RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 000828
(1265 letters)
>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 = 1252 bits (3240), Expect = 0.0
Identities = 423/1373 (30%), Positives = 655/1373 (47%), Gaps = 137/1373 (9%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTE 60
N M K T+ + C + V+ G + + + +
Sbjct: 117 EHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRK 176
Query: 61 SLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLS---ERPEKLII 117
+ + + + A +L+ +L +FK ++ D L + RPE +I+
Sbjct: 177 DGLKLVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMIL 236
Query: 118 TNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETL 177
T + VPP +RPS+ + SQ E+D+T +L I++ N SL+ L
Sbjct: 237 TCLPVPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLL 296
Query: 178 QVEVAQYINSDVRGVPFSMQ-VARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD 236
Q VA Y+++D+ G P ++Q RP+ RLKGK+GR RGNL GKRV+++ RTVIS D
Sbjct: 297 QFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGD 356
Query: 237 PNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVLY 296
PNL++ +V +P +A+ LTYPE V+ +NI++L Q ++NGP+++PGA+ + G L
Sbjct: 357 PNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLR 416
Query: 297 GKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVC 356
+ ++L+ G V+RH+ D D VLFNRQPSLH+MS+M HR +++P+ T R N SV
Sbjct: 417 YS-KRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVT 475
Query: 357 NPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLIT 416
+PYNADFDGDEMN+HVPQ+EE R E L V + +P++ + + QD L +T
Sbjct: 476 SPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLT 535
Query: 417 RKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVN 476
+DTF + M ++ D +PTPAI+KP LW+GKQ+ SV I ++
Sbjct: 536 LRDTFIELDQVLNMLYWVPDW--DGVIPTPAIIKPKPLWSGKQILSVAIPNG------IH 587
Query: 477 LTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYS 536
L ++ + P D + + ++I G + K T+G+ N GL
Sbjct: 588 LQRFDEGT---------------TLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNG-GLIH 631
Query: 537 VLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCN 596
V+ R+ G + + K+ W+ ++GFS GI D + + I+E +
Sbjct: 632 VVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVL 691
Query: 597 VKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGS 656
KE L K G ++ E + LN R+ AG+ +L N+ M GS
Sbjct: 692 DVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGS 751
Query: 657 KGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSAT 716
KGS INI+QM ACVGQQSV G+R GF+DR+LPHF + P +KGFV NS+ GL+
Sbjct: 752 KGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQ 811
Query: 717 EFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDD 776
EFFFH MGGREGL+DTAVKTA+TGY+ RRL+KALED+ + YDN+ RN+ G ++QF+YG+D
Sbjct: 812 EFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGED 871
Query: 777 GMDPANMEGKSGEPLN-FDRLLMKVKATCPPAGQRYLSPQQVSEIVE------------- 822
GMD A++E +S + + D K L P + E
Sbjct: 872 GMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDE 931
Query: 823 --KQLAA----------------YGKESCSEAFLNSLRKFFEGQQDKLDKKIKFVEDIGW 864
KQL + N+ + F D IK + G
Sbjct: 932 EYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVL-GV 990
Query: 865 DDKSQILEEVTHKTS------------------------------GITEKQLEVFIQTCF 894
D + L + K +T++ + +
Sbjct: 991 KDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIE 1050
Query: 895 SRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKR 954
+++ V G +G + AQSIGEP TQMTL TFHFAGVAS +T GVPR+KEI+N AK
Sbjct: 1051 AQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKN 1110
Query: 955 ISTPIITAEL--ECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETI 1012
+ TP +T L ++ A++++ IE T L V + +I S VI D E I
Sbjct: 1111 MKTPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEII 1170
Query: 1013 QDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLE------------------IFPP 1054
Q ++ + + Q+P + + ++ + L I+
Sbjct: 1171 QLHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSE 1230
Query: 1055 VDKSKI---------------------HFELYSLKNVLPMVIVKGIKTVERVVIAEKEKE 1093
+ K+ H +L + ++G++ +ERVV+ + +++
Sbjct: 1231 DNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKYDRK 1290
Query: 1094 K-RKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIID 1152
E ++ ++ L +G L VM GID + +N ++ + LGIEA R +
Sbjct: 1291 VPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYK 1350
Query: 1153 EINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLF 1212
E+ + + G ++ RHM LL D+MT +G + +TR G + + LM SFE+T + LF
Sbjct: 1351 EVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILF 1410
Query: 1213 NASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVPPMLKYGAPDPIMS 1265
A + D GVSE +I+G P+GTG + L P+ ++
Sbjct: 1411 EAGASAELDDCRGVSENVILGQMAPIGTGAFDVMID---EESLVKYMPEQKIT 1460
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 1251 bits (3237), Expect = 0.0
Identities = 439/1363 (32%), Positives = 668/1363 (49%), Gaps = 154/1363 (11%)
Query: 12 TDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTESLQEFASAITH 71
T L + S + CG ++K L R K L E
Sbjct: 152 TGLSAGSDNFDLSNPSANMGHGGCGAAQPTIRKDGLRLWGSWKRGKDESDLPE------- 204
Query: 72 TKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE---RPEKLIITNIAVPPIAIR 128
+L+P+ V +F ++ D L L+E RP+ +IIT + VPP ++R
Sbjct: 205 -----------KRLLSPLEVHTIFTHISSEDLAHLGLNEQYARPDWMIITVLPVPPPSVR 253
Query: 129 PSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETLQVEVAQYINSD 188
PS+ +DG+ E+D+T +L II+ NA++++ E A + LQ VA Y++++
Sbjct: 254 PSISVDGTSRGEDDLTHKLSDIIKANANVRRCEQEGAPAHIVSEYEQLLQFHVATYMDNE 313
Query: 189 VRGVPFSMQ-VARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPDPNLKITEVAIP 247
+ G P ++Q RPL RLKGK+GR RGNL GKRV+++ RTVI+ DPNL + E+ +P
Sbjct: 314 IAGQPQALQKSGRPLKSIRARLKGKEGRLRGNLMGKRVDFSARTVITGDPNLSLDELGVP 373
Query: 248 IRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVLYGKFRNQLAVEL 307
+A+ LTYPE V+ +NI +L++ ++NGPD++PGA+ I G L R + L
Sbjct: 374 RSIAKTLTYPETVTPYNIYQLQELVRNGPDEHPGAKYIIRDTGERIDLRYHKRAG-DIPL 432
Query: 308 KSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDE 367
+ G V+RH+ DGDVV+FNRQPSLH+MS+M HR R+MP+ T R N SV +PYNADFDGDE
Sbjct: 433 RYGWRVERHIRDGDVVIFNRQPSLHKMSMMGHRIRVMPYSTFRLNLSVTSPYNADFDGDE 492
Query: 368 MNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAF 427
MNMHVPQ+EE R E + V + +P++ + ++ QD L + +D F R A
Sbjct: 493 MNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAV 552
Query: 428 SLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVNLTVKEKTYSNK 487
+ ++ D LP P ILKP LWTGKQ+ S++I N
Sbjct: 553 MNIMLWVPDW--DGILPPPVILKPKVLWTGKQILSLIIPKGIN----------------- 593
Query: 488 LIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGAHAT 547
LIR + + + P D + N E+I G + K T+G GL + ++ G
Sbjct: 594 LIRDDDKQSL----SNPTDSGMLIENGEIIYGVVDKKTVGASQG-GLVHTIWKEKGPEIC 648
Query: 548 SGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCNVKIKEYNEGKL 607
G N + ++ W+ ++GFSIGI D + + + + E I++ +L
Sbjct: 649 KGFFNGIQRVVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQHNRL 708
Query: 608 QLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGSKGSPINISQMV 667
+ +PG ++ EA ++ ILN+ R++AG++ SL N+ M GSKGS INISQM
Sbjct: 709 KPEPGMTLRESFEAKVSRILNQARDNAGRSAEHSLKDSNNVKQMVAAGSKGSFINISQMS 768
Query: 668 ACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSATEFFFHTMGGRE 727
ACVGQQ V G+R P GF R+LPHFP+ P ++GF+ NS+ GL+ EFFFH M GRE
Sbjct: 769 ACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFFFHAMAGRE 828
Query: 728 GLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANMEGKS 787
GL+DTAVKTA+TGY+ RRL+KA+ED+ ++YD +VRNA G I+QF YG+DG+D +E +
Sbjct: 829 GLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLDATLVEYQV 888
Query: 788 GEPLNFDRLLMKVKATCPPAGQRYLSPQQVSEIVE------------KQLAAYGKESCSE 835
+ L + K R LS + I QL A + C
Sbjct: 889 FDSLRLSTKQFEKKYRIDLMEDRSLSLYMENSIENDSSVQDLLDEEYTQLVADRELLCKF 948
Query: 836 AF----------LNSLRKFFEGQQ---------------------DKLDKKIKFV----- 859
F +N R Q ++L K+
Sbjct: 949 IFPKGDARWPLPVNVQRIIQNALQIFHLEAKKPTDLLPSDIINGLNELIAKLTIFRGSDR 1008
Query: 860 ----------EDIGWDDKSQILEEVTHKTSGITEKQLEVFIQTCFSRYRVKRVEAGTAIG 909
+S+ + + + E + +R++ V G +G
Sbjct: 1009 ITRDVQNNATLLFQILLRSKFAVKRVIMEYRLNKVAFEWIMGEVEARFQQAVVSPGEMVG 1068
Query: 910 AIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKRISTPIITAEL--ECN 967
+ AQSIGEP TQMTL TFH+AGV+S N+T GVPR+KEI+N AK I TP +T L
Sbjct: 1069 TLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEILNVAKNIKTPSLTIYLMPWIA 1128
Query: 968 DNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETIQDAHLCINADIVKES 1027
N + A+ V+ +IE T L V + +I VI D + ++ + ++ +
Sbjct: 1129 ANMDLAKNVQTQIEHTTLSTVTSATEIHYDPDPQDTVIEEDKDFVEAFFAIPDEEVEENL 1188
Query: 1028 IVQTPKI-KLKQQHIKVLDFRKL-----EIFPPVDKSKIH-------------------- 1061
Q+P + +L+ K+LD + + +
Sbjct: 1189 YKQSPWLLRLELDRAKMLDKKLSMSDVAGKIAESFERDLFTIWSEDNADKLIIRCRIIRD 1248
Query: 1062 ----------------FELYSLKNVLPMVIVKGIKTVERVVIAEKEKEKRKVKENGEKKK 1105
F ++L + ++G+ + RV + E + + E+G ++
Sbjct: 1249 DDRKAEDDDNMIEEDVFLKTIEGHMLESISLRGVPNITRVYM--MEHKIVRQIEDGTFER 1306
Query: 1106 ---YRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIIDEINETMKAHG 1162
+ L +G L M EG+D +T SN E+ Q LGIEA R ++ E+ ++ G
Sbjct: 1307 ADEWVLETDGINLTEAMTVEGVDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDG 1366
Query: 1163 MSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLFNASVNGRDDR 1222
++ RH+ LL D+MT RG ++ ITR GI + + LM SFE+T + L +A+ +G D
Sbjct: 1367 SYVNYRHLALLCDVMTSRGHLMAITRHGINRAETGALMRCSFEETVEILMDAAASGEKDD 1426
Query: 1223 IEGVSECIIMGIPMPLGTGILKIRQRDAVPPMLKYGAPDPIMS 1265
+G+SE I++G P+GTG I + G P ++
Sbjct: 1427 CKGISENIMLGQLAPMGTGAFDIYLDQDMLMNYSLGTAVPTLA 1469
>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 = 932 bits (2411), Expect = 0.0
Identities = 301/798 (37%), Positives = 445/798 (55%), Gaps = 49/798 (6%)
Query: 10 RKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTESLQEFASAI 69
R + + + A KA CP CG +K ++ +
Sbjct: 124 RWPSAARRLTEYVKKTAMKAQVCPHCGEKQFKIKL------------------EKPYNFY 165
Query: 70 THTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE---RPEKLIITNIAVPPIA 126
KE A L P ++ +++ ++D E+L RPE +I+T + VPPI
Sbjct: 166 EERKEGVA-------KLTPSDIRERLEKVPESDVEILGYDPTTSRPEWMILTVLPVPPIT 218
Query: 127 IRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETLQVEVAQYIN 186
IRPS++++ E+D+T +L I++ N L++ + W+ LQ VA Y +
Sbjct: 219 IRPSIMIESGIRAEDDLTHKLVDIVRINERLKESIDAGAPQLIIEDLWDLLQYHVATYFD 278
Query: 187 SDVRGVPFSMQVA-RPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPDPNLKITEVA 245
+++ G+P S + RPL QRLKGK+GRFRGNLSGKRV+++ RTVISPDPN+ I EV
Sbjct: 279 NEIPGLPPSKHRSGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSSRTVISPDPNISIDEVG 338
Query: 246 IPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVL-YGKFRNQLA 304
+P +AR LT PER++ NIEKLRQ + NGPDK+PGA + PDG L Y K R +LA
Sbjct: 339 VPEIIARTLTVPERITPWNIEKLRQFVINGPDKWPGANYVIRPDGRRIDLRYVKDRKELA 398
Query: 305 VELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFD 364
L G +V+RHL DGDVVLFNRQPSLHR+S+M HR R++ T R N VC PYNADFD
Sbjct: 399 STLAPGYVVERHLTDGDVVLFNRQPSLHRISMMAHRVRVLKGLTFRLNLLVCPPYNADFD 458
Query: 365 GDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDR 424
GDEMN+HVPQ+EEA EA +M V N+ TP+ G ++ + QD+++ ++L+T K T +
Sbjct: 459 GDEMNLHVPQSEEAIAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTK 518
Query: 425 AAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVNLTVKEKTY 484
+ +G ++DL PAIL P E +TGKQ+ S + N N++ +
Sbjct: 519 EEAQQI---LGVADVKIDLGEPAILAPREYYTGKQVVSAFLPKDFNFHGQANVSSGPRLC 575
Query: 485 SNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGA 544
N+ CP+D +V +N L+ G K +GN + + L+++Y
Sbjct: 576 KNE--------------DCPHDSYVVIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSD 621
Query: 545 HATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCNVKIKEYNE 604
M+ L ++ R++ GF++ ++DV ++ + I + I++Y
Sbjct: 622 EYGKWLMDNLFRVFIRFVELQGFTMRLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKN 681
Query: 605 GKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGSKGSPINIS 664
G+L+ PG ++LE I D L+++R AG L N +M++ G++GS +NI+
Sbjct: 682 GELEPIPGRTLEESLENYILDTLDKLRSTAGDIASKYLDPFNFAYVMARTGARGSVLNIT 741
Query: 665 QMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSATEFFFHTMG 724
QM A +GQQSV G R G++ R+LPHF P A+GF+ +SF +GL TE FFH G
Sbjct: 742 QMAAMLGQQSVRGERIKRGYMTRTLPHFKPYDISPEARGFIYSSFRTGLKPTELFFHAAG 801
Query: 725 GREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANME 784
GREGLVDTAV+T+ +GYM RRLI AL DL +YD +VR+ G ++Q YGDDG+ P
Sbjct: 802 GREGLVDTAVRTSQSGYMQRRLINALSDLRAEYDGTVRSLYGEVIQVAYGDDGVFPMYSA 861
Query: 785 GKSGEPLNFDRLLMKVKA 802
G+ ++ +R+ +V
Sbjct: 862 --HGKTVDVNRIFERVVG 877
>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 = 347 bits (892), Expect = e-109
Identities = 127/412 (30%), Positives = 213/412 (51%), Gaps = 27/412 (6%)
Query: 846 EGQQDKLDKKIKFVEDIGWDD-KSQILEEVTHKTSGITEKQLEVFIQTCFSRYRVKRVEA 904
E + L++K+K +I + +++K +T +++ Y +
Sbjct: 7 EKDKSYLEEKVKQASNILPQKIVEDLKNLISNKEVLVTRDEIDKIFDLAIKEYSEGLIAP 66
Query: 905 GTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKRISTPIITAEL 964
G AIG + AQS+GEPGTQMTL+TFHFAG+ +N+T G+PR+ EI++ K STP++T L
Sbjct: 67 GEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIVDAKKVPSTPMMTIYL 126
Query: 965 --ECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETIQDAHLCINAD 1022
E ++ A V ++E T + V S I + AS+ I L ++ + D
Sbjct: 127 TDEYKHDKEKALEVARKLEYTKIENVVSSTSIDI----ASMSIILQLDNEMLKDKGVTVD 182
Query: 1023 IVKESIVQTPKIKLKQQHIKVLDFRKLEIFPPVDKSKIHFELYSLKNVLPMVIVKGIKTV 1082
VK++I + + + + L+ L++ + +KGIK +
Sbjct: 183 DVKKAINRLKL-----GEFVIDESEGNTLNISFANIDSIAALFKLRDKILNTKIKGIKGI 237
Query: 1083 ERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLG 1142
+R ++ +K E Y +L +G+ L V+ +G+D K ++N+I E+++ G
Sbjct: 238 KRAIVQKKGDE------------YIILTDGSNLSGVLSVKGVDIAKVETNNIREIEEVFG 285
Query: 1143 IEAARICIIDEINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLA 1202
IEAAR II EI++ + G+ +D RH++L+AD+MT G V I R G+ SVL A
Sbjct: 286 IEAAREIIIREISKVLAEQGLDVDMRHILLVADVMTRTGVVRQIGRHGVTGEKNSVLARA 345
Query: 1203 SFEKTADHLFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVPPM 1254
+FE T HL +A+ G + +GV E II+G P+ LGTG++++ R P +
Sbjct: 346 AFEVTVKHLLDAAARGDVEEFKGVVENIIIGHPIKLGTGMVELTMR---PIL 394
>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 = 290 bits (745), Expect = 1e-87
Identities = 68/286 (23%), Positives = 113/286 (39%), Gaps = 35/286 (12%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTE 60
+ + +++K I KK + + CP CG +K + + +
Sbjct: 181 IELARNRRSEFNEIIKEIHKKAK----ERMVCPHCGAPQYPIKFEKPTIYWEIRKDEQGN 236
Query: 61 SLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE---RPEKLII 117
+ L P V +++ D D +L L RPE +++
Sbjct: 237 EYRH--------------------RLMPTEVRDWLEKIPDKDLPLLGLDPEKSRPEWMVL 276
Query: 118 TNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETL 177
T + VPP+ RPS+ ++ E+D+T +L II+ N L+Q + W+ L
Sbjct: 277 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 336
Query: 178 QVEVAQYINSDVRGVPFSMQVA-RPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD 236
Q V YIN++ GVP + + RPL QRLKGK+GRFRGNLSG G +
Sbjct: 337 QYHVTTYINNEAPGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGGAGSGAGSGSVLAR 396
Query: 237 PNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGA 282
I + + E+ N+ + + + G +
Sbjct: 397 AAF-------EITVQHLFEAAEKGEVDNLNGVIENVLIGQKHHHHH 435
>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 = 206 bits (527), Expect = 4e-54
Identities = 174/700 (24%), Positives = 278/700 (39%), Gaps = 172/700 (24%)
Query: 111 RPEKLIITNIAVPPIAIRPSVIMDGSQ---SNENDI-------TERLKRIIQTNASLQQE 160
RPE +I+ + V P +RP V +DG + S+ ND+ RLK+++ A E
Sbjct: 248 RPEWMILEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAP---E 304
Query: 161 LVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQV-ARPLSGFVQRLKGKQGRFRGN 219
++ N K + LQ V I++ RG P + RPL L GKQGRFR N
Sbjct: 305 IIIRNE--KRM-----LQEAVDAVIDNGRRGSPVTNPGSERPLRSLTDILSGKQGRFRQN 357
Query: 220 LSGKRVEYTGRTVISPDPNLKITEVAIPIRMARILTYP-------ERVSDHNIEKLRQCI 272
L GKRV+Y+GR+VI P LK+ + +P RMA L P E+ N++ R+ +
Sbjct: 358 LLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKAFAPNVKAARRML 417
Query: 273 QNGPDKYPGARMIRYPDGTARVLYGKFRNQLAVELKSGCIVDRHLED---GDVVLFNRQP 329
+ D LE+ G VVL NR P
Sbjct: 418 ERQRDIKDEVWDA-------------------------------LEEVIHGKVVLLNRAP 446
Query: 330 SLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQ 389
+LHR+ I + ++ ++++ + VC +NADFDGD+M +HVP + A+ EA + M
Sbjct: 447 TLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSA 506
Query: 390 NNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAFSLMCCYMGDGM----------- 438
+NL +P +GE L ++D + + IT+ G GM
Sbjct: 507 HNLLSPASGEPLAKPSRDIILGLYYITQVRKEKK-----------GAGMAFATPEEALAA 555
Query: 439 ---DRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVNLTVKE----KTYSNKLIRT 491
V L P ++ E G+ F A + V L + Y + + T
Sbjct: 556 YERGEVALNAPIVVAGRETSVGRLKFVFANPDEALLAVAHGLLDLQDTVTTRYLGRRLET 615
Query: 492 EGDEEIRIETMCPNDGFVYFRNSEL--ISGQLGKATLGNGNKDGLYSVLLRDYGAHATSG 549
+ + EL + K +L + L G T+
Sbjct: 616 NPGRIL-FARIVGEAVGDEKVAQELIQMDVPQEKNSLKD-----LVYQAFLRLGMEKTAR 669
Query: 550 CMNRLAKLSARWIGNHGF---------SIGIDDVQ-PKKELSDKKGKLISE-NYEVCNVK 598
++ L GF +IGIDD P ++K + + E + ++ ++
Sbjct: 670 LLDALKYY--------GFTLSTTSGIITIGIDDAVIP-----EEKQRYLEEADRKLRQIE 716
Query: 599 IKEYNEGKLQLKPGCDAAQT----LEAVITDILNRIREDAGKACMGSLP---WRNSPLIM 651
+ Y G L T + VI + E +A + N +M
Sbjct: 717 -QAYEMGFL----------TDRERYDQVI-QLWTETTEKVTQAVFNNFEENYPFNPLYVM 764
Query: 652 SQCGSKGSPINISQMVACVGQQSVGGRR----APNG-FIDRSLPHFPRKAKEPAAKGFVA 706
+Q G++G+P I Q+ G R P+G + P ++
Sbjct: 765 AQSGARGNPQQIRQL---------CGMRGLMQKPSGETFEV-----PVRS---------- 800
Query: 707 NSFYSGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRL 746
SF GL+ E+F + G R+G DTA++TAD+GY++R+L
Sbjct: 801 -SFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKL 839
Score = 85.8 bits (213), Expect = 7e-17
Identities = 41/175 (23%), Positives = 76/175 (43%), Gaps = 47/175 (26%)
Query: 853 DKKIKFVEDIGWDDKSQILEEVTHKTSGITEKQLEVFIQ---TCFSRYRV---------- 899
++++ + +D +++ + + E V ++ TC +RY V
Sbjct: 898 GRRLEEGRYLSLEDVHFLIKAA--EAGEVRE----VPVRSPLTCQTRYGVCQKCYGYDLS 951
Query: 900 --KRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVAS-MNITQGVPRIKEIINGAKRIS 956
+ V G A+G + A+SIGEPGTQ+T++TFH GVA +ITQG+PR+ E+
Sbjct: 952 MARPVSIGEAVGVVAAESIGEPGTQLTMRTFHTGGVAVGTDITQGLPRVIELFE------ 1005
Query: 957 TPIITAELECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMET 1011
AR K K ++ ++ ++I S+ + + +
Sbjct: 1006 ----------------ARRPKA---KAVISEIDGVVRIEEGEDRLSVFVESEGFS 1041
Score = 48.4 bits (116), Expect = 2e-05
Identities = 48/224 (21%), Positives = 80/224 (35%), Gaps = 68/224 (30%)
Query: 1084 RVVIAEKEKEKRKVKENG-EKKKY------RLLVE-------GTGLQAVMGAEGIDGCKT 1129
V I E E E+ K+Y RLLV+ G L G
Sbjct: 1021 VVRIEEGEDRLSVFVESEGFSKEYKLPKDARLLVKDGDYVEAGQPL-----TRG------ 1069
Query: 1130 KSNHIFEVQQTLGIEAARICIIDEINETMKAHGMSIDKRHM------ML----------- 1172
+ ++ + G EA ++DEI + +A G+ + +H+ ML
Sbjct: 1070 -AIDPHQLLEAKGPEAVERYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDS 1128
Query: 1173 ------LADLMTFRGE-----------------VLGITRFGIQKMDKSVLMLASFEKTAD 1209
+ + ++G+T+ + KS L ASF+ T
Sbjct: 1129 PLLEGQVLEKWDVEALNERLIAEGKVPVAWKPLLMGVTKSALST--KSWLSAASFQNTTH 1186
Query: 1210 HLFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVPP 1253
L A++ G+ D + G+ E +I+G +P GTG +R V
Sbjct: 1187 VLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQ 1230
>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 = 206 bits (526), Expect = 5e-54
Identities = 166/678 (24%), Positives = 276/678 (40%), Gaps = 129/678 (19%)
Query: 111 RPEKLIITNIAVPPIAIRPSVIMDGSQ---SNENDI-------TERLKRIIQTNASLQQE 160
RPE +I+ + V P +RP V +DG + S+ ND+ RLK+++ A E
Sbjct: 508 RPEWMILEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAP---E 564
Query: 161 LVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFS-MQVARPLSGFVQRLKGKQGRFRGN 219
++ N K + LQ V +++ RG P + RPL L GKQGRFR N
Sbjct: 565 IIIRNE--KRM-----LQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQN 617
Query: 220 LSGKRVEYTGRTVISPDPNLKITEVAIPIRMARILTYP-------ERVSDHNIEKLRQCI 272
L GKRV+Y+GR+VI P LK+ + +P RMA L P E+ N++ R+ +
Sbjct: 618 LLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAPNVKAARRML 677
Query: 273 QNGPDKYPGARMIRYPDGTARVLYGKFRNQLAVELKSGCIVDRHLED---GDVVLFNRQP 329
+ D LE+ G VVL NR P
Sbjct: 678 ERQRDIKDEVWDA-------------------------------LEEVIHGKVVLLNRAP 706
Query: 330 SLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQ 389
+LHR+ I + ++ ++++ + VC +NADFDGD+M +HVP + A+ EA + M
Sbjct: 707 TLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSA 766
Query: 390 NNLCTPKNGEILVASTQDFLTSSFLIT--RKDTFYDRAAFSLMC-CYMGDGMDRVDLPTP 446
+NL +P +GE L ++D + + IT RK+ F+ V L P
Sbjct: 767 HNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGLEFATPEEALAAHERGEVALNAP 826
Query: 447 AILKPVELWTGKQLFSVLIRPHANMRVYVNLTVKEKT----YSNKLIRTEGDEEIRIETM 502
+ E G+ + A + V + + Y K + T + +
Sbjct: 827 IKVAGRETSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLETSPGRILFARIV 886
Query: 503 CPNDGFV-YFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGAHATSGCMNRLAKLSARW 561
+ K +L + L G T+ ++ L +
Sbjct: 887 AEAVEDEKVAWELIQLDVPQEKNSLKD-----LVYQAFLRLGMEKTARLLDALKYYGFTF 941
Query: 562 IGNHGFSIGIDDVQPKKELSDKKGKLISE-NYEVCNVKIKEYNEGKLQLKPGCDAAQT-- 618
G +IGIDD + ++K + + E + ++ ++ + Y G L T
Sbjct: 942 STTSGITIGIDDA----VIPEEKKQYLEEADRKLLQIE-QAYEMGFL----------TDR 986
Query: 619 --LEAVITDILNRIREDAGKACMGSLP---WRNSPLIMSQCGSKGSPINISQMVACVGQQ 673
+ ++ + E +A + N +M+Q G++G+P I Q+
Sbjct: 987 ERYDQIL-QLWTETTEKVTQAVFKNFEENYPFNPLYVMAQSGARGNPQQIRQL------- 1038
Query: 674 SVGGRR----APNG-FIDRSLPHFPRKAKEPAAKGFVANSFYSGLSATEFFFHTMGGREG 728
G R P+G + P ++ SF GL+ E+F + G R+G
Sbjct: 1039 --CGLRGLMQKPSGETFEV-----PVRS-----------SFREGLTVLEYFISSHGARKG 1080
Query: 729 LVDTAVKTADTGYMSRRL 746
DTA++TAD+GY++R+L
Sbjct: 1081 GADTALRTADSGYLTRKL 1098
Score = 81.7 bits (202), Expect = 1e-15
Identities = 39/118 (33%), Positives = 61/118 (51%), Gaps = 22/118 (18%)
Query: 860 EDIGWDDKSQILEEVTHKTSGITEKQLEVFIQ---TCFSRYRV------------KRVEA 904
+ DD +++ + I E V ++ TC +RY V + V
Sbjct: 1164 RYLSMDDVHLLIKAA--EAGEIQE----VPVRSPLTCQTRYGVCQKCYGYDLSMARPVSI 1217
Query: 905 GTAIGAIGAQSIGEPGTQMTLKTFHFAGVAS-MNITQGVPRIKEIINGAKRISTPIIT 961
G A+G + AQSIGEPGTQ+T++TFH GVA +ITQG+PR+ E+ + + +I+
Sbjct: 1218 GEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLPRVIELFEARRPKAKAVIS 1275
Score = 49.4 bits (118), Expect = 9e-06
Identities = 45/225 (20%), Positives = 82/225 (36%), Gaps = 70/225 (31%)
Query: 1084 RVVIAEKEKEKRKVKENG-EKKKY------RLLVEGTGLQAVMGAEGIDGCKTKSNHI-- 1134
V I E E++ E+ K+Y RLLV+ DG ++
Sbjct: 1280 VVRIEETEEKLSVFVESEGFSKEYKLPKEARLLVK-------------DGDYVEAGQPLT 1326
Query: 1135 ------FEVQQTLGIEAARICIIDEINETMKAHGMSIDKRHM------ML---------- 1172
++ + G EA +++EI + +A G+ + +H+ M+
Sbjct: 1327 RGAIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGD 1386
Query: 1173 -------LADLMTFRGE-----------------VLGITRFGIQKMDKSVLMLASFEKTA 1208
+ + ++G+T+ + KS L ASF+ T
Sbjct: 1387 SRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPLLMGVTKSALST--KSWLSAASFQNTT 1444
Query: 1209 DHLFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVPP 1253
L A++ G+ D + G+ E +I+G +P GTG +R V
Sbjct: 1445 HVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQ 1489
>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 = 188 bits (480), Expect = 2e-48
Identities = 184/694 (26%), Positives = 285/694 (41%), Gaps = 182/694 (26%)
Query: 111 RPEKLIITNIAVPPIAIRPSVIMDGSQ---SNENDI-------TERLKRIIQTNASLQQE 160
+PE +I+T + V P +RP V +DG + S+ ND+ RLKR++ A +
Sbjct: 233 KPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAP---D 289
Query: 161 LVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLKGKQGRFRGNL 220
++ N K + LQ V +++ RG + RPL +KGKQGRFR NL
Sbjct: 290 IIVRNE--KRM-----LQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNL 342
Query: 221 SGKRVEYTGRTVISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYP 280
GKRV+Y+GR+VI+ P L++ + +P +MA L P KL G
Sbjct: 343 LGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKP-----FIYGKL---ELRG----- 389
Query: 281 GARMIRYPDGTARVLYGKFRNQLAVELKSG-CIVDRH-------LED---GDVVLFNRQP 329
LA +K+ +V+R L++ VL NR P
Sbjct: 390 ----------------------LATTIKAAKKMVEREEAVVWDILDEVIREHPVLLNRAP 427
Query: 330 SLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQ 389
+LHR+ I ++ + ++ + VC YNADFDGD+M +HVP T EA+ EA LM
Sbjct: 428 TLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMST 487
Query: 390 NNLCTPKNGE-ILVASTQD------FLTSSFLITRKDTFYDRAAFSLMCCYMGDGMDRVD 442
NN+ +P NGE I+V S QD ++T + G+GM
Sbjct: 488 NNILSPANGEPIIVPS-QDVVLGLYYMTRD----CVNA-------------KGEGMVLTG 529
Query: 443 LPTPAIL----KPVELWTGKQLFSVLIRPHANMRVYVNLTVK----EKTYSNKLIRTEGD 494
P A L HA ++V + K E L T
Sbjct: 530 -PKEAERLYRSGLASL-------------HARVKVRITEYEKDANGELVAKTSLKDTTVG 575
Query: 495 EEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGAHATSGCMNRL 554
I + + +++ LGK + + + R G T +++
Sbjct: 576 RAILWMIVPKGLPY------SIVNQALGKKAISK-----MLNTCYRILGLKPTVIFADQI 624
Query: 555 AKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISE-NYEVCNVKIKEYNEGKLQLKPGC 613
+ G S+GIDD+ + +KK ++ISE EV ++ +++ G +
Sbjct: 625 MYTGFAYAARSGASVGIDDM----VIPEKKHEIISEAEAEVAEIQ-EQFQSGLV------ 673
Query: 614 DAAQTLEAVITDILNRIREDAGKACMGSL---------------PWRNSPLIMSQCGSKG 658
A + VI DI + KA M +L NS +M+ G++G
Sbjct: 674 TAGERYNKVI-DIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFNSIYMMADSGARG 732
Query: 659 SPINISQMVACVGQQSVGGRR----APNG-FIDRSLPHFPRKAKEPAAKGFVANSFYSGL 713
S I Q+ G R P+G I+ P A +F GL
Sbjct: 733 SAAQIRQL---------AGMRGLMAKPDGSIIET-----PITA-----------NFREGL 767
Query: 714 SATEFFFHTMGGREGLVDTAVKTADTGYMSRRLI 747
+ ++F T G R+GL DTA+KTA++GY++RRL+
Sbjct: 768 NVLQYFISTHGARKGLADTALKTANSGYLTRRLV 801
Score = 83.1 bits (206), Expect = 4e-16
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 24/125 (19%)
Query: 892 TCFSRYRV------------KRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNIT 939
+C + + V + G AIG I AQSIGEPGTQ+T++TFH G AS
Sbjct: 887 SCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAA 946
Query: 940 QGVPRIKEIINGAKRISTPIITAELECNDNENAARVVKGRIEKTLL----GQVAKSIKIV 995
+ ++K + ++ N + V+ R + L G+ +S K+
Sbjct: 947 ESSIQVKNKGSIKLSNVKSVV--------NSSGKLVITSRNTELKLIDEFGRTKESYKVP 998
Query: 996 MTSRL 1000
+ L
Sbjct: 999 YGAVL 1003
Score = 45.0 bits (107), Expect = 2e-04
Identities = 28/102 (27%), Positives = 49/102 (48%), Gaps = 13/102 (12%)
Query: 1151 IDEINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADH 1210
+ N ++A+G K T+ ++LGIT+ + +S + ASF++T
Sbjct: 1285 VKIANRELEANG----KVGA-------TYSRDLLGITKASLAT--ESFISAASFQETTRV 1331
Query: 1211 LFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVP 1252
L A+V G+ D + G+ E +I+G +P GTG + R
Sbjct: 1332 LTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRMRRR 1373
>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 = 72.6 bits (177), Expect = 8e-13
Identities = 88/567 (15%), Positives = 163/567 (28%), Gaps = 172/567 (30%)
Query: 95 FKRMTDTDCEVLYLSERPEKLIITNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTN 154
F + DC+ + + P K I++ + I + + R+ T
Sbjct: 29 FVD--NFDCK--DVQDMP-KSILSKEEIDHIIMSKDAV------------SGTLRLFWTL 71
Query: 155 ASLQQELVEA--NSAFKSLAGW--ETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLK 210
S Q+E+V+ + + ++ E Q + ++++
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTE--------------QRQPSMMTRMYIEQ-- 115
Query: 211 GKQGRFRGNLSGKRVEYTGRTVISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQ 270
R L + V P KLRQ
Sbjct: 116 ------RDRLYNDNQVFAKYNVSRLQP---------------------------YLKLRQ 142
Query: 271 CIQN-GPDKYPGARMIRYPDGTARVLYGKF---RNQLAVE-LKSGCIVDRHLEDGDV--V 323
+ P K + ++ G + +A++ S + + D + +
Sbjct: 143 ALLELRPAKN-----V--------LIDGVLGSGKTWVALDVCLSYKVQCKM--DFKIFWL 187
Query: 324 LFNRQPS----LHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEAR 379
S L + + + +I P T R + S E+ + +
Sbjct: 188 NLKNCNSPETVLEMLQKLLY--QIDPNWTSRSDHSSNIKLRIHSIQAELRRLL--KSKPY 243
Query: 380 TEALL-LMGVQN-------NL-CTPKNGEILV----ASTQDFLTSS-----FLITRKDTF 421
LL L+ VQN NL C IL+ DFL+++ L T
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCK-----ILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 422 YDRAAFSLMCCYMGDGMDRVDLPTPAILK--PVELWTGKQLFSVLIRPHANMRVYVNLTV 479
SL+ Y+ DLP +L P L + + IR
Sbjct: 299 TPDEVKSLLLKYL--DCRPQDLP-REVLTTNPRRL----SIIAESIRDGLATWDNWKHVN 351
Query: 480 KEKTYSNKLIRTEGDEEIRIETMCPND------GFVYFRNSELISGQLGKATLGNGNKDG 533
+K +I E + + P + F S I
Sbjct: 352 CDKL--TTII------ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI------------- 390
Query: 534 LYSVLLRDYGAHATSGCMNRLAKLS--ARWIGNHGFSIGIDDVQ--PKKELSDKKG--KL 587
L S++ D +N+L K S + +I I + K +L ++ +
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ--PKESTISIPSIYLELKVKLENEYALHRS 448
Query: 588 ISENYEVCNVKIKEYNEGKLQLKPGCD 614
I ++Y + K ++ L + P D
Sbjct: 449 IVDHYNI----PKTFDSDDL-IPPYLD 470
Score = 57.9 bits (139), Expect = 2e-08
Identities = 74/556 (13%), Positives = 151/556 (27%), Gaps = 209/556 (37%)
Query: 745 RLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANMEGKS---GEPLNFDRLL---- 797
+L +AL +L R A ++ G G GK+ + ++
Sbjct: 139 KLRQALLEL--------RPAKNVLI---DGVLGS------GKTWVALDVCLSYKVQCKMD 181
Query: 798 -----MKVKATCPPAGQRYLSPQQ-VSEIVEKQLAAYGKESCS-----EAFLNSLRKFFE 846
+ +K P L Q + ++ + S + + LR+ +
Sbjct: 182 FKIFWLNLKNCNSPETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 847 GQQDK-----LDKKIKFVEDIGWDDK--------SQILEEVTHKTSGITEKQLEVFIQTC 893
+ + L ++ + K +IL +T + +T+
Sbjct: 240 SKPYENCLLVLL-------NV-QNAKAWNAFNLSCKIL--LTTRFKQVTD---------- 279
Query: 894 FSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFH-------FAGVASMNITQGVPRIK 946
+ A + T Q +PR
Sbjct: 280 ----------------FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP-QDLPR-- 320
Query: 947 EIINGAKRISTP----IITAELECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLAS 1002
E + P II + R + K V +L +
Sbjct: 321 E----VLTTN-PRRLSIIAESI---------RDGLATWDNW---------KHVNCDKLTT 357
Query: 1003 IVIALDMETIQDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLEIFPPVDKSKIHF 1062
I I+ +N V P ++ F +L +FP + I
Sbjct: 358 I--------IE---SSLN--------VLEPAE-YRKM------FDRLSVFP--PSAHIPT 389
Query: 1063 ELYSL-----KNVLPMVIVKGIKTVERVVIAEKEKEKR----------KVKENGEKKKYR 1107
L SL MV+V K + ++ ++ KE KVK E +R
Sbjct: 390 ILLSLIWFDVIKSDVMVVVN--KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 1108 LLVEGTGLQAV-----MGAEGIDG--CKTKSNHIFEVQQTLGIEAARICIID------EI 1154
+V+ + + +D +H+ ++ + R+ +D +I
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 1155 NET---MKAHGMSID--------KRHM--------MLLADLMTF---------RGEVLGI 1186
A G ++ K ++ L+ ++ F + +
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 1187 TRFGIQKMDKSVLMLA 1202
R + D+++ A
Sbjct: 568 LRIALMAEDEAIFEEA 583
Score = 56.8 bits (136), Expect = 5e-08
Identities = 62/455 (13%), Positives = 137/455 (30%), Gaps = 117/455 (25%)
Query: 55 RSKVTESLQEFASAITHTKESKAAVNVATY--------ILNPVNVLFLFKRMTDTDCEVL 106
R + L++ E + A NV + ++V +K D ++
Sbjct: 133 RLQPYLKLRQ------ALLELRPAKNVLIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIF 185
Query: 107 YLS----ERPEKLI-----ITNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNA-- 155
+L+ PE ++ + P R + + I L+R++++
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD-HSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 156 -SLQQELV-------EANSAF----KSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLS 203
L LV +A +AF K L T +V ++++ + L+
Sbjct: 245 NCL---LVLLNVQNAKAWNAFNLSCKILL--TTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 204 G------FVQRLKGKQGRFRGNLSGKRVEYTGRTVISPDPNLKITEVAIPIR--MARILT 255
++ L + L E +P +++ +A IR +A
Sbjct: 300 PDEVKSLLLKYLDCRPQD----L---PREVLT---TNP---RRLSIIAESIRDGLATW-- 344
Query: 256 YPERVSDHNIEKLRQCIQNGPDKYPGARMIRY-------PDG---TARVL-----YGKFR 300
+ N +KL I++ + A + P +L
Sbjct: 345 --DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS 402
Query: 301 N--QLAVELKSGCIVDRHLEDGDVVLFNRQ----------PSLHRMSIMCHRARIMPWRT 348
+ + +L +V++ ++ + + + +LHR + + +T
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP----KT 458
Query: 349 LRFNESVCNP---YNADFDGDEMNMHVPQTEEARTEALL------LMGVQNNLC---TPK 396
++ + Y G H+ E L ++ + T
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGH----HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514
Query: 397 NGEILVAST-QDFLTSSFLITRKDTFYDRAAFSLM 430
N + +T Q I D Y+R +++
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL 549
Score = 47.5 bits (112), Expect = 3e-05
Identities = 69/511 (13%), Positives = 145/511 (28%), Gaps = 160/511 (31%)
Query: 817 VSEIVEKQLAAYGKESCSEAF-----LNSLRKFFEGQQDKLDKKIK-FVEDI-----GWD 865
++ + + KE ++ + F K ++ ++ FVE++ +
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94
Query: 866 DKSQILEEVTHKTSGITEKQLEVFIQTC-----FSRYRVKRVEAGTAIGAIGAQSIGEPG 920
S I E + S +T +E + F++Y V R++ + + P
Sbjct: 95 -MSPIKTE-QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ-ALLEL-RPA 150
Query: 921 TQMTL-------KT---------------FHFAGVASMNITQGVPRIKEII--------- 949
+ + KT F + +N+ + ++
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF-KIFWLNLKN-CNSPETVLEMLQKLLYQ 208
Query: 950 ---NGAKRISTPIITAELECNDNENAAR--VVKGRIEKTLL-------GQVAKSI----K 993
N R +L + + R + E LL + + K
Sbjct: 209 IDPNWTSRSDHSS-NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 994 IVMTSRLASIVIALDMETIQDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLEIFP 1053
I++T+R + L T H+ + S+ TP ++K +K LD R ++
Sbjct: 268 ILLTTRFKQVTDFLSAATTT--HIS----LDHHSMTLTPD-EVKSLLLKYLDCRPQDL-- 318
Query: 1054 PVDKSKIHFELYSLKNVLPMVI------VK-GIKTVERVVIAEKEKEKRKVK-------E 1099
P + + P + ++ G+ T + +K ++
Sbjct: 319 PREVLTTN----------PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368
Query: 1100 NGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFE--VQQTLGIEAARICII---DEI 1154
+K + L +F I + +I
Sbjct: 369 AEYRKMFDRLS-----------------------VFPPSAH----IPTILLSLIWFDVIK 401
Query: 1155 NETM----KAHGMS-IDKR--------HMMLLADLMTFRGEV-----LGITRFGIQKM-- 1194
++ M K H S ++K+ + L + E + + + I K
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNIPKTFD 460
Query: 1195 --DKSVLMLAS--FEKTADHLFNASVNGRDD 1221
D L + HL N R
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491
Score = 38.3 bits (88), Expect = 0.022
Identities = 42/362 (11%), Positives = 106/362 (29%), Gaps = 114/362 (31%)
Query: 1 MRNPKMEALRKT---DLMKSIVKKCSTMASKAVKCPR--CGYINGMVKKAVAVLGIIHDR 55
+ ++ T D +KS++ K + PR N ++++
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDC--RPQDLPREVLT-TNPR---RLSIIA----- 334
Query: 56 SKVTESLQEFASAITHTKES---------KAAVNVATYILNPVNVLFLFKRMTDTDCEVL 106
ES+++ + + K ++++NV L P +F V
Sbjct: 335 ----ESIRDGLATWDNWKHVNCDKLTTIIESSLNV----LEPAEYRKMFD-----RLSVF 381
Query: 107 YLSERPEKLIITNIAVPPIAIR----------PSVIMDG--------SQSNEN-----DI 143
P + +P I + V+++ Q E+ I
Sbjct: 382 -----PP-----SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 144 TERLKRIIQTNASLQQELVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLS 203
LK ++ +L + +V+ + K+ + + + QY +S + L
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF--------YS-HIGHHLK 482
Query: 204 GFVQRLKGKQGRFRG---NLS--GKRVEYTGRTVISPDPNLKITEVAIPIRMARILTYPE 258
+ FR + +++ + + L + ++ Y
Sbjct: 483 N--IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT--------LQQLKFYKP 532
Query: 259 RVSDHN------IEKLRQCIQNGPDKYPGARMIRYPDGTARVLYGKFRNQLAVELKSGCI 312
+ D++ + + + +I +L ++A+ + I
Sbjct: 533 YICDNDPKYERLVNAILDFLPK-----IEENLICSKY--TDLL------RIALMAEDEAI 579
Query: 313 VD 314
+
Sbjct: 580 FE 581
Score = 35.6 bits (81), Expect = 0.13
Identities = 55/349 (15%), Positives = 99/349 (28%), Gaps = 104/349 (29%)
Query: 985 LGQVAKSIKIVMTSRLASIVIALDMETIQDAHLCINADIVKESIVQTPK----------- 1033
G+ K +++ + V D + +QD I + + I+ +
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 1034 IKLKQQHIKVLDFRKLEIFPPVD--KSKIHFE---------LY-SLKNVL---PMVIVKG 1078
+ KQ+ + V F + + S I E +Y ++ L V K
Sbjct: 71 LLSKQEEM-VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 1079 IKTVERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGAEG-----IDGCKTKS-- 1131
V R+ + + R+ K +L++G + G +D C +
Sbjct: 130 --NVSRL---QPYLKLRQALLELRPAKN-VLIDG------VLGSGKTWVALDVCLSYKVQ 177
Query: 1132 ----NHIF--------------EVQQTL--GIEAARICIID-EINETMKAHGMSIDKRHM 1170
IF E+ Q L I+ D N ++ H + + R +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 1171 M--------LL----------ADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLF 1212
+ LL + ++L TR K V S T
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR------FKQVTDFLSAATTTHISL 291
Query: 1213 NASVNGRDDRIEGVS------ECIIMGIP------MPLGTGILKIRQRD 1249
+ E S +C +P P I+ RD
Sbjct: 292 DHHSMTLTPD-EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
>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 = 64.7 bits (157), Expect = 2e-10
Identities = 63/333 (18%), Positives = 108/333 (32%), Gaps = 97/333 (29%)
Query: 25 MASKAVKCPRCGYINGMVKKA---VA--VLGIIHDRSKVTESLQEFASAITHTKESKAAV 79
+ S + CP + G+++ A V +LG E A H++ AV
Sbjct: 231 LLSIPISCP----LIGVIQLAHYVVTAKLLGFTPG-----ELRSYLKGATGHSQGLVTAV 281
Query: 80 NVAT------YILNPVNVL-FLFKRMTDTDCEVLYLSERPEKLIITNIAVPPIAIRPSVI 132
+A + ++ + LF ++ R A P ++ PS++
Sbjct: 282 AIAETDSWESFFVSVRKAITVLF-----------FIGVR------CYEAYPNTSLPPSIL 324
Query: 133 MDGSQSNEN---------DIT-ERL-KRIIQTNASLQQE------LVEANSA--F----- 168
D ++NE ++T E++ + +TN+ L LV N A
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV--NGAKNLVVSGP 382
Query: 169 -KSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQR------------LKGKQGR 215
+SL G + D +PFS R L F R L
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFS---ERKLK-FSNRFLPVASPFHSHLLVPASDL 438
Query: 216 FRGNLSGKRVEYTGR----TVISPD--PNLKITEVAIPIRMAR-ILTYP---ERVSDHNI 265
+L V + + V +L++ +I R+ I+ P E +
Sbjct: 439 INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKA 498
Query: 266 EKLRQCIQNGPDKYPG--ARMIRYPDGT-ARVL 295
+ + GP G R DGT RV+
Sbjct: 499 THI---LDFGPGGASGLGVLTHRNKDGTGVRVI 528
Score = 63.5 bits (154), Expect = 4e-10
Identities = 96/596 (16%), Positives = 164/596 (27%), Gaps = 237/596 (39%)
Query: 36 GYINGMVKKAVAVLGIIHDRSKVTESLQEFASAITHTKESKAAVNVATYILNPVNVLFLF 95
GY++ +V+ + + L EF + + ++ L N L
Sbjct: 66 GYVSSLVEPSKVG----QFDQVLNLCLTEFENCYLEGND----IHALAAKLLQENDTTLV 117
Query: 96 KRMTDTDCEVL--YLSERPEKLIITNIAVPPIAIRPSVIMD-------------GSQSNE 140
K E++ Y++ R I+ + S + G Q N
Sbjct: 118 KTK-----ELIKNYITAR----IMAKRPFDKKS--NSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 141 ND-ITE----------RLKRIIQTNASLQQELVEANSAFKS-------LAGWETLQVEVA 182
+D E + +I+ +A EL+ + + W L+
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW--LENPSN 224
Query: 183 Q----YINSDVRGVPFSMQVARPLSGFVQ--------RLKGKQ-GRFRGNLSGKRVEYTG 229
Y+ S +P S PL G +Q +L G G R L G TG
Sbjct: 225 TPDKDYLLS----IPISC----PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA----TG 272
Query: 230 RT--VISPDPNLKITEVAIPIRMA--------------RIL---------TYPERVSDHN 264
+ +++ A+ I +L YP +
Sbjct: 273 HSQGLVT----------AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 265 IEKLRQCIQNGPDKYPGARM--IRYPDGTARVLYGKFRNQLAVELKSGCIVDRHLEDGDV 322
I L ++N + P M I + Q+ + + HL G
Sbjct: 323 I--LEDSLENN-EGVPSP-MLSIS----------NLTQEQVQDYVNK---TNSHLPAGKQ 365
Query: 323 V---LFN--RQ------P-SLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNM 370
V L N + P SL+ ++ TLR P D
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLN-----------LTLR---KAKAPSGLD-------- 403
Query: 371 HVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAF-SL 429
Q+ P + L S + FL + + F S
Sbjct: 404 ---QSR-----------------IPFSERKLKFSNR-FLP----VA--------SPFHSH 430
Query: 430 MCCYMGDGMDRV--DLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVNLTVKEKTYSNK 487
+ D + DL + + K + I P VY T+
Sbjct: 431 ---LLVPASDLINKDLVKNNV-----SFNAKDI---QI-P-----VY-------DTFDGS 466
Query: 488 LIRTEGDEEIR-----IETMCPN-DGFVYFRNSELIS-GQLGKATLG---NGNKDG 533
+R I + + F+ + ++ G G + LG + NKDG
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDG 522
Score = 60.8 bits (147), Expect = 3e-09
Identities = 99/671 (14%), Positives = 186/671 (27%), Gaps = 273/671 (40%)
Query: 349 LR--FNESVCNPYNADFDGDEMNMHVPQTEEARTEALLL---MGVQNNLCTPKNG----E 399
L+ FN+ + P F D+ E T A L+ +G ++L P +
Sbjct: 33 LQEQFNKILPEPTEG-FAADD---------EPTTPAELVGKFLGYVSSLVEPSKVGQFDQ 82
Query: 400 ILVASTQDFLTSSFLITRKD--TFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTG 457
+L +F + +L D A L+ + T +
Sbjct: 83 VLNLCLTEF-ENCYL-EGNDIHAL----AAKLL----------QENDTTLVKT------- 119
Query: 458 KQLFSVLIRPHANMRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELI 517
LI+ + R+ +K ++ L R G+ ++ F
Sbjct: 120 ----KELIKNYITARIMAKRPF-DKKSNSALFRAVGEGNAQL--------VAIF------ 160
Query: 518 SGQLGKATLGNGNK--DGL------YSVLLRDYGAHATSGCMNRLAKLSARWIGNHGFSI 569
GQ GN + + L Y VL+ D ++ ++ L + + F+
Sbjct: 161 GGQ------GNTDDYFEELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDA--EKVFTQ 211
Query: 570 GID--------DVQPKKE------LSDKKGKLIS----ENYEV-CNVKIKEYNEGKLQLK 610
G++ P K+ +S LI +Y V + L
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPIS---CPLIGVIQLAHYVVTAKL---------LGFT 259
Query: 611 PGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGSKGSPINISQMVACV 670
PG + L+ L + + +++ S S
Sbjct: 260 PG-ELRSYLKGATG-------------HSQGLV---TAVAIAETDSWES----------- 291
Query: 671 GQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSATEFFFHTMGGREGLV 730
F + + + F+ G+ E + L
Sbjct: 292 -------------FFV-------------SVRKAITVLFFIGVRCYEAY-----PNTSLP 320
Query: 731 DTAVKTADTG------YM-S-RRL-IKALEDLSIQYDN-----------SVRNAGGCIVQ 770
+ ++ + M S L + ++D + N S+ N +V
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDY-VNKTNSHLPAGKQVEISLVNGAKNLV- 378
Query: 771 FLYGDDGMDPANMEGKSGEPLNFDRLLMKVKATCPPAG--Q--------------RYL-- 812
+ G P ++ G + L K KA P+G Q R+L
Sbjct: 379 -VSGP----PQSLYG-------LNLTLRKAKA---PSGLDQSRIPFSERKLKFSNRFLPV 423
Query: 813 -----SP--QQVSEIVEKQLAAYGKESCSEAFLNSLR----KFFEGQQD--KLDKKIK-- 857
S S+++ K L ++ ++ F+G D L I
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNAK----DIQIPVYDTFDGS-DLRVLSGSISER 478
Query: 858 -----FVEDIGWDDKSQILEEVTH-------KTSGITEKQLEVFIQTCFSRYRVKRVEAG 905
+ W+ +Q + TH SG+ R + G
Sbjct: 479 IVDCIIRLPVKWETTTQF--KATHILDFGPGGASGLGV--------------LTHRNKDG 522
Query: 906 TAIGAIGAQSI 916
T + I A ++
Sbjct: 523 TGVRVIVAGTL 533
Score = 50.0 bits (119), Expect = 6e-06
Identities = 40/313 (12%), Positives = 95/313 (30%), Gaps = 110/313 (35%)
Query: 811 YLSPQQVSEIVEK----QLAAYGKESCSEAFLN---SLRKFFEGQQDKLDKKI-----KF 858
Y + + ++ + YG S + +N +L F G++ K +I
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYG-FSILDIVINNPVNLTIHFGGEKGK---RIRENYSAM 1691
Query: 859 VEDIGWDDKSQ---ILEEVTHKTSGIT-EKQLEVFIQTCF----------SRYRVKRVEA 904
+ + D K + I +E+ ++ T + + T F + + + +
Sbjct: 1692 IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKG 1751
Query: 905 GTAIGAIGA-QSIGEPGTQMTLKTF----HFAGVASMNITQGVPRIKEIINGAKRISTPI 959
A A S+GE + A V M+I
Sbjct: 1752 LIPADATFAGHSLGE---------YAALASLADV--MSI--------------------- 1779
Query: 960 ITAELECNDNENAARVVK--GRIEKTLL--GQVAKSIKIVMTSRLASIVIALDMETIQDA 1015
E+ VV G + + ++ +S ++ + + E +Q
Sbjct: 1780 ----------ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY- 1828
Query: 1016 HLCINADIVKES--IVQ-----TP--------KIK--------LKQQHIKVLDFRKLEIF 1052
+ + K + +V+ ++ L ++ +D +L+
Sbjct: 1829 ---VVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKS 1885
Query: 1053 PPVDKSKIHFELY 1065
+++ + H L+
Sbjct: 1886 LSLEEVEGH--LF 1896
Score = 49.3 bits (117), Expect = 1e-05
Identities = 57/311 (18%), Positives = 100/311 (32%), Gaps = 110/311 (35%)
Query: 926 KTFHFAGVASMNITQGVPRIK-EIINGAKRISTPIITAELECNDNENAARVV----KGRI 980
T HF G I + + E I K + I E+ NE++ KG +
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF-KEI----NEHSTSYTFRSEKGLL 1726
Query: 981 EKTLLGQVAKSIKIVMTSRLASIVIALDME----TIQDA----H-------LCINADIVK 1025
T Q A + L D++ DA H L AD++
Sbjct: 1727 SATQFTQPA----LT----LMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM- 1777
Query: 1026 ESIVQTPKIKLKQQHIKVLDFR--KLEIFPPVDKSKIHFELYSLKNVLPMVIVKGI--KT 1081
SI ++V+ +R +++ P D+ Y + + P + +
Sbjct: 1778 -SIESL---------VEVVFYRGMTMQVAVPRDELGR--SNYGMIAINPGRVAASFSQEA 1825
Query: 1082 VERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTL 1141
++ VV +R K G LVE V N+ E QQ
Sbjct: 1826 LQYVV-------ERVGKRTGW------LVE-----IV-------------NYNVENQQ-- 1852
Query: 1142 GIEAARICIIDEINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLML 1201
+ ++A +D + +++ F + + + I ++ KS+
Sbjct: 1853 --------YV--AAGDLRA----LDT-----VTNVLNF----IKLQKIDIIELQKSL--- 1886
Query: 1202 ASFEKTADHLF 1212
S E+ HLF
Sbjct: 1887 -SLEEVEGHLF 1896
Score = 48.5 bits (115), Expect = 2e-05
Identities = 68/382 (17%), Positives = 101/382 (26%), Gaps = 165/382 (43%)
Query: 543 GAHATSGCMNR-LAKLS--AR--W-------IGNHGFSIGIDDVQ--PKK---ELSDKKG 585
G+ G M L K S A+ W +GFSI +D V P +KG
Sbjct: 1625 GSQEQ-G-MGMDLYKTSKAAQDVWNRADNHFKDTYGFSI-LDIVINNPVNLTIHFGGEKG 1681
Query: 586 KLISENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWR 645
K I ENY + + D E + +I S +
Sbjct: 1682 KRIRENYS------------AMIFETIVDGKLKTEKIFKEINEHST---------SYTF- 1719
Query: 646 NSPLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHF--P---------- 693
R+ G + F P
Sbjct: 1720 ---------------------------------RSEKGLLS--ATQFTQPALTLMEKAAF 1744
Query: 694 RKAKEPAAKGFV-ANSFYSGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALED 752
K KG + A++ ++G S E+ A+ + MS +E
Sbjct: 1745 EDLKS---KGLIPADATFAGHSLGEY-------------AAL-ASLADVMS------IES 1781
Query: 753 LSIQYDNSVRNAGGCIVQFLYGD--DGMDPANMEGKSGEPLNFDRLLMKVKATCPPAGQR 810
L V +V F G P + G+S + A P
Sbjct: 1782 L-------VE-----VV-FYRGMTMQVAVPRDELGRSN---------YGMIAINPGRVAA 1819
Query: 811 YLSPQQVSEIVEKQLAAYGKESCSEAFLNSLRKFFEGQQ----------DKLD------- 853
S + + +VE ++ N E QQ D +
Sbjct: 1820 SFSQEALQYVVE-RVGKRTGWLVEIVNYNV-----ENQQYVAAGDLRALDTVTNVLNFIK 1873
Query: 854 -KKIKFVEDIGWDDKSQILEEV 874
+KI +E KS LEEV
Sbjct: 1874 LQKIDIIE----LQKSLSLEEV 1891
Score = 47.4 bits (112), Expect = 3e-05
Identities = 78/491 (15%), Positives = 143/491 (29%), Gaps = 149/491 (30%)
Query: 639 MGSLPWRNSPLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAK- 697
M + R PL +S GS + + + Q + F LP
Sbjct: 1 MDAYSTR--PLTLSH-GSLEHVLLVPTASFFIASQ----LQE--QFNK-ILPEPTEGFAA 50
Query: 698 --EPAAK--------GFVAN--------SFYSGLSATEFFFHT--MGGRE--GLVDTAVK 735
EP G+V++ F L+ F + G + L ++
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 736 TADTGYMSRR-LIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANMEGKSGEPLNFD 794
DT + + LIK Y + A P + + S
Sbjct: 111 ENDTTLVKTKELIKN-------YITARIMAK-------------RPFDKKSNS------- 143
Query: 795 RLLMKVKATCPPA-------GQ----RYLSPQQVSEIVEKQL-AAYGKESCSEAFLNSLR 842
L V A GQ Y E+ + L Y +
Sbjct: 144 ALFRAVGE--GNAQLVAIFGGQGNTDDYFE-----ELRD--LYQTY--HVLVGDLIKFSA 192
Query: 843 KFFEG-QQDKLDKKIKFVE--DI-GW-DDKSQILEE-------VTHKTSGITEKQLEVFI 890
+ + LD + F + +I W ++ S ++ ++ G+ QL ++
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI--QLAHYV 250
Query: 891 QTC----FSRYRVKRVEAGTAI---GAIGAQSIGEPGT--------QMTLKTFHFAGVAS 935
T F+ ++ G G + A +I E + + + F GV
Sbjct: 251 VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC 310
Query: 936 MNITQGVPRIKEIINGAKRISTPIITAELECNDNENAAR---VVKGRIEKTLLGQVAKSI 992
+ P P I + N NE + ++ + V K+
Sbjct: 311 ---YEAYPNTS---------LPPSILEDSLEN-NEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 993 KIVMTSRLASIVIALDMETIQDAHLCINADIVKESIVQT-PKIKLKQQHIKVLDFRKLEI 1051
+ + + I+L +N +++V + P L + L RK +
Sbjct: 358 SHLPAGK--QVEISL-----------VNGA---KNLVVSGPPQSL---YGLNLTLRKAKA 398
Query: 1052 FPPVDKSKIHF 1062
+D+S+I F
Sbjct: 399 PSGLDQSRIPF 409
Score = 42.3 bits (99), Expect = 0.001
Identities = 52/282 (18%), Positives = 90/282 (31%), Gaps = 107/282 (37%)
Query: 7 EALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTESLQEFA 66
EA T L SI++ ++ V P M+ ++ + + +V + + +
Sbjct: 312 EAYPNTSLPPSILEDSLE-NNEGVPSP-------ML----SISNL--TQEQVQDYVNKTN 357
Query: 67 SAITHTKESK----AAVNVAT-YILN-PVNVLFLF-------KRMTDTD-CEVLYLSERP 112
+H K + VN A +++ P L+ K + D + + SER
Sbjct: 358 ---SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF-SER- 412
Query: 113 EKLIITN----IAVP--------------------PIAIRPS-----V--IMDGS--QSN 139
KL +N +A P ++ V DGS +
Sbjct: 413 -KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL 471
Query: 140 ENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQVA 199
I+ER+ I V+ WET A +I + F
Sbjct: 472 SGSISERIVDCIIR------LPVK----------WETTTQFKATHI------LDFG---- 505
Query: 200 RPLSGFVQRLKGKQGRFRGNLSGKRVEYTG-RTVI--SPDPN 238
P G L G L+ + + TG R ++ + D N
Sbjct: 506 -P--GGASGL--------GVLTHRNKDGTGVRVIVAGTLDIN 536
Score = 35.4 bits (81), Expect = 0.16
Identities = 79/499 (15%), Positives = 139/499 (27%), Gaps = 167/499 (33%)
Query: 827 AYGKESCSEAFLNSLRKFFEGQQDKLDKKIKFVEDIGWDDKSQILEEVTHKTSGITEK-- 884
++G L FF Q L + ++IL E T + E
Sbjct: 12 SHGSLEHV--LLVPTASFFIASQ--L-----------QEQFNKILPEPTEGFAADDEPTT 56
Query: 885 QLEVFIQTCFSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTF----------HFAGVA 934
E+ + F Y VE + + L F H A A
Sbjct: 57 PAELVGK--FLGYVSSLVEPSK-------VGQFDQVLNLCLTEFENCYLEGNDIH-ALAA 106
Query: 935 SM--NITQGVPRIKEII-------NGAKRISTPIITAELECNDNENAARVV-----KGRI 980
+ + + KE+I AKR + L E A++V +G
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 981 E-------------KTLLGQVAKSIKIVMTSRLASIVIA-----------LDMET-IQDA 1015
+ L+G + K L+ ++ L++ +++
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKF----SAETLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 1016 HLCINADIVKESIVQTPKIKLKQ-QHI----KVLDFRKLEIFPPVDKSKIHFELYSLKNV 1070
+ D + + P I + Q H K+L F E+ LK
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS------------YLKGA 270
Query: 1071 LPMVIVKGIKTVERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTK 1130
+G+ V V IAE + + + + + + +G
Sbjct: 271 T--GHSQGL--VTAVAIAE---------TDSWESFFVSVRKAITVLFFIGVRC------- 310
Query: 1131 SNHIFEVQQTLGIEAARICIID---EINETMKAHGMSIDKRHMMLLADLMTFRGEVLGIT 1187
+ + I++ E NE + + ML + +T
Sbjct: 311 -------YEAYPNTSLPPSILEDSLENNEGVPSP---------MLS---------ISNLT 345
Query: 1188 RFGIQKMDKSVLMLASFEKTADHLFNAS------VNGRDDRIEGVSECIIMGIPMPLGTG 1241
+ +Q KT HL VNG + + VS G P L
Sbjct: 346 QEQVQDY---------VNKTNSHLPAGKQVEISLVNGAKNLV--VS-----GPPQSLYGL 389
Query: 1242 ILKIRQRDAVPPMLKYGAP 1260
L +R+ A + + P
Sbjct: 390 NLTLRKAKAPSGLDQSRIP 408
>3h28_A Sulfide-quinone reductase; monotopic membrane protein, flavoprotein,
polysulfur, oxidoreductase; HET: FAD DCQ LMT; 2.00A
{Aquifex aeolicus} PDB: 3h27_A* 3h29_A* 3hyv_A* 3hyw_A*
3hyx_A*
Length = 430
Score = 31.2 bits (71), Expect = 2.2
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 1065 YSLKNVLPMVIVKGIK-TVERVVIAEKEKEKRKVK-ENGEKKKYRLLVEGTGLQAVMGAE 1122
L +LP ++ I E + + + V ++G+K +Y LV TG + V GAE
Sbjct: 60 VPLAPLLPKFNIEFINEKAESI-----DPDANTVTTQSGKKIEYDYLVIATGPKLVFGAE 114
Query: 1123 GIDG 1126
G +
Sbjct: 115 GQEE 118
>3ojy_B Complement component C8 beta chain; macpf, lipocalin, immune
system; HET: TPO BMA; 2.51A {Homo sapiens}
Length = 537
Score = 30.6 bits (68), Expect = 4.2
Identities = 26/175 (14%), Positives = 52/175 (29%), Gaps = 18/175 (10%)
Query: 533 GLYSVLLRDYGAH-ATSGCM----NRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKL 587
G Y L RD+G H T + ++ + ++ +++V + K G
Sbjct: 277 GEYRDLFRDFGTHYITEAVLGGIYEYTLVMNKEAMERGDYT--LNNVHACAKNDFKIGGA 334
Query: 588 ISENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLP---- 643
I E Y V + + ++K +E ++ + E LP
Sbjct: 335 IEEVYVSLGVSVGKCRGILNEIKDRNKRDTMVEDLVVLVRGGASEHITTLAYQELPTADL 394
Query: 644 ---WRNS----PLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPH 691
W ++ P I+ + + A ++A F
Sbjct: 395 MQEWGDAVQYNPAIIKVKVEPLYELVTATDFAYSSTVRQNMKQALEEFQKEVSSC 449
>3zwc_A Peroxisomal bifunctional enzyme; beta oxidation pathway,
oxidoreductase, lipid metabolism, LY isomerase,
peroxisome, fatty acid metabolism; HET: NAD HSC; 2.30A
{Rattus norvegicus} PDB: 3zw9_A* 3zw8_A* 3zwa_A* 3zwb_A*
2x58_A*
Length = 742
Score = 30.3 bits (69), Expect = 5.6
Identities = 14/106 (13%), Positives = 31/106 (29%), Gaps = 27/106 (25%)
Query: 931 AGVASMNITQGVP-RIKEIINGAKRISTPIITAELECNDNENAARVVKGRIEKTLLGQVA 989
G+A G+ E D + K I TL + +
Sbjct: 329 RGIAISFARVGISVVAVES-------------------DPKQLDAA-KKIITFTLEKEAS 368
Query: 990 KSIKIVMTSRLASIVIALDMETIQDAHLCINADIVKESIVQTPKIK 1035
++ + S + + + + D+V E++ + +K
Sbjct: 369 RAHQNGQASAKPKLRFSSSTKELST------VDLVVEAVFEDMNLK 408
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 6.7
Identities = 8/56 (14%), Positives = 20/56 (35%), Gaps = 9/56 (16%)
Query: 815 QQVSEIVEKQLAAYGK-ESCSEAFLNSLRKFFEGQQDKLDKKIK--------FVED 861
+Q + E A+ + E L ++ + Q ++++K F +
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
>2jf7_A Strictosidine-O-beta-D-glucosidase; alkaloid, hydrolase; 2.48A
{Rauvolfia serpentina} PDB: 2jf6_A
Length = 532
Score = 29.9 bits (68), Expect = 6.8
Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 13/58 (22%)
Query: 533 GLYSVLLRDYGAHATSGCMNRLAKLSARW----IGNHGFSIGIDDVQPKKELSDKKGK 586
G+ V DY + R K SA W I + + + ++ K +
Sbjct: 482 GIIHV---DY---KS---FERYPKESAIWYKNFIAGKSTTSPAKRRREEAQVELVKRQ 530
>1zcj_A Peroxisomal bifunctional enzyme; peroxisomal multifunctional enzyme
type 1, L-bifunction enzyme, MFE-1, fatty acid beta
oxidation; 1.90A {Rattus norvegicus}
Length = 463
Score = 29.5 bits (67), Expect = 9.0
Identities = 18/144 (12%), Positives = 46/144 (31%), Gaps = 41/144 (28%)
Query: 968 DNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETIQDAHLCINADIVKES 1027
D + K I TL + +++ + S + + + + D+V E+
Sbjct: 69 DPKQLDAA-KKIITFTLEKEASRAHQNGQASAKPKLRFSSSTKELST------VDLVVEA 121
Query: 1028 IVQTPKIKLKQQHIKVLDFRKLE-------IFP------PVDK----SK-------IHFE 1063
+ + +K + + F +L VD + HF
Sbjct: 122 VFEDMNLK---KKV----FAELSALCKPGAFLCTNTSALNVDDIASSTDRPQLVIGTHF- 173
Query: 1064 LYSLKNVLPMV-IVKGIKTVERVV 1086
+S +V+ ++ ++ + +
Sbjct: 174 -FSPAHVMRLLEVIPSRYSSPTTI 196
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
0.319 0.135 0.391
Gapped
Lambda K H
0.267 0.0510 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 19,208,178
Number of extensions: 1219296
Number of successful extensions: 2469
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2413
Number of HSP's successfully gapped: 56
Length of query: 1265
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1160
Effective length of database: 3,770,088
Effective search space: 4373302080
Effective search space used: 4373302080
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: 63 (28.6 bits)