RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780680|ref|YP_003065093.1| seryl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] (430 letters) >gnl|CDD|30521 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 429 Score = 530 bits (1367), Expect = e-151 Identities = 225/430 (52%), Positives = 298/430 (69%), Gaps = 6/430 (1%) Query: 1 MLDIQWIRQNPEHLDIALKKRH-LEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIG 59 MLD++ IR+NP+ + LKKR + +L LDE+ R L++++E+++A RN S +IG Sbjct: 1 MLDLKLIRENPDAVREKLKKRGGDALDVDKLLELDEERRKLLRELEELQAERNELSKEIG 60 Query: 60 QAIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSA 119 +A+ G + L E LKE+L LE E+ + L L+ IPN+P E VP+G Sbjct: 61 RALKRGE-DDAEELIAEVKELKEKLKELEAALDELEAELDTLLLTIPNIPHESVPVGKDE 119 Query: 120 NENILIRSVGKKPSAI--HLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERA 177 ++N+ +R G+ P + ++H E+GE LGL+DF+RA K+SG+RF G A LERA Sbjct: 120 DDNVEVRRWGEPPVFVFDFEPKDHVELGEKLGLLDFERAAKVSGSRFYFYKGKGARLERA 179 Query: 178 LGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMF-CTTDGRWLIPTSEVSL 236 L QFM+DLHT +HG+TEV P LV E+M+GTGQ+PKF +D++ +LIPT+EV L Sbjct: 180 LIQFMLDLHT-KHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVEDPDLYLIPTAEVPL 238 Query: 237 TNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSF 296 TNL+ EI++ + LP+++T +P FRSEAGSAG+DTRG++R HQF K ELV IT+ E+S Sbjct: 239 TNLHRDEILDEEDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESE 298 Query: 297 TEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTC 356 E E ML AEE+L+ L+L YRVV+LCTGDLGFSA K YDLEVWL GQN YREISSCS C Sbjct: 299 EELEEMLGNAEEVLQELELPYRVVNLCTGDLGFSAAKKYDLEVWLPGQNKYREISSCSNC 358 Query: 357 GNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPY 416 +FQ+RR+N RYRD +F HTLNGSG+AVGR L+AILENY DGSV IP VLRPY Sbjct: 359 TDFQARRLNIRYRDKEEGKREFVHTLNGSGLAVGRTLVAILENYQQEDGSVKIPEVLRPY 418 Query: 417 MNNLAVIKKE 426 M L +I K Sbjct: 419 MGGLEIIPKP 428 >gnl|CDD|29815 cd00770, SerRS_core, Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.. Length = 297 Score = 419 bits (1080), Expect = e-118 Identities = 152/298 (51%), Positives = 200/298 (67%), Gaps = 2/298 (0%) Query: 121 ENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQ 180 +N+ IR G+ ++H E+GE L ++DF+R K+SG+RF L G A LERAL Sbjct: 1 DNVEIRRWGEPRVFDFKPKDHVELGEKLDILDFERGAKVSGSRFYYLKGDGALLERALIN 60 Query: 181 FMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMF-CTTDGRWLIPTSEVSLTNL 239 F +D T + G+T V P LVR E M GTGQ+PKF + ++ + +LI T+EV L L Sbjct: 61 FALDFLT-KRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKVEGEDLYLIATAEVPLAAL 119 Query: 240 YSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEH 299 + EI+E + LPL++ +P FR EAGSAGRDTRG+ R HQF K E T+ E+S+ E Sbjct: 120 HRDEILEEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEESWEEL 179 Query: 300 ERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNF 359 E ++S AEEIL+ L L YRVV++CTGDLGF+A K YD+E W+ GQ YREISSCS C +F Sbjct: 180 EELISNAEEILQELGLPYRVVNICTGDLGFAAAKKYDIEAWMPGQGKYREISSCSNCTDF 239 Query: 360 QSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYM 417 Q+RR+N RYRD ++ HTLNG+ +A R ++AILENY DGSV IP VLRPYM Sbjct: 240 QARRLNIRYRDKKDGKKQYVHTLNGTALATPRTIVAILENYQTEDGSVVIPEVLRPYM 297 >gnl|CDD|37720 KOG2509, KOG2509, KOG2509, Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 455 Score = 301 bits (772), Expect = 3e-82 Identities = 147/423 (34%), Positives = 227/423 (53%), Gaps = 31/423 (7%) Query: 2 LDIQWIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQA 61 LD +WI E + L+++ L K+I D++ ++ + Q+ ++ Sbjct: 39 LDKEWIETRFE-----------------LDELNKEKNKLNKEIGDLKLKKKEDIGQLEES 81 Query: 62 IAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSANE 121 A+ + E LKE+ LE++E ++ L +++ IPN+ VP+ Sbjct: 82 KAK------NTEGAERKLLKEEAVELEEDESKLEDELYEVLLQIPNITHPSVPVSNEEQA 135 Query: 122 NILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQF 181 N++ R VG H E+ ALG +D +R K+SG R L G A LE+AL + Sbjct: 136 NVVQR-VGGPLEFEFKLSHHDELVRALGFIDLERGAKVSGHRGYYLKGAGAFLEQALINY 194 Query: 182 MIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDG---RWLIPTSEVSLTN 238 +D + GYT ++ P ++R E M GQ+P+F ++ + DG ++LI T+E L Sbjct: 195 ALDF-LNAKGYTPLTTPDILRKEVMQKCGQLPRFDEEQYYVLDGGDEKYLIATAEQPLAA 253 Query: 239 LYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTE 298 + E +E LP+++ ++ FR+EAGS G+DT+G+ R HQF K E IT EDS+ Sbjct: 254 YHRDEWLEEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEM 313 Query: 299 HERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGN 358 E M++ EE + L L YRV+++ +G+LG +A K YD+E W+ G+ Y E+ SCS C + Sbjct: 314 LEEMINNQEEFYQSLGLPYRVLNMPSGELGAAAAKKYDIEAWMPGRGAYGELVSCSNCTD 373 Query: 359 FQSRRMNSRYRDP--NSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPY 416 +QSRR+ RY N K+ HTLNG+ A R L AILENY DG + +P VLRPY Sbjct: 374 YQSRRLGIRYGQKKTNDGEKKYVHTLNGTACATPRALCAILENYQTEDG-IEVPEVLRPY 432 Query: 417 MNN 419 M Sbjct: 433 MGG 435 >gnl|CDD|144252 pfam00587, tRNA-synt_2b, tRNA synthetase class II core domain (G, H, P, S and T). Other tRNA synthetase sub-families are too dissimilar to be included. This domain is the core catalytic domain of tRNA synthetases and includes glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. Length = 170 Score = 170 bits (434), Expect = 6e-43 Identities = 68/175 (38%), Positives = 91/175 (52%), Gaps = 9/175 (5%) Query: 174 LERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGR----WLI 229 L AL F+ DL +GY EV P+L E G+G + D+M+ D +L Sbjct: 1 LRNALENFIRDLFK-RYGYQEVDTPILEPKELWEGSGHWDDYFDEMYRFKDRGGEELYLR 59 Query: 230 PTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI 289 PT+EV +T L+ +EI+ + LPL+ + P FR EA R RG+ R +F + + Sbjct: 60 PTAEVGITRLFKNEILSYRDLPLKLYQIGPCFRYEA----RPRRGLGRVREFTQVDAEIF 115 Query: 290 TREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQ 344 E S E E +L AEEIL+ L L YRVV GDLG A KT DLE WL + Sbjct: 116 GTPEQSEEEDEELLKLAEEILQDLGLPYRVVLNTRGDLGGYASKTGDLEAWLPAE 170 >gnl|CDD|145510 pfam02403, Seryl_tRNA_N, Seryl-tRNA synthetase N-terminal domain. This domain is found associated with the Pfam tRNA synthetase class II domain (pfam00587) and represents the N-terminal domain of seryl-tRNA synthetase. Length = 108 Score = 99 bits (250), Expect = 1e-21 Identities = 43/110 (39%), Positives = 66/110 (60%), Gaps = 3/110 (2%) Query: 1 MLDIQWIRQNPEHLDIALKKRHL-EPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIG 59 MLDI+ IR+NPE + L+KR + + +L LDE+ R L ++E+++A RN S +IG Sbjct: 1 MLDIKLIRENPEAVKEKLRKRGVDVLDVDELLELDEERRELQVELEELQAERNELSKEIG 60 Query: 60 QAIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVP 109 +A + +AL E LK++L LE E E+ + L KL+ IPN+P Sbjct: 61 KAKKKK--EDAEALIAEVKELKDELKALEAELRELEAELDKLLLSIPNIP 108 >gnl|CDD|29810 cd00670, Gly_His_Pro_Ser_Thr_tRS_core, Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.. Length = 235 Score = 93.8 bits (233), Expect = 8e-20 Identities = 58/240 (24%), Positives = 94/240 (39%), Gaps = 24/240 (10%) Query: 174 LERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTD-GRW----- 227 L RAL +F+ D E+GY E+ P L + G + + +M+ D GR Sbjct: 4 LWRALERFLDDRMA-EYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRDTD 62 Query: 228 --LIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCE 285 L P + + ++S EI+ ++LPLR + P FR E RG++R +F + E Sbjct: 63 LVLRPAACEPIYQIFSGEILSYRALPLRLDQIGPCFRHEPSGR----RGLMRVREFRQVE 118 Query: 286 LVSITREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSAC--------KTYDL 337 V E++ E L AEEI + L L RVV G + Sbjct: 119 YVVFGEPEEAEEERREWLELAEEIARELGLPVRVVVADDPFFGRGGKRGLDAGRETVVEF 178 Query: 338 EVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAIL 397 E+ L +E + S + + + + G+G R ++A+L Sbjct: 179 ELLLPLPGRAKETAVGSANVHLDHFGASF--KIDEDGGGRAHTGCGGAG-GEERLVLALL 235 >gnl|CDD|29813 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.. Length = 211 Score = 75.5 bits (185), Expect = 3e-14 Identities = 54/224 (24%), Positives = 91/224 (40%), Gaps = 30/224 (13%) Query: 174 LERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKF-------ADDMFCTTDGR 226 +E+ L +FM +E G+ EV P++ R+ + G PK ++ Sbjct: 5 IEQKLRRFM-----AELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLY----- 54 Query: 227 WLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCEL 286 L PT E L L+ I + LPLR + P+FR+E G RG+ R +F + E Sbjct: 55 -LRPTLEPGLVRLFVSHI---RKLPLRLAEIGPAFRNEGGR-----RGLRRVREFTQLEG 105 Query: 287 VSITREEDSFTEHERMLSCAEEILKRL--DLHYRVVSLCTGDLGFS-ACKTYDLEVWLAG 343 + + +E E ++ EE+L+ L L V G+ A +++EV Sbjct: 106 EVFGEDGEEASEFEELIELTEELLRALGIKLDIVFVEKTPGEFSPGGAGPGFEIEVDH-P 164 Query: 344 QNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGV 387 + EI S + Q+R + + D + G G+ Sbjct: 165 EGRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPTIGFGLGL 208 >gnl|CDD|30791 COG0442, ProS, Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 500 Score = 71.4 bits (175), Expect = 4e-13 Identities = 61/231 (26%), Positives = 99/231 (42%), Gaps = 17/231 (7%) Query: 189 EHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGR----WLIPTSEVSLTNLYSHEI 244 + G EV P L+ E +G+ F ++F D L PTSE +T+++ I Sbjct: 63 KIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGDRPLALRPTSEEVITDMFRKWI 122 Query: 245 IESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQF-WKCELVSI-TREEDSFTEHERM 302 K LPL+ + FR E R G+LR +F K + S EED+ +E+M Sbjct: 123 RSYKDLPLKLYQIQSKFRDEK----RPRFGLLRGREFLMK-DAYSFHADEEDAEETYEKM 177 Query: 303 LSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCG-NFQS 361 L I RL L + V G +G +++ E L +I++ G NF+ Sbjct: 178 LDAYSRIFLRLPLIFGPVPADEGFIG--GSYSHEFEA-LMPDGGEDQIATSHHYGANFEK 234 Query: 362 RRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTV 412 ++ ++ D L++ HT S R + A + + + +G V P V Sbjct: 235 AFIDIKFEDEEEGELEYVHT--TSYGISTRIIGAAILIHGDNEGLVLPPIV 283 >gnl|CDD|73229 cd00779, ProRS_core_prok, Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.. Length = 255 Score = 64.4 bits (157), Expect = 6e-11 Identities = 55/221 (24%), Positives = 88/221 (39%), Gaps = 12/221 (5%) Query: 183 IDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGR----WLIPTSEVSLTN 238 I ++ G E+ P+L E +G+ + ++ D L PT E +T+ Sbjct: 41 IREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRLKDRHGKEFLLGPTHEEVITD 100 Query: 239 LYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI-TREEDSFT 297 L ++EI K LPL + FR E R G++R +F + S EE Sbjct: 101 LVANEIKSYKQLPLNLYQIQTKFRDEI----RPRFGLMRGREFLMKDAYSFDIDEESLEE 156 Query: 298 EHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCG 357 +E+M I KRL L + V +G +G S + + L E+ G Sbjct: 157 TYEKMYQAYSRIFKRLGLPFVKVEADSGAIGGSLSHEFHVLSPLKITKGI-EVGHIFQLG 215 Query: 358 NFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILE 398 S+ + + + D N K + G+ V R L AI+E Sbjct: 216 TKYSKALGATFLDENGKPKPL--EMGCYGIGVSRLLAAIIE 254 >gnl|CDD|37535 KOG2324, KOG2324, KOG2324, Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 457 Score = 51.1 bits (122), Expect = 6e-07 Identities = 62/283 (21%), Positives = 107/283 (37%), Gaps = 44/283 (15%) Query: 182 MIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGR----WLIPTSEVSLT 237 ++D G ++S P+L E TG+ ++F D + L PT E +T Sbjct: 61 LLDNEMQSGGAQKISLPILSSKELWEKTGRWDAMGSELFRLHDRKGKQMCLTPTHEEDIT 120 Query: 238 NLYSHEI-IESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI-TREEDS 295 L + I + K LP+R + FR E G+LR +F ++ S + EE + Sbjct: 121 ALMATYIPLSYKQLPIRVYQIGRKFRDELRPRF----GLLRGREFLMKDMYSFDSDEETA 176 Query: 296 FTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYR------- 348 ++ + + I K+L L + V +GD+G + L + L Sbjct: 177 QQTYQLVDQAYDRIFKQLGLPFVKVWADSGDIGGEVSHEFHLIHPVGEDTLMSCPSCGYS 236 Query: 349 ------EISSCSTCGNFQSRRMNS--------------RYRDP-NSKSLKFTHT-----L 382 ++S ++C R+ +Y P N+K + + Sbjct: 237 KNSEDLDLSKIASCPKCNEGRLTKTKSIEVGHTFLLGTKYSKPLNAKFVNVEGKPEFLHM 296 Query: 383 NGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYMNNLAVIKK 425 G+ V R L A E L+ D + P+++ PY L KK Sbjct: 297 GCYGIGVTRLLAAAAE-VLSDDKGLRWPSLIAPYKVCLIGPKK 338 >gnl|CDD|30790 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 589 Score = 49.5 bits (118), Expect = 2e-06 Identities = 42/198 (21%), Positives = 67/198 (33%), Gaps = 30/198 (15%) Query: 139 REHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAP 198 R+H ++G+ L L F G F G L ++ +GY EV P Sbjct: 190 RDHRKLGKELDLFSFSPEEG-PGLPFWHPKGATIR--NLLEDYVRTKL-RSYGYQEVKTP 245 Query: 199 LLVRDEAMYGTGQIPKFADDMFCTT-DGRWLI--PTSEVSLTNLYSHEIIESKSLPLRFT 255 +L E +G + +DMF T D R P + ++ + + LPLR Sbjct: 246 VLADLELWELSGHWDNYKEDMFLTESDDREYALKPMNCPGHILIFKSGLRSYRELPLRLA 305 Query: 256 TLAPSFR---SEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKR 312 +R S A RG + + F +++ +E Sbjct: 306 EFGYVYRYEKSGALHGLMRVRGFTQ-------------DDAHIFCTPDQI---KDEFKGI 349 Query: 313 LDLHYRVVSLCTGDLGFS 330 L+L V D GF+ Sbjct: 350 LELILEV----YKDFGFT 363 >gnl|CDD|29816 cd00771, ThrRS_core, Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.. Length = 298 Score = 48.6 bits (116), Expect = 3e-06 Identities = 45/213 (21%), Positives = 72/213 (33%), Gaps = 14/213 (6%) Query: 141 HFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLL 200 H +G L L F G F + G A + L F+ +L + GY EV P++ Sbjct: 2 HRRLGGELELFFFFDEAG-PGLPFWLPKG--AIIRNELEDFLRELQ-RKRGYQEVETPII 57 Query: 201 VRDEAMYGTGQIPKFADDMFCTTDGR---WLIPTSEVSLTNLYSHEIIESKSLPLRFTTL 257 E +G + ++MF + L P + ++ + + LPLR Sbjct: 58 YNKELWETSGHWDHYRENMFPFEEEDEEYGLKPMNCPGHCLIFKSKPRSYRDLPLRLAEF 117 Query: 258 APSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKRLDLHY 317 R E A G+ R F + + + E + +L +E+ Sbjct: 118 GTVHRYEQSGA---LHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFFD 174 Query: 318 RVVSLCTGDLGFSACKTYDLEVWLAGQNLYREI 350 V L T F EVW + RE Sbjct: 175 YKVELSTRPEKFIG----SDEVWEKAEAALREA 203 >gnl|CDD|58340 cd00772, ProRS_core, Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.. Length = 264 Score = 44.3 bits (104), Expect = 6e-05 Identities = 48/231 (20%), Positives = 85/231 (36%), Gaps = 18/231 (7%) Query: 180 QFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPK-FADDMFCTTDGR--------WLIP 230 + ++D EHG P + + + + F+ ++ D L P Sbjct: 39 ENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVFKDAGDEELEEDFALRP 98 Query: 231 TSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQF-WKCELVSI 289 T E ++ + + I K LP + FR E R G LR +F K + Sbjct: 99 TLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEI----RPRFGFLRAREFIMKDGHSAH 154 Query: 290 TREEDSFTEHERMLSCAEEILKRL-DLHYRVVSLCTGDLGFSACKTYDLEVWLA-GQNLY 347 E++ E MLS EI + L + + G A K+ + E + G+ Sbjct: 155 ADAEEADEEFLNMLSAYAEIARDLAAIDFIEGEADEGAKFAGASKSREFEALMEDGKAKQ 214 Query: 348 REISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILE 398 E G ++ + +++ D + K KF G+ + R + AI+E Sbjct: 215 AETGHIFGEGFARAFDLKAKFLDKDGK-EKFFEM-GCWGIGISRFIGAIIE 263 >gnl|CDD|29823 cd00778, ProRS_core_arch_euk, Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.. Length = 261 Score = 40.5 bits (95), Expect = 0.001 Identities = 37/135 (27%), Positives = 57/135 (42%), Gaps = 14/135 (10%) Query: 189 EHGYTEVSAPLLV-RDEAMYGTGQIPKFADDMFCTTDGR--------WLIPTSEVSLTNL 239 E G+ V PLL+ E I FA ++ T G L PTSE ++ + Sbjct: 48 ETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAIYPM 107 Query: 240 YSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQF-WKCELVSITREEDSFTE 298 +S I + LPL+ FR E + TR LR +F W+ + EE++ E Sbjct: 108 FSKWIRSYRDLPLKINQWVNVFRWET----KTTRPFLRTREFLWQEGHTAHATEEEAEEE 163 Query: 299 HERMLSCAEEILKRL 313 ++L +E + L Sbjct: 164 VLQILDLYKEFYEDL 178 >gnl|CDD|30473 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 429 Score = 36.0 bits (83), Expect = 0.020 Identities = 29/142 (20%), Positives = 53/142 (37%), Gaps = 27/142 (19%) Query: 190 HGYTEVSAP------LLVR---DEAMYGTGQIPKFADDMFCTTDGRW--LIPTSEVSLTN 238 +G++E+ P L R +E ++ F D GR L P + Sbjct: 35 YGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDK-----GGRSLALRPELTAPVAR 89 Query: 239 LYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTE 298 + ++ PL+ P FR E G R QF++ V + + + Sbjct: 90 AVAENKLDLP-KPLKLYYFGPVFRYERPQKG-------RYRQFYQFG-VEVIGSDSPDAD 140 Query: 299 HERMLSCAEEILKRLDL-HYRV 319 E +++ A EIL+ L + + + Sbjct: 141 AE-VIALAVEILEALGIGGFTL 161 >gnl|CDD|36850 KOG1637, KOG1637, KOG1637, Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 560 Score = 35.3 bits (81), Expect = 0.037 Identities = 31/133 (23%), Positives = 55/133 (41%), Gaps = 8/133 (6%) Query: 139 REHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAP 198 R+H +IG+ L F + G+ F + G + L F+ + G+TEV P Sbjct: 163 RDHRKIGKEQELFFFHELS--PGSCFFLPHG--TRIYNTLVDFI-RAEYRKRGFTEVITP 217 Query: 199 LLVRDEAMYGTGQIPKFADDMFC---TTDGRWLIPTSEVSLTNLYSHEIIESKSLPLRFT 255 + + +G ++++MF + L P + +++H + LPLRF Sbjct: 218 NIYNKKLWETSGHWQNYSENMFKFEVEKEEFALKPMNCPGHCLMFAHRDRSYRELPLRFA 277 Query: 256 TLAPSFRSEAGSA 268 R+EA A Sbjct: 278 DFGVLHRNEASGA 290 >gnl|CDD|73226 cd00773, HisRS-like_core, Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.. Length = 261 Score = 33.6 bits (77), Expect = 0.11 Identities = 31/130 (23%), Positives = 55/130 (42%), Gaps = 15/130 (11%) Query: 190 HGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTD--GRW--LIPTSEVSLTNLYSHEII 245 +GY E+ P+ E ++ + + +M+ D GR L P + + ++ Sbjct: 19 YGYEEIDTPVFEYTE-LFLRKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLL 77 Query: 246 ESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSC 305 S LPL+ + P FR E G R +F++ V I + + E +++ Sbjct: 78 -SLPLPLKLYYIGPVFRYERPQKG-------RYREFYQVG-VEIIGSDSPLADAE-VIAL 127 Query: 306 AEEILKRLDL 315 A EIL+ L L Sbjct: 128 AVEILEALGL 137 >gnl|CDD|176209 cd08247, AST1_like, AST1 is a cytoplasmic protein associated with the periplasmic membrane in yeast. This group contains members identified in targeting of yeast membrane proteins ATPase. AST1 is a cytoplasmic protein associated with the periplasmic membrane in yeast, identified as a multicopy suppressor of pma1 mutants which cause temperature sensitive growth arrest due to the inability of ATPase to target to the cell surface. This family is homologous to the medium chain family of dehydrogenases and reductases. Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of an beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. Length = 352 Score = 31.5 bits (72), Expect = 0.45 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 5/43 (11%) Query: 367 RYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTI 409 + P+SK L + G +VGR I + +N+ N V Sbjct: 147 QKLGPDSKVL-----VLGGSTSVGRFAIQLAKNHYNIGTVVGT 184 >gnl|CDD|35774 KOG0554, KOG0554, KOG0554, Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]. Length = 446 Score = 31.4 bits (71), Expect = 0.46 Identities = 34/168 (20%), Positives = 57/168 (33%), Gaps = 45/168 (26%) Query: 174 LERALGQFMIDLHTSEHGYTEVSAPLLVRD------EAMYGTGQIPK----FADDMFCTT 223 L A F H +T ++ P++ + E T F F T Sbjct: 138 LAFATHSFF-----QSHDFTYINTPIITTNDCEGAGEVFQVTTLTDYSKDFFGRPAFLTV 192 Query: 224 DGRWLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWK 283 G+ + +L+ +Y T P+FR+E T L +FW Sbjct: 193 SGQLHLEAMACALSRVY---------------TFGPTFRAE----NSHTSRHLA--EFWM 231 Query: 284 CELVSITREEDSFTEH-ERMLSCAEEILKRLDLHYRVVSLCTGDLGFS 330 E E +F E + ++SCAE +K + ++ C D+ Sbjct: 232 LEA------ELAFAESLDDLMSCAEAYIK--HMIKYLLEKCIEDMELM 271 >gnl|CDD|30367 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]. Length = 435 Score = 31.3 bits (71), Expect = 0.51 Identities = 37/169 (21%), Positives = 67/169 (39%), Gaps = 36/169 (21%) Query: 172 AHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIP--KFADDMFCTTDGRWLI 229 + + RA+ +F E+G+TEV P++ G F + + T + Sbjct: 138 SSILRAIREFF-----YENGFTEVHTPIITASATEGGGELFKVDYFDKEAYLTQSPQ--- 189 Query: 230 PTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI 289 LY + + R T+ P+FR+E +TR L +FW + Sbjct: 190 ---------LYKEALAAALE---RVFTIGPTFRAEK----SNTRRHL--SEFWMLDP--- 228 Query: 290 TREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLE 338 E +F + ++ AEE++K L +V+ C +L F +L+ Sbjct: 229 ---EMAFADLNDVMDLAEELIKY--LFKKVLEECADELEFLGRDNSELK 272 >gnl|CDD|99980 cd03808, GT1_cap1E_like, This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides.. Length = 359 Score = 30.6 bits (70), Expect = 0.75 Identities = 17/75 (22%), Positives = 23/75 (30%), Gaps = 3/75 (4%) Query: 318 RVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLK 377 +V+ G LGF T L R + FQ+ K Sbjct: 106 KVIYTVHG-LGF--VFTSGGLKRRLYLLLERLALRFTDKVIFQNEDDRDLALKLGIIKKK 162 Query: 378 FTHTLNGSGVAVGRC 392 T + GSGV + R Sbjct: 163 KTVLIPGSGVDLDRF 177 >gnl|CDD|143920 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N). Length = 341 Score = 29.5 bits (67), Expect = 2.1 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 14/59 (23%) Query: 256 TLAPSFRSEAGSAGRDTRGMLRQ-HQFWKCELVSITREEDSFTEHERMLSCAEEILKRL 313 +AP FR E D R R +F + +L E SF ++E ++ E+++K + Sbjct: 94 QIAPCFRDE------DLRT-DRHPPEFTQLDL------EMSFVDYEDVMDLTEDLIKYV 139 >gnl|CDD|73394 cd04732, HisA, HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''- phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.. Length = 234 Score = 28.5 bits (64), Expect = 3.7 Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 2/36 (5%) Query: 41 IKKIEDIRARRNSN--SAQIGQAIAEGNLSLVDALK 74 + ++DI+A + +G+A+ EG ++L +AL Sbjct: 199 VSSLDDIKALKELGVAGVIVGKALYEGKITLEEALA 234 >gnl|CDD|39365 KOG4163, KOG4163, KOG4163, Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 551 Score = 28.4 bits (63), Expect = 3.8 Identities = 24/91 (26%), Positives = 36/91 (39%), Gaps = 15/91 (16%) Query: 230 PTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQF-WKCELVS 288 PTSE + Y+ I + LPL+ R E + + LR +F W Sbjct: 164 PTSETVMYPYYAKWIQSHRDLPLKLNQWCNVVRWEF----KHPQPFLRTREFLW------ 213 Query: 289 ITREEDSFTEHERMLSCAEEILKRLDLHYRV 319 ++ T EE+L+ LDL+ RV Sbjct: 214 ----QEGHTAFATPEEAEEEVLQILDLYARV 240 >gnl|CDD|36667 KOG1454, KOG1454, KOG1454, Predicted hydrolase/acyltransferase (alpha/beta hydrolase superfamily) [General function prediction only]. Length = 326 Score = 28.1 bits (62), Expect = 4.5 Identities = 20/74 (27%), Positives = 27/74 (36%), Gaps = 9/74 (12%) Query: 108 VPLEEVPIGTSANENILIRSVGKKPSAIHLSREH--FEIGEALGLMDFDRATKLSGARFS 165 + L +G N LI+ + K P I + + A L KL A Sbjct: 242 LSLFLELLGFDENLLSLIKKIWKCPVLIIWGDKDQIVPLELAEELKK-----KLPNAELV 296 Query: 166 VL--TGHLAHLERA 177 + GHL HLER Sbjct: 297 EIPGAGHLPHLERP 310 >gnl|CDD|35728 KOG0508, KOG0508, KOG0508, Ankyrin repeat protein [General function prediction only]. Length = 615 Score = 28.0 bits (62), Expect = 5.7 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 4/83 (4%) Query: 80 LKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSANENILI---RSVGKKPSAIH 136 L E++ +++H ++ +L+ P + + ++N V + PSA H Sbjct: 451 LLEKVECTPEQDHLKHQTIYRLLKLAPRGKNGFTLLHLAVDKNTTNVGRYPVCRFPSA-H 509 Query: 137 LSREHFEIGEALGLMDFDRATKL 159 +++ E G + DFD T L Sbjct: 510 VTKVLLECGADVNARDFDNNTPL 532 >gnl|CDD|38517 KOG3307, KOG3307, KOG3307, Molybdopterin converting factor subunit 2 [Coenzyme transport and metabolism]. Length = 150 Score = 27.7 bits (61), Expect = 6.6 Identities = 12/35 (34%), Positives = 17/35 (48%) Query: 70 VDALKNETSTLKEQLPILEKEEHEVCSSLKKLISC 104 + A + LK +PI +KEE+EV K I Sbjct: 110 LQATEKCIDLLKAHVPIWKKEEYEVDGVWKSNIED 144 >gnl|CDD|176894 cd08885, RHO_alpha_C_1, C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-terminal domain which binds the non-heme Fe(II). The Fe(II) is co-ordinated by conserved His and Asp residues. This group contains two putative Parvibaculum lavamentivorans (T) DS-1 oxygenases; this organism catabolizes commercial linear alkylbenzenesulfonate surfactant (LAS) and other surfactants, by a pathway involving an undefined 'omega-oxygenation' and beta-oxidation of the LAS side chain. The nature of the LAS-oxygenase is unknown but is likely a multicomponent system. This subfamily belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Length = 190 Score = 27.7 bits (62), Expect = 6.9 Identities = 12/21 (57%), Positives = 16/21 (76%), Gaps = 1/21 (4%) Query: 161 GARFSVLTGHLAHLERALGQF 181 G+RF+V G L+HLER + QF Sbjct: 162 GSRFAV-PGRLSHLERPIWQF 181 >gnl|CDD|35775 KOG0555, KOG0555, KOG0555, Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]. Length = 545 Score = 27.6 bits (61), Expect = 7.5 Identities = 25/122 (20%), Positives = 49/122 (40%), Gaps = 23/122 (18%) Query: 186 HTSEHGYTEVSAPLLVRDEAMYGTG--QIPKFADDMFCTTDGRWLIPTSEVSLTNLYSHE 243 H E GYTEV+ P +V+ + G+ ++ + ++ + T + + T +L ++Y Sbjct: 256 HYFERGYTEVTPPTMVQTQVEGGSTLFKLDYYGEEAYLTQSSQLYLETCLPALGDVY--- 312 Query: 244 IIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERML 303 + S+R+E TR L ++ + E +T D + L Sbjct: 313 ------------CIQQSYRAEKSR----TRRHLSEYTHVEAECAFLTF--DDLLDRIEAL 354 Query: 304 SC 305 C Sbjct: 355 VC 356 >gnl|CDD|29821 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.. Length = 322 Score = 27.4 bits (61), Expect = 8.7 Identities = 29/145 (20%), Positives = 53/145 (36%), Gaps = 35/145 (24%) Query: 172 AHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGT--GQIPKFADDMFCTTDGRWLI 229 + + RA +F+ E+G+TEV P + + G ++ F + + Sbjct: 28 SEVLRAFREFL-----RENGFTEVHTPKITSTDTEGGAELFKVSYFGKPAYLAQSPQLYK 82 Query: 230 PTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI 289 +L +Y + P FR+E +TR L +FW E Sbjct: 83 EMLIAALERVY---------------EIGPVFRAEK----SNTRRHL--SEFWMLEA--- 118 Query: 290 TREEDSFTEHER-MLSCAEEILKRL 313 E +F E ++ EE++K + Sbjct: 119 ---EMAFIEDYNEVMDLIEELIKYI 140 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 0.318 0.134 0.390 Gapped Lambda K H 0.267 0.0780 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 5,145,499 Number of extensions: 267312 Number of successful extensions: 682 Number of sequences better than 10.0: 1 Number of HSP's gapped: 655 Number of HSP's successfully gapped: 36 Length of query: 430 Length of database: 6,263,737 Length adjustment: 97 Effective length of query: 333 Effective length of database: 4,167,664 Effective search space: 1387832112 Effective search space used: 1387832112 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 (21.7 bits) S2: 59 (26.4 bits)