RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13846
(1423 letters)
>4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A
2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A
Length = 880
Score = 282 bits (724), Expect = 5e-80
Identities = 97/273 (35%), Positives = 143/273 (52%), Gaps = 31/273 (11%)
Query: 341 DNDVVLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEA 400
D DVVLFNRQPSLH++S+MAHR +VL TFR N VC PYNADFDGDEMN+H+PQ+EEA
Sbjct: 413 DGDVVLFNRQPSLHRISMMAHRVRVLKGLTFRLNLLVCPPYNADFDGDEMNLHVPQSEEA 472
Query: 401 RAEALPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNR 460
AE AK +M N++TPR G +I A QD+I+G YLLT K +
Sbjct: 473 IAE--------------AKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTK 518
Query: 461 AQTMRIASTLIADTSDICGIIKRFSWRSWNPV-VFVRTAVIWTGKQIFSLILKPNRDCPV 519
+ +I + + +TGKQ+ S L + +
Sbjct: 519 EEAQQILGV--------------ADVKIDLGEPAILAPREYYTGKQVVSAFLPKDFNFHG 564
Query: 520 NANLKTKGRAYTANEEFCHRDSYVILRNSELLAGSMDKSTLGSGGKANVFYILLRDFGED 579
AN+ + R E C DSYV+++N LL G DK +G+ ++ + L++++ ++
Sbjct: 565 QANVSSGPRLC--KNEDCPHDSYVVIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSDE 622
Query: 580 VAVTAMWRLSRMTSFYLMNRGFSIGIGDVTPGQ 612
M L R+ ++ +GF++ + DV+ G
Sbjct: 623 YGKWLMDNLFRVFIRFVELQGFTMRLEDVSLGD 655
Score = 205 bits (522), Expect = 2e-54
Identities = 66/257 (25%), Positives = 113/257 (43%), Gaps = 41/257 (15%)
Query: 90 EDRVQQQSHIQIVSKNLYCQDPQRTPIPHGLLDRRMGTNQKEANCTTCGQNLSDCVGHFG 149
D +++ S I++ ++Y D TPI ++D R+G + C TCG L +C GHFG
Sbjct: 16 PDEIRKMSVTAIITPDVY--DEDGTPIEGSVMDPRLGVIEPGQKCPTCGNTLGNCPGHFG 73
Query: 150 YIDLPLPVFHIGYFRCVINILQSICKNPTCARVLLGEEKAAGFRAKLRNPALSYLVRKSL 209
+I+L PV H+G+ + V L++ C+ C RV + E++ + +
Sbjct: 74 HIELVRPVIHVGFVKHVYEFLKATCRR--CGRVKISEDEIEKYSRIYNAIKKRWPSAARR 131
Query: 210 KK-KILETTKKVSVCPHCGEINGVVKKCGLLKISHEKYKNRTKKKDAIVEDLLAEYNEAV 268
+ +T K VCPHCGE +K E+ + K
Sbjct: 132 LTEYVKKTAMKAQVCPHCGEKQFKIKLEKPYNFYEERKEGVAK----------------- 174
Query: 269 KFNPEIEAHKKFGLIQTLNPLEVLQLFEAIPLEDIPLLLMNAELSKPSDLILTRLLVPPN 328
L P ++ + E +P D+ +L + S+P +ILT L VPP
Sbjct: 175 -----------------LTPSDIRERLEKVPESDVEILGYDPTTSRPEWMILTVLPVPPI 217
Query: 329 CIRPSVISD--LKSDND 343
IRPS++ + +++++D
Sbjct: 218 TIRPSIMIESGIRAEDD 234
Score = 132 bits (334), Expect = 2e-31
Identities = 36/58 (62%), Positives = 47/58 (81%)
Query: 613 GFVQNSFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCVQYDMS 670
GF+ +SF +GL PTE FFH GGREGLVDTAV+T+++GYMQRRL+ +L DL +YD +
Sbjct: 780 GFIYSSFRTGLKPTELFFHAAGGREGLVDTAVRTSQSGYMQRRLINALSDLRAEYDGT 837
Score = 62.6 bits (152), Expect = 7e-10
Identities = 18/50 (36%), Positives = 28/50 (56%)
Query: 20 QVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNRAQTMRIAS 69
+ +M N++TPR G +I A QD+I+G YLLT K + + +I
Sbjct: 477 KEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEEAQQILG 526
>4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C
4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C
Length = 395
Score = 268 bits (685), Expect = 7e-80
Identities = 118/404 (29%), Positives = 178/404 (44%), Gaps = 69/404 (17%)
Query: 1046 SENFVRDIKKFLEEFSKKESVTSHQDKVSQPLREQILSHQDKIGHGRESNPFPSACKA-- 1103
K +LEE K+ S K+ + L+ I + + +
Sbjct: 2 ENVIDEKDKSYLEEKVKQAS-NILPQKIVEDLKNLISNKEVLV--------TRDEIDKIF 52
Query: 1104 EACREKYVRAQIEPATAVGALAAQSIGEPGTQMTLKTFHFAG------------------ 1145
+ ++Y I P A+G +AAQS+GEPGTQMTL+TFHFAG
Sbjct: 53 DLAIKEYSEGLIAPGEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIVD 112
Query: 1146 --------------------------EVCEYIEEVFVPD--------DSFILIKLDMDRI 1171
EV +E + + + + I L +D
Sbjct: 113 AKKVPSTPMMTIYLTDEYKHDKEKALEVARKLEYTKIENVVSSTSIDIASMSIILQLDNE 172
Query: 1172 RLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSKMYQMKQLLPSVV 1231
L V +D ++ I R + + S + L + + + K + +
Sbjct: 173 MLKDKGVTVDDVKKAINRLKLGEFVIDESEGNTLNISFANIDSIAALFKLRDK--ILNTK 230
Query: 1232 IKGVQGINRAVIHEEDVEGVTKYKLLVEGDNLRDVMATYGVKGVKCSSNNTYEVYKTLGI 1291
IKG++GI RA++ ++ E Y +L +G NL V++ GV K +NN E+ + GI
Sbjct: 231 IKGIKGIKRAIVQKKGDE----YIILTDGSNLSGVLSVKGVDIAKVETNNIREIEEVFGI 286
Query: 1292 EAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLGITRHGLAKMKESVLNLAS 1351
EAAR I+ EI V+ G+ +D RH +LVAD+MT G V I RHG+ K SVL A+
Sbjct: 287 EAAREIIIREISKVLAEQGLDVDMRHILLVADVMTRTGVVRQIGRHGVTGEKNSVLARAA 346
Query: 1352 FENTSDHLFDAAFYGQTDCISGVSECIIMGLPMNVGTGLIKLLQ 1395
FE T HL DAA G + GV E II+G P+ +GTG+++L
Sbjct: 347 FEVTVKHLLDAAARGDVEEFKGVVENIIIGHPIKLGTGMVELTM 390
Score = 168 bits (426), Expect = 2e-45
Identities = 73/236 (30%), Positives = 117/236 (49%), Gaps = 12/236 (5%)
Query: 764 GVPRIKEIINASRNISTPIITAYLDKD--TDLDYARIVKGRLERTTLGEVCEYIEEVFVP 821
G+PR+ EI++A + STP++T YL + D + A V +LE T + V
Sbjct: 103 GLPRLIEIVDAKKVPSTPMMTIYLTDEYKHDKEKALEVARKLEYTKIENVVSSTS----I 158
Query: 822 DDSFILIKLDMDRIRLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFN 881
D + + I L +D L V +D ++ I R + + S + L + +
Sbjct: 159 DIASMSIILQLDNEMLKDKGVTVDDVKKAINRLKLGEFVIDESEGNTLNISFANIDSIAA 218
Query: 882 SKMYQMKQLLPSVVIKGVQGINRAVIHEEDVEGVTKYKLLVEGDNLRDVMATYGVKGVKC 941
+ K + + IKG++GI RA++ ++ E Y +L +G NL V++ GV K
Sbjct: 219 LFKLRDK--ILNTKIKGIKGIKRAIVQKKGDE----YIILTDGSNLSGVLSVKGVDIAKV 272
Query: 942 SSNNTYEVYKTLGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLG 997
+NN E+ + GIEAAR I+ EI V+ G+ +D RH +LVAD+MT G V
Sbjct: 273 ETNNIREIEEVFGIEAAREIIIREISKVLAEQGLDVDMRHILLVADVMTRTGVVRQ 328
Score = 55.9 bits (134), Expect = 5e-08
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 668 DMSFDAAFYGQTDCISGVSECIIMGLPMNVGTGLIKLLQ 706
DAA G + GV E II+G P+ +GTG+++L
Sbjct: 352 KHLLDAAARGDVEEFKGVVENIIIGHPIKLGTGMVELTM 390
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 275 bits (703), Expect = 5e-75
Identities = 106/479 (22%), Positives = 175/479 (36%), Gaps = 124/479 (25%)
Query: 1043 QDTSENFVRDIKKFLEEFSKKESVTSHQDKVSQ------------PLREQILSHQDKIGH 1090
+ ++ DI L E K ++ D++++ LR + + + +
Sbjct: 979 KKPTDLLPSDIINGLNELIAKLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKRVIMEY 1038
Query: 1091 GRESNPFPSACKAEACREKYVRAQIEPATAVGALAAQSIGEPGTQMTLKTFHFAG----- 1145
F ++ +A + P VG LAAQSIGEP TQMTL TFH+AG
Sbjct: 1039 RLNKVAFEWIMGE--VEARFQQAVVSPGEMVGTLAAQSIGEPATQMTLNTFHYAGVSSKN 1096
Query: 1146 ---------------------------------------EVCEYIE------------EV 1154
V IE
Sbjct: 1097 VTLGVPRLKEILNVAKNIKTPSLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSATEIH 1156
Query: 1155 FVPDDSFILIKLDMD------------------------------RIRLLHLEVDIDSIR 1184
+ PD +I+ D D R ++L ++ + +
Sbjct: 1157 YDPDPQDTVIEEDKDFVEAFFAIPDEEVEENLYKQSPWLLRLELDRAKMLDKKLSMSDVA 1216
Query: 1185 YCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSK---------------MYQMKQLLPS 1229
I + S + L + + + +L S
Sbjct: 1217 GKIAESFERDLFTIWSEDNADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGHMLES 1276
Query: 1230 VVIKGVQGINRAVIHEEDV---------EGVTKYKLLVEGDNLRDVMATYGVKGVKCSSN 1280
+ ++GV I R + E + E ++ L +G NL + M GV + SN
Sbjct: 1277 ISLRGVPNITRVYMMEHKIVRQIEDGTFERADEWVLETDGINLTEAMTVEGVDATRTYSN 1336
Query: 1281 NTYEVYKTLGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLGITRHGLA 1340
+ E+ + LGIEA RS ++ E++ V+E G +++RH L+ D+MTS+G ++ ITRHG+
Sbjct: 1337 SFVEILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLCDVMTSRGHLMAITRHGIN 1396
Query: 1341 KMKESVLNLASFENTSDHLFDAAFYGQTDCISGVSECIIMGLPMNVGTGLIKLLQAVPR 1399
+ + L SFE T + L DAA G+ D G+SE I++G +GTG +
Sbjct: 1397 RAETGALMRCSFEETVEILMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDM 1455
Score = 257 bits (658), Expect = 1e-69
Identities = 95/329 (28%), Positives = 155/329 (47%), Gaps = 61/329 (18%)
Query: 341 DNDVVLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEA 400
D DVV+FNRQPSLHK+S+M HR +V+P+ TFR N V +PYNADFDGDEMN+H+PQ+EE
Sbjct: 444 DGDVVIFNRQPSLHKMSMMGHRIRVMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSEET 503
Query: 401 RAEALPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNR 460
RAE + + +V+P++ + ++ QD + G + ++ F R
Sbjct: 504 RAE--------------IQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTR 549
Query: 461 AQTMRIASTLIADTSDICGIIKRFSWRSWNPVVFVRTAVIWTGKQIFSLILKPNRDCPVN 520
M I + D GI+ P V ++ V+WTGKQI SLI+ +
Sbjct: 550 NAVMNIMLWV----PDWDGIL--------PPPVILKPKVLWTGKQILSLIIPKGI-NLIR 596
Query: 521 ANLKTKGRAYTANEEFCHRDSYVILRNSELLAGSMDKSTLGSGGKANVFYILLRDFGEDV 580
+ K DS +++ N E++ G +DK T+G+ + + + ++ G ++
Sbjct: 597 DDDKQS--------LSNPTDSGMLIENGEIIYGVVDKKTVGASQG-GLVHTIWKEKGPEI 647
Query: 581 AVTAMWRLSRMTSFYLMNRGFSIGIGDVTPGQGFVQNSFFSGLTPTEFFFHTMGGREGLV 640
+ R+ +++L++ GFSIGIGD TM V
Sbjct: 648 CKGFFNGIQRVVNYWLLHNGFSIGIGDTIADA------------------DTMKEVTRTV 689
Query: 641 DTA-------VKTAETGYMQRRLVKSLED 662
A ++ A+ ++ +L +
Sbjct: 690 KEARRQVAECIQDAQHNRLKPEPGMTLRE 718
Score = 209 bits (532), Expect = 2e-54
Identities = 71/290 (24%), Positives = 123/290 (42%), Gaps = 56/290 (19%)
Query: 764 GVPRIKEIINASRNISTPIITAYLDKD--TDLDYARIVKGRLERTTLGEVCEYIEEVFVP 821
GVPR+KEI+N ++NI TP +T YL ++D A+ V+ ++E TTL V E + P
Sbjct: 1100 GVPRLKEILNVAKNIKTPSLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSATEIHYDP 1159
Query: 822 DDSFILIKLDM------------------------------DRIRLLHLEVDIDSIRYCI 851
D +I+ D DR ++L ++ + + I
Sbjct: 1160 DPQDTVIEEDKDFVEAFFAIPDEEVEENLYKQSPWLLRLELDRAKMLDKKLSMSDVAGKI 1219
Query: 852 ERTRGISGHLTVSGHSFLILKPKDSSKSFNSK---------------MYQMKQLLPSVVI 896
+ S + L + + + +L S+ +
Sbjct: 1220 AESFERDLFTIWSEDNADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGHMLESISL 1279
Query: 897 KGVQGINRAVIHEEDV---------EGVTKYKLLVEGDNLRDVMATYGVKGVKCSSNNTY 947
+GV I R + E + E ++ L +G NL + M GV + SN+
Sbjct: 1280 RGVPNITRVYMMEHKIVRQIEDGTFERADEWVLETDGINLTEAMTVEGVDATRTYSNSFV 1339
Query: 948 EVYKTLGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLG 997
E+ + LGIEA RS ++ E++ V+E G +++RH L+ D+MTS+G ++
Sbjct: 1340 EILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLCDVMTSRGHLMA 1389
Score = 202 bits (514), Expect = 2e-52
Identities = 68/258 (26%), Positives = 113/258 (43%), Gaps = 20/258 (7%)
Query: 90 EDRVQQQSHIQIVSKNLYCQDPQRTPIPHGLLDRRMGTNQKEANCTTCGQNLSDCVGHFG 149
+ ++ S +I + + P GLLD R+GT ++ C TCG+ ++DC GHFG
Sbjct: 26 PEEIRSMSVAKIEFPETMDESG-QRPRVGGLLDPRLGTIDRQFKCQTCGETMADCPGHFG 84
Query: 150 YIDLPLPVFHIGYFRCVINILQSICKNPTCARVLLGEEKAAGFRAKLRNPALSYLVRKSL 209
+I+L PVFHIG+ + IL+ +C N C ++ + N Y K+
Sbjct: 85 HIELAKPVFHIGFLSKIKKILECVCWN--CGKLKIDSSN------PKFNDTQRYRDPKNR 136
Query: 210 KKKILETTKKVSVCPHCGEINGVVKK--CGLLKISHEKYKNRTKKKDAIVEDLLAEYNEA 267
+ K VC + H + I +D L +
Sbjct: 137 LNAVWNVCKTKMVCDTGLSAGSDNFDLSNPSANMGHGGCGA---AQPTIRKDGLRLWGSW 193
Query: 268 VKFNPEIEAHKKFGLIQTLNPLEVLQLFEAIPLEDIPLLLMNAELSKPSDLILTRLLVPP 327
+ E + +K + L+PLEV +F I ED+ L +N + ++P +I+T L VPP
Sbjct: 194 KRGKDESDLPEK----RLLSPLEVHTIFTHISSEDLAHLGLNEQYARPDWMIITVLPVPP 249
Query: 328 NCIRPSVISD--LKSDND 343
+RPS+ D + ++D
Sbjct: 250 PSVRPSISVDGTSRGEDD 267
Score = 109 bits (273), Expect = 5e-24
Identities = 41/58 (70%), Positives = 51/58 (87%)
Query: 613 GFVQNSFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCVQYDMS 670
GF++NS+ GLTP EFFFH M GREGL+DTAVKTAETGY+QRRLVK++ED+ V+YD +
Sbjct: 804 GFIENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGT 861
Score = 68.2 bits (166), Expect = 2e-11
Identities = 13/72 (18%), Positives = 28/72 (38%)
Query: 13 YATRNCWQVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNRAQTMRIASTLI 72
TR Q + +V+P++ + ++ QD + G + ++ F R M I +
Sbjct: 501 EETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAVMNIMLWVP 560
Query: 73 AGRKVFFRGLIE 84
+ +I
Sbjct: 561 DWDGILPPPVIL 572
Score = 57.0 bits (137), Expect = 4e-08
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 668 DMSFDAAFYGQTDCISGVSECIIMGLPMNVGTGLIKLLQAVPR 710
++ DAA G+ D G+SE I++G +GTG +
Sbjct: 1413 EILMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDM 1455
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 266 bits (680), Expect = 3e-72
Identities = 105/512 (20%), Positives = 199/512 (38%), Gaps = 123/512 (24%)
Query: 1002 VELKRLLDDIIAKNSSRSDPSLSAQEILALSNETLDSKEFLQDTSENFVRDIKKFLEEFS 1061
V+ ++ L ++ + ++ + I+ + +T S+ ++DI +++
Sbjct: 937 VKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDH--TKPSDLTIKDIVLGVKDLQ 994
Query: 1062 KKESVTSHQDKVSQ------------PLREQILSHQDKIGHGRESNPFPSACKAEACREK 1109
+ V ++++ Q LR ++ + + + F +
Sbjct: 995 ENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVL--SNIEAQ 1052
Query: 1110 YVRAQIEPATAVGALAAQSIGEPGTQMTLKTFHFAG------------------------ 1145
++R+ + P VG LAAQSIGEP TQMTL TFHFAG
Sbjct: 1053 FLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMK 1112
Query: 1146 --------------------EVCEYIE------------EVFVPDDSFILIKLDMDRIR- 1172
+ IE + PD +I D + I+
Sbjct: 1113 TPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQL 1172
Query: 1173 -------------------LLHLEVDIDSIRYCIERTRGISGHLTVSGHSFL-------- 1205
LL LE+D ++ + + + + L
Sbjct: 1173 HFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSEDN 1232
Query: 1206 ---------ILKPKDSSKSFNSKMYQM-----KQLLPSVVIKGVQGINRAVIHEEDVEGV 1251
+++PK ++ M +L ++ ++GV+ I R V+ + D +
Sbjct: 1233 DEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKYDRKVP 1292
Query: 1252 T---------KYKLLVEGDNLRDVMATYGVKGVKCSSNNTYEVYKTLGIEAARSTIMTEI 1302
+ ++ L +G NL +VM G+ + +N+ ++ + LGIEA R+ + E+
Sbjct: 1293 SPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEV 1352
Query: 1303 KLVMENHGMSIDFRHPMLVADLMTSKGEVLGITRHGLAKMKESVLNLASFENTSDHLFDA 1362
V+ + G +++RH L+ D+MT++G + +TRHG + L SFE T + LF+A
Sbjct: 1353 YNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEA 1412
Query: 1363 AFYGQTDCISGVSECIIMGLPMNVGTGLIKLL 1394
+ D GVSE +I+G +GTG ++
Sbjct: 1413 GASAELDDCRGVSENVILGQMAPIGTGAFDVM 1444
Score = 262 bits (670), Expect = 5e-71
Identities = 90/329 (27%), Positives = 149/329 (45%), Gaps = 61/329 (18%)
Query: 341 DNDVVLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEA 400
DND VLFNRQPSLHK+S+MAHR KV+P+ TFR N V +PYNADFDGDEMN+H+PQ+EE
Sbjct: 438 DNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEET 497
Query: 401 RAEALPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNR 460
RAE L A +V+P++ + + QD + G LT ++ F
Sbjct: 498 RAE--------------LSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIEL 543
Query: 461 AQTMRIASTLIADTSDICGIIKRFSWRSWNPVVFVRTAVIWTGKQIFSLILKPNRDCPVN 520
Q + + + I ++ +W+GKQI S+ + ++
Sbjct: 544 DQVLNMLYWVPDWDGVI------------PTPAIIKPKPLWSGKQILSVAIPNG----IH 587
Query: 521 ANLKTKGRAYTANEEFCHRDSYVILRNSELLAGSMDKSTLGSGGKANVFYILLRDFGEDV 580
+G +D+ +++ + +++ G ++K T+GS + +++ R+ G V
Sbjct: 588 LQRFDEG-----TTLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNG-GLIHVVTREKGPQV 641
Query: 581 AVTAMWRLSRMTSFYLMNRGFSIGIGDVTPGQGFVQNSFFSGLTPTEFFFHTMGGREGLV 640
+ ++ +F+L++ GFS GIGD TM +
Sbjct: 642 CAKLFGNIQKVVNFWLLHNGFSTGIGDTIADG------------------PTMREITETI 683
Query: 641 DTA-------VKTAETGYMQRRLVKSLED 662
A K A+ + + +L +
Sbjct: 684 AEAKKKVLDVTKEAQANLLTAKHGMTLRE 712
Score = 203 bits (518), Expect = 7e-53
Identities = 67/287 (23%), Positives = 130/287 (45%), Gaps = 53/287 (18%)
Query: 764 GVPRIKEIINASRNISTPIITAYLDKD--TDLDYARIVKGRLERTTLGEVCEYIEEVFVP 821
GVPR+KEI+N ++N+ TP +T YL+ D + A++++ +E TTL V E + P
Sbjct: 1097 GVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDP 1156
Query: 822 DDSFILIKLDMDRIR--------------------LLHLEVDIDSIRYCIERTRGISGHL 861
D +I D + I+ LL LE+D ++ + +
Sbjct: 1157 DPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERI 1216
Query: 862 TVSGHSFL-----------------ILKPKDSSKSFNSKMYQM-----KQLLPSVVIKGV 899
+ + L +++PK ++ M +L ++ ++GV
Sbjct: 1217 KQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGV 1276
Query: 900 QGINRAVIHEEDVEGVT---------KYKLLVEGDNLRDVMATYGVKGVKCSSNNTYEVY 950
+ I R V+ + D + + ++ L +G NL +VM G+ + +N+ ++
Sbjct: 1277 ENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIM 1336
Query: 951 KTLGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLG 997
+ LGIEA R+ + E+ V+ + G +++RH L+ D+MT++G +
Sbjct: 1337 EVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTS 1383
Score = 198 bits (503), Expect = 5e-51
Identities = 63/256 (24%), Positives = 106/256 (41%), Gaps = 20/256 (7%)
Query: 90 EDRVQQQSHIQIVSKNLYCQDPQRTPIPHGLLDRRMGTNQKEANCTTCGQNLSDCVGHFG 149
+ V+ S +I + R GL D R+G+ + C TC + +++C GHFG
Sbjct: 24 PEEVRAISVAKIRFPETMDETQTR-AKIGGLNDPRLGSIDRNLKCQTCQEGMNECPGHFG 82
Query: 150 YIDLPLPVFHIGYFRCVINILQSICKNPTCARVLLGEEKAAGFRAKLRNPALSYLVRKSL 209
+IDL PVFH+G+ + + + +C + C ++LL E +L AL+ K
Sbjct: 83 HIDLAKPVFHVGFIAKIKKVCECVCMH--CGKLLLDEHN------ELMRQALAIKDSKKR 134
Query: 210 KKKILETTKKVSVCPHCGEINGVVKKCGLLKISHEKYKNRTKKKDAIVEDLLAEYNEAVK 269
I K VC + +S N L+ + +
Sbjct: 135 FAAIWTLCKTKMVCETDVPSEDDPTQ----LVSRGGCGNTQPTIRKDGLKLVGSWKKDRA 190
Query: 270 FNPEIEAHKKFGLIQTLNPLEVLQLFEAIPLEDIPLLLMNAELSKPSDLILTRLLVPPNC 329
E + L+ E+L +F+ I ++D L N S+P +ILT L VPP
Sbjct: 191 TGDADEPELRV-----LSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPP 245
Query: 330 IRPSVISD--LKSDND 343
+RPS+ + + ++D
Sbjct: 246 VRPSISFNESQRGEDD 261
Score = 110 bits (277), Expect = 2e-24
Identities = 44/58 (75%), Positives = 51/58 (87%)
Query: 613 GFVQNSFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCVQYDMS 670
GFV+NS+ GLTP EFFFH MGGREGL+DTAVKTAETGY+QRRLVK+LED+ V YD +
Sbjct: 798 GFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNT 855
Score = 66.7 bits (162), Expect = 6e-11
Identities = 15/72 (20%), Positives = 27/72 (37%)
Query: 13 YATRNCWQVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFNRAQTMRIASTLI 72
TR L A +V+P++ + + QD + G LT ++ F Q + + +
Sbjct: 495 EETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVP 554
Query: 73 AGRKVFFRGLIE 84
V I
Sbjct: 555 DWDGVIPTPAII 566
Score = 56.3 bits (135), Expect = 9e-08
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 668 DMSFDAAFYGQTDCISGVSECIIMGLPMNVGTGLIKLL 705
++ F+A + D GVSE +I+G +GTG ++
Sbjct: 1407 EILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVM 1444
>3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase
subunit A', DNA-directed...; transcription, fusion
protein, chimera protein, multiprotein; 3.30A
{Pyrococcus furiosus}
Length = 436
Score = 227 bits (581), Expect = 3e-65
Identities = 70/247 (28%), Positives = 110/247 (44%), Gaps = 33/247 (13%)
Query: 91 DRVQQQSHIQIVSKNLYCQDPQRTPIPHGLLDRRMGTNQKEANCTTCGQNLSDCVGHFGY 150
+++ S +++ + Y D PI G++D+RMG C TCG +C GHFG+
Sbjct: 80 QEIRKMSAVEVTVPDTY--DDDGYPIEGGVMDKRMGVIDPGLRCETCGGRAGECPGHFGH 137
Query: 151 IDLPLPVFHIGYFRCVINILQSICKNPTCARVLLGEEKAAGFRAKLRNPALSYLVRKSLK 210
I+L PV H+G+ + + IL+S C+ C R+ L +E+ + K+ +
Sbjct: 138 IELARPVIHVGFAKTIYRILESTCRE--CGRIKLTDEEIEEYMKKIELARNRRSEFNEII 195
Query: 211 KKILETTKKVSVCPHCGEINGVVKKCGLLKISHEKYKNRTKKKDAIVEDLLAEYNEAVKF 270
K+I + K+ VCPHCG +K I E K+ +
Sbjct: 196 KEIHKKAKERMVCPHCGAPQYPIKFEK-PTIYWEIRKDEQGNEY---------------- 238
Query: 271 NPEIEAHKKFGLIQTLNPLEVLQLFEAIPLEDIPLLLMNAELSKPSDLILTRLLVPPNCI 330
L P EV E IP +D+PLL ++ E S+P ++LT L VPP
Sbjct: 239 ------------RHRLMPTEVRDWLEKIPDKDLPLLGLDPEKSRPEWMVLTVLPVPPVTA 286
Query: 331 RPSVISD 337
RPS+ +
Sbjct: 287 RPSITLE 293
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB:
1i6v_D* 2gho_D
Length = 1265
Score = 98.5 bits (246), Expect = 9e-21
Identities = 40/109 (36%), Positives = 63/109 (57%), Gaps = 14/109 (12%)
Query: 345 VLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEARAEA 404
VL NR P+LH+L I A + ++ ++ + + VC +NADFDGD+M VH+P + A+AE
Sbjct: 440 VLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAE- 498
Query: 405 LPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 453
A++ M + NL++P +GE L ++D I G Y +TQ
Sbjct: 499 -------------ARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQ 534
Score = 58.8 bits (143), Expect = 1e-08
Identities = 20/40 (50%), Positives = 29/40 (72%)
Query: 618 SFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLV 657
SF GLT E+F + G R+G DTA++TA++GY+ R+LV
Sbjct: 801 SFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLV 840
Score = 58.1 bits (141), Expect = 2e-08
Identities = 17/24 (70%), Positives = 22/24 (91%)
Query: 1119 TAVGALAAQSIGEPGTQMTLKTFH 1142
AVG +AA+SIGEPGTQ+T++TFH
Sbjct: 960 EAVGVVAAESIGEPGTQLTMRTFH 983
Score = 43.0 bits (102), Expect = 8e-04
Identities = 23/65 (35%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 1326 TSKGEVLGITRHGLAKMKESVLNLASFENTSDHLFDAAFYGQTDCISGVSECIIMGLPMN 1385
K ++G+T+ L+ +S L+ ASF+NT+ L +AA G+ D + G+ E +I+G +
Sbjct: 1157 AWKPLLMGVTKSALST--KSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIP 1214
Query: 1386 VGTGL 1390
GTG
Sbjct: 1215 AGTGS 1219
Score = 33.8 bits (78), Expect = 0.47
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 20 QVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 54
++ M + NL++P +GE L ++D I G Y +TQ
Sbjct: 500 RIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQ 534
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 98.3 bits (245), Expect = 1e-20
Identities = 40/109 (36%), Positives = 63/109 (57%), Gaps = 14/109 (12%)
Query: 345 VLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEARAEA 404
VL NR P+LH+L I A + ++ ++ + + VC +NADFDGD+M VH+P + A+AE
Sbjct: 700 VLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAE- 758
Query: 405 LPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 453
A++ M + NL++P +GE L ++D I G Y +TQ
Sbjct: 759 -------------ARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQ 794
Score = 58.6 bits (142), Expect = 1e-08
Identities = 19/31 (61%), Positives = 24/31 (77%)
Query: 1115 IEPATAVGALAAQSIGEPGTQMTLKTFHFAG 1145
+ AVG +AAQSIGEPGTQ+T++TFH G
Sbjct: 1215 VSIGEAVGIVAAQSIGEPGTQLTMRTFHTGG 1245
Score = 58.6 bits (142), Expect = 2e-08
Identities = 20/40 (50%), Positives = 29/40 (72%)
Query: 618 SFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLV 657
SF GLT E+F + G R+G DTA++TA++GY+ R+LV
Sbjct: 1060 SFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLV 1099
Score = 44.4 bits (105), Expect = 3e-04
Identities = 23/65 (35%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 1326 TSKGEVLGITRHGLAKMKESVLNLASFENTSDHLFDAAFYGQTDCISGVSECIIMGLPMN 1385
K ++G+T+ L+ +S L+ ASF+NT+ L +AA G+ D + G+ E +I+G +
Sbjct: 1416 AWKPLLMGVTKSALST--KSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIP 1473
Query: 1386 VGTGL 1390
GTG
Sbjct: 1474 AGTGS 1478
Score = 34.0 bits (78), Expect = 0.49
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 21 VLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 54
+ M + NL++P +GE L ++D I G Y +TQ
Sbjct: 761 IQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQ 794
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 91.2 bits (227), Expect = 2e-18
Identities = 42/109 (38%), Positives = 63/109 (57%), Gaps = 14/109 (12%)
Query: 345 VLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEARAEA 404
VL NR P+LH+L I A ++ + + + VC YNADFDGD+M VH+P T EA+ E
Sbjct: 421 VLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLE- 479
Query: 405 LPSLHKLSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 453
A+ LM + +N+++P NGE +I +QD + G Y +T+
Sbjct: 480 -------------ARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTR 515
Score = 60.0 bits (146), Expect = 6e-09
Identities = 24/48 (50%), Positives = 32/48 (66%)
Query: 618 SFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCV 665
+F GL ++F T G R+GL DTA+KTA +GY+ RRLV +DL V
Sbjct: 762 NFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVV 809
Score = 58.1 bits (141), Expect = 2e-08
Identities = 20/39 (51%), Positives = 25/39 (64%)
Query: 1115 IEPATAVGALAAQSIGEPGTQMTLKTFHFAGEVCEYIEE 1153
I A+G +AAQSIGEPGTQ+T++TFH G E
Sbjct: 909 INKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAE 947
Score = 42.3 bits (100), Expect = 0.001
Identities = 25/66 (37%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 1325 MTSKGEVLGITRHGLAKMKESVLNLASFENTSDHLFDAAFYGQTDCISGVSECIIMGLPM 1384
T ++LGIT+ LA ES ++ ASF+ T+ L +AA G+ D + G+ E +I+G +
Sbjct: 1300 ATYSRDLLGITKASLAT--ESFISAASFQETTRVLTEAAVAGKRDELRGLKENVIVGRLI 1357
Query: 1385 NVGTGL 1390
GTG
Sbjct: 1358 PAGTGY 1363
Score = 31.5 bits (72), Expect = 2.8
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 20 QVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQ 54
+ LM + +N+++P NGE +I +QD + G Y +T+
Sbjct: 481 RALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTR 515
>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 = 68.3 bits (166), Expect = 2e-11
Identities = 103/689 (14%), Positives = 191/689 (27%), Gaps = 214/689 (31%)
Query: 768 IKEIINASRNI-STPIITAYLDKDTDLDYARIVKGRLERTTLGEVCEYIEEVFVPDDSFI 826
K++ + ++I S I + + + L V +++EEV + F+
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94
Query: 827 LIKLDMDRIRLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSKMYQ 886
M I+ + + + Y +R R L F K +
Sbjct: 95 -----MSPIKTEQRQPSMMTRMYIEQRDR-----LYNDNQVF----AKYN---------- 130
Query: 887 MKQLLPSVVIKGVQGINRAVIHEEDVEGVTKYKLLVEGDNLRDV--MATYGVKGVKCSSN 944
++R + + + LL LR + GV G
Sbjct: 131 ---------------VSR----LQPYLKLRQ-ALL----ELRPAKNVLIDGVLG--SG-- 162
Query: 945 NTYEVYKT-LGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLGNGTPVE 1003
KT + ++ S +++ M+ ++ ++ S VL
Sbjct: 163 ------KTWVALDVCLS---YKVQCKMDFKIFWLNLKN-------CNSPETVLEM----- 201
Query: 1004 LKRLLDDIIAKNSSRSDPS----LSAQEILALSNETLDSKEF------LQDTSENFVRD- 1052
L++LL I +SRSD S L I A L SK + L + V++
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-----VQNA 256
Query: 1053 --IKKFLEEFSKKESVTSHQDKVSQPLREQILSHQDKIGHGRESNPFPSACKAEACREKY 1110
F S K +T+ +V+ L +H I S + ++ KY
Sbjct: 257 KAWNAF--NLSCKILLTTRFKQVTDFLSAATTTH---ISLDHHSMTLTPD-EVKSLLLKY 310
Query: 1111 V--RAQIEP--ATAVGALAAQSIGEPGTQMTLKTFHFAGEVCEYIEEVFVPDDSFILIKL 1166
+ R Q P I E I+
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAE-------------------------------SIRD 339
Query: 1167 DMDRI-RLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSKMYQMKQ 1225
+ H V+ D + IE S +L+P + KM+
Sbjct: 340 GLATWDNWKH--VNCDKLTTIIES-------------SLNVLEPAE-----YRKMFDRLS 379
Query: 1226 LLPSVVIKGVQGINRAVI-------HEEDVEGVTKY---KLLVEGDNLRDVMATYGVKGV 1275
+ P I ++ + DV V LVE T + +
Sbjct: 380 VFP----PSAH-IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES---TISIPSI 431
Query: 1276 ----KCSSNNTYEVYKTLGIEAARSTIMTEIKLVMENHGMSID------FRHPMLVADLM 1325
K N Y +++++ ++ I ++ + + H
Sbjct: 432 YLELKVKLENEYALHRSI-VDHYN------IPKTFDSDDLIPPYLDQYFYSH-------- 476
Query: 1326 TSKGEVLGITRHGLAKMKESVLNLASFENTSDHLFDAAFYGQTDCISGVSECIIMGLPMN 1385
I H L ++ + F D F Q + + +N
Sbjct: 477 --------IGHH-LKNIEHP-ERMTLFRMV---FLDFRFLEQKIRHDSTAWNASGSI-LN 522
Query: 1386 VGTGLIKLLQAVPRSEPVPRTLLFDNPEF 1414
L + ++P L+ +F
Sbjct: 523 TLQQLKFYKPYICDNDPKYERLVNAILDF 551
Score = 66.8 bits (162), Expect = 4e-11
Identities = 89/576 (15%), Positives = 172/576 (29%), Gaps = 164/576 (28%)
Query: 1 MKNSVIGTLTLYYATRNCWQVLMANKSNLVTPRNGELLIAATQDFITGGYLLTQKNAFFN 60
K++V GTL L+ W L++ + +V E+L ++ +L++
Sbjct: 57 SKDAVSGTLRLF------W-TLLSKQEEMVQKFVEEVL---RINY---KFLMSPIKTEQR 103
Query: 61 RAQTMRIASTLIAGRKVFFRG---LIEGTVTKEDRVQQQSHIQIVSKNLYCQDPQRTPIP 117
Q + I R + + V++ + + + L P + +
Sbjct: 104 --QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK------LRQALLELRPAKNVLI 155
Query: 118 HGLLDRRMGTNQKEANCTTC--GQNLSDCVGHFGYID-LPLPVF--HIGYFRC---VINI 169
G + + K T + + +F ++ V+ +
Sbjct: 156 DG-----VLGSGK-----TWVALDVCLS----YKVQCKMDFKIFWLNLKNCNSPETVLEM 201
Query: 170 LQSICKN---PTCARV-------LLGEEKAAGFRAKLRNPAL--SYLV------RKSLKK 211
LQ + +R L A R L++ LV K+
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261
Query: 212 -----KILETTKKVSVCPHCGEINGV-VKKCGLLKISHEKYKNRTKKKDAIVEDLLAEY- 264
KIL TT+ V + + + + H T + V+ LL +Y
Sbjct: 262 FNLSCKILLTTRFKQV------TDFLSAATTTHISLDHHS-MTLTPDE---VKSLLLKYL 311
Query: 265 --------NEAVKFNP---------------------EIEAHKKFGLIQT----LNPLEV 291
E + NP + K +I++ L P E
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY 371
Query: 292 LQLFE--AIPLED--IPL----LLMNAELSKPSDLILTRL----LV----PPNCIR-PSV 334
++F+ ++ IP L+ + +++ +L LV + I PS+
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 335 ISDLKSDNDVVLFNRQPSLHKLSIMAHRAKVLPHRTFRFNECVCTP---YNADFDGDEMN 391
+LK + + +LH+ SI+ H +TF ++ + Y G
Sbjct: 432 YLELKVKLE-----NEYALHR-SIVDHYN---IPKTFDSDDLIPPYLDQYFYSHIGH--- 479
Query: 392 VHLPQTEEA-RAEALPSLH-KLSIMAHRAKVLMANKSNLVTPRNGELLIAAT-QDFIT-G 447
HL E R + + K+ + T N I T Q
Sbjct: 480 -HLKNIEHPERMTLFRMVFLDFRFL--EQKIRHDS-----TAWNASGSILNTLQQLKFYK 531
Query: 448 GYLLTQKNAFFNRAQT-----MRIASTLI-ADTSDI 477
Y+ + +I LI + +D+
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Score = 66.4 bits (161), Expect = 5e-11
Identities = 110/696 (15%), Positives = 200/696 (28%), Gaps = 218/696 (31%)
Query: 786 YLDKDT---DLDYARIVKGRLERTTLGEVCEYIEEVFVPDDSFILIKLDMDRIRLLHLEV 842
++D +T Y I+ E+ FV + + DM + L E+
Sbjct: 6 HMDFETGEHQYQYKDIL-------------SVFEDAFVDNFDCKDV-QDMPKSILSKEEI 51
Query: 843 D-IDSIRYCIERTRGISGHLTVSG---------------HSFLI--LKPKDSSKSFNSKM 884
D I + + T + L + FL+ +K + S ++M
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 885 Y--QMKQLL--PSVVIKGVQGINRAVIHEEDVEGVTKYKLLVEGDNLRDV--MATYGVKG 938
Y Q +L V K ++R + + + LL LR + GV G
Sbjct: 112 YIEQRDRLYNDNQVFAKY--NVSR----LQPYLKLRQ-ALL----ELRPAKNVLIDGVLG 160
Query: 939 VKCSSNNTYEVYKT-LGIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLG 997
KT + ++ S +++ M+ ++ ++ S VL
Sbjct: 161 --SG--------KTWVALDVCLSY---KVQCKMDFKIFWLNLKN-------CNSPETVLE 200
Query: 998 NGTPVELKRLLDDIIAKNSSRSDPS----LSAQEILALSNETLDSKEF------LQDTSE 1047
L++LL I +SRSD S L I A L SK + L +
Sbjct: 201 M-----LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN--- 252
Query: 1048 NFVRD---IKKFLEEFSKKESVTSHQDKVSQPLREQILSHQDKIGHGRESNPFPSACKAE 1104
V++ F S K +T+ +V+ L +H I S + +
Sbjct: 253 --VQNAKAWNAF--NLSCKILLTTRFKQVTDFLSAATTTH---ISLDHHSMTLTPD-EVK 304
Query: 1105 ACREKYV--RAQIEP--ATAVGALAAQSIGEPGTQMTLKTFHFAGEVCEYIEEVFVPDDS 1160
+ KY+ R Q P I E
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAE----------------------------- 335
Query: 1161 FILIKLDMDRI-RLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSK 1219
I+ + H V+ D + IE S +L+P + K
Sbjct: 336 --SIRDGLATWDNWKH--VNCDKLTTIIES-------------SLNVLEPAE-----YRK 373
Query: 1220 MYQMKQLLPSVVIKGVQGINRAVI-------HEEDVEGVTKY---KLLVEGDNLRDVMAT 1269
M+ + P I ++ + DV V LVE T
Sbjct: 374 MFDRLSVFP----PSAH-IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES---T 425
Query: 1270 YGVKGV----KCSSNNTYEVYKTLGIEAARSTIMTEIKLVMENHGMSIDF---------- 1315
+ + K N Y +++++ ++ I ++ + +
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSI-VDHYN------IPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 1316 RHPMLVADLMTSKGEVLGITRHGL-------AKMKESVLNLASFENTSDHLFDAAFYGQ- 1367
H + + E + + R K++ + + + L FY
Sbjct: 479 HH-LKNIEH----PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY 533
Query: 1368 -TDCISGVSECI--IMGLPMNVGTGLIK-----LLQ 1395
D + I+ + LI LL+
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR 569
Score = 60.6 bits (146), Expect = 3e-09
Identities = 76/532 (14%), Positives = 148/532 (27%), Gaps = 168/532 (31%)
Query: 623 LTPTEF-FFHTMGGREGLVDTAVKTAETGYMQRRLVKS-LEDLCVQYDMSFDAAFYGQTD 680
L P + + G G KT + VQ M F F+
Sbjct: 147 LRPAKNVLIDGVLG-SG------KTW--------VALDVCLSYKVQCKMDF-KIFW---- 186
Query: 681 CISGVSECIIMGLPMNVGTGLIKLLQAVPR---SEPVPRTLLFDNPEFHFPQVYYERRRD 737
++ + C N ++++LQ + R+ N + + E RR
Sbjct: 187 -LN-LKNC-------NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR- 236
Query: 738 YSVKVTASVKVTLELWNPGDYK---LSQDGVPRIKEIINASRNIS--TPIITAYLDKDTD 792
L Y+ L V + + NA N+S + T +
Sbjct: 237 --------------LLKSKPYENCLLVLLNV-QNAKAWNAF-NLSCKILLTTRFKQVTDF 280
Query: 793 LDYARIVKGRLERTTLGEVCEYIEEVFV------PDD-------------SFI--LIKLD 831
L A L+ ++ + ++ + + P D S I I+
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
Query: 832 MDRI-RLLHLEVDIDSIRYCIERTRGISGHLTVSGHSFLILKPKDSSKSFNSKMYQMKQL 890
+ H V+ D + IE S +L+P + KM+ +
Sbjct: 341 LATWDNWKH--VNCDKLTTIIES-------------SLNVLEPAE-----YRKMFDRLSV 380
Query: 891 LPSVVIKGVQGINRAVI-------HEEDVEGVTKY---KLLVEGDNLRDVMATYGVKGV- 939
P I ++ + DV V LVE T + +
Sbjct: 381 FP----PSAH-IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES---TISIPSIY 432
Query: 940 ---KCSSNNTYEVYKTLGIEAARSTIMTEIKLVMENHGMSIDF----------RHPMLVA 986
K N Y +++++ ++ I ++ + + H L
Sbjct: 433 LELKVKLENEYALHRSI-VDHYN------IPKTFDSDDLIPPYLDQYFYSHIGHH--LKN 483
Query: 987 DLMTSKGEVLGNGTPVELKRLLDD-------IIAKNSSRSDPSLSAQEILALSNETLDSK 1039
+ + + D I +++ + + L K
Sbjct: 484 IEHPERMT--------LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF----YK 531
Query: 1040 EFLQD---TSENFVRDIKKFLEEFSKKESVTSHQDKVSQPLREQI-LSHQDK 1087
++ D E V I FL + + + + D + +I L +D+
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL------RIALMAEDE 577
Score = 50.2 bits (119), Expect = 5e-06
Identities = 63/432 (14%), Positives = 137/432 (31%), Gaps = 120/432 (27%)
Query: 1039 KEFLQDTSENFVRDIK-KFLEE-----FSKKE--SVTSHQDKVSQPLR--EQILSHQDKI 1088
K+ L + FV + K +++ SK+E + +D VS LR +LS Q+++
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 1089 GHGRESNPFPSACKAEACREKYVRAQIEPATAVGALAAQSIGEPGTQMTLKTFHFAGEVC 1148
+K+V + L + I Q ++ T +
Sbjct: 79 ------------------VQKFVEEVLRI--NYKFLMSP-IKTEQRQPSMMTRMYI---- 113
Query: 1149 EYIEEVFVPDDSFILIKLDMDRIRLLHLEVDIDSIRYCIERTR--------GISGHLTVS 1200
E + ++ +D+ + K ++ R++ +R + R G+ G S
Sbjct: 114 EQRDRLY--NDNQVFAKYNVSRLQPYL------KLRQALLELRPAKNVLIDGVLG----S 161
Query: 1201 GHSFL---ILKPKDSSKSFNSKMY---------------QMKQLLPSVVIKGVQGINRAV 1242
G +++ + + K++ +++LL + + +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 1243 ---IHEEDVEGV-------TKYK--LLVEGDNLRDVMATYGVK--GVKCSSNNTYEVYKT 1288
+ ++ Y+ LLV L +V + C K
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLV----LLNVQNAKAWNAFNLSC---------KI 268
Query: 1289 L-------GIEAARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLGITRHGLAK 1341
L + + T I L + ++ D ++ + + L L +
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD--------EVKSLLLKYLDCRPQDLPR 320
Query: 1342 --MKESVLNLASF-ENTSDHLFDAAFYGQTDC--ISGVSECIIMGLPMNVGTGLIKLLQA 1396
+ + L+ E+ D L + +C ++ + E + L + L
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 1397 VPRSEPVPRTLL 1408
P S +P LL
Sbjct: 381 FPPSAHIPTILL 392
>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 = 56.2 bits (135), Expect = 9e-08
Identities = 89/550 (16%), Positives = 154/550 (28%), Gaps = 199/550 (36%)
Query: 356 LSIMAHRAKVLPHRTFRFNECVCTPYNADFDG----DEMNVHLPQ-TEEARAEALPSLHK 410
+ + R L H + V P + F ++ N LP+ TE A+ P+
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLV--PTASFFIASQLQEQFNKILPEPTEGFAADDEPT--- 55
Query: 411 LSIMAHRAKVLMANKSNLVTPRNGELLIAATQDFITGGYL--LTQKNAFFNRAQTMRIAS 468
+ EL+ F+ GY+ L + + Q ++ +
Sbjct: 56 ---------------TPA------ELVG----KFL--GYVSSLVEPS---KVGQFDQVLN 85
Query: 469 TLIADTSDICGIIKRFSWRSWNPVVFVRTAVIWTGKQIFSLI--LKPNRDCPVNANLKTK 526
+ + F G I +L L D + +KTK
Sbjct: 86 LCLTE--------------------FENC--YLEGNDIHALAAKLLQENDTTL---VKTK 120
Query: 527 G--RAYTANEEFCHRDSYVILRNSELLAGSMDKSTLGSGGKANVFYIL------------ 572
+ Y R + NS L + G A + I
Sbjct: 121 ELIKNYITARIMAKR-PFDKKSNSALFRAVGE-------GNAQLVAIFGGQGNTDDYFEE 172
Query: 573 LRDFGE----------DVAVTAMWRLSRMT----SFYLMNRGFSIG----IGDVTPGQGF 614
LRD + + + L R T + +G +I TP + +
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF--TQGLNILEWLENPSNTPDKDY 230
Query: 615 VQNSFFS-------------------GLTPTEFFFHTMG--GR-EGLVDTAVKTAETGYM 652
+ + S G TP E + G G +GLV TAV AET
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV-TAVAIAET--- 286
Query: 653 QRRLVKSLEDLCVQYDMSFDAAFY----GQ------TDCISGVSECIIMGL----PM-NV 697
S E V + F+ + S + + + PM ++
Sbjct: 287 -----DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 698 GTGL-----IKLLQAVPRSEPVPRTL---LFDNPEFHF-----PQVYY---ERRRDYSVK 741
+ L + P + + L + + + PQ Y R K
Sbjct: 342 -SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK-NLVVSGPPQSLYGLNLTLR----K 395
Query: 742 VTASVKVTLELWNPGDYKLSQDGVPRIKEIINASRN---ISTPIITAYLDKDTDLDYARI 798
A G L Q +P + + S +++P + L +DL
Sbjct: 396 AKAP---------SG---LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL----- 438
Query: 799 VKGRLERTTL 808
+ L + +
Sbjct: 439 INKDLVKNNV 448
Score = 52.0 bits (124), Expect = 1e-06
Identities = 89/539 (16%), Positives = 163/539 (30%), Gaps = 164/539 (30%)
Query: 599 RGFSIGIGDVTPGQGFVQNSFFSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVK 658
R ++ G + L PT FF +E + G+
Sbjct: 7 RPLTLSHGSLEH-------VL---LVPTASFFIASQLQEQFNKI-LPEPTEGFAADDEPT 55
Query: 659 SLEDLCVQYDMSF-----DAAFYGQTDCISGVS----ECIIMG----------LPMNVGT 699
+ +L ++ + + + + GQ D + + E + L T
Sbjct: 56 TPAELVGKF-LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 700 GLIK---LLQA---------VPRSEPVPRTLLFD-----------------NPEFHFPQV 730
L+K L++ P + + LF N + +F
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKK-SNSALFRAVGEGNAQLVAIFGGQGNTDDYFE-- 171
Query: 731 YYERRRDYSVKVTASVKVTLELWNPGDYKLSQDGVPRIKEIINASRNISTPIITAYLDKD 790
E R +L+ Y + ++I S + +I LD +
Sbjct: 172 --ELR---------------DLYQ--TYH------VLVGDLIKFSAETLSELIRTTLDAE 206
Query: 791 TDLDYARIVKGRLERTTLGEVCEYIEEVFVPDDSFILIKLDMDRIRLLHLEVDIDSIRYC 850
+ LE + +Y+ + + S LI + I+L H V + +
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIPI---SCPLIGV----IQLAHYVVTAKLLGFT 259
Query: 851 ----IERTRGISGHLT--VSGHSFLILKPKDSSKSFNSKMYQMKQLLPSVVIKGVQGINR 904
+G +GH V+ + + DS +SF + + +L + ++ +
Sbjct: 260 PGELRSYLKGATGHSQGLVTA---VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Query: 905 AVIH-------EEDVEGVTKYKLLVEGDNLRDVMATYGVKGVKCSSNNTYEVYKTLGIEA 957
+ E+ EGV L + V V N++ L
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY--VNKT-----NSH-----L---P 361
Query: 958 ARSTIMTEIKLVMENHGMSIDFRHPMLVADLMTSKGEVLGNGTPVELKRL---LDDIIA- 1013
A + EI LV N G ++ ++V+ G P L L L A
Sbjct: 362 AGKQV--EISLV--N-G----AKN-LVVS------------GPPQSLYGLNLTLRKAKAP 399
Query: 1014 --KNSSRSDPSLSAQEILALSNETLD------SKEFLQDTSENFVRDIKKFLEEFSKKE 1064
+ SR P ++ L SN L S L S+ +D+ K F+ K+
Sbjct: 400 SGLDQSRI-P--FSERKLKFSNRFLPVASPFHS-HLLVPASDLINKDLVKNNVSFNAKD 454
Score = 48.5 bits (115), Expect = 2e-05
Identities = 95/627 (15%), Positives = 182/627 (29%), Gaps = 249/627 (39%)
Query: 713 PVPRTLLFDNPEFHFPQVYYERRRDYSVKVTASVKVTLELWNPGDYKLSQDGVPRIKEII 772
VP F + ++ + L P + + D P
Sbjct: 21 LVPTASFF----------IASQLQE---QFNKI------LPEPTE-GFAADDEP------ 54
Query: 773 NASRNISTPI---------ITAYLDKDTDLDYARIVKGRLERTTLGEVCEYIEEVFVPDD 823
+TP +++ ++ + +++ L E E ++ +
Sbjct: 55 ------TTPAELVGKFLGYVSSLVEPSKVGQFDQVLN-----LCLTE----FENCYLEGN 99
Query: 824 ---SFILIKLDMDRIRLLHLEVDIDSIRYCIE---RTRGISGHLTVSGHSFLILKPKDSS 877
+ KL + + + + I+ R ++ + + + +
Sbjct: 100 DIHALAA-KLLQEN------DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR---AV 149
Query: 878 KSFNSKMYQMKQLLPSVVIKGVQGINRAVIHEEDVEGVTKYKLLVEGDNLRDVMATYGVK 937
N+++ I G QG E LRD+
Sbjct: 150 GEGNAQLV---------AIFGGQGNTDDYFEE-----------------LRDL------- 176
Query: 938 GVKCSSNNTYEVYKTLG---IEAARSTIMTEIKLVME-----NHGMSID--FRHPMLVAD 987
Y+ Y L I+ + T+ I+ ++ G++I +P D
Sbjct: 177 ---------YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 988 ---LMTS-----------------KGEVLGNGTPVELKRLLDDIIAKNSSRSDPSLSAQE 1027
L++ ++LG TP EL+ + + S ++A
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGF-TPGELR----SYLKGATGHSQGLVTAV- 281
Query: 1028 ILALSNETLDSKEFLQDTSENFVRDIKKFLEE-FSKKESVTSHQDKVSQPLREQILSHQD 1086
+A + D+ E+F ++K + F V ++ + L IL +D
Sbjct: 282 AIAET-----------DSWESFFVSVRKAITVLFFI--GVRCYEAYPNTSLPPSIL--ED 326
Query: 1087 KIGHGRESNPFP-SACK--AEACREKYVR---AQIEPATAVG-AL--AAQSI---GEPGT 1134
+ + E P P + + + YV + + V +L A+++ G P
Sbjct: 327 SLENN-EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP-- 383
Query: 1135 QMTLKTFHFAGEVCEYIEEVFVPDDSFILIKLDMDRI----RLLHLEVDIDSIRYCIERT 1190
+L + + P LD RI R L S R+
Sbjct: 384 -QSLYGL------NLTLRKAKAPSG------LDQSRIPFSERKLKF-----SNRF----- 420
Query: 1191 RGISGHLTVSG--HSFLILKP------KDSSK---SFNSKMYQMKQLLPSVVIKGVQGIN 1239
L V+ HS L L P KD K SFN+K ++ +P
Sbjct: 421 ------LPVASPFHSHL-LVPASDLINKDLVKNNVSFNAK--DIQ--IP----------- 458
Query: 1240 RAVIHEEDVEGVTKYKLLVEGDNLRDV 1266
V D G +LR +
Sbjct: 459 --VYDTFD------------GSDLRVL 471
Score = 48.5 bits (115), Expect = 2e-05
Identities = 102/629 (16%), Positives = 169/629 (26%), Gaps = 255/629 (40%)
Query: 36 ELLIAATQDFITGGYL--LTQKNAFFNRAQTMRIASTLIAGRKVFFRGLIEG-------- 85
EL+ F+ GY+ L + + Q ++ + + F +EG
Sbjct: 59 ELVG----KFL--GYVSSLVEPS---KVGQFDQVLNLCLTE---FENCYLEGNDIHALAA 106
Query: 86 TVTKEDRVQQQSHIQIVSKNLY-----CQDPQRTPIPHGLLDRRMGTNQKEANCTTC--G 138
+ +E+ +++ KN + P L + A G
Sbjct: 107 KLLQENDTTLVKTKELI-KNYITARIMAKRPFDKKSNSALFR---AVGEGNAQLVAIFGG 162
Query: 139 Q-NLSDCVGHFG--------YIDLPLPVFHIGYFRCVINILQSICKNPTCARVLLGEEKA 189
Q N D F Y L + L + + A + +
Sbjct: 163 QGNTDDY---FEELRDLYQTYHVLVGDLIKF-----SAETLSELIRTTLDAEKVFTQ--- 211
Query: 190 AGFRAK--LRN----PALSYLVRKSLKKKILETTKKVSVCPHCGEINGVVKKCGLLKISH 243
G L N P YL+ + +S CP + GV++
Sbjct: 212 -GLNILEWLENPSNTPDKDYLL-----------SIPIS-CP----LIGVIQ--------- 245
Query: 244 EKYKNRTKKKDAIVEDLLAEYNEAVKFNPEIEAHKKFGLIQTLNPLEVLQLFEAI--PLE 301
LA Y + K G P E+ + +
Sbjct: 246 -----------------LAHY---------VVTAKLLGF----TPGELRSYLKGATGHSQ 275
Query: 302 DIPL-LLMNAELSKPS-----DLILTRLL---------VPPNCIRPSVISDLKSDNDVVL 346
+ + + S S +T L P + PS++ D +N
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN---- 331
Query: 347 FNRQPSLHKLSIM-AHRAKVLPHRTFRFNECVCTPYNADFDGDEMNVHLPQTEEARAEAL 405
PS LSI + +V + V ++ N HLP ++ +L
Sbjct: 332 -EGVPS-PMLSISNLTQEQVQDY--------V----------NKTNSHLPAGKQVEI-SL 370
Query: 406 ------------P-SLHKLSIMAHRAKVLMANKSN---------------L-VT-PRNGE 435
P SL+ L++ +AK + L V P +
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 436 LLIAATQDFITGGYLLTQKNAFFNRAQ-------T-----MRIASTLIADTSDICGIIKR 483
LL+ A+ L + N FN T +R+ S I + I I
Sbjct: 431 LLVPASDLINKD---LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI--SERIVDCI-- 483
Query: 484 FSWRSWNPVVFVRTAVIWTGKQIFSL--ILKPNRDC-P---------VNANLKTKG-RAY 530
+R V W F IL D P + N G R
Sbjct: 484 -----------IRLPVKWETTTQFKATHIL----DFGPGGASGLGVLTHRNKDGTGVR-- 526
Query: 531 TANEEFCHRDSYVILRNSELLAGSMDKST 559
VI +AG++D +
Sbjct: 527 ------------VI------VAGTLDINP 537
Score = 43.5 bits (102), Expect = 7e-04
Identities = 55/346 (15%), Positives = 99/346 (28%), Gaps = 146/346 (42%)
Query: 1085 QDKIGHGRES-NPFPSACKAEACREKYVRAQIEPATAVGALAAQSIGE-----PGTQMTL 1138
Q++ G G + +A ++ + RA G SI + P
Sbjct: 1627 QEQ-GMGMDLYKTSKAA------QDVWNRADNHFKDTYG----FSILDIVINNPVN---- 1671
Query: 1139 KTFHFAGEVCEYIEEVFVPDDSFILIKLDMD---RIRLLHLEVDIDSIRYCIE------- 1188
T HF GE + I E + S ++ + +D + + E++ S Y
Sbjct: 1672 LTIHFGGEKGKRIRENY----SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 1189 --------------------RTRG-ISGHLTVSGHSFL-----------ILKPKDSSK-- 1214
+++G I T +GHS L ++ + +
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS-LGEYAALASLADVMSIESLVEVV 1786
Query: 1215 --------------SFNSKMYQMKQLLPSVVIKGVQGINRAVIHEEDVEGVTKYK-LLVE 1259
Y M + P V ++ + + VE V K LVE
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRV---AASFSQEAL-QYVVERVGKRTGWLVE 1842
Query: 1260 --GDNLRD---VMATYGVKGVKCSSNNTYEVYKTLGIEAARSTIMTEIKLVMENHGMSID 1314
N+ + V A G ++ + ++ IKL ID
Sbjct: 1843 IVNYNVENQQYVAA--G---------------DLRALDTV-TNVLNFIKL------QKID 1878
Query: 1315 FRHPMLVADLMTSKGEVLGITRHGLAKMKESVLNLASFENTSDHLF 1360
+ ++++S+ S E HLF
Sbjct: 1879 ------------------------IIELQKSL----SLEEVEGHLF 1896
Score = 40.4 bits (94), Expect = 0.005
Identities = 53/340 (15%), Positives = 100/340 (29%), Gaps = 131/340 (38%)
Query: 577 GEDV-----AVTAMWRLSRMTSFYLMNRGFSIGIGDVTPGQGFVQNSFFSGLTPTEFFFH 631
G D+ A +W R + + GFSI V N+ P H
Sbjct: 1632 GMDLYKTSKAAQDVWN--RADNHFKDTYGFSI--------LDIVINN------PVNLTIH 1675
Query: 632 TMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCVQYDMSFDAAFYGQTDCI-SGVSECII 690
GG +G K Y + +++ D ++ + F T +
Sbjct: 1676 -FGGEKG------KRIRENYS-AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG--L 1725
Query: 691 MGLPMN-------VGTGLIKLLQAVPRSEPVPRTLLFDNPEFHFPQVYY-------ERRR 736
+ + + L++ + P E
Sbjct: 1726 LSATQFTQPALTLMEKAAFEDLKS----------------KGLIPADATFAGHSLGE--- 1766
Query: 737 DYSVKVTA--------SVKVTLEL-WNPGDYKLSQDGVPRIKE--------IINASRNIS 779
Y+ A S++ +E+ + G Q VPR + IN R
Sbjct: 1767 -YA----ALASLADVMSIESLVEVVFYRG--MTMQVAVPRDELGRSNYGMIAINPGR--- 1816
Query: 780 TPIITAYLDKDTDLDYARIVKGRLERTTLGEVCE---Y---------------IEEVFVP 821
+ A ++ L Y +V+ +RT G + E Y ++ V
Sbjct: 1817 ---VAASFSQE-ALQY--VVERVGKRT--GWLVEIVNYNVENQQYVAAGDLRALDTV--- 1865
Query: 822 DDSFILIKLDMDRIRLLHLEVDIDSIRYCIERTRGISGHL 861
+ +L + + +I ++ L+ + +E + GHL
Sbjct: 1866 --TNVLNFIKLQKIDIIELQKSLS-----LEE---VEGHL 1895
Score = 32.3 bits (73), Expect = 1.4
Identities = 40/281 (14%), Positives = 73/281 (25%), Gaps = 113/281 (40%)
Query: 5 VIGTLTL--YYATRNCWQVLMAN-KSNL--VTPRNGELLIAAT-------QDFITGGYLL 52
+IG + L Y T +S L T + L+ A + F ++
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF----FVS 295
Query: 53 TQK---NAFF--NRAQ----TMRIASTLIA-----GRKVFFRGLIEGT------VTKEDR 92
+K FF R + +++ EG ++ +
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN---------EGVPSPMLSISNLTQ 346
Query: 93 VQQQSHIQIVSKNLYCQDPQRTPI----------------PHGL--LDRRMGTNQKEANC 134
Q Q ++ + +L P + P L L+ + +K
Sbjct: 347 EQVQDYVNKTNSHL----PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL---RKAKAP 399
Query: 135 TTCGQN----------------------------------LSDCVGH---FGYIDLPLPV 157
+ Q+ D V + F D+ +PV
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Query: 158 FHI--GY-FR-CVINILQSICKNPTCARVLLGEEKAAGFRA 194
+ G R +I + I V E F+A
Sbjct: 460 YDTFDGSDLRVLSGSISERIVDCIIRLPVKW--ETTTQFKA 498
Score = 31.2 bits (70), Expect = 3.2
Identities = 37/239 (15%), Positives = 65/239 (27%), Gaps = 98/239 (41%)
Query: 9 LTLYYATRNCWQVLMANKSNLVTPRN--------GELLIAATQDFITGGYLLTQKNAFFN 60
+ A ++ L KS + P + GE Y A +
Sbjct: 1737 TLMEKA---AFEDL---KSKGLIPADATFAGHSLGE-------------Y-----AALAS 1772
Query: 61 RAQTMRIASTLIAGRKVFFRGLIEGTVTKEDRVQQQSHIQIVSKNLYCQDPQRTPIPHGL 120
A M I S + VF+RG+ D + +S+ +++ N P
Sbjct: 1773 LADVMSIESLV---EVVFYRGMTMQVAVPRDEL-GRSNYGMIAIN-----PG-------- 1815
Query: 121 LDRRMGTNQKEANCTTCGQNLSDCVGHFGYIDLPLPVFHIGYFRCVI---NI--LQSICK 175
R+ + + + + G I N+ Q +
Sbjct: 1816 ---RVAASFSQEALQYVVERVGKRTGWL----------------VEIVNYNVENQQYVA- 1855
Query: 176 NPTCARVLLGEEKAAGFRAKLRNPALSYLVR--KSLK-KKILETTKKVSVCPHCGEING 231
AG LR AL + +K +KI ++ E+ G
Sbjct: 1856 --------------AG---DLR--ALDTVTNVLNFIKLQKI--DIIELQKSLSLEEVEG 1893
>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 = 36.1 bits (82), Expect = 0.033
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 284 QTLNPLEV-LQLFEAIPLEDIPLLLMNAEL 312
Q L L+ L+L+ + P L + A +
Sbjct: 20 QALKKLQASLKLYA--D-DSAPALAIKATM 46
>3v7n_A Threonine synthase; ssgcid, structural genomics, seattle structural
genomics CEN infectious disease, lyase; 1.40A
{Burkholderia thailandensis}
Length = 487
Score = 31.9 bits (73), Expect = 1.5
Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 9/84 (10%)
Query: 1115 IEPATAVGALAAQSIGEPGTQM-TLKTFH---FAGEVCEYI-EEVFVPDDSFILIKLDMD 1169
I+ TA G A+ PG M L+T F + E + +E P L+
Sbjct: 407 IDTHTADGLKVAREHLRPGVPMVVLETAQPIKFGESIREALGQEPSRPAA---FDGLEAL 463
Query: 1170 RIRLLHLEVDIDSIR-YCIERTRG 1192
R ++ + ++ + T
Sbjct: 464 PQRFEVVDANAQQVKDFIAAHTGA 487
>2efe_A Similarity to vacuolar protein sorting-associated VPS9; GEF, GTPase,
VPS9, nucleotide, transport protein; HET: GNH; 2.08A
{Arabidopsis thaliana} PDB: 2efd_A 2efc_A* 2efh_A*
Length = 267
Score = 31.6 bits (71), Expect = 1.8
Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 5/88 (5%)
Query: 1032 SNETLDSKEFLQ----DTSENFVRDIKKFLEEFSKKESVTSHQDKVSQPLREQILSHQDK 1087
++ L +FL+ ++ +FV+ IK F+ FS + Q ++ +
Sbjct: 6 TDVFLGLHDFLERMRKPSAGDFVKSIKSFIVSFSNNAPDPEKDCAMVQEFFSKMEAAFRA 65
Query: 1088 IGHGRESNPFPSACKAEACREKYVRAQI 1115
+ + EKYV ++
Sbjct: 66 HPLWSGCSEEELDSAGDGL-EKYVMTKL 92
>1u60_A Probable glutaminase YBAS; structural genomics, APC5046, PSI,
protein structure initiat midwest center for structural
genomics, MCSG; 1.61A {Escherichia coli} SCOP: e.3.1.2
Length = 310
Score = 31.5 bits (71), Expect = 2.0
Identities = 10/46 (21%), Positives = 17/46 (36%)
Query: 653 QRRLVKSLEDLCVQYDMSFDAAFYGQTDCISGVSECIIMGLPMNVG 698
+ + + Y S D A+ SGV I+ +P +G
Sbjct: 230 NVPYILAEMMMEGLYGRSGDWAYRVGLPGKSGVGGGILAVVPGVMG 275
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.0 bits (67), Expect = 4.1
Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 16/57 (28%)
Query: 204 LVRKSLKKKILETTKKVS---VCPHCGEINGVV-----------KKCGLLKISHEKY 246
+ R+S+ K+ ++ CP C + CGL + +K
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGL--VLSDKL 56
>4f4f_A Threonine synthase; structural genomics, niaid, national institute of
allergy AN infectious diseases; HET: PLP; 1.90A {Brucella
melitensis BV}
Length = 468
Score = 30.7 bits (70), Expect = 4.4
Identities = 17/84 (20%), Positives = 28/84 (33%), Gaps = 9/84 (10%)
Query: 1115 IEPATAVGALAAQSIGEPGTQM-TLKTFH---FAGEVCEYI-EEVFVPDDSFILIKLDMD 1169
++P +A+G A+ M L T H F V E +P L L
Sbjct: 388 LDPHSAIGVKVAREKASGTAPMVVLATAHPAKFPDAVKAACGVEPQLPAW---LCDLMQR 444
Query: 1170 RIRLLHLEVDIDSIR-YCIERTRG 1192
+ L ++ + Y +R
Sbjct: 445 KESFTVLHNELKIVEEYVRHHSRA 468
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
0.320 0.136 0.396
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 21,540,584
Number of extensions: 1356470
Number of successful extensions: 2646
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2586
Number of HSP's successfully gapped: 63
Length of query: 1423
Length of database: 6,701,793
Length adjustment: 106
Effective length of query: 1317
Effective length of database: 3,742,167
Effective search space: 4928433939
Effective search space used: 4928433939
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 64 (28.4 bits)