RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|255764513|ref|YP_003065530.2| glutamyl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] (492 letters) >gnl|CDD|30358 COG0008, GlnS, Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]. Length = 472 Score = 439 bits (1129), Expect = e-123 Identities = 184/484 (38%), Positives = 262/484 (54%), Gaps = 29/484 (5%) Query: 4 SSKVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQ 63 + VR R APSPTG HIG A TAL NYL A++ GGKFILRIEDTD +R T E+E+A+++ Sbjct: 7 TVGVRTRFAPSPTGYLHIGHARTALLNYLYARKYGGKFILRIEDTDPERETPEAEDAILE 66 Query: 64 SLKWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKKLAFRCFCSTERLEEMRRA 123 L+W GL+WDEGP Y QSER +IY Y + L+EK A+ C+C+ E LEEMR Sbjct: 67 DLEWLGLDWDEGP--------YYQSERFDIYYEYAEKLIEKGKAYVCYCTPEELEEMREL 118 Query: 124 QRKRN-IPSRYDGHCLKLSSQEIERLSQEQKKHVVRLTVP-NQGSCVFQDKVYGEMEIPW 181 + P YD L+ E E VVRL +P VF+D V G + Sbjct: 119 RGALGEPPPSYDRDERNLTLFEKMADLGEGGPAVVRLKIPMAHPGPVFRDLVRGRIVFAP 178 Query: 182 NAVDMQVLLKSDGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIPEF 241 D V+L+ DG PTY+ A V+DDHLM ITHV RGE+ + + P+ I LY+ +P P + Sbjct: 179 KHPD-FVILRYDGYPTYNFAVVVDDHLMGITHVLRGEDHLDNTPRQIWLYEALGWPPPVY 237 Query: 242 IHLPLIKNPDKSKLSKRRNPTSISYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQL 301 HLPL+ N D KLSKR+ SI Y G+LP AL N LALL + E+ +++ Sbjct: 238 AHLPLLLNEDGKKLSKRKGAVSIGEYRVEGWLPPALPNLLALLGRGYPPEAIEIFSLEEG 297 Query: 302 IHHFDLHHLSKAGAVFDKQKLDWLNGRWIREKLSTTEFLSRVSQWMKEK--------DRL 353 I FDL +SK+ A FD++KLDWLN R++R + + ++E+ + Sbjct: 298 IKWFDLTIVSKSPAAFDRKKLDWLNPRYMRV-DPVEVVIENLKPHLEEEGATLPLNPEMG 356 Query: 354 TQALTLAQSRITTLSALPQMTDFLFKSDLHLTAESFKSTALCPEEIIDILKTTQEEFEVI 413 + + L + TL + ++ F F+ E + L + ++L+ E Sbjct: 357 ERVVPLTKE---TLIEIERLDFFFFEDK-----EEVRLKRLANVIVAEVLEKDAEGLITS 408 Query: 414 QIWKRENIETALRNVAQHREKSLKIIVKPLFLAITGSKYSLPLFDSIEILGRSVVYFRLR 473 W +ENI ++ VA+ + PL +A+TG L D+IE+LG+ V + RL Sbjct: 409 D-WTKENIIHWVKAVARLFGVKGPKLFPPLRVALTGGYVEPELADTIELLGKEVQFERLG 467 Query: 474 HAIA 477 +A+A Sbjct: 468 YALA 471 >gnl|CDD|36364 KOG1149, KOG1149, KOG1149, Glutamyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]. Length = 524 Score = 406 bits (1044), Expect = e-114 Identities = 197/494 (39%), Positives = 283/494 (57%), Gaps = 30/494 (6%) Query: 3 SSSKVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVM 62 ++ VRVR APSPTG H+G TALFNYL A++ GGKFILRIEDTD KR SE A+ Sbjct: 30 FAACVRVRFAPSPTGFLHLGGLRTALFNYLFARKKGGKFILRIEDTDQKRLIRGSEEAIY 89 Query: 63 QSLKWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKKLAFRCFCSTERLEEMRR 122 + LKW L+WDEGP +GG +GPY QSER IY+ Y + LLE A+RCFCS ERL+ +R+ Sbjct: 90 EDLKWANLDWDEGPGVGGPFGPYEQSERLEIYKKYAEKLLESGHAYRCFCSEERLDLLRK 149 Query: 123 AQRKRNIPSRYDGHCLKLSSQEIERLSQEQKKHVVRLTVPNQGSCVFQDKVYGEMEIPWN 182 + K++ RYD C LS EI++ + +R +P + S F D VYG ++ N Sbjct: 150 SALKKHEIPRYDRKCANLSDAEIKQKLAKGTPFTIRFRLPKE-SPPFTDLVYG--KVNHN 206 Query: 183 AVDMQ---VLLKSDGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIP 239 + V++KSDG PTYH ANV+DDHLM I+HV RGEEW+ S KHILLY+ F + P Sbjct: 207 VDSNEGDPVVMKSDGFPTYHFANVVDDHLMGISHVIRGEEWLPSTLKHILLYKAFGWQPP 266 Query: 240 EFIHLPLIKNPDKSKLSKRRNPTSISYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQ 299 +F HLPL+ NPD SKLSKR+ S+S+Y GYLPEAL+N++A L ++E ++ Sbjct: 267 KFAHLPLLLNPDGSKLSKRQGDASVSHYREQGYLPEALLNYIA-LLGWGFRTENEFFSLE 325 Query: 300 QLIHHFDLHHLSKAGAVFDKQKLDWLNGRWIR---EKLST-TEFLSRVSQWMKE------ 349 +LI F + L+K+ A+ D +KL +LN ++ S E + ++ +KE Sbjct: 326 ELIEQFSIERLTKSNAILDSEKLRFLNRLHLQRLISNESKLRELVDKLQPLLKEAYGTSS 385 Query: 350 ----KDRLTQALTLAQSRITTLSALPQMTDFLFK--SDLH-LTAESFKSTALCPEEIIDI 402 K+ L L L + L L F F SD + ++ A ++ I Sbjct: 386 DNEAKEVLKDILLLVTGSLKRLQDLLSELSFFFTRPSDKQAVEDLLSENVASLIAHLLKI 445 Query: 403 LKTTQEEFEVIQIWKRENIETALRNVAQHREKSLKIIVKPLFLAITGSKYSLPLFDSIEI 462 L + E E + ++L+ A+ ++ LK ++K L +A++G P+ + IE+ Sbjct: 446 LNPSALELEQDE------WNSSLKAFAKEHQRKLKKLMKLLRVALSGKLPGPPIAEMIEL 499 Query: 463 LGRSVVYFRLRHAI 476 LG+ V RL+ + Sbjct: 500 LGKKEVEERLKELL 513 >gnl|CDD|144374 pfam00749, tRNA-synt_1c, tRNA synthetases class I (E and Q), catalytic domain. Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only glutamyl and glutaminyl tRNA synthetases. In some organisms, a single glutamyl-tRNA synthetase aminoacylates both tRNA(Glu) and tRNA(Gln). Length = 314 Score = 397 bits (1023), Expect = e-111 Identities = 145/323 (44%), Positives = 187/323 (57%), Gaps = 13/323 (4%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQSL 65 KVR R APSPTG HIG A TALFNYL AK GKFILR +DTD +R E E ++++ L Sbjct: 1 KVRTRFAPSPTGYLHIGHARTALFNYLFAKNYNGKFILRFDDTDPEREKPEYEESILEDL 60 Query: 66 KWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKKLAFRCFCSTERLEEMRRAQR 125 KW G+ WDE P Y QS+R +IY Y + L+EK LA+ CFC+ E LEE R Q Sbjct: 61 KWLGIKWDEKP--------YYQSDRFDIYYKYAEELIEKGLAYVCFCTPEELEEEREEQE 112 Query: 126 KRNIPS--RYDGHCLKLSSQEIERLSQEQKKHVVRLTVPNQGSCVFQDKVYGEMEIPWNA 183 P RYD CL+L +E+ + E K +R +P + V +D V G ++ +A Sbjct: 113 ALGSPERPRYDEECLRLFEEEMRKGEAEGGKATLRFKIPMESPYVMRDLVRGRIKFEPSA 172 Query: 184 VDMQVLLKSDGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIPEFIH 243 + + LK DG PTY A VIDD +M ITHV RGEE + + PK I +YQ + +P FIH Sbjct: 173 LHDRTGLKWDGYPTYDFAVVIDDAIMGITHVLRGEEHLDNTPKQIWIYQALGWEVPPFIH 232 Query: 244 LPLIKNPDKSKLSKRRNPTS--ISYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQL 301 L N D +KLSKR+ S IS G PEAL+NFL E E ++L Sbjct: 233 EYLRLNLDGTKLSKRKLSLSVFISQVKGWGDPPEALLNFLRRRGWT-PEGIREFFTREEL 291 Query: 302 IHHFDLHHLSKAGAVFDKQKLDW 324 I FDL+ +SK+ FD++KLDW Sbjct: 292 IKSFDLNRVSKSLEAFDRKKLDW 314 >gnl|CDD|173905 cd00808, GluRS_core, catalytic core domain of discriminating glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA synthetase (GluRS) catalytic core domain . The discriminating form of GluRS is only found in bacteria and cellular organelles. GluRS is a monomer that attaches Glu to the appropriate tRNA. Like other class I tRNA synthetases, GluRS aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Length = 239 Score = 242 bits (620), Expect = 2e-64 Identities = 87/145 (60%), Positives = 106/145 (73%), Gaps = 2/145 (1%) Query: 189 LLKS-DGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIPEFIHLPLI 247 LL+ DG PTYHLANV+DDHLM ITHV RGEE +SS PK ILLY+ + P+F HLPLI Sbjct: 96 LLEKGDGFPTYHLANVVDDHLMGITHVIRGEEHLSSTPKQILLYEALGWEPPKFAHLPLI 155 Query: 248 KNPDKSKLSKRRNPTSISYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQLIHHFDL 307 NPD KLSKR+ TSIS Y GYLPEAL+N+LALL D +E +++LI FDL Sbjct: 156 LNPDGKKLSKRKGDTSISDYREEGYLPEALLNYLALLGWS-PPDGEEFFTLEELIELFDL 214 Query: 308 HHLSKAGAVFDKQKLDWLNGRWIRE 332 +SK+ A+FD +KLDWLNG++IRE Sbjct: 215 ERVSKSPAIFDPEKLDWLNGQYIRE 239 Score = 190 bits (485), Expect = 8e-49 Identities = 68/100 (68%), Positives = 80/100 (80%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQSL 65 KVR R APSPTG HIG A TALFNYL A++ GGKFILRIEDTD +RS E+E A++++L Sbjct: 1 KVRTRFAPSPTGFLHIGGARTALFNYLFARKHGGKFILRIEDTDQERSVPEAEEAILEAL 60 Query: 66 KWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKK 105 KW GL+WDEGPD+GG YGPYRQSER IY+ Y + LLEK Sbjct: 61 KWLGLDWDEGPDVGGPYGPYRQSERLEIYRKYAEKLLEKG 100 >gnl|CDD|185672 cd00418, GlxRS_core, catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon binding domains. Length = 230 Score = 169 bits (429), Expect = 2e-42 Identities = 56/144 (38%), Positives = 83/144 (57%), Gaps = 1/144 (0%) Query: 189 LLKSDGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIPEFIHLPLIK 248 L+K G P Y+ + +DD LM ITHV RGE+ + + P LY+ + P F H P + Sbjct: 88 LIKKGGYPLYNFVHPVDDALMGITHVLRGEDHLDNTPIQDWLYEALGWEPPRFYHFPRLL 147 Query: 249 NPDKSKLSKRRNPTSISYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQLIHHFDLH 308 D +KLSKR+ T++ GYLPEAL N+LAL+ K + + ++++I F + Sbjct: 148 LEDGTKLSKRKLNTTLRALRRRGYLPEALRNYLALIGWSKPDGHELFT-LEEMIAAFSVE 206 Query: 309 HLSKAGAVFDKQKLDWLNGRWIRE 332 ++ A A FD KL+WLN +IRE Sbjct: 207 RVNSADATFDWAKLEWLNREYIRE 230 Score = 133 bits (336), Expect = 1e-31 Identities = 52/99 (52%), Positives = 68/99 (68%), Gaps = 8/99 (8%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQSL 65 V R APSPTG HIG A TALFN+ A++ GGKFILRIEDTD +RS E ++++ L Sbjct: 1 TVVTRFAPSPTGYLHIGHARTALFNFAFARKYGGKFILRIEDTDPERSRPEYVESILEDL 60 Query: 66 KWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEK 104 KW GL+WDE GPYRQS+R ++Y+ Y + L++K Sbjct: 61 KWLGLDWDE--------GPYRQSDRFDLYRAYAEELIKK 91 >gnl|CDD|185682 cd09287, GluRS_non_core, catalytic core domain of non-discriminating glutamyl-tRNA synthetase. Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. Length = 240 Score = 85.9 bits (213), Expect = 3e-17 Identities = 38/105 (36%), Positives = 55/105 (52%), Gaps = 11/105 (10%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRST--LESENAVMQ 63 KV +R AP+P G H+G A A+ N AK GGKFILR +DTD + E+ + + + Sbjct: 1 KVVMRFAPNPNGPLHLGHARAAILNGEYAKMYGGKFILRFDDTDPRTKRPDPEAYDMIPE 60 Query: 64 SLKWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKKLAF 108 L+W G+ WDE S+R +Y Y + L+E A+ Sbjct: 61 DLEWLGVKWDE---------VVIASDRIELYYEYARKLIEMGGAY 96 Score = 62.4 bits (152), Expect = 3e-10 Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 17/102 (16%) Query: 196 PTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYFNFPIPEFIHLPLIKNPD---- 251 PT + A +DDHL+ +THV RG++ I + K +Y+YF + PE IH +K Sbjct: 109 PTLNFAVAVDDHLLGVTHVLRGKDHIDNTEKQRYIYEYFGWEYPETIHWGRLKIEGGKLS 168 Query: 252 KSKLSKR------------RNPTSISYYSAMGYLPEALINFL 281 SK+ K R PT + G PEA+ +F+ Sbjct: 169 TSKIRKGIESGEYEGWDDPRLPT-LRALRRRGIRPEAIRDFI 209 >gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. Length = 238 Score = 63.8 bits (156), Expect = 1e-10 Identities = 24/68 (35%), Positives = 37/68 (54%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQSL 65 KV R P P G HIG A L N+ AK+ GG+ LR +DT+ ++ E +++ + + Sbjct: 1 KVVTRFPPEPNGYLHIGHAKAILLNFGYAKKYGGRCNLRFDDTNPEKEEEEYVDSIKEDV 60 Query: 66 KWCGLNWD 73 KW G+ Sbjct: 61 KWLGIKPY 68 Score = 31.1 bits (71), Expect = 0.65 Identities = 33/133 (24%), Positives = 45/133 (33%), Gaps = 36/133 (27%) Query: 196 PTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQYF----NFPIP---EFIHLPLIK 248 PTY A+ I D + ITH E+ P Y + P EF L Sbjct: 107 PTYDFAHPIVDSIEGITHSLCTLEFEDRRP----SYYWLCDALRLYRPHQWEFSRL---- 158 Query: 249 NPDKSKLSKR-----------------RNPTSISYYSAMGYLPEALINFLALLFVHKSED 291 N + +SKR R PT + G PEA+ F+ V K+ Sbjct: 159 NLTYTVMSKRKLLQLVDEGYVDGWDDPRLPT-LRGLRRRGVTPEAIRQFILRQGVSKA-- 215 Query: 292 DDELMDMQQLIHH 304 D +D +L Sbjct: 216 -DSTIDWDKLEAC 227 >gnl|CDD|36362 KOG1147, KOG1147, KOG1147, Glutamyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 712 Score = 58.5 bits (141), Expect = 4e-09 Identities = 54/220 (24%), Positives = 92/220 (41%), Gaps = 22/220 (10%) Query: 6 KVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAVMQSL 65 KV R P P+G HIG A AL N A+ GK I+R +DT+ + E E+ +++ L Sbjct: 200 KVVTRFPPEPSGYLHIGHAKAALLNQYFAQAYQGKLIVRFDDTNPAKENEEFEDVILEDL 259 Query: 66 KWCGLNWDEGPDIGGAYGPYRQSERKNIYQPYVQNLLEKKLAFRCFCSTERLEEMRRAQR 125 G+ D Y I V+ + E K + E+M R +R Sbjct: 260 SLLGIKPDR--------VTYTSDYFDEIMDYCVKLIKEGK----AYVDDTPTEQM-RDER 306 Query: 126 KRNIPSRYDGHCLKLSSQ---EIERLSQEQKKHVVR--LTVPNQGSCVFQDKVYGEMEIP 180 ++ + S+ + ++ + + E+++ S++ K VR + + + + +Y P Sbjct: 307 EQGVESKCRSNSVEENLRIWEEMKKGSEKGLKCCVRAKIDMSSPNKAMRDPVIYRCNPEP 366 Query: 181 WNAVDMQVLLKSDGMPTYHLANVIDDHLMKITHVARGEEW 220 + K PTY A I D L +TH R E+ Sbjct: 367 ----HHRTGDKYKVYPTYDFACPIVDSLEGVTHALRTTEY 402 >gnl|CDD|36363 KOG1148, KOG1148, KOG1148, Glutaminyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 764 Score = 53.8 bits (129), Expect = 1e-07 Identities = 48/220 (21%), Positives = 84/220 (38%), Gaps = 27/220 (12%) Query: 2 ISSSKVRVRIAPSPTGEPHIGTAYTALFNYLIAKRTGGKFILRIEDTDSKRSTLESENAV 61 + KV R P P G HIG A N+ AK GG LR +DT+ ++ E ++ Sbjct: 244 RTGGKVVTRFPPEPNGILHIGHAKAINVNFGYAKAHGGVCYLRFDDTNPEKEEEEYFESI 303 Query: 62 MQSLKWCGLNWDEGPDIGGAYGPYRQSERKNIYQP---YVQNLLEKKLAFRCFCSTERLE 118 + + W G + PY+ + + + L+ K A+ C + E Sbjct: 304 KEMVAWLG------------FEPYKVTYSSDYFDQLYELAVELIRKGKAYVCHQTAE--- 348 Query: 119 EMRRAQRKRNIPSRYDGHCLKLSSQEIERLSQ---EQKKHVVRLTVP-NQGSCVFQDKV- 173 E++ + S + ++ S + E + E+ + +R+ G+ D V Sbjct: 349 EIKERRGFNERLSPWRDRPIEESLRLFEDMRDGKYEEGEATLRMKQDLESGNPQMWDLVA 408 Query: 174 YGEMEIPWNAVDMQVLLKSDGMPTYHLANVIDDHLMKITH 213 Y +P + + PTY + + D L ITH Sbjct: 409 YRIKNVPHPRTGDKWCI----YPTYDYTHCLVDSLENITH 444 >gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA synthetases. Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine. Length = 212 Score = 31.8 bits (73), Expect = 0.46 Identities = 17/93 (18%), Positives = 29/93 (31%), Gaps = 34/93 (36%) Query: 188 VLLKSDGMPTY-----------------HLANVID----DHLMKITHVARGEEWISSVPK 226 VL++SDG TY + V+ H ++ + + Sbjct: 132 VLVRSDGTYTYFTRDIAYHLDKFERGADKIIYVVGADHHGHFKRLFAALELLGYDEAKKL 191 Query: 227 HILLYQYFNFPIPEFIHLPLIKNPDKSKLSKRR 259 LLY ++L P + K+S R Sbjct: 192 EHLLYG--------MVNL-----PKEGKMSTRA 211 >gnl|CDD|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I amino acyl-tRNA synthetase. Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Length = 143 Score = 31.3 bits (71), Expect = 0.54 Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 5/45 (11%) Query: 13 PSPTGEPHIGTAYTALFNYLIA-----KRTGGKFILRIEDTDSKR 52 +P G HIG T + +A + I I+D Sbjct: 6 ITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLI 50 >gnl|CDD|38957 KOG3753, KOG3753, KOG3753, Circadian clock protein period [Signal transduction mechanisms]. Length = 1114 Score = 29.7 bits (66), Expect = 1.7 Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 18/105 (17%) Query: 250 PDKSKLSKRRNPTSI------SYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQLIH 303 +K + PT + + +GYLP+ LI L FVH ED ++ + Q + Sbjct: 328 SNKRIFTTTHTPTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVH-PEDRHVMVQIHQKVL 386 Query: 304 HFDLHHLSKAGAVFDKQKLDWL--NGRWIREKLSTTEFLSRVSQW 346 S VF + + NG ++R TE+ S V+ W Sbjct: 387 Q------SGGKPVFSHSPIRFCAQNGSYVRLD---TEWSSFVNPW 422 >gnl|CDD|36801 KOG1588, KOG1588, KOG1588, RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]. Length = 259 Score = 29.3 bits (65), Expect = 2.5 Identities = 18/79 (22%), Positives = 29/79 (36%), Gaps = 12/79 (15%) Query: 94 YQPYVQNLLEKKLAFRCFCSTERLEEMRRAQRKRNIPSRYDGHCLKLSSQEIERLSQEQK 153 YQP + K L+ E L E + P H +L +EIER+ + Sbjct: 22 YQPQLNEKASKYLS-------ELLAERKSLSPFFPFP-----HAERLLDEEIERVQTSGR 69 Query: 154 KHVVRLTVPNQGSCVFQDK 172 +H + + V+ K Sbjct: 70 QHGSKEPEELPYADVYSGK 88 >gnl|CDD|144868 pfam01430, HSP33, Hsp33 protein. Hsp33 is a molecular chaperone, distinguished from all other known chaperones by its mode of functional regulation. Its activity is redox regulated. Hsp33 is a cytoplasmically localized protein with highly reactive cysteines that respond quickly to changes in the redox environment. Oxidising conditions like H2O2 cause disulfide bonds to form in Hsp33, a process that leads to the activation of its chaperone function. Length = 274 Score = 28.3 bits (64), Expect = 4.7 Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 16/52 (30%) Query: 103 EKKLAFRCFCSTERLEEMRRAQRKRNIPSRYDGHCLKLSSQEIERLSQEQKK 154 + + F C CS ER+ + L +E++ + +E K Sbjct: 223 PQPVRFGCSCSRERVANALAS----------------LGKEELQDMIEEDGK 258 >gnl|CDD|31547 COG1356, COG1356, Uncharacterized protein conserved in archaea [Function unknown]. Length = 143 Score = 28.4 bits (63), Expect = 5.2 Identities = 15/56 (26%), Positives = 22/56 (39%) Query: 373 MTDFLFKSDLHLTAESFKSTALCPEEIIDILKTTQEEFEVIQIWKRENIETALRNV 428 F ++ + + L EI ILKTT+ I+ ENIE A + Sbjct: 3 TAMDTFLTEQQIKVLVLREKGLTQSEIARILKTTRANVSAIEKRALENIEKARNTL 58 >gnl|CDD|36658 KOG1445, KOG1445, KOG1445, Tumor-specific antigen (contains WD repeats) [Cytoskeleton]. Length = 1012 Score = 28.1 bits (62), Expect = 5.9 Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 9/48 (18%) Query: 137 CLKLSSQEIERLSQEQKKHVVRLTVPNQGSCVFQDKVYGEMEIPWNAV 184 C +LS + +E ++ VP VFQD ++ + + W V Sbjct: 883 CWRLSDKNLEPIT---------FRVPRIKKEVFQDDLFPDTLVTWEPV 921 >gnl|CDD|31632 COG1443, Idi, Isopentenyldiphosphate isomerase [Lipid metabolism]. Length = 185 Score = 28.0 bits (62), Expect = 7.0 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 9/55 (16%) Query: 106 LAFRCFCSTERLEEM--RRAQRKRNIPSRYD----GHCLKLSSQE---IERLSQE 151 AF F ER + + RRA K+ P + H L S E RL+ E Sbjct: 34 RAFSSFLFNERGQLLLTRRALSKKTWPGVWTNSVCSHPLPGESNEDAARRRLAYE 88 >gnl|CDD|29605 cd00498, Hsp33, Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat shock), the Cys are reversibly oxidized to disulfide bonds, which causes the chaperone activity to be turned on. Hsp33 is homodimeric in its functional form.. Length = 275 Score = 27.5 bits (61), Expect = 8.3 Identities = 9/23 (39%), Positives = 14/23 (60%) Query: 98 VQNLLEKKLAFRCFCSTERLEEM 120 V+ L ++ + FRC CS ER+ Sbjct: 220 VRILEKQPVRFRCDCSRERVAAA 242 >gnl|CDD|146968 pfam04583, Baculo_p74, Baculoviridae p74 conserved region. Baculoviruses are distinct from other virus families in that there are two viral phenotypes: budded virus (BV) and occlusion-derived virus (ODV). BVs disseminate viral infection throughout the tissues of the host and ODVs transmit baculovirus between insect hosts. GFP tagging experiments implicate p74 as an ODV envelope protein. Length = 250 Score = 27.2 bits (61), Expect = 9.8 Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 11/67 (16%) Query: 265 SYYSAMGYLPEALINFLALLFVHKSEDDDELMDMQQLIHHFD-LHHL---SKAGAVFDKQ 320 +YY ++G LI FL F E+DDE + L+H D L L S + Q Sbjct: 149 AYYESIGNGTRDLIEFLPEHFDDLVEEDDEYF-FESLLHILDYLASLEVNS------NGQ 201 Query: 321 KLDWLNG 327 L+ G Sbjct: 202 LLNLDEG 208 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 0.320 0.135 0.398 Gapped Lambda K H 0.267 0.0764 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 6,020,586 Number of extensions: 320364 Number of successful extensions: 864 Number of sequences better than 10.0: 1 Number of HSP's gapped: 843 Number of HSP's successfully gapped: 33 Length of query: 492 Length of database: 6,263,737 Length adjustment: 98 Effective length of query: 394 Effective length of database: 4,146,055 Effective search space: 1633545670 Effective search space used: 1633545670 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: 59 (26.4 bits)