RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8410
(951 letters)
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B
2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Length = 1131
Score = 649 bits (1676), Expect = 0.0
Identities = 226/977 (23%), Positives = 369/977 (37%), Gaps = 168/977 (17%)
Query: 68 LGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFN 127
L H+ S++ + L +++ I EI LK+ + K I +P+V G
Sbjct: 26 LVRQHLDSYNDFVRNKLQEIIDEQGEIPTEI--PGLKVRLGKIRIGKPRVRESDRGER-- 81
Query: 128 KYYPTEARQTRSVYSGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQL 187
+ P EAR Y+ P +T+ + +G +PIMLKS + T +L
Sbjct: 82 EISPMEARLRNLTYAAPLWLTMIPVENNIEAEPEEVYIGDLPIMLKSAIDPISQYTLDKL 141
Query: 188 IERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVK 247
IE GE P + GGYFIV G E+++ + N + G + I S
Sbjct: 142 IEIGEDPKDPGGYFIVNGSERVIVTQEDLAPNRVLVDT----GKTGSNITHTAKIISSTA 197
Query: 248 RDESATNNVLHFVTNGSARFMFSHRKSMCLLGMM-------------------------- 281
+ + +G+ F ++
Sbjct: 198 GYRVPVT--IERLKDGTFHVSFPAVPGKIPFVILMRALGILTDRDIVYAVSLDPEIQNEL 255
Query: 282 -QSLHE-EGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHL----DDY 335
SL + I D+ F G + + R +E ++ LPHL DD
Sbjct: 256 FPSLEQASSIANVDDALDFIGSRVAIGQKRENR----IEKAQQIIDKYFLPHLGTSADDR 311
Query: 336 WDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKK------------ 383
K L++ K+ + G + D +D + + G L+ L +
Sbjct: 312 RKKAYYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQ 371
Query: 384 -EKSGTSAVLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENI 442
EKS ++ + A R + + + LATGN +G + +
Sbjct: 372 LEKSKVRG--RKLALKALVRPDIVTERIRHALATGNWV---------GGRTGVSQLLDRT 420
Query: 443 NRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQI 502
N + +SH R V + + E R L WG +CP TP+G GL+ +L QI
Sbjct: 421 NWLSMLSHLRRVISS-LARGQPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALMAQI 479
Query: 503 SEYIPSKVLAQIPSVLVSLGMLPL---------TPVIQSIPEQALMVMLDGRIVGYILDQ 553
+ I K + L +G++P+ Q+ + V+L+GR+VGY D
Sbjct: 480 AVGINEK---IVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYRD- 535
Query: 554 IATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAG 613
L K+R + G +I + + ++ +++ GR+ RP++ ++ G
Sbjct: 536 -GEELAKKIRERRRKG-EISDEVNVGHIVTDFIN-----EVHVNCDSGRVRRPLIIVSNG 588
Query: 614 N--------------------------IEWIGTFEQVFMDICITMKEAYPGITTHRELSK 647
N IE++ E+ + + + P TH E+
Sbjct: 589 NPLVTREDIEKLDSGSITFDDLVRQGKIEYLDAEEEENAYVALEPSDLTP-EHTHLEIWS 647
Query: 648 TDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFR 707
L A++IP P+ NQSPRN YQ M KQ +G N++ + + + L P P +
Sbjct: 648 PAILGITASIIPYPEHNQSPRNTYQSAMAKQALGLYAANYQLRTDTRAHLLHYPQRPLVQ 707
Query: 708 PVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELES 767
D + N P G NAI+AVIS+TGY+MED++I+N+SS ERG F+ E
Sbjct: 708 TRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFRLYSTEE-- 765
Query: 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKL 827
+ DK + R K L
Sbjct: 766 ------------------------------VKYPGGQEDKIVMPEPGVRGYKGKEYYRLL 795
Query: 828 GPDGLVYVGAKLNERDPMYSYW-------------KESENRYVTCRYSGKEEMCVEVVRM 874
+G+V ++ D + E R + E V++V +
Sbjct: 796 EDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKELSPEQAKRDTSIVTRHGEMGIVDLVLI 855
Query: 875 SSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPD 934
+ + R R P++GDKFASR GQKG+ + P D+P+T G+VPD
Sbjct: 856 TETAEGN-----KLVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYTVKGVVPD 910
Query: 935 IVFNPHGFPSRMTIGFL 951
++ NPH PSRMT+G +
Sbjct: 911 VILNPHALPSRMTLGQI 927
Score = 89.5 bits (222), Expect = 3e-18
Identities = 20/44 (45%), Positives = 29/44 (65%)
Query: 766 ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQ 809
+ GY TE Y G G ++++I+FGVV+YQ+L HMV+DK
Sbjct: 962 KYGYLPDATEVTYDGRTGQKIKSRIYFGVVYYQKLHHMVADKIH 1005
>1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B
1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B*
1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B*
1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ...
Length = 1224
Score = 374 bits (961), Expect = e-112
Identities = 229/1051 (21%), Positives = 364/1051 (34%), Gaps = 242/1051 (23%)
Query: 72 HIASFDFMLDEGLDLAVEDIAPIEFEI----------YGKTLKLNIVKAAISEPKVPAGP 121
+ SF+ +D L + + + + E + +++ K +++P V
Sbjct: 47 QLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESD 106
Query: 122 VGIHFNKYYPTEARQTRSVYSGPFNVTV-----------------AWSWDGKAGGTFTKE 164
H YP EAR YS V V + + + +
Sbjct: 107 GVTH--ALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGK 164
Query: 165 V--GRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPI 222
V GR+PIML+SK C+L T + L + E P + GGYFI+ G EK++ I
Sbjct: 165 VFIGRLPIMLRSKNCYLSEATESDLYKLKECPFDMGGYFIINGSEKVL-----------I 213
Query: 223 AIKRNAWKNRGLLFSD-------LGVYIRSVKRDESATNNVL-------HFVTNGSARFM 268
A +R+A N +F IRS S + L + + +
Sbjct: 214 AQERSA-GNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSARTIKAT 272
Query: 269 FSHRKS-------MCLLGM-----------------------MQSLHEE-GIHTQHDSKV 297
+ K LG+ + + I + +
Sbjct: 273 LPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALD 332
Query: 298 FFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHL----DDYWDKFLCLSHMTCKLFHVV 353
F G+ + + +L LPH+ K L +M +L
Sbjct: 333 FIGRRGTALGIKKEKRIQYA---KDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCA 389
Query: 354 QGMVQLDSEDSIMLQEIMTGGSLYLQL-----------LKKEKSGTSAVLKESDIYAAFR 402
D D + + G L QL + + T + ++ A
Sbjct: 390 LDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAIN 449
Query: 403 ASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQE 462
A +I S + LATGN K + + +G + +SH R ++
Sbjct: 450 AKTITSGLKYALATGNWGEQKKA---MSSRAGVSQVLNRYTYSSTLSHLRRT-NTPIGRD 505
Query: 463 MRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLG 522
+ ++PRQL WG +CP TP+G CGL+ +L+ IS + L G
Sbjct: 506 GKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITF---LSEWG 562
Query: 523 MLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLK 582
M PL + A V ++G G + L+ LR L+ G I + ++
Sbjct: 563 MEPLEDYVPHQSPDATRVFVNGVWHGVHRN--PARLMETLRTLRRKG-DINPEVSMIRDI 619
Query: 583 RPEKGMGLYPGLYLFTGPGRMLRP---------------------VMNLAAGN------- 614
R ++ L +FT GR+ RP + L A
Sbjct: 620 REKE-------LKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGG 672
Query: 615 -----------------IEWIGTFEQVFMDICITMKE----------------------- 634
+E+I E+ + I + ++
Sbjct: 673 FEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVS 732
Query: 635 AYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGK 694
+ TH E+ + L A++IP PD NQSPRN YQ MGKQ MG N+ +
Sbjct: 733 HHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTM 792
Query: 695 LYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAH 754
L P P + L P G NAIVA+ Y+GY+ ED+MI+N+SS +RG
Sbjct: 793 ANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFR 852
Query: 755 GCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYF 814
F+S Y E Y +++ ++
Sbjct: 853 SLFFRS----------YMDQEKKYGM----------------------SITETFEKPQRT 880
Query: 815 GRDPANKALEDKLGPDGLVYVGAKLNERDPM--------------YSYWKESENRYVTCR 860
DKL DGL+ G +++ D + R +
Sbjct: 881 NTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTP 940
Query: 861 YSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWP 920
E V+ V +++ +G + R + P +GDKFASR GQKG + +
Sbjct: 941 LRSTENGIVDQVLVTTN-QDGL----KFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYR 995
Query: 921 AEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951
ED+PFT G+VPD++ NPH PSRMT+ L
Sbjct: 996 REDMPFTAEGIVPDLIINPHAIPSRMTVAHL 1026
Score = 80.7 bits (199), Expect = 2e-15
Identities = 30/74 (40%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 741 MILNKSSYERG-FAHGCIFKSMFIE------LESGYNYYGTETMYSGVDGSMMQAQIFFG 793
+L+K + G F + +E E GY G E MY+G G + AQIFFG
Sbjct: 1029 CLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFG 1088
Query: 794 VVHYQRLRHMVSDK 807
+YQRLRHMV DK
Sbjct: 1089 PTYYQRLRHMVDDK 1102
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1210
Score = 355 bits (913), Expect = e-106
Identities = 224/1053 (21%), Positives = 364/1053 (34%), Gaps = 244/1053 (23%)
Query: 72 HIASFDFMLDEGLDLAVEDIAPIEFEI----------YGKTLKLNIVKAAISEPKVPAGP 121
+ SFD + + V+D + + + + ++N + +S P +
Sbjct: 34 QLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQGDVTRRYEINFGQIYLSRPTMTEAD 93
Query: 122 VGIHFNKYYPTEARQTRSVYSGPFNVTVA-----------------WSWDGKAGGTFTKE 164
+P EAR YS P V + W + +
Sbjct: 94 GSTT--TMFPQEARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVF 151
Query: 165 VGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIAI 224
+G++PIML+S C L ++ ++L + E P + GGYFI+ G EK++ IA
Sbjct: 152 IGKIPIMLRSTFCILNGVSDSELYDLNECPYDQGGYFIINGSEKVI-----------IAQ 200
Query: 225 KRNAWKNRGLLFSD-------LGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSMCL 277
+R+A N +F IRS S + + L
Sbjct: 201 ERSA-ANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNTENSGQTIRATL 259
Query: 278 ---------------LGM-----------------------MQSLHE-EGIHTQHDSKVF 298
LG+ + E I + + +
Sbjct: 260 PYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDY 319
Query: 299 FGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHL----DDYWDKFLCLSHMTCKLFHVVQ 354
G+ + L +L +LPH+ K L +M ++
Sbjct: 320 IGKRGSTTGVTREKRLRYAH---DILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCAL 376
Query: 355 GMVQLDSEDSIMLQEIMTGGSLYLQL-----------LKKEKSGTSAVLKESDIYAAFRA 403
+ D D + + G L L + K +E ++ A ++
Sbjct: 377 ERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKYMQKCVETNREFNLTLAVKS 436
Query: 404 SSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEM 463
+ I + + LATGN K S ++ G + +SH R ++
Sbjct: 437 NIITNGLRYSLATGNWGDQKRS---MVNRVGVSQVLNRYTFASTLSHLRRT-NTPIGRDG 492
Query: 464 RSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGM 523
+ ++PRQL WG +CP TP+G CGL+ +L+ +S PS + + L G+
Sbjct: 493 KLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEF---LEEWGL 549
Query: 524 LPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKR 583
L S A V ++G +G D L LR L+ I + IV R
Sbjct: 550 ETLEDYNPSASPNATKVFVNGVWLGVHRD--PAHLTETLRSLRRRL-DISAEVSIVRDIR 606
Query: 584 PEKGMGLYPGLYLFTGPGRMLRP----------------------VMNLAAGN------- 614
++ L LFT GR+ RP + L
Sbjct: 607 EKE-------LRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQLIEDKDRYDIDP 659
Query: 615 --------------IEWIGTFEQVFMDICITMKE-------------------------- 634
IE++ E+ + I ++ ++
Sbjct: 660 EQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPA 719
Query: 635 --AYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGV 692
+ TH E+ L LA++IP PD NQSPRN YQ MGKQ MG N++ +
Sbjct: 720 PNPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMD 779
Query: 693 GKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGF 752
L P P + L P G NAIVA++ Y+GY+ ED++I+N++S +RG
Sbjct: 780 TMANILYYPQKPLATTRSMEYLKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGL 839
Query: 753 AHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKD 812
+++ Y E V ++++
Sbjct: 840 FRSIFYRT----------YTDQEKKIGM----------------------TVMEEFERPV 867
Query: 813 YFGRDPANKALEDKLGPDGLVYVGAKLNERDPM--------------YSYWKESENRYVT 858
DKL DGL+ G +++ D + + R V+
Sbjct: 868 RSTTLRMKHGTYDKLEDDGLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRDVS 927
Query: 859 CRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVK 918
E V+ V +++ EG + R R P +GDKFASR GQKG +
Sbjct: 928 TPLRSTESGIVDQVMVTTN-QEGL----KFVKVRMRSTRIPQIGDKFASRHGQKGTIGMT 982
Query: 919 WPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951
+ ED+PF+ G+VPDI+ NPH PSRMT+ L
Sbjct: 983 YRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHL 1015
Score = 79.9 bits (197), Expect = 2e-15
Identities = 32/115 (27%), Positives = 46/115 (40%), Gaps = 9/115 (7%)
Query: 741 MILNKSSYERG-FAHGCIFKSMFIE------LESGYNYYGTETMYSGVDGSMMQAQIFFG 793
L+K S G F + +E G+ G E MY G G + AQ+F G
Sbjct: 1018 CQLSKVSALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLG 1077
Query: 794 VVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSY 848
+YQRL+H+V DK + + + DG + G ERD S+
Sbjct: 1078 PTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEM--ERDCQISH 1130
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1
PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C*
2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C*
3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Length = 1119
Score = 65.8 bits (161), Expect = 6e-11
Identities = 23/50 (46%), Positives = 30/50 (60%)
Query: 900 TVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIG 949
VGDK A+R G KG+ + P ED+P G D++ NP G PSRM +G
Sbjct: 834 QVGDKLANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLG 883
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_C*
Length = 1342
Score = 59.0 bits (143), Expect = 6e-09
Identities = 28/60 (46%), Positives = 36/60 (60%), Gaps = 2/60 (3%)
Query: 890 YIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIG 949
Y+ ++R GDK A R G KG+ S P ED+P+ ++G DIV NP G PSRM IG
Sbjct: 1053 YLA--VKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIG 1110
Score = 38.9 bits (91), Expect = 0.009
Identities = 29/139 (20%), Positives = 48/139 (34%), Gaps = 40/139 (28%)
Query: 52 KNFGKPPDKQNEFLLTLGAPH-----IASFDFML------DEGLDLAVEDIAPIEFEIYG 100
K+FGK P L P+ + SF + GL+ A + PI+ Y
Sbjct: 13 KDFGKRPQ-------VLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQ--SYS 63
Query: 101 KTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVA-WSWDGKAGG 159
+L V + EP + E + YS P V + ++ +A
Sbjct: 64 GNSELQYVSYRLGEPV------------FDVQECQIRGVTYSAPLRVKLRLVIYEREAPE 111
Query: 160 TFTKEV-------GRVPIM 171
K++ G +P+M
Sbjct: 112 GTVKDIKEQEVYMGEIPLM 130
Score = 36.6 bits (85), Expect = 0.044
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 19/106 (17%)
Query: 403 ASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFR---AVHRGSY 459
A I +A+ F + +S Q M N + ++H R A+ G
Sbjct: 495 AKPISAAVKEFFGSSQLS-------QFM---------VQNNPLSEITHKRRISALGPGGL 538
Query: 460 FQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEY 505
+E E R + +G +CP+ TP+G GL+N L+ Q +EY
Sbjct: 539 TRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLSVYAQTNEY 584
Score = 30.5 bits (69), Expect = 3.4
Identities = 8/24 (33%), Positives = 17/24 (70%)
Query: 721 MGTNAIVAVISYTGYDMEDAMILN 744
+G N VA + + GY+ ED+++++
Sbjct: 796 LGQNMRVAFMPWNGYNFEDSILVS 819
>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 = 55.6 bits (133), Expect = 6e-08
Identities = 95/808 (11%), Positives = 211/808 (26%), Gaps = 288/808 (35%)
Query: 14 LFPVNLRHIHEVLLVFKVLKMILNQNTLSAPSLKNLTDKNFGKPPDKQNEFLLTLGAPHI 73
+ V + V M ++ LS + ++ L
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMP--KSILSKEEIDHI----IMSKDAVSGTLRL------- 67
Query: 74 ASFDFMLD---EGLDLAVEDIAPIEFEIYGKTLKLN---IVKAAISEPKVPAGPVGIHFN 127
F +L E + VE++ L++N ++ +E + P+
Sbjct: 68 --FWTLLSKQEEMVQKFVEEV-----------LRINYKFLMSPIKTEQRQPSMMT----R 110
Query: 128 KYYPTEARQTRSVYS-GPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQ 186
Y R +NV+ R+ LK ++ L L PA+
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVS------------------RLQPYLKLRQA-LLELRPAK 151
Query: 187 LIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVY---I 243
+ G V G K + ++ ++ + D ++ +
Sbjct: 152 NV--LID-----G---VLGSGKTW-VALDVCLSYKV-----------QCKMDFKIFWLNL 189
Query: 244 RSVKRDESATNNVLHFVTNGSARFMFSHRKSMCLLGMMQSLHE--EGIHTQHDSKVFFGQ 301
++ E+ +L M+Q L + T +
Sbjct: 190 KNCNSPET-------------------------VLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 302 IFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDK-----FLCLSHMTCKLFHVVQGM 356
+ +Q +LR L + NC+L L + + F +++CK+
Sbjct: 225 LRIHSIQAELRRL----LKSKPYENCLLV-LLNVQNAKAWNAF----NLSCKI------- 268
Query: 357 VQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSAVLKESDIYAAFRASSIESAMTNFLAT 416
++T + + Q+ + T+ + ++S + +L
Sbjct: 269 -------------LLT--TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 417 GNVSAGKNSTL--QLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTD 474
+ L +++ + + S E D
Sbjct: 314 ------RPQDLPREVLTTNPRRL--------------------SIIAESIRDGL--ATWD 345
Query: 475 AWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVL----VSLGMLPL-TPV 529
W H+ + +++ I S + P+ L + P
Sbjct: 346 NW-----------------KHVNCD-KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH- 386
Query: 530 IQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMG 589
IP L ++ ++ + + L K +++ K+P++
Sbjct: 387 ---IPTILL-SLIWFDVIKSDVMVVVNKLH-KYSLVE---------------KQPKESTI 426
Query: 590 LYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTD 649
P +YL + + N A + + + Y + D
Sbjct: 427 SIPSIYL-----ELKVKLENEYALHRSIV---------------DHY---NIPKTFDSDD 463
Query: 650 FLSNLANLIPMPD---CNQSPRNMYQCQMGKQTMGTPC--LNWRYQGVGKLYRLQTPASP 704
+ P D + ++ + ++ L++R+ K+ R + A
Sbjct: 464 L------IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE-QKI-RHDSTAWN 515
Query: 705 FFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYER------GFAHGC-- 756
+ + Y Y + N YER F
Sbjct: 516 ASGSILNTLQQLKF-------------YKPY-----ICDNDPKYERLVNAILDFLPKIEE 557
Query: 757 -IFKSMFIEL-------ESGYNYYGTET 776
+ S + +L E +
Sbjct: 558 NLICSKYTDLLRIALMAEDEAIFEEAHK 585
Score = 52.5 bits (125), Expect = 7e-07
Identities = 68/500 (13%), Positives = 148/500 (29%), Gaps = 134/500 (26%)
Query: 5 FECFRELFTLFPVNLRHIHEVLLVFKVLKMILNQNTLSAPSLKNLTDKNFGKPPDKQNEF 64
+C + F +F +NL++ + V L+M+ P+ + +D + + +
Sbjct: 176 VQCKMD-FKIFWLNLKNCNSPETV---LEMLQKLLYQIDPNWTSRSDHSS-NIKLRIHSI 230
Query: 65 -----LLTLGAPHIASFDFMLDEGLDLAVEDIAPIE-FEIYGKTL---KLNIVKAAISEP 115
L P+ +L V++ F + K L + V +S
Sbjct: 231 QAELRRLLKSKPYENCLL-VLLN-----VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 116 KVPAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSK 175
+ H P E + K + P L +
Sbjct: 285 TTTHISLDHHSMTLTPDEVK-----------------------SLLLKYLDCRPQDLPRE 321
Query: 176 RCH----LRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLL---INNRRNHPIAIKRNA 228
++ + + D W +KL ++ +N P ++
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHV----NCDKLTTIIESSLNVLE--PAEYRK-- 373
Query: 229 WKNRGLLFSDLGVYIRSVKR---------DESATNNVLHFVTNGSARFMFSHRKSMCLLG 279
+F L V+ S + ++V+ V H+ S+
Sbjct: 374 ------MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK-------LHKYSLVEKQ 420
Query: 280 MMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLR-H---LNEVEI-CDYMLTNCILPHLDD 334
+S I + + K KL+ + H ++ I + + I P+LD
Sbjct: 421 PKESTI--SIPSIYLE-------LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471
Query: 335 YWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQL----LKKEKSGTS- 389
Y+ + H H + ++ + + L ++L K T+
Sbjct: 472 YFYSH--IGH------H----LKNIEHPERMTLFR-----MVFLDFRFLEQKIRHDSTAW 514
Query: 390 -------AVLKESDIYAAF------RASSIESAMTNFLATGNVSAGKNSTLQLMQASGFV 436
L++ Y + + + +A+ +FL + + L++
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR---IA 571
Query: 437 IMAENINRMRYMSHFRAVHR 456
+MAE + + + V R
Sbjct: 572 LMAE--DEAIFEEAHKQVQR 589
Score = 39.1 bits (90), Expect = 0.008
Identities = 43/336 (12%), Positives = 84/336 (25%), Gaps = 124/336 (36%)
Query: 559 VPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGR------MLR--PVMNL 610
V +L+ K+ ++L + RP K + + G+ G G+ + V
Sbjct: 131 VSRLQPYL----KLRQALLEL---RPAKNVLID-GV---LGSGKTWVALDVCLSYKVQCK 179
Query: 611 AAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNM 670
I W+ +K S L L L+ D N
Sbjct: 180 MDFKIFWL------------NLK---------NCNSPETVLEMLQKLLYQIDPNW----- 213
Query: 671 YQCQMGKQTMGTPC-LNWRYQGVGKLYRLQTPASPFFRPVHYDTL-DMDNFPMGTNAIVA 728
+ ++ +L RL + + L +
Sbjct: 214 --TSRSDHSSNIKLRIHSIQA---ELRRL------LKSKPYENCLLVLL----------- 251
Query: 729 VISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGV-DGSMMQ 787
++++A N F C K + T + V D
Sbjct: 252 -------NVQNAKAWNA------FNLSC--KILLT------------TRFKQVTD----- 279
Query: 788 AQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKALED------KLGPDGLVYVG 836
F + + + K + + +D P L +
Sbjct: 280 ---FLSAATTTHIS-LDHHSMTLTPDEVKSLLLK-YLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 837 AKLNERDPMYSYWKESENRYVTC-RYSGKEEMCVEV 871
+ + + WK +V C + + E + V
Sbjct: 335 ESIRDGLATWDNWK-----HVNCDKLTTIIESSLNV 365
>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 = 47.0 bits (111), Expect = 4e-05
Identities = 97/604 (16%), Positives = 177/604 (29%), Gaps = 183/604 (30%)
Query: 16 PVNLRH--IHEVLLV-------FKVLKMILNQNTLSAPSLKNLTDKNFGKPPDKQNEFLL 66
P+ L H + VLLV L+ N+ L P+ + + P E L+
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNK-ILPEPT-EGFAADD---EPTTPAE-LV 61
Query: 67 T--LGAPHIASFDFMLDEGLDLAVEDIAPIEFEI-YGKTLKLN----IVKAAISEPKVPA 119
LG +++S G V ++ EFE Y L+ N + + E
Sbjct: 62 GKFLG--YVSSLVEPSKVGQFDQVLNLCLTEFENCY---LEGNDIHALAAKLLQENDTTL 116
Query: 120 GPVGIHFNKYYPTEARQT--RSVYSGPFNVTVAWSWDGKA------GG-----TFTKEVG 166
Y AR R + +G A GG + +E
Sbjct: 117 VKTKELIKNYI--TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE-- 172
Query: 167 RVPIMLKSKRCHLRNL--TPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIAI 224
LR+L T L+ I E L L+
Sbjct: 173 ------------LRDLYQTYHVLVGD----------LIKFSAETLSELIRTTLDAEK--- 207
Query: 225 KRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSMCLLGMMQSL 284
+F+ G+ I + S T + + + S S L+G++Q
Sbjct: 208 ----------VFTQ-GLNILEWLENPSNTPDKDYLL---SIPI------SCPLIGVIQLA 247
Query: 285 HEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSH 344
H + T G+ + L+ H + +T + D W+ F
Sbjct: 248 HY--VVTAKLLGFTPGE-LRSYLKGATGHSQGL------VTAVAIAETDS-WESFFVSVR 297
Query: 345 MTCK-LFHV---VQGMVQLDSEDSIMLQEIMTGG-----------SLYLQLLKKEKSGTS 389
LF + S +L++ + +L + ++ + T+
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 390 AVL-KESDIYAAFRASSIESAMTNFLATGNVSA--GKNSTLQLMQASGFVIMAENINRMR 446
+ L + + + N + +G + G N TL+ +A + +R+
Sbjct: 358 SHLPAGKQVEISLVNGA-----KNLVVSGPPQSLYGLNLTLRKAKAP----SGLDQSRIP 408
Query: 447 YMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFI---CPVHTPDGTPCGLLNHLTTNCQIS 503
+ SE R+L+ F+ P H+ LL + I+
Sbjct: 409 F------------------SE-RKLKFS-NRFLPVASPFHSH------LLV--PASDLIN 440
Query: 504 EYIPSKVLAQIPSVLVSLGMLPLTPV--------IQSIPEQALMVMLDGRIVGYILDQIA 555
+ + ++ + + PV ++ L G I I+D I
Sbjct: 441 KDLVKNNVSFNAK---DIQI----PVYDTFDGSDLRV---------LSGSISERIVDCII 484
Query: 556 TSLV 559
V
Sbjct: 485 RLPV 488
Score = 45.0 bits (106), Expect = 1e-04
Identities = 71/501 (14%), Positives = 135/501 (26%), Gaps = 180/501 (35%)
Query: 4 VFECFRELFTLFPVNLRH--IHEVLLVFKVLKMILNQNTLSAPSLKNLTDKNF------- 54
F + L IH + L +N + K L KN+
Sbjct: 87 CLTEFENCY------LEGNDIHALAAKL------LQENDTTLVKTKELI-KNYITARIMA 133
Query: 55 GKPPDKQNEFLL----TLGAPHI-ASF-------DFMLDEGLDLAVEDIAPIEFEIYGKT 102
+P DK++ L G + A F D+ +E DL ++ Y
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY-FEELRDL---------YQTYHVL 183
Query: 103 LKLNIVKAA-----ISEPKVPAGPVGIHFNKYYPTEA--RQTRSVYSGPFNVTVAWSWDG 155
+ I +A + + A F + + + +++ S
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEK---VFTQGLNILEWLENPSNTPDKDYLLSIPISC-- 238
Query: 156 KAGGTFTKEVGRVP-IMLKS-----KRCHLRNLTPAQLIE--RG--------------EH 193
P I + L TP +L +G
Sbjct: 239 -------------PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 194 PDEWGGY-----------FIVG--GHE---------KLVRLLINNRRNHP---IAIKRNA 228
D W + F +G +E ++ + N P ++I
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI---- 341
Query: 229 WKNRGLLFSDLGVYIRSVKRDESATNNVLHF-VTNGSARFMFS-HRKSMCLLGMMQSLHE 286
L + Y+ + + NG+ + S +S L G+ +L +
Sbjct: 342 ---SNLTQEQVQDYVNKT-NSHLPAGKQVEISLVNGAKNLVVSGPPQS--LYGLNLTLRK 395
Query: 287 EGIHTQHD-SKVFFGQIFKEKLQYDLR--------HLNEVEICDYML--TNCILPHLDDY 335
+ D S++ F + KL++ R H ++ ++ I L
Sbjct: 396 AKAPSGLDQSRIPFSE---RKLKFSNRFLPVASPFH------SHLLVPASDLINKDLVKN 446
Query: 336 ---WDKFLCLSHMTCKLFHVVQGMVQLDSEDSI---MLQEIMT----------------- 372
++ + ++ G SI ++ I+
Sbjct: 447 NVSFNA----KDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Query: 373 ----GGSLYL-QLLKKEKSGT 388
GG+ L L + K GT
Sbjct: 503 DFGPGGASGLGVLTHRNKDGT 523
Score = 44.7 bits (105), Expect = 2e-04
Identities = 97/563 (17%), Positives = 159/563 (28%), Gaps = 217/563 (38%)
Query: 375 SLYLQLLKK-----EKSGTSAVLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQL 429
+ Q+L E + L+ +DI+A A+ + L T +L
Sbjct: 78 GQFDQVLNLCLTEFE----NCYLEGNDIHAL--AAKLLQENDTTLV---------KTKEL 122
Query: 430 MQA--SGFVIMAENINRMRYMSHFRAVHRGS---------------YFQEMR-------- 464
++ + ++ ++ + FRAV G+ YF+E+R
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 465 --------SSE----------------PRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNC 500
S+E + L W + P TP ++L +
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW-----LENPSNTP--DKDYLLS-I 234
Query: 501 QISEYIPSKVLAQIPSVLVSLGMLPLTP--VIQSIPEQALMVMLDGRIVGYILDQIATS- 557
IS P + Q+ +V+ +L TP + + + G + IA +
Sbjct: 235 PIS--CPLIGVIQLAHYVVTAKLLGFTPGELRSYL--KGATGHSQGLVTAVA---IAETD 287
Query: 558 -------LVPK-LRMLKIVG----EKIPK-SLEIVYLKRP-EKGMGLYPGLYLFTGPGRM 603
V K + +L +G E P SL L+ E G+ P M
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV---------PSPM 338
Query: 604 LRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDC 663
L + NL T EQV + T +H K +S L N
Sbjct: 339 LS-ISNL---------TQEQVQDYVNKT--------NSHLPAGKQVEIS-LVN------- 372
Query: 664 NQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDT-LDMDNFPMG 722
+N+ G P LY L R + LD P
Sbjct: 373 --GAKNLVVS-------GPP---------QSLYGLNL----TLRKAKAPSGLDQSRIPFS 410
Query: 723 TNAIVAVISY--------TGYDMEDA--MILNKSSYERGFAHGCIF--KSMFIELESGYN 770
+ + + + A +I + + F K + I
Sbjct: 411 ERKLKFSNRFLPVASPFHSHL-LVPASDLIN-----KDLVKNNVSFNAKDIQI------- 457
Query: 771 YYGTETMYSGVDGSMMQA-----------QIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA 819
+Y DGS ++ I V W+T F A
Sbjct: 458 -----PVYDTFDGSDLRVLSGSISERIVDCIIRLPVK-----------WETTTQF---KA 498
Query: 820 NKALEDKLGPDGLVYVGAKLNER 842
L+ GP G +G L R
Sbjct: 499 THILD--FGPGGASGLG-VLTHR 518
Score = 37.3 bits (86), Expect = 0.030
Identities = 31/176 (17%), Positives = 51/176 (28%), Gaps = 63/176 (35%)
Query: 15 FPVNLRHIHEVLLVFKVLKMILNQNTLSAPSLKNLTDKNFGK-PPDKQNEFLLTLGAP-H 72
P +L L + K APS + + F + N FL + +P H
Sbjct: 382 PPQSLYG-----LNLTLRK-------AKAPSGLDQSRIPFSERKLKFSNRFL-PVASPFH 428
Query: 73 IASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKL--------------------NIVKAAI 112
+ L DL +D+ K +++ IV I
Sbjct: 429 -SHL---LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII 484
Query: 113 SEP-------KVPA------GP-----VG--IHFNKYYPTEARQTRSVYSGPFNVT 148
P + A GP +G H NK + R + +G ++
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNK----DGTGVRVIVAGTLDIN 536
Score = 35.8 bits (82), Expect = 0.083
Identities = 56/355 (15%), Positives = 94/355 (26%), Gaps = 131/355 (36%)
Query: 693 GKL-YRLQTPASPFFR------------PVHYDTLDMDNFPMGTNAIVA-VISYTGYDME 738
G L + L P + FF P + D+ P +V + Y +E
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 739 DA------MILNKS--SYERGFAHG----CIFKSMFIELESGY--------NYYGTETM- 777
+ +LN +E + G + + E ++ NY M
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 778 ---YSGVDGSMM-------QAQIF--FG----VVHY-QRLRHMVSDKWQT-----KDYFG 815
+ S + AQ+ FG Y + LR + +QT D
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL----YQTYHVLVGDLI- 188
Query: 816 RDPANKALE---------DKLGPDGLVYVGAKLNERD--PMYSYWKESE----------- 853
+ + L +K+ GL + L P Y
Sbjct: 189 -KFSAETLSELIRTTLDAEKVFTQGL-NILEWLENPSNTPDKDYLLSIPISCPLIGVIQL 246
Query: 854 -NRYVTCRYSGK--EEM---------CVEVVRMSSGFTEGGSV---TPNCA-------YI 891
+ VT + G E+ + + + E S + +I
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI 306
Query: 892 GYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRM 946
G R +P LP ++ D + N G PS M
Sbjct: 307 GVRCYEA--------------------YPNTSLP---PSILEDSLENNEGVPSPM 338
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor,
transferase-transcription complex; 2.91A {Thermus
aquaticus}
Length = 188
Score = 31.4 bits (72), Expect = 0.77
Identities = 13/70 (18%), Positives = 25/70 (35%), Gaps = 13/70 (18%)
Query: 81 DEGLDLAVEDIAPIE-FEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRS 139
+ G+ A ++ PIE + L L+ ++ I +P + E R+
Sbjct: 26 NVGIQAAFKETFPIEEGDKGKGGLVLDFLEYRIGDPP------------FSQDECREKDL 73
Query: 140 VYSGPFNVTV 149
Y P +
Sbjct: 74 TYQAPLYARL 83
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 1.3
Identities = 5/42 (11%), Positives = 12/42 (28%), Gaps = 15/42 (35%)
Query: 461 QEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQI 502
Q ++ + L+ ++ D P L +
Sbjct: 20 QALKKLQAS-LK---------LYADDSAPA-----LAIKATM 46
Score = 30.3 bits (67), Expect = 1.4
Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 17/47 (36%)
Query: 570 EKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIE 616
EK ++L K+ + + LY P + + A +E
Sbjct: 18 EK--QAL-----KKLQASLKLY-------ADDSA--PALAIKA-TME 47
>2va0_A ABFS arabinofuranosidase two component system SEN protein; kinase,
PAS domain, transferase; 2.60A {Cellvibrio japonicus}
Length = 131
Score = 28.9 bits (64), Expect = 4.3
Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 798 QRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESENRYV 857
Q LR M + W + + D N+ L + P G++ + +L + P + NR +
Sbjct: 30 QDLRAMPN--WSLRFVYIVDRNNQDLLKRPLPPGIMVLAPRLTAKHPYDKV--QDRNRKL 85
Query: 858 TCRY-SGKEEMCVEVVRMSSGFTEG 881
R+ + + V+VV +S+G EG
Sbjct: 86 YGRHITLNDGNSVKVVTISAGRDEG 110
>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}
Length = 354
Score = 28.6 bits (64), Expect = 9.7
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 906 ASRAGQKGICSVKWPAEDLPFTDSGLVPD-IVFNP 939
A +G I ++ A LP D I+ NP
Sbjct: 248 ALASGLSWIRFLRADARHLPRFFPE--VDRILANP 280
>2ree_A CURA; GNAT, S-acetyltransferase, decarboxylase, polyketid synthase,
loading, phosphopantetheine, transferase, lyase; HET:
SO4; 1.95A {Lyngbya majuscula} PDB: 2ref_A*
Length = 224
Score = 28.4 bits (63), Expect = 9.9
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 530 IQSIPEQALMVMLDGRIVGYIL 551
I IP+ ++ L+ +IVG I
Sbjct: 49 IFKIPQGQFILELEDKIVGAIY 70
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
0.322 0.138 0.424
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 14,817,434
Number of extensions: 916586
Number of successful extensions: 2030
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1992
Number of HSP's successfully gapped: 33
Length of query: 951
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 848
Effective length of database: 3,825,930
Effective search space: 3244388640
Effective search space used: 3244388640
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 (21.9 bits)
S2: 62 (27.9 bits)