RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18158
(654 letters)
>1q79_A Poly(A) polymerase alpha; mRNA processing, nucleotidyl transferase,
transferase; HET: 3AT; 2.15A {Bos taurus} SCOP:
a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1q78_A* 1f5a_A*
Length = 514
Score = 554 bits (1428), Expect = 0.0
Identities = 320/528 (60%), Positives = 398/528 (75%), Gaps = 30/528 (5%)
Query: 12 TSKPHQDGKPQSQAPVTYGMTTALNLSPPNQLDLQRTRELAECLKPYNVSETDEELSSRM 71
T++ Q +P + YG+T+ ++L+ P + D T++L E LKP+ V E +EEL R+
Sbjct: 6 TTQGSQQTQPPQK---HYGITSPISLAAPKETDALLTQKLVETLKPFGVFEEEEELQRRI 62
Query: 72 EVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGADIDALCVAPR 131
+L KLNNLVKEWI+E+S +KN+P +V E VGGKI+TFGSYRLGVH KGADIDALCVAPR
Sbjct: 63 LILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPR 122
Query: 132 HVDRADYFSSFFEKLKTVDEVTDLRAVEEAFVPVIKMNFDGIEIDMLFARLALKEIPDDM 191
HVDR+D+F+SF++KLK +EV DLRAVEEAFVPVIK+ FDGIEID+LFARLAL+ IP+D+
Sbjct: 123 HVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDL 182
Query: 192 DLRDDMLLKNLDQKCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKHGIYSNVLG 251
DLRDD LLKNLD + +RSLNGCRVTDEIL LVPNI+NFRL LR IKLWAK+H IYSN+LG
Sbjct: 183 DLRDDSLLKNLDIRAIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILG 242
Query: 252 YLGGVSWAMLVARICQLYPNAAASTLVCKFFLVFSQWKWPQPVLLKKPDNVNLGFPVWDP 311
+LGGVSWAMLVAR CQLYPNA ASTLV KFFLVFS+W+WP PVLLK+P+ NL PVWDP
Sbjct: 243 FLGGVSWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDP 302
Query: 312 RVNVADRYHLMPIITPAYPQQNSTFNVSISTRTIMQEEFKQGKTISEDIYNGKTMWDKLF 371
RVN +DRYHLMPIITPAYPQQNST+NVS+STR +M EEFKQG I+++I K W KLF
Sbjct: 303 RVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLF 362
Query: 372 ETPNFFTKYRHYLVLIASSVSAEDQLEWCGLIESKVRHLIGNLERNPHINLAHVNPECYT 431
E PNFF KY+HY+VL+AS+ + + +LEW GL+ESK+R L+G+LE+N I LAHVNP+ +
Sbjct: 363 EAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFP 422
Query: 432 DTTGVIANGSGSPEITAEGKEEGGENTSPPVSGVASMWFIGLDF----IAANVILNLTYD 487
+P +MW IGL F + N+ ++LTYD
Sbjct: 423 APK-----------------------ENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYD 459
Query: 488 IQHFTNAVHWQATQSKMMKDGMKIEVRHVKKKQLSEYLPAHMLKKDKK 535
IQ FT+ V+ QA SKM + MKI HVK+KQL + LP+H+L+K KK
Sbjct: 460 IQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLPSHVLQKKKK 507
>2hhp_A Poly(A) polymerase; template-independent RNA polymerase,
transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae}
SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A*
2o1p_A 2q66_A*
Length = 530
Score = 519 bits (1338), Expect = e-179
Identities = 195/517 (37%), Positives = 296/517 (57%), Gaps = 20/517 (3%)
Query: 28 TYGMTTALNLSPPNQLDLQRTRELAECLKPYNVSETDEELSSRMEVLSKLNNLVKEWIKE 87
+G+T ++ + + L + LK ET++E ++R++VL L L + ++ E
Sbjct: 6 VFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQRFVYE 65
Query: 88 VSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGADIDALCVAPRHVDRADYFSSFFEKLK 147
VS KN+ +A GGKI+T+GSYRLGVH G+DID L V P+HV R D+F+ F L+
Sbjct: 66 VSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTREDFFTVFDSLLR 125
Query: 148 TVDEVTDLRAVEEAFVPVIKMNFDGIEIDMLFARLALKEIPDDMDLRDDMLLKNLDQKCV 207
E+ ++ V +AFVP+IK+ F GI ID++ ARL ++P + L D LL+NLD+K +
Sbjct: 126 ERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNLDEKDL 185
Query: 208 RSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKHGIYSNVLGYLGGVSWAMLVARICQ 267
R+LNG RVTDEIL LVP FR+ALR IKLWA++ +Y+N+ G+ GGV+WAMLVARICQ
Sbjct: 186 RALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVARICQ 245
Query: 268 LYPNAAASTLVCKFFLVFSQWKWPQPVLLKKPDNVNLGFPVWDPRVNVADRYHLMPIITP 327
LYPNA ++ ++ +FF++ S+W WPQPV+LK ++ L VW+P++ DR H MP+ITP
Sbjct: 246 LYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITP 305
Query: 328 AYPQQNSTFNVSISTRTIMQEEFKQGKTISEDIYNGKTMWDKLFETPNFFTKYRHYLVLI 387
AYP +T N++ ST+ ++ +EF +G I+ DI++ K W LFE +FF +Y+ YL +
Sbjct: 306 AYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKKSWANLFEKNDFFFRYKFYLEIT 365
Query: 388 ASSVSAEDQ-LEWCGLIESKVRHLIGNLERNPHINLAHVNPECYTDT------------- 433
A + +++Q L+W GL+ESKVR L+ LE I +AH + + +
Sbjct: 366 AYTRGSDEQHLKWSGLVESKVRLLVMKLEVLAGIKIAHPFTKPFESSYCCPTEDDYEMIQ 425
Query: 434 --TGVIANGSGSPEITAEGKEEGGENTSPPVSGV-ASMWFIGLDFIAANVI--LNLTYDI 488
G + + E E + S +IGLDF N +++
Sbjct: 426 DKYGSHKTETALNALKLVTDENKEEESIKDAPKAYLSTMYIGLDFNIENKKEKVDIHIPC 485
Query: 489 QHFTNAVHWQATQSKMMKDGMKIEVRHVKKKQLSEYL 525
F N + + +R VK L + +
Sbjct: 486 TEFVNLCR-SFNEDYGDHKVFNLALRFVKGYDLPDEV 521
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc
knuckle protein, RNA surveillance binds to TRF4P/AIR2P
heterodimer; 2.70A {Saccharomyces cerevisiae}
Length = 323
Score = 71.3 bits (174), Expect = 1e-13
Identities = 50/313 (15%), Positives = 95/313 (30%), Gaps = 63/313 (20%)
Query: 49 RELAECLKPYNVSETDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYT 108
++ + P + EE+ R + +S + VK+ + ++
Sbjct: 26 KDFVAYISP-----SREEIEIRNQTISTIREAVKQLWPDA----------------DLHV 64
Query: 109 FGSYRLGVHHKGADIDALCVAPRHV-DRADYFSSFFEKLKTVDEVTDLRAVEEAFVPVIK 167
FGSY ++ G+DID + + + + S LK + T++ V +A VP+IK
Sbjct: 65 FGSYSTDLYLPGSDIDCVVTSELGGKESRNNLYSLASHLKKKNLATEVEVVAKARVPIIK 124
Query: 168 M--NFDGIEIDMLFARLALKEIPDDMDLRDDMLLKNLDQKCVRSLNGCRVTDEILRLVPN 225
GI I + NG I + +
Sbjct: 125 FVEPHSGIHIAV----------------------------SFERTNGIEAAKLIREWLDD 156
Query: 226 IENFRLALRTIKLWAKKHGIYSNVLGYLGGVSWAMLVARICQLYP---------NAAAST 276
R + +K + + + G LGG S LV ++P
Sbjct: 157 TPGLRELVLIVKQFLHARRLNNVHTGGLGGFSIICLVFSFLHMHPRIITNEIDPKDNLGV 216
Query: 277 LVCKFFLVFS-QWKWPQPVLLKKPDNVNLGFPVWDPRVNVADRYHLMPIITPAYPQQNST 335
L+ +FF ++ + + L + + I P N +
Sbjct: 217 LLIEFFELYGKNFGYDDVALGSSDGYPVYFPKSTWSAIQPIKNPFSLAIQDPGDESNNIS 276
Query: 336 FNVSISTRTIMQE 348
+ R I +
Sbjct: 277 RGSF-NIRDIKKA 288
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 65.5 bits (159), Expect = 5e-11
Identities = 85/569 (14%), Positives = 166/569 (29%), Gaps = 167/569 (29%)
Query: 23 SQAPVT--YG-MTTALNLSPP-----NQLDLQRTRELAECLKPYNVSETDEELSSRMEVL 74
S P+T +G + L + +QL Q + L E P D+E ++ E++
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPE---PTEGFAADDEPTTPAELV 61
Query: 75 SK--------------------LNNLVKE------WIKEV-SIAKNIPPTVAEKVGGKIY 107
K LN + E ++ ++A + +
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 108 TFGSYRLGVHHKGADIDALCVAPRHVDRADYFSSFFEKLKT------------------V 149
+Y I A +A R D+ S+ F +
Sbjct: 122 LIKNY----------ITARIMAKRPFDKK-SNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 150 DEVTDLRAVEEAFVPVIKMNFDGIEIDMLFARLALKEIPDDMDLRDDMLLKNLDQKCVRS 209
+E LR + + + ++ D I+ F+ L E+ + + + L+ +
Sbjct: 171 EE---LRDLYQTYHVLVG---DLIK----FSAETLSELIRTTLDAEKVFTQGLN---ILE 217
Query: 210 -LNGCRVT--DEILRLV----PNIENFRLA--LRTIKLWAKKHGIYSNVLGYLGGVSWAM 260
L T + L + P I +LA + T KL G + L G S +
Sbjct: 218 WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 261 LVARICQL------YPNAAASTLVCKFFLVF-SQWKWPQ----PVLLKKPDNVNLGFPVW 309
+ A + + + FF+ +P P +L+ N G P
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP-- 335
Query: 310 DPRVNVAD--RYHLMPII--TPAYPQQNSTFNVSISTRTIMQEEFKQGKTISEDIYNGKT 365
P +++++ + + + T ++ V IS + NG
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQ--VEIS------------------LVNGAK 375
Query: 366 MWDKLFETPNF----FTKYRHYLVLIASSVSAEDQLEWCGLIESKVRHLIGNLERNPHIN 421
N + + L L A GL +S++ ER +
Sbjct: 376 ---------NLVVSGPPQSLYGLNLTLRKAKAPS-----GLDQSRIPF----SERKLKFS 417
Query: 422 L------AHVNPECYTDTTGVIANGSGSPEITAEGKEEGGENTSPPVSGVASMWFIGLDF 475
+ + + +I ++ K+ PV G D
Sbjct: 418 NRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ-----IPVYDTFD----GSDL 468
Query: 476 --IAANVILNLTYDIQHFTNAVHWQATQS 502
++ ++ + I V W+ T
Sbjct: 469 RVLSGSISERIVDCI--IRLPVKWETTTQ 495
Score = 44.3 bits (104), Expect = 2e-04
Identities = 58/285 (20%), Positives = 93/285 (32%), Gaps = 90/285 (31%)
Query: 407 VRHLI---GNLE------RNPHINLAHVNPECYTDTTGVIANGSGSPEITAEGKEEGGEN 457
R L G+LE A E + PE T EG E
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFFI-ASQLQEQFNKIL---------PEPT-EGFAADDEP 54
Query: 458 TSPPVSGVASMWFIGLDFIAANV----------ILNLTYDIQHFT------NAVHWQATQ 501
T+P V F+G ++++ V +LNL + F N +H A
Sbjct: 55 TTP-AELVGK--FLG--YVSSLVEPSKVGQFDQVLNLC--LTEFENCYLEGNDIH--ALA 105
Query: 502 SKMMKDGMKIEVRHVKKKQLSEYLPAHMLKKDKKTKSGDQNTSAKKRKSDQALDELGDKS 561
+K++++ V+ K+ + Y+ A ++ K K KS+ AL +
Sbjct: 106 AKLLQENDTTLVK--TKELIKNYITARIMAKRPFDK-----------KSNSALFRAVGEG 152
Query: 562 RPRLDSDSNSLSDKVNNISNNGDQSSSEC--TEDNSLSQVYGLNDSVADSIDNSLDDLSS 619
+L ++ G Q +++ E L Q Y + V D I S + LS
Sbjct: 153 NAQL-------------VAIFGGQGNTDDYFEELRDLYQTY--HVLVGDLIKFSAETLSE 197
Query: 620 TSPHPTPPVKVLSDCFN---------------YLLLLKFSLKLVF 649
KV + N YLL + S L+
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Score = 37.7 bits (87), Expect = 0.014
Identities = 48/291 (16%), Positives = 77/291 (26%), Gaps = 107/291 (36%)
Query: 308 VWDPRVNVADRYHLMPI-------ITPAYPQQNSTFNVSISTRTIMQ-------EEFKQG 353
VW+ R AD H I P + + I + E G
Sbjct: 1645 VWN-R---ADN-HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG 1699
Query: 354 KTISEDIYNG------KTMW----DKLFET----PNFFT----KYR-------------- 381
K +E I+ + L T P +
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF 1759
Query: 382 --H----Y--LVLIASSVSAEDQLEWCGLIESKVRHLIGNLERNPHINLAHVNP--ECYT 431
H Y L +A +S E +E ++ R G + P E
Sbjct: 1760 AGHSLGEYAALASLADVMSIESLVE---VV--FYR---GMT-------MQVAVPRDELGR 1804
Query: 432 DTTGVIANGSGSPEITAEGKEEGGENTSPPVSGVASM--WFIGLDFIAANVILNL---TY 486
G+IA G + A +E + V V W + N N+ Y
Sbjct: 1805 SNYGMIAINPGR--VAASFSQEALQYV---VERVGKRTGWLVE----IVN--YNVENQQY 1853
Query: 487 -------DIQHFTNAVHWQATQSKMMKDGMKIEVRHVKKKQLSEYLPAHML 530
+ TN + +K KI++ ++K E + H+
Sbjct: 1854 VAAGDLRALDTVTNVL-------NFIKL-QKIDIIELQKSLSLEEVEGHLF 1896
>4e8f_A Poly(A) RNA polymerase protein CID1; beta polymerase-like
nucleotidyl transferase, terminal uridi transferase,
UTP, cytoplasmic; 2.60A {Schizosaccharomyces pombe
972h-} PDB: 4e7x_A* 4e80_A
Length = 405
Score = 61.4 bits (148), Expect = 3e-10
Identities = 39/255 (15%), Positives = 74/255 (29%), Gaps = 59/255 (23%)
Query: 21 PQSQAPVTYGMTTALNLSPPNQLDLQRTRELAE-----CLKPYN-VSETDEELSSRMEVL 74
P NL Q+ + C + YN + +D+E + L
Sbjct: 10 PGVHTVEEIEAEIHKNLHISKSCSYQKVPNSHKEFTKFCYEVYNEIKISDKEFKEKRAAL 69
Query: 75 SKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGADIDALCVAPRHVD 134
L +K + ++ FGS G+ K +D+D + V
Sbjct: 70 DTLRLCLKRISPDA----------------ELVAFGSLESGLALKNSDMDLCVLMDSRVQ 113
Query: 135 RADYFSSFFEKLKTVDEVTDLRAVEEAFVPVIKM-------NFDGIEIDMLFARLALKEI 187
F+E+L E + + ++ A +P+IK+ + D+
Sbjct: 114 SDTIALQFYEELIA--EGFEGKFLQRARIPIIKLTSDTKNGFGASFQCDI---------- 161
Query: 188 PDDMDLRDDMLLKNLDQKCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKHGIYS 247
+ T + + + +K WAK+ I S
Sbjct: 162 ------------------GFNNRLAIHNTLLLSSYTKLDARLKPMVLLVKHWAKRKQINS 203
Query: 248 NVLGYLGGVSWAMLV 262
G L + ++V
Sbjct: 204 PYFGTLSSYGYVLMV 218
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 59.5 bits (143), Expect = 3e-09
Identities = 64/478 (13%), Positives = 141/478 (29%), Gaps = 140/478 (29%)
Query: 27 VTYGMT----TALNLSPPNQLDLQRTRELAECLKPYNV-------SETDEELSSRMEVLS 75
+ G+ T + L +Q C + + + E + +E+L
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQ-------CKMDFKIFWLNLKNCNSPETV---LEMLQ 203
Query: 76 KL-NNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGADIDALCVAPRHVD 134
KL + W + NI + + ++ + ++ + L V +V
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRI-HSIQAELRRLLKSKP---YE----NCLLVL-LNVQ 254
Query: 135 RADYFSSFFEKLKTV-----DEVTDLRAVEEAFVPVIKMNFDGI---EIDMLFAR---LA 183
A +++F K + +VTD + + + + E+ L +
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314
Query: 184 LKEIPDDMDLRDDMLLKNLDQKCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKH 243
+++P ++ + L S+ + D + +N++ +
Sbjct: 315 PQDLPREVLTTNPRRL---------SIIAESIRDGLAT----WDNWK----HVNCDKLTT 357
Query: 244 GI---------------Y-------------SNVLGYLGGVSWAMLVARICQLYPNAAAS 275
I + + +L + W ++ + N
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI----WFDVIKSDVMVVVN---- 409
Query: 276 TLVCKFFLVFSQWKWP-------QPVLLKKPDN-------------VNLGFPVWDPRVNV 315
+ K+ LV Q K L K +N + F D
Sbjct: 410 -KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 316 ADRY-------HLMPIITPAYPQQNSTFNVSISTRTIMQE-EFKQGKTISEDIYNGKTMW 367
D+Y HL I +P++ + F R + + F + K I + T W
Sbjct: 469 LDQYFYSHIGHHLKNI---EHPERMTLF------RMVFLDFRFLEQK-----IRHDSTAW 514
Query: 368 DKLFETPNFFTKYRHYLVLIASSVSAEDQLEWCGLIESKVRHLIGNLERNPHINLAHV 425
+ N + + Y I + ++L I + + NL + + +L +
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLV--NAILDFLPKIEENLICSKYTDLLRI 570
Score = 49.1 bits (116), Expect = 4e-06
Identities = 62/495 (12%), Positives = 137/495 (27%), Gaps = 162/495 (32%)
Query: 37 LSPPNQLDLQRTRELAECLKPYNVSETDEELSSR-MEVLSKLNNLVKEWIKEVSIAKNIP 95
+ + + T L L EE+ + +E + ++N +++ +
Sbjct: 55 IMSKD--AVSGTLRLFWTLLSKQ-----EEMVQKFVEEVLRIN---YKFLMSPIKTEQRQ 104
Query: 96 PTVAEKVGGKIYTFGSYRLGVHHKGADIDALCVAPRHVDRADYFSSFFEKL--------- 146
P++ + + R +++ D A +V R + + L
Sbjct: 105 PSMMTR------MYIEQRDRLYN-----DNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 147 ---------KTV--DEVTDLRAVEEAF------VPVIKMNFDGIEIDM---LFARL---- 182
KT +V V+ + + N ++M L ++
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213
Query: 183 --------ALKEIPDDMDLRDDMLLKN---------LD----QKCVRSLN-GCR------ 214
+K + LLK+ L K + N C+
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 215 ---VTDEI---LRLVPNIENFRLALRTIKLWAKKHGIYSNVLGYLGGVSWAMLVARICQL 268
VTD + ++++ + L + + L L +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTP----DEVKSLLLKYL----DCRPQDLPREVLTT 325
Query: 269 YPNAAA--STLVCKFFLVFSQWKWPQ----------------PVLLKK--------PDNV 302
P + + + + WK P +K P +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
Query: 303 NLGFP------VW------DPRVNVADRYHLMPIITPAYPQQNSTFNVSI-----STRTI 345
++ P +W D V V ++ H ++ +Q +SI +
Sbjct: 386 HI--PTILLSLIWFDVIKSDVMV-VVNKLHKYSLVE----KQPKESTISIPSIYLELKVK 438
Query: 346 MQEEFKQGKTISEDIYNGKTMWDKLFETPNFFTKY-RHYLV--LIASSVSAEDQ------ 396
++ E+ ++I + YN +D P + +Y ++ L
Sbjct: 439 LENEYALHRSIVDH-YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Query: 397 --LEWCGLIESKVRH 409
+ +E K+RH
Sbjct: 498 LDFRF---LEQKIRH 509
Score = 42.1 bits (98), Expect = 5e-04
Identities = 52/370 (14%), Positives = 105/370 (28%), Gaps = 138/370 (37%)
Query: 295 LLKKPDNVN-LGFPVW---DPRVNVADRYHLMPIITPAYPQQNSTFNVSISTRTIMQEEF 350
++ D V+ W + + ++ + ++ Y F + + ++ E
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKF-VEEVLRINYK-----F---LMSP--IKTEQ 102
Query: 351 KQGKTISEDIYNGKTMWDKLFETPNFFTKYRHYLVLIASSVSAEDQLEWCGLIESKVRHL 410
+Q ++ +Y + D+L+ F KY +VS K+R
Sbjct: 103 RQ-PSMMTRMYIEQR--DRLYNDNQVFAKY---------NVSRLQPYL-------KLRQA 143
Query: 411 IGNLERNPHINLAHVNPECYTDTTGVIANG-SGSPEITAEGKEEGGENTSPPVSGVASMW 469
+ L V+ +G GS GK T
Sbjct: 144 LLELRPAK----------------NVLIDGVLGS------GK------TW---------- 165
Query: 470 FIGLDFIAANVILNLTYDIQ-HFTNAVHWQATQSKMMKDGMKIEVRHVKK-KQLSEYLPA 527
+A +V L+ Y +Q + W + +++ + + E L
Sbjct: 166 ------VALDVCLS--YKVQCKMDFKIFW-------------LNLKNCNSPETVLEMLQK 204
Query: 528 HMLKKDKKTKSGDQNTSAKKRKSDQALDEL----GDKSRPR----LD--SDSN------- 570
+ + D S ++S K + EL K L ++
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 571 -----------SLSDKVNNISNN---GDQSSSECTEDNSLSQVYGLNDSVADSIDNSLDD 616
++D ++ + D S T D S + +D D
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-------LLKYLDCRPQD 317
Query: 617 LS----STSP 622
L +T+P
Sbjct: 318 LPREVLTTNP 327
>3hj4_A Minor editosome-associated tutase; nucleotidyltransferase, RNA
UTP-binding, transferase; 1.56A {Trypanosoma brucei}
PDB: 3hiy_A 3hj1_A*
Length = 384
Score = 58.2 bits (140), Expect = 4e-09
Identities = 28/211 (13%), Positives = 69/211 (32%), Gaps = 38/211 (18%)
Query: 63 TDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGAD 122
E E+ ++ ++ + + + FGS+ G +D
Sbjct: 21 PPEHSVVIHELQKRVLDIGMLAVNKA----------------HVELFGSHVSGFCTPHSD 64
Query: 123 IDALCVAPRHVDRADYFSSFFEKLKTVDEVTDLRAVEEAFVPVIKMNFDGIE-IDMLFAR 181
D + + R+ FS + + ++ VDE + R + + G+E + + AR
Sbjct: 65 AD-ISLTYRN------FSPWLQGMERVDEQNNKRMTRFGK----EASAMGMEDVRYIRAR 113
Query: 182 LALKEIPD-DMDLRDDMLLKNLDQKCVRSLNGCRVTDEILRLVPNIENFRLAL-RTIKLW 239
+ + + D + D+ + ++ G + + + +F A +K W
Sbjct: 114 IPVVQFTDGVTGIHCDV--------SIGNIGGVENSKILCAIRQVFPDFYGAYIHLVKAW 165
Query: 240 AKKHGIYSNVLGYLGGVSWAMLVARICQLYP 270
K + + + + + Q
Sbjct: 166 GKAREVIAPERSTFNSFTVTTMALMVLQELG 196
>4ep7_A Poly(A) RNA polymerase protein CID1; poly(U) polymerase, UTP
binding, transferase; HET: UTP; 2.28A
{Schizosaccharomyces pombe}
Length = 340
Score = 57.1 bits (137), Expect = 7e-09
Identities = 36/219 (16%), Positives = 70/219 (31%), Gaps = 54/219 (24%)
Query: 52 AECLKPYN-VSETDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFG 110
C + YN + +D+E + L L +K + ++ FG
Sbjct: 9 KFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRISPDA----------------ELVAFG 52
Query: 111 SYRLGVHHKGADIDALCVAPRHVDRADYFSSFFEKLKTVDEVTDLRAVEEAFVPVIKMNF 170
S G+ K +D+D + V F+E+L + E + + ++ A +P+IK+
Sbjct: 53 SLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEEL--IAEGFEGKFLQRARIPIIKLTS 110
Query: 171 D-------GIEIDMLFARLALKEIPDDMDLRDDMLLKNLDQKCVRSLNGCRVTDEILRLV 223
D + D+ + T +
Sbjct: 111 DTKNGFGASFQCDI----------------------------GFNNRLAIHNTLLLSSYT 142
Query: 224 PNIENFRLALRTIKLWAKKHGIYSNVLGYLGGVSWAMLV 262
+ + +K WAK+ I S G L + ++V
Sbjct: 143 KLDARLKPMVLLVKHWAKRKQINSPYFGTLSSYGYVLMV 181
>2ikf_A RNA uridylyl transferase; tutase, nucleotidyltransferase,
UTP-binding, RNA editing; HET: UTP; 2.00A {Trypanosoma
brucei} PDB: 2nom_A* 2q0c_A* 2q0d_A* 2q0e_A* 2q0f_A*
2q0g_A*
Length = 353
Score = 52.5 bits (125), Expect = 2e-07
Identities = 41/273 (15%), Positives = 83/273 (30%), Gaps = 36/273 (13%)
Query: 36 NLSPPNQLDLQRTRELAECLKPYNVSETDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIP 95
+ PP+ + R L K + D + + V +
Sbjct: 19 SHMPPSPAVV--GRSLVNSFKQF--VSKDLHTRHVDATYRLVLDCVAAVDPLM------- 67
Query: 96 PTVAEKVGGKIYTFGSYR-LGVHHKGADIDALCVAPRHVDRADYFSSFFEKLKTVDEVTD 154
++YTFGS GVH KG+D+D + + V+ + + K +
Sbjct: 68 ---------RLYTFGSTVVYGVHEKGSDVDFVVLNKTDVEDGKGGDAATQVAKG-LQADI 117
Query: 155 LRAVEEAFVPVIKMNFDGIEIDMLF-ARLALKEIPDDMDLRDDMLLKNLDQKCVRSLNGC 213
L + VI+ ++ + R+ + + + D+ NG
Sbjct: 118 LAKLAR----VIRQKHLSWNVEEVRRTRVPVVRVKGGGAVDFDI--------TAYRRNGV 165
Query: 214 RVTDEILRLVPNIENFRLALRTIKLWAKKHGIY-SNVLGYLGGVSWAMLVARICQLYPNA 272
R + + R +IK W+K+ G+ S + G + + ++V +
Sbjct: 166 RNSALLRAYFEQNPPCRWLSMSIKRWSKQTGLNASVIGGSITSYGFNLMVVYYLLQRNHL 225
Query: 273 AASTLVCKFFLVFSQWKWPQPVLLKKPDNVNLG 305
P+ + + LG
Sbjct: 226 QFVPPSTIDVSRVEPLPPHLPLEEPADEGLELG 258
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA
binding domain, poly(A polymerase, mitochondria,
transferase; 3.10A {Homo sapiens}
Length = 464
Score = 51.8 bits (123), Expect = 4e-07
Identities = 25/251 (9%), Positives = 60/251 (23%), Gaps = 74/251 (29%)
Query: 52 AECLKPYN-VSETDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFG 110
+ T+E R S + ++ + + + FG
Sbjct: 136 DQLNTLLKEFQLTEENTKLRYLTCSLIEDMAAAYFPDC----------------IVRPFG 179
Query: 111 SYRLGVHHKGADIDALCVAPRHVDRADYFSS---------------------FFEKL--- 146
S G D+D + + + S L
Sbjct: 180 SSVNTFGKLGCDLDMFLDLDETRNLSAHKISGNFLMEFQVKNVPSERIATQKILSVLGEC 239
Query: 147 --KTVDEVTDLRAVEEAFVPVIKM--NFDGIEIDMLFARLALKEIPDDMDLRDDMLLKNL 202
++ + A P+++ G + +
Sbjct: 240 LDHFGPGCVGVQKILNARCPLVRFSHQASGFQCAL------------------------- 274
Query: 203 DQKCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKHGIYSNVLG-YLGGVSWAML 261
+ ++ + R + +++ WA+ H + S++ G ++ S M+
Sbjct: 275 ---TTNNRIALTSSELLYIYGALDSRVRALVFSVRCWARAHSLTSSIPGAWITNFSLTMM 331
Query: 262 VARICQLYPNA 272
V Q
Sbjct: 332 VIFFLQRRSPP 342
>2b4v_A RNA editing complex protein MP57; tbret2, TBMP57, terminal uridylyl
transferase, editosome, transferase/RNA binding protein
complex; 1.80A {Trypanosoma brucei} SCOP: a.160.1.4
d.218.1.10 PDB: 2b51_A* 2b56_A*
Length = 468
Score = 50.2 bits (119), Expect = 1e-06
Identities = 32/293 (10%), Positives = 70/293 (23%), Gaps = 58/293 (19%)
Query: 38 SPPNQLDLQRTRELAECLKPYNVSETDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPT 97
P +++ +RT +L +K Y L E + + L ++V+ A+ P +
Sbjct: 89 YPSHEVQAKRTDKLRTVIKRYVPHYLRNNLLGLTEARTPVVKLRFANDEKVARARYTPLS 148
Query: 98 VAEKV---------------GGKIYTFGSYRLGVHHKGADIDA----LCVAPRHVDRADY 138
E + + +G +D +A + +
Sbjct: 149 EEEDRKARTALLDVRNQCVGDNDVEYIAEKMGRDNVEGIRVDRTTYGCRIAIQCTSKEQM 208
Query: 139 FSSFFEKLKTVDEVTDLRAVEEAFVPVIKM--NFDGIEIDMLFARLALKEIPDDMDLRDD 196
+ +R V ++ D+ F +K
Sbjct: 209 IEAIGFFPDGKIMTRGMREDYTRDVLDVRFVPEMFMYRWDISFVGYGVKNSY-------- 260
Query: 197 MLLK---NLDQKCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWAKKHGIYSNVLGYL 253
L++ + R +K W K + + L
Sbjct: 261 -LIRHYLHNGPVAARHT----------------------AMAVKAWGKATNVGAGSGAML 297
Query: 254 GGVSWAMLVARICQLY-PNAAASTLVCKFFLVFSQWKWPQPVLLKKPDNVNLG 305
+ ++ + ++ P L D LG
Sbjct: 298 TSYAVTVMFIYYLLVTRQVLWVDPWSLPHPAHLPRYPDFSP--LYDCDPTELG 348
>2rff_A Putative nucleotidyltransferase; NP_343093.1,
nucleotidyltransferase domain, structural genomics; HET:
MSE; 1.40A {Sulfolobus solfataricus P2}
Length = 111
Score = 37.3 bits (86), Expect = 0.002
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 69 SRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGADIDALCV 128
S +E ++ L KE ++E +A + P ++Y FGS G + +DID L V
Sbjct: 7 SAIESQIRMLKLAKEIVEE--VASSFPNLE------EVYIFGSRARGDYLDTSDIDILFV 58
Query: 129 AP-----RHVDRADYFSSFFE 144
DR S F
Sbjct: 59 FKGIKEMNVFDRMYMVSRFIR 79
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.4 bits (78), Expect = 0.060
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 14/64 (21%)
Query: 497 WQATQSKMM--KDG----MKIEVRHVKKKQLSEYLPAHMLKKDKKTKSGDQNTSAKKRKS 550
W+ Q K + D M+ E R KK L E+ + + ++ K+ N R +
Sbjct: 90 WREEQRKRLQELDAASKVMEQEWREKAKKDLEEW---NQRQSEQVEKNKINN-----RIA 141
Query: 551 DQAL 554
D+A
Sbjct: 142 DKAF 145
>1no5_A Hypothetical protein HI0073; structural genomics, nucleotidyl
transferase structure 2 function project, S2F, unknown
function; 1.80A {Haemophilus influenzae} SCOP: d.218.1.5
Length = 114
Score = 32.5 bits (74), Expect = 0.13
Identities = 16/76 (21%), Positives = 28/76 (36%), Gaps = 8/76 (10%)
Query: 105 KIYTFGSYRLGVHHKGADIDALCVAPRHVDRADY--FSSFFEKL---KTVDEVTDLRAVE 159
++ FGS G K +D+D ++ +D F + VD + D
Sbjct: 29 TVWAFGSRVKGKAKKYSDLDLAIISEEPLDFLARDRLKEAFSESDLPWRVD-LLDWATTS 87
Query: 160 EAFVPVIKMNFDGIEI 175
E F +I+ + I
Sbjct: 88 EDFREIIRK--VYVVI 101
>1wot_A Putative minimal nucleotidyltransferase; alpha and beta, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Thermus thermophilus} SCOP:
d.218.1.5
Length = 98
Score = 30.8 bits (70), Expect = 0.33
Identities = 14/75 (18%), Positives = 25/75 (33%), Gaps = 7/75 (9%)
Query: 105 KIYTFGSYRLGVHHKGADIDALCVAPRHVDRADYFS--SFFEKL--KTVDEVTDLRAVEE 160
++ FGS G + +D+D L D+ E L VD + R +
Sbjct: 27 RVRVFGSVARGEAREDSDLDLLVAFEEGRTLLDHARLKLALEGLLGVRVD-IVSERGLAP 85
Query: 161 AFVPVIKMNFDGIEI 175
+ + I +
Sbjct: 86 RLREQVLR--EAIPL 98
>3ce7_A Specific mitochodrial acyl carrier protein; malaria, mitochondrial,
ACP, fatty acid biosynthesis, lipid synthesis,
phosphopantetheine; 1.64A {Toxoplasma}
Length = 107
Score = 30.4 bits (68), Expect = 0.48
Identities = 11/59 (18%), Positives = 27/59 (45%)
Query: 553 ALDELGDKSRPRLDSDSNSLSDKVNNISNNGDQSSSECTEDNSLSQVYGLNDSVADSID 611
+E + P +D+D N++++ + + Q + T + L ++ D + D +D
Sbjct: 1 GANETTKQESPVVDTDINAVTNYIVGMCQKFLQKGEKVTPSSKLEELRTREDRLWDCLD 59
>2jyc_A Uncharacterized protein C6ORF130; macro domain, A1PP domain,
BC011709, protein structure initiative, PSI-2; NMR {Homo
sapiens} PDB: 2lgr_A
Length = 160
Score = 29.6 bits (66), Expect = 1.8
Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 4/71 (5%)
Query: 215 VTDEILRLVPNIENFRLALRTIKLWAKKHGIYSNVLGYLG----GVSWAMLVARICQLYP 270
+T + P EN + +L +K K+G+ + +G + W + A I +++
Sbjct: 90 ITKKRASHKPTYENLQKSLEAMKSHCLKNGVTDLSMPRIGCGLDRLQWENVSAMIEEVFE 149
Query: 271 NAAASTLVCKF 281
V
Sbjct: 150 ATDIKITVYTL 160
>3ec6_A General stress protein 26; alpha-beta structure, structural
genomics of niaid; HET: FAD; 1.60A {Bacillus anthracis}
Length = 139
Score = 29.1 bits (65), Expect = 2.3
Identities = 9/49 (18%), Positives = 19/49 (38%)
Query: 405 SKVRHLIGNLERNPHINLAHVNPECYTDTTGVIANGSGSPEITAEGKEE 453
+ I ++E NP++++ D + G S E + K +
Sbjct: 47 DRQSKKITDIENNPNVHVLLGREGKKLDEDYIEVEGLASIEEDSTLKNK 95
>1tr0_A Stable protein 1; plant protein; 1.80A {Populus tremula} SCOP:
d.58.4.4 PDB: 1si9_A
Length = 108
Score = 28.3 bits (63), Expect = 2.6
Identities = 13/88 (14%), Positives = 30/88 (34%), Gaps = 5/88 (5%)
Query: 63 TDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGAD 122
T E++ + + + L +L+ +K + ++ AE G YT +
Sbjct: 22 TREQIDNYINDYTNLLDLIPS-MKSFNWGTDLGMESAELNRG--YTHAFE--STFESKSG 76
Query: 123 IDALCVAPRHVDRADYFSSFFEKLKTVD 150
+ + A+ F + +D
Sbjct: 77 LQEYLDSAALAAFAEGFLPTLSQRLVID 104
>3bjr_A Putative carboxylesterase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 2.09A {Lactobacillus plantarum WCFS1}
Length = 283
Score = 29.0 bits (65), Expect = 4.2
Identities = 20/108 (18%), Positives = 38/108 (35%), Gaps = 13/108 (12%)
Query: 232 ALRTIKLWAKKHGIYSNVLGYLGGVSWAMLVARICQLYPNAAASTLVCKFFLVFSQWKWP 291
A+ ++ A + I + G +VA + A+ L ++
Sbjct: 108 AVNLLRQHAAEWHIDPQQITPAGFSVGGHIVALYNDYWATRVATELNVTPAML------- 160
Query: 292 QPVLLKKPDNVNLGFPVWDPRVNVADRYHLMPIITPAYPQQNSTFNVS 339
KP+NV LG+PV P + + TP + + +V+
Sbjct: 161 ------KPNNVVLGYPVISPLLGFPKDDATLATWTPTPNELAADQHVN 202
>3bgu_A Ferredoxin-like protein of unknown function; ferredoxin-like fold,
stress responsive A/B barrel domain, S genomics; 1.50A
{Thermobifida fusca}
Length = 116
Score = 27.1 bits (60), Expect = 9.5
Identities = 13/88 (14%), Positives = 23/88 (26%), Gaps = 9/88 (10%)
Query: 63 TDEELSSRMEVLSKLNNLVKEWIKEVSIAKNIPPTVAEKVGGKIYTFGSYRLGVHHKGAD 122
T +++ + LSKL + E +K + ++ Y F
Sbjct: 35 TPDQVEQVITALSKLPAAIPE-LKNYAFGADLGLA------AGNYDFAVV--ADLDGEDG 85
Query: 123 IDALCVAPRHVDRADYFSSFFEKLKTVD 150
A P H + V
Sbjct: 86 FRAYQDHPDHRAALAIIAPMLADRVAVQ 113
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.133 0.394
Gapped
Lambda K H
0.267 0.0504 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,966,150
Number of extensions: 611553
Number of successful extensions: 1122
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1097
Number of HSP's successfully gapped: 29
Length of query: 654
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 554
Effective length of database: 3,909,693
Effective search space: 2165969922
Effective search space used: 2165969922
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.4 bits)