RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780979|ref|YP_003065392.1| aspartyl/glutamyl-tRNA amidotransferase subunit B [Candidatus Liberibacter asiaticus str. psy62] (500 letters) >gnl|CDD|30413 COG0064, GatB, Asp-tRNAAsn/Glu-tRNAGln amidotransferase B subunit (PET112 homolog) [Translation, ribosomal structure and biogenesis]. Length = 483 Score = 673 bits (1738), Expect = 0.0 Identities = 267/488 (54%), Positives = 344/488 (70%), Gaps = 10/488 (2%) Query: 17 GTTGDWEVVIGIEVHAQLSVVSKLFSGASVNFG-AEPNTQVSFFDAAMPGMLPILNGRCV 75 ++EVVIG+EVH QL+ +KLFSG S +FG AEPNT V +PG LP+LN V Sbjct: 1 ANMMNFEVVIGLEVHVQLNTKTKLFSGCSTDFGGAEPNTNVCPVCLGLPGALPVLNKEAV 60 Query: 76 QQAVMTGLGLNAHINKYSVFARKNYFYPDLPQGYQISQHDKPIVGEGKVSVSIGPDKSGQ 135 ++A+ GL LN IN+ SVF RKNYFYPDLP+GYQISQ DKPI G + + + + Sbjct: 61 EKAIKAGLALNCEINEKSVFDRKNYFYPDLPKGYQISQFDKPIAENGYLEIELEDGE--- 117 Query: 136 FRTIEVGIERIHLEQDAGKSIHDQYSAVSCIDLNRSGVALMEIVTKPDMRSSLEAKAFLT 195 +GIERIHLE+DAGK H+ + S +D NR+GV L+EIVT+PD+RS EA+A+L Sbjct: 118 --EKRIGIERIHLEEDAGKLTHEGSAGYSLVDYNRAGVPLIEIVTEPDIRSPEEARAYLK 175 Query: 196 KLRSILRYLGTCDGNMEEGSMRADVNVSVCRPG-EAWGTRCEVKNVNSIRFLGLAIEYEA 254 KLRSILRYLG DGNMEEGSMR D NVSV G E +GTR E+KN+NS R + AIEYE Sbjct: 176 KLRSILRYLGISDGNMEEGSMRCDANVSVRPKGQEEFGTRVEIKNLNSFRNVEKAIEYEI 235 Query: 255 RRQIAILEDGGHIRQETRLFDPSKNETRSLRTKEDALDYRYFSEPDLLPLEIDEDFIRAI 314 +RQI +LE GG I QETR FD + +T S+R+KE+A DYRYF EPDL PLEI +++I + Sbjct: 236 QRQIELLESGGEIEQETRRFDEATGKTVSMRSKEEAEDYRYFPEPDLPPLEISDEWIEEV 295 Query: 315 KKQIPELPDAKRERFIGEFGISLYDASVLVSDKSIADYFEKLAVNRDK-KIVANWVINDL 373 + +PELPD KRER+I E+G+S YDA VL SDK +ADYFE+ K+ ANW+ N+L Sbjct: 296 RATLPELPDEKRERYIKEYGLSEYDARVLTSDKELADYFEEAVKAGADAKLAANWLTNEL 355 Query: 374 LGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGKIAKD-IFNILWEKGGTPKEIVEEL 432 LG+LN++G ++E++P++P QL ELI LI +GTISGKIAK+ +F IL G P+EI+EE Sbjct: 356 LGLLNKAGITLEESPLTPEQLAELIKLIDEGTISGKIAKELVFEILANGGKDPEEIIEEK 415 Query: 433 GLRQVTDLSAIEKVVDEVINSNPNNVARI-ATKPNLVSWFVGQVMKNTGGKANPSIVQKM 491 GL Q++D +EK+VDEV+ NP V + K + + VGQVMK T GKANP V ++ Sbjct: 416 GLVQISDEGELEKIVDEVLAENPKAVEDYKSGKEKALGFLVGQVMKATKGKANPQQVNEL 475 Query: 492 LKEKLGIK 499 LKEKLG Sbjct: 476 LKEKLGKV 483 >gnl|CDD|37649 KOG2438, KOG2438, KOG2438, Glutamyl-tRNA amidotransferase subunit B [Translation, ribosomal structure and biogenesis]. Length = 505 Score = 493 bits (1270), Expect = e-140 Identities = 207/488 (42%), Positives = 304/488 (62%), Gaps = 12/488 (2%) Query: 20 GDWEVVIGIEVHAQLSVVSKLFSGASVNFGAEPNTQVSFFDAAMPGMLPILNGRCVQQAV 79 W VIG+E+HAQL+ VSKLFSG+ VNFGA PNT VS+FDA++PG LP+LN V+ AV Sbjct: 21 RKWAAVIGLEIHAQLATVSKLFSGSKVNFGAPPNTSVSYFDASLPGTLPVLNREAVEFAV 80 Query: 80 MTGLGLNAHINKYSVFARKNYFYPDLPQGYQISQHDKPIVGEGKVSVSIGPDKSGQFRTI 139 L LN +N S F RK+YFYPDLP GYQI+Q PI G + +S G D Sbjct: 81 KLSLALNCEVNNVSKFDRKHYFYPDLPAGYQITQQRIPIARNGFIPLSAGLDNVPD---K 137 Query: 140 EVGIERIHLEQDAGKSIHDQYSAVSCIDLNRSGVALMEIVTKPDMRSSLEAKAFLTKLRS 199 +GI +I LEQD GKS HD + S +DLNR+GV L+EIVTKPD +EA AF+ +L+ Sbjct: 138 TIGILQIQLEQDTGKSTHDDAPSRSLVDLNRAGVPLLEIVTKPDFSDGIEAAAFVKELQL 197 Query: 200 ILRYLGTCDGNMEEGSMRADVNVSVCRPGEAWGTRCEVKNVNSIRFLGLAIEYEARRQIA 259 ILR+LG GNMEEG++R DVN+S+ G GTR E+KN+NSIR + AI+YE +RQ+ Sbjct: 198 ILRHLGISSGNMEEGALRVDVNISIAPDGSELGTRVELKNLNSIRSISNAIDYEIQRQVE 257 Query: 260 ILEDGGHIRQETRLFDPSKNETRSLRTKEDALDYRYFSEPDLLPLEIDEDFIRAIKKQIP 319 +L +GG I+ ETR +D T S+R KE DYR+ EP+L PL + ++ ++++++P Sbjct: 258 LLNNGGAIQNETRGWDSEGGRTVSMRDKETLQDYRFMPEPNLPPLILHGKYVDSVREELP 317 Query: 320 ELPDAKRERFIGEFGISLYDASVLVSDKSIADYFE------KLAVNRDKKIVANWVINDL 373 ELPDA RE+ + ++G+S DA L ++ + ++++ K K++ W+ + Sbjct: 318 ELPDATREKLVEQYGLSAKDAVTLANEVELLEFYKDSVRIIKYKAETTPKLITYWIKEEF 377 Query: 374 LGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGKIAKDIFNILWEKGG--TPKEIVEE 431 LG L + S + ++P QL +L+ L+ + TIS AK + L + G T ++EE Sbjct: 378 LGYLRQIALSPNQSIVTPRQLADLLKLLSEETISALSAKQLLRHLLKNPGVMTVSILIEE 437 Query: 432 LGLRQVTDLSAIEKVVDEVINSNPNNVARIAT-KPNLVSWFVGQVMKNTGGKANPSIVQK 490 L Q+ D + IE++V V+ +P V ++ + K + +G VMK++ G+ANP ++K Sbjct: 438 KRLWQIRDPAEIEELVRSVMEKHPKQVEQLRSGKTKSIKRLIGLVMKSSQGRANPKDLEK 497 Query: 491 MLKEKLGI 498 +L+E L Sbjct: 498 ILEELLNR 505 >gnl|CDD|145865 pfam02934, GatB_N, GatB/GatE catalytic domain. This domain is found in the GatB and GatE proteins. Length = 287 Score = 482 bits (1243), Expect = e-136 Identities = 164/293 (55%), Positives = 204/293 (69%), Gaps = 7/293 (2%) Query: 23 EVVIGIEVHAQLSVVSKLFSGASVNFGAEPNTQVSFFDAAMPGMLPILNGRCVQQAVMTG 82 E+VIG+E+H QL+ +KLF G FGAEPNT V +PG LP+LN V+ A+ G Sbjct: 1 ELVIGLEIHVQLNTKTKLFCGCPTEFGAEPNTNVCPVCLGLPGALPVLNKEAVELAIKAG 60 Query: 83 LGLNAHINKYSVFARKNYFYPDLPQGYQISQHDKPIVGEGKVSVSIGPDKSGQFRTIEVG 142 L LN IN S F RKNYFYPDLP+GYQI+Q+D PI G + + + R +G Sbjct: 61 LALNCEINDESRFDRKNYFYPDLPKGYQITQYDLPIATNGYLEI---EVDGEEKR---IG 114 Query: 143 IERIHLEQDAGKSIHDQYSAVSCIDLNRSGVALMEIVTKPDMRSSLEAKAFLTKLRSILR 202 IERIHLE+DAGK IH+ S +DLNR+GV L+EIVT+PD+RS EA+A+L KLR ILR Sbjct: 115 IERIHLEEDAGKLIHEGGGDYSLVDLNRAGVPLIEIVTEPDIRSPEEARAYLKKLRQILR 174 Query: 203 YLGTCDGNMEEGSMRADVNVSVCRPG-EAWGTRCEVKNVNSIRFLGLAIEYEARRQIAIL 261 YLG DGNMEEGS+R D NVSV G E +GTR E+KN+NS RF+ AIEYE RQI +L Sbjct: 175 YLGVSDGNMEEGSLRCDANVSVRPKGSEEFGTRVEIKNLNSFRFVEKAIEYEIERQIELL 234 Query: 262 EDGGHIRQETRLFDPSKNETRSLRTKEDALDYRYFSEPDLLPLEIDEDFIRAI 314 E+GG + QETRL+D K ET S+R+KE A DYRYF EPDL P+ I +++I I Sbjct: 235 EEGGKVPQETRLWDEDKGETVSMRSKEGAADYRYFPEPDLPPIVISDEWIEEI 287 >gnl|CDD|145673 pfam02637, GatB_Yqey, GatB domain. This domain is found in GatB. It is about 140 amino acid residues long. This domain is found at the C terminus of GatB, which transamidates Glu-tRNA to Gln-tRNA. Length = 148 Score = 185 bits (471), Expect = 3e-47 Identities = 73/148 (49%), Positives = 101/148 (68%), Gaps = 2/148 (1%) Query: 351 DYFEKLAVN-RDKKIVANWVINDLLGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGK 409 D+FE+ D K+ ANW++ +LLG LN+ G I+++P++P L ELI LI +GTISGK Sbjct: 1 DFFEEAVKAGADPKLAANWLLGELLGYLNKEGLDIDESPLTPEHLAELIKLIDEGTISGK 60 Query: 410 IAKDIFNILWEKGGTPKEIVEELGLRQVTDLSAIEKVVDEVINSNPNNVARIAT-KPNLV 468 IAK++ L E G +P+EIVEE GL Q++D +EK+VDEVI NP V + K + Sbjct: 61 IAKEVLEELLENGKSPEEIVEEKGLVQISDEEELEKIVDEVIAENPKAVEDYKSGKEKAL 120 Query: 469 SWFVGQVMKNTGGKANPSIVQKMLKEKL 496 + VGQVMK T GKA+P +V ++LKEKL Sbjct: 121 GFLVGQVMKKTRGKADPKLVNELLKEKL 148 >gnl|CDD|32581 COG2511, GatE, Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]. Length = 631 Score = 104 bits (260), Expect = 7e-23 Identities = 76/252 (30%), Positives = 129/252 (51%), Gaps = 13/252 (5%) Query: 246 LGLAIEYEARRQIAILEDGGHIRQETRLFDPSKNETRSLRTKEDALDYRYFSEPDLLPLE 305 A+E R +E + +ETR P T LR A R + E D+ P+ Sbjct: 386 AKRALEAVIERAKEAIEG---VPEETRGALPDGT-TVYLRPLPGAA--RMYPETDIPPIR 439 Query: 306 IDEDFIRAIKKQIPELPDAKRERFIGEFGISLYDASVLVSDKSIADYFEKLAVNRDKKIV 365 IDE+ + IK+ +PELP+ K ER++ E+G+S A L SD + D FE+L + Sbjct: 440 IDEELLEKIKENLPELPEEKVERYVKEYGLSKELAEQLASDPRV-DLFEELVEKGVDPTL 498 Query: 366 ANWVINDLLGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGKIAKDIFNILWEKGG-T 424 + + L L R G I++ + + EL+ L+ +G I+ + ++I L E G Sbjct: 499 IASTLVNTLPELRREGVEIDN--LDDEHIEELLRLVSEGKIAKEAIEEILKALAENPGKD 556 Query: 425 PKEIVEELGLRQVTDLSAIEKVVDEVINSNPNNVARIATKPNLVSWFVGQVMKNTGGKAN 484 EI E+LGL+++++ +EK++DE+I SN + + + +G+VM G+A+ Sbjct: 557 AAEIAEKLGLKELSE-EEVEKIIDEIIESNLDVIK--ERGMGAMGLLMGRVMAKLRGRAD 613 Query: 485 PSIVQKMLKEKL 496 +V ++L+EKL Sbjct: 614 GKLVSEILREKL 625 Score = 72.2 bits (177), Expect = 3e-13 Identities = 47/133 (35%), Positives = 73/133 (54%), Gaps = 12/133 (9%) Query: 140 EVGIERIHLEQDAGKSIHDQYSAVSCIDLNRSGVALMEIVTKPDMRSSLEAKAFLTKLRS 199 VGIE + LE+DA + I ++ V L+R G+ L+EI T+PD+RS +A+ ++ Sbjct: 151 PVGIETLCLEEDAARKIEEKGDTV-VYSLDRLGIPLIEISTEPDIRSPEQAREVAERIGY 209 Query: 200 ILRYLGTCDGNMEEGSMRADVNVSVCRPGEAWGTRCEVKNVNSIRFLGLAIEYEARRQIA 259 ILR G + G++R DVNVS+ G R E+K V + + +EYE RQ+ Sbjct: 210 ILRSTGKVKRGL--GTIRQDVNVSI-----KGGARVEIKGVQDLDLIPDVVEYEVERQLN 262 Query: 260 ILEDGGHIRQETR 272 +L+ IR E + Sbjct: 263 LLK----IRDELK 271 >gnl|CDD|39167 KOG3964, KOG3964, KOG3964, Phosphatidylglycerolphosphate synthase [Lipid transport and metabolism]. Length = 469 Score = 33.0 bits (75), Expect = 0.18 Identities = 40/252 (15%), Positives = 86/252 (34%), Gaps = 21/252 (8%) Query: 249 AIEYEARRQIAILEDGGHIRQETRLFDPSKNET---RSLRTKEDALDYRYFSEPDLLPLE 305 A+E +++IL D + TR S + + + +D + P L L Sbjct: 76 ALEKNPSLKVSILLDF---LRGTRELPNSCSALLPVWLGKKFPERVDESLYHTPFLRGLS 132 Query: 306 ---IDEDFIRAIKKQIPELPDAKRERFIGEFGIS-LY-----DASVLVSDKSIADYFEKL 356 + F + Q ++ E I +S Y D L SD+ +AD++ KL Sbjct: 133 KSLVPARFNEGLGLQHMKIYGFDDEVIISGANLSNDYFTNRQDRYYLFSDRRLADFYFKL 192 Query: 357 AVNRDKKIVANWVINDLLGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGKIAKDIFN 416 + + ++ G ++ ++ ++ L + G S + ++ + Sbjct: 193 -HDLVSSFSLQKIPDESDGSIHTKNPRVDPIENLSGANMQMSQL-LTGHSSSLLQQNPID 250 Query: 417 ILWEKGGTPKEIVEELGLRQ-VTDLSAIEKVVDEVINSNPNNVARI---ATKPNLVSWFV 472 P L Q +++V + + A+ NL ++ Sbjct: 251 AAGAFDRRPAPDAWIYPLFQMKPIEIQFKEIVTSTLLTEALRGAKWTLTTGYFNLTQAYM 310 Query: 473 GQVMKNTGGKAN 484 Q++ TG + + Sbjct: 311 KQLLLGTGAEYS 322 >gnl|CDD|112220 pfam03395, Pox_P4A, Poxvirus P4A protein. Length = 889 Score = 30.6 bits (69), Expect = 1.1 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 6/66 (9%) Query: 342 VLVSDKSIADYFEKLAVNRD------KKIVANWVINDLLGVLNRSGKSIEDTPISPNQLG 395 +SD A+ EK D ++A I LL ++ RSG+SI+ T I P++L Sbjct: 789 ARISDDVKAEGLEKYKAFSDISSSLYNDLIAIETIKALLYIIKRSGRSIDGTEIGPDELR 848 Query: 396 ELIDLI 401 + +LI Sbjct: 849 KSYELI 854 >gnl|CDD|145457 pfam02312, CBF_beta, Core binding factor beta subunit. Core binding factor (CBF) is a heterodimeric transcription factor essential for genetic regulation of hematopoiesis and osteogenesis. The beta subunit enhances DNA-binding ability of the alpha subunit in vitro, and has been show to have a structure related to the OB fold. Length = 170 Score = 29.3 bits (66), Expect = 2.3 Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 5/51 (9%) Query: 182 PDMRSSLEAKAFLTKLR--SILRYLGTCDGNMEEGSMRADVNVSVCRPGEA 230 PD RS E+ KL S ++Y G D EE R + CR G A Sbjct: 6 PDQRSKFESDELFRKLSRESEIKYTGYRDRPAEERRDRF---QNHCREGHA 53 >gnl|CDD|58085 cd03694, GTPBP_II, Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.. Length = 87 Score = 28.2 bits (63), Expect = 5.1 Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 12/41 (29%) Query: 125 SVSIGPDKSGQFRTIEVGIERIHLEQDAGKSIHDQYSAVSC 165 ++ +GPD+ G FR + V KSIH S V Sbjct: 32 TLLLGPDQDGSFRPVTV------------KSIHRNRSPVRV 60 >gnl|CDD|147176 pfam04876, Tenui_NCP, Tenuivirus major non-capsid protein. This protein of unknown function accumulates in large amounts in tenuivirus infected cells. It is found in all forms of the inclusion bodies that are formed after infection. Length = 175 Score = 28.3 bits (63), Expect = 5.4 Identities = 24/119 (20%), Positives = 47/119 (39%), Gaps = 21/119 (17%) Query: 303 PLEIDEDFIRAIKKQIPELPDAKRERFIGEFGISLYDASVLVSDKSIADYFEKLAVNRDK 362 PLE D F + + K +PE + E +G + S+ D + + K Sbjct: 63 PLETDPLFTK-VHKHMPEFCHSFLEHLLG---------GEDSTTNSLIDIGVFFVILQPK 112 Query: 363 KIVANWVINDLLGVLNRSGKSIEDTPISPNQLGELIDLIIDGTISGKIAKDIFNILWEK 421 + +W+ + L NR +S +Q+ L+ II+ + + + +W+K Sbjct: 113 --LGDWITKNYLKHPNR---------MSKDQIKTLLTQIIEMAKAESSDTETYEKVWKK 160 >gnl|CDD|31267 COG1069, AraB, Ribulose kinase [Energy production and conversion]. Length = 544 Score = 27.9 bits (62), Expect = 6.1 Identities = 21/85 (24%), Positives = 34/85 (40%), Gaps = 8/85 (9%) Query: 366 ANWVINDLLGVLNRSGKSI--------EDTPISPNQLGELIDLIIDGTISGKIAKDIFNI 417 A+W+ L G + RS + + + + I L + K+ +DI Sbjct: 167 ADWLTWKLTGSIARSRCTAGCKWNWLEHEGGLWSADFFDKIGLDDLRELDSKLPEDIVPA 226 Query: 418 LWEKGGTPKEIVEELGLRQVTDLSA 442 GG E +ELGL + T +SA Sbjct: 227 GEPVGGLTPEAAQELGLPEGTVVSA 251 >gnl|CDD|147253 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3. RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking. Length = 158 Score = 27.6 bits (62), Expect = 7.6 Identities = 13/36 (36%), Positives = 23/36 (63%), Gaps = 1/36 (2%) Query: 395 GELIDLIIDGTISGKIAKDIFNILWEKGGTPKEIVE 430 GELI +ID + GK + +I++++ G P+E V+ Sbjct: 99 GELISGVIDKKLGGKSLGSLIHIIYKEYG-PEETVK 133 >gnl|CDD|34765 COG5164, SPT5, Transcription elongation factor [Transcription]. Length = 607 Score = 27.4 bits (60), Expect = 9.0 Identities = 18/78 (23%), Positives = 27/78 (34%), Gaps = 9/78 (11%) Query: 420 EKGGTPKEIVEELGLRQVTDLSAIEKVVDE--VINSNPNNVARIATKPNLVSWFVGQVMK 477 E G E + LG+ + D + + V NV +ATK S +K Sbjct: 269 ESRGGKFE-GQSLGIVKHFDFGETVSIKENNGVFVKIEGNVCIVATKDFTES------LK 321 Query: 478 NTGGKANPSIVQKMLKEK 495 K NP + + K Sbjct: 322 VDLDKMNPPVTVNLQNPK 339 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 0.317 0.136 0.387 Gapped Lambda K H 0.267 0.0721 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 5,949,650 Number of extensions: 320484 Number of successful extensions: 823 Number of sequences better than 10.0: 1 Number of HSP's gapped: 805 Number of HSP's successfully gapped: 25 Length of query: 500 Length of database: 6,263,737 Length adjustment: 98 Effective length of query: 402 Effective length of database: 4,146,055 Effective search space: 1666714110 Effective search space used: 1666714110 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)