RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780178|ref|YP_003064591.1| queuine tRNA-ribosyltransferase [Candidatus Liberibacter asiaticus str. psy62] (378 letters) >gnl|CDD|30691 COG0343, Tgt, Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]. Length = 372 Score = 495 bits (1276), Expect = e-141 Identities = 204/369 (55%), Positives = 255/369 (69%) Query: 7 FNLKAVSGSARLGEIITPRGVIKTPAFMPVGTAGTVKAMYFDQVRDLGADVILGNAYHLM 66 F + A G AR+G + TP GVI+TPAFMPVGT GTVK M +++++LGA +IL N YHL Sbjct: 1 FEILAKDGGARVGRLETPHGVIETPAFMPVGTNGTVKGMTPEELKELGAQIILTNTYHLY 60 Query: 67 LRPGAERIARLGGLHKFIRWFKPILTDSGGFQVMSLSKLCSIDEQGVRFRSHIDGSLYRV 126 LRPG E +A LGGLHKF+ W PILTDSGGFQV SL L I E+GV F+SHIDGS + Sbjct: 61 LRPGLEIVALLGGLHKFMGWDGPILTDSGGFQVFSLGDLRKITEEGVTFKSHIDGSKVFL 120 Query: 127 SPEESVHIQNLLGSDIQMQLDECLALPAEDKELKRAMELSLRWAERSLVAFGNQPGKALF 186 +PEES+ IQ LGSDI M LDEC PA+ + ++++E +LRWAERSL A +ALF Sbjct: 121 TPEESMEIQKDLGSDIIMILDECTPPPADREYAEKSVERTLRWAERSLEAHKRLNDQALF 180 Query: 187 GIVQGGDNINLRSFSAERLKELDLKGYAIGGLAVGEPQEVMLHILSNVLPILPVERPHYL 246 GIVQGG +LR SAE L ELD GYAIGGL+VGEP+E M+ IL P+LP ++P YL Sbjct: 181 GIVQGGTYEDLRRRSAEELNELDFDGYAIGGLSVGEPKEDMVRILEATKPLLPEDKPRYL 240 Query: 247 MGVGTPDDILKSVSYGVDMFDCVMPTRAGRHGLAFTRFGKINLRNARHIDDMRPLDAESH 306 MGVG P+DI+++V+ GVDMFDCVMPTR R+G TR G++N+RNA+ +D RPLD Sbjct: 241 MGVGHPEDIVEAVALGVDMFDCVMPTRYARNGRLLTRDGRVNIRNAKLAEDTRPLDEPCS 300 Query: 307 CSALRDYSRAYLHHLLRVNESLAGMILSWANLAYYQDLMKEIRSAIAEDCFVDFAMQTQE 366 C R+YSRAYL HL R NE L +L+ NL +Y LMKEIR AI E F++F + E Sbjct: 301 CPTCRNYSRAYLRHLRRANEELGARLLTIHNLYFYLRLMKEIRQAIKEGRFLEFVEEFAE 360 Query: 367 NWKKGDIPP 375 + Sbjct: 361 KHPRLLPAY 369 >gnl|CDD|39111 KOG3908, KOG3908, KOG3908, Queuine-tRNA ribosyltransferase [RNA processing and modification]. Length = 396 Score = 339 bits (870), Expect = 9e-94 Identities = 147/355 (41%), Positives = 214/355 (60%), Gaps = 1/355 (0%) Query: 16 ARLGEIITPRGVIKTPAFMPVGTAGTVKAMYFDQVRDLGADVILGNAYHLMLRPGAERIA 75 AR+G + P ++TP FMPVGT GT+K + +Q+ +LG ++LGN YHL LRPG E + Sbjct: 21 ARVGTLELPHSSVETPVFMPVGTQGTMKGIVPEQLDELGCRILLGNTYHLGLRPGHELLK 80 Query: 76 RLGGLHKFIRWFKPILTDSGGFQVMSLSKLCSIDEQGVRFRSHIDGSLYRVSPEESVHIQ 135 + GGLHKF+ W + ILTDSGGFQ++SL KL ++ E GVRFRS DG ++PE+S+ IQ Sbjct: 81 KAGGLHKFMNWNRNILTDSGGFQMVSLLKLATVTEDGVRFRSPHDGEDMLLTPEKSIEIQ 140 Query: 136 NLLGSDIQMQLDECLALPAEDKELKRAMELSLRWAERSLVAFGNQPGKALFGIVQGGDNI 195 N LG+DI MQLD+ + ++ AM S+RW +R ++A + LF I+QGG + Sbjct: 141 NALGADIMMQLDDVVHTLTTGPRVEEAMYRSIRWLDRCIMAHNRDDEQNLFPIIQGGLDE 200 Query: 196 NLRSFSAERLKELDLKGYAIGGLAVGEPQEVMLHILSNVLPILPVERPHYLMGVGTPDDI 255 LR+ + + + G AIGGL+ GE + +++ LP ++P YLMGVG +D+ Sbjct: 201 GLRAECIAEMLKRSVPGIAIGGLSGGEEKSEFWRMVAFCTSSLPPDKPRYLMGVGYAEDL 260 Query: 256 LKSVSYGVDMFDCVMPTRAGRHGLAFTRFGKINLRNARHIDDMRPLDAESHCSALRDYSR 315 + V+ G DMFDCV PTR R G A G + LR ++ D P+D C + Y+R Sbjct: 261 VVCVALGSDMFDCVYPTRTARFGKALVDSGDLQLRQKKYKSDFGPIDETCGCPTCKKYTR 320 Query: 316 AYLHHLLRVNESLAGMILSWANLAYYQDLMKEIRSAIAEDCFVDFAMQTQENWKK 370 AYLH L+ E++ +L+ N+AY LM+++R +I ED F F + K Sbjct: 321 AYLHALVG-KETVGCHLLTIHNIAYQLQLMRDVRESIQEDRFPQFVKNFMASRFK 374 >gnl|CDD|145056 pfam01702, TGT, Queuine tRNA-ribosyltransferase. This is a family of queuine tRNA-ribosyltransferases EC:2.4.2.29, also known as tRNA-guanine transglycosylase and guanine insertion enzyme. Queuine tRNA-ribosyltransferase modifies tRNAs for asparagine, aspartic acid, histidine and tyrosine with queuine. It catalyses the exchange of guanine-34 at the wobble position with 7-aminomethyl-7-deazaguanine, and the addition of a cyclopentenediol moiety to 7-aminomethyl-7-deazaguanine-34 tRNA; giving a hypermodified base queuine in the wobble position. The aligned region contains a zinc binding motif C-x-C-x2-C-x29-H, and important tRNA and 7-aminomethyl-7deazaguanine binding residues. Length = 238 Score = 321 bits (825), Expect = 2e-88 Identities = 131/233 (56%), Positives = 162/233 (69%) Query: 129 EESVHIQNLLGSDIQMQLDECLALPAEDKELKRAMELSLRWAERSLVAFGNQPGKALFGI 188 EES+ IQN LGSDI M LDEC PA + ++++E +LRWA+R L A + G+ALFGI Sbjct: 1 EESIEIQNKLGSDIIMPLDECTPYPASRERAEKSVERTLRWADRCLEAHKEKSGQALFGI 60 Query: 189 VQGGDNINLRSFSAERLKELDLKGYAIGGLAVGEPQEVMLHILSNVLPILPVERPHYLMG 248 VQGG +LR SAE L ELD GYAIGGL+VGE +E ML ++ V P+LP ++P YLMG Sbjct: 61 VQGGLYEDLREESAEELAELDFDGYAIGGLSVGEEKEEMLELVDAVTPLLPEDKPRYLMG 120 Query: 249 VGTPDDILKSVSYGVDMFDCVMPTRAGRHGLAFTRFGKINLRNARHIDDMRPLDAESHCS 308 VGTP+DIL++V+ GVDMFDCV PTR R+G A T G INL+NAR+ D RPLD C Sbjct: 121 VGTPEDILEAVALGVDMFDCVFPTRYARNGRALTFDGTINLKNARYKLDFRPLDPPCDCY 180 Query: 309 ALRDYSRAYLHHLLRVNESLAGMILSWANLAYYQDLMKEIRSAIAEDCFVDFA 361 R+YSRAYLHHLL+ E L +L+ NL YY LM+EIR AI E F +F Sbjct: 181 TCRNYSRAYLHHLLKAKEMLGSRLLTIHNLHYYLRLMREIREAIEEGTFEEFV 233 >gnl|CDD|39112 KOG3909, KOG3909, KOG3909, Queuine-tRNA ribosyltransferase [RNA processing and modification]. Length = 414 Score = 109 bits (273), Expect = 1e-24 Identities = 88/384 (22%), Positives = 154/384 (40%), Gaps = 50/384 (13%) Query: 7 FNLKAVSGSARLGEIITPRG--VIKTPAFMPVGTAGTVKAMYFDQVRDLGADVILGN-AY 63 F++++ RLG+I G V+KTP F+ G++ + D V + A Sbjct: 3 FSIESSPNGGRLGKITVGSGNKVLKTPCFLLYTKRGSIPHLTPDVVEN-----QFDIPAL 57 Query: 64 HLMLRPGAERIARL------GGLHKFIRWFKPILTDSGGFQVMSLSKLCSIDEQGVRFRS 117 + +R+ G KFI + L S G + Sbjct: 58 YQGTLSTLDRLEESLTLTNEGTGKKFIGM-------PSVLPTLLLPDPTSPLPSGYNDQK 110 Query: 118 HIDGSLYRVSPEES------VHIQNLLGSD-IQMQLDECLALPAEDKELKRAMELSLRWA 170 + +++ S + S + I L D ++ D + P K + ++++ S+ + Sbjct: 111 SV--NIWTASGKVSLTVDLYMEIVLSLCPDLVEPLNDTDTSPPGAKKRVPKSVDRSVNFT 168 Query: 171 ERSLVAFGNQPG---KALFGIVQGGDNINLRSFSAERLKELDLKGYAIGGL-AVGEPQEV 226 L+A +FG V D L A + G A G E + Sbjct: 169 TELLLALEKVNAFNTTKIFGGVPDLDRQYLTPIFAREQENQLYGGIAFLGFSNNKETDKE 228 Query: 227 MLHILSNVLPILPVERPHYLMGVGTPDDILKSVSYGVDMFDCVMPTRAGRHGLAFT---- 282 ML++L L LP ++P + G +P ++L+ + G+D+FD P +A G+A T Sbjct: 229 MLNLLEADLVGLPEDKPRCISGFESPLEVLECIQRGIDLFDSSFPYQATEAGVALTFSFD 288 Query: 283 -----------RFGKINLRNARHIDDMRPLDAESHCSALRDYSRAYLHHLLRVNESLAGM 331 G +++ + + +D PL + C R Y+RAYLHHLL+ E LA + Sbjct: 289 PPSKDDLNSKIELG-LDMWDEKFAEDFTPLQSGCVCYTCRKYTRAYLHHLLQTRELLAWI 347 Query: 332 ILSWANLAYYQDLMKEIRSAIAED 355 +L N+ +Y + IR ++ ED Sbjct: 348 LLMLHNVYHYTAFFQGIRESLQED 371 >gnl|CDD|31738 COG1549, COG1549, Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]. Length = 519 Score = 30.7 bits (69), Expect = 0.72 Identities = 22/83 (26%), Positives = 30/83 (36%), Gaps = 7/83 (8%) Query: 245 YLMGVGTPDDILKSVSYGVDMFDCVMPTRAGRHGLAFTRFGKINLRNARHIDDMRPLDAE 304 Y G+ P++I V GVD+FD + GL FT FG R D++ L Sbjct: 99 YASGLADPENIPLLVYLGVDLFDDSLAKIYAYEGLYFTPFGISFDREDLPRDNVEFLREM 158 Query: 305 SHC-------SALRDYSRAYLHH 320 LR+ L Sbjct: 159 LERVRRAIRNGTLRELVEKALVT 181 >gnl|CDD|153283 cd07599, BAR_Rvs167p, The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 167 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 167 (Rvs167p) and Schizosaccharomyces pombe Hob1 (homolog of Bin1). S. cerevisiae Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. It forms a heterodimer with another BAR domain protein Rvs161p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. Rvs167p also interacts with the GTPase activating protein (GAP) Gyp5p, which is involved in ER to Golgi vesicle trafficking. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 216 Score = 30.3 bits (69), Expect = 1.0 Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 24/78 (30%) Query: 302 DAESHCSALRDYSRAY-------LHHLLRVNESLAGMI-----------------LSWAN 337 E L + S+A+ L H + + A + + A Sbjct: 13 SLEKSLKKLIEQSKAFRDSWRSILTHQIAFAKEFAELYDPIVGPKESVGSHPAPESTLAR 72 Query: 338 LAYYQDLMKEIRSAIAED 355 L+ Y ++E++ + E+ Sbjct: 73 LSRYVKALEELKKELLEE 90 >gnl|CDD|173756 cd08216, PK_STRAD, Pseudokinase domain of STE20-related kinase adapter protein. Protein Kinase family, STE20-related kinase adapter protein (STRAD) subfamily, pseudokinase domain. The STRAD subfamily is part of a larger superfamily that includes the catalytic domains of serine/threonine kinases (STKs), protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. The pseudokinase domain shows similarity to protein kinases but lacks crucial residues for catalytic activity. STRAD forms a complex with the scaffolding protein MO25, and the STK, LKB1, resulting in the activation of the kinase. In the complex, LKB1 phosphorylates and activates adenosine monophosphate-activated protein kinases (AMPKs), which regulate cell energy metabolism and cell polarity. LKB1 is a tumor suppressor linked to the rare inherited disease, Peutz-Jeghers syndrome, which is characterized by a predisposition to benign polyps and hyperpigmentation of the buccal mucosa. There are two forms of STRAD, alpha and beta, that complex with LKB1 and MO25. The structure of STRAD-alpha is available and shows that this protein binds ATP, has an ordered activation loop, and adopts a closed conformation typical of fully active protein kinases. It does not possess activity due to nonconservative substitutions of essential catalytic residues. ATP binding enhances the affinity of STRAD for MO25. The conformation of STRAD-alpha stabilized through ATP and MO25 may be needed to activate LKB1. Length = 314 Score = 30.0 bits (68), Expect = 1.0 Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 14/84 (16%) Query: 70 GAERIARLGGLHKFIRWFKPILTDSGGFQVMS-LSKLCSIDEQGVRFRS------HIDGS 122 + I G +H+ ++ IL G V+S L S+ + G R R + Sbjct: 113 ALDYIHSKGFIHRSVK-ASHILLSGDGKVVLSGLRYSVSMIKHGKRQRVVHDFPKSSVKN 171 Query: 123 LYRVSPEESVHIQNLLG----SDI 142 L +SPE V QNL G SDI Sbjct: 172 LPWLSPE--VLQQNLQGYNEKSDI 193 >gnl|CDD|31364 COG1171, IlvA, Threonine dehydratase [Amino acid transport and metabolism]. Length = 347 Score = 29.8 bits (67), Expect = 1.3 Identities = 17/54 (31%), Positives = 20/54 (37%), Gaps = 4/54 (7%) Query: 28 IKTPAFMPVGTAGTVKAMYFDQVRDLGADVILGNAYHLMLRPGAERIARLGGLH 81 IK MP T + D R GA+VIL AE +A GL Sbjct: 98 IKATIVMPETTP----KIKVDATRGYGAEVILHGDNFDDAYAAAEELAEEEGLT 147 >gnl|CDD|39590 KOG4389, KOG4389, KOG4389, Acetylcholinesterase/Butyrylcholinesterase [Signal transduction mechanisms]. Length = 601 Score = 28.8 bits (64), Expect = 2.9 Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 1/39 (2%) Query: 164 ELSLRWAERSLVAFGNQPGK-ALFGIVQGGDNINLRSFS 201 +L+L+W + ++ AFG P + LFG G ++ S Sbjct: 200 QLALQWVQENIAAFGGNPSRVTLFGESAGAASVVAHLLS 238 >gnl|CDD|144346 pfam00708, Acylphosphatase, Acylphosphatase. Length = 90 Score = 28.0 bits (63), Expect = 4.4 Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 3/29 (10%) Query: 186 FGIVQGGDNINLRSFSAERLKELDLKGYA 214 G VQG + R F +EL LKGY Sbjct: 10 TGRVQG---VGFRPFVYRLARELGLKGYV 35 >gnl|CDD|38075 KOG2864, KOG2864, KOG2864, Nuclear division RFT1 protein [Cell cycle control, cell division, chromosome partitioning]. Length = 530 Score = 28.0 bits (62), Expect = 4.6 Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 7/85 (8%) Query: 74 IARLGGLHKFIRWFKPILTDSGGFQVMSLSKLCSIDEQGVRFRSHIDGSL---YRVSP-E 129 + +L F + K +LT+ G VM+ ++L S +QGV GSL P E Sbjct: 241 LLKLTKSFTFQSFLKQLLTE-GDKYVMTFTELLSFGDQGVYDLVSNYGSLLARLIFRPIE 299 Query: 130 ESVHI--QNLLGSDIQMQLDECLAL 152 ES +I LL D Q + + + + Sbjct: 300 ESSYIYFARLLSRDNQENVKKAVDV 324 >gnl|CDD|31208 COG1004, Ugd, Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]. Length = 414 Score = 27.5 bits (61), Expect = 6.4 Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 10/81 (12%) Query: 2 DKNFHFNLKAVSGSAR-LGEIITPRGVIKTPAFMPVGTAGTVKAMYFDQVRDLGADVIL- 59 D++ +L V A+ +GEI+ + V+ + +PVGT V+A ++ +V Sbjct: 89 DEDGSADLSYVEAVAKDIGEILDGKAVVVIKSTVPVGTTEEVRAKIREENSGKDFEVASN 148 Query: 60 ------GNAYHLMLRPGAERI 74 G+A + L P +RI Sbjct: 149 PEFLREGSAVYDFLYP--DRI 167 >gnl|CDD|113282 pfam04506, Rft-1, Rft protein. Length = 533 Score = 27.1 bits (60), Expect = 8.9 Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%) Query: 87 FKPILTDSGGFQVMSLSKLCSIDEQGV 113 K +LT+ G VM+ ++L S+ EQ V Sbjct: 253 LKQLLTE-GDKYVMTFTELLSLKEQAV 278 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.323 0.140 0.420 Gapped Lambda K H 0.267 0.0628 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 4,768,329 Number of extensions: 257559 Number of successful extensions: 572 Number of sequences better than 10.0: 1 Number of HSP's gapped: 570 Number of HSP's successfully gapped: 20 Length of query: 378 Length of database: 6,263,737 Length adjustment: 95 Effective length of query: 283 Effective length of database: 4,210,882 Effective search space: 1191679606 Effective search space used: 1191679606 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 58 (26.3 bits)