RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780709|ref|YP_003065122.1| cell division protein [Candidatus Liberibacter asiaticus str. psy62] (321 letters) >gnl|CDD|182441 PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional. Length = 318 Score = 399 bits (1027), Expect = e-112 Identities = 145/303 (47%), Positives = 206/303 (67%), Gaps = 2/303 (0%) Query: 5 KVASESLSWIRKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQ 64 K + W +L KG + T EGI + + +++D+ + EELE+LLI +D+GV + Sbjct: 8 KKKEKKEGWFERLKKGLSKTRENFGEGINGLFAKKKIDEDLLEELEELLIEADVGVETTE 67 Query: 65 KIVEELLTKRYAKDVSVQRVLYDV-SELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVG 123 +I+EEL + K++ L ++ E + ++L P+ KP N +P VILVVGVNGVG Sbjct: 68 EIIEELRERVKRKNLKDPEELKELLKEELAEILEPVEKPLN-IEEKKPFVILVVGVNGVG 126 Query: 124 KTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAY 183 KTT IGKL+ K G KV+LAAGDTFR+AAI+QL++W +R + + G+D A++A+ Sbjct: 127 KTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAF 186 Query: 184 EAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQ 243 +A + A+A+ +DVLIIDTAGRLHN + LM + K+ RV+K+ DP APH VL VLDATTGQ Sbjct: 187 DAIQAAKARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ 246 Query: 244 NALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVA 303 NAL Q + FH G TG+I+TK+DGTA+GG + I IP+ F+GVGEGI+DL+PF A Sbjct: 247 NALSQAKAFHEAVGLTGIILTKLDGTAKGGVVFAIADELGIPIKFIGVGEGIDDLQPFDA 306 Query: 304 KDF 306 ++F Sbjct: 307 EEF 309 >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 = 287 bits (737), Expect = 2e-78 Identities = 125/267 (46%), Positives = 180/267 (67%), Gaps = 2/267 (0%) Query: 41 LDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYD-VSELIHKMLMPL 99 D+ EELE++L+ SD+G V +KI+E L + K V +L + + E + ++L Sbjct: 2 DDEDFFEELEEILLESDVGYEVVEKIIEALKKELKGKKVKDAELLKEILKEYLKEILKET 61 Query: 100 SKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLK 159 + ++P+VIL VGVNGVGKTT I KL+ K+ G V+LAAGDTFR+AAI+QL+ Sbjct: 62 DLELIVE-ENKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLE 120 Query: 160 IWADRTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMI 219 WA R D + + G+D AA+A++A ++A+A+ +DV++IDTAGRL N LM + K+ Sbjct: 121 EWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDELKKIK 180 Query: 220 RVLKRLDPHAPHSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIV 279 RV+K++D AP VL VLDATTGQNAL Q ++F+ G TG+I+TK+DGTA+GG ++ I Sbjct: 181 RVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTKLDGTAKGGIILSIA 240 Query: 280 VTHKIPVYFLGVGEGINDLEPFVAKDF 306 K+P+ F+GVGE I+DL PF A F Sbjct: 241 YELKLPIKFIGVGEKIDDLAPFDADWF 267 >gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional. Length = 336 Score = 207 bits (530), Expect = 2e-54 Identities = 111/295 (37%), Positives = 163/295 (55%), Gaps = 24/295 (8%) Query: 27 KLKEGITDIISSRRLD----DGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQ 82 K K G D + + + EELE L+ SD+ + VA++I+E L K K V Sbjct: 44 KEKPGFFDKAKITEIKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLVGKKV--- 100 Query: 83 RVLYDVSELIHKMLMP-----LSKPFNWDF------SHRPHVILVVGVNGVGKTTVIGKL 131 + DV E++ L LS +D +P VI+ VGVNG GKTT I KL Sbjct: 101 KRGEDVEEIVKNALKEALLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKL 160 Query: 132 SKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQA 191 + + G V++AAGDTFR+ AI+QL+ A+R + + G+D AA+AY+A + A+A Sbjct: 161 AYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKA 220 Query: 192 KKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQVEM 251 + +DV++IDTAGR+H ++ LM + K++RV K P V+ V DA G +A+ Q Sbjct: 221 RGIDVVLIDTAGRMHTDANLMDELKKIVRVTK------PDLVIFVGDALAGNDAVEQARE 274 Query: 252 FHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVAKDF 306 F+ G G+I+TK+D A+GG + I P+ FLGVG+G +DL PF F Sbjct: 275 FNEAVGIDGVILTKVDADAKGGAALSIAYVIGKPILFLGVGQGYDDLIPFDPDWF 329 >gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional. Length = 437 Score = 182 bits (464), Expect = 1e-46 Identities = 99/298 (33%), Positives = 155/298 (52%), Gaps = 25/298 (8%) Query: 27 KLKEGITDIISSRRLD-DGVREELEDL---LIRSDIGVAVA----QKIVEELLTKRYAKD 78 L++ + + R+D V+E ++D+ L+++D+ V + + I E L + K Sbjct: 4 SLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERALEEEPPKG 63 Query: 79 VSVQ----RVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKK 134 ++ + +++Y+ EL+ L+ +P I++VG+ G GKTT KL++ Sbjct: 64 LTPREHVIKIVYE--ELVK--LLGEETEPL-VLPLKPQTIMLVGLQGSGKTTTAAKLARY 118 Query: 135 MSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQAKKV 194 GLKV L A DT+R AA DQLK A++ F DA +A E ++ KK Sbjct: 119 FKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF--KKA 176 Query: 195 DVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQVEMFHA 254 DV+I+DTAGR L+ + ++ +K P VL V+DAT GQ A Q + FH Sbjct: 177 DVIIVDTAGRHALEEDLIEEMKEIKEAVK------PDEVLLVIDATIGQQAKNQAKAFHE 230 Query: 255 VAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVAKDFSAVITG 312 G G+I+TK+DGTA+GGG + V P+ F+G GE I+DLE F F + + G Sbjct: 231 AVGIGGIIITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLG 288 >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 = 176 bits (449), Expect = 6e-45 Identities = 92/294 (31%), Positives = 151/294 (51%), Gaps = 17/294 (5%) Query: 21 FASTSLKLKEGITDIISSRRLDD-GVREELEDL---LIRSDIGVAVAQKIVEELLTKRYA 76 F S S +L+ + + + ++E L ++ L+ +D+ + V + ++++ K Sbjct: 1 FESLSERLQRIFKKLSGRGTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKALG 60 Query: 77 KDVSV-----QRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 ++V Q+ + V E + +L + N P VIL+VG+ G GKTT GKL Sbjct: 61 QEVLKSLSPGQQFIKIVHEELVAILGGENASLNLA-KKPPTVILMVGLQGSGKTTTCGKL 119 Query: 132 SKKM-SDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQ 190 + + G KV+L A D +R AAI+QLK+ + G +A A + A+ Sbjct: 120 AYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAK 179 Query: 191 AKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQVE 250 DV+I+DTAGRL + LM + + +L P +L V+DA TGQ+A+ + Sbjct: 180 ENGFDVVIVDTAGRLQIDEELMEELAAIKEILN------PDEILLVVDAMTGQDAVNTAK 233 Query: 251 MFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVAK 304 F+ G TG+++TK+DG ARGG + + P+ F+GVGE I+DLEPF + Sbjct: 234 TFNERLGLTGVVLTKLDGDARGGAALSVRSVTGKPIKFIGVGEKIDDLEPFHPE 287 >gnl|CDD|182793 PRK10867, PRK10867, signal recognition particle protein; Provisional. Length = 433 Score = 168 bits (429), Expect = 2e-42 Identities = 80/193 (41%), Positives = 114/193 (59%), Gaps = 9/193 (4%) Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSD-AGLKVMLAAGDTFRSAAIDQLKIWADRTSADF 169 P VI++VG+ G GKTT GKL+K + KV+L A D +R AAI+QLK ++ Sbjct: 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPV 159 Query: 170 VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHA 229 S G D +A A ++A+ DV+I+DTAGRLH + LM + + + Sbjct: 160 FPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVN------ 213 Query: 230 PHSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPI-VVTHKIPVYF 288 P +L V+DA TGQ+A+ + F+ G TG+I+TK+DG ARGG + I VT K P+ F Sbjct: 214 PDEILLVVDAMTGQDAVNTAKAFNEALGLTGVILTKLDGDARGGAALSIRAVTGK-PIKF 272 Query: 289 LGVGEGINDLEPF 301 +G GE ++DLEPF Sbjct: 273 IGTGEKLDDLEPF 285 >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 = 134 bits (339), Expect = 2e-32 Identities = 82/279 (29%), Positives = 133/279 (47%), Gaps = 24/279 (8%) Query: 48 ELEDLLIRSDIGVAVAQKIVE--------ELLTKRYAKDVSVQRVLYDVSELIHKMLMPL 99 E+ L+ SD+ + + +++ E E + K +Q ++ EL ++ P Sbjct: 33 EICTALLESDVNIKLVRQLRENIKKAINLEEMASGLNKRKMIQHAVFK--ELC-NLVDPG 89 Query: 100 SKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLK 159 + F + +VI+ VG+ G GKTT KL+ G K L DTFR+ A DQLK Sbjct: 90 VEAFTPK-KGKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLK 148 Query: 160 IWADRTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSIL---MAGIG 216 A + F S SD +A E ++ + + D++I+DT+GR L M + Sbjct: 149 QNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVA 208 Query: 217 KMIRVLKRLDPHAPHSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLI 276 + I+ P +++ V+D + GQ A Q + F +I+TK+DG A+GGG + Sbjct: 209 EAIQ---------PDNIIFVMDGSIGQAAEAQAKAFKDSVDVGSVIITKLDGHAKGGGAL 259 Query: 277 PIVVTHKIPVYFLGVGEGINDLEPFVAKDFSAVITGCLD 315 V K P+ F+G GE I+D E F + F + + G D Sbjct: 260 SAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGMGD 298 >gnl|CDD|180213 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 424 Score = 90.7 bits (226), Expect = 4e-19 Identities = 75/274 (27%), Positives = 122/274 (44%), Gaps = 31/274 (11%) Query: 28 LKEGITDIISSRRLD---DGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRV 84 LK + D +S R EL L RS + +A+K+++ LL ++ + R Sbjct: 142 LKNLLEDQLSGLRQVERIPPEFAELYKRLKRSGLSPEIAEKLLKLLLEHMPPRERTAWRY 201 Query: 85 LYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMS--DAGLKV 142 L EL+ M+ D + V+ +VG GVGKTT + KL+ + + KV Sbjct: 202 LL---ELLANMI----PVRVEDILKQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKV 254 Query: 143 MLAAGDTFRSAAIDQLKIWADRTSADF-VCSEIGSDAAALAYEAFKQA--QAKKVDVLII 199 L DT+R A++QLK +A V + + +A Q + DV++I Sbjct: 255 ALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDP---------KELAKALEQLRDCDVILI 305 Query: 200 DTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQ-VEMFHAVAGT 258 DTAGR + L+ + +I P V VL ATT L+ + F + Sbjct: 306 DTAGRSQRDKRLIEELKALIEFSG-----EPIDVYLVLSATTKYEDLKDIYKHFSRL-PL 359 Query: 259 TGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVG 292 GLI TK+D T+ G ++ +++ +P+ +L G Sbjct: 360 DGLIFTKLDETSSLGSILSLLIESGLPISYLTNG 393 >gnl|CDD|163294 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. Length = 282 Score = 77.0 bits (190), Expect = 6e-15 Identities = 51/181 (28%), Positives = 83/181 (45%), Gaps = 19/181 (10%) Query: 28 LKEGITDIISSRRLD--DGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVL 85 L+E + +++ D +L + L+R+ + +A++++E+L A R L Sbjct: 116 LRELLERLLAGLAWLQRDPEGAKLLERLLRAGVSPELARELLEKL--PERADAEDAWRWL 173 Query: 86 YDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKK--MSDAGLKVM 143 E + KML KP + + VI +VG GVGKTT + KL+ + + KV Sbjct: 174 ---REALEKML--PVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVA 228 Query: 144 LAAGDTFRSAAIDQLKIWADRTSADF-VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTA 202 L DT+R A++QLK +A V + AL K D+++IDTA Sbjct: 229 LITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLRDK-------DLILIDTA 281 Query: 203 G 203 G Sbjct: 282 G 282 >gnl|CDD|183704 PRK12726, PRK12726, flagellar biosynthesis regulator FlhF; Provisional. Length = 407 Score = 60.9 bits (147), Expect = 4e-10 Identities = 53/197 (26%), Positives = 90/197 (45%), Gaps = 16/197 (8%) Query: 104 NWDFS-HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWA 162 ++D S HR +I ++G GVGKTT + KL ++ V DTFRS A++Q + +A Sbjct: 200 SFDLSNHR--IISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYA 257 Query: 163 DRTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVL 222 D+ + + + + A L VD ++IDT GR + ++ I V+ Sbjct: 258 DKLDVELI---VATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEISAYTDVV 314 Query: 223 KRLDPHAPHSVLQVLDATTGQNALRQVEMFHAVAG--TTGLIMTKMDGTARGGGLIPIVV 280 H L ++G + + + +A G I+TKMD T R G L ++ Sbjct: 315 --------HPDLTCFTFSSGMKSADVMTILPKLAEIPIDGFIITKMDETTRIGDLYTVMQ 366 Query: 281 THKIPVYFLGVGEGIND 297 +PV ++ G+ I + Sbjct: 367 ETNLPVLYMTDGQNITE 383 >gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF; Provisional. Length = 432 Score = 60.4 bits (146), Expect = 7e-10 Identities = 54/187 (28%), Positives = 78/187 (41%), Gaps = 17/187 (9%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMS-DAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVC 171 V+ VG G GKTT I KL+ K G V L D +R AAI+QLK +AD F Sbjct: 225 VVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFY- 283 Query: 172 SEIGSDAAALAYEAFKQAQAKKVDVLI-IDTAGRLHNNSILMAGIGKMIRVLKRLDPHAP 230 + FK+ A+ LI IDTAG H N + + D Sbjct: 284 -------PVKDIKKFKETLARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKD---- 332 Query: 231 HSV--LQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYF 288 SV L VL +T+ + V + +++TK+D G + + T+ + Sbjct: 333 -SVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEADFLGSFLELADTYSKSFTY 391 Query: 289 LGVGEGI 295 L VG+ + Sbjct: 392 LSVGQEV 398 >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 = 59.7 bits (144), Expect = 1e-09 Identities = 32/146 (21%), Positives = 53/146 (36%), Gaps = 8/146 (5%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADF 169 VIL+VG G GKTT+ L++++ G V+ G+ +DQL + Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLL------IIV 54 Query: 170 VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHA 229 + A A+ K DVLI+D L + + ++ L+ L Sbjct: 55 GGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLL--LLEELRLLLLLK 112 Query: 230 PHSVLQVLDATTGQNALRQVEMFHAV 255 L V+ T + L + Sbjct: 113 SEKNLTVILTTNDEKDLGPALLRRRF 138 >gnl|CDD|75717 PRK06731, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 270 Score = 57.1 bits (137), Expect = 6e-09 Identities = 54/236 (22%), Positives = 101/236 (42%), Gaps = 13/236 (5%) Query: 64 QKIVEELLTKRYAKDVSV--QRVLYDVSELIHKMLMPLSKPFNWD--FSHRPHVILVVGV 119 Q VE+ YA+ + V + E+I +L +S FN + F I ++G Sbjct: 24 QNDVEQYFIHAYAEKLKVKFENATMITEEVIEYILEDMSSHFNTENVFEKEVQTIALIGP 83 Query: 120 NGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAA 179 GVGKTT + K++ + V D R + QL+ + + + D A Sbjct: 84 TGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVR---DEA 140 Query: 180 ALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDA 239 A+ + +VD ++IDTAG+ + S + +MI + +++P + L + + Sbjct: 141 AMTRALTYFKEEARVDYILIDTAGKNYRAS---ETVEEMIETMGQVEPD--YICLTLSAS 195 Query: 240 TTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGI 295 ++ + + F + G++ TK D TA G L+ I P+ + G+ + Sbjct: 196 MKSKDMIEIITNFKDIH-IDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 250 >gnl|CDD|183360 PRK11889, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 436 Score = 57.0 bits (137), Expect = 6e-09 Identities = 56/239 (23%), Positives = 101/239 (42%), Gaps = 18/239 (7%) Query: 64 QKIVEELLTKRYAKDVSVQ---RVLYDVSELIHKMLMPLSKPFNWD--FSHRPHVILVVG 118 Q VE+ YA+ + V+ + E+I +L + FN + F I ++G Sbjct: 189 QNDVEQYFIHAYAEKLKVKFENATMITEEEVIEYILEDMRSHFNTENVFEKEVQTIALIG 248 Query: 119 VNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDA 178 GVGKTT + K++ + V D R + QL+ + + + D Sbjct: 249 PTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVR---DE 305 Query: 179 AAL--AYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQV 236 AA+ A FK + +VD ++IDTAG+ + S + +MI + +++ P + Sbjct: 306 AAMTRALTYFK--EEARVDYILIDTAGKNYRAS---ETVEEMIETMGQVE---PDYICLT 357 Query: 237 LDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGI 295 L A+ + ++ G++ TK D TA G L+ I P+ + G+ + Sbjct: 358 LSASMKSKDMIEIITNFKDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 416 >gnl|CDD|173186 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 767 Score = 56.3 bits (136), Expect = 1e-08 Identities = 50/193 (25%), Positives = 88/193 (45%), Gaps = 31/193 (16%) Query: 113 VILVVGVNGVGKTTVIGKLSKK--MSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV 170 V+ +VG GVGKTT KL+ + + ++ L D+FR A++QL+I+ V Sbjct: 187 VLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILG---V 243 Query: 171 CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAG------RLHNNSILMAGIGK-MIRVLK 223 DAA L + A K + ++IDT G + ++ G+G+ + R+L Sbjct: 244 PVHAVKDAADLRF-ALAALGDKHL--VLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLL- 299 Query: 224 RLDPHAPHSVLQVLDATTGQNALRQV--EMFHAVAG-TTGLIMTKMDGTARGGGLIPIVV 280 +L+A + + L +V H G I+TK+D G + V+ Sbjct: 300 ------------LLNAASHGDTLNEVVHAYRHGAGEDVDGCIITKLDEATHLGPALDTVI 347 Query: 281 THKIPVYFLGVGE 293 H++PV+++ G+ Sbjct: 348 RHRLPVHYVSTGQ 360 >gnl|CDD|173185 PRK14722, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 374 Score = 56.3 bits (135), Expect = 1e-08 Identities = 51/197 (25%), Positives = 90/197 (45%), Gaps = 23/197 (11%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKK--MSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSA 167 R V ++G GVGKTT KL+ + M KV L D++R +QL+I+ Sbjct: 136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV 195 Query: 168 DFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDP 227 + G D A+ + +++IDT G + + I +L D Sbjct: 196 PVHAVKDGGDLQ------LALAELRNKHMVLIDTIGMSQRDRT----VSDQIAMLHGAD- 244 Query: 228 HAPHSVLQVLDATTGQNALRQV-EMFHAVAGT--------TGLIMTKMDGTARGGGLIPI 278 P L +L+AT+ + L +V + + + AG G I+TK+D + GG++ Sbjct: 245 -TPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASNLGGVLDT 303 Query: 279 VVTHKIPVYFLGVGEGI 295 V+ +K+PV+++ G+ + Sbjct: 304 VIRYKLPVHYVSTGQKV 320 >gnl|CDD|183705 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF; Provisional. Length = 559 Score = 53.8 bits (129), Expect = 6e-08 Identities = 53/187 (28%), Positives = 91/187 (48%), Gaps = 15/187 (8%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSD--AGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV 170 VI +VG G GKTT I KL+++ + A V L DT R +QL + + Sbjct: 352 VIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLG--IA 409 Query: 171 CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAP 230 E S + L + ++ + K+ ++IDTAG + L A + +R +++ Sbjct: 410 VHEADSAESLL--DLLERLRDYKL--VLIDTAGMGQRDRALAAQL-NWLRAARQV----- 459 Query: 231 HSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLG 290 + L VL A + L +V A A G+++TK+D T R G + +VV H++P+ ++ Sbjct: 460 -TSLLVLPANAHFSDLDEVVRRFAHAKPQGVVLTKLDETGRFGSALSVVVDHQMPITWVT 518 Query: 291 VGEGIND 297 G+ + D Sbjct: 519 DGQRVPD 525 >gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF; Provisional. Length = 388 Score = 50.3 bits (120), Expect = 6e-07 Identities = 64/301 (21%), Positives = 124/301 (41%), Gaps = 33/301 (10%) Query: 4 QKVASESLSWIRKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVA 63 Q + E S I + K S +L +I + ++ED+L +D + Sbjct: 75 QSIKKEENSSIEDVLKEVKSLKNELAHKKEEI------NHPTILKIEDILRENDFSESYI 128 Query: 64 QKIVEELLTKRYAKDVS-VQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGV 122 + I E + + D+ +V V I K + S + + V ++VG GV Sbjct: 129 KDINEFIKKEFSLSDLDDYDKVRDSVIIYIAKTIK-CSGSIIDNL--KKRVFILVGPTGV 185 Query: 123 GKTTVIGKLSKKMS----DAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDA 178 GKTT I KL+ D L + + D +R A Q++ + D E Sbjct: 186 GKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIE----- 240 Query: 179 AALAYEAFKQ--AQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQV 236 +++ K+ Q+K D++++DT G+ + + +A + +++ R Sbjct: 241 ---SFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGR-----DAEFHLA 292 Query: 237 LDATTGQNALRQVEMFHAVA--GTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEG 294 + +TT + ++ E+FH + +I TK+D T G LI ++ + V ++ G+ Sbjct: 293 VSSTTKTSDVK--EIFHQFSPFSYKTVIFTKLDETTCVGNLISLIYEMRKEVSYVTDGQI 350 Query: 295 I 295 + Sbjct: 351 V 351 >gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional. Length = 420 Score = 43.4 bits (102), Expect = 8e-05 Identities = 46/183 (25%), Positives = 82/183 (44%), Gaps = 14/183 (7%) Query: 113 VILVVGVNGVGKTTVIGKLSKK--MSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV 170 V ++G GVGKTT KL+ + + KV L D++R +QL+I+ + V Sbjct: 193 VYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYG-KLLGVSV 251 Query: 171 CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAP 230 S L + +++IDT G + +L + I +L + Sbjct: 252 RSIKDIADLQLMLHELRGKH-----MVLIDTVGMSQRDQML----AEQIAMLSQCGTQVK 302 Query: 231 HSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLG 290 H L +L+AT+ + L +V + G G I+TK+D A G + V+ K+ ++++ Sbjct: 303 H--LLLLNATSSGDTLDEVISAYQGHGIHGCIITKVDEAASLGIALDAVIRRKLVLHYVT 360 Query: 291 VGE 293 G+ Sbjct: 361 NGQ 363 >gnl|CDD|180787 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated. Length = 484 Score = 42.7 bits (101), Expect = 1e-04 Identities = 57/193 (29%), Positives = 89/193 (46%), Gaps = 44/193 (22%) Query: 117 VGVNGVGKTTVIGKLSKK--MSDAGLKVMLAAGDTFRSAAIDQLKIW---------ADRT 165 +G GVGKTT KL+ + M KV L D++R +QL+I+ A + Sbjct: 262 MGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVK- 320 Query: 166 SADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAG-----RLHNNSILM-AGIGKMI 219 DAA L A + + K + VLI DT G R+ + I M G G + Sbjct: 321 -----------DAADLRL-ALSELRNKHI-VLI-DTIGMSQRDRMVSEQIAMLHGAGAPV 366 Query: 220 RVLKRLDPHAPHSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIV 279 KRL +L+AT+ + L +V + G G I+TK+D A GG + +V Sbjct: 367 ---KRL---------LLLNATSHGDTLNEVVQAYRGPGLAGCILTKLDEAASLGGALDVV 414 Query: 280 VTHKIPVYFLGVG 292 + +K+P++++ G Sbjct: 415 IRYKLPLHYVSNG 427 >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 = 36.7 bits (85), Expect = 0.008 Identities = 28/135 (20%), Positives = 52/135 (38%), Gaps = 21/135 (15%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD---TFRSAAIDQLKIWADRTS 166 H + + G G GK+T++ L ++ GLKV + A D F +I + R + Sbjct: 33 NAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQRLA 92 Query: 167 AD---FV----CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAG---------RLHNNSI 210 D F+ + E A DV+I++T G + + + Sbjct: 93 TDPGAFIRSMPTRGHLGGLSQATRELILLLDAAGYDVIIVETVGVGQSEVDIANMADTFV 152 Query: 211 L--MAGIGKMIRVLK 223 + + G G ++ +K Sbjct: 153 VVTIPGTGDDLQGIK 167 >gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment. Length = 184 Score = 35.9 bits (83), Expect = 0.012 Identities = 17/43 (39%), Positives = 25/43 (58%) Query: 109 HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151 HR VI + G++G GK+T+ L KK+ G +V + GD R Sbjct: 16 HRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVR 58 >gnl|CDD|179724 PRK04040, PRK04040, adenylate kinase; Provisional. Length = 188 Score = 34.9 bits (81), Expect = 0.026 Identities = 13/27 (48%), Positives = 19/27 (70%) Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSD 137 V++V GV GVGKTTV+ K +K+ + Sbjct: 2 MKVVVVTGVPGVGKTTVLNKALEKLKE 28 >gnl|CDD|183326 PRK11823, PRK11823, DNA repair protein RadA; Provisional. Length = 446 Score = 34.3 bits (80), Expect = 0.049 Identities = 24/92 (26%), Positives = 52/92 (56%), Gaps = 14/92 (15%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSAD---- 168 V+L+ G G+GK+T++ +++ +++ AG KV+ +G+ SA+ Q+K+ A+R Sbjct: 82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGE--ESAS--QIKLRAERLGLPSDNL 137 Query: 169 FVCSEIGSDAAALAYEAFKQAQAKKVDVLIID 200 ++ +E +A + +K D+++ID Sbjct: 138 YLLAETNLEA------ILATIEEEKPDLVVID 163 >gnl|CDD|179661 PRK03846, PRK03846, adenylylsulfate kinase; Provisional. Length = 198 Score = 34.1 bits (79), Expect = 0.052 Identities = 15/43 (34%), Positives = 24/43 (55%) Query: 109 HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151 H+ V+ G++G GK+TV G L + + + G+ L GD R Sbjct: 22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNVR 64 Score = 26.8 bits (60), Expect = 6.7 Identities = 9/18 (50%), Positives = 14/18 (77%) Query: 128 IGKLSKKMSDAGLKVMLA 145 +G+++K M DAGL V+ A Sbjct: 85 VGEVAKLMVDAGLVVLTA 102 >gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity. Length = 249 Score = 34.0 bits (78), Expect = 0.056 Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 4/49 (8%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIW 161 +I++ G+ GVGK+T +L+KK+S+ + V++ D R + +W Sbjct: 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLIR----ESFPVW 45 >gnl|CDD|179813 PRK04296, PRK04296, thymidine kinase; Provisional. Length = 190 Score = 33.9 bits (79), Expect = 0.062 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 18/86 (20%) Query: 123 GKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALA 182 GK+T + + + + G+KV++ AID DR V S IG A+ Sbjct: 14 GKSTELLQRAYNYEERGMKVLVF------KPAID------DRYGEGKVVSRIGLSREAIP 61 Query: 183 YE------AFKQAQAKKVDVLIIDTA 202 + + +K+D ++ID A Sbjct: 62 VSSDTDIFELIEEEGEKIDCVLIDEA 87 >gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 1042 Score = 32.6 bits (74), Expect = 0.15 Identities = 16/67 (23%), Positives = 24/67 (35%), Gaps = 8/67 (11%) Query: 91 LIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVI--------GKLSKKMSDAGLKV 142 L K DF+ + L+ G G GKTT++ GKL ++ Sbjct: 6 LTLKNFGSYKGTHTIDFTALGPIFLICGKTGAGKTTLLDAITYALYGKLPRRSEVIRSLN 65 Query: 143 MLAAGDT 149 L A + Sbjct: 66 SLYAAPS 72 >gnl|CDD|168091 PRK05541, PRK05541, adenylylsulfate kinase; Provisional. Length = 176 Score = 32.3 bits (74), Expect = 0.18 Identities = 13/46 (28%), Positives = 21/46 (45%) Query: 106 DFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151 +VI + G+ G GKTT+ L +++ V+ GD R Sbjct: 2 QMKPNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELR 47 >gnl|CDD|132060 TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems. Length = 269 Score = 32.0 bits (73), Expect = 0.24 Identities = 37/102 (36%), Positives = 48/102 (47%), Gaps = 10/102 (9%) Query: 108 SHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSA 167 S R IL+ G G GKTT+I L K+ D +V+ A R A D L++ A Sbjct: 40 SQREGFILITGEVGAGKTTLIRNLLKR-LDQE-RVVAAKLVNTRVDAEDLLRMVAA---- 93 Query: 168 DFVCSEIGSDAAAL--AYEAF--KQAQAKKVDVLIIDTAGRL 205 DF G D AAL E F +Q A K +L++D A L Sbjct: 94 DFGLETEGRDKAALLRELEDFLIEQFAAGKRALLVVDEAQNL 135 >gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional. Length = 175 Score = 31.9 bits (73), Expect = 0.24 Identities = 14/39 (35%), Positives = 23/39 (58%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151 + G++G GKTT+ L++K+ +AG V + GD R Sbjct: 6 TVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAVR 44 >gnl|CDD|184251 PRK13695, PRK13695, putative NTPase; Provisional. Length = 174 Score = 31.4 bits (72), Expect = 0.28 Identities = 12/29 (41%), Positives = 20/29 (68%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 I + G GVGKTT++ K+++ + + G KV Sbjct: 3 IGITGPPGVGKTTLVLKIAELLKEEGYKV 31 >gnl|CDD|134018 PHA02518, PHA02518, ParA-like protein; Provisional. Length = 211 Score = 31.4 bits (71), Expect = 0.33 Identities = 21/87 (24%), Positives = 32/87 (36%), Gaps = 13/87 (14%) Query: 121 GVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSAD---FVCSEIGSD 177 G GKTTV L+ + G KV+L D S+ WA+ +G Sbjct: 11 GAGKTTVATNLASWLHADGHKVLLVDLDPQGSST-----DWAEAREEGEPLIPVVRMGKS 65 Query: 178 AAALAYEAFKQAQAKKVDVLIIDTAGR 204 A + A D +++D A + Sbjct: 66 IRADLPK-----VASGYDYVVVDGAPQ 87 >gnl|CDD|179771 PRK04182, PRK04182, cytidylate kinase; Provisional. Length = 180 Score = 31.3 bits (72), Expect = 0.37 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 4/42 (9%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA 154 +I + G G GKTTV L++K+ GLK ++AG+ FR A Sbjct: 2 IITISGPPGSGKTTVARLLAEKL---GLK-HVSAGEIFRELA 39 >gnl|CDD|182885 PRK10991, fucI, L-fucose isomerase; Provisional. Length = 588 Score = 31.1 bits (71), Expect = 0.40 Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 7/59 (11%) Query: 29 KEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYD 87 K GI I RR+ GVRE LE+ + ++ A A I E L R+A V+ V+ D Sbjct: 6 KIGIRPTIDGRRM--GVRESLEEQTM--NMAKATAALITENL---RHACGEPVECVIAD 57 >gnl|CDD|179010 PRK00411, cdc6, cell division control protein 6; Reviewed. Length = 394 Score = 31.0 bits (71), Expect = 0.48 Identities = 12/34 (35%), Positives = 21/34 (61%) Query: 109 HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 RP +L+ G G GKTT + K+ +++ + +KV Sbjct: 53 SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKV 86 >gnl|CDD|172962 PRK14489, PRK14489, putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional. Length = 366 Score = 30.5 bits (69), Expect = 0.53 Identities = 14/47 (29%), Positives = 25/47 (53%) Query: 96 LMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 L L + + P ++ VVG +G GKTT++ KL ++ G ++ Sbjct: 190 LEQLRAIPDGTTTGAPPLLGVVGYSGTGKTTLLEKLIPELIARGYRI 236 >gnl|CDD|114590 pfam05872, DUF853, Bacterial protein of unknown function (DUF853). This family consists of several bacterial proteins of unknown function. One member from Brucella melitensis is thought to be an ATPase. Length = 504 Score = 30.5 bits (69), Expect = 0.59 Identities = 14/31 (45%), Positives = 19/31 (61%) Query: 115 LVVGVNGVGKTTVIGKLSKKMSDAGLKVMLA 145 L+ G G GKT + L++ SDAG+ V LA Sbjct: 25 LIAGATGTGKTVTLQVLAESFSDAGVPVFLA 55 >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 = 30.4 bits (69), Expect = 0.63 Identities = 11/31 (35%), Positives = 18/31 (58%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVML 144 I++ G++G GKTT L K + + G V+ Sbjct: 6 IVIEGIDGAGKTTQANLLKKLLQENGYDVLF 36 >gnl|CDD|184709 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional. Length = 229 Score = 30.3 bits (69), Expect = 0.70 Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 I V+G GKTT+I K+ K + + G +V Sbjct: 3 AIGVIGFKDSGKTTLIEKILKNLKERGYRV 32 >gnl|CDD|162728 TIGR02146, LysS_fung_arch, homocitrate synthase. This model includes the yeast LYS21 gene which carries out the first step of the alpha-aminoadipate (AAA) lysine biosynthesis pathway. A related pathway is found in Thermus thermophilus. This enzyme is closely related to 2-isopropylmalate synthase (LeuA) and citramalate synthase (CimA), both of which are present in the euryarchaeota. Some archaea have a separate homocitrate synthase (AksA) which also synthesizes longer homocitrate analogs. Length = 344 Score = 30.1 bits (68), Expect = 0.73 Identities = 36/171 (21%), Positives = 52/171 (30%), Gaps = 58/171 (33%) Query: 136 SDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQAKKVD 195 AGL+V +A DTFRS AD S G D +A Sbjct: 120 KSAGLEVRFSAEDTFRSE-------LADLLSIYETVGVFGVDRVGIA------------- 159 Query: 196 VLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQVEMFHAV 255 DT G+ + ++IR + R+ P HA Sbjct: 160 ----DTVGKAA-----PRQVYELIRTVVRVVPGVDIE-------------------LHAH 191 Query: 256 AGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGE--GINDLEPFVAK 304 T + + G ++ V LG+GE GI L +A+ Sbjct: 192 NDTGCAVANAYNAIEGGATIVDTTV--------LGIGERNGITPLGGILAR 234 >gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional. Length = 632 Score = 30.3 bits (69), Expect = 0.74 Identities = 11/45 (24%), Positives = 21/45 (46%) Query: 107 FSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151 +P + G++G GK+T+ + +++ G L GD R Sbjct: 456 KGQKPATVWFTGLSGSGKSTIANLVERRLHALGRHTYLLDGDNVR 500 >gnl|CDD|179089 PRK00698, tmk, thymidylate kinase; Validated. Length = 205 Score = 30.2 bits (69), Expect = 0.74 Identities = 9/27 (33%), Positives = 15/27 (55%) Query: 118 GVNGVGKTTVIGKLSKKMSDAGLKVML 144 G++G GK+T I L + + G V+ Sbjct: 10 GIDGAGKSTQIELLKELLEQQGRDVVF 36 >gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional. Length = 182 Score = 29.8 bits (67), Expect = 0.85 Identities = 15/37 (40%), Positives = 22/37 (59%) Query: 95 MLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 M + LS F F + IL+VG++ GKTT++ KL Sbjct: 1 MGLWLSSAFKSLFGKKEVRILMVGLDAAGKTTILYKL 37 >gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional. Length = 181 Score = 29.9 bits (67), Expect = 0.87 Identities = 14/37 (37%), Positives = 24/37 (64%) Query: 95 MLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 M + +K F+ F+ + IL+VG++ GKTT++ KL Sbjct: 1 MGLSFTKLFSRLFAKKEMRILMVGLDAAGKTTILYKL 37 >gnl|CDD|183453 PRK12338, PRK12338, hypothetical protein; Provisional. Length = 319 Score = 30.1 bits (68), Expect = 0.87 Identities = 9/27 (33%), Positives = 21/27 (77%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMS 136 +P+VIL+ +G+GK+T+ +L++ ++ Sbjct: 3 KPYVILIGSASGIGKSTIASELARTLN 29 >gnl|CDD|148565 pfam07015, VirC1, VirC1 protein. This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon which enhances T-DNA processing probably does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA. Length = 231 Score = 29.8 bits (67), Expect = 1.0 Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 5/94 (5%) Query: 121 GVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSA-DFVCSEIGSDAA 179 G GKTT + L ++ G +V L D R + + + A R D C +D Sbjct: 12 GAGKTTALMGLCSALASDGKRVALFEADENRP--LTKWRENALRKGTWDPACEIFNADEL 69 Query: 180 ALAYEAFKQAQAKKVDVLIIDTAGRLH--NNSIL 211 L +A++ A+ D + DT G NN+I+ Sbjct: 70 PLLEQAYEHAEGSGFDYALADTHGGSSELNNTII 103 >gnl|CDD|181310 PRK08233, PRK08233, hypothetical protein; Provisional. Length = 182 Score = 29.3 bits (66), Expect = 1.3 Identities = 9/28 (32%), Positives = 18/28 (64%) Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDA 138 +I + V+G GKTT+ +L+ K+ ++ Sbjct: 3 TKIITIAAVSGGGKTTLTERLTHKLKNS 30 >gnl|CDD|163008 TIGR02768, TraA_Ti, Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer. Length = 744 Score = 29.0 bits (65), Expect = 1.7 Identities = 33/112 (29%), Positives = 49/112 (43%), Gaps = 27/112 (24%) Query: 116 VVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIG 175 VVG G GK+T++ + AG +V+ AA A + L+ +E G Sbjct: 373 VVGRAGTGKSTMLKAAREAWEAAGYRVIGAA---LSGKAAEGLQ------------AESG 417 Query: 176 SDAAALAYEAFKQAQAKKV----DVLIIDTAGRLHNNSILMAGIGKMIRVLK 223 ++ LA + A + + DVL+ID AG M G +M RVLK Sbjct: 418 IESRTLASLEYAWANGRDLLSDKDVLVIDEAG--------MVGSRQMARVLK 461 >gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional. Length = 282 Score = 29.0 bits (65), Expect = 1.9 Identities = 11/32 (34%), Positives = 20/32 (62%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVML 144 +I++ G+ G GK+T L+ +S G++V L Sbjct: 5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL 36 >gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175 Score = 28.7 bits (64), Expect = 1.9 Identities = 13/33 (39%), Positives = 22/33 (66%) Query: 99 LSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 + K F+ F ++ IL+VG++ GKTT++ KL Sbjct: 1 MGKLFSKLFGNKEMRILMVGLDAAGKTTILYKL 33 >gnl|CDD|149019 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 139 Score = 28.4 bits (64), Expect = 2.4 Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%) Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTS 166 V+LV G G GK+ + +L+ +S+ + + DT + I TS Sbjct: 1 GVLLV-GPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIANGTTS 54 >gnl|CDD|185651 PTZ00472, PTZ00472, serine carboxypeptidase (CBP1); Provisional. Length = 462 Score = 28.2 bits (63), Expect = 2.6 Identities = 22/115 (19%), Positives = 37/115 (32%), Gaps = 46/115 (40%) Query: 76 AKDVSVQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKM 135 K + Q +V+ + M K FN+ + Sbjct: 329 VKPATWQSCNMEVNLMFEMDWM---KNFNYTVPG-------------------------L 360 Query: 136 SDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQ 190 + G++VM+ AGD DF+C+ IG+ A LA + A+ Sbjct: 361 LEDGVRVMIYAGDM------------------DFICNWIGNKAWTLALQWPGNAE 397 >gnl|CDD|163431 TIGR03719, ABC_ABC_ChvD, ATP-binding cassette protein, ChvD family. Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown. Length = 552 Score = 28.4 bits (64), Expect = 2.7 Identities = 56/235 (23%), Positives = 93/235 (39%), Gaps = 62/235 (26%) Query: 4 QKVASESLSWIRKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVA 63 QK L W+R K + S K + R ++ + +E + ++I + Sbjct: 265 QKALKRELEWVRSSPKARQAKS---KARLA------RYEELLSQEFQKRNETAEIYIPPG 315 Query: 64 Q----KIVE-ELLTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVIL-VV 117 K++E E L+K + ++L D + F P I+ V+ Sbjct: 316 PRLGDKVIEAENLSKGFGD-----KLLID----------------DLSFKLPPGGIVGVI 354 Query: 118 GVNGVGKTTVIGKLSKKMS-DAG-LKVMLAAGDTFRSAAIDQLK--IWADRTSADFVCSE 173 G NG GK+T+ ++ + D+G +K+ G+T + A +DQ + + ++T V E Sbjct: 355 GPNGAGKSTLFRMITGQEQPDSGTIKI----GETVKLAYVDQSRDALDPNKT----VWEE 406 Query: 174 I--GSDAAAL--------AYEA---FK-QAQAKKVDVLIIDTAGRLHNNSILMAG 214 I G D L AY FK Q KKV L R+H L +G Sbjct: 407 ISGGLDIIQLGKREVPSRAYVGRFNFKGSDQQKKVGQLSGGERNRVHLAKTLKSG 461 >gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional. Length = 590 Score = 28.2 bits (64), Expect = 3.0 Identities = 10/20 (50%), Positives = 13/20 (65%) Query: 109 HRPHVILVVGVNGVGKTTVI 128 + VI +VG NG+GKTT Sbjct: 363 YEGEVIGIVGPNGIGKTTFA 382 Score = 27.5 bits (62), Expect = 4.3 Identities = 10/20 (50%), Positives = 14/20 (70%) Query: 113 VILVVGVNGVGKTTVIGKLS 132 V ++G NG+GKTT + LS Sbjct: 101 VTGILGPNGIGKTTAVKILS 120 >gnl|CDD|163345 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. Length = 276 Score = 28.2 bits (64), Expect = 3.1 Identities = 11/25 (44%), Positives = 18/25 (72%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKK 134 RP ++VG+ VGK+T+I +L+ K Sbjct: 117 RPIRAMIVGIPNVGKSTLINRLAGK 141 >gnl|CDD|184809 PRK14738, gmk, guanylate kinase; Provisional. Length = 206 Score = 27.8 bits (62), Expect = 3.7 Identities = 8/30 (26%), Positives = 20/30 (66%) Query: 102 PFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 P+ ++ +P ++++ G +GVGK V+ ++ Sbjct: 4 PWLFNKPAKPLLVVISGPSGVGKDAVLARM 33 >gnl|CDD|149480 pfam08433, KTI12, Chromatin associated protein KTI12. This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II. The Elongator complex has histone acetyltransferase activity. Length = 266 Score = 28.0 bits (63), Expect = 3.7 Identities = 9/29 (31%), Positives = 17/29 (58%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 I++ G+ GK+T +L+K + + G V Sbjct: 2 IILTGLPSSGKSTRAKELAKYLEEKGYDV 30 >gnl|CDD|184198 PRK13638, cbiO, cobalt transporter ATP-binding subunit; Provisional. Length = 271 Score = 27.7 bits (61), Expect = 3.8 Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 1/35 (2%) Query: 98 PLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLS 132 P+ K N DFS P V +VG NG GK+T+ LS Sbjct: 15 PVLKGLNLDFSLSP-VTGLVGANGCGKSTLFMNLS 48 >gnl|CDD|161745 TIGR00176, mobB, molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes. Length = 155 Score = 27.7 bits (62), Expect = 4.1 Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 V+ +VG GKTT+I +L K + G +V Sbjct: 1 VLQIVGPKNSGKTTLIERLVKALKARGYRV 30 >gnl|CDD|162298 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases. Length = 163 Score = 27.8 bits (62), Expect = 4.2 Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 5/41 (12%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA 154 +++GV G GK+T+ L+ ++ ++ GD AA Sbjct: 1 FVLMGVAGSGKSTIASALAHRLGAKFIE-----GDDLHPAA 36 >gnl|CDD|183324 PRK11819, PRK11819, putative ABC transporter ATP-binding protein; Reviewed. Length = 556 Score = 27.8 bits (63), Expect = 4.3 Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 16/49 (32%) Query: 116 VVGVNGVGKTTVIGKLSKKM------SDAG-LKVMLAAGDTFRSAAIDQ 157 ++G NG GK+T+ KM D+G +K+ G+T + A +DQ Sbjct: 355 IIGPNGAGKSTLF-----KMITGQEQPDSGTIKI----GETVKLAYVDQ 394 >gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional. Length = 180 Score = 27.8 bits (62), Expect = 4.4 Identities = 11/23 (47%), Positives = 16/23 (69%) Query: 113 VILVVGVNGVGKTTVIGKLSKKM 135 +I + G GVGKTTV L++K+ Sbjct: 2 IIAITGTPGVGKTTVSKLLAEKL 24 >gnl|CDD|183903 PRK13230, PRK13230, nitrogenase reductase-like protein; Reviewed. Length = 279 Score = 27.4 bits (61), Expect = 4.4 Identities = 9/35 (25%), Positives = 20/35 (57%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148 G G+GK+T + ++ ++++G KV++ D Sbjct: 4 FCFYGKGGIGKSTTVCNIAAALAESGKKVLVVGCD 38 >gnl|CDD|163076 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. Length = 365 Score = 27.6 bits (62), Expect = 4.5 Identities = 10/30 (33%), Positives = 16/30 (53%) Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMSDAG 139 RP + + G G GKT V + K++ +A Sbjct: 39 RPSNVFIYGKTGTGKTAVTKYVMKELEEAA 68 >gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 637 Score = 27.6 bits (61), Expect = 4.5 Identities = 13/61 (21%), Positives = 31/61 (50%), Gaps = 10/61 (16%) Query: 76 AKDVSV-QRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKK 134 +++V ++ + +V + ++ + R ++L+ G +G GK+T I LSK+ Sbjct: 83 QHELAVHKKKIEEVETWLKAQVLENAP-------KR--ILLITGPSGCGKSTTIKILSKE 133 Query: 135 M 135 + Sbjct: 134 L 134 >gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes. Length = 204 Score = 27.4 bits (61), Expect = 4.9 Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%) Query: 113 VILVVGVN-GVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRS 152 V+L+ V G GK+T ++ + AG K +L GD S Sbjct: 19 VLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNS 59 >gnl|CDD|184928 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional. Length = 491 Score = 27.4 bits (61), Expect = 5.0 Identities = 11/16 (68%), Positives = 13/16 (81%) Query: 111 PHVILVVGVNGVGKTT 126 P IL+VG +GVGKTT Sbjct: 35 PQSILLVGASGVGKTT 50 >gnl|CDD|161868 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)). Length = 454 Score = 27.5 bits (61), Expect = 5.2 Identities = 28/131 (21%), Positives = 56/131 (42%), Gaps = 30/131 (22%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADR----TSADF 169 IL+ G G+GK+T++ +++ +++ +KV+ +G+ ++ Q+K+ A R + Sbjct: 97 ILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGE----ESLQQIKMRAIRLGLPEPNLY 152 Query: 170 VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHA 229 V SE + + + +ID+ L++ I A Sbjct: 153 VLSETNWEQICAN------IEEENPQACVIDSIQTLYSPDI----------------SSA 190 Query: 230 PHSVLQVLDAT 240 P SV QV + T Sbjct: 191 PGSVSQVRECT 201 >gnl|CDD|180730 PRK06851, PRK06851, hypothetical protein; Provisional. Length = 367 Score = 27.2 bits (61), Expect = 5.4 Identities = 8/31 (25%), Positives = 18/31 (58%) Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 + ++ G G GK+T++ K+ ++ + G V Sbjct: 31 RIFILKGGPGTGKSTLMKKIGEEFLEKGYDV 61 >gnl|CDD|184707 PRK14491, PRK14491, putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional. Length = 597 Score = 27.3 bits (61), Expect = 5.5 Identities = 10/39 (25%), Positives = 22/39 (56%), Gaps = 2/39 (5%) Query: 106 DFSHRPHVIL--VVGVNGVGKTTVIGKLSKKMSDAGLKV 142 F++ + L +G GKTT++ +L +++ GL++ Sbjct: 3 PFTNPLSIPLLGFCAYSGTGKTTLLEQLIPELNQRGLRL 41 >gnl|CDD|184708 PRK14493, PRK14493, putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional. Length = 274 Score = 27.3 bits (61), Expect = 5.8 Identities = 10/28 (35%), Positives = 17/28 (60%) Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAG 139 V+ +VG GKTT++ +L ++S G Sbjct: 2 KVLSIVGYKATGKTTLVERLVDRLSGRG 29 >gnl|CDD|179620 PRK03642, PRK03642, putative periplasmic esterase; Provisional. Length = 432 Score = 27.1 bits (60), Expect = 6.2 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 2/50 (4%) Query: 54 IRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPF 103 I SD+ + IVE + + D V+ +Y L H + PL K F Sbjct: 202 IYSDVDYMLLGFIVESITGQPL--DRYVEESIYRPLGLTHTVFNPLQKGF 249 >gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional. Length = 675 Score = 27.2 bits (61), Expect = 6.3 Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 4/40 (10%) Query: 94 KMLMPLS--KPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131 L P K F S +P +++ G GVGKT+ + KL Sbjct: 162 ASLQPDVQLKIFEAWISRKP--VVLTGGTGVGKTSQVPKL 199 >gnl|CDD|182336 PRK10253, PRK10253, iron-enterobactin transporter ATP-binding protein; Provisional. Length = 265 Score = 27.3 bits (60), Expect = 6.4 Identities = 13/33 (39%), Positives = 20/33 (60%) Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVML 144 H ++G NG GK+T++ LS+ M+ A V L Sbjct: 34 HFTAIIGPNGCGKSTLLRTLSRLMTPAHGHVWL 66 >gnl|CDD|184332 PRK13796, PRK13796, GTPase YqeH; Provisional. Length = 365 Score = 27.1 bits (61), Expect = 6.9 Identities = 10/22 (45%), Positives = 17/22 (77%) Query: 116 VVGVNGVGKTTVIGKLSKKMSD 137 VVGV VGK+T+I ++ K+++ Sbjct: 165 VVGVTNVGKSTLINRIIKEITG 186 >gnl|CDD|180114 PRK05480, PRK05480, uridine/cytidine kinase; Provisional. Length = 209 Score = 27.0 bits (61), Expect = 7.4 Identities = 9/22 (40%), Positives = 13/22 (59%) Query: 106 DFSHRPHVILVVGVNGVGKTTV 127 +P +I + G +G GKTTV Sbjct: 1 MMMKKPIIIGIAGGSGSGKTTV 22 >gnl|CDD|184738 PRK14551, rnhB, ribonuclease HII; Provisional. Length = 212 Score = 27.0 bits (60), Expect = 7.5 Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 4/44 (9%) Query: 28 LKEGITDIISSRRLDDGVREEL-EDLLIRSDIGVAVAQKIVEEL 70 L +GI D S+RL REEL +L I V VA+ + Sbjct: 29 LPDGIDD---SKRLSPERREELAAELREDDAIAVGVAEIPPARI 69 >gnl|CDD|180593 PRK06500, PRK06500, short chain dehydrogenase; Provisional. Length = 249 Score = 26.8 bits (60), Expect = 7.6 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 4/62 (6%) Query: 20 GFASTSLKLKEGITDIISSRRLD--DGVREEL--EDLLIRSDIGVAVAQKIVEELLTKRY 75 G + L EG I+ R + R EL L+IR+D G AQK + + L + + Sbjct: 19 GLETARQFLAEGARVAITGRDPASLEAARAELGESALVIRADAGDVAAQKALAQALAEAF 78 Query: 76 AK 77 + Sbjct: 79 GR 80 >gnl|CDD|172477 PRK13974, PRK13974, thymidylate kinase; Provisional. Length = 212 Score = 26.9 bits (60), Expect = 8.0 Identities = 13/29 (44%), Positives = 19/29 (65%) Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGL 140 I++ G++G GKTT I LSK + +GL Sbjct: 4 KFIVLEGIDGCGKTTQIDHLSKWLPSSGL 32 >gnl|CDD|161852 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment. Length = 441 Score = 26.7 bits (59), Expect = 8.1 Identities = 13/32 (40%), Positives = 20/32 (62%) Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 P IL++G GVGKT + +L+K + +KV Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 78 >gnl|CDD|106194 PRK13232, nifH, nitrogenase reductase; Reviewed. Length = 273 Score = 26.9 bits (59), Expect = 8.1 Identities = 12/35 (34%), Positives = 19/35 (54%) Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148 I + G G+GK+T L+ +S G K++L D Sbjct: 4 IAIYGKGGIGKSTTTQNLTAALSTMGNKILLVGCD 38 >gnl|CDD|132307 TIGR03263, guanyl_kin, guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP. Length = 180 Score = 26.7 bits (60), Expect = 8.9 Identities = 8/30 (26%), Positives = 19/30 (63%) Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142 +I++ G +GVGK+T++ L ++ + + Sbjct: 3 LIVISGPSGVGKSTLVKALLEEDPNLKFSI 32 >gnl|CDD|178622 PLN03073, PLN03073, ABC transporter F family; Provisional. Length = 718 Score = 26.4 bits (58), Expect = 9.3 Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 10/53 (18%) Query: 103 FNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAI 155 F D R I +VG NG+GK+T++ +S ++ ++G FRSA + Sbjct: 530 FGIDLDSR---IAMVGPNGIGKSTILKLISGELQP-------SSGTVFRSAKV 572 >gnl|CDD|183545 PRK12472, PRK12472, hypothetical protein; Provisional. Length = 508 Score = 26.4 bits (58), Expect = 9.4 Identities = 24/89 (26%), Positives = 34/89 (38%), Gaps = 18/89 (20%) Query: 132 SKKMSDAGLKVMLAAGDTFRSAAIDQLKIWAD--RTSADFVCSEIGS------------- 176 +K +DA LK A +A D+ K A+ + A +E + Sbjct: 233 AKARADAELK---RADKALAAAKTDEAKARAEERQQKAAQQAAEAATQLDTAKADAEAKR 289 Query: 177 DAAALAYEAFKQAQAKKVDVLIIDTAGRL 205 AAA EA K A AKK + T +L Sbjct: 290 AAAAATKEAAKAAAAKKAETAKAATDAKL 318 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 0.320 0.136 0.383 Gapped Lambda K H 0.267 0.0715 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,211,237 Number of extensions: 346015 Number of successful extensions: 1229 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1196 Number of HSP's successfully gapped: 138 Length of query: 321 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 228 Effective length of database: 3,984,929 Effective search space: 908563812 Effective search space used: 908563812 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 57 (25.8 bits)