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= 0538.0003.p (287 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q2B8U0.1 Q2B8U0_9BACI Site-specific recombinase (Resolvase famil... 164 1e-38 C5D538.1 C5D538_9BACI Recombinase 160 1e-37 B4BQU1.1 B4BQU1_9BACI Resolvase domain protein 142 4e-32 Q5L1L1.1 Q5L1L1_GEOKA Site-specific recombinase (Resolvase family) 142 4e-32 O34574.1 YEFB_BACSU Uncharacterized protein yefB 126 3e-27 >Q2B8U0.1 Q2B8U0_9BACI Site-specific recombinase (Resolvase family) protein Length = 496 Score = 164 bits (414), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 97/297 (32%), Positives = 149/297 (50%), Gaps = 63/297 (21%) Query: 40 TPSMVAGKKKQSIYWNGSSVQQILENPDYSGDMVKGRETTISVTNKARRERTEADFIVVK 99 TPS V GK +YW GS+V++IL+NP Y G++V+GRETT++VTNK R+ + ++I + Sbjct: 203 TPSRVVGKANAGLYWQGSTVKKILQNPHYIGNLVQGRETTMNVTNKTRKVNDQNEWITIP 262 Query: 100 ETHEAIISRDVFDTVQQLIESNRRRSPENPDVSSRPHQNVNLFTGVIFCEDCGRGLHYQR 159 + HE IISRDVF+ VQ+L+E RR + H LFT + +C +CG G+ Y+ Sbjct: 263 DAHEPIISRDVFEQVQRLLEQKARRG--RGGTRKKKH----LFTNIAYCSECGNGMWYRA 316 Query: 160 NCKGYICGRSHKHGNKACKKHRVREKALSRYLED-------------------------- 193 N KGYICG KHGNKAC H V+E L+ + D Sbjct: 317 NRKGYICGTYAKHGNKACSNHAVKELELTEIILDDLKNMSSRLDHPNLESKIEKKVKATT 376 Query: 194 --------VITKSDYDDYVVNRDA---------------ELVKLLQDKGQ--------IE 222 I K + + R+A + V ++Q+K Q I+ Sbjct: 377 KKNESRLESIEKQVHKQMELKRNALQKFISEDISKQDYDDFVSIVQEKLQQLELEKVEIK 436 Query: 223 ASMSAALDSRKLDEVKAVVTSALAFEEVNKEVINRFIEKIVVARDSTVKLYYCFAGI 279 M+ + ++ K+ + + L F ++ E++ RF++KI V + VK+YY FA + Sbjct: 437 KEMAESHETSKISAIIEQLKGFLQFNQLTSEMLLRFVDKIEVTENKDVKIYYKFAQV 493 >C5D538.1 C5D538_9BACI Recombinase Length = 498 Score = 160 bits (406), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 98/305 (32%), Positives = 155/305 (50%), Gaps = 69/305 (22%) Query: 35 KRGGSTPSMVAGKKKQSIYWNGSSVQQILENPDYSGDMVKGRETTISVTNKARRERTEAD 94 K+ TP+ V+GK +YW G+++++IL NP Y GD+V+ RET+ ++TNK R+ T+ + Sbjct: 198 KKKVPTPAQVSGKSNAGLYWQGTTIKKILSNPHYVGDLVQNRETSTNITNKKRKVNTQNE 257 Query: 95 FIVVKETHEAIISRDVFDTVQQLIESNRRRSPENPDVSSRPHQNVNLFTGVIFCEDCGRG 154 +I+V THE IISR+VF+ Q+L+ES + + +LFT +++C DCG Sbjct: 258 WIIVPNTHEPIISREVFEQAQKLLESKAWKG------RGKTKAQKHLFTNILYCADCGAS 311 Query: 155 LHYQRNCKGYICGRSHKHGNKACKKHRVREKALSRYLEDVIT----------KSDYDDYV 204 + Y+ N KGYICG KHGN AC H ++E+ L +E ++T + D ++ + Sbjct: 312 MWYRHNRKGYICGNYAKHGNIACSHHAIKEQQL---IETILTDLKGIYESFERLDTENQI 368 Query: 205 VNRDAEL------------------------------------------VKLLQDKGQ-- 220 N+ EL V ++QDK Q Sbjct: 369 KNKVHELQKKNAIRLQTIEKQIQKQMDLKRNALQKFIGGDISKEDYHDFVSMIQDKLQQL 428 Query: 221 -IEASM--SAALDSRK---LDEVKAVVTSALAFEEVNKEVINRFIEKIVVARDSTVKLYY 274 IE S A +DS+ L ++ + L+F+ + E++ RFIE+I V + VK+YY Sbjct: 429 EIEKSTIKKAMVDSQSTTDLSTIRKQLDEFLSFQTLTTEMVLRFIERIEVDNNQNVKIYY 488 Query: 275 CFAGI 279 FA I Sbjct: 489 KFAPI 493 >B4BQU1.1 B4BQU1_9BACI Resolvase domain protein Length = 520 Score = 142 bits (358), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 68/156 (43%), Positives = 104/156 (66%), Gaps = 14/156 (8%) Query: 40 TPSMVAGKKKQSIYWNGSSVQQILENPDYSGDMVKGRETTISVTNKARRERTEADFIVVK 99 TP+ + GK S W+GS+++ IL NP Y+G +V+ R+T SVT+K R+ E+++++++ Sbjct: 229 TPAQLKGKSNASDKWHGSTIKVILTNPHYTGTLVQCRDTKPSVTDK-RQPLPESEYVIIE 287 Query: 100 ETHEAIISRDVFDTVQQLIESNRRRSPENPDVSSRPHQNVNLFTGVIFCEDCGRGLHYQR 159 HE +IS ++F+TVQ+LI S R RP V+LFT IFC DCGRG+H+++ Sbjct: 288 NAHEPLISIEMFNTVQELIISRSR---------IRPQAEVHLFTNTIFCADCGRGMHFKK 338 Query: 160 NCKGYICGRSHKHGNKACKKHRVREKALSRYLEDVI 195 N KGY+CG +KHG+KAC H ++E R LE++I Sbjct: 339 NRKGYVCGNFNKHGSKACSDHFIKE----RELEEII 370 >Q5L1L1.1 Q5L1L1_GEOKA Site-specific recombinase (Resolvase family) Length = 490 Score = 142 bits (357), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 90/297 (30%), Positives = 147/297 (49%), Gaps = 64/297 (21%) Query: 37 GGSTPSMVAGKKKQSIYWNGSSVQQILENPDYSGDMVKGRETTISVTNKARRERTEADFI 96 G TP+ VAGKK WN S+++ IL NP Y+GD+V+GR TT+SVT+ R++ + + I Sbjct: 199 GIPTPAEVAGKKNAGDKWNDSTIKLILTNPHYTGDLVQGRTTTVSVTSNKRKKASNEELI 258 Query: 97 VVKETHEAIISRDVFDTVQQLIESNRRRSPENPDVSSRPHQNVNLFTGVIFCEDCGRGLH 156 ++ HE II RDVF+ VQ ++ + P + + H LFT + +C DCG+G+ Sbjct: 259 IIPNAHEPIIPRDVFEAVQHQMKLRSKTIP-----APKRH----LFTNIAYCADCGKGMW 309 Query: 157 YQRNCKGYICGRSHKHGNKACKKHRVREKALSR-----------------YLEDVITKSD 199 Y+ N KGY+CG + G KAC H ++E+ L + YL+ + K+ Sbjct: 310 YRSNRKGYVCGGYARFGKKACSSHVIKEEVLKQTIIHDIQSLMQQIDKEYYLKQLEEKAK 369 Query: 200 YD---------------DYVVNRDAELVKLLQD--------KGQIEAS-----------M 225 D + +R + ++LL D + IEA+ Sbjct: 370 QSQLSVQKKLDKINKQIDALKSRKRKYIELLADEKIIQEDYQDMIEANNKEINELVVSKK 429 Query: 226 SAALDSRKLDE----VKAVVTSALAFEEVNKEVINRFIEKIVVARDSTVKLYYCFAG 278 + L S K+ E +K + L F+E+ E+++R I++I + D T K++Y F+ Sbjct: 430 ESLLSSHKVVENIQKLKQELAQFLNFDELTPEILHRLIDRIEIKADGTPKIFYRFSA 486 >O34574.1 YEFB_BACSU Uncharacterized protein yefB Length = 300 Score = 126 bits (316), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 77/216 (35%), Positives = 123/216 (56%), Gaps = 21/216 (9%) Query: 37 GGSTPSMVAGKKKQSIYWNGSSVQQILENPDYSGDMVKGRETTISVTNKARRERTEADFI 96 G ++PS +A KK + W+GSS+++ILENP Y+G + + RE SVT+K RR + I Sbjct: 5 GVTSPSQLARKKNATDKWHGSSIRKILENPHYTGTLQQCREYRPSVTSKRRRSVNLENQI 64 Query: 97 VVKETHEAIISRDVFDTVQQLIESNRRRSPENPDVSSRPHQNVNLFTGVIFCEDCGRGLH 156 +++++HE II + F VQ+++ + +RR RP V+LFT C+DC R +H Sbjct: 65 IIEKSHEPIIPLEDFLIVQEILITRKRR---------RPQAEVHLFTNTAVCKDCRRSMH 115 Query: 157 YQRNCKGYICGRSHKHGNKACKKHRVREKALS----RYLEDVITKSDYDDYVVNRDAELV 212 +++N KGY+CG +KHG KAC H V E L+ L + K ++Y EL Sbjct: 116 FKKNRKGYVCGSYNKHGLKACSDHYVSEIDLTDKVITNLNKIYLKFSKENYF----KELS 171 Query: 213 -KLLQDKGQIEA---SMSAALDSRKLDEVKAVVTSA 244 K L+ K +IE+ ++ L+ +K D+ V++ A Sbjct: 172 EKALKYKEKIESKIIEINEKLNDKKRDKSNLVISLA 207 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.317 0.132 0.374 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,551,998,367 Number of extensions: 60929928 Number of successful extensions: 201180 Number of sequences better than 1.0e-05: 441 Number of HSP's gapped: 201027 Number of HSP's successfully gapped: 443 Length of query: 287 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 153 Effective length of database: 1,798,280,193 Effective search space: 275136869529 Effective search space used: 275136869529 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)