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= 0124.0015.p (663 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1761 [C] COG2181 Nitrate reductase gamma subunit 605 e-173 TM1761 [L] COG0556 Helicase subunit of the DNA excision repair c... 605 e-173 STM1753_1 [T] COG0784 FOG: CheY-like receiver 122 1e-27 TM1753 [L] COG0556 Helicase subunit of the DNA excision repair c... 122 1e-27 DR1624 [LKJ] COG0513 Superfamily II DNA and RNA helicases 53 2e-06 >STM1761 [C] COG2181 Nitrate reductase gamma subunit Length = 346 Score = 605 bits (1561), Expect = e-173, Method: Compositional matrix adjust. Identities = 0/641 (0%), Positives = 0/641 (0%), Gaps = 5/641 (0%) Query: 11 FQLESEYTPQGDQPHAIQELVDGIRQGKKHQTLLGATGTGKTFTIAQMISKLNRPTLVIA 70 ++ + + G + + + + + P Sbjct: 2 QYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPET 61 Query: 71 HNKTLAAQLASEFKEFFPSNXXXXXXXXXXXXQPEAYIPSSDTYIEKDSSINEEIDKLRH 130 T K + I K+ R Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRL 121 Query: 131 SATSSLFERRDVIIVASVSCIYGLGSPKEYGSLLLSLRVGMEKPRNQILSRLVDIQYQRN 190 + + S + + L Q ++ I Sbjct: 122 QTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSNE 181 Query: 191 DINFVRGTFRVRGDVVEIFPASQGEHAIRVELFGDEIERITEIDVLTGELIGERDHVAIF 250 V + + + E+ EL+ Sbjct: 182 TAFGVMRYLHLADKHDLPRIVTIQN-PYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFGT 240 Query: 251 PASHFVTQEETMRVALVNIXXXXXXXXAVLRDAGKLLEAQRLEQRTRYDIEMMKEVGFCS 310 ++ + + A + V Sbjct: 241 LTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVAAYVDIARRHGLDPAQMALAFVRRQP 300 Query: 311 GIENYSGPLTFREPGATPYTLMDYFPDDMLIVIDESHVTLPQIRAMYNGDRARKTVLVEH 370 Sbjct: 301 360 Query: 371 GFRLPSALDNRPLQFEEFEDKVNQIVYVSATPGPYELEHCDTMVEQIIRPTGLLDPIIEV 430 Sbjct: 361 420 Query: 431 RPTEGQIDDLISXXXXXXXXXXXXXXTTLTKKMSEDLTDYFKEIGIKVRYMHSDIKTLER 490 Sbjct: 421 480 Query: 491 MAILRDLRLGTFHVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 550 Sbjct: 481 540 Query: 551 SNGRVIMYGDHITESMEKAMTETQRRRETQIAYNEKHGITPTTINKKVR-DIIEATKVAE 609 Sbjct: 541 600 Query: 610 SKAEYLTGVGGKMSKKDRQS---LMQRLEAEMKDAAKNLQF 647 Sbjct: 601 641 >TM1761 [L] COG0556 Helicase subunit of the DNA excision repair complex Length = 673 Score = 605 bits (1561), Expect = e-173, Method: Compositional matrix adjust. Identities = 37/641 (5%), Positives = 119/641 (18%), Gaps = 5/641 (0%) Query: 11 FQLESEYTPQGDQPHAIQELVDGIRQGKKHQTLLGATGTGKTFTIAQMISKLNRPTLVIA 70 + L + T A A+ I+ + Sbjct: 2 RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAR 61 Query: 71 HNKTLAAQLASEFKEFFPSNXXXXXXXXXXXXQPEAYIPSSDTYIEKDSSINEEIDKLRH 130 K Q + + A + + D + + K Sbjct: 62 EMKERVGQTLGRKEARGLMISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELT 121 Query: 131 SATSSLFERRDVIIVASVSCIYGLGSPKEYGSLLLSLRVGMEKPRNQILSRLVDIQYQRN 190 + +++++S + L Sbjct: 122 EGLIEDDKVLLQQLISTISNWKNDLKTPSQAAASAIGERDRIFAHCYGLYDAHLKACNVL 181 Query: 191 DINFVRGTFRVRGDVVEIFPASQGEHAIRVELFGDEIERITEIDVLTGELIGERDHVAIF 250 D + + + E IR L + + T L L+G R + Sbjct: 182 DFDDLILLPTLLLQANEEVRKRWQN-KIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVV 240 Query: 251 PASHFVTQEETMRVALVNIXXXXXXXXAVLRDAGKLLEAQRLEQRTRYDIEMMKEVGFCS 310 + + + + + + F Sbjct: 241 GDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEK 300 Query: 311 GIENYSGPLTFREPGATPYTLMDYFPDDMLIVIDESHVTLPQIRAMYNGDRARKTVLVEH 370 + + G + + + ++ ++ + E Sbjct: 301 RLFSELGYGAELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEK 360 Query: 371 GFRLPSALDNRPLQFEEFEDKVNQIVYVSATPGPYELEHCDTMVEQIIRPTGLLDPIIEV 430 F + + + + + ++ Sbjct: 361 FLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLKK 420 Query: 431 RPTEGQIDDLISXXXXXXXXXXXXXXTTLTKKMSEDLTDYFKEIGIKVRYMHSDIKTLER 490 + + ++ + + R + ++ L Sbjct: 421 LGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIAAVRDLIH 480 Query: 491 MAILRDLRLGTFHVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 550 T + + ++ + +L+ + + ++ Sbjct: 481 GMDYESWLYETSPSPKAAEMRMKNVNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLRDMM 540 Query: 551 SNGRVIMYGDHITESMEKAMTETQRRRETQIAYNEKHGITPTTINKKVR-DIIEATKVAE 609 G D + A + + E ++I++ + V Sbjct: 541 ERGESEEELDQVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGI 600 Query: 610 SKAEYLTGVGGKMSKKDRQS---LMQRLEAEMKDAAKNLQF 647 ++A+ ++ + Sbjct: 601 TRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDLIWE 641 >STM1753_1 [T] COG0784 FOG: CheY-like receiver Length = 134 Score = 122 bits (307), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 4/84 (4%), Positives = 13/84 (15%) Query: 507 GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNSNGRVIMYGDHITESM 566 + L + ++ + + + + + Sbjct: 12 IVEDEPVFRSLLDSWFSSLGATTALAGDGVDALELMGRFTPDLMICDIAMPRMNGLKLVE 71 Query: 567 EKAMTETQRRRETQIAYNEKHGIT 590 Q A I Sbjct: 72 NLRNRGDQTPILVISATENMADIA 95 >TM1753 [L] COG0556 Helicase subunit of the DNA excision repair complex Length = 673 Score = 122 bits (307), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 5/84 (5%), Positives = 16/84 (19%) Query: 507 GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNSNGRVIMYGDHITESM 566 + S + +K L A +N + + +++ Sbjct: 12 EFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTL 71 Query: 567 EKAMTETQRRRETQIAYNEKHGIT 590 + + Sbjct: 72 GRKEARGLMISTFHTLGLDIIKRE 95 >DR1624 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 560 Score = 52.8 bits (125), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/142 (31%), Positives = 69/142 (48%), Gaps = 15/142 (10%) Query: 458 TLTKKMSEDLTDYFKEIGIKVRYMHSDIKTLERMAILRDLRLGTFHVLVGINLLREGLDL 517 T TK+ +++L + G++ +H D+ +R L R G VLV ++ GLD+ Sbjct: 128 TRTKREADELANELIHRGLESEALHGDLAQTQRERALGAFRSGRVGVLVATDVAARGLDI 187 Query: 518 PEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNSNGRVIMYGDHITESMEKAMTETQ 574 PEV LV L D E ++ RS R+ GRA R +IMYGD E+ E E Sbjct: 188 PEVDLVVQYHLPQDPESYVHRSGRT-----GRAGRTGTA-IIMYGDR--ENREVMGLE-- 237 Query: 575 RRRETQIAYNEKHGITPTTINK 596 R T + + E+ TP+ + + Sbjct: 238 --RITGVRFKERPLPTPSEVAQ 257 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.318 0.135 0.375 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 43,193,571 Number of extensions: 1759067 Number of successful extensions: 4391 Number of sequences better than 1.0e-05: 6 Number of HSP's gapped: 4417 Number of HSP's successfully gapped: 6 Length of query: 663 Length of database: 38,378,431 Length adjustment: 113 Effective length of query: 550 Effective length of database: 25,345,689 Effective search space: 13940128950 Effective search space used: 13940128950 Neighboring words threshold: 11 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: 119 (50.4 bits)