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= 0001.1752.p (355 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152981207|ref|YP_001353037.1| ribosomal large subunit pseudou... 533 e-153 gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudou... 119 2e-28 gi|152981434|ref|YP_001352926.1| pseudouridylate synthases, 23S ... 81 1e-16 >gi|152981207|ref|YP_001353037.1| ribosomal large subunit pseudouridine synthase C [Janthinobacterium sp. Marseille] Length = 339 Score = 533 bits (1374), Expect = e-153, Method: Compositional matrix adjust. Identities = 258/340 (75%), Positives = 292/340 (85%), Gaps = 2/340 (0%) Query: 1 MKDLARFSRGASESAAAAPASRNATASHNLPQVQLLTISDEEAGQRIDNFLLRVCKGVPK 60 MKDLA FS E+ +P+ + S QVQL+TI+DE+AGQRIDNFLLR+CKGVPK Sbjct: 1 MKDLAIFS--GKEAQTLSPSRSSQVHSQVPAQVQLVTINDEDAGQRIDNFLLRICKGVPK 58 Query: 61 SHIYRVLRSGEVRVNKGRIDQTYRLVEGDVVRVPPIRVAEKQEQVVPGAEFRILLEDSHL 120 SHIYRVLRSGEVRVNKGRIDQTYRLVEGD+VR+PPIR+AEK PGAEF+ILLED+HL Sbjct: 59 SHIYRVLRSGEVRVNKGRIDQTYRLVEGDIVRIPPIRIAEKAPSTAPGAEFKILLEDNHL 118 Query: 121 LVIDKPAGVAVHGGSGVSYGVIEQLRAARPQAKFLELVHRLDRDTSGVLLIAKKRSALTN 180 LVIDKPAGVAVHGGSGVSYGVIEQLRAARP AKFLELVHRLDRDTSGVL++AKKRSALTN Sbjct: 119 LVIDKPAGVAVHGGSGVSYGVIEQLRAARPDAKFLELVHRLDRDTSGVLVLAKKRSALTN 178 Query: 181 LHDQMREGTTDKRYFTLVQGDWKNARQHVKLPLFKYSTPDGERRVRVQADGQPSHTIFSL 240 LH+Q+R G DKRY LV GDWKNARQH+KLPL KY+TP+GERRVRVQADG SHT+F+L Sbjct: 179 LHEQIRGGEPDKRYLVLVHGDWKNARQHIKLPLHKYTTPEGERRVRVQADGMESHTVFNL 238 Query: 241 LRRFGEFALLEAELKTGRTHQIRVHLSSSGFPIVGDDKYGDFTLNKALQKADGSRIAFKR 300 ++R+G F+LLEAELKTGRTHQIRVHL+SSGF I GDDKYGDF LN+ LQKADG R+A KR Sbjct: 239 IQRYGPFSLLEAELKTGRTHQIRVHLASSGFAIAGDDKYGDFALNRDLQKADGERVALKR 298 Query: 301 MFLHAWRISFRHPESGETVTLKAGLPEECARFLRSLEGGA 340 MFLHA +I+F HPESG+ VTL A LP EC RFL+SL+ A Sbjct: 299 MFLHAHQITFIHPESGKPVTLNAPLPPECERFLKSLKKTA 338 >gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] Length = 342 Score = 119 bits (299), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 98/313 (31%), Positives = 152/313 (48%), Gaps = 22/313 (7%) Query: 30 LPQVQLLTISDEEAGQRIDNFLLRVCKGVPKSHIYRVLRSGEVRVNKGRIDQTYRLVEGD 89 LP ++L ++ + G R+D L + +S + + + G V V+ G + + V GD Sbjct: 35 LPPIEL-DLNPDVCGVRLDKVLSTLVPQYSRSRLQQWIDGGHVSVD-GEVARAKMTVYGD 92 Query: 90 VVRVPPIRVAEKQEQVVPGA-EFRILLEDSHLLVIDKPAGVAVHGGSGVSYG-VIEQLRA 147 V + A + E P A + I+ ED+ +LVI+KPAG+ VH +G G ++ L Sbjct: 93 EKVVIYPQPAPEDEAFKPEAMDLAIVHEDAEMLVINKPAGLVVHPAAGNWSGTLLNGLLH 152 Query: 148 ARPQAKFLE---LVHRLDRDTSGVLLIAKKRSALTNLHDQMREGTTDKRYFTLVQGDWKN 204 P + +VHRLD+DTSG++++AK A T+L Q++ T + Y LV G N Sbjct: 153 YLPSISGVPRAGIVHRLDKDTSGLMVVAKTLIAHTDLVRQLQARTVKREYLALVWGT-PN 211 Query: 205 ARQHVKLPLFKYSTPDGERRVRVQADGQPSHTIFSLLRRFG----EFALLEAELKTGRTH 260 + + +++ + V +P+ T F L +L+ L+TGRTH Sbjct: 212 ITGKIDASIGRHARDRIKMAVSENLTAKPAVTHFQRLATGMLDGRPVSLMLCRLETGRTH 271 Query: 261 QIRVHLSSSGFPIVGDDKYGDFTLNKALQKADGSRIAFKRMFLHAWRISFRHPESGETVT 320 QIRVH+ S GF +VGD YG L F R LHA R+ HP SGE V Sbjct: 272 QIRVHMQSIGFALVGDGLYGKQHLTT----------VFPRQALHARRLGLIHPVSGEAVE 321 Query: 321 LKAGLPEECARFL 333 + LP++ A + Sbjct: 322 WSSELPQDFAELI 334 >gi|152981434|ref|YP_001352926.1| pseudouridylate synthases, 23S RNA-specific [Janthinobacterium sp. Marseille] Length = 223 Score = 80.9 bits (198), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 63/216 (29%), Positives = 107/216 (49%), Gaps = 28/216 (12%) Query: 110 EFRILLEDSHLLVIDKPAGVAVHGGSG------VSYGVIEQLRAARPQAKFLELVHRLDR 163 E I+ +D +L+I+KP+G+ G V + +++Q PQA ++HRLD Sbjct: 16 EIEIIYQDEAILLINKPSGLLTLSGKNPLNLDSVHHRLVQQF----PQAL---MIHRLDL 68 Query: 164 DTSGVLLIAKKRSALTNLHDQMREGTTDKRYFTLVQGDWKNARQHVKLPLFKYSTPDGER 223 TSG+L++A ++ N++ Q + T K Y ++ G + LP+ K P Sbjct: 69 GTSGLLVVALNKAVAANINRQFQLRTVAKTYQAVLAGQVAEDHGKITLPIAK--DPLNFP 126 Query: 224 RVRVQ-ADGQPSHTIFSLLRRFGEFALLEAELK--TGRTHQIRVHLSSSGFPIVGDDKYG 280 ++++ A G+ + + + +L R + TGRTHQ+R+H + G PI+G D YG Sbjct: 127 KLKICLASGKAASSHYEVLDRQVDADTTRVLFTPHTGRTHQLRIHSAGIGHPILGCDLYG 186 Query: 281 DFTLNKALQKADGSRIAFKRMFLHAWRISFRHPESG 316 A+ + A +R+ LHA + F HP SG Sbjct: 187 ---------TAESEQGA-ERLLLHATTLEFDHPLSG 212 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 0.320 0.136 0.392 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: 726,031 Number of extensions: 28841 Number of successful extensions: 75 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 69 Number of HSP's successfully gapped: 3 Length of query: 355 Length of database: 1,221,021 Length adjustment: 84 Effective length of query: 271 Effective length of database: 910,473 Effective search space: 246738183 Effective search space used: 246738183 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)