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= 0124.0013.p (289 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC1845 [N] COG1360 Flagellar motor protein 118 1e-26 BS_ytxE [N] COG1360 Flagellar motor protein 117 2e-26 BS_motB [N] COG1360 Flagellar motor protein 114 2e-25 CAC0305 [N] COG1360 Flagellar motor protein 111 2e-24 PA1461 [N] COG1360 Flagellar motor protein 102 6e-22 >CAC1845 [N] COG1360 Flagellar motor protein Length = 254 Score = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 126/272 (46%), Gaps = 46/272 (16%) Query: 18 DRWMITYADXXXXXXXXXXXXYAMSSLDTQKFNIVTGALSDTFKSGNPVLE---GGNGVL 74 + W+I YAD +AMS +D +K ++ S F SG VL GNGV+ Sbjct: 15 ETWLIPYADMLTLLLALFIVMFAMSKVDNKKLQKMSQEFSAIFSSGKGVLVESGTGNGVV 74 Query: 75 DGQKGITSEGTDNGQKGEPGDAA--ESGMNQKQQNXXXXXXXXXXXXXXXXXXREQAFRD 132 K E T + + E ++ + MN+ ++N Sbjct: 75 SSMK----ESTPSNAQSESNNSKIEQDMMNEIKKN------------------------- 105 Query: 133 QEAKLAALMGVITKYVEDNNLGDQIFVADKPQGIAITLSDRYLFDAGRAELKAPAFPALR 192 I + V +N D+I +G+AI++ D LF +G + + A P L Sbjct: 106 -----------IDQKVAENGYTDKIKSKITEEGLAISIQDIILFRSGDSTVLANIQPMLI 154 Query: 193 QLSGLFRGIGATISIEGHTDDTPVSAGSRYNDNWELSGARALSVLRFFLDNEGLSPGKFQ 252 ++S + + I + GHTD+ P+ A ++ NWELS +RAL+V++F + + G+ +F Sbjct: 155 EISKMIHSLDNNIKVTGHTDNIPI-ATETFHSNWELSASRALNVMKFMVTSGGVDEKRFS 213 Query: 253 YAGYADTRPAASNSTPEGRQKNRRVEITVLRQ 284 Y + P +NST +GR +NRRVEI +LR+ Sbjct: 214 IQAYGEYSPEETNSTEQGRARNRRVEIFILRK 245 >BS_ytxE [N] COG1360 Flagellar motor protein Length = 242 Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 75/262 (28%), Positives = 112/262 (42%), Gaps = 51/262 (19%) Query: 20 WMITYADXXXXXXXXXXXXYAMSSLDTQKFNIVTGALSDTFKSGNPVLEGGNGVLDGQKG 79 WM+T+ D ++MS +D QKF ++ + GNG+ Q Sbjct: 24 WMVTFTDLITLILVFFILLFSMSQIDLQKFKAAVDSIQ----------KEGNGLQPDQTS 73 Query: 80 ITSEGTDNGQKGEPGDAAESGMNQKQQNXXXXXXXXXXXXXXXXXXREQAFRDQEAKLAA 139 I + T P D + QE + Sbjct: 74 IEKKNTS------PSDT----------------------------------KKQEDQQDQ 93 Query: 140 LMGVITKYVEDNNLGDQIFVADKPQGIAITLSDRYLFDAGRAELKAPAFPALRQLSGLFR 199 L+ + Y++DN+L Q+ +G+ + L + LFD G A++ A L Q++ L + Sbjct: 94 LLKKVNTYIKDNHLKAQMTAKRDERGVVLVLQEAVLFDTGEAKVLKNAETLLHQIAVLLQ 153 Query: 200 GIGATISIEGHTDDTPVSAGSRYNDNWELSGARALSVLRFFLDNEGLSPGKFQYAGYADT 259 I I +EGHTD +S RY NWELS ARA V+++F E L +F GYADT Sbjct: 154 TIPNDIQVEGHTDSRNIST-YRYPSNWELSAARASGVIQYFTSKEKLPSKRFIAVGYADT 212 Query: 260 RPAASNSTPEGRQKNRRVEITV 281 +P N T E ++NRRVEI + Sbjct: 213 KPVKDNKTNEHMKENRRVEIVI 234 >BS_motB [N] COG1360 Flagellar motor protein Length = 261 Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/266 (29%), Positives = 120/266 (45%), Gaps = 31/266 (11%) Query: 18 DRWMITYADXXXXXXXXXXXXYAMSSLDTQKFNIVTGALSDTFKSGNPVLEGGNGVLDGQ 77 + W++ YAD YA SS+D KF +++ KS N V GG GVLD Sbjct: 16 ESWLVPYADILTLLLALFIVLYASSSIDAAKFQMLS-------KSFNEVFTGGTGVLDYS 68 Query: 78 KGITSEGTDNGQKGEPGDAAESGMNQKQQNXXXXXXXXXXXXXXXXXXREQAFRDQEAKL 137 E +G + E N+K++ DQE +L Sbjct: 69 SVTPPENESDGIDEVKKEKEEKEKNKKEKEKAA---------------------DQE-EL 106 Query: 138 AALMGVITKYVEDNNLGDQIFVADKPQGIAITLSDRYLFDAGRAELKAPAFPALRQLSGL 197 + + K+++D L Q+ +G+ IT+ D FD+G+A ++ P +++S L Sbjct: 107 ENVKSQVEKFIKDKKLEHQLETKMTSEGLLITIKDSIFFDSGKATIRKEDVPLAKEISNL 166 Query: 198 FR-GIGATISIEGHTDDTPVSAGSRYNDNWELSGARALSVLRFFLDNEGLSPGKFQYAGY 256 I I GHTD+ P+ S + NW LS RA++ + ++N L F GY Sbjct: 167 LVINPPRNIIISGHTDNMPIK-NSEFQSNWHLSVMRAVNFMGLLIENPKLDAKVFSAKGY 225 Query: 257 ADTRPAASNSTPEGRQKNRRVEITVL 282 + +P ASN T EGR KNRRVE+ +L Sbjct: 226 GEYKPVASNKTAEGRSKNRRVEVLIL 251 >CAC0305 [N] COG1360 Flagellar motor protein Length = 256 Score = 111 bits (277), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 75/282 (26%), Positives = 126/282 (44%), Gaps = 40/282 (14%) Query: 1 MRQRNRRKPRAGGRESRDRWMITYADXXXXXXXXXXXXYAMSSLDTQKFNIVTGALSDTF 60 M+++ +P E+ +RW++TY+D YA S++ +KF + +L F Sbjct: 1 MKRKKHEEP-----ENSERWLLTYSDLITLLMAFFIVMYASSTVSKEKFAQIAQSLKVGF 55 Query: 61 KSGNPVLEGGNGVLDGQKGITSEGTDNGQKGEPGDAAESGMNQKQQNXXXXXXXXXXXXX 120 G V+ Q + + T + E + S Sbjct: 56 NGA-----SGKTVIGNQDAVDIKSTSSYVTQEASKQSAS--------------------- 89 Query: 121 XXXXXREQAFRDQEAKLAALMGVITKYVEDNNLGDQIFVADKPQGIAITLSDRYLFDAGR 180 A + +E KL + I +YV N + + + +G+ +++ D +FD GR Sbjct: 90 --------AEKAEENKLKDVKKKIDQYVNQNGMQGSVSTNLQEKGLVVSIVDTLMFDTGR 141 Query: 181 AELKAPAFPALRQLSGLFRGIGATISIEGHTDDTPVSAGSRYNDNWELSGARALSVLRFF 240 AE+K L ++ + + I I IEGHTD+TP+S S+Y N EL AR+ +V F Sbjct: 142 AEVKPDFQKKLVEIGEILKTIDNYIRIEGHTDNTPIS-NSQYASNIELGSARSNNVEHLF 200 Query: 241 LDNEGLSPGKFQYAGYADTRPAASNSTPEGRQKNRRVEITVL 282 +D + + YADTRP A N++ G+ +NRRV+I +L Sbjct: 201 IDVSKIPVTQMYTVSYADTRPVADNNSEAGKARNRRVDIVIL 242 >PA1461 [N] COG1360 Flagellar motor protein Length = 64 Score = 102 bits (255), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 0/285 (0%), Positives = 0/285 (0%), Gaps = 46/285 (16%) Query: 6 RRKPRAGGRESRDRWMITYADXXXXXXXXXXXXYAMSSLDTQKFNIVTGALSDTF----K 61 + + ++ + Sbjct: 3 YDNVKPCPFCGCPSVTVKAISGYYRAKCNGCESRTGYGGSEKEALERWNKRTTGNNNGGV 62 Query: 62 SGNPVLEGGNGVLDGQKGITSEGTDNGQKGEPGDAAESGMNQKQQNXXXXXXXXXXXXXX 121 Sbjct: 63 --------------------- 101 Query: 122 XXXXREQAFRDQEAKLAALMGVITKYVEDNNLGDQIFVADKPQGIAITLSDRYLFDAGRA 181 Sbjct: 102 ------------------- 142 Query: 182 ELKAPAFPALRQLSGLFRGIGATISIEGHTDDTPVSAGSRYNDNWELSGARALSVLRFFL 241 Sbjct: 143 -- 200 Query: 242 DNEGLSPGKFQYAGYADTRPAASNSTPEGRQKNRRVEITVLRQLQ 286 Sbjct: 201 245 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 0.313 0.132 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: 20,008,471 Number of extensions: 749730 Number of successful extensions: 956 Number of sequences better than 1.0e-05: 61 Number of HSP's gapped: 951 Number of HSP's successfully gapped: 61 Length of query: 289 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 184 Effective length of database: 26,268,361 Effective search space: 4833378424 Effective search space used: 4833378424 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 115 (48.9 bits)