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= 0471.0018.p (234 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_yvqH [KT] COG1842 Phage shock protein A (IM30), suppresses si... 131 7e-31 all2342 [KT] COG1842 Phage shock protein A (IM30), suppresses si... 87 3e-17 sll0617 [KT] COG1842 Phage shock protein A (IM30), suppresses si... 84 3e-16 BS_ydjF [KT] COG1842 Phage shock protein A (IM30), suppresses si... 82 5e-16 STM1690 [KT] COG1842 Phage shock protein A (IM30), suppresses si... 69 7e-12 >BS_yvqH [KT] COG1842 Phage shock protein A (IM30), suppresses sigma54-dependent transcription Length = 217 Score = 131 bits (330), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 13/195 (6%), Positives = 32/195 (16%), Gaps = 7/195 (3%) Query: 3 VFQRIKDMTKASVNDLLDKVEDPIVMLNQYLRDMEAEIHEAEVTVAKQMANERRMKQRVE 62 + + K +M Q + +EV ++ Sbjct: 2 AAPQRRKSMKIVEVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEKV 61 Query: 63 EAAKVSGQRAAQAELALKNGQEEVTRKLLEEKIYFDQKHAEYSELHAQAEVQAKELVQQL 122 +G K + R L + + L Sbjct: 62 TIEGWNGPVEIDQIKGKKITVVPILRAGLGMMDGVLENVPSARISVVGMYRNEETLEPVP 121 Query: 123 HDMKDEFYKLRNKRNELVSRAQMAKAKKQMSQISSVHAIESGSASLGFHRMEEKIMQLEA 182 + K + + + S + + + Sbjct: 122 YFQKLVSNIDERMALIVDPMLATGGSVIATI--DLLKKAGCSSIKVLVLVAAPEGIAAL- 178 Query: 183 EADVLRAPYSPSATA 197 +A Sbjct: 179 ----EKAHPDVELYT 189 >all2342 [KT] COG1842 Phage shock protein A (IM30), suppresses sigma54-dependent transcription Length = 217 Score = 86.7 bits (213), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 0/226 (0%), Positives = 0/226 (0%), Gaps = 6/226 (2%) Query: 1 MGVFQRIKDMTKASVNDLLDKVEDPIVMLNQYLRDMEAEIHEAEVTVAKQMANERRMKQR 60 M QR K M V L K + ++ E+ ++ A ++ Sbjct: 1 MAAPQRRKSMKIVEVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEK 60 Query: 61 VEEAAKVSGQRAAQAELALKNGQEEVTRKLLE-EKIYFDQKHAEYSELHAQAEVQAKELV 119 V Q + + L + + + A S + + Sbjct: 61 VTIEGWNGPVEIDQIKGKKITVVPILRAGLGMMDGVLENVPSARISVVGMYR-NEETLEP 119 Query: 120 QQLHDMKDEFYKLRNKRNELVSRAQMAKAKKQMSQISSVHAIESGSASLGFHRMEEKIMQ 179 R A + + A S L E I Sbjct: 120 VPYFQKLVSNIDERMALIVDPMLATGGSVIATIDLL--KKAGCSSIKVLVLVAAPEGIAA 177 Query: 180 LEAEADVLRAPYSPSATAYSKPVDAEKQLKVEEQLAALKSKLNTTP 225 LE Sbjct: 178 LEKAHP-- 221 >sll0617 [KT] COG1842 Phage shock protein A (IM30), suppresses sigma54-dependent transcription Length = 267 Score = 83.6 bits (205), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 128/237 (54%), Gaps = 10/237 (4%) Query: 1 MGVFQRIKDMTKASVNDLLDKVEDPIVMLNQYLRDMEAEIHEAEVTVAKQMANERRMKQR 60 MG+F R+ + +A++NDL+ K EDP +L Q + DM+ ++ + VA+ +A E+R +QR Sbjct: 1 MGLFDRLGRVVRANLNDLVSKAEDPEKVLEQAVIDMQEDLVQLRQAVARTIAEEKRTEQR 60 Query: 61 VEEAAKVSGQRAAQAELALKNGQEEVTRKLLEEKIYFDQKHAEYSELHAQAEVQAKELVQ 120 + + + + + +A+LAL NG+E + R+ L K A Y AQ ++ L + Sbjct: 61 LNQDTQEAKKWEDRAKLALTNGEENLAREALARKKSLTDTAAAYQTQLAQQRTMSENLRR 120 Query: 121 QLHDMKDEFYKLRNKRNELVSRAQMAKAKKQMSQISSVHAIESGSASLGFHRMEEKIMQL 180 L ++ + + + K+N L +RA+ AKA ++ Q ++ + + SA+ F RME K++ + Sbjct: 121 NLAALEAKISEAKTKKNMLQARAKAAKANAELQQ--TLGGLGTSSATSAFERMENKVLDM 178 Query: 181 EAEADVLRAPYSPSATAYSKPVDAEKQLKVEEQLAALKSKL------NTTPSSPSLD 231 EA + A ++ E VE++LAALK+ + T+ ++P L+ Sbjct: 179 EATSQA--AGELAGFGIENQFAQLEASSGVEDELAALKASMAGGALPGTSAATPQLE 233 >BS_ydjF [KT] COG1842 Phage shock protein A (IM30), suppresses sigma54-dependent transcription Length = 217 Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 0/228 (0%), Positives = 0/228 (0%), Gaps = 12/228 (5%) Query: 1 MGVFQRIKDMTKASVNDLLDKVEDPIVMLNQYLRDMEAEIHEAEVTVAKQMANERRMKQR 60 M QR K M V L K + ++ E+ ++ A ++ Sbjct: 1 MAAPQRRKSMKIVEVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEK 60 Query: 61 VEEAAKVSGQRAAQAELALKNGQEEVTRKLLEEKIYFDQKHAEYSELHAQAEVQAKELVQ 120 V Q + + L + S + + E Sbjct: 61 VTIEGWNGPVEIDQIKGKKITVVPILRAGLGMMDGVLENV---PSARISVVGMYRNEETL 117 Query: 121 --QLHD-MKDEFYKLRNKRNELVSRAQMAKAKKQMSQISSVHAIESGSASLGFHRMEEKI 177 + R A + + + E Sbjct: 118 EPVPYFQKLVSNIDERMALIVDPMLATGGSVIATIDLLKKAGCSSI-KVLVLVAAPEGIA 176 Query: 178 M----QLEAEADVLRAPYSPSATAYSKPVDAEKQLKVEEQLAALKSKL 221 + E + Sbjct: 177 ALEKAHPDVELYTASIDQGLNEH- 223 >STM1690 [KT] COG1842 Phage shock protein A (IM30), suppresses sigma54-dependent transcription Length = 217 Score = 68.9 bits (167), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 19/226 (8%), Positives = 48/226 (21%), Gaps = 14/226 (6%) Query: 1 MGVFQRIKDMTKASVNDLLDKVEDPIVMLNQYLRDMEAEIHEAEVTVAKQMANERRMKQR 60 M QR K M V L K + ++ E+ ++ A ++ Sbjct: 1 MAAPQRRKSMKIVEVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEK 60 Query: 61 VEEAAKVSGQRAAQAELALKNGQEEVTRKLLEEKIYFDQKHAEYSELHAQAEVQAKELVQ 120 V Q + + L + + Sbjct: 61 VTIEGWNGPVEIDQIKGKKITVVPILRAGLGMMD----GV---LENVPSARISVVGMYRN 113 Query: 121 QLHDMKDEFYKLRNKRNELVSRAQMAKAKKQMSQISS--VHAIESGS---ASLGFHRMEE 175 + +++ + + + + ++G L E Sbjct: 114 EETLEPVPYFQKLVSNIDERMALIVDPMLATGGSVIATIDLLKKAGCSSIKVLVLVAAPE 173 Query: 176 KIMQLEAEADVLRAPYSPSATAYSKPVDAEKQLKVEEQLAALKSKL 221 I LE + + ++ + + + Sbjct: 174 GIAALEKAHPDVELYTASIDQGLNEHGYIIPG--LGDAGDKIFGTK 217 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 0.309 0.122 0.313 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: 14,177,218 Number of extensions: 552518 Number of successful extensions: 3706 Number of sequences better than 1.0e-05: 11 Number of HSP's gapped: 3704 Number of HSP's successfully gapped: 11 Length of query: 234 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 131 Effective length of database: 26,499,029 Effective search space: 3471372799 Effective search space used: 3471372799 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 114 (48.5 bits)