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= 0042.0005.p (365 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_149186.1| Spore germination protein, GRKB [Clostridium ac... 160 5e-38 gb|AAB61395.1| germination protein 149 1e-34 ref|NP_242802.1| spore germination protein KB [Bacillus halodura... 148 2e-34 ref|NP_388254.1| gerKB [Bacillus subtilis] >gi|1708044|sp|P49940... 135 2e-30 ref|NP_348154.1| Spore germination protein GerKB [Clostridium ac... 115 1e-24 >ref|NP_149186.1| Spore germination protein, GRKB [Clostridium acetobutylicum] gb|AAK76768.1| Spore germination protein, GRKB [Clostridium acetobutylicum] Length = 361 Score = 160 bits (405), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 93/282 (32%), Positives = 156/282 (55%), Gaps = 1/282 (0%) Query: 6 QVSALQLSFMIMLFEIGSTPLFLLGAKAKQDSWLAMCTGSAAGLVLLMLLMWIQYRSRHN 65 ++S QL +I +FE+GSTP+F LG +A+Q++W+ + GL +L + +Q Sbjct: 3 RLSKHQLFTLIFVFEVGSTPIFALGIEAEQNAWIVVLLALLIGLFILWSYLELQKAFPTK 62 Query: 66 DLIGMLALHFGKIAGSALGGMYSLYFAYQSMRNVRDLGELTALTMLPNSPMSVTMLIFVG 125 L+ + GK G L +Y++ F + RN+R+ EL A+T++P++P+ + + F+G Sbjct: 63 GLVEIFTNILGKPLGLPLCILYAMGFIWGCGRNLREFIELIAMTVIPHTPLWIILFFFIG 122 Query: 126 TALYAIWKGTEVVFRLPEVLLPVVLSFYAVLVLLLGIMGSLDFNHLAPVFENGFKPIADA 185 +LY KG EV R E + P ++ F +L L+ I G + F +L P+ +G KPI Sbjct: 123 LSLYVSVKGFEVFARTTEFIFPTIIFFLIILFALISISGEVHFKNLTPILGDGLKPILK- 181 Query: 186 ALPDIVSFPFGQMIVFLMLWSLWDKPGVPVKSTVTAYLLISIFLIFMNALNIAVLGPSIA 245 +LP +V FPFG++ VFLM W + K++ A +L I L F +NI LG Sbjct: 182 SLPGVVWFPFGEIYVFLMYWHYVNDINTIKKASFKAVILSGILLCFTTMINICTLGAKYT 241 Query: 246 GTSQLPFLKTVRTLSSLKFIERLDILVTIQLFIGLLIKMMLF 287 + +P ++T+R ++ I LD++ I +F+G KM L+ Sbjct: 242 SIATIPLVETLRLINIGDIITHLDVIGVIIIFLGGFFKMTLY 283 >gb|AAB61395.1| germination protein Length = 329 Score = 149 bits (376), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 105/331 (31%), Positives = 169/331 (51%), Gaps = 8/331 (2%) Query: 3 NKEQVSALQLSFMIMLFEIGSTPLFLLGAKAKQDSWLAMCTGSAAGLVLLMLLMWIQYRS 62 K ++SA QL +++LFE+GS L L AKQD+WLA+ G L++ + S Sbjct: 2 EKAKISATQLFILMVLFELGSALLVPLAMGAKQDAWLAILIGMLCSF--FFFLIYHKLYS 59 Query: 63 RHNDLIGMLALH--FGKIAGSALGGMYSLYFAYQSMRNVRDLGELTALTMLPNSPMSVTM 120 + DL+ + GK+ G+ L +Y +YF Y + R +RD GE+ P++P+ + Sbjct: 60 YYPDLLPTEYMQKILGKVLGTLLAFIYIVYFLYDASRVLRDFGEMLLTFAYPDTPLFIAN 119 Query: 121 LIFVGTALYAIWKGTEVVFRLPEVLLPVVLSFYAVLVLLLGIM-GSLDFNHLAPVFENGF 179 + + +Y KG E + R E+L + + F A+ +L I G +DF +L PV + G Sbjct: 120 ALLMLVIIYITRKGIEAIARSGELLF-IFMYFLAIAGFILIISSGLIDFKNLQPVLKEGI 178 Query: 180 KPIADAALPDIVSFPFGQMIVFLMLWSLWDKPGVPVKSTVTAYLLISIFLIFMNALNIAV 239 P+A AL + + FPF + IVF ML P + + A L I LI +NI+V Sbjct: 179 LPVAKVALTETLYFPFTEAIVFTMLLPYLSNPKKANVTMLCATGLSGINLIITMIINISV 238 Query: 240 LGPSIAGTSQLPFLKTVRTLSSLKFIERLDILVTIQLFIGLLIKM-MLFYFCSVKALTGL 298 LG + SQ P L TV+T+ F+ERLD+ + IG+ K+ +LFY + T Sbjct: 239 LGVDLTTRSQFPLLSTVQTIQVADFLERLDVFFMFAMVIGIYFKVSILFYASIISTATLF 298 Query: 299 TGKSAKWWVFPVGAVIYGASF-LERDYTQHI 328 KS +P+G ++ S + ++ +H+ Sbjct: 299 KIKSPSRLAYPLGIIVLFLSITIASNFQEHL 329 >ref|NP_242802.1| spore germination protein KB [Bacillus halodurans] pir||H83891 spore germination protein KB gerKB [imported] - Bacillus halodurans (strain C-125) dbj|BAB05655.1| spore germination protein KB [Bacillus halodurans] Length = 373 Score = 148 bits (374), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 108/361 (29%), Positives = 178/361 (49%), Gaps = 5/361 (1%) Query: 1 MHNKEQVSALQLSFMIMLFEIGSTPLFLLGAKAKQDSWLAMCTGSAAGLVLLMLLMWIQY 60 M N +S Q MI+LFE+GS + +G A QD+W+ + AGLVL +L ++ Sbjct: 1 MKNGTTISTYQFFSMIVLFELGSAIVVGVGLDAGQDAWMTVLIAMLAGLVLYCVLYYLHS 60 Query: 61 RSRHNDLIGMLALHFGKIAGSALGGMYSLYFAYQSMRNVRDLGELTALTMLPNSPMSVTM 120 + I L G +G +Y LYF Y + R +RD G+L +ML ++P+ V Sbjct: 61 HFPSDTWIAYLQKVLTVPIGWFIGFLYCLYFIYIATRVLRDFGDLLTTSMLTDTPLMVIN 120 Query: 121 LIFVGTALYAIWKGTEVVFRLPEVLLPVVLSFYAVLVLLLGIMGSLDFNHLAPVFENGFK 180 L+ V +Y ++ G V+ R E L ++ V L+ + +L PV ENG+ Sbjct: 121 LLMVFVIVYVLFHGINVLARTGEFFLIILFFIGFFSVTLIFSTDLYNIKNLMPVLENGWM 180 Query: 181 PIADAALPDIVSFPFGQMIVFLMLWSLWDKPGVPVKSTVTAYLLISIFLIFMNALNIAVL 240 P+ A P +FPFG++IVF ML+ +K + ++ + A + + L L I VL Sbjct: 181 PVLREAFPVTFTFPFGEIIVFTMLFHFLNKKEMGLRIGLLAIGMSGLLLALTTILYIIVL 240 Query: 241 GPSIAGTSQLPFLKTVRTLSSLKFIERLDILVTIQLFIGLLIKMMLFYFCSVKALTGLTG 300 G I + P L V + + FIERLD L L + + K+ +F++ V + L Sbjct: 241 GVDITNRATFPLLTMVGKIQAADFIERLDALAVTVLVVAMFFKVAIFFYAGVAGFSELFK 300 Query: 301 KSAKWWVFPV-GAV-IYGASFLERDYTQHIAIGLG--PSLKIDPVFQVAIPLLLAVSILL 356 + P+ GA+ ++ + + ++++H+ GL P P FQV IPL++ +L+ Sbjct: 301 VDKFQKLLPLFGAILVFNSVHIAANFSEHLKEGLEVVPYYLHLP-FQVGIPLIVLAIVLI 359 Query: 357 R 357 R Sbjct: 360 R 360 >ref|NP_388254.1| gerKB [Bacillus subtilis] sp|P49940|GRKB_BACSU Spore germination protein KB pir||I39860 germination response protein gerKB - Bacillus subtilis dbj|BAA11256.1| GerKB [Bacillus subtilis] dbj|BAA09004.1| spore germination protein GerKB [Bacillus subtilis] emb|CAB12180.1| gerKB [Bacillus subtilis subsp. subtilis str. 168] Length = 373 Score = 135 bits (339), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 98/338 (28%), Positives = 180/338 (53%), Gaps = 12/338 (3%) Query: 3 NKEQVSALQLSFMIMLFEIGSTPLFLLGAKAKQDSWLAMCTGSAAGLVLLMLLMWIQYRS 62 K ++S QL MI++FE+GS+ L G+ A +D+W+A+ G A GL L L I Y+ Sbjct: 2 EKARISIRQLFVMIIIFELGSSLLITPGSMAGRDAWIAVLLGCAIGLFLFYLYQGI-YQC 60 Query: 63 RHNDLIGMLALHFGKIAGSALGGMYS----LYFAYQSMRNVRDLGELTALTMLPNSPMSV 118 N + + G+ L ++S LYFAY + R +RD GE+ ++P+ + Sbjct: 61 YPNS---SPKEYMDDMLGTKLSWLFSFLYILYFAYIAARVLRDFGEMLLTFAYHDTPIII 117 Query: 119 TMLIFVGTALYAIWKGTEVVFRLPEVLLPVVLSFYAVLVLLLGIMGSLDFNHLAPVFENG 178 + + ++YA+ KG EV+ R E+L + A+ ++L+ + G++D ++L PV NG Sbjct: 118 VNALLMVVSIYAVRKGIEVLARAAELLFGAMYLLGAIGLVLIIVSGTIDPHNLKPVLANG 177 Query: 179 FKPIADAALPDIVSFPFGQMIVFLMLW-SLWDKPGVPVKSTVTAYLLISIFLIFMNALNI 237 P+ + + PFG++++F+M++ +L D+ V K + A + + + A+NI Sbjct: 178 ISPVLHSVFTQTMYVPFGEVVLFVMIFPNLNDRKDVK-KMGMIAMAISGLIVALTVAINI 236 Query: 238 AVLGPSIAGTSQLPFLKTVRTLSSLKFIERLDILVTIQLFIGLLIKMMLFYFCSVKALTG 297 +VL + SQ P L T++T+ +F++RLD+ + L IG K+ L+ + +V + Sbjct: 237 SVLDVDLTLRSQFPLLSTIQTIKVEEFLDRLDVFFMLALIIGGFFKVSLYLYATVVGTST 296 Query: 298 L-TGKSAKWWVFPVGAVIYGASF-LERDYTQHIAIGLG 333 L K+ +P+G I S + ++++H+ GL Sbjct: 297 LFKEKNPSQLAYPMGLGILILSITIATNFSEHLNEGLN 334 >ref|NP_348154.1| Spore germination protein GerKB [Clostridium acetobutylicum] pir||C97088 spore germination protein GerKB [imported] - Clostridium acetobutylicum gb|AAK79494.1| Spore germination protein GerKB [Clostridium acetobutylicum] Length = 365 Score = 115 bits (289), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 83/282 (29%), Positives = 151/282 (53%), Gaps = 1/282 (0%) Query: 6 QVSALQLSFMIMLFEIGSTPLFLLGAKAKQDSWLAMCTGSAAGLVLLMLLMWIQYRSRHN 65 +S QL + +F+IGSTPLF LG +A+QD+W+ + GL++ + + Y Sbjct: 3 HLSKHQLFTLTFIFQIGSTPLFALGIEAEQDAWIVILLALLIGLLMAWISTELFYIFPDK 62 Query: 66 DLIGMLALHFGKIAGSALGGMYSLYFAYQSMRNVRDLGELTALTMLPNSPMSVTMLIFVG 125 +LI ++ + GK G +Y++ F + RN+R+ EL L LP+ + + +L ++ Sbjct: 63 NLIEIINIILGKKLGLPFCIVYAMVFIWACGRNLREFSELILLISLPHIHLWIIILSYIL 122 Query: 126 TALYAIWKGTEVVFRLPEVLLPVVLSFYAVLVLLLGIMGSLDFNHLAPVFENGFKPIADA 185 ALY ++KG E + RL E+++P + F + +++ S +L P+ NG KP+ Sbjct: 123 LALYTLFKGFETLCRLSELIVPPTIIFLISMFIIIIFFSSAHIRNLMPILGNGIKPVLK- 181 Query: 186 ALPDIVSFPFGQMIVFLMLWSLWDKPGVPVKSTVTAYLLISIFLIFMNALNIAVLGPSIA 245 +LP ++ FPFG++ V L+ W + K+T A + + L A+ I+ LG Sbjct: 182 SLPGVIWFPFGEVFVLLLYWHYLNDKKSVRKTTFKALISSGLLLCISTAVTISELGAKYT 241 Query: 246 GTSQLPFLKTVRTLSSLKFIERLDILVTIQLFIGLLIKMMLF 287 S +P ++T+R ++ ++ + RLDIL L +G K+ ++ Sbjct: 242 SVSTIPLVETLRLINIVEVLNRLDILGIPFLILGGFFKICIY 283 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.329 0.142 0.430 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 504,876,320 Number of extensions: 19958687 Number of successful extensions: 65227 Number of sequences better than 1.0e-05: 43 Number of HSP's gapped: 65199 Number of HSP's successfully gapped: 43 Length of query: 365 Length of database: 757,237,578 Length adjustment: 127 Effective length of query: 238 Effective length of database: 412,420,005 Effective search space: 98155961190 Effective search space used: 98155961190 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 126 (53.1 bits)