BLASTX 2.2.15 [Oct-15-2006] 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. Query= AALF01000001 AALF01000001.1 Yersinia intermedia ATCC 29909 765, whole genome shotgun sequence. (4000 letters) Database: st 4429 sequences; 1,395,779 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q8ZPZ0 Q8ZPZ0_SALTY Isocitrate dehydrogenase in e14 prophage (EC... 740 0.0 Q8ZPZ1 RLUE_SALTY Ribosomal large subunit pseudouridine synthase... 306 9e-84 Q8ZPZ3 Q8ZPZ3_SALTY Putative MutT-like protein. 164 3e-41 Q8ZP51 RLUB_SALTY Ribosomal large subunit pseudouridine synthase... 80 1e-15 Q8ZKL1 RLUF_SALTY Ribosomal large subunit pseudouridine synthase... 73 2e-13 P65840 RSUA_SALTY Ribosomal small subunit pseudouridine synthase... 71 6e-13 P37412 LEU3_SALTY 3-isopropylmalate dehydrogenase (EC 1.1.1.85) ... 58 4e-09 Q8ZPV3 Q8ZPV3_SALTY Putative mutator MutT protein. 46 2e-05 >Q8ZPZ0 Q8ZPZ0_SALTY Isocitrate dehydrogenase in e14 prophage (EC 1.1.1.42). Length = 416 Score = 740 bits (1910), Expect = 0.0 Identities = 367/417 (88%), Positives = 385/417 (92%) Frame = +1 Query: 1042 MESKVVVPAEGKKITVDAQGKLVVPHNPIIPFIEGDGIGVDVTPAMIHVVDAAVKKAYKG 1221 MESKVVVP EGKKIT+ GKL VP NPIIPFIEGDGIGVDVTPAM+ VVDAAV+KAYKG Sbjct: 1 MESKVVVPVEGKKITLQ-NGKLNVPENPIIPFIEGDGIGVDVTPAMLKVVDAAVEKAYKG 59 Query: 1222 ERKISWMEIYTGEKSTHVYGKDVWLPEETLDLIREYRVAIKGPLTTPVGGGIRSLNVALR 1401 ERKISWMEIYTGEKST VYG+DVWLP ETLDLIR+YRVAIKGPLTTPVGGGIRSLNVALR Sbjct: 60 ERKISWMEIYTGEKSTQVYGQDVWLPAETLDLIRDYRVAIKGPLTTPVGGGIRSLNVALR 119 Query: 1402 QQLDLYVCLRPVRYYEGTPSPVKHPELTNMVIFRENAEDIYAGIEWKAGSPEAEKVIKFL 1581 Q+LDLYVCLRPVRYY+GTPSPVKHPELT+MVIFREN+EDIYAGIEWKA S +AEKVIKFL Sbjct: 120 QELDLYVCLRPVRYYQGTPSPVKHPELTDMVIFRENSEDIYAGIEWKADSADAEKVIKFL 179 Query: 1582 REEMGVKKIRFPEQCGIGIKPCSEEGTKRLVRAAIEYAITNDRESVTLVHKGNIMKFTEG 1761 REEMGVKKIRFPE CGIGIKPCSEEGTKRLVRAAIEYAITNDR+SVTLVHKGNIMKFTEG Sbjct: 180 REEMGVKKIRFPEHCGIGIKPCSEEGTKRLVRAAIEYAITNDRDSVTLVHKGNIMKFTEG 239 Query: 1762 AFKDWGYQLAREEFGGELIDGGPWVKIKNPNNGKEIIIKDVIADAFLQQILLRPAEYDVI 1941 AFKDWGYQLAR+EFGGELIDGGPW+KIKNPN GKEI++KDVIADAFLQQILLRPAEYDVI Sbjct: 240 AFKDWGYQLARDEFGGELIDGGPWLKIKNPNTGKEIVVKDVIADAFLQQILLRPAEYDVI 299 Query: 1942 ACMNLNGDYISDALAAQVXXXXXXXXXXXXDDCALFEATHGTAPKYAGQDKVNPGSIILS 2121 ACMNLNGDYISDALAAQV D+CALFEATHGTAPKYAGQDKVNPGSIILS Sbjct: 300 ACMNLNGDYISDALAAQVGGIGIAPGANIGDECALFEATHGTAPKYAGQDKVNPGSIILS 359 Query: 2122 AEMMLRHMGWFEAADLIIKGTEGAIQAKTVTYDFERLMDGAKLRKCSEFGQDIIDNM 2292 AEMMLRHM WFEAADLI+KG EGAI AKTVTYDFERLM+GAKL KCSEFG II NM Sbjct: 360 AEMMLRHMQWFEAADLIVKGMEGAIAAKTVTYDFERLMEGAKLLKCSEFGDAIIANM 416 >Q8ZPZ1 RLUE_SALTY Ribosomal large subunit pseudouridine synthase E (EC 5.4.99.-) (rRNA- uridine isomerase E) (rRNA pseudouridylate synthase E). Length = 221 Score = 306 bits (783), Expect = 9e-84 Identities = 145/205 (70%), Positives = 172/205 (83%) Frame = -1 Query: 910 MNKFSVKNHKVNRFSTKIQAKQVKPVGPRRVLLFNKPFDVLPQFTDESGRRTLKEFIPFN 731 M K S +NH V RFS++ +K K P+RV+LFNKP+DVLPQFTDE+GRRTLK+FIP Sbjct: 11 MQKTSFRNHYVKRFSSRQASKSRKENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQ 70 Query: 730 DVYAAGRLDRDSEGLLVLTNDGKLQAKLTQPTAKTGKIYFVQVEGVPEDDALDKLRHGVV 551 VYAAGRLDRDSEGLLVLTNDG LQA+LTQP +TGKIY+VQVEG+P++ AL LR GV Sbjct: 71 GVYAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVT 130 Query: 550 LKDGPTLPAGAELVSEPEWLWPRVPPIRERKNIPTRWLQITLYEGRNRQVRRMTAHIGFP 371 L DGPTLPAG E+V+EP+WLWPR PPIRERKNIPT WL++TLYEGRNRQVRRMTAH+G P Sbjct: 131 LNDGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHP 190 Query: 370 TLRLIRFSVGNLSLADLQPGEWKEI 296 TLRLIR+S+G+ +L L G+W+EI Sbjct: 191 TLRLIRYSMGDYTLNGLDNGQWREI 215 >Q8ZPZ3 Q8ZPZ3_SALTY Putative MutT-like protein. Length = 153 Score = 164 bits (416), Expect = 3e-41 Identities = 78/97 (80%), Positives = 82/97 (84%) Frame = -2 Query: 291 MFKPHVTVACVVHAQGKFLVVEETINGKKLWNQPAGHLEADETLLQAAERELWEETGIRA 112 MFKPHVTVAC+VHA+ KFLVVEETINGK LWNQPAGHLEADETL QAA RELWEETGI A Sbjct: 1 MFKPHVTVACIVHAEDKFLVVEETINGKSLWNQPAGHLEADETLAQAAARELWEETGITA 60 Query: 111 TPQSFLRMHQWIAPDKTPFLRFAFVIELLAPLPTHPH 1 PQ F+RMHQWIAPDKTPFLRF F I+L T PH Sbjct: 61 QPQYFIRMHQWIAPDKTPFLRFLFAIKLDHICATDPH 97 >Q8ZP51 RLUB_SALTY Ribosomal large subunit pseudouridine synthase B (EC 5.4.99.-) (rRNA- uridine isomerase B) (rRNA pseudouridylate synthase B). Length = 291 Score = 79.7 bits (195), Expect = 1e-15 Identities = 67/212 (31%), Positives = 98/212 (46%), Gaps = 9/212 (4%) Frame = -1 Query: 904 KFSVKNHKVNRFSTKIQAKQVKPVGPRRVLLFNKPFDVLPQFTDESGRRTLKEFIPF--- 734 K + H + S K A+Q+ RVL + KP L D GR T+ + +P Sbjct: 49 KIRIDGHLI---SVKESAEQIC-----RVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRG 100 Query: 733 NDVYAAGRLDRDSEGLLVLTNDGKLQAKLTQPTAKTGKIYFVQVEGVPEDDALDKLRHGV 554 A GRLD ++ GLL+ T DG+L +L P+ + + Y V+V G ++ L L GV Sbjct: 101 ARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGV 160 Query: 553 VLKDGPTL-----PAGAELVSEPEWLWPRVPPIRERKNIPTRWLQITLYEGRNRQVRRMT 389 L+DGP +G E +++ W +TL EGRNR+VRR+ Sbjct: 161 QLEDGPAAFKTIKFSGGEGINQ--------------------WYNVTLTEGRNREVRRLW 200 Query: 388 AHIGFPTLRLIRFSVGNLSL-ADLQPGEWKEI 296 +G RLIR G++ L L G W E+ Sbjct: 201 EAVGVQVSRLIRVRYGDIPLPKGLPRGGWTEL 232 >Q8ZKL1 RLUF_SALTY Ribosomal large subunit pseudouridine synthase F (EC 5.4.99.-) (rRNA- uridine isomerase F) (rRNA pseudouridylate synthase F). Length = 289 Score = 72.8 bits (177), Expect = 2e-13 Identities = 49/178 (27%), Positives = 90/178 (50%), Gaps = 1/178 (0%) Frame = -1 Query: 820 VLLFNKPFDVLPQFTDESGRRTLKEFIPFND-VYAAGRLDRDSEGLLVLTNDGKLQAKLT 644 ++ NKP ++ T++ R + +F+ + ++ GRLD+DS+GL+ LTN G L K+ Sbjct: 69 LIALNKPVGIVST-TEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDLVNKIL 127 Query: 643 QPTAKTGKIYFVQVEGVPEDDALDKLRHGVVLKDGPTLPAGAELVSEPEWLWPRVPPIRE 464 + K Y V V+ D+ + + GV + T+ ++ E +++ Sbjct: 128 RAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILG--TVTKKCKVKKEAPFVF-------- 177 Query: 463 RKNIPTRWLQITLYEGRNRQVRRMTAHIGFPTLRLIRFSVGNLSLADLQPGEWKEIRD 290 +ITL +G NRQ+RRM + G+ +L R + N+SL+ + GEW+++ D Sbjct: 178 ---------RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTD 226 >P65840 RSUA_SALTY Ribosomal small subunit pseudouridine synthase A (EC 5.4.99.-) (16S pseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA- uridine isomerase A) (rRNA pseudouridylate synthase A). Length = 231 Score = 70.9 bits (172), Expect = 6e-13 Identities = 59/187 (31%), Positives = 93/187 (49%), Gaps = 6/187 (3%) Frame = -1 Query: 832 GPRRVLLFNKPFDVLPQFTDESGRRTLKEFIPFNDVY---AAGRLDRDSEGLLVLTNDGK 662 GPR +L NKP + TD+ T+ F+ Y AAGRLD D+ GL+++T+DG+ Sbjct: 59 GPRYFML-NKPQGYVCS-TDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQ 116 Query: 661 LQAKLTQPTAKTGKIYFVQVEGVPEDDALDKLRHGVVLKDGP--TLPAGAELVSEPEWLW 488 ++T P K Y V +E DD + GV L + T PA E+++ Sbjct: 117 WSHRITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVIT------ 170 Query: 487 PRVPPIRERKNIPTRWLQITLYEGRNRQVRRMTAHIGFPTLRLIRFSVGNLSL-ADLQPG 311 P++ R +T+ EGR QV+RM A +G + L R +G ++L +L PG Sbjct: 171 ----PVQVR---------LTISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPG 217 Query: 310 EWKEIRD 290 E++ + + Sbjct: 218 EYRPLTE 224 >P37412 LEU3_SALTY 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (Beta-IPM dehydrogenase) (IMDH) (3-IPM-DH). Length = 363 Score = 58.2 bits (139), Expect = 4e-09 Identities = 94/403 (23%), Positives = 161/403 (39%), Gaps = 18/403 (4%) Frame = +1 Query: 1129 IPFIEGDGIGVDVTPAMIHVVDAAVKKAYKGERKISWMEIYTGEKSTHVYGKDVWLPEET 1308 I + GDGIG +V + V+DA + + +I+ G + +G LP+ T Sbjct: 7 IAVLPGDGIGPEVMAQALKVMDAVRSRF---DMRITTSHYDVGGIAIDNHGHP--LPKAT 61 Query: 1309 LDLIREYRVAIKGPLTTPVGGGI-------RSLNVALRQQLDLYVCLRPVRYYEGTPS-- 1461 ++ + + G + P + R + LR+ L+ LRP + Y+G + Sbjct: 62 VEGCEQADAILFGSVGGPKWENLPPESQPERGALLPLRKHFKLFSNLRPAKLYQGLEAFC 121 Query: 1462 PVKHPELTN---MVIFRENAEDIYAGI-EWKAGSPEAEKVIK---FLREEMGVKKIRFPE 1620 P++ N ++ RE IY G + + GS + EK + R E+ Sbjct: 122 PLRADIAANGFDILCVRELTGGIYFGQPKGREGSGQYEKAFDTEVYHRFEI--------- 172 Query: 1621 QCGIGIKPCSEEGTKRLVRAAIEYAITNDRESVTLVHKGNIMKFTEGAFKDWGYQLAREE 1800 +R+ R A E A R VT + K N+++ + + E Sbjct: 173 --------------ERIARIAFESA-RKRRRKVTSIDKANVLQSS----------ILWRE 207 Query: 1801 FGGELIDGGPWVKIKNPNNGKEIIIKDVIADAFLQQILLRPAEYDVIACMNLNGDYISDA 1980 ++ P V++ + + D Q++ P+++DV+ C NL GD +SD Sbjct: 208 IVNDVAKTYPDVELAH-----------MYIDNATMQLIKDPSQFDVLLCSNLFGDILSDE 256 Query: 1981 LAAQVXXXXXXXXXXXXDD-CALFEATHGTAPKYAGQDKVNPGSIILSAEMMLRH-MGWF 2154 A + L+E G+AP AG++ NP + ILS ++LR+ + Sbjct: 257 CAMITGSMGMLPSASLNEQGFGLYEPAGGSAPDIAGKNIANPIAQILSLALLLRYSLDAN 316 Query: 2155 EAADLIIKGTEGAIQAKTVTYDFERLMDGAKLRKCSEFGQDII 2283 +AA I + A++ T D R GA E G DII Sbjct: 317 DAATAIEQAINRALEEGVRTGDLAR---GAAAVSTDEMG-DII 355 >Q8ZPV3 Q8ZPV3_SALTY Putative mutator MutT protein. Length = 138 Score = 45.8 bits (107), Expect = 2e-05 Identities = 27/72 (37%), Positives = 36/72 (50%), Gaps = 2/72 (2%) Frame = -2 Query: 291 MFKPHVTVACVVHAQGKFLVVEETINGKK--LWNQPAGHLEADETLLQAAERELWEETGI 118 M K VA ++ GK L+ + + + LW G +E ET QA REL EE GI Sbjct: 1 MIKKLDVVAAIIECDGKILLAQRPAHADQAGLWEFAGGKVEPGETQPQALIRELREELGI 60 Query: 117 RATPQSFLRMHQ 82 ATP ++ HQ Sbjct: 61 DATPGVYIASHQ 72 Database: st Posted date: Nov 8, 2007 7:09 PM Number of letters in database: 1,395,779 Number of sequences in database: 4429 Lambda K H 0.318 0.134 0.401 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4429 Number of Hits to DB: 10,006,061 Number of extensions: 220465 Number of successful extensions: 558 Number of sequences better than 1.0e-03: 8 Number of HSP's gapped: 553 Number of HSP's successfully gapped: 8 Length of query: 1333 Length of database: 1,395,779 Length adjustment: 96 Effective length of query: 1237 Effective length of database: 970,595 Effective search space: 1200626015 Effective search space used: 1200626015 Neighboring words threshold: 12 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 32 (16.9 bits)