RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780680|ref|YP_003065093.1| seryl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] (430 letters) >3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A* Length = 484 Score = 409 bits (1051), Expect = e-115 Identities = 138/468 (29%), Positives = 213/468 (45%), Gaps = 46/468 (9%) Query: 1 MLDIQWIRQNPEHLDI--ALKKRHLEPQS-EYILSLDEKNRILIKKIEDIRARRNSNSAQ 57 +LDIQ R I + ++R +P + I+ D+K R E + N S Sbjct: 7 VLDIQLFRDETGANIIRESQRRRFADPDIVDAIIEADKKWRRTQFLTEASKKLINICSKA 66 Query: 58 IGQAIAEGNLS---------------------------LVDALKNETSTLKEQLPILEKE 90 +G V LK + L +Q+ L KE Sbjct: 67 VGAKKKAKEADGDTSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAGLAKE 126 Query: 91 EHEVCSSLKKLISCIPNVPLEEVPIGTSANEN-ILIRSVGKKPSAIHLSREHFEIGEALG 149 ++ KL+ + N+ E VPI ++R+ G L+ H I E LG Sbjct: 127 AQQLEEERDKLMLNVGNILHESVPIAQDEETGNTVVRTFGNTTKRAKLN--HVSIMERLG 184 Query: 150 LMDFDR-ATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYG 208 +MD + T ++G R VL G L L+ AL + +D + GYT P + + M Sbjct: 185 MMDTSKAVTSMAGGRSYVLKGGLVQLQVALVSYSLD-FLVKRGYTPFYPPFFLNRDVMGE 243 Query: 209 TGQIPKFADDMFCTT---DGRWLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEA 265 Q+ +F ++++ + D ++LI TSE+ + + PL++ ++ FR EA Sbjct: 244 VAQLSQFDEELYQVSGDGDKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEA 303 Query: 266 GSAGRDTRGMLRQHQFWKCELVSITREE--DSFTEHERMLSCAEEILKRLDLHYRVVSLC 323 G+ GRDT G+ R HQF K E + +S+ E M++ +EE K L L YRVV++C Sbjct: 304 GAHGRDTLGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNIC 363 Query: 324 TGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNS-----KSLKF 378 +G L +A K YDLE W +RE+ SCS C ++QS+ +N RY ++ Sbjct: 364 SGALNNAAAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVKEY 423 Query: 379 THTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYMNNLAVIKKE 426 H LNG+ A+ R + I ENY +G V IP VLRPYM + +I+ E Sbjct: 424 CHMLNGTLCAITRTMCCICENYQTEEG-VVIPDVLRPYMMGIEMIRFE 470 >2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A Length = 455 Score = 404 bits (1040), Expect = e-113 Identities = 160/450 (35%), Positives = 251/450 (55%), Gaps = 27/450 (6%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQSEY---ILSLDEKNRILIKKIEDIRARRNSNSAQ 57 MLDI+ IR+NPE + L KR + ++ IL LD + R +K+I +R RN + + Sbjct: 1 MLDIKLIRENPELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNKIAVE 60 Query: 58 IGQAIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGT 117 IG+ +G VD L ++ + +++ LE E E+ + + +PN+ VP+G Sbjct: 61 IGKRRKKGEP--VDELLAKSREIVKRIGELENEVEELKKKIDYYLWRLPNITHPSVPVGK 118 Query: 118 SANENILIRSVGKKPSAIHLS--------------------REHFEIGEALGLMDFDRAT 157 N+N+ IR GK + H ++ E LG DF RA Sbjct: 119 DENDNVPIRFWGKARVWKGHLERFLEQSQGKMEYEILEWKPKLHVDLLEILGGADFARAA 178 Query: 158 KLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFAD 217 K+SG+RF L + L+ AL +F +D E G+T V P +VR G+ F D Sbjct: 179 KVSGSRFYYLLNEIVILDLALIRFALDRLI-EKGFTPVIPPYMVRRFVEEGSTSFEDFED 237 Query: 218 DMFCTT-DGRWLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGML 276 ++ + +LIPT+E L ++++EI++ K LPL + ++P FR EAG+AG+DT+G+ Sbjct: 238 VIYKVEDEDLYLIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKEAGTAGKDTKGIF 297 Query: 277 RQHQFWKCELVSITREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYD 336 R HQF K E +R E+S+ HE+++ AEE+ + L++ YRVV++CTGDLG+ A K YD Sbjct: 298 RVHQFHKVEQFVYSRPEESWEWHEKIIRNAEELFQELEIPYRVVNICTGDLGYVAAKKYD 357 Query: 337 LEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAI 396 +E W+ GQ +RE+ S S C ++Q+RR+N R+RD + ++ HTLN + +A R ++AI Sbjct: 358 IEAWMPGQGKFREVVSASNCTDWQARRLNIRFRDRTDEKPRYVHTLNSTAIATSRAIVAI 417 Query: 397 LENYLNADGSVTIPTVLRPYMNNLAVIKKE 426 LEN+ DG+V IP VL Y ++ E Sbjct: 418 LENHQEEDGTVRIPKVLWKYTGFKEIVPVE 447 >2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus VF5} Length = 425 Score = 400 bits (1029), Expect = e-112 Identities = 207/429 (48%), Positives = 283/429 (65%), Gaps = 7/429 (1%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQS--EYILSLDEKNRILIKKIEDIRARRNSNSAQI 58 M+DI IR+ P+++ L R E S + +L LD++ R +IK++E +R+ RN S +I Sbjct: 1 MIDINLIREKPDYVKERLATRDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLSKEI 60 Query: 59 GQAIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTS 118 G+ EG ++N LKE++ LE+E +V LK + IPN+P VP+G Sbjct: 61 GKLKREGKD--TTEIQNRVKELKEEIDRLEEELRKVEEELKNTLLWIPNLPHPSVPVGED 118 Query: 119 ANENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERAL 178 +N+ +R G+ + H+EIGE LG++DF R KLSG+RF+V+ G A LERAL Sbjct: 119 EKDNVEVRRWGEPRKFDFEPKPHWEIGERLGILDFKRGAKLSGSRFTVIAGWGARLERAL 178 Query: 179 GQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMF-CTTDGRWLIPTSEVSLT 237 FM+DLHT + GY E+ P LV+ E + GTGQ+PKF +D++ C D +LIPT+EV LT Sbjct: 179 INFMLDLHT-KKGYKEICPPHLVKPEILIGTGQLPKFEEDLYKCERDNLYLIPTAEVPLT 237 Query: 238 NLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFT 297 NLY EI++ ++LP+ T P +R EAG+ G+D RG++RQHQF K ELV I + S+ Sbjct: 238 NLYREEILKEENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQFDKVELVKIVHPDTSYD 297 Query: 298 EHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCG 357 E E+++ AEE+L+ L L YRVV LCTGDLGFSA KTYD+EVW QN YREISSCS C Sbjct: 298 ELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFSAAKTYDIEVWFPSQNKYREISSCSNCE 357 Query: 358 NFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYM 417 +FQ+RRMN+R++D + +F HTLNGSG+AVGR L AILENY DGSV +P VLR Y+ Sbjct: 358 DFQARRMNTRFKDSKTGKNRFVHTLNGSGLAVGRTLAAILENYQQEDGSVVVPEVLRDYV 417 Query: 418 NNLAVIKKE 426 VI+ E Sbjct: 418 GT-DVIRPE 425 >3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP; 2.27A {Mus musculus} Length = 536 Score = 375 bits (963), Expect = e-104 Identities = 126/349 (36%), Positives = 189/349 (54%), Gaps = 7/349 (2%) Query: 73 LKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSANENILIRSVGKKP 132 + L+ +L LE + + L+ L+ +P P P+G N I+ VG P Sbjct: 178 MLKRVEPLRNELQKLEDDAKDNQQKLEALLLQVPLPPWPGAPVGGEEA-NREIKRVGGPP 236 Query: 133 SAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGY 192 +H + E G + R +++SG+R L G LA E AL +F +D G+ Sbjct: 237 EFSFPPLDHVALMEKNGWWEP-RISQVSGSRSYALKGDLALYELALLRFAMDFMA-RRGF 294 Query: 193 TEVSAPLLVRDEAMYGTGQIPKFADDMF-CTTDGRWLIPTSEVSLTNLYSHEIIESKSLP 251 ++ P R++A GTG P + D ++ +L T+EV L L+S EI+ ++LP Sbjct: 295 LPMTLPSYAREKAFLGTGHFPAYRDQVWAIAETDLYLTGTAEVVLNALHSGEILPYEALP 354 Query: 252 LRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITRE--EDSFTEHERMLSCAEEI 309 LR+ AP+FRSEAGS G+D RG++R HQF K E +T E S + +L AEEI Sbjct: 355 LRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEI 414 Query: 310 LKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYR 369 L+ L+L YR+V + TGD+G + D+EV+L + YRE SCS ++Q+RR N RYR Sbjct: 415 LRLLELPYRLVEVATGDMGPGKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRYR 474 Query: 370 DPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYMN 418 DP + +++ +TLN + +A R L +LEN+ DG V +P L PYM Sbjct: 475 DPEGR-VRYAYTLNNTALATPRILAMLLENHQLQDGRVRVPQALIPYMG 522 Score = 27.6 bits (61), Expect = 5.5 Identities = 16/62 (25%), Positives = 34/62 (54%), Gaps = 3/62 (4%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQ 60 M+D++ +RQ PE A++++ + E +L++DE+ L K+ E I ++ S + + Sbjct: 1 MVDLKRLRQEPEVFHRAIREKGVALDLEALLAVDEQ---LHKQQEVIADKQMSVKEDLDK 57 Query: 61 AI 62 Sbjct: 58 VE 59 >1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus} Length = 501 Score = 369 bits (949), Expect = e-103 Identities = 124/444 (27%), Positives = 213/444 (47%), Gaps = 20/444 (4%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQSEY---ILSLDEKNRILIKKIEDIRARRNSNSAQ 57 +LD++ + PE AL R E +S+ I+S ++ R L ++I + + + + Sbjct: 40 LLDMESLCAYPEDAARALDLRKGELRSKDLPGIISTWQELRQLREQIRSLEEEKEAVTEA 99 Query: 58 IGQAIAEGNLS------LVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLE 111 + + + S +L+ +++QL +L +E ++ +PN Sbjct: 100 VRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQFYLRALRLPNQTHP 159 Query: 112 EVPIGTSANENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHL 171 +VP+G ++ ++ VG KP+ R H EI E L ++ R + +SG R L G Sbjct: 160 DVPVGDE-SQARVLHVVGDKPAFSFQPRGHLEIAEKLDIIRQKRLSHVSGHRSYYLRGAG 218 Query: 172 AHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTT-----DGR 226 A L+ L F ++ +T ++ P L+R G G P + Sbjct: 219 ALLQHGLVNFTLNKLIHRG-FTPMTVPDLLRGVVFEGCGMTPNAKPSQIYNIDPSRFEDL 277 Query: 227 WLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCEL 286 L T+EV L + + + LP+R + +R+E + G++ G+ R H F K E+ Sbjct: 278 NLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTCYRAETDT-GKEPWGLYRVHHFTKVEM 336 Query: 287 VSITR--EEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQ 344 +T E S E LS EIL L LH+RV+ + T +LG A + +D+E W+ G+ Sbjct: 337 FGVTGPGLEQSSELLEEFLSLQMEILTELGLHFRVLDMPTQELGLPAYRKFDIEAWMPGR 396 Query: 345 NLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNAD 404 + E++S S C +FQSRR++ ++ + L+F HT+N +G AV R LIA+LE+Y D Sbjct: 397 GRFGEVTSASNCTDFQSRRLHIMFQTEAGE-LQFAHTVNATGCAVPRLLIALLESYQQKD 455 Query: 405 GSVTIPTVLRPYMNNLAVIKKEHI 428 GSV +P L+PY+ + H+ Sbjct: 456 GSVLVPPALQPYLGTDRITTPTHV 479 >1ses_A Seryl-tRNA synthetase; ligase(synthetase); HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A Length = 421 Score = 311 bits (797), Expect = 2e-85 Identities = 136/421 (32%), Positives = 212/421 (50%), Gaps = 11/421 (2%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQ 60 M+D++ +RQ PE A++++ + E +L+LD + + L K++++++ RN + ++ + Sbjct: 1 MVDLKRLRQEPEVFHRAIREKGVALDLEALLALDREVQELKKRLQEVQTERNQVAKRVPK 60 Query: 61 AIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSAN 120 A E +AL L E+ LE+ E + L+ L+ +P P P+G Sbjct: 61 APPEE----KEALIARGKALGEEAKRLEEALREKEARLEALLLQVPLPPWPGAPVGGEEA 116 Query: 121 ENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQ 180 + R G P R +++SG+R L G LA E AL + Sbjct: 117 NREIKRVGG--PPEFSFPPLDHVALMEKNGWWEPRISQVSGSRSYALKGDLALYELALLR 174 Query: 181 FMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMF-CTTDGRWLIPTSEVSLTNL 239 F +D GTG P + D ++ +L T+EV L L Sbjct: 175 FAMDFMARRGFLPMTLPSYAREKA-FLGTGHFPAYRDQVWAIAETDLYLTGTAEVVLNAL 233 Query: 240 YSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI--TREEDSFT 297 +S EI+ ++LPLR+ AP+FRSEAGS G+D RG++R HQF K E + E S Sbjct: 234 HSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDR 293 Query: 298 EHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCG 357 + +L AEEIL+ L+L YR+V + TGD+G + D+EV+L + YRE SCS Sbjct: 294 AFQELLENAEEILRLLELPYRLVEVATGDMGPGKWRQVDIEVYLPSEGRYRETHSCSALL 353 Query: 358 NFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYM 417 ++Q+RR N RYRDP + ++ +TLN + +A R L +LEN+ DG V +P L PYM Sbjct: 354 DWQARRANLRYRDPEGRV-RYAYTLNNTALATPRILAMLLENHQLQDGRVRVPQALIPYM 412 Query: 418 N 418 Sbjct: 413 G 413 >2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A {Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A Length = 522 Score = 242 bits (618), Expect = 2e-64 Identities = 57/433 (13%), Positives = 116/433 (26%), Gaps = 73/433 (16%) Query: 40 LIKKIEDIRARRNSNSAQIGQAIAEGNLSLVDALKNETSTLKEQLPILEK--EEHEVCSS 97 + K I R + I + A+ L ++ ++ E LE E E+ Sbjct: 104 ALGKKYKIGIRGIEVESFIIKVPADHELRMLKVPYIKSMENIEGGIQLELEVGEAEMK-- 161 Query: 98 LKKLISCIPNVPLEEVPIGTSANENILIRSVGKKPSAIH--LSREHFEIGEALGLMD-FD 154 VP + + E + + + + EH + M Sbjct: 162 --------NRVPDRILTLLEEKIEAAQYGAKAEHWNLLWQREPMEHPFKEDPTQAMMKEG 213 Query: 155 RATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPK 214 + S + A + R + +++ GY E+ P LV E +G Sbjct: 214 WLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIFPKLVTWEVWMKSGHAKG 273 Query: 215 FADDMFCTTDGR----------------------------------WLIPTSEVSLTNLY 240 +++ + + Sbjct: 274 VYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAEPIGGMCYAQCPPFWMYV 333 Query: 241 SHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHE 300 + E + ++ +P++ + + G+ R +F + E+V I +E+ E Sbjct: 334 AGETLPNEEIPVKVFDRSGTSHRYESGG---IHGIERVDEFHRIEIVWIGTKEEVLKCAE 390 Query: 301 RMLSCAEEILK-RLDLHYRVVSL---------CTGDLGFSACKTYDLEVWLAGQNLYREI 350 + I LD+ +R + G + T D E L + E Sbjct: 391 ELHDRYMHIFNDILDIEWRKARVTPWFMAQEGLLGLAEENTVGTTDYEACLPYRGPDGEW 450 Query: 351 SSCST---CGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSV 407 G+ + N + + + SGV + R L Sbjct: 451 LEFQNVSINGDKYPKGFNVKLQSG-----DELWS-GCSGVGLERWAAVFLAQKGLDPA-- 502 Query: 408 TIPTVLRPYMNNL 420 P R + + Sbjct: 503 NWPEEFRNRVGEM 515 >3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase, zinc ION, amino acid:[carrier protein] ligase; HET: AMP; 2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A* Length = 346 Score = 233 bits (596), Expect = 5e-62 Identities = 46/323 (14%), Positives = 89/323 (27%), Gaps = 61/323 (18%) Query: 141 HFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLL 200 + + + AR ++ + L + E G + P + Sbjct: 37 ADPLDHLADKLFHSMGSDGVYARTALYESIVERLAALI------TSHREAGTEALRFPPV 90 Query: 201 VRDEAMYGTGQIPKFADDMFCTTDGR----------------------------WLIPTS 232 + + +G + F + + C L P + Sbjct: 91 MSRAQLEKSGYLKSFPNLLGCVCGLHGTEREINAAVSRFDAGGDWTTSLSPADLVLSPAA 150 Query: 233 EVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITRE 292 + + + K LRF A FR E + + R F E V I Sbjct: 151 CYPVYPIAASRGPLPK-GGLRFDVAADCFRREPS------KHLDRLQSFRMREYVCIGTP 203 Query: 293 EDSFTEHERMLSCAEEILKRLDLHYRVVSLCT---GDLGFSACKT-------YDLEVWLA 342 +D ER + A+ I + L L +RV G +G + ++L + L Sbjct: 204 DDVSDFRERWMVRAQAIARDLGLTFRVDYASDPFFGRVGQMKAVSQKQQQLKFELLIPLR 263 Query: 343 GQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLN 402 + S + + + + HT + R +A+ + Sbjct: 264 SEEQPTACMSFNYHREHFGTTWGIQDANG-----EPAHT-GCVAFGMDRLAVAMFHTHGT 317 Query: 403 ADG----SVTIPTVLRPYMNNLA 421 V L+P++ A Sbjct: 318 DLSAWPAKVRDILGLQPHVAAGA 340 >3ial_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, prors, cysrs, Pro(Cys)RS, translation, ATP-binding; HET: PR8; 2.20A {Giardia lamblia atcc 50803} Length = 518 Score = 145 bits (367), Expect = 2e-35 Identities = 49/296 (16%), Positives = 102/296 (34%), Gaps = 25/296 (8%) Query: 132 PSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHG 191 + + I +A L+D + G V + +E A+ + + + + G Sbjct: 19 KTRDTFADWFDAIMDAAELVDRRYP--VKG--CVVFRPYGFFMENAIMRLCEEEYA-KVG 73 Query: 192 YTEVSAPLLVRDEAMYGT-GQIPKFADDMFCTTDGR--------WLIPTSEVSLTNLYSH 242 +++ P ++ + + I F + F G L PTSE ++ +++S Sbjct: 74 ISQILFPTVIPESFLKKESDHIKGFEAECFWVEKGGLQPLEERLALRPTSETAIYSMFSK 133 Query: 243 EIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI--TREEDSFTEHE 300 + K LPL+ FR E ++T+ ++R + E T E+ + Sbjct: 134 WVRSYKDLPLKIHQTCTIFRHET----KNTKPLIRVREIHWNEAHCCHATAEDAVSQLSD 189 Query: 301 RMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQ 360 L + + D A + +V + + + G Sbjct: 190 YWKVIDTIFSDELCFKGQKLRRVCWDRFPGADYSEVSDVVM-PCGRVLQTAGIHNLGQRF 248 Query: 361 SRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPY 416 S + Y + ++S+ T G R L L + ++ G V +P ++ P Sbjct: 249 SSTFDILYANKANESVHPYLTCAGIS---TRVLACALSIHGDSGGLV-LPPLIAPI 300 >1nj1_A Proline-tRNA synthetase, proline--tRNA ligase; protein-aminoacyladenylate complex class-II tRNA synthetase; HET: 5CA; 2.55A {Methanothermobacterthermautotrophicus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A* Length = 501 Score = 144 bits (365), Expect = 3e-35 Identities = 56/319 (17%), Positives = 110/319 (34%), Gaps = 32/319 (10%) Query: 105 IPNVPLEEVPIGTSANENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARF 164 +P + PI N R G+K + S I E ++D G Sbjct: 15 VPRGSHMQKPIKKDPN-----RYHGEKMTE--FSEWFHNILEEAEIIDQRYPV--KG--M 63 Query: 165 SVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGT-GQIPKFADDMFCTT 223 V H + + + + + + + EV PLLV ++ + + F D+++ T Sbjct: 64 HVWMPHGFMIRKNTLKILRRIL--DRDHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVT 121 Query: 224 DGR--------WLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGM 275 G L PTSE + +++ + LP+RF + +FR E + TR + Sbjct: 122 HGGLSKLQRKLALRPTSETVMYPMFALWVRSHTDLPMRFYQVVNTFRYET----KHTRPL 177 Query: 276 LRQHQFWKCELVSI--TREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACK 333 +R + + ++ + ER + +E L + Y + D + Sbjct: 178 IRVREITTFKEAHTIHATASEAEEQVERAVEIYKEFFNSLGIPYLITRRPPWDKFPGSEY 237 Query: 334 TYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCL 393 T + + +I + G +R ++ P T G R + Sbjct: 238 TVAFDTLMPDGK-TLQIGTVHNLGQTFARTFEIKFETPEGDHEYVHQTCYGLSD---RVI 293 Query: 394 IAILENYLNADGSVTIPTV 412 +++ + + G P V Sbjct: 294 ASVIAIHGDESGLCLPPDV 312 >1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION, adenylate analog, deletion mutant, ligase; HET: TSB; 1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1evk_A* 1fyf_A* 1kog_A* Length = 401 Score = 130 bits (328), Expect = 6e-31 Identities = 39/221 (17%), Positives = 68/221 (30%), Gaps = 15/221 (6%) Query: 139 REHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAP 198 R+H +IG+ L L + R L F+ E+ Y EV P Sbjct: 1 RDHRKIGKQLDLYHMQE----EAPGMVFWHNDGWTIFRELEVFVRSKLK-EYQYQEVKGP 55 Query: 199 LLVRDEAMYGTGQIPKFADDMFCTTDGR---WLIPTSEVSLTNLYSHEIIESKSLPLRFT 255 ++ TG + D MF T+ + P + +++ + + LPLR Sbjct: 56 FMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMA 115 Query: 256 TLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKRLDL 315 R+E + G++R F + + EE E + ++ Sbjct: 116 EFGSCHRNEPSGS---LHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGF 172 Query: 316 HYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTC 356 VV L T E+W + + Sbjct: 173 EKIVVKLSTRPEKRIGSD----EMWDRAEADLAVALEENNI 209 >1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 Length = 459 Score = 98.3 bits (244), Expect = 3e-21 Identities = 50/294 (17%), Positives = 105/294 (35%), Gaps = 24/294 (8%) Query: 143 EIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVR 202 +I E + D K G V + + R + + +L E G+ E P+L+ Sbjct: 13 DILEKAEIYDVRYPIK--G--CGVYLPYGFKIRRYTFEIIRNLLD-ESGHDEALFPMLIP 67 Query: 203 DEAMYGTGQ-IPKFADDMFCTTDGR--------WLIPTSEVSLTNLYSHEIIESKSLPLR 253 ++ + + I F D+++ T G L PTSE + + + LP++ Sbjct: 68 EDLLAKEAEHIKGFEDEVYWVTHGGKTQLDVKLALRPTSETPIYYMMKLWVKVHTDLPIK 127 Query: 254 FTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI--TREEDSFTEHERMLSCAEEILK 311 + +FR E + TR ++R + + + +E++ + + +S ++ Sbjct: 128 IYQIVNTFRYET----KHTRPLIRLREIMTFKEAHTAHSTKEEAENQVKEAISIYKKFFD 183 Query: 312 RLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDP 371 L + Y + D A T + +I++ G S+ + P Sbjct: 184 TLGIPYLISKRPEWDKFPGAEYTMAFDTIFPDGR-TMQIATVHNLGQNFSKTFEIIFETP 242 Query: 372 NSKSLKFTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYMNNLAVIKK 425 T R + +I+ + + G + P V + + +I K Sbjct: 243 TGDKDYAYQT---CYGISDRVIASIIAIHGDEKGLILPPIVAPIQVVIVPLIFK 293 >1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A {Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1 PDB: 1nyq_A* Length = 645 Score = 82.0 bits (202), Expect = 3e-16 Identities = 54/333 (16%), Positives = 104/333 (31%), Gaps = 52/333 (15%) Query: 138 SREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSA 197 R+H +IG+ L L + L GA + + A + R + ++++D GY V Sbjct: 240 ERDHRKIGKELELFTNSQ---LVGAGLPLWLPNGATIRREIERYIVDKEV-SMGYDHVYT 295 Query: 198 PLLVRDEAMYGTGQIPKFADDMFCTTDGRW-----LIPTSEVSLTNLYSHEIIESKSLPL 252 P+L + +G + +DMF L P + +Y+++ + LP+ Sbjct: 296 PVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPHSYRELPI 355 Query: 253 RFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKR 312 R L R EA A G+ R + R + E +R+++ ++ K Sbjct: 356 RIAELGTMHRYEASGA---VSGLQRVRGMTLNDSHIFVRPDQIKEEFKRVVNMIIDVYKD 412 Query: 313 LDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYR------------------------ 348 L D D ++W +N+ + Sbjct: 413 FGFEDYSFRLSYRDPEDKEKYFDDDDMWNKAENMLKEAADELGLSYEEAIGEAAFYGPKL 472 Query: 349 -----------EISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAIL 397 E S + R + Y + + + G + R + + Sbjct: 473 DVQVKTAMGKEETLSTAQLDFLLPERFDLTYIGQDGEHHRPVVIHRGVVSTMERFVAFLT 532 Query: 398 ENYLNADGSVTIPTVLRPYMNNLAVIKKEHILE 430 E PT L P + + + + Sbjct: 533 EET-----KGAFPTWLAPKQVQIIPVNVDLHYD 560 >1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline + tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A {Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1h4q_A* 1h4t_A 1h4s_A Length = 477 Score = 80.1 bits (197), Expect = 9e-16 Identities = 44/263 (16%), Positives = 83/263 (31%), Gaps = 22/263 (8%) Query: 176 RALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGT-GQIPKFADDMFCTTDGR-------- 226 + Q + + E G+ PL + + + F+ ++ T Sbjct: 48 ENIQQVLDRMFK-ETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVVTHAGGEELEEPL 106 Query: 227 WLIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKC-- 284 + PTSE + ++S I + LP R E TR LR +F Sbjct: 107 AVRPTSETVIGYMWSKWIRSWRDLPQLLNQWGNVVRWE-----MRTRPFLRTSEFLWQEG 161 Query: 285 ELVSITREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQ 344 TREE + A + + + A T +E + Sbjct: 162 HTAHATREEAEEEVRRMLSIYARLAREYAAIPVIEGLKTEKEKFAGAVYTTTIEALM-KD 220 Query: 345 NLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVGRCLIAILENYLNAD 404 + + G +R + +++D + + T G R + AI+ + + Sbjct: 221 GKALQAGTSHYLGENFARAFDIKFQDRDLQVKYVHTTSWGLSW---RFIGAIIMTHGDDR 277 Query: 405 GSVTIPTVLRPYMNNLAVIKKEH 427 G + +P L P + I K+ Sbjct: 278 G-LVLPPRLAPIQVVIVPIYKDE 299 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 68.4 bits (167), Expect = 3e-12 Identities = 93/513 (18%), Positives = 168/513 (32%), Gaps = 183/513 (35%) Query: 9 QNPEHLDIALKKRHLEPQSEY---------ILSLDEKNRILIKKIEDI-----RARRNSN 54 Q + L++ L E ++ Y L ++N + K +++ AR + Sbjct: 79 QFDQVLNLCLT----EFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134 Query: 55 -------------SAQIGQA--IA----EGN-------L--------SLVDALKNETSTL 80 + G A +A +GN L LV L Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL---IKFS 191 Query: 81 KEQLPILEKEEHEVCSSLKK-------------------LISCIP-NVPLEEVPIG-TS- 118 E L L + + + L+S IP + PL IG Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS-IPISCPL----IGVIQL 246 Query: 119 ANENILIRSVGKKPSAIHLSREHFE--IGEALGLM------------DFDRATKLS---- 160 A+ + + +G P + R + + G + GL+ F + + + Sbjct: 247 AHYVVTAKLLGFTPGEL---RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL 303 Query: 161 ---GARFSVLTGHLAHLERALGQFMIDLHTS-EHGYTEVSAPLL-VRD---EAMYGTGQI 212 G R + A+ +L + L S E+ S P+L + + E Q+ Sbjct: 304 FFIGVR-----CYEAYPNTSLPPSI--LEDSLENNEGVPS-PMLSISNLTQE------QV 349 Query: 213 PKFADDMFCTTDGRWLIPTSE---VSLTNLYSHEIIES--KSLPLRFTTLAPSFRSEAGS 267 + + T+ +P + +SL N + ++ +SL + R Sbjct: 350 QDYVNK----TNSH--LPAGKQVEISLVNGAKNLVVSGPPQSL-YGLNL---TLRKAKAP 399 Query: 268 AGRDT-------RGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKRLDLHYRVV 320 +G D R + ++F + + F H +L A +++ + DL V Sbjct: 400 SGLDQSRIPFSERKLKFSNRF-----LPVAS---PF--HSHLLVPASDLINK-DLVKNNV 448 Query: 321 SLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTCGNFQSR--RMNSRYRDP-N-SKSL 376 S D+ T+D G +L R +S G+ R R P + Sbjct: 449 SFNAKDIQIPVYDTFD------GSDL-RVLS-----GSISERIVDCII--RLPVKWETTT 494 Query: 377 KF--THTLN-GSGVAVGRCLIAILENYLNADGS 406 +F TH L+ G G A G + +L + N DG+ Sbjct: 495 QFKATHILDFGPGGASG---LGVLTHR-NKDGT 523 Score = 34.9 bits (80), Expect = 0.038 Identities = 29/198 (14%), Positives = 58/198 (29%), Gaps = 68/198 (34%) Query: 227 WLIPTSEVSLTNLYSHEIIESKSLPLR--FT-TL-APSFRSEAGSAGRDTRGMLRQHQFW 282 L+PT+ + + L+ F L P+ G A D Sbjct: 20 LLVPTA------SFFI------ASQLQEQFNKILPEPT----EGFAADDEPTT------- 56 Query: 283 KCELVS-----ITR--EEDSFTEHERMLSCA-----EEILKRLDLHYRVVSLCTGDLGFS 330 ELV ++ E + +++L+ L+ D+H L + + Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL-LQENDTT 115 Query: 331 ACKTYDLEVWLAGQNLYREISSCSTCGNFQSRRMNSRYRDPNSKSLKFTHTLNGSGVAVG 390 KT + + +N + + ++ +L F G+ Sbjct: 116 LVKTKE---LI--KNYIT---ARI--------MAKRPFDKKSNSAL-FRAVGEGNAQ--- 155 Query: 391 RCLIAIL------ENYLN 402 L+AI ++Y Sbjct: 156 --LVAIFGGQGNTDDYFE 171 Score = 29.9 bits (67), Expect = 1.2 Identities = 66/328 (20%), Positives = 105/328 (32%), Gaps = 125/328 (38%) Query: 1 MLDIQWIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQ 60 +LDI + NP +L I H EK + R R N SA I + Sbjct: 1661 ILDI--VINNPVNLTI-----HFG---------GEKGK---------RIRENY-SAMIFE 1694 Query: 61 AIAEGNLSLVDALKNETSTLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSAN 120 I +G L K E EH + + + Sbjct: 1695 TIVDGKLKTEKIFK-------------EINEHSTSYTFR-------------------SE 1722 Query: 121 ENILIRSVGKKPSAIHLSREHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQ 180 + +L + +P+ + + FE ++ GL+ D A F+ GH +LG+ Sbjct: 1723 KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPAD-------ATFA---GH------SLGE 1766 Query: 181 F-----MIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGRWLIPTSEVS 235 + + D+ + E LV E ++ G + A +P E+ Sbjct: 1767 YAALASLADVMSIES---------LV--EVVFYRGMTMQVA------------VPRDELG 1803 Query: 236 LTNLYSHEIIESKSLPLRFTTLAPSFRSEA-----GSAGRDTRGMLRQHQFWKCELVSIT 290 +N Y I P R +A SF EA G+ T G W E+V+ Sbjct: 1804 RSN-YGMIAIN----PGR---VAASFSQEALQYVVERVGKRT-G-------WLVEIVNYN 1847 Query: 291 REEDSFTEHE--RMLSCAEEILKRLDLH 316 E + R L +L + L Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFIKLQ 1875 >2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- tRNA synthetase, editing, translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB: 2j3m_A* Length = 572 Score = 66.1 bits (160), Expect = 1e-11 Identities = 37/169 (21%), Positives = 61/169 (36%), Gaps = 10/169 (5%) Query: 172 AHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDG----RW 227 + L M + + E+ P L+ E +G+ + +++ D Sbjct: 47 NRVLEKLKTIMREEFE-KIDAVEMLMPALLPAELWKESGRYETYGPNLYRLKDRNDRDYI 105 Query: 228 LIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELV 287 L PT E + T L EI K LPL + +R E R G+LR +F + Sbjct: 106 LGPTHEETFTELIRDEINSYKRLPLNLYQIQTKYRDEK----RSRSGLLRGREFIMKDGY 161 Query: 288 SITREEDSF-TEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTY 335 S +E S + I +R L +R + G +G K + Sbjct: 162 SFHADEASLDQSYRDYEKAYSRIFERCGLEFRAIIGDGGAMGGKDSKEF 210 >1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, zinc, mRNA, aminoacylation, translational regulation, protein/RNA, ligase/RNA complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A {Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1 Length = 642 Score = 64.7 bits (157), Expect = 3e-11 Identities = 38/221 (17%), Positives = 65/221 (29%), Gaps = 15/221 (6%) Query: 139 REHFEIGEALGLMDFDRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAP 198 R+H +IG+ L L + R L F+ E+ Y EV P Sbjct: 242 RDHRKIGKQLDLYHMQE----EAPGMVFWHNDGWTIFRELEVFVRSKL-KEYQYQEVKGP 296 Query: 199 LLVRDEAMYGTGQIPKFADDMFCTTDGR---WLIPTSEVSLTNLYSHEIIESKSLPLRFT 255 ++ TG + D MF T+ + P + +++ + + LPLR Sbjct: 297 FMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMA 356 Query: 256 TLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSCAEEILKRLDL 315 R G++R F + + EE E + ++ Sbjct: 357 EFGSCHR---NEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGF 413 Query: 316 HYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREISSCSTC 356 VV L T E+W + + Sbjct: 414 EKIVVKLSTRPEKRIG----SDEMWDRAEADLAVALEENNI 450 >3a32_A Probable threonyl-tRNA synthetase 1; aeropyrum pernix K1, protein biosynthesis, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; 2.30A {Aeropyrum pernix} PDB: 3a31_A Length = 471 Score = 57.2 bits (137), Expect = 7e-09 Identities = 32/194 (16%), Positives = 62/194 (31%), Gaps = 16/194 (8%) Query: 139 REHFEIGEALGLMDF-DRATKLSGARFSVLTG--------HLAHLERALGQFMIDLHTSE 189 + H + L + D + F+ TG + AL + + H Sbjct: 7 KTHIDYAYELDITVKPDSRVPVFNREFATFTGAGVPLFSLGGGPIRYALAEVLAKFHA-R 65 Query: 190 HGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGR---WLIPTSEVSLTNLYSHEIIE 246 GY V P++ E +G I + ++M+ + P + L+ +E+ + Sbjct: 66 RGYYVVETPIIASTELFKVSGHIEFYRNNMYLFDIEGHEFAVKPMNCPYHILLFLNEVAK 125 Query: 247 SKS---LPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERML 303 +S LP + R E + + Q +V R D + + Sbjct: 126 HRSKLPLPFKVFEFGRVHRYEPSGSIYGLLRVRGFTQDDAHIIVPGGRVIDVVYDVFEEM 185 Query: 304 SCAEEILKRLDLHY 317 E L +L + Sbjct: 186 KLVLERLFKLGVSS 199 >2zin_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, pyrrolysine, ATP analogue, non-natural amino acid, unnatural amino acid, ATP-binding; HET: ANP LBY; 1.79A {Methanosarcina mazei} PDB: 2e3c_A* 2zcd_A* 2zce_A* 2zio_A* 2q7e_A* 2q7g_A* 2q7h_A* 2zim_A* Length = 291 Score = 47.0 bits (111), Expect = 8e-06 Identities = 33/177 (18%), Positives = 61/177 (34%), Gaps = 20/177 (11%) Query: 170 HLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDE--AMYGTGQIPKFADDMFCTTDGRW 227 +L LER + +F +D G+ E+ +P+L+ E G + + +F Sbjct: 79 YLGKLEREITRFFVD-----RGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFC 133 Query: 228 LIPTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELV 287 L P +L N P++ + P +R E+ +F Sbjct: 134 LRPMLAPNLYNYLRKLDRALPD-PIKIFEIGPCYRKESDGKE-------HLEEFTMLNFC 185 Query: 288 SITREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACK-TYDLEVWLAG 343 + S E + S + L L + +++V G + DLE+ A Sbjct: 186 QM----GSGCTRENLESIITDFLNHLGIDFKIVGDSCMVYGDTLDVMHGDLELSSAV 238 >2i4l_A Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseudomonas palustris} PDB: 2i4m_A* 2i4n_A* 2i4o_A* Length = 458 Score = 43.3 bits (101), Expect = 1e-04 Identities = 33/188 (17%), Positives = 58/188 (30%), Gaps = 12/188 (6%) Query: 176 RALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTD--GRW--LIPT 231 + + Q + + G E+ P L + +G+ + +M D R PT Sbjct: 71 KKIEQIVREEQN-RAGAIELLMPTLQLADLWRESGRYDAYGPEMLRIADRHKRELLYGPT 129 Query: 232 SEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITR 291 +E +T ++ I KSLPL + FR E M + K Sbjct: 130 NEEMITEIFRAYIKSYKSLPLNLYHIQWKFRDEQRP---RFGVMRGREFLMKDAYSFDVD 186 Query: 292 EEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWLAGQNLYREIS 351 E + + +M R+ L + TG +G E + + + Sbjct: 187 EAGARKSYNKMFVAYLRTFARMGLKAIPMRAETGPIGGDLSH----EFIVLAETGESGVY 242 Query: 352 SCSTCGNF 359 N Sbjct: 243 IDRDVLNL 250 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 34.0 bits (77), Expect = 0.060 Identities = 29/127 (22%), Positives = 55/127 (43%), Gaps = 30/127 (23%) Query: 6 WIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIED-IRA----------RRNSN 54 W+ E L + ++ E Q+E++L E+ R + + E +RA +R+ Sbjct: 1263 WVENELEALKLEAEEIPSEDQNEFLL---ERTREIHNEAESQLRAAQQQWGNDFYKRDPR 1319 Query: 55 SAQIGQAIAEGNLSLVDAL--------------KNETSTLKEQLPILEKEE-HEVCSSLK 99 A + A+A L+ +D L KNE++T+ E + L + E + V + Sbjct: 1320 IAPLRGALATYGLT-IDDLGVASFHGTSTKANDKNESATINEMMKHLGRSEGNPVIGVFQ 1378 Query: 100 KLISCIP 106 K ++ P Sbjct: 1379 KFLTGHP 1385 >1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet, ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1 d.104.1.1 Length = 420 Score = 34.2 bits (77), Expect = 0.066 Identities = 29/177 (16%), Positives = 54/177 (30%), Gaps = 16/177 (9%) Query: 172 AHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGT--GQIPKFADDMFCTTD--GRW 227 + R + + +L T + Y E+ P+ + +M+ D R Sbjct: 16 SKKWRYIENQLDELMTF-YNYKEIRTPIFESTDLFARGVGDSTDVVQKEMYTFKDKGDRS 74 Query: 228 --LIPTSEVSLTNLY-SHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKC 284 L P ++ Y H++ + + P++ P FR E GR RQ + Sbjct: 75 ITLRPEGTAAVVRSYIEHKMQGNPNQPIKLYYNGPMFRYERKQKGR-----YRQFNQFGV 129 Query: 285 ELVSITREEDSFTEHERMLSCAEEILKRLDLHYRVVSLCTGDLGFSACKTYDLEVWL 341 E + + E + H ++V GD+ L Sbjct: 130 EAIGAENP---SVDAEVLAMVMHIYQSFGLKHLKLVINSVGDMASRKEYNEALVKHF 183 >3od1_A ATP phosphoribosyltransferase regulatory subunit; structural genomics, PSI-2, protein structure initiative; 1.97A {Bacillus halodurans} Length = 400 Score = 33.2 bits (75), Expect = 0.11 Identities = 21/142 (14%), Positives = 49/142 (34%), Gaps = 15/142 (10%) Query: 190 HGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTD--GRWLIPTSE--VSLTNLYSHEII 245 GY + P L E + I +F D G L+ + + L + + Sbjct: 41 WGYDMIETPTLEYYETVGVVSAI--LDQQLFKLLDQQGNTLVLRPDMTAPIARLVASSLK 98 Query: 246 ESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSITREEDSFTEHERMLSC 305 + ++ PLR + +R++ G + +F + V + + + + E + Sbjct: 99 D-RAYPLRLAYQSNVYRAQQNEGG-------KPAEFEQLG-VELIGDGTASADGEVIALM 149 Query: 306 AEEILKRLDLHYRVVSLCTGDL 327 + + ++V G + Sbjct: 150 IAALKRAGLSEFKVAIGHVGYV 171 >3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, alternative splicing, amyloid, amyloidosis, blood coagulation, coiled coil; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G* Length = 562 Score = 31.6 bits (70), Expect = 0.39 Identities = 9/70 (12%), Positives = 19/70 (27%), Gaps = 5/70 (7%) Query: 33 LDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSLVDALKNETSTLKEQLPILEKEEH 92 +DE N+ +I ++ + SL + + + Sbjct: 55 IDEVNQDFTNRINKLKNSLFEYQKNNKDS-----HSLTTNIMEILRGDFSSANNRDNTYN 109 Query: 93 EVCSSLKKLI 102 V L+ I Sbjct: 110 RVSEDLRSRI 119 >1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos taurus} SCOP: i.9.1.1 Length = 390 Score = 31.4 bits (70), Expect = 0.40 Identities = 7/69 (10%), Positives = 27/69 (39%), Gaps = 1/69 (1%) Query: 33 LDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSLVDALKNETSTLKEQLPILEKEEH 92 +DE ++ +I +R + + ++V+ ++ + + ++ Sbjct: 58 IDEVDQDFTSRINKLRDSLFNYQKNSKDSNTL-TKNIVELMRGDFAKANNNDNTFKQINE 116 Query: 93 EVCSSLKKL 101 ++ S ++ L Sbjct: 117 DLRSRIEIL 125 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 30.7 bits (68), Expect = 0.65 Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 9/36 (25%) Query: 175 ER-ALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGT 209 E+ AL + L S Y + SAP L A+ T Sbjct: 18 EKQALKK----LQASLKLYADDSAPAL----AIKAT 45 >2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A Length = 117 Score = 29.8 bits (67), Expect = 1.2 Identities = 12/92 (13%), Positives = 38/92 (41%), Gaps = 8/92 (8%) Query: 15 DIALKKRHLEPQ-SEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSL---V 70 + +K+ ++ + +E +LDE + +D + + + + L + Sbjct: 24 LVVQQKQKVQLELTEAKKALDE----IESLPDDAVVYKTVGTLIVKTTKDKAVAELKEKI 79 Query: 71 DALKNETSTLKEQLPILEKEEHEVCSSLKKLI 102 + L+ + L+ Q L ++ E+ + ++ + Sbjct: 80 ETLEVRLNALERQEKKLNEKLKELTAQIQSAL 111 >2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis S2} Length = 701 Score = 30.0 bits (67), Expect = 1.2 Identities = 22/144 (15%), Positives = 44/144 (30%), Gaps = 10/144 (6%) Query: 170 HLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIPKFADDMFCTTDGRWLI 229 H L++ L + + E+S L + E + + + Sbjct: 143 HKESLQKILHGYKKGTLDGDDLVLEISNALEISSEMGLKILEDVFPEFKDLTAVSSKLTL 202 Query: 230 PTSEVSLTNLYSHEIIESKSLPLRFTTLAPSFRSEAGSAGRDTRGMLRQHQFWKCELVSI 289 + S L +++ K LP + ++ FR E D ++ H I Sbjct: 203 RSHMTSGWFLTVSDLMNKKPLPFKLFSIDRCFRREQKE---DKSHLMTYHS---ASCA-I 255 Query: 290 TREEDSFTEHERMLSCAEEILKRL 313 E + + AE +L + Sbjct: 256 AGEGVDIND---GKAIAEGLLSQF 276 >2ffc_A Orotidine 5-monophosphate decarboxylase; PV-PF10_0225, SGC, structural genomics, structural genomics consortium, lyase; HET: U5P; 1.70A {Plasmodium vivax} SCOP: c.1.2.3 PDB: 2guu_A* Length = 353 Score = 29.1 bits (64), Expect = 2.1 Identities = 5/78 (6%), Positives = 17/78 (21%) Query: 33 LDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSLVDALKNETSTLKEQLPILEKEEH 92 L + + + + +++ K K Sbjct: 85 LFAPQMGGQMLLAETPPKEAQEKDEFFYFFNHFCFYIINETKEYALAYKMNFAFYLPYGS 144 Query: 93 EVCSSLKKLISCIPNVPL 110 LK + + ++ + Sbjct: 145 LGVDVLKNVFDYLHHLNV 162 >1g8l_A Molybdopterin biosynthesis MOEA protein; molybdenum cofactor biosynthesis, metal binding protein; 1.95A {Escherichia coli} SCOP: b.85.6.1 b.103.1.1 c.57.1.2 PDB: 1fc5_A 1g8r_A 2nqu_A 2nro_A 2nqq_A 2nqk_A 2nqr_A 2nqm_A 2nqs_A 2nrp_A 2nqv_A 2nrs_A 2nqn_A Length = 411 Score = 28.9 bits (64), Expect = 2.2 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 7/55 (12%) Query: 12 EHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNS----NSAQIGQAI 62 L+ L + E + + RIL D+ + + NSA G A+ Sbjct: 12 TALNEMLSRVTPLTAQETLPLVQCFGRIL---ASDVVSPLDVPGFDNSAMDGYAV 63 >3fl7_A Ephrin receptor; ATP-binding, kinase, nucleotide-binding, signal, transferase, phosphorylation, transmembrane, tyrosine- protein kinase; HET: NAG; 2.50A {Homo sapiens} Length = 536 Score = 28.5 bits (63), Expect = 2.8 Identities = 7/15 (46%), Positives = 9/15 (60%) Query: 219 MFCTTDGRWLIPTSE 233 M C DG WL+P + Sbjct: 250 MHCAVDGEWLVPIGQ 264 >1pii_A N-(5'phosphoribosyl)anthranilate isomerase; bifunctional(isomerase and synthase); 2.00A {Escherichia coli} SCOP: c.1.2.4 c.1.2.4 PDB: 1jcm_P* Length = 452 Score = 27.9 bits (62), Expect = 4.9 Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 1/40 (2%) Query: 37 NRILIKKIEDIRARRNSNS-AQIGQAIAEGNLSLVDALKN 75 +I+ K + AR+ A + DAL+ Sbjct: 6 AKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQG 45 >1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A Length = 491 Score = 27.8 bits (61), Expect = 5.2 Identities = 10/71 (14%), Positives = 32/71 (45%), Gaps = 5/71 (7%) Query: 32 SLDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSLVDALKNETSTLKEQLPILEKEE 91 +D+ ++ ++I++IR + + + + + ++ LK ++ L++ Sbjct: 55 IIDDTDQNYSQRIDNIRQQLADSQNKYKTSNRV-IVETINILKPGLEGAQQ----LDENY 109 Query: 92 HEVCSSLKKLI 102 V + L++ I Sbjct: 110 GHVSTELRRRI 120 >3e99_A Benzoate 1,2-dioxygenase beta subunit; YP_105014.1, the beta subunit of benzoate 1,2-dioxygenase, structural genomics; 1.90A {Burkholderia mallei atcc 23344} SCOP: d.17.4.4 Length = 164 Score = 27.5 bits (60), Expect = 6.2 Identities = 11/92 (11%), Positives = 22/92 (23%), Gaps = 3/92 (3%) Query: 154 DRATKLSGARFSVLTGHLAHLERALGQFMIDLHTSEHGYTEVSAPLLVRDEAMYGTGQIP 213 DR ++ R S + +T + Sbjct: 71 DRVFRIKTERSSATVPDTRT--SHNIANVERESADGDVHTVRFNWHTLSYRYK-TVSSYF 127 Query: 214 KFADDMFCTTDGRWLIPTSEVSLTNLYSHEII 245 + + I + V L N Y +++I Sbjct: 128 GMSRYAIDFSGDAPKIVSKYVVLKNDYINQLI 159 >2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes} Length = 298 Score = 27.3 bits (59), Expect = 6.8 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 20/83 (24%) Query: 78 STLKEQLPILEKEEHEVCSSLKKLISCIPNVPLEEVPIGTSANENILIRS------VGKK 131 T KE ++EKEE ++ L++++S + NE I+I + VGK Sbjct: 6 YTKKEWGVVMEKEELKILEELRRILS--------------NKNEAIVILNNYFKGGVGKS 51 Query: 132 PSAIHLSREHFEIGEALGLMDFD 154 + + ++ + ++D D Sbjct: 52 KLSTMFAYLTDKLNLKVLMIDKD 74 >2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2 Length = 235 Score = 27.1 bits (60), Expect = 7.7 Identities = 11/82 (13%), Positives = 32/82 (39%), Gaps = 18/82 (21%) Query: 3 DIQWIRQNPEHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQAI 62 ++++ + E +DI L + E +++ + IE + + I Sbjct: 14 RLKFLDEGVEEIDIELARLRFES------AVE-----TLLDIESQ-------LEDLSERI 55 Query: 63 AEGNLSLVDALKNETSTLKEQL 84 ++ L L++ + + +E + Sbjct: 56 SDEELMLLNLISLKIEQRREAI 77 >1zww_A SH3-containing GRB2-like protein 2; coiled coil, transferase; 2.30A {Mus musculus} SCOP: a.238.1.1 PDB: 1x03_A 2d4c_A 1x04_A 2c08_A Length = 256 Score = 27.0 bits (59), Expect = 8.0 Identities = 15/91 (16%), Positives = 34/91 (37%) Query: 12 EHLDIALKKRHLEPQSEYILSLDEKNRILIKKIEDIRARRNSNSAQIGQAIAEGNLSLVD 71 + LD+ +K+ ++P + + +KK+E R + G+ E ++ Sbjct: 129 DSLDMEVKQNFIDPLQNLHDKDLREIQHHLKKLEGRRLDFGYKKKRQGKIPDEELRQALE 188 Query: 72 ALKNETSTLKEQLPILEKEEHEVCSSLKKLI 102 + + L + + E S L L+ Sbjct: 189 KFDESKEIAESSMFNLLEMDIEQVSQLSALV 219 >2h5g_A Delta 1-pyrroline-5-carboxylate synthetase; dehydrogenase, structural genomics, structural genomics consortium, SGC, oxidoreductase; 2.25A {Homo sapiens} Length = 463 Score = 27.0 bits (59), Expect = 8.0 Identities = 7/48 (14%), Positives = 18/48 (37%), Gaps = 4/48 (8%) Query: 31 LSLDEKNRILIKKIEDIRARRNS----NSAQIGQAIAEGNLSLVDALK 74 L +++ I+ + + +R+ N + +A L+ L Sbjct: 48 LEPEQRAEIIHHLADLLTDQRDEILLANKKDLEEAEGRLAAPLLKRLS 95 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.318 0.134 0.390 Gapped Lambda K H 0.267 0.0499 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,684,080 Number of extensions: 170187 Number of successful extensions: 612 Number of sequences better than 10.0: 1 Number of HSP's gapped: 553 Number of HSP's successfully gapped: 54 Length of query: 430 Length of database: 5,693,230 Length adjustment: 95 Effective length of query: 335 Effective length of database: 3,390,050 Effective search space: 1135666750 Effective search space used: 1135666750 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: 58 (26.7 bits)