 >gi|152981088|ref|YP_001354188.1| ribosomal large subunit pseudouridine synthase B [Janthinobacterium sp. Marseille] Length = 546 Score = 548 bits (1413), Expect = e-157, Method: Compositional matrix adjust. Identities = 309/483 (63%), Positives = 353/483 (73%), Gaps = 24/483 (4%) Query: 65 AKPARRGVRGPRALRNNRAAQRAAA-------GGAEAAPAQGKGEGDAVPAERHQPRGQF 117 AKPA+RG+RGPR LR R R A GAE A +GE + PA+ R + Sbjct: 37 AKPAKRGLRGPRTLRRARNTPREATEPAVVKVDGAEGAQEMPQGEAGSAPADGEARRERT 96 Query: 118 GKNNAHAGQAGQQGKKNFDKNGKKPK----APQLGLRAN---EPVDDIFSYVTSEAYDRD 170 N Q G +G K + + K PQ G + + + DD+FS+VTS+ +D Sbjct: 97 NNNRRGERQPGAKGAKGATRPQGRGKPNGAGPQRGGKPHGKADNADDVFSFVTSDDFDSL 156 Query: 171 EGA-KAGGRQAHQMRGKNGRRDLTAEDDAPKLHKVLADAGLGSRRDMEELIVAGRVSVNG 229 AGG++ H+ K RRDLTA+DDAPKLHKVLA+AGLGSRRDMEELI+AGRVSVNG Sbjct: 157 AAEDSAGGKRRHEQ--KTVRRDLTADDDAPKLHKVLAEAGLGSRRDMEELIIAGRVSVNG 214 Query: 230 EPAHIGQRILPTDAVRINGKLIQRKVSKRPPRVLVYHKPAGEIVSHSDPEGRSSVFDRLP 289 EPAHIGQRILPTD VRINGKLIQRKVSK+PPRVLVYHKPAGEIVS +DPEGR SVFDRLP Sbjct: 215 EPAHIGQRILPTDQVRINGKLIQRKVSKKPPRVLVYHKPAGEIVSTNDPEGRPSVFDRLP 274 Query: 290 TMKAGKWLAVGRLDFNTEGLLLFTTSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKL 349 TMKA KWLAVGRLDFNTEGLLLFTTSGDLANRLMHPRY I+REYAVRTLGELEEGMRQKL Sbjct: 275 TMKAAKWLAVGRLDFNTEGLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKL 334 Query: 350 LAGVELDDGPAQFSRIADGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYG 409 LAGVEL+DG AQFS+IADGGGEGVNKWYRVTIGEGRNREVRRMFEA+GLTVSRLIRTRYG Sbjct: 335 LAGVELEDGLAQFSKIADGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYG 394 Query: 410 AMTLPQTLKRGRWEELEENAVRNLMAACGLEKQAGEAKSGNGGHAGKGQGNGNGNGPR-G 468 +TLP+ LKRGRWEE+EE+AVR+L+A GL+K GEA N G A G PR Sbjct: 395 LLTLPKNLKRGRWEEMEEHAVRDLLALSGLDKNTGEAGPANKGRAAGGDRVNGNRAPRVD 454 Query: 469 NAM-QNKGPQKGRNGGNFGNQGGGNYGNGGNYGGGNKGGQPKSRQPDPLQTALGFPDIGN 527 N + Q + P + +N G G G N G N+ GQ +SRQPDPLQT+LGFP +G Sbjct: 455 NGLGQPRSPSQWQNTGT-----GQGRSQGQNPGKPNRQGQQRSRQPDPLQTSLGFPGMGQ 509 Query: 528 GQR 530 +R Sbjct: 510 PRR 512 >gi|152981336|ref|YP_001353751.1| pseudouridylate synthase [Janthinobacterium sp. Marseille] Length = 248 Score = 75.1 bits (183), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 119/249 (47%), Gaps = 29/249 (11%) Query: 200 KLHKVLADAGLGSRRDMEELIVAGRVSVNGEP-AHIGQRILPTDAVRINGKLIQRKVSKR 258 +L K +++ GL SRR+ +E I G V V+G+ + +G ++LPT V + ++ +++ Sbjct: 6 RLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGSKVLPTQRVTVE----RQAAAEQ 61 Query: 259 PPRVLVY---------------HKPAGEIVSHSDPEGRSSVFDRLPTMKAGKWLAVGRLD 303 RV V +KPA +V+ S + + + GRLD Sbjct: 62 SKRVTVLINKPMGYVSGQAEDGYKPAVALVNASTRWSEDQAATQFHPTQLRSLVPAGRLD 121 Query: 304 FNTEGLLLFTTSGDLANRLMHPRYNIEREYAVRTL----GELEEGMRQKLLAGVELDDGP 359 ++ GLL+ T G +A L+ ++E+EY VR G+L E ++L G+ LD Sbjct: 122 IDSVGLLVLTQDGRIAKHLIGEDTSVEKEYLVRVQYSKPGKLPEADLKRLNHGLMLDGKK 181 Query: 360 AQFSRIADGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTLPQTLKR 419 +++ + ++ + EG+ R++RRM + VGL V L R R G + L L Sbjct: 182 LLPAKVKWQNEDQLS----FILREGKKRQIRRMCDMVGLKVIGLKRVRIGNVKLGD-LPV 236 Query: 420 GRWEELEEN 428 G+W L E+ Sbjct: 237 GQWRYLRED 245 >gi|152981396|ref|YP_001353640.1| ribosomal small subunit pseudouridine synthase A protein [Janthinobacterium sp. Marseille] Length = 238 Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 100/233 (42%), Gaps = 15/233 (6%) Query: 201 LHKVLADAGLGSRRDMEELIVAGRVSVNGEPAHIGQRILPTDAVRINGKLIQRKVSKRPP 260 L ++L G G+R+ LI G VS+NGE + D + + R Sbjct: 6 LDRILQSQGFGTRKYCRNLIEDGEVSINGES--VTDYRAAFDTSDLEFTIFDEVWRYRQH 63 Query: 261 RVLVYHKPAGEIVSHSDPEGRSSVFDRLPTMKAGKWLA-VGRLDFNTEGLLLFTTSGDLA 319 +V +KPA S P V LP + L VGRLD +T G+LL + G Sbjct: 64 VYIVLNKPANFECSRK-PSHHPGVLTLLPEQFTWRELQPVGRLDHDTTGMLLMSDDGPFI 122 Query: 320 NRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVELDDGP----AQFSRIADGGGEGVNK 375 + P+ +I + Y T + + +LL GV+L D P AQ R+ G N+ Sbjct: 123 HAQSSPKRHIPKVYVATTHDPVTPELIAQLLGGVQLHDEPAPLAAQTCRML-----GANE 177 Query: 376 WYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTLPQT-LKRGRWEELEE 427 + + +G+ +V+RM A G S L R GA+TL L G W L + Sbjct: 178 -LEIVLEQGKYHQVKRMLAAAGNHCSALRRVAIGALTLESLELDEGEWAYLTD 229 >gi|152980789|ref|YP_001354207.1| pseudouridylate synthase family protein [Janthinobacterium sp. Marseille] Length = 211 Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 81/182 (44%), Gaps = 23/182 (12%) Query: 262 VLVYHKPAGEIVSHSDPEGRSSVFDRL--PTMKAGKWLAVGRLDFNTEGLLLFTTSGDLA 319 +++++KP + S R S+ D + P + GRLD ++EGLLL G L Sbjct: 27 LILFNKPFQTMCQFSPHPTRKSLADHIDIPNIYPA-----GRLDADSEGLLLLNDDGKLQ 81 Query: 320 NRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVELDDGPAQ---FSRIADGG------- 369 + + HP + Y V+ G + +L A ++L D Q R+A+ Sbjct: 82 HAISHPDRKHTKTYLVQVEGVPDADALARLRAPLDLGDFVTQECEVKRVAEPDWLWPRNP 141 Query: 370 -----GEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTL-PQTLKRGRWE 423 W +T+ EG+NR+VRRM AVG RL+R G ++L L G W Sbjct: 142 PIRERANAPTSWLAITLSEGKNRQVRRMTGAVGYPTLRLVRIAIGPVSLQSHPLWPGEWR 201 Query: 424 EL 425 E+ Sbjct: 202 EI 203 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 0.313 0.135 0.398 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: 985,070 Number of extensions: 38543 Number of successful extensions: 85 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 77 Number of HSP's successfully gapped: 4 Length of query: 560 Length of database: 1,221,021 Length adjustment: 88 Effective length of query: 472 Effective length of database: 895,685 Effective search space: 422763320 Effective search space used: 422763320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 132 (55.5 bits)