RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780711|ref|YP_003065124.1| signal recognition particle protein [Candidatus Liberibacter asiaticus str. psy62] (461 letters) >gnl|CDD|182793 PRK10867, PRK10867, signal recognition particle protein; Provisional. Length = 433 Score = 664 bits (1716), Expect = 0.0 Identities = 247/435 (56%), Positives = 322/435 (74%), Gaps = 5/435 (1%) Query: 1 MFDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAK 60 MF++L +RL S F+ + GKG L+E DI LRE+R LEADV+L VV+ F RV+EKA Sbjct: 1 MFESLSDRLSSAFKKLRGKGRLTEADIKEALREVRLALLEADVNLPVVKDFIARVKEKAV 60 Query: 61 GEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120 G+++L+S+ PGQ VIKIV+DELVE+LG E+ EL+L A P VIM+VGLQG+GKTTT K+ Sbjct: 61 GQEVLKSLTPGQQVIKIVNDELVEILGGENSELNLAAKPPTVIMMVGLQGAGKTTTAGKL 120 Query: 121 AYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR 180 A +LK KKKK+L+ + DV+RPAA EQL+ LGEQI V Q P IA A + A+ Sbjct: 121 AKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAK 180 Query: 181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIV 240 + GYD VI+DTAGR HI++ LM E+ IK+ NP EILLV DA+TGQDAV+ A+ F++ + Sbjct: 181 ENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEAL 240 Query: 241 DLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDV 300 LTG+ILT++DGD RGGAALS+R VTGKPIK IGTGEK++DLE F PDR+A+RILGMGDV Sbjct: 241 GLTGVILTKLDGDARGGAALSIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGMGDV 300 Query: 301 VSLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLK 360 +SL+EKA ++E++A AKK+ KGKFDLED EQ +Q +K+GG+GS+L MLPGM ++K Sbjct: 301 LSLIEKAQEVVDEEKAEKLAKKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMK 360 Query: 361 QNIMPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLH 420 + DDK + AII SMT +ERANP I+ SRK+RIA GSGT ++N+LLK Sbjct: 361 AQL-----DDKELKRIEAIINSMTPKERANPDILNGSRKRRIAKGSGTTVQEVNRLLKQF 415 Query: 421 RQVAEMMHSTQGLGG 435 Q+ +MM +G GG Sbjct: 416 EQMKKMMKKMKGKGG 430 >gnl|CDD|162133 TIGR00959, ffh, signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle. Length = 428 Score = 568 bits (1467), Expect = e-163 Identities = 228/426 (53%), Positives = 320/426 (75%) Query: 2 FDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKG 61 F++L ERL IF+ ++G+G+++E +I LREIR LEADV+L+VV+ F K+V+EKA G Sbjct: 1 FESLSERLQRIFKKLSGRGTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKALG 60 Query: 62 EKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIA 121 +++L+S+ PGQ IKIVH+ELV +LG E+ L+L P VI++VGLQGSGKTTT K+A Sbjct: 61 QEVLKSLSPGQQFIKIVHEELVAILGGENASLNLAKKPPTVILMVGLQGSGKTTTCGKLA 120 Query: 122 YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARD 181 Y+LK + KK+L+ + D++RPAA EQL+ LG+Q+ V + QSP +IA RA + A++ Sbjct: 121 YYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKE 180 Query: 182 GGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVD 241 G+D VI+DTAGR I++ LM+E++ IK + NP EILLV DA+TGQDAV+ A+ F++ + Sbjct: 181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG 240 Query: 242 LTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVV 301 LTG++LT++DGD RGGAALS+R+VTGKPIK IG GEKI+DLE F P+R+A+RILGMGD++ Sbjct: 241 LTGVVLTKLDGDARGGAALSVRSVTGKPIKFIGVGEKIDDLEPFHPERMASRILGMGDIL 300 Query: 302 SLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLKQ 361 SLVEKA ++E++A A+K+ KG+FDLED EQ RQ +K+G + S+L+M+PGM +K Sbjct: 301 SLVEKAQEVVDEEEAKKLAEKMKKGQFDLEDFLEQLRQIKKMGPLSSLLKMIPGMGGVKP 360 Query: 362 NIMPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHR 421 ++ D+K AII+SMT EER NP I+ SR+KRIAAGSGT +NKL+K Sbjct: 361 SLSDLELDEKQFKRIEAIISSMTPEERRNPKILNPSRRKRIAAGSGTTVQDVNKLIKRFE 420 Query: 422 QVAEMM 427 Q+ +MM Sbjct: 421 QMKKMM 426 >gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional. Length = 437 Score = 420 bits (1082), Expect = e-118 Identities = 176/444 (39%), Positives = 269/444 (60%), Gaps = 9/444 (2%) Query: 5 LQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKI 64 L E L + + GK + E + +++I+R L+ADV++++V+ SK ++E+A E+ Sbjct: 1 LGESLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERALEEEP 60 Query: 65 LRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHL 124 + + P + VIKIV++ELV++LG+E+ E + P IMLVGLQGSGKTTT AK+A + Sbjct: 61 PKGLTPREHVIKIVYEELVKLLGEET-EPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYF 119 Query: 125 KTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGY 184 K K L+A+ D +RPAA +QL+ L E+I V + +IA + + Sbjct: 120 KKKGLKVGLVAA-DTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKK--A 176 Query: 185 DAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTG 244 D +I+DTAGR+ + + L++E+ EIK P E+LLV DA GQ A + A+ F + V + G Sbjct: 177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFHEAVGIGG 236 Query: 245 IILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSLV 304 II+T++DG +GG ALS TG PIK IGTGEKI+DLE F PDR +R+LGMGD+ SL+ Sbjct: 237 IIITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLGMGDLESLL 296 Query: 305 EKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGM-PSLKQNI 363 EK L+E++ +K+ KGKF L+D+ +Q K+G + IL+MLPG+ L Sbjct: 297 EKVEEALDEEEEEKDVEKMMKGKFTLKDMYKQLEAMNKMGPLKQILQMLPGLGGKLPDEA 356 Query: 364 MPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHRQV 423 + + ++ + + AI+ SMT+EE NP II SR +RIA GSGT + +LLK ++ + Sbjct: 357 LEVT--EEKLKKYKAIMDSMTEEELENPEIINASRIRRIARGSGTTVEDVRELLKYYKMM 414 Query: 424 AEMMHSTQGLGGNALTQQIMGRLK 447 + M + G ++M + Sbjct: 415 KKAMKQLKKGKGK--MGKLMKQFG 436 >gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional. Length = 336 Score = 227 bits (580), Expect = 6e-60 Identities = 109/282 (38%), Positives = 166/282 (58%), Gaps = 11/282 (3%) Query: 22 LSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDE 81 + E DI + L E+ LE+DV+LEV + + ++EK G+K+ R ++V + + Sbjct: 58 IKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLVGKKVKRGEDVEEIVKNALKEA 117 Query: 82 LVEVLGKES----IELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASL 137 L+EVL IE + P+VI+ VG+ G+GKTTT AK+AY+LK +++A+ Sbjct: 118 LLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKLAYYLKK-NGFSVVIAAG 176 Query: 138 DVHRPAAQEQLRYLGEQIQVDTLEVIPEQ---SPEKIAIRATQSARDGGYDAVILDTAGR 194 D R A EQL E++ V +VI + P +A A + A+ G D V++DTAGR Sbjct: 177 DTFRAGAIEQLEEHAERLGV---KVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGR 233 Query: 195 NHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDG 254 H + +LM E+ +I +T P ++ V DAL G DAV AR F++ V + G+ILT++D D Sbjct: 234 MHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADA 293 Query: 255 RGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILG 296 +GGAALS+ V GKPI +G G+ +DL F PD +++LG Sbjct: 294 KGGAALSIAYVIGKPILFLGVGQGYDDLIPFDPDWFVDKLLG 335 >gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model. Length = 429 Score = 226 bits (578), Expect = 9e-60 Identities = 131/431 (30%), Positives = 225/431 (52%), Gaps = 13/431 (3%) Query: 4 NLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEK 63 +L + S ++++ + E ++ L+EI LE+DV++++V+ + +++ E+ Sbjct: 4 DLGSSITSALRSMSNATVIDEEVLNAMLKEICTALLESDVNIKLVRQLRENIKKAINLEE 63 Query: 64 ILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYH 123 + + +M+ V EL ++ VIM VGLQGSGKTTT K+AY+ Sbjct: 64 MASGLNKRKMIQHAVFKELCNLVDPGVEAFTPKKGKQNVIMFVGLQGSGKTTTCTKLAYY 123 Query: 124 LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGG 183 + K K + D R A +QL+ + ++ E P KIA + + Sbjct: 124 YQR-KGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKKEN 182 Query: 184 YDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLT 243 +D +I+DT+GR+ DSL +E+ ++ P I+ V D GQ A A+ F VD+ Sbjct: 183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKDSVDVG 242 Query: 244 GIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSL 303 +I+T++DG +GG ALS T PI IGTGE I+D E F +++LGMGD+ L Sbjct: 243 SVIITKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGMGDIEGL 302 Query: 304 VEKAAR-NLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLKQN 362 ++K L++ + AL +K+ +G F L D+ EQF+ K+G +G IL M+PG + Sbjct: 303 IDKVQDLKLDDNEKALI-EKLKEGTFTLRDMYEQFQNLLKMGPLGQILSMIPG---FSTD 358 Query: 363 IMPSSFDDKT---INHHIAIIASMTKEE--RANPSII--KHSRKKRIAAGSGTNAAKINK 415 M ++++ I + I+ SMT +E + + + SR +R+A GSG + + + Sbjct: 359 FMSKGNEEESMAKIKKLMTIMDSMTDQELDSTDGKVFSKQPSRIQRVARGSGRSIRDVQE 418 Query: 416 LLKLHRQVAEM 426 LL+ +++ A+M Sbjct: 419 LLEQYKKFAQM 429 >gnl|CDD|161686 TIGR00064, ftsY, signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein. Length = 272 Score = 214 bits (548), Expect = 3e-56 Identities = 103/276 (37%), Positives = 156/276 (56%), Gaps = 11/276 (3%) Query: 26 DISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEV 85 D + E+ LE+DV EVV+ + ++++ KG+K+ + +++ +I+ + L E+ Sbjct: 2 DDEDFFEELEEILLESDVGYEVVEKIIEALKKELKGKKV----KDAELLKEILKEYLKEI 57 Query: 86 LGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQ 145 L + +EL + P VI+ VG+ G GKTTT AK+A LK + K +L+A+ D R AA Sbjct: 58 LKETDLELIVEENKPNVILFVGVNGVGKTTTIAKLANKLKK-QGKSVLLAAGDTFRAAAI 116 Query: 146 EQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEI 205 EQL +++ VD ++ P +A A Q A+ D V++DTAGR +LM E+ Sbjct: 117 EQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDEL 176 Query: 206 SEIK------SLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAA 259 +IK P E+LLV DA TGQ+A+ A+ F++ V LTGIILT++DG +GG Sbjct: 177 KKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTKLDGTAKGGII 236 Query: 260 LSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRIL 295 LS+ PIK IG GEKI+DL F D + Sbjct: 237 LSIAYELKLPIKFIGVGEKIDDLAPFDADWFVEALF 272 >gnl|CDD|182441 PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional. Length = 318 Score = 207 bits (529), Expect = 6e-54 Identities = 111/310 (35%), Positives = 175/310 (56%), Gaps = 24/310 (7%) Query: 1 MFDNLQERLGSIFQNITGK--GSLSETDIS-NTLREIRRTFLEADVSLEVVQSFSKRVQE 57 F+ L++ L +N G ++ I + L E+ +EADV +E + + ++E Sbjct: 16 WFERLKKGLSKTRENFGEGINGLFAKKKIDEDLLEELEELLIEADVGVETTEEIIEELRE 75 Query: 58 KAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTT 117 + K + + + + + +++ +EL E+L L++ P VI++VG+ G GKTTT Sbjct: 76 RVKRKNL----KDPEELKELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTI 131 Query: 118 AKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVI--PEQS-PEKIAIR 174 K+A+ K + KK+L+A+ D R AA EQL+ GE++ V VI E + P +A Sbjct: 132 GKLAHKYKA-QGKKVLLAAGDTFRAAAIEQLQVWGERVGVP---VIAQKEGADPASVAFD 187 Query: 175 ATQSARDGGYDAVILDTAGR--NHINDSLMQEISEIKSLTN------PHEILLVADALTG 226 A Q+A+ G D +I+DTAGR N N LM+E+ +IK + PHE+LLV DA TG Sbjct: 188 AIQAAKARGIDVLIIDTAGRLHNKTN--LMEELKKIKRVIKKADPDAPHEVLLVLDATTG 245 Query: 227 QDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFF 286 Q+A+ A+ F + V LTGIILT++DG +GG ++ G PIK IG GE I+DL+ F Sbjct: 246 QNALSQAKAFHEAVGLTGIILTKLDGTAKGGVVFAIADELGIPIKFIGVGEGIDDLQPFD 305 Query: 287 PDRIANRILG 296 + + +LG Sbjct: 306 AEEFVDALLG 315 >gnl|CDD|180213 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 424 Score = 88.4 bits (220), Expect = 4e-18 Identities = 66/271 (24%), Positives = 130/271 (47%), Gaps = 28/271 (10%) Query: 33 EIRRTFLEADVSLEVVQSFSKRVQEK--AKGEKILRSIQPGQMVIKIVHDELVEVLGKES 90 E+ + + +S E+ + K + E + R + +++ ++ + ++L + Sbjct: 165 ELYKRLKRSGLSPEIAEKLLKLLLEHMPPRERTAWRYLL--ELLANMIPVRVEDILKQGG 222 Query: 91 IELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTL-KKKKILMASLDVHRPAAQEQLR 149 + + LVG G GKTTT AK+A L KKK+ + +LD +R A EQL+ Sbjct: 223 V-----------VALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLK 271 Query: 150 YLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISE-I 208 + + + V + K A + RD D +++DTAGR+ + L++E+ I Sbjct: 272 TYAKIMGIPVEVVYDPKELAK----ALEQLRD--CDVILIDTAGRSQRDKRLIEELKALI 325 Query: 209 KSLTNPHEILLVADALTGQ--DAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVT 266 + P ++ LV + T + D + ++F + L G+I T++D G+ LS+ + Sbjct: 326 EFSGEPIDVYLVL-SATTKYEDLKDIYKHF-SRLPLDGLIFTKLDETSSLGSILSLLIES 383 Query: 267 GKPIKAIGTGEKI-NDLENFFPDRIANRILG 296 G PI + G+++ +D++ P+ + +LG Sbjct: 384 GLPISYLTNGQRVPDDIKVANPEELVRLLLG 414 >gnl|CDD|163294 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. Length = 282 Score = 69.6 bits (171), Expect = 1e-12 Identities = 47/177 (26%), Positives = 74/177 (41%), Gaps = 24/177 (13%) Query: 21 SLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHD 80 L+ ++ L A VS E+ + +++ E+A E R Sbjct: 126 GLAWLQRDPEGAKLLERLLRAGVSPELARELLEKLPERADAEDAWR-------------- 171 Query: 81 ELVEVLGKESIELDLNAPS---PLVIMLVGLQGSGKTTTTAKIAYHLK-TLKKKKILMAS 136 L E L K VI LVG G GKTTT AK+A KK+ + + Sbjct: 172 WLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231 Query: 137 LDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAG 193 D +R A EQL+ + + V ++V + P+++ +A RD D +++DTAG Sbjct: 232 TDTYRIGAVEQLKTYAKILGVP-VKVA--RDPKELR-KALDRLRD--KDLILIDTAG 282 >gnl|CDD|183360 PRK11889, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 436 Score = 66.2 bits (161), Expect = 2e-11 Identities = 50/178 (28%), Positives = 84/178 (47%), Gaps = 6/178 (3%) Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEV 162 I L+G G GKTTT AK+A+ KKK + + D R +QL+ + I + + V Sbjct: 244 IALIGPTGVGKTTTLAKMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAV 302 Query: 163 IPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVAD 222 E + + + AR D +++DTAG+N+ ++E+ E P I L Sbjct: 303 RDEAAMTRALTYFKEEAR---VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLS 359 Query: 223 A-LTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKI 279 A + +D + + NF K + + GI+ T+ D G L + V+ PI + G+ + Sbjct: 360 ASMKSKDMIEIITNF-KDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 416 >gnl|CDD|75717 PRK06731, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 270 Score = 64.4 bits (156), Expect = 7e-11 Identities = 56/222 (25%), Positives = 100/222 (45%), Gaps = 6/222 (2%) Query: 59 AKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTA 118 A EK+ + M+ + V + ++E + ++ I L+G G GKTTT A Sbjct: 34 AYAEKLKVKFENATMITEEVIEYILEDMSSHFNTENVFEKEVQTIALIGPTGVGKTTTLA 93 Query: 119 KIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQS 178 K+A+ KKK + + D R +QL+ + I + + V E + + + Sbjct: 94 KMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE 152 Query: 179 ARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADA-LTGQDAVHLARNFD 237 AR D +++DTAG+N+ ++E+ E P I L A + +D + + NF Sbjct: 153 AR---VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNF- 208 Query: 238 KIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKI 279 K + + GI+ T+ D G L + V+ PI + G+ + Sbjct: 209 KDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 250 >gnl|CDD|183704 PRK12726, PRK12726, flagellar biosynthesis regulator FlhF; Provisional. Length = 407 Score = 60.1 bits (145), Expect = 1e-09 Identities = 55/215 (25%), Positives = 99/215 (46%), Gaps = 13/215 (6%) Query: 87 GKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL-MASLDVHRPAAQ 145 GK ++E + + +I L+G G GKTTT K+ + L LK+ + + + D R A Sbjct: 193 GKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVKLGWQL--LKQNRTVGFITTDTFRSGAV 250 Query: 146 EQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEI 205 EQ + +++ V E+I SP ++ D +++DT GRN++ + + EI Sbjct: 251 EQFQGYADKLDV---ELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEI 307 Query: 206 SEIKSLTNPH-EILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRT 264 S + +P + + D + + +I + G I+T+MD R G ++ Sbjct: 308 SAYTDVVHPDLTCFTFSSGMKSADVMTILPKLAEI-PIDGFIITKMDETTRIGDLYTVMQ 366 Query: 265 VTGKPIKAIGTGEKINDLENFFPDR---IANRILG 296 T P+ + G+ I EN F + +A R +G Sbjct: 367 ETNLPVLYMTDGQNIT--ENIFRPKSRWLAERFVG 399 >gnl|CDD|183705 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF; Provisional. Length = 559 Score = 59.6 bits (144), Expect = 2e-09 Identities = 57/202 (28%), Positives = 94/202 (46%), Gaps = 12/202 (5%) Query: 85 VLGKESIELDLNAPSPL----VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDV 139 +LG S L + PL VI LVG G+GKTTT AK+A + + + + D Sbjct: 331 MLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDT 390 Query: 140 HRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHIND 199 R +EQL G Q+ + E +S + R RD Y V++DTAG + Sbjct: 391 QRVGGREQLHSYGRQLGIAVHEADSAESLLDLLER----LRD--YKLVLIDTAGMGQRDR 444 Query: 200 SLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAA 259 +L +++ +++ +L++ D + R F G++LT++D GR G+A Sbjct: 445 ALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAH-AKPQGVVLTKLDETGRFGSA 503 Query: 260 LSMRTVTGKPIKAIGTGEKIND 281 LS+ PI + G+++ D Sbjct: 504 LSVVVDHQMPITWVTDGQRVPD 525 >gnl|CDD|173186 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 767 Score = 53.3 bits (128), Expect = 1e-07 Identities = 53/185 (28%), Positives = 88/185 (47%), Gaps = 16/185 (8%) Query: 102 VIMLVGLQGSGKTTTTAKIA--YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDT 159 V+ LVG G GKTTTTAK+A + ++ + + D R A EQLR G + V Sbjct: 187 VLALVGPTGVGKTTTTAKLAARCVARE-GADQLALLTTDSFRIGALEQLRIYGRILGV-- 243 Query: 160 LEVIPEQSPEKIA-IRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEIL 218 P + + A +R +A G V++DT G + + ++ ++I+ + + P L Sbjct: 244 ----PVHAVKDAADLRFALAAL-GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRL 298 Query: 219 LVADALTGQDA----VHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIG 274 L+ +A + D VH R+ D+ G I+T++D G AL P+ + Sbjct: 299 LLLNAASHGDTLNEVVHAYRH-GAGEDVDGCIITKLDEATHLGPALDTVIRHRLPVHYVS 357 Query: 275 TGEKI 279 TG+K+ Sbjct: 358 TGQKV 362 >gnl|CDD|173185 PRK14722, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 374 Score = 51.6 bits (123), Expect = 4e-07 Identities = 46/188 (24%), Positives = 86/188 (45%), Gaps = 16/188 (8%) Query: 102 VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL 160 V L+G G GKTTTTAK+A + K+ + + D +R EQLR G+ + V + Sbjct: 139 VFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV-PV 197 Query: 161 EVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLV 220 + + ++A+ ++ V++DT G + + ++ +I+ + P + LL+ Sbjct: 198 HAVKDGGDLQLALAELRNKH-----MVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLL 252 Query: 221 ADALTGQDAVH---------LARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIK 271 +A + D ++ + + DL G ILT++D G L P+ Sbjct: 253 LNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASNLGGVLDTVIRYKLPVH 312 Query: 272 AIGTGEKI 279 + TG+K+ Sbjct: 313 YVSTGQKV 320 >gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF; Provisional. Length = 432 Score = 50.3 bits (120), Expect = 9e-07 Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 15/182 (8%) Query: 78 VHDELVEVLGKE-SIELDLNAPSPL----VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKI 132 V + V L + S++ DL + + V+ VG GSGKTT+ AK+A K + Sbjct: 196 VTERAVTYLEERVSVDSDLFSGTGKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSV 255 Query: 133 LMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTA 192 + + D +R AA EQL+ + + +P + I ARDG + +++DTA Sbjct: 256 SLYTTDNYRIAAIEQLKRYADTMG------MPFYPVKDIKKFKETLARDGS-ELILIDTA 308 Query: 193 GRNHINDSLMQEISEIKSL---TNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTR 249 G +H N ++ + S + E LLV + + + ++ I+LT+ Sbjct: 309 GYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTK 368 Query: 250 MD 251 +D Sbjct: 369 LD 370 >gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148 Score = 47.8 bits (113), Expect = 5e-06 Identities = 30/154 (19%), Positives = 48/154 (31%), Gaps = 14/154 (9%) Query: 99 SPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVD 158 VI++VG GSGKTT +A L ++ + +QL + + Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGP-PGGGVIYIDGEDILEEVLDQL------LLII 53 Query: 159 TLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHE-- 216 S E A AR D +ILD + + + Sbjct: 54 VGGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKS 113 Query: 217 -----ILLVADALTGQDAVHLARNFDKIVDLTGI 245 ++L + L R FD+ + L I Sbjct: 114 EKNLTVILTTNDEKDLGPALLRRRFDRRIVLLLI 147 >gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 420 Score = 40.3 bits (94), Expect = 0.001 Identities = 41/161 (25%), Positives = 76/161 (47%), Gaps = 9/161 (5%) Query: 102 VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL 160 V L+G G GKTTTTAK+A + K+ + + D +R EQLR G+ + V ++ Sbjct: 193 VYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGV-SV 251 Query: 161 EVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLV 220 I + + ++ + + G V++DT G + + L ++I+ + + LL+ Sbjct: 252 RSIKDIADLQLMLHELR-----GKHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLL 306 Query: 221 ADAL-TGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAAL 260 +A +G + + + G I+T++D G AL Sbjct: 307 LNATSSGDTLDEVISAYQG-HGIHGCIITKVDEAASLGIAL 346 >gnl|CDD|180787 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 484 Score = 37.7 bits (88), Expect = 0.007 Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 3/58 (5%) Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKK--KKILMASLDVHRPAAQEQLRYLGEQIQV 157 V L+G G GKTTTTAK+A ++ K+ + + D +R EQLR G+ + V Sbjct: 258 VFALMGPTGVGKTTTTAKLAARC-VMRHGASKVALLTTDSYRIGGHEQLRIYGKILGV 314 >gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF; Provisional. Length = 388 Score = 37.2 bits (86), Expect = 0.008 Identities = 31/112 (27%), Positives = 58/112 (51%), Gaps = 12/112 (10%) Query: 100 PLVIMLVGLQGSGKTTTTAKIA--YHLKTLKKKK-ILMASLDVHRPAAQEQLRYLGEQIQ 156 V +LVG G GKTTT AK+A Y + + K I + ++D +R A++Q++ G+ + Sbjct: 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMG 233 Query: 157 VDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAG---RNHINDSLMQEI 205 IP ++ E + + +D V++DT G ++ + + M+E+ Sbjct: 234 ------IPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKEL 279 >gnl|CDD|178393 PLN02796, PLN02796, D-glycerate 3-kinase. Length = 347 Score = 35.5 bits (82), Expect = 0.028 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%) Query: 97 APSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA-QEQLR 149 PLVI + QG GKTT + Y ++ ++ D + AA Q +L Sbjct: 97 EIPPLVIGISAPQGCGKTTLVFALVYLFNATGRRAASLSIDDFYLTAADQAKLA 150 >gnl|CDD|178608 PLN03046, PLN03046, D-glycerate 3-kinase; Provisional. Length = 460 Score = 34.9 bits (80), Expect = 0.049 Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 22/107 (20%) Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQ------------ 147 PLVI QG GKTT + Y + +K + S+D A+ Q Sbjct: 212 PLVIGFSAPQGCGKTTLVFALDYLFRVTGRKSATL-SIDDFYLTAEGQAELRERNPGNAL 270 Query: 148 LRYLGE------QIQVDTLEVIPEQSPEKIAI---RATQSARDGGYD 185 L G Q V+TLE + + + E I + R +SA G D Sbjct: 271 LELRGNAGSHDLQFSVETLEALSKLTKEGIKMKVPRYDKSAYSGRGD 317 >gnl|CDD|162382 TIGR01479, GMP_PMI, mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal. Length = 468 Score = 33.5 bits (77), Expect = 0.12 Identities = 20/61 (32%), Positives = 29/61 (47%) Query: 140 HRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHIND 199 HR EQLR +G+ LE + + IA+ A +AR G D ++L A + I D Sbjct: 59 HRFIVAEQLREIGKLASNIILEPVGRNTAPAIALAALLAARRNGEDPLLLVLAADHVITD 118 Query: 200 S 200 Sbjct: 119 E 119 >gnl|CDD|162196 TIGR01085, murE, UDP-N-acetylmuramyl-tripeptide synthetase. A close homolog, scoring just below the trusted cutoff, is found (with introns) in Arabidopsis thaliana. Its role is unknown. Length = 464 Score = 32.3 bits (74), Expect = 0.25 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%) Query: 74 VIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQG-SGKTTTTAKIAYHLKTLKKKKI 132 V I+ +L L + PS + ++G+ G +GKTTTT+ IA L+ L KK Sbjct: 58 VPVIIVPDLRHALSSLAAAF-YGHPSK-KLKVIGVTGTNGKTTTTSLIAQLLRLLGKKTG 115 Query: 133 LM 134 L+ Sbjct: 116 LI 117 >gnl|CDD|163179 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria. Length = 650 Score = 31.2 bits (71), Expect = 0.58 Identities = 12/30 (40%), Positives = 22/30 (73%), Gaps = 1/30 (3%) Query: 87 GKESIELDLNAPSPLVIMLVGLQGSGKTTT 116 G+++ +L ++P P +I++ GL G+GKTT Sbjct: 16 GRQTFDLSPSSPKP-IILIGGLNGAGKTTL 44 >gnl|CDD|161782 TIGR00235, udk, uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below. Length = 207 Score = 31.2 bits (71), Expect = 0.64 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%) Query: 98 PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138 P ++I + G GSGKTT KI + L K +I++ S D Sbjct: 4 PKGIIIGIGGGSGSGKTTVARKIY---EQLGKLEIVIISQD 41 >gnl|CDD|168091 PRK05541, PRK05541, adenylylsulfate kinase; Provisional. Length = 176 Score = 30.4 bits (69), Expect = 0.96 Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 4/35 (11%) Query: 98 PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKI 132 P+ VI + GL GSGKTT IA L K K Sbjct: 5 PNGYVIWITGLAGSGKTT----IAKALYERLKLKY 35 >gnl|CDD|134018 PHA02518, PHA02518, ParA-like protein; Provisional. Length = 211 Score = 29.8 bits (67), Expect = 1.3 Identities = 26/86 (30%), Positives = 37/86 (43%), Gaps = 10/86 (11%) Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQ-EQLRYLGEQIQVDTLEVIPEQSP 168 G+GKTT +A L K+L+ LD + + R GE +IP Sbjct: 11 GAGKTTVATNLASWLH-ADGHKVLLVDLDPQGSSTDWAEAREEGE-------PLIPVVRM 62 Query: 169 EKIAIRATQSARDGGYDAVILDTAGR 194 K +IRA GYD V++D A + Sbjct: 63 GK-SIRADLPKVASGYDYVVVDGAPQ 87 >gnl|CDD|184709 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional. Length = 229 Score = 29.9 bits (68), Expect = 1.4 Identities = 11/24 (45%), Positives = 15/24 (62%) Query: 102 VIMLVGLQGSGKTTTTAKIAYHLK 125 I ++G + SGKTT KI +LK Sbjct: 3 AIGVIGFKDSGKTTLIEKILKNLK 26 >gnl|CDD|129256 TIGR00152, TIGR00152, dephospho-CoA kinase. This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases. Length = 188 Score = 29.6 bits (67), Expect = 1.7 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%) Query: 102 VIMLVGLQGSGKTTTTAKIA--YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQI 155 +I L G GSGK+T +A YH + KI ++ PA ++ + + G QI Sbjct: 1 IIGLTGGIGSGKSTVANYLADKYHFPVIDADKIAHQVVEKGSPAYEKIVDHFGAQI 56 >gnl|CDD|106966 PHA00657, PHA00657, crystallin beta/gamma motif-containing protein. Length = 2052 Score = 29.4 bits (65), Expect = 1.8 Identities = 39/191 (20%), Positives = 79/191 (41%), Gaps = 12/191 (6%) Query: 141 RPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGR--NHIN 198 R AQ+ ++ E+++ + + EQ + ++ ++ R LDTA R +N Sbjct: 505 RAEAQQYMQSQAEELRAEVERALGEQQGDDAFKQSAEAVRAAV--KTQLDTAARFTPQVN 562 Query: 199 DSLMQEISEIKSL------TNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDG 252 D+ + ++ T P + ++V + FD+ G +L G Sbjct: 563 DAYSSMVGNFYAVQAARLGTTPEALFQQYPLRVAAESVAGGQQFDQEHGPFGPVLRDFQG 622 Query: 253 DGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSLVEKAARNLN 312 D +G A + +G+ I A+ + I D++ + + R G G + L + L+ Sbjct: 623 DAKGAIAKLLEMKSGEAIGALHHPD-IGDIDLVWGEEGTRRSDGYG-LAKLAKWHPEVLD 680 Query: 313 EKQAALTAKKI 323 + Q L+A K+ Sbjct: 681 DLQGILSAMKV 691 >gnl|CDD|132417 TIGR03374, ABALDH, 1-pyrroline dehydrogenase. Members of this protein family are 1-pyrroline dehydrogenase (1.5.1.35), also called gamma-aminobutyraldehyde dehydrogenase. This enzyme can follow putrescine transaminase (EC 2.6.1.82) for a two-step conversion of putrescine to gamma-aminobutyric acid (GABA). The member from Escherichia coli is characterized as a homotetramer that binds one NADH per momomer. This enzyme belongs to the medium-chain aldehyde dehydrogenases, and is quite similar in sequence to the betaine aldehyde dehydrogenase (EC 1.2.1.8) family. Length = 472 Score = 29.2 bits (65), Expect = 2.2 Identities = 31/128 (24%), Positives = 48/128 (37%), Gaps = 16/128 (12%) Query: 15 NITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQ-- 72 ++TG + E +S+T I+RT +E V+ + +G + GQ Sbjct: 220 SLTGSIATGEHILSHTAPSIKRTHMELGGKAPVIVFDDADIDAVVEGVRTFGFYNAGQDC 279 Query: 73 ------MVIKIVHDELVEVLGKESIELDLNAP-------SPLVIMLVGLQGSGKTTTTAK 119 + ++D LVE LG L AP PL L L+ K AK Sbjct: 280 TAACRIYAQRGIYDTLVEKLGAAVATLKSGAPDDESTELGPL-SSLAHLERVMKAVEEAK 338 Query: 120 IAYHLKTL 127 H+K + Sbjct: 339 ALGHIKVI 346 >gnl|CDD|163066 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC. Length = 615 Score = 29.4 bits (66), Expect = 2.3 Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 13/106 (12%) Query: 31 LREIRRTFLEADVSLEVVQSFSKRVQ-EKAKGEKILRSIQPGQMVIKIVHDELVEVLGKE 89 L EIR L+ + E + K + EK + +K+ +S Q + E++G+E Sbjct: 106 LEEIRLQVLKEEKGPENSSTLKKLERLEKLEKKKLHKSAQS-----LLRPRAFSEIVGQE 160 Query: 90 ----SIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKK 131 ++ + +P P I+L G G GK TT A++A L+ KK K Sbjct: 161 RAIKALLAKVASPFPQHIILYGPPGVGK-TTAARLA--LEEAKKLK 203 >gnl|CDD|163271 TIGR03453, partition_RepA, plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error. Length = 387 Score = 29.2 bits (66), Expect = 2.4 Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%) Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLD 138 GSGKTTT A +A +L L+ ++L LD Sbjct: 115 GSGKTTTAAHLAQYL-ALRGYRVLAIDLD 142 >gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional. Length = 475 Score = 29.0 bits (65), Expect = 2.4 Identities = 10/28 (35%), Positives = 17/28 (60%) Query: 97 APSPLVIMLVGLQGSGKTTTTAKIAYHL 124 P PL +++ G+ G GK+ + +AY L Sbjct: 252 PPRPLHVLIGGVSGVGKSVLASALAYRL 279 >gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit; Provisional. Length = 255 Score = 29.2 bits (66), Expect = 2.6 Identities = 20/92 (21%), Positives = 40/92 (43%), Gaps = 14/92 (15%) Query: 87 GKESI--ELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA 144 G + I +L L+ P+ + L+G G GK+T A L + + + + ++ Sbjct: 13 GTKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARLLTP-QSGTVFLGDKPISMLSS 71 Query: 145 QEQLRYLGEQIQVDTLEVIPEQ--SPEKIAIR 174 ++ R L ++P+ +PE I +R Sbjct: 72 RQLARRLA---------LLPQHHLTPEGITVR 94 >gnl|CDD|181567 PRK08861, PRK08861, cystathionine gamma-synthase; Provisional. Length = 388 Score = 29.1 bits (65), Expect = 2.7 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 126 TLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL--EVIPEQSPEKIAIR 174 TL+ + L A + VH +AQ+ L YL Q V T+ +PE +IA + Sbjct: 242 TLRGIRTLGARMRVHEESAQQILAYLQTQSLVGTIYHPSLPEHPGHEIAKK 292 >gnl|CDD|178416 PLN02821, PLN02821, 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase. Length = 460 Score = 29.0 bits (65), Expect = 2.8 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 6/43 (13%) Query: 175 ATQSARDGGYDAV------ILDTAGRNHINDSLMQEISEIKSL 211 ATQ +D Y V +L G N N S +QEI+E K + Sbjct: 347 ATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGI 389 >gnl|CDD|115374 pfam06712, DUF1199, Protein of unknown function (DUF1199). This family consists of several hypothetical Feline immunodeficiency virus (FIV) proteins. Members of this family are typically around 67 residues long and are often annotated as ORF3 proteins. The function of this family is unknown. Length = 52 Score = 28.7 bits (64), Expect = 3.0 Identities = 14/32 (43%), Positives = 18/32 (56%) Query: 8 RLGSIFQNITGKGSLSETDISNTLREIRRTFL 39 R +IF N G GS+ + IS+ R IR FL Sbjct: 15 RSNNIFTNNQGSGSMETSTISSPSRRIRNNFL 46 >gnl|CDD|179771 PRK04182, PRK04182, cytidylate kinase; Provisional. Length = 180 Score = 28.2 bits (64), Expect = 4.8 Identities = 10/24 (41%), Positives = 14/24 (58%) Query: 101 LVIMLVGLQGSGKTTTTAKIAYHL 124 ++I + G GSGKTT +A L Sbjct: 1 MIITISGPPGSGKTTVARLLAEKL 24 >gnl|CDD|172963 PRK14490, PRK14490, putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional. Length = 369 Score = 28.1 bits (63), Expect = 5.2 Identities = 10/27 (37%), Positives = 11/27 (40%) Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLKT 126 P I G GSGKTT + L Sbjct: 5 PFEIAFCGYSGSGKTTLITALVRRLSE 31 >gnl|CDD|164956 PHA02561, D, tail protein; Provisional. Length = 351 Score = 28.1 bits (63), Expect = 5.4 Identities = 26/127 (20%), Positives = 44/127 (34%), Gaps = 31/127 (24%) Query: 161 EVIPEQSPEKIAIRAT--------QSARDGGYDAVILDT-----AGRNHINDSLMQEIS- 206 EV +P+ + IRA +S R+ + L AGRN++ + ++ Sbjct: 91 EVEHSGAPDTVTIRARSADFRGTLRSRREKSWHRTTLGDIVRAIAGRNNLTPRVAPALAG 150 Query: 207 -EIKSLTNPHEILLVADALTGQDAV---HLARNFD---KIVDLTGIILTRMDGDGRGGAA 259 I + E DA LA+ +D K+ + G G Sbjct: 151 IPIDHIDQTQE----------SDASFLTRLAKRYDAVAKVKGGKLLFAPAGQGKTASGKQ 200 Query: 260 LSMRTVT 266 L + T+T Sbjct: 201 LPVITLT 207 >gnl|CDD|163010 TIGR02773, addB_Gpos, ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function. Length = 1158 Score = 27.8 bits (62), Expect = 5.6 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%) Query: 38 FLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDL 95 FLE + ++ E + E+ Q VI+++ DE+VEVLG E ++L+ Sbjct: 502 FLEELDLPDKLEKHRDYFDEDGRHEEAREYEQIWDAVIQLL-DEMVEVLGNEEMDLNR 558 >gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated. Length = 226 Score = 27.7 bits (62), Expect = 6.2 Identities = 12/19 (63%), Positives = 14/19 (73%), Gaps = 1/19 (5%) Query: 96 NAPSPLVIMLVGLQGSGKT 114 N PSP+V+ L G GSGKT Sbjct: 41 NWPSPVVV-LAGPVGSGKT 58 >gnl|CDD|116198 pfam07579, DUF1548, Domain of Unknown Function (DUF1548). This family appears to be found only in a small family of Chlamydia proteins. Length = 135 Score = 27.7 bits (62), Expect = 6.2 Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 9/94 (9%) Query: 308 ARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGG---IGSIL-RMLPGMPSLKQNI 363 RNL+ T++ + + L ++F + G + IL + L P K + Sbjct: 28 NRNLDALTLRQTSRLYPQKHELYDRLKKRFLNAYRNSGSNLVNYILDQFLTSSPEQKAAL 87 Query: 364 MPSSFDDKTI-----NHHIAIIASMTKEERANPS 392 DD T H I++ + ++ + Sbjct: 88 RNYLLDDLTAINLPETEHADIVSELFYDDNYELN 121 >gnl|CDD|183905 PRK13233, nifH, nitrogenase reductase; Reviewed. Length = 275 Score = 27.9 bits (62), Expect = 6.2 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 3/69 (4%) Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEV 162 I + G G GK+TTT A + KK+ + D P A LG + Q ++ Sbjct: 5 IAIYGKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCD---PKADSTRLILGGKPQTTMMDT 61 Query: 163 IPEQSPEKI 171 + E EK+ Sbjct: 62 LRELGEEKV 70 >gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional. Length = 182 Score = 27.9 bits (62), Expect = 6.3 Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 15/61 (24%) Query: 103 IMLVGLQGSGKT------------TTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRY 150 I++VGL +GKT TT I ++++T++ K + DV Q++LR Sbjct: 20 ILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNLKFTMWDV---GGQDKLRP 76 Query: 151 L 151 L Sbjct: 77 L 77 >gnl|CDD|162176 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase). Length = 488 Score = 27.9 bits (62), Expect = 6.5 Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 5/78 (6%) Query: 207 EIKSLTNPHEILLVADALTGQDAVHLARNFDKIV---DLTGIILTR-MDGDGRGGAALSM 262 EI+ + H + V D G ++ + F K++ II +R G G GA L Sbjct: 56 EIEKIGKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSRGQQGIGISGAVLYS 115 Query: 263 RTVTGKPIKAI-GTGEKI 279 + TGKP+K I TG +I Sbjct: 116 QMTTGKPVKVISSTGGEI 133 >gnl|CDD|162351 TIGR01420, pilT_fam, pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation. Length = 343 Score = 27.7 bits (62), Expect = 6.6 Identities = 10/31 (32%), Positives = 17/31 (54%) Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133 I++ G GSGK+TT A + ++ I+ Sbjct: 125 ILVTGPTGSGKSTTLASMIDYINKNAAGHII 155 >gnl|CDD|178789 PRK00007, PRK00007, elongation factor G; Reviewed. Length = 693 Score = 27.8 bits (63), Expect = 6.8 Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 12/44 (27%) Query: 112 GKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA------QEQLR 149 GKTTTT +I ++ T KI +VH AA QEQ R Sbjct: 22 GKTTTTERILFY--TGVNHKI----GEVHDGAATMDWMEQEQER 59 >gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate. Length = 195 Score = 27.7 bits (62), Expect = 7.2 Identities = 8/31 (25%), Positives = 15/31 (48%) Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133 I++ G+ G+GKTT + L+ + Sbjct: 6 IVIEGIDGAGKTTQANLLKKLLQENGYDVLF 36 >gnl|CDD|148176 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid. Length = 191 Score = 27.6 bits (62), Expect = 7.6 Identities = 7/22 (31%), Positives = 12/22 (54%) Query: 99 SPLVIMLVGLQGSGKTTTTAKI 120 P+ ++L G G+GKT + Sbjct: 11 RPVAVLLGGQPGAGKTELARAL 32 >gnl|CDD|117696 pfam09140, MipZ, ATPase MipZ. MipZ is an ATPase that forms a complex with the chromosome partitioning protein ParB near the chromosomal origin of replication. It is responsible for the temporal and spatial regulation of FtsZ ring formation. Length = 261 Score = 27.3 bits (61), Expect = 7.9 Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 28/108 (25%) Query: 110 GSGKTTTTAKIAYHLKT-LKKKKILMASLDV-HRPAAQEQL-RYLGEQ------------ 154 GSGK+TT A H+ L +A++D+ R Q L RY+ + Sbjct: 11 GSGKSTT----AVHVAVALLYLGARVATIDLDLR---QRTLTRYIENRAATAERTGLDLP 63 Query: 155 ------IQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNH 196 + D EV +S + + + + D +++DT G + Sbjct: 64 VPKHLCLPDDVSEVFDGESADDARLEEAVADLEQDADFIVIDTPGSDS 111 >gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit; Provisional. Length = 353 Score = 27.4 bits (61), Expect = 7.9 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 4/51 (7%) Query: 73 MVIKIVHDELVEVLGKESI--ELDLNAPSPLVIMLVGLQGSGKTTTTAKIA 121 M I+I + + G+ + ++ L+ PS ++ L+G GSGKTT IA Sbjct: 1 MSIEI--ANIKKSFGRTQVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIA 49 >gnl|CDD|151520 pfam11075, DUF2780, Protein of unknown function VcgC/VcgE (DUF2780). This is a bacterial family of uncharacterized proteins. Length = 168 Score = 27.3 bits (61), Expect = 8.3 Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 21/86 (24%) Query: 303 LVEKAARNLNEKQAALTAKKIAKGKFD---LEDLAEQF--RQTQKIGGIGSILRM----- 352 + K+ + + A ++A + L Q Q Q GG G++L + Sbjct: 19 DLAKSRAGSSSEALKGQAAQVAATTETSDLVGSLMSQLGVSQEQAAGGAGALLALAQNNL 78 Query: 353 -----------LPGMPSLKQNIMPSS 367 +PG+ SL S Sbjct: 79 SGDDFSELSKLIPGLDSLLGAAPLDS 104 >gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however. Length = 300 Score = 27.4 bits (61), Expect = 8.3 Identities = 40/200 (20%), Positives = 78/200 (39%), Gaps = 32/200 (16%) Query: 82 LVEVLGKESIELDLNAPSP-----LVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMAS 136 LVE E+ +L L+ P + + G G+GK+T + L+ + K+ + + Sbjct: 12 LVENRHPEAKQL-LDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRR-RGLKVAVIA 69 Query: 137 LDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIR-----ATQSARD-------GGY 184 +D P + LG++ ++ L P + R +Q+ R+ GY Sbjct: 70 VDPSSPFTGGSI--LGDRTRMQRLATDPGAFIRSMPTRGHLGGLSQATRELILLLDAAGY 127 Query: 185 DAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTG 244 D +I++T G SE+ ++V TG D + +I D+ Sbjct: 128 DVIIVETVGVGQ---------SEVDIANMADTFVVVTIPGTGDDLQGIKAGLMEIADI-- 176 Query: 245 IILTRMDGDGRGGAALSMRT 264 ++ + DG+G ++ Sbjct: 177 YVVNKADGEGATNVTIARLM 196 >gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 460 Score = 27.1 bits (61), Expect = 8.7 Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 11/59 (18%) Query: 74 VIKIVHDELVEVLGKESIEL-----DLNAPSPLVIMLVGLQGS-GKTTTTAKIAYHLKT 126 V+ + VEV+G IEL +AP I + G+ GK+TTTA IA+ L+ Sbjct: 85 VVDLARAAGVEVIG--DIELFCRERRAHAPDAPFI---AITGTNGKSTTTALIAHILRE 138 >gnl|CDD|181727 PRK09249, PRK09249, coproporphyrinogen III oxidase; Provisional. Length = 453 Score = 27.4 bits (62), Expect = 8.8 Identities = 26/101 (25%), Positives = 39/101 (38%), Gaps = 35/101 (34%) Query: 22 LSETDISNTLREIRRTFL---EADVSLEV------------------------VQSFSKR 54 LS + + +R F +A++S+E+ VQ F Sbjct: 116 LSPEQLRRLMALLREHFNFAPDAEISIEIDPRELDLEMLDALRELGFNRLSLGVQDFDPE 175 Query: 55 VQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDL 95 VQ KA + R IQP + +V + E LG SI +DL Sbjct: 176 VQ-KA----VNR-IQPFEFTFALV-EAARE-LGFTSINIDL 208 >gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model. Length = 261 Score = 27.3 bits (61), Expect = 9.5 Identities = 14/27 (51%), Positives = 16/27 (59%) Query: 107 GLQGSGKTTTTAKIAYHLKTLKKKKIL 133 G G GKTTTTA + L L KK +L Sbjct: 9 GKGGVGKTTTTANLGTALARLGKKVVL 35 >gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown. Length = 251 Score = 27.0 bits (60), Expect = 9.8 Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 6/42 (14%) Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKK------KILMASL 137 + + G G+GKTT TA + L L KK I MA+L Sbjct: 3 ITIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANL 44 >gnl|CDD|180114 PRK05480, PRK05480, uridine/cytidine kinase; Provisional. Length = 209 Score = 27.0 bits (61), Expect = 9.8 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%) Query: 99 SPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138 P++I + G GSGKTT + I + L + I + D Sbjct: 5 KPIIIGIAGGSGSGKTTVASTIY---EELGDESIAVIPQD 41 >gnl|CDD|179010 PRK00411, cdc6, cell division control protein 6; Reviewed. Length = 394 Score = 27.1 bits (61), Expect = 10.0 Identities = 10/22 (45%), Positives = 15/22 (68%) Query: 99 SPLVIMLVGLQGSGKTTTTAKI 120 PL +++ G G+GKTTT K+ Sbjct: 54 RPLNVLIYGPPGTGKTTTVKKV 75 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 0.316 0.134 0.361 Gapped Lambda K H 0.267 0.0728 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,470,920 Number of extensions: 499799 Number of successful extensions: 1564 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1527 Number of HSP's successfully gapped: 104 Length of query: 461 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 364 Effective length of database: 3,898,497 Effective search space: 1419052908 Effective search space used: 1419052908 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 (21.6 bits) S2: 59 (26.5 bits)