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= 0327.0004.p (291 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3738 [N] COG4786 Flagellar basal body rod protein 189 4e-48 BS_flhO [N] COG4786 Flagellar basal body rod protein 132 6e-31 BB0775 [N] COG4786 Flagellar basal body rod protein 124 1e-28 TP0961 [N] COG4786 Flagellar basal body rod protein 117 1e-26 TM1543 [N] COG4786 Flagellar basal body rod protein 96 6e-20 >BH3738 [N] COG4786 Flagellar basal body rod protein Length = 274 Score = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 115/297 (38%), Positives = 170/297 (57%), Gaps = 30/297 (10%) Query: 1 MLRGLYTAAAGMVTQQRRHDTATQNIANLNTTGYKQVDSVSHAFPEVLISAMSDGRIKP- 59 MLRGL+ AAAGM+TQQ+R + T N+AN+NT GYK + AFP +LI+AM+ G + Sbjct: 1 MLRGLWGAAAGMITQQQRQEMLTNNLANVNTPGYKADQAAIRAFPNMLIAAMNTGNVPKG 60 Query: 60 ----VGRMNTGVFAEQSVSQYLQGDLIESGKPADFALSTDLQVADPATGANINFDGSGKY 115 +G + TGV+ ++ + + QGDL+E+ D AL + Sbjct: 61 VAPVIGELTTGVYLQERMPNFRQGDLVETQNNTDVALL--------------------QG 100 Query: 116 ITPDGEVIYRPQA-FFTVQDNEGNQLYTRNGSFTVNAAGEVLSAGGFKVVDSNGNPLILT 174 + P E +P A F+TVQ+ G YTRNG+FTV+ G + + GF V+ ++GNPL + Sbjct: 101 VMPTNEENGQPWALFYTVQNENGEVRYTRNGNFTVDGDGFLTTGDGFYVLGTDGNPLQV- 159 Query: 175 GSQDNLKVDGQGNLLNPATGLPSGTRLGISVVTKPQELVRDGNGVFHADDVENADIRFAN 234 + + VDG G + + A G G ++ + V P +LV++GNG+ + N Sbjct: 160 -NNEWFNVDGDGMITDEA-GAAIG-QINVVVAEDPMQLVKEGNGLLRFEGDGELPTGVGN 216 Query: 235 GTDNLQVRQGYLENSNVDATKVTVDMNAAYRAYEANQKVVQFYDSSLQKAVNEVGRI 291 N Q++QG++E SNVDA + +M AYR +EANQ+V++ YD SL KAVNEVGRI Sbjct: 217 AAVNYQLQQGFIERSNVDAAQTMTEMMQAYRTFEANQQVLRAYDESLGKAVNEVGRI 273 >BS_flhO [N] COG4786 Flagellar basal body rod protein Length = 270 Score = 132 bits (332), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 95/297 (31%), Positives = 151/297 (50%), Gaps = 33/297 (11%) Query: 1 MLRGLYTAAAGMVTQQRRHDTATQNIANLNTTGYKQVDSVSHAFPEVLISAMSD------ 54 ML+GLYTA + M+ QQRR + + NIAN NT+GYK AFPE+L+S + Sbjct: 1 MLKGLYTATSAMIAQQRRTEMLSNNIANANTSGYKADQGSMRAFPEMLLSRIESKSPAGT 60 Query: 55 GRIKPVGRMNTGVFAEQSVSQYLQGDLIESGKPADFALSTDLQVADPATGANINFDGSGK 114 R + +G +NTGV+ ++ + QG L + +P D AL + QV A Sbjct: 61 SRTE-IGSVNTGVYMQELKPLFTQGSLKSTDQPTDIAL-IENQVPMSA------------ 106 Query: 115 YITPDGEVIYRPQAFFTVQDNEGNQLYTRNGSFTVNAAGEVLSAGGFKVVDSNGNPLILT 174 E + F+ VQ +G + Y+++ +F++N + L+ G ++ ++ P+ T Sbjct: 107 ------ETNEKAALFYPVQTADGIR-YSKSSTFSLNENNQ-LTINGRPILSTDRQPI--T 156 Query: 175 GSQDNLKVDGQGNLLNPATGLPSGTRLGISVVTKPQELVRDGNGVFHADDVENADIRFAN 234 +N V G + G +G ++ + + + L RDGN ++ D + N Sbjct: 157 VDNENFTVSENGTVT--TNGRTAG-QIDVRMAEDVRNLKRDGNDLYSTADGNDLPSAAGN 213 Query: 235 GTDNLQVRQGYLENSNVDATKVTVDMNAAYRAYEANQKVVQFYDSSLQKAVNEVGRI 291 ++QG E SNVD T +M AYR++EANQKV+Q YD S+ KA NE+G+I Sbjct: 214 NQVAYSLKQGVSELSNVDVTSAYTEMTEAYRSFEANQKVIQAYDKSMDKAANEIGKI 270 >BB0775 [N] COG4786 Flagellar basal body rod protein Length = 300 Score = 124 bits (312), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 97/318 (30%), Positives = 154/318 (48%), Gaps = 65/318 (20%) Query: 1 MLRGLYTAAAGMVTQQRRHDTATQNIANLNTTGYKQVDSVSHAFPEVLISAMSD------ 54 ++RG+YTAA+GM+ ++R+ DT + N+AN++ GYK+ S+ AFPE+LI ++D Sbjct: 19 VVRGIYTAASGMMAERRKLDTVSNNLANIDLIGYKKDLSIQKAFPEMLIRRLNDDGLYKF 78 Query: 55 --GRIKP---VGRMNTGVFAEQSVSQYLQGDLIESGKPADFALSTDLQVADPATGANINF 109 G ++ VG++ TGV + + + QG L +G P D AL TD Sbjct: 79 PKGHLETAPVVGKIGTGVEENEIYTVFEQGPLKTTGNPLDLAL-TD-------------- 123 Query: 110 DGSGKYITPDGEVIYRPQAFFTVQDNEGNQLYTRNGSFTVNAAGEVLSAGGFKVVDSNGN 169 Q FF +Q ++G + YTRNGSFT+ G +++ GF V+ G Sbjct: 124 -----------------QGFFVIQTSDGER-YTRNGSFTIGKEGILVTKSGFPVLGEKGY 165 Query: 170 PLILTGSQDNLKVDGQGNLLNPATGLPSGTRL---------------GISVVT--KPQEL 212 + ++N K+ QG + + + RL I +V P+ L Sbjct: 166 IYL---KKNNFKITPQGQVFHNSNFESDPKRLVSEYENSWENYELLDTIRIVNFENPRFL 222 Query: 213 VRDGNGVFHADDVENADIRFANGTDNLQVRQGYLENSNVDATKVTVDMNAAYRAYEANQK 272 + GN ++ D + + + + ++ LE SNV+A K V M RAYEANQK Sbjct: 223 KKQGNSLW-IDTKTSGKAQEIDISLRPKIETETLEASNVNAVKEMVLMIEINRAYEANQK 281 Query: 273 VVQFYDSSLQKAVNEVGR 290 +Q DS L K +NE+G+ Sbjct: 282 TIQTEDSLLGKLINEIGK 299 >TP0961 [N] COG4786 Flagellar basal body rod protein Length = 271 Score = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 95/306 (31%), Positives = 142/306 (46%), Gaps = 53/306 (17%) Query: 1 MLRGLYTAAAGMVTQQRRHDTATQNIANLNTTGYKQVDSVSHAFPEVLISAMS-DGRIK- 58 M+RG YTAA+GM QQRR D QN+AN++TT YK+ +V +FPE+L+ ++ DG +K Sbjct: 1 MIRGWYTAASGMSAQQRRLDAIAQNLANVDTTSYKRDVAVHKSFPELLLRRVNDDGVVKN 60 Query: 59 ---------PVGRMNTGVFAEQSVSQYLQGDLIESGKPADFALSTDLQVADPATGANINF 109 VG++ GV + +++ QG L ++ P+D AL Sbjct: 61 PFGSSDVSPIVGKLGLGVEVNELFTEFEQGSLKQTQSPSDIAL----------------- 103 Query: 110 DGSGKYITPDGEVIYRPQAFFTVQDNEGNQLYTRNGSFTVNAAGEVLSAGGFKVVDSNGN 169 +G G FF ++ +G + YTRNG+F V G +++ G+ V+ NG Sbjct: 104 EGMG---------------FFVIRTPQGEE-YTRNGNFLVGVEGYLMTKNGYPVLGENG- 146 Query: 170 PLILTGSQDNLKVDGQGNLLNPATGLPSG-----TRLGISVVTKPQELVRDGNGVFHADD 224 PL L + ++ G + P RL I + L + G + Sbjct: 147 PLFL--QERYYTINQNGEIYVRPIDRPDVDGFFLDRLKIVTFENVRYLQKKGADTYMQTP 204 Query: 225 VENADIRFANGTDNLQVRQGYLENSNVDATKVTVDMNAAYRAYEANQKVVQFYDSSLQKA 284 V A I A G + QG++E SNV+ V M RAYEANQK +Q D + + Sbjct: 205 VSGAPIA-AEGPERPAAVQGFVEASNVNVVNEMVRMIEVNRAYEANQKTIQAEDGMMGRL 263 Query: 285 VNEVGR 290 NEV R Sbjct: 264 WNEVVR 269 >TM1543 [N] COG4786 Flagellar basal body rod protein Length = 249 Score = 96.3 bits (238), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 136/297 (45%), Gaps = 55/297 (18%) Query: 1 MLRGLYTAAAGMVTQQRRHDTATQNIANLNTTGYKQVDSVSHAF--PEVLISAMS--DGR 56 M RG+Y AA GM+ + D ++AN++T GYKQ A+ EV + + R Sbjct: 1 MTRGIYNAAMGMLVDMAKLDRIANDLANVDTAGYKQDREAFRAYLRREVFRQEPNPVESR 60 Query: 57 IK--PVGRMNTGVFAEQSVSQYLQGDLIESGKPADFALSTDLQVADPATGANINFDGSGK 114 K P+G + ++ + QG + E+ P A+ +G G Sbjct: 61 TKKVPIGPLEYATVLDEVRTDLSQGPVEETDVPYHLAI-----------------NGEG- 102 Query: 115 YITPDGEVIYRPQAFFTVQDNEGNQLYTRNGSFTVNAAGEVLSAGGFKVVDSNGNPLILT 174 FF ++ N G + YTRNG FTVN+ G +++ G ++D NG + Sbjct: 103 --------------FFRIEFN-GGEYYTRNGEFTVNSEGYIVTNYGGYLLDENGERVRFF 147 Query: 175 GSQDNLKVDGQGNLLNPATGLPSGTRLGISVVTKPQELVRDGNGVFHADDVENADIRFAN 234 D+ VD +G + + + TR+G+ + P++ GN +F ++ + Sbjct: 148 ---DDFTVDEEGYVRDAYGNIV--TRIGVYNLENPEKF---GNTLFTGEN--------PS 191 Query: 235 GTDNLQVRQGYLENSNVDATKVTVDMNAAYRAYEANQKVVQFYDSSLQKAVNEVGRI 291 ++N ++ QGY+E SNVDA K VDM +A R YE +Q+ V D K +N + + Sbjct: 192 PSENFRIMQGYVEKSNVDALKAMVDMISAMRHYELSQRAVTVNDELNGKLINSLASL 248 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 0.131 0.366 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: 21,899,011 Number of extensions: 973080 Number of successful extensions: 1571 Number of sequences better than 1.0e-05: 36 Number of HSP's gapped: 1514 Number of HSP's successfully gapped: 40 Length of query: 291 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 186 Effective length of database: 26,268,361 Effective search space: 4885915146 Effective search space used: 4885915146 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)