BLASTP 2.2.22 [Sep-27-2009] 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. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= batch____ (94 letters) Database: uniref50.fasta 3,077,464 sequences; 1,040,396,356 total letters Searching..................................................done Results from round 1 Score E Sequences producing significant alignments: (bits) Value UniRef50_P18033 Protein traQ n=35 Tax=root RepID=TRAQ_ECOLI 190 2e-47 UniRef50_A4TSZ7 Conjugative transfer fimbrial synthesis protein ... 78 1e-13 UniRef50_A6TII3 F pilin synthesis n=3 Tax=Klebsiella pneumoniae ... 64 1e-09 >UniRef50_P18033 Protein traQ n=35 Tax=root RepID=TRAQ_ECOLI Length = 94 Score = 190 bits (482), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 94/94 (100%), Positives = 94/94 (100%) Query: 1 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL 60 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL Sbjct: 1 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL 60 Query: 61 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH 94 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH Sbjct: 61 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH 94 >UniRef50_A4TSZ7 Conjugative transfer fimbrial synthesis protein n=2 Tax=Yersinia pestis RepID=A4TSZ7_YERPP Length = 82 Score = 77.8 bits (190), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 37/82 (45%), Positives = 55/82 (67%), Gaps = 2/82 (2%) Query: 2 ISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVLD 61 + K RF LP D+ G+WV SLG+WFHIV+RLV +P MA LA++I +VL+G Y++++ Sbjct: 1 MRKFRFRLPEFDVPGLWVLSLGIWFHIVSRLVRREPEMAILLAQIIGVSMVLWGGYRIIN 60 Query: 62 AWI--ARVSREEREALEARQQA 81 WI AR + + R+A R + Sbjct: 61 RWIDAAREAEKARDAGGCRHEP 82 >UniRef50_A6TII3 F pilin synthesis n=3 Tax=Klebsiella pneumoniae RepID=A6TII3_KLEP7 Length = 93 Score = 63.9 bits (154), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 28/60 (46%), Positives = 41/60 (68%) Query: 5 RRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVLDAWI 64 R P LDITGMWV ++GV+FH++ARLV +P +A E+ +V+FG Y++L+A I Sbjct: 16 RNIRFPDLDITGMWVLAVGVFFHLIARLVRKQPELAVQAGEIFGLGMVVFGGYRILNALI 75 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P18033 Protein traQ n=35 Tax=root RepID=TRAQ_ECOLI 142 4e-33 UniRef50_A4TSZ7 Conjugative transfer fimbrial synthesis protein ... 120 1e-26 UniRef50_A6TII3 F pilin synthesis n=3 Tax=Klebsiella pneumoniae ... 97 2e-19 Sequences not found previously or not previously below threshold: CONVERGED! >UniRef50_P18033 Protein traQ n=35 Tax=root RepID=TRAQ_ECOLI Length = 94 Score = 142 bits (358), Expect = 4e-33, Method: Composition-based stats. Identities = 94/94 (100%), Positives = 94/94 (100%) Query: 1 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL 60 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL Sbjct: 1 MISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVL 60 Query: 61 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH 94 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH Sbjct: 61 DAWIARVSREEREALEARQQAMMEGQQEGGHVSH 94 >UniRef50_A4TSZ7 Conjugative transfer fimbrial synthesis protein n=2 Tax=Yersinia pestis RepID=A4TSZ7_YERPP Length = 82 Score = 120 bits (301), Expect = 1e-26, Method: Composition-based stats. Identities = 37/82 (45%), Positives = 55/82 (67%), Gaps = 2/82 (2%) Query: 2 ISKRRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVLD 61 + K RF LP D+ G+WV SLG+WFHIV+RLV +P MA LA++I +VL+G Y++++ Sbjct: 1 MRKFRFRLPEFDVPGLWVLSLGIWFHIVSRLVRREPEMAILLAQIIGVSMVLWGGYRIIN 60 Query: 62 AWI--ARVSREEREALEARQQA 81 WI AR + + R+A R + Sbjct: 61 RWIDAAREAEKARDAGGCRHEP 82 >UniRef50_A6TII3 F pilin synthesis n=3 Tax=Klebsiella pneumoniae RepID=A6TII3_KLEP7 Length = 93 Score = 96.9 bits (240), Expect = 2e-19, Method: Composition-based stats. Identities = 28/60 (46%), Positives = 41/60 (68%) Query: 5 RRFSLPRLDITGMWVFSLGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYQVLDAWI 64 R P LDITGMWV ++GV+FH++ARLV +P +A E+ +V+FG Y++L+A I Sbjct: 16 RNIRFPDLDITGMWVLAVGVFFHLIARLVRKQPELAVQAGEIFGLGMVVFGGYRILNALI 75 Database: uniref50.fasta Posted date: Mar 8, 2010 10:38 AM Number of letters in database: 1,040,396,356 Number of sequences in database: 3,077,464 Lambda K H 0.322 0.145 0.430 Lambda K H 0.267 0.0447 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 392,080,868 Number of Sequences: 3077464 Number of extensions: 13808954 Number of successful extensions: 55685 Number of sequences better than 1.0e-01: 3 Number of HSP's better than 0.1 without gapping: 6 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 55678 Number of HSP's gapped (non-prelim): 6 length of query: 94 length of database: 1,040,396,356 effective HSP length: 63 effective length of query: 31 effective length of database: 846,516,124 effective search space: 26241999844 effective search space used: 26241999844 T: 11 A: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.4 bits) S2: 87 (38.0 bits)