-------------------------------------------------------------------------------- Domain name : PF02416.8_MttA_Hcf106 Domain size : 74 Domain Description : mttA/Hcf106 family Domain gathering score : 7.0000 Domain trusted cutoff : 7.0000 Domain architecture : TM/SP [1 22], non-TM/SP [23 83] -------------------------------------------------------------------------------- Example 4 gi|58699689|ref|ZP_00374359.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae]gi|58533795|gb|EAL58124.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] 256 (length) 204 255 .. (wrt seq) 1 74 [] (wrt HMM) No.of residues in non-TM/SP region : 29 [48%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- MttA_Hcf106 mttA/Hcf106 family 47.6 5e-11 1 Sigma70_r2 Sigma-70 region 2 29.3 1.6e-05 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- MttA_Hcf106 1/1 204 255 .. 1 74 [] 47.6 5e-11 Sigma70_r2 1/1 141 204 .. 1 71 [] 29.3 1.6e-05 Alignments of top-scoring domains: MttA_Hcf106: domain 1 of 1, from 204 to 255: score 47.6, E = 5e-11 *->iGipelliIlvValllFGPKKLPElGRaLGktLReFKkAtkeleeea +G++ l ++l+++l+lFG+++LP + + LGk++++ K+++k+ e gi|5869968 204 LGPWQLFLVLIIILVLFGAGRLPQVMGDLGKGIKNLKQELKDSEK-- 248 keerkTLdaeitidkVseSsdekeake<-* ++ ++++ gi|5869968 249 --------------------LSSNEPD 255 Sigma70_r2: domain 1 of 1, from 141 to 204: score 29.3, E = 1.6e-05 CS HHHHHHHHHHHHHHHHCSTCCHHHHHHHHHHHHHHHHHHCCTS-SCC *->LverylplvrrlArrllgdgadaeDLvQEgflrllraverfdpgrgv +++++l+lv+++A+++ ++g+d DL+QEg+++l++av++fd+ rg+ gi|5869968 141 MIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGY 187 CS HHHHHHHHHHHHHHHHCHHTSTTT sfstwLytiarnaiiDalRrrrrr<-* +fst + + + + gi|5869968 188 KFSTEFFNPPKEV-------KMSL 204 Example 2 gi|186455846|ref|ZP_02966160.1| phosphatidylglycerophosphatase A [bacterium Ellin514]gi|184207924|gb|EDU04969.1| phosphatidylglycerophosphatase A [bacterium Ellin514] 244 (length) 1 60 [. (wrt seq) 1 74 [] (wrt HMM) No.of residues in non-TM/SP region : 37 [61%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- PgpA Phosphatidylglycerophosphatase A 136.3 9.7e-38 1 MttA_Hcf106 mttA/Hcf106 family 15.6 0.00014 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PgpA 1/1 74 234 .. 1 164 [] 136.3 9.7e-38 MttA_Hcf106 1/1 1 60 [. 1 74 [] 15.6 0.00014 Alignments of top-scoring domains: PgpA: domain 1 of 1, from 74 to 234: score 136.3, E = 9.7e-38 CS HHHHHHHHHTT......--HHHHHHHHHHHHT--HHHHHHHHHHSHH *->ahllatgFGsGLsPkAPGTfGsLaAlplylllltlglprnvrvLkre + ++a gFGsG++P+APGTfGsL++l+ + +ll g+ gi|1864558 74 VLWVAQGFGSGRIPWAPGTFGSLVGLVWFAALLAGGSY--------- 111 CS HHHHHHHHHHHHHHHHTT-S-TTHHHHHHTT-TT--HHHHHHHHHHHTT- VqnlllllilllfllGiwacgktekdlgvhDpgeIViDEvvGqwialllv +l+l+++++ +++ + +cg +ek l + Dp+++V DE++++ i++l gi|1864558 112 --WLYLIGCAVGIVASVQLCGAAEKILDETDPPSVVLDEIIAIPICFLGW 159 CS ..... ............CGHHHHHHHHHHH--THHH .............Pfgss.tagskalswlwlllaFvLFRfFDIvKPwPIr + +++ ++P+++++ + wl ++ vLFR+FDI KPwP++ gi|1864558 160 vsfiyfktgflpePQYFFsRQT-----WLITVAVYVLFRLFDIAKPWPVK 204 CS HHHTSSSSS--CCHHHHHHHHHHHHHHHHHH wlDrrvkGGlGIMlDDvlAGiyAalvlalil<-* + ++GG+G+ +DDvlA++y +lv+++++ gi|1864558 205 QS-QSLPGGWGVTIDDVLAAVYVNLVVLAAH 234 MttA_Hcf106: domain 1 of 1, from 1 to 60: score 15.6, E = 0.00014 *->iGipelliIlvValllFGPKKLPElGRaLGktLReFKkAtkeleeea +G+ e+++Il+ l+lFG ++ G++ ++++ eF +At e + e gi|1864558 1 MGAYEIILILALLLILFGVSRWSRFGKGFKRGMEEFINATGEVTKE- 46 keerkTLdaeitidkVseSs...dekeake<-* + + ++++ ++k+ gi|1864558 47 ----------------MQDAmgsEDPSKKD 60