RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780483|ref|YP_003064896.1| putative inner membrane protein translocase component YidC [Candidatus Liberibacter asiaticus str. psy62] (581 letters) >gnl|CDD|179279 PRK01318, PRK01318, membrane protein insertase; Provisional. Length = 521 Score = 544 bits (1404), Expect = e-155 Identities = 196/565 (34%), Positives = 300/565 (53%), Gaps = 63/565 (11%) Query: 6 NYFVAIALSVIIVYAWQNFYVYPRIEEMNNERKNIQTVKQPNQVDNSYAAVLIDDRAQAL 65 +AIALS +I WQ + ++ Q Sbjct: 5 RLLLAIALSFVIFLGWQYWQQ---------DKAQAAAQAPAPQA---------------- 39 Query: 66 SMSPRVELKNPSLIGSINLKGAQFDDLNLRGYHLDVSSNSPIVTLLSPSNTKNAYFAELD 125 R+ ++ L SI+ KG + DDL L+ Y + S SP V LLSP +T++ YFA+ Sbjct: 40 ----RITVETDVLRLSIDTKGGRIDDLLLKKYKETLDS-SPPVVLLSP-STEHPYFAQSG 93 Query: 126 YVSTANNIELPNS-NTVWNLISGKIL----TPTTPIKLVFKNANNILFERTISLDEH-YL 179 +PN T++ ++ P+ L + N N + F +T +LD Y+ Sbjct: 94 LTGADGPDNVPNPDRTLYTADGDSLVLADGQNELPVTLTWTNGNGLTFTKTYTLDRGDYM 153 Query: 180 FKIVDTVTNNSIDQIRFSPRGRIMRHKPQTATNTFGVQEGFIAVLGDKSLVEQKYSDIEK 239 F + +V NNS + SP G++ R + ++ G I +K + Y DI+ Sbjct: 154 FTVEYSVNNNSGAPVNLSPYGQLKRTGS-SNFASYTFHGGAIGTPDEK-YEKYTYKDIDD 211 Query: 240 SSISNFHESNSWLGISDKYWASVFIPSKETSFHSQFKYLSDGHARYQAKFSANEITILPG 299 + N W+ I DKY+A+ IP + F + G+ YQ F + +T+ PG Sbjct: 212 NL--NISSKGGWVAILDKYFATALIPQNGQN---NFYSKNLGNGLYQVGFKSPPVTVAPG 266 Query: 300 KSITTTNFLFAGAKEFPTIHHYEKDLAIPRFEMLIDWGWFYFIAKPMFMLMSYFYNLVGN 359 +S +TT L+AG KE + P ++ +D+GW +FI KP+F L+ + ++ VGN Sbjct: 267 QSASTTARLYAGPKEVKLL----AKEIAPGLDLAVDYGWLWFITKPLFWLLDFLHSFVGN 322 Query: 360 FGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFKQSPPQVLQKAMIQLY 419 +G AI+L T+ VKLL FPL K YVS A MK +QPK+ EL+EK+K PQ +Q+ M++LY Sbjct: 323 WGWAIILLTIIVKLLLFPLTYKSYVSMAKMKVLQPKMQELKEKYK-DDPQKMQQEMMELY 381 Query: 420 KTHNINPLAGCWPILLQIPVFFAIYKVISISLEMRHAPFWGWIKDLAAADPTNIFTLFGI 479 K +NPL GC PIL+QIP+FFA+YKV+ +S+E+RHAPF GWI DL+A DP I Sbjct: 382 KKEKVNPLGGCLPILIQIPIFFALYKVLLVSIELRHAPFIGWIHDLSAPDPYFIL----- 436 Query: 480 LPFYLPGFMHVGIWPIIMSLSMFIQMKMSPPPADKGQAMILNWMPVVFVFALSSFPAGLI 539 H+G+ PI+M ++MF+Q K++P P D QA I+ +MP++F F SFPAGL+ Sbjct: 437 ---------HIGLLPILMGITMFLQQKLNPTPTDPMQAKIMKFMPLIFTFFFLSFPAGLV 487 Query: 540 IYWSWSNVISIVQQAVIMKMHGAEI 564 +YW +N+++I+QQ +I + + Sbjct: 488 LYWIVNNLLTIIQQYLINRRLEKKK 512 >gnl|CDD|163342 TIGR03593, yidC_nterm, membrane protein insertase, YidC/Oxa1 family, N-terminal domain. Essentially all bacteria have a member of the YidC family, whose C-terminal domain is modeled by TIGR03592. The two copies are found in endospore-forming bacteria such as Bacillus subtilis appear redundant during vegetative growth, although the member designated spoIIIJ (stage III sporulation protein J) has a distinct role in spore formation. YidC, its mitochondrial homolog Oxa1, and its chloroplast homolog direct insertion into the bacterial/organellar inner (or only) membrane. This model describes an N-terminal sequence region, including a large periplasmic domain lacking in YidC members from Gram-positive species. The multifunctional YidC protein acts both with and independently of the Sec system. Length = 366 Score = 245 bits (627), Expect = 3e-65 Identities = 102/370 (27%), Positives = 164/370 (44%), Gaps = 23/370 (6%) Query: 6 NYFVAIALSVIIVYAWQNFYVYPRIEEMNNERKNIQTVKQPNQVDNSYAAVLI------- 58 +AIALS +I WQ + P Q + AA Sbjct: 3 RLILAIALSFVIFLLWQAWQSDPGPPPPKPPAAAQTASAQSATAAATPAAAPPAADAPAA 62 Query: 59 -DDRAQALSMSPRVELKNPSLIGSINLKGAQFDDLNLRGYHLDVSSNSPIVTLLSPSNTK 117 A + + R+ +K L SI+ KG D L L+ Y + +SP V LLS + Sbjct: 63 AAAADAAAATAKRITVKTDVLRASISTKGGDIDSLELKKYKETLDKDSPPVLLLS-DGAE 121 Query: 118 NAYFAELDYV-STANNIELPNSNTVWNLISGKI-LTP-TTPIKLVFKNANNILFERTISL 174 Y A+ + + ++ LP TVW G+ LTP P+ L + N+N + +T + Sbjct: 122 RLYVAQSGLIGANGADLALPGHRTVWQAEGGEYTLTPGQLPVTLTWDNSNGVTVTKTYTF 181 Query: 175 DEH-YLFKIVDTVTNNSIDQIRFSPRGRIMRHKPQTATNTFGVQEGFIAVL---GDKSLV 230 D YL + VTNN + S G++ R T +T+ + E F + Sbjct: 182 DRDSYLIDVEYKVTNNGDAPVSLSLYGQLKRDLSPTEKSTYFLHETFTGAAYYTDGEKYQ 241 Query: 231 EQKYSDIEKSSISNFHES-NSWLGISDKYWASVFIPSKETSFHSQFKYLSD-GHARYQAK 288 + + DIEK ++ + W+G+ Y+AS +IP + + F Y G+ Y A Sbjct: 242 KVSFKDIEKKKLNVETKGGAGWVGMLQHYFASAWIPPAGSDGTTAFYYGRKLGNNVYIAG 301 Query: 289 FSANEITILPGKSITTTNFLFAGAKEFPTIHHYEKDLAIPRFEMLIDWGWFYFIAKPMFM 348 F + +T+ PG+S T + L+AG KE + P ++ +D+GW +FIAKP+F Sbjct: 302 FVSPVVTVAPGQSATIKSRLYAGPKEQDVLKAIA-----PGLDLAVDYGWLWFIAKPLFW 356 Query: 349 LMSYFYNLVG 358 L+ +F++LVG Sbjct: 357 LLDFFHSLVG 366 >gnl|CDD|163341 TIGR03592, yidC_oxa1_cterm, membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here. Length = 181 Score = 234 bits (600), Expect = 4e-62 Identities = 91/202 (45%), Positives = 132/202 (65%), Gaps = 23/202 (11%) Query: 359 NFGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFKQSPPQVLQKAMIQL 418 N+G+AI+L T+ V+LL PL KQY S M+ +QPK+ E++EK+K P Q LQ+ M++L Sbjct: 1 NWGLAIILLTIIVRLLLLPLTLKQYKSMRKMQELQPKLKEIQEKYKDDP-QKLQQEMMKL 59 Query: 419 YKTHNINPLAGCWPILLQIPVFFAIYKVISISLEMRHAPFWGWIKDLAAADPTNIFTLFG 478 YK +NPL GC P+L+Q+P+F A+Y+V+ S+E+RHAPF WIKDL+A DP Sbjct: 60 YKEEGVNPLGGCLPLLIQMPIFIALYQVLRRSIELRHAPFL-WIKDLSAPDPY------- 111 Query: 479 ILPFYLPGFMHVGIWPIIMSLSMFIQMKMSPP-PADKGQAMILNW-MPVVFVFALSSFPA 536 I PI+M +MF+Q K+SP P D Q I+ + MP++F+F SFPA Sbjct: 112 ------------YILPILMGATMFLQQKLSPSGPPDPAQQKIMMYIMPLMFLFFFLSFPA 159 Query: 537 GLIIYWSWSNVISIVQQAVIMK 558 GL++YW SN+ +I+QQ +I + Sbjct: 160 GLVLYWVVSNLFTIIQQLIINR 181 >gnl|CDD|179202 PRK01001, PRK01001, putative inner membrane protein translocase component YidC; Provisional. Length = 795 Score = 149 bits (378), Expect = 2e-36 Identities = 132/475 (27%), Positives = 214/475 (45%), Gaps = 67/475 (14%) Query: 135 LPNSNTVWNLISGKILTP--TTPIKLVFKNANNILFE-------RTISLDEH----YLFK 181 +P N++SG+ L ++V + +I+ E +T SL E Y F+ Sbjct: 318 VPPQYHALNIVSGRELAEPVALGYRVVSFDNKSIILESNDRSIRKTYSLGEPEEQPYAFE 377 Query: 182 IVDTVTNNSIDQIRFS--PRGRIMRHKPQTATNTFGVQEGFIAV----LGDKSLVEQKYS 235 + +T +S D S P IM + A +++ + L S Sbjct: 378 LAIQLTGDSEDLWITSGVPEVEIMSNAFAPAIKYRVIKKNKSELDKVKLPKAKDPLAVRS 437 Query: 236 DIEKSSISNFHESNSWLGIS-------DKYWASVFIPSKETSFHSQFKYLSDGHARYQAK 288 + I N SN + GI +AS +IP ++ LS + Y A Sbjct: 438 GVYPQWILN---SNGYFGIILTPLTPIPAGYASSYIPG--NVVPTRLSQLSPKNQAYPAS 492 Query: 289 FSANEITILP-GKSITTTNFL-FAGAKEFPTIHHYEKDLAIPRFE--MLIDW----GWFY 340 +LP K T FL +AG PT+ ++ + E +D G+F Sbjct: 493 KYPGYEAMLPLPKEAGTYRFLVYAGPLADPTLKTLDRAYTNSKGENPEYLDSITFRGFFS 552 Query: 341 FIAKP----MFMLMSYFYNLVGNFGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKI 396 FI +P +F++M +F L G++GI+I+L TVF+KLL +PL S M+ + P I Sbjct: 553 FITEPFAALLFIIMKFFKFLTGSWGISIILLTVFLKLLLYPLNAWSIRSMRRMQKLSPYI 612 Query: 397 DELREKFKQSPPQVLQKAMIQLYKTHNINPLAGCWPILLQIPVFFAIYKVISISLEMRHA 456 E+++K+K+ P + Q ++ LYKT+ +NP+ GC P+L+Q+P A++ ++ S +R A Sbjct: 613 QEIQQKYKKEPKRA-QMEIMALYKTNKVNPITGCLPLLIQLPFLIAMFDLLKSSFLLRGA 671 Query: 457 PFW-GWIKDLAAAD-----PTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQMK-MSP 509 F GWI +L A D T I+ F F+L PI++ + MF Q K S Sbjct: 672 SFIPGWIDNLTAPDVLFSWETPIW--FIGNEFHL--------LPILLGVVMFAQQKISSL 721 Query: 510 PPAD------KGQAMILNWMPVVFVFALSSFPAGLIIYWSWSNVISIVQQAVIMK 558 + Q + M ++F F +FP+GL IYW S ++ ++QQ V K Sbjct: 722 KRKGPVTDQQRQQEAMGTMMALLFTFMFYNFPSGLNIYWLSSMLLGVIQQWVTNK 776 >gnl|CDD|179508 PRK02944, PRK02944, OxaA-like protein precursor; Validated. Length = 255 Score = 141 bits (356), Expect = 6e-34 Identities = 82/228 (35%), Positives = 128/228 (56%), Gaps = 32/228 (14%) Query: 338 WFYFIAKPMFMLMSYFYNLVG-NFGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKI 396 W + P+ L++YF NL G N+G+AI++ T+ ++LL PL KQ ST M+ +QP++ Sbjct: 36 WNEYFVYPLSQLITYFANLFGSNYGLAIIVVTLLIRLLILPLMIKQTKSTKAMQALQPEM 95 Query: 397 DELREKFK---QSPPQVLQKAMIQLYKTHNINPLAGCWPILLQIPVFFAIYKVISISLEM 453 +L+EK+ Q+ Q LQ+ M+QL++ + +NPLAGC PI +Q+P+ A Y I + E+ Sbjct: 96 QKLKEKYSSKDQATQQKLQQEMMQLFQKNGVNPLAGCLPIFIQMPILIAFYHAIMRTSEI 155 Query: 454 -RHAPFWGWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQMK--MSPP 510 +H+ W DL AD P+Y I PI+ ++ FIQ K M+ Sbjct: 156 SKHSFLW---FDLGQAD-----------PYY--------ILPIVAGITTFIQQKLMMAGT 193 Query: 511 PADKGQ-AMILNWMPV-VFVFALSSFPAGLIIYWSWSNVISIVQQAVI 556 Q AM+L MP+ + +FA+ +FPA L +YW N+ I Q +I Sbjct: 194 AGQNPQMAMMLWLMPIMILIFAI-NFPAALSLYWVVGNIFMIAQTYLI 240 >gnl|CDD|178899 PRK00145, PRK00145, putative inner membrane protein translocase component YidC; Provisional. Length = 223 Score = 124 bits (314), Expect = 4e-29 Identities = 70/211 (33%), Positives = 105/211 (49%), Gaps = 24/211 (11%) Query: 354 YNLVGN----FGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFKQSPPQ 409 +++ N +GIAI+L T+ ++LL PL KQ S+ M IQP+I +L+ K+K + PQ Sbjct: 21 SSVISNPNFSYGIAIILVTLIIRLLILPLNIKQTKSSLRMNEIQPEIKKLQAKYK-NDPQ 79 Query: 410 VLQKAMIQLYKTHNINPLAGCWPILLQIPVFFAIYKVISISLEMRHAPFWGWIKDLAAAD 469 LQ+ M++LYK +NPL GC P+L+Q P+ A+Y V + + F WIKDLA D Sbjct: 80 KLQQEMMKLYKEKGVNPLGGCLPLLIQWPILIALYYVFNNLTGINGVSFL-WIKDLAKPD 138 Query: 470 PTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQMKMSPPPADKGQAMILN-WMPVVFV 528 T I + YL G +M + GQ +N M + Sbjct: 139 ITWILPILSGATTYLSG--------YLM---------TKADSSQAGQMKTMNIGMSIFMG 181 Query: 529 FALSSFPAGLIIYWSWSNVISIVQQAVIMKM 559 F + L++YW N+I I+Q I K+ Sbjct: 182 VMSWKFKSALVLYWVIGNLIQIIQTYFIKKL 212 >gnl|CDD|179310 PRK01622, PRK01622, OxaA-like protein precursor; Validated. Length = 256 Score = 124 bits (313), Expect = 6e-29 Identities = 70/234 (29%), Positives = 113/234 (48%), Gaps = 37/234 (15%) Query: 340 YFIAKPMFMLMSYFYNLVGNFGIAIMLTTVFVKLLFFPLA----KKQYVSTANMKNIQPK 395 YF+ F++ +++ G++GIAI++ T+ ++ L PLA K Q M ++P+ Sbjct: 40 YFVYPFSFLIQFVAHHIGGSYGIAIIIVTLIIRSLMIPLAVSQYKSQRGMQEKMAVMKPE 99 Query: 396 IDELREKFKQSPPQV----LQKAMIQLYKTHNINPLA-GCWPILLQIPVFFAIYKVISIS 450 +D+++ K K + QK M++LYK+ NINPLA GC P+L+Q+P+ A Y I + Sbjct: 100 LDKIQAKLKVTKDLEKQKEYQKEMMELYKSGNINPLAMGCLPLLIQMPILSAFYYAIRRT 159 Query: 451 LEMRHAPFWGWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQMKMSPP 510 E+ F W +L AD I PII L+ FIQMK+S Sbjct: 160 EEIASHSFL-WF-NLGHADH---------------------ILPIIAGLTYFIQMKVSQS 196 Query: 511 ----PADKGQAMILNWM-PVVFVFALSSFPAGLIIYWSWSNVISIVQQAVIMKM 559 P I M P + +F + P+ L++YW + + Q V+ K+ Sbjct: 197 NGTSPEQVQMLKIQGIMMPAMILFMSFAAPSALVLYWITGGLFLMGQTIVLRKV 250 >gnl|CDD|179278 PRK01315, PRK01315, putative inner membrane protein translocase component YidC; Provisional. Length = 329 Score = 121 bits (304), Expect = 6e-28 Identities = 67/216 (31%), Positives = 108/216 (50%), Gaps = 20/216 (9%) Query: 361 GIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFKQSPPQVLQKAMIQLYK 420 ++I+ + ++ L PL KQ S NM+ IQPK+ +++EK+K + + + M++LYK Sbjct: 43 VLSIVGLVIVIRALLIPLFVKQIKSQRNMQEIQPKMKKIQEKYK-GDRERMSQEMMKLYK 101 Query: 421 THNINPLAGCWPILLQIPVFFAIYKVISISLEMRHAPFWGWIKDLAA-ADPTNIFTLFGI 479 NPL+ C P+LLQ+P+FFA+Y+V+ + R L +IF Sbjct: 102 ETGTNPLSSCLPLLLQMPIFFALYRVLDSAAS-RGDGIGPINPPLLESFRHAHIFGAPLA 160 Query: 480 LPFYLP---GFMHV----GIWPIIMSLSMFIQM-----KMSPPPADKG-----QAMILNW 522 F G V + I+MS S FI K PP A G Q M+L Sbjct: 161 ATFLQALNAGNTAVQVVAAVLIILMSASQFITQLQLMTKNMPPEAKTGPMAQQQKMLLYL 220 Query: 523 MPVVFVFALSSFPAGLIIYWSWSNVISIVQQAVIMK 558 P++F+ + +FP G++ YW SNV ++ QQ +++ Sbjct: 221 FPLMFLVSGIAFPVGVLFYWLTSNVWTMGQQFYVIR 256 >gnl|CDD|179426 PRK02463, PRK02463, OxaA-like protein precursor; Provisional. Length = 307 Score = 82.9 bits (205), Expect = 2e-16 Identities = 62/235 (26%), Positives = 105/235 (44%), Gaps = 35/235 (14%) Query: 337 GWFY-FIAKPMFMLMSYFYNLVG-NFGIAIMLTTVFVKLLFFPL----AKKQYVSTANMK 390 G+ + F+ PM + YF N +G FG+AI++ T+ V+L+ PL + K + M Sbjct: 35 GFIWNFLGAPMSYFIDYFANNLGLGFGLAIIIVTIIVRLIILPLGLYQSWKATYQSEKMA 94 Query: 391 NIQPKIDELREKFKQSPPQ----VLQKAMIQLYKTHNINPLA--GCWPILLQIPVFFAIY 444 ++P + + E+ K + Q Q ++ + + I+ L GC P+L+Q+P F A+Y Sbjct: 95 YLKPVFEPINERLKNATTQEEKMAAQTELMAAQRENGISMLGGIGCLPLLIQMPFFSALY 154 Query: 445 KVISISLEMRHAPFWGWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMS-LSMFI 503 + + + F G DL + L I +G+ S LSM Sbjct: 155 FAAQYTKGVSTSTFLGI--DLGSPS----LVLTAI----------IGVLYFFQSWLSM-- 196 Query: 504 QMKMSPPPADKGQAM-ILNWMPVVFVFALSSFPAGLIIYWSWSNVISIVQQAVIM 557 M P + Q ++ MP++ V S PAG+ +YW SI+QQ + Sbjct: 197 ---MGVPEEQREQMKAMMYMMPIMMVVFSFSSPAGVGLYWLVGGFFSIIQQLITT 248 >gnl|CDD|179458 PRK02654, PRK02654, putative inner membrane protein translocase component YidC; Provisional. Length = 375 Score = 81.6 bits (202), Expect = 5e-16 Identities = 35/103 (33%), Positives = 63/103 (61%), Gaps = 6/103 (5%) Query: 346 MFMLMSYFYNLVGNFGIAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQP----KIDELRE 401 M ++ +FY +V ++G+AI+ T+ ++ +PL+ + MK QP + E++E Sbjct: 13 MLPILDFFYGIVPSYGLAIVALTLVIRFALYPLSAGSIRNMRRMKIAQPVMQKRQAEIQE 72 Query: 402 KFKQSPPQVLQKAMIQLYKTHNINPLAGCWPILLQIPVFFAIY 444 ++K + PQ Q+ M +L K NPLAGC P+L+Q+P+ FA++ Sbjct: 73 RYK-NDPQKQQEEMGKLMKEFG-NPLAGCLPLLVQMPILFALF 113 >gnl|CDD|179383 PRK02201, PRK02201, putative inner membrane protein translocase component YidC; Provisional. Length = 357 Score = 76.6 bits (189), Expect = 2e-14 Identities = 51/206 (24%), Positives = 94/206 (45%), Gaps = 21/206 (10%) Query: 362 IAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFK------QSPPQVLQKAM 415 +AI++ + ++L+ F + K + + +Q K ++ K+K Q Q Q+ + Sbjct: 135 LAIIVVVLIIRLISFLITFKSTFNQEKQEELQGKKAKIDAKYKDYKKDKQMK-QRKQQEI 193 Query: 416 IQLYKTHNINPLAGCWPILLQIPVFFAIYKVISISLEMRHAPFWGWIKDLAAADPTNIFT 475 +LYK HNI+P + + + +P+F A+Y+V+ ++ W I DL+A IF Sbjct: 194 QELYKKHNISPFSPFVQMFVTLPIFIAVYRVVQSLPSIKVT-TWLGI-DLSATSWQEIFA 251 Query: 476 -LFGILPFYLPGFMHVGIWPIIMSLSMFIQMK--------MSPPPADKGQAMILNWMPVV 526 + LP + + V + + L + K + A K Q N + +V Sbjct: 252 GNWIYLPILI---IVVPVQALSQLLPQILNKKKNKERTLNVKEKEALKKQNKTQNIISIV 308 Query: 527 FVFALSSFPAGLIIYWSWSNVISIVQ 552 F+F F AG+ IYW + +I+Q Sbjct: 309 FIFFGVIFAAGVQIYWIIGGIWTILQ 334 >gnl|CDD|179580 PRK03449, PRK03449, putative inner membrane protein translocase component YidC; Provisional. Length = 304 Score = 74.3 bits (183), Expect = 7e-14 Identities = 58/278 (20%), Positives = 105/278 (37%), Gaps = 63/278 (22%) Query: 341 FIAKPMFMLMSYFYNLVG------NFG---IAIMLTTVFVKLLFFPLAKKQYVSTANMKN 391 FI P+ ++ +++ L N +++M ++ L + +Q +T M+ Sbjct: 4 FIYYPVSAILWFWHKLFSFVLGPDNGFAWALSVMFLVFTLRALLYKPFVRQIRTTRKMQE 63 Query: 392 IQPKIDELREKFKQSPPQVLQKAMIQLYKTHNINPLAGCWPILLQIPVFFAIYKVI---- 447 +QP+I L++K+ Q + M +L K H NP+ GC P+L QIPVF ++ V+ Sbjct: 64 LQPQIKALQKKYGNDR-QKMALEMQKLQKEHGFNPILGCLPMLAQIPVFLGLFHVLRSFN 122 Query: 448 ---------SISLEMRH----------------------APFWGWIKDLAAA-DPTNIFT 475 +S+E AP +I + D FT Sbjct: 123 RTGTGFGQLGMSVEENRNTPNYVFSAEDVQSFLDARLFGAPLSAYITMPRSGLDAFVDFT 182 Query: 476 LFGILPFYLPGFMHVGIWPIIMSLSMFIQMKMS-----PPPADKGQAMILN----W-MPV 525 I+ +P M II ++ + S A Q ++N W P+ Sbjct: 183 RTNIILVGVP-LM------IIAGVATHFNSRASVARQSAEAAANPQTAMMNKLALWVFPL 235 Query: 526 VFVFALSSFPAGLIIYWSWSNVISIVQQAVIMKMHGAE 563 + P +++YW +N+ + QQ + E Sbjct: 236 GVLVGGPFLPLAILLYWVSNNIWTFGQQHYVFGKIDKE 273 >gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase component YidC; Validated. Length = 429 Score = 66.0 bits (161), Expect = 2e-11 Identities = 57/244 (23%), Positives = 96/244 (39%), Gaps = 55/244 (22%) Query: 362 IAIMLTTVFVKLLFFPLAKKQYVSTANMKNIQPKIDELREKFKQSPPQVLQKAMIQ---- 417 ++ + V+ + P +QY S +I+PK LRE++K + + + Q Sbjct: 34 ASLFGLVITVRAIIAPFTWQQYKSGRTAAHIRPKRKALREEYKGKTDEASIRELQQKQKD 93 Query: 418 LYKTHNINPLAGCWPILLQIPVFFAIYKVISISLEM----------RHAPFWGWIKDLAA 467 L K + NPLAGC P L+QIPVF +Y+V+ L M H P I L + Sbjct: 94 LNKEYGYNPLAGCVPALIQIPVFLGLYQVL---LRMARPEGGLENPVHQP----IGFLTS 146 Query: 468 AD--------------------PTNIFTLFG-----ILPFYLPGFMHVGIWPII-MSLSM 501 + P G +L F LP F+ ++ I M++S Sbjct: 147 EEVESFLQGRVFNVPLPAYVSMPAEQLAYLGTTQATVLAFVLPLFIAAAVFTAINMAMST 206 Query: 502 F--IQMKMSPPPADKGQAMILNWMPVV-----FVFALSS-FPAGLIIYWSWSNVISIVQQ 553 + Q G L M ++ L+ FP + +YW +N+ +++Q Sbjct: 207 YRSFQTNDHDSGFAVGMLKFLIVMAILAPIFPLSLGLTGPFPTAIALYWVANNLWTLIQN 266 Query: 554 AVIM 557 ++ Sbjct: 267 IIMY 270 >gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional. Length = 387 Score = 31.6 bits (72), Expect = 0.52 Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 2/44 (4%) Query: 40 IQTVKQPNQVDNSYAAVLI--DDRAQALSMSPRVELKNPSLIGS 81 I T +Q+ + AAVL +DRA+AL + PR + +L+G+ Sbjct: 235 IHTAGTSSQISDGAAAVLWMDEDRARALGLRPRARIVAQALVGA 278 >gnl|CDD|184876 PRK14876, PRK14876, conjugal transfer mating pair stabilization protein TraN; Provisional. Length = 928 Score = 31.0 bits (70), Expect = 0.92 Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 36/158 (22%) Query: 70 RVELKNPSLIGSINLKGAQFDDLNLRGYHLDVSSNSPIVTLLSPSNTKNAYFAELDYVST 129 RV++ NP I S L+ A++DD ++ V S + E T Sbjct: 274 RVQVSNPDAIISATLERAKWDD------YMQVLVGKSGQETKVWSGPDGVFPPE-----T 322 Query: 130 ANNIELPNSNTVWNLISGKILTPTTPIKLVFKNANNILFERTISLDEHYLFKIVDTVTNN 189 A E +T W P I FK+ + + FKI +VT Sbjct: 323 AGRCE---RSTSWE------RNPNVDITPKFKSVKD---------GDVVTFKIRTSVTGA 364 Query: 190 SID----QIRFSPRGRIMRHK--PQTATNTF-GVQEGF 220 +IR+ P I + + PQ+ ++ GV++GF Sbjct: 365 GEGYGRIKIRYDPAKAITKDEWAPQSCMDSAKGVEDGF 402 >gnl|CDD|151684 pfam11242, DUF2774, Protein of unknown function (DUF2774). This is a viral family of proteins with unknown function. Length = 63 Score = 29.7 bits (67), Expect = 2.2 Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 16/64 (25%) Query: 371 VKLLFFPLAKKQYVSTANMKNIQPK--------IDELREKFKQSPPQVLQKAMIQLYKTH 422 V++ F + +V A +I+ K ++ REKFK V Y+ Sbjct: 4 VQVHFLHESGLGFVEIAKKYDIRAKDVAKLWVMVETAREKFKTREKVV--------YRKR 55 Query: 423 NINP 426 +IN Sbjct: 56 HINK 59 >gnl|CDD|166628 PLN02987, PLN02987, Cytochrome P450, family 90, subfamily A. Length = 472 Score = 28.8 bits (64), Expect = 3.5 Identities = 11/29 (37%), Positives = 15/29 (51%) Query: 459 WGWIKDLAAADPTNIFTLFGILPFYLPGF 487 W W + P+N+FT FG P PG+ Sbjct: 393 WRWQSNSGTTVPSNVFTPFGGGPRLCPGY 421 >gnl|CDD|161683 TIGR00054, TIGR00054, RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain. Length = 420 Score = 29.0 bits (65), Expect = 3.6 Identities = 16/73 (21%), Positives = 23/73 (31%), Gaps = 4/73 (5%) Query: 105 SPIVTLLSP-SNTKNAYFAELDYVSTANNIELPNSNTVWNLISGKILTPTTPIKLVFKNA 163 P++ LL S A D + + N ++P V I+ P I Sbjct: 129 GPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDVRQQIADIAGEPMVEILA---ER 185 Query: 164 NNILFERTISLDE 176 N FE L Sbjct: 186 ENWTFEVMKELIP 198 >gnl|CDD|182537 PRK10547, PRK10547, chemotaxis protein CheA; Provisional. Length = 670 Score = 28.2 bits (63), Expect = 5.8 Identities = 7/34 (20%), Positives = 15/34 (44%) Query: 30 IEEMNNERKNIQTVKQPNQVDNSYAAVLIDDRAQ 63 ++ + E N+ T+ + +S A L A+ Sbjct: 173 VDLLEEELGNLGTLTDVVKGADSLEATLPGSVAE 206 >gnl|CDD|152562 pfam12127, YdfA_immunity, SigmaW regulon antibacterial. This protein is found in bacteria. Proteins in this family are about 330 amino acids in length. The operon from which this protein is derived confers immunity for the host species to a broad range of antibacterial compounds, unlike the specific immunity proteins that are linked to and co-regulated with their antibiotic-synthesis proteins. Length = 321 Score = 28.1 bits (63), Expect = 6.1 Identities = 12/41 (29%), Positives = 19/41 (46%) Query: 438 PVFFAIYKVISISLEMRHAPFWGWIKDLAAADPTNIFTLFG 478 + A +I +++ P WI LA+ +IFTL G Sbjct: 6 ILVIAALILIFLAVFFSFVPVGLWISALASGVKVSIFTLVG 46 >gnl|CDD|117326 pfam08756, YfkB, YfkB-like domain. This protein is adjacent to YfkA in B. subtilis. In other bacterial species it is fused to this protein. As YfkA contains a Radical SAM domain it suggests this domain is interacts with them. Length = 153 Score = 27.7 bits (62), Expect = 8.2 Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 6/37 (16%) Query: 448 SISL-EMRHAPFWGWIKDLAAADPTNIFTLFGILPFY 483 +SL E+R A I L N++ LFG LPFY Sbjct: 12 VLSLDEIREA-----IHRLLDIRDENVWMLFGTLPFY 43 >gnl|CDD|185102 PRK15180, PRK15180, Vi polysaccharide biosynthesis protein TviD; Provisional. Length = 831 Score = 27.4 bits (60), Expect = 9.8 Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%) Query: 11 IALSVIIVYAWQNFYVYP--RIEEMNNERK 38 ++LS + Y++ F VYP RI NNE K Sbjct: 551 VSLSTSLAYSYSAFMVYPHSRISRFNNEVK 580 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.323 0.137 0.417 Gapped Lambda K H 0.267 0.0719 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 9,575,768 Number of extensions: 623176 Number of successful extensions: 1232 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1185 Number of HSP's successfully gapped: 45 Length of query: 581 Length of database: 5,994,473 Length adjustment: 99 Effective length of query: 482 Effective length of database: 3,855,281 Effective search space: 1858245442 Effective search space used: 1858245442 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 60 (26.9 bits)