RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16767
(1020 letters)
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 689 bits (1779), Expect = 0.0
Identities = 274/1049 (26%), Positives = 454/1049 (43%), Gaps = 128/1049 (12%)
Query: 9 SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQA 68
S +AE + V Q + P+ P+ G++QD + K SLRD FLTR MN++
Sbjct: 500 SEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAVMNIML-- 557
Query: 69 LCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGS 128
+ + + PP I KP LWTGKQ+LS +I PK +IR D KQ S
Sbjct: 558 -WVPDWDGILPPPVILKPKVLWTGKQILSLII----PKGINLIR--------DDDKQSLS 604
Query: 129 TQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAK 188
D+ + I +GE++ G++DKK G++Q GLVH +W G E + + +
Sbjct: 605 N-------PTDSGMLIENGEIIYGVVDKKTVGASQGGLVHTIWKEKGPEICKGFFNGIQR 657
Query: 189 LFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISS 248
+ +L GF++G+ D + + ++ T+ + +ARR E +A L +P +
Sbjct: 658 VVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQHNRLKPEPGMT-- 715
Query: 249 QLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGS 308
+ +++ + ++ N +NN++ MV +G+KGS
Sbjct: 716 ---------------LRESFEAKVSRILNQARDNAGRSAEHSLKDSNNVKQMVAAGSKGS 760
Query: 309 TVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFF 368
+N Q+S +GQ +EGKR RTLP F + SP + GF++ ++ G+ PQEFF
Sbjct: 761 FINISQMSACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFF 820
Query: 369 FHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLD 428
FH MAGREGLIDTAVKT+ +GY+QR LVK +E + V YD TVR++ +IQ YGEDGLD
Sbjct: 821 FHAMAGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLD 880
Query: 429 VTKRQYLT-----------DKQFSFLEDNIKWICSYKVILNLLKKHPLSLALL------L 471
T +Y +K++ + + Y + N ++ LL L
Sbjct: 881 ATLVEYQVFDSLRLSTKQFEKKYRIDLMEDRSLSLY--MENSIENDSSVQDLLDEEYTQL 938
Query: 472 LLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKACPQ----------- 520
+ + K F R +++ + +K P
Sbjct: 939 VADRELLCKFIFPKGDARWPLPVNVQRIIQNALQIFHLEAKKPTDLLPSDIINGLNELIA 998
Query: 521 ---------PLISTFQPDAH--FGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKNLL 569
+ Q +A F + + + R + + + +
Sbjct: 999 KLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKRVIMEYRLNKVAFEWIMGEVEARFQQ 1058
Query: 570 SLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTP 629
++ +PGE VG LAAQSIGEP+TQMTLNTFH+AG NVTLG+PRL+EIL K IKTP
Sbjct: 1059 AVVSPGEMVGTLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEIL-NVAKNIKTP 1117
Query: 630 SMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKEWLEISPEPHMNYQMKFCFIP 689
S+ I +P + A + + T++ V +I P+P + ++
Sbjct: 1118 SLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSATEIHY----DPDP-QDTVIEEDKDF 1172
Query: 690 AHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEG 749
+ + + + L+ LE+ AK + L ++ + +
Sbjct: 1173 VEAFFAIPDEEVEENLYKQSPWLLR-LELDRAKMLDKKLSMSDVAGKIAESFER------ 1225
Query: 750 EGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTS 809
D+ + D D + ++ +++D E+ ++ +
Sbjct: 1226 -------------DLFTIWSEDNADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGH 1272
Query: 810 NIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKESKHLL 869
+ + T V++ + HK ++ + E+ + +L
Sbjct: 1273 MLESISLRGVPNITRVYMME--------HKIVRQIEDGTF------------ERADEWVL 1312
Query: 870 KTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDP 929
+TDGIN+ +D + Y N + GIEA +++E++NV G V+
Sbjct: 1313 ETDGINLTEAMTVEG-VDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNY 1371
Query: 930 RHLSLVADYMTHSGTYVAMNRNGI-RLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPS 988
RHL+L+ D MT G +A+ R+GI R + + +FE +E + A+ G +D + S
Sbjct: 1372 RHLALLCDVMTSRGHLMAITRHGINRAETGALMRCSFEETVEILMDAAASGEKDDCKGIS 1431
Query: 989 ARVMLGQECRQGTGLFQLRNREKKKKKVE 1017
+MLGQ GTG F + +
Sbjct: 1432 ENIMLGQLAPMGTGAFDIYLDQDMLMNYS 1460
>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 = 678 bits (1751), Expect = 0.0
Identities = 271/1055 (25%), Positives = 440/1055 (41%), Gaps = 144/1055 (13%)
Query: 13 KAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCIL 72
+AE S L V Q + P+ P G++QD + KL+LRDTF+ + +N++Y +
Sbjct: 498 RAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLY---WVP 554
Query: 73 NTEIRTLPPTIWKPMPLWTGKQVLSTVI---INLTPKDKVIIRHGELLSGILDKKQFGST 129
+ + P I KP PLW+GKQ+LS I I+L D+ S
Sbjct: 555 DWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDE--------------GTTLLSP 600
Query: 130 QYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKL 189
+ D + I G+++ G+++KK GS+ GL+H V G + L + K+
Sbjct: 601 K--------DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKV 652
Query: 190 FTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQ 249
+L GF+ G+ D + R+ T+ I +A++ + A L
Sbjct: 653 VNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHG----- 707
Query: 250 LQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGST 309
+ ++ + + N + NN++ MV +G+KGS
Sbjct: 708 ------------MTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSF 755
Query: 310 VNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFF 369
+N Q+S +GQ +EGKR A RTLP F + SP + GFV+ ++ G+ PQEFFF
Sbjct: 756 INIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFF 815
Query: 370 HCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDV 429
H M GREGLIDTAVKT+ +GY+QR LVK LE + VHYD T R+S ++IQ +YGEDG+D
Sbjct: 816 HAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDA 875
Query: 430 TKRQYLT-----------DKQFSFLEDNIKWICSYKVI--LNLLKKHPLSLALL------ 470
+ + +K++ N ++ + + LL
Sbjct: 876 AHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQ 935
Query: 471 ------LLLTFKSSGKPNF--------IFSPHRTKFTMDL-----LEQWYQLDDKARKKY 511
L G+ N+ I + F +D L + +
Sbjct: 936 LVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQE 995
Query: 512 RKKFKACPQPLISTFQPDA--HFGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKNLL 569
+I Q DA F + + + + R D I + L
Sbjct: 996 NLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLR 1055
Query: 570 SLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTP 629
S+ +PGE VGVLAAQSIGEP+TQMTLNTFHFAG VT G+PRL+EIL K +KTP
Sbjct: 1056 SVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEIL-NVAKNMKTP 1114
Query: 630 SMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKI----KEWLEISPEPHMNYQMKF 685
S+ + P +++A + ++ T+ V +I + PE Q+ F
Sbjct: 1115 SLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHF 1174
Query: 686 CFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVE 745
+ + P + +R + + ++ + + + + + ED+
Sbjct: 1175 SLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSEDN-- 1232
Query: 746 DDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREED 805
++ + +V + + D E +E+ M ++ E+
Sbjct: 1233 ---------------------------DEKLIIRCRVVRPKSLDAETEAEEDHMLKKIEN 1265
Query: 806 DNTSNIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKES 865
NI R + V + + + KE
Sbjct: 1266 TMLENITLR---GVENIERVVMMK-------------YDRKVPSPTGEY-------VKEP 1302
Query: 866 KHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGI 925
+ +L+TDG+N++ + +D ++Y N + GIEA + +EV NV A G
Sbjct: 1303 EWVLETDGVNLSEVMTVPG-IDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGS 1361
Query: 926 EVDPRHLSLVADYMTHSGTYVAMNRNGI-RLNPSFIQKMTFEMPLEKIRQASMQGREDSL 984
V+ RH++L+ D MT G ++ R+G R N + + +FE +E + +A D
Sbjct: 1362 YVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDC 1421
Query: 985 RAPSARVMLGQECRQGTGLFQLRNREKKKKKVEAK 1019
R S V+LGQ GTG F + E+ K +
Sbjct: 1422 RGVSENVILGQMAPIGTGAFDVMIDEESLVKYMPE 1456
>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 = 466 bits (1201), Expect = e-149
Identities = 122/437 (27%), Positives = 200/437 (45%), Gaps = 34/437 (7%)
Query: 13 KAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCIL 72
AEA +M V + P+ G P+ G QD++ L+++ T LT+ E ++ A
Sbjct: 473 IAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEEAQQILGVA---- 528
Query: 73 NTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGSTQYG 132
+ +I P I P +TGKQV+S + PKD + SG K
Sbjct: 529 DVKIDLGEPAILAPREYYTGKQVVSAFL----PKDFNFHGQANVSSGPRLCKNEDCPH-- 582
Query: 133 LVHAVWDTHVTIRHGELLSGILDKKQFG-STQYGLVHAVWDTHGAEHAISLLSCLAKLFT 191
D++V I++G LL G+ DKK G ++H + + E+ L+ L ++F
Sbjct: 583 ------DSYVVIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSDEYGKWLMDNLFRVFI 636
Query: 192 VYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQLQ 251
+++ GFT+ + D+ + + ++ I++A+ L+ P
Sbjct: 637 RFVELQGFTMRLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKNGELEPIP-------- 688
Query: 252 EAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVN 311
++ ++ + + + P N M +GA+GS +N
Sbjct: 689 ---------GRTLEESLENYILDTLDKLRSTAGDIASKYLDPFNFAYVMARTGARGSVLN 739
Query: 312 TMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHC 371
Q++ +LGQ + G+R RTLP F PY++SP A GF+ F TG++P E FFH
Sbjct: 740 ITQMAAMLGQQSVRGERIKRGYMTRTLPHFKPYDISPEARGFIYSSFRTGLKPTELFFHA 799
Query: 372 MAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTK 431
GREGL+DTAV+TS+SGY+QR L+ L L YD TVR +IQV YG+DG+
Sbjct: 800 AGGREGLVDTAVRTSQSGYMQRRLINALSDLRAEYDGTVRSLYGEVIQVAYGDDGVFPMY 859
Query: 432 RQYLTDKQFSFLEDNIK 448
+ + + + +
Sbjct: 860 SAHGKTVDVNRIFERVV 876
>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 = 156 bits (394), Expect = 2e-41
Identities = 56/253 (22%), Positives = 107/253 (42%), Gaps = 9/253 (3%)
Query: 768 EERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFV 827
E E+ V S + + + DD I EF +
Sbjct: 145 EYTKIENVVSSTSIDIASMSIILQLDNEMLKDKGVTVDDVKKAINRLKLGEFVIDESEGN 204
Query: 828 KDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEK------ESKHLLKTDGINVNFISQ 881
++ NI + K + ++ ++++ TDG N++ +
Sbjct: 205 TLNISFANIDSIAAL-FKLRDKILNTKIKGIKGIKRAIVQKKGDEYIILTDGSNLSGVLS 263
Query: 882 YRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTH 941
+ + D+ K+ N+I + +GIEAA +IIRE+ V A G++VD RH+ LVAD MT
Sbjct: 264 VKGV-DIAKVETNNIREIEEVFGIEAAREIIIREISKVLAEQGLDVDMRHILLVADVMTR 322
Query: 942 SGTYVAMNRNGI-RLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQG 1000
+G + R+G+ S + + FE+ ++ + A+ +G + + +++G + G
Sbjct: 323 TGVVRQIGRHGVTGEKNSVLARAAFEVTVKHLLDAAARGDVEEFKGVVENIIIGHPIKLG 382
Query: 1001 TGLFQLRNREKKK 1013
TG+ +L R +
Sbjct: 383 TGMVELTMRPILR 395
Score = 143 bits (362), Expect = 3e-37
Identities = 58/210 (27%), Positives = 96/210 (45%), Gaps = 16/210 (7%)
Query: 503 LDDKARKKYRKKFKACPQPLISTFQPDAHFGSISENLADSVVKYTKGRTDASHVDKFYDM 562
+D+K + +K K L P + +++ V T+ +DK +D+
Sbjct: 5 IDEKDKSYLEEKVKQASNIL-----PQKIVEDLKNLISNKEVLVTR-----DEIDKIFDL 54
Query: 563 IFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMA 622
+ L PGE +G++AAQS+GEP TQMTL TFHFAG ++NVTLG+PRL EI+ A
Sbjct: 55 AIKEYSEGLIAPGEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIV-DA 113
Query: 623 TKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKV-----KIKEWLEISPEP 677
K TP M I + ++KA +A+ + + +V+ + L++ E
Sbjct: 114 KKVPSTPMMTIYLTDEYKHDKEKALEVARKLEYTKIENVVSSTSIDIASMSIILQLDNEM 173
Query: 678 HMNYQMKFCFIPAHMYRDKTSVKPSKIIDH 707
+ + + + R K +
Sbjct: 174 LKDKGVTVDDVKKAINRLKLGEFVIDESEG 203
>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 = 85.7 bits (211), Expect = 6e-17
Identities = 105/645 (16%), Positives = 196/645 (30%), Gaps = 137/645 (21%)
Query: 405 HYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLK-KH 463
H+ M D + Q Y D L V + ++ + ++D K I S + I +++ K
Sbjct: 4 HHHM---DFETGEHQYQYK-DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 464 PLSLALLLLLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQ-LDDKARKKYRKKFKACPQPL 522
+S L L T S + KF ++L Y+ L + + R QP
Sbjct: 60 AVSGTLRLFWTLLSKQEEMV------QKFVEEVLRINYKFLMSPIKTEQR-------QPS 106
Query: 523 ISTFQPDAHFGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKNLLSLANPGENVGV-- 580
+ T + + L + + K +V + + + L P +NV +
Sbjct: 107 MMT----RMYIEQRDRLYNDNQVFAKY-----NVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 581 --------LAAQSIGEPSTQMTLNTFHFAGRGDMNV---TLG-IPRLREILMMATK---A 625
+A ++ + D + L +L M K
Sbjct: 158 VLGSGKTWVALD---------VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208
Query: 626 IKTPSMEIPFLPDMPKL-----EKKANRLAKSMTRITMADVLEKVKIKEWLEISPEPHMN 680
I KL + + RL KS VL V+ + N
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-----AFN 263
Query: 681 YQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGL--KNMNIEQSRD 738
K R K V L + + + L K ++
Sbjct: 264 LSCKILLTT----RFK-QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC----- 313
Query: 739 QMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDN-------DFE 791
+D E L + ++ RD + K VN ++ +
Sbjct: 314 ----RPQDLPREVLTTNPRRLSII---AESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 792 EPEDEERMSER----EEDDNTSNIGER-FKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKN 846
EP + +M +R ++I + + D V VVN+ +HKYS +K
Sbjct: 367 EPAEYRKMFDRLSVFPPS---AHIPTILLSLIWFDVIKSDVMVVVNK---LHKYSLVEKQ 420
Query: 847 HMWCKLLF-LPSNLFEEKESKHLLKTDGINVNFISQYRHL--LDLNKLYVNDI-----HY 898
+ +PS E K L ++ + + Y D + L + +
Sbjct: 421 --PKESTISIPSIYLELK--VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476
Query: 899 MASTYGIEAANRVIIREVKNVF-AVYGIEVDPRHLSLVADYMTHSGTYVAMNRNGIRLN- 956
+ + ++ E +F V+ +D + + H T A N +G LN
Sbjct: 477 IG--HHLKNIEHP---ERMTLFRMVF---LD---FRFLEQKIRHDST--AWNASGSILNT 523
Query: 957 -------PSFIQK--MTFEMPLEKIRQASMQGREDSLRAPSARVM 992
+I +E + I + E+ + + ++
Sbjct: 524 LQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Score = 71.4 bits (174), Expect = 1e-12
Identities = 77/599 (12%), Positives = 174/599 (29%), Gaps = 160/599 (26%)
Query: 203 VRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQLQEAYASIPQFRA 262
+ I++ ++ ++ E + L + + + S ++ +
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ----PS 106
Query: 263 QIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQI 322
+ R Y D++ N+ NQ F N+
Sbjct: 107 MMTRMYIEQRDRLYND-NQ---------VFAKYNVS------------------------ 132
Query: 323 ELEGKRPAMMVSGRT-LPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDT 381
R + R L E+ P +DG + G +G+ +
Sbjct: 133 -----RLQPYLKLRQAL-----LELRPAKNVLIDG--VLG-----------SGKTWV--- 166
Query: 382 AVKTSRSGYLQRCLVKHLEGLTVHYDMTVR-----DSDLSLIQVLYGEDGLDVTKRQYLT 436
A+ S +Q + + + + ++ ++ L ++Q L +
Sbjct: 167 ALDVCLSYKVQCKM-----DFKIFW-LNLKNCNSPETVLEMLQKLL----YQIDPNWTSR 216
Query: 437 DKQFSFLEDNIKWICSYKVILNLLKKHPLSLALL-----------------LLLTFKSSG 479
S ++ I I + L K + L +L +LLT +
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 480 KPNFIFSPHRTKFTMDLLEQWYQLDDKAR---KKYRKKFKACPQPLISTFQPDAHFGSIS 536
+F+ + T ++D D+ K + + P + T P I+
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP-REVLTTNP-RRLSIIA 334
Query: 537 ENLADSVVKYTKGRTDASHVDKFYDMI--FYKNLLSLANPGENVGVLAAQSIGEPSTQMT 594
E++ D + + + DK +I L P E + S+
Sbjct: 335 ESIRDGLATWD--NWKHVNCDKLTTIIESSLNVL----EPAEYRKMFDRLSV-------- 380
Query: 595 LNTFHFAGRGDMNV---TLGI----PRLREILMMATK------AIKTPSMEIPFLPDMPK 641
F ++ L + +++++ K K P +P +
Sbjct: 381 ---F----PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 642 LEKKANRLAKSMTRITMADVLEKVKIK---EWLEISPEPHMNYQMKFCFIPAHMYRDKTS 698
K ++ R +++ I + ++ P Y + I H+ +
Sbjct: 434 ELKVKLENEYALHRS----IVDHYNIPKTFDSDDLIPPYLDQYF--YSHIGHHLK----N 483
Query: 699 VKPSKIIDHFERKFL-------KELEVAIAKRAAQGLKNM--NIEQSRDQMEDDVEDDE 748
++ + + F FL K + A A+ + N ++ + + D+ E
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Score = 57.2 bits (137), Expect = 3e-08
Identities = 56/415 (13%), Positives = 130/415 (31%), Gaps = 133/415 (32%)
Query: 678 HMNY---QMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIE 734
HM++ + ++ Y+D I+ FE F+ + +++
Sbjct: 6 HMDFETGEHQYQ------YKD--------ILSVFEDAFVDNFDCK------------DVQ 39
Query: 735 QSRDQMEDDVEDDEGEGAEGAGAALGRVD-----VSSDEERDEEDAVQSHKKVN------ 783
D + + +E + + A+ + S +E + V+ ++N
Sbjct: 40 ---DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96
Query: 784 --QEEDNDFEEPEDEERMSEREEDDNTSNIGERFK-----------------IEFRDSTN 824
+ E P RM E+ D N + F +E R + N
Sbjct: 97 PIKTEQRQ---PSMMTRMYI-EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 825 VFV-------K-----DVVNQHNIVHKYSYDKKNHMW-----CK----LLFLPSNLFEEK 863
V + K DV + + K + W C +L + L +
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDF---KIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 864 ESKHLLKTDG-----INVNFISQY-RHLLDLNKLYVNDIHYMASTYGIEAANRVIIREV- 916
+ ++D + ++ I R LL +K Y N + +++ V
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCL--------------LVLLNVQ 254
Query: 917 -KNVFAVYGIE----VDPRHLSLVADYMTHSGTYVAMNRNGIRLNPS-----FIQKMTFE 966
+ + + + R + + T+++++ + + L P ++ + +
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL--D 312
Query: 967 MPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGL---FQLRNREKKKKKVEA 1018
+ + RE P ++ + R G ++ N +K +E+
Sbjct: 313 CRPQDLP------REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Score = 53.7 bits (128), Expect = 3e-07
Identities = 95/576 (16%), Positives = 170/576 (29%), Gaps = 164/576 (28%)
Query: 12 LKAEASFLMN-VSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALC 70
L+ FLM+ + ++ P + + +D + + ++ ++R + + QAL
Sbjct: 87 LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV-FAKYNVSRLQPYLKLRQALL 145
Query: 71 ILNTEIRTLPPTIWKPMP-------LWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDK 123
L +P L +GK + + K
Sbjct: 146 EL------------RPAKNVLIDGVLGSGKTWV----ALDVCLSY----------KVQCK 179
Query: 124 KQFGSTQYGLVHAVW-------DTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGA 176
F + W + + L +D + S + H
Sbjct: 180 MDFK------IF--WLNLKNCNSPETVLEMLQKLLYQIDPN-WTSRSDHSSNIKLRIHSI 230
Query: 177 EHAISLL-------SCLAKLFTVYLQRV--GFTLGVRDILVRQERDRKRTKIINKARR-- 225
+ + L +CL L V + F L + IL+ R ++ T ++ A
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK-ILL-TTRFKQVTDFLSAATTTH 288
Query: 226 ---------LGTEAA---------CNALGLP---LDTDPEIISSQLQEAYASIPQFRAQI 264
L + C LP L T+P +S SI A
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI----IAESIRDGLATW 344
Query: 265 DRQYKSLLDKVTNNINQVCLPEGLIEP------------FPAN-NLQFMVESG--AKGST 309
D +K + I + L L EP FP + ++ ++ S
Sbjct: 345 DN-WKHVNCDKLTTIIESSL-NVL-EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 310 VNTMQISCLLGQIELEGKRPAMMVSGRTLPS-FLPYEVSPRAGGFVDGRFMTGIQPQEFF 368
+ M + L + L K+P ++PS +L +V + + + F
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTI--SIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459
Query: 369 FHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLD 428
D + Y + HL+ + ++L ++++ LD
Sbjct: 460 DS---------DDLIPPYLDQYFYSHIGHHLKNIE-------HPERMTLFRMVF----LD 499
Query: 429 VTKRQYLTDKQFSFLEDNIK-----WICSYKVILNLL-----------KKHPLSLALL-L 471
F FLE I+ W S ILN L P L+
Sbjct: 500 -----------FRFLEQKIRHDSTAWNASGS-ILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 472 LLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKA 507
+L F + N I S + DLL +D+A
Sbjct: 548 ILDFLPKIEENLICSKYT-----DLLRIALMAEDEA 578
Score = 39.1 bits (90), Expect = 0.009
Identities = 65/375 (17%), Positives = 114/375 (30%), Gaps = 125/375 (33%)
Query: 6 QNASHFLKAEASFLMNVSSQYLV-PKDGS---PLSGLIQDHVISGAKLSLRDTFLTRAEY 61
QNA A N+S + L+ + LS H+ L LT E
Sbjct: 254 QNAKA-WNA-----FNLSCKILLTTRFKQVTDFLSAATTTHI----SLDHHSMTLTPDEV 303
Query: 62 MNLVYQALCILNTEIRTLPPTIWKPMPL---------------WTG-KQV----LSTVI- 100
+L+ L+ + LP + P W K V L+T+I
Sbjct: 304 KSLL--LKY-LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 101 --IN-LTPKDK-------VIIRHG-------------------------ELLSGILDKKQ 125
+N L P + + +L L +KQ
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 126 FGSTQYGLVHAVW-DTHVTIRH-GELLSGILDKKQFGST--QYGLVHAVWD----THGAE 177
+ + +++ + V + + L I+D T L+ D +H
Sbjct: 421 PKESTISI-PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 178 HAISL-LSCLAKLFT-VYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNAL 235
H ++ LF V+L F + K R T A NA
Sbjct: 480 HLKNIEHPERMTLFRMVFLD-FRF-------------------LEQKIRHDST--AWNAS 517
Query: 236 GLPLDTDPEIISSQLQEAYASIPQFRAQI---DRQYKSLLDKVTNNINQVCLPEGLIEPF 292
G L+T LQ+ + ++ I D +Y+ L++ + + + + + +
Sbjct: 518 GSILNT--------LQQ----LKFYKPYICDNDPKYERLVNAILDFLPK-IEENLICSKY 564
Query: 293 PANNLQ--FMVESGA 305
+ L+ M E A
Sbjct: 565 -TDLLRIALMAEDEA 578
>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 = 67.0 bits (163), Expect = 3e-11
Identities = 104/615 (16%), Positives = 182/615 (29%), Gaps = 201/615 (32%)
Query: 142 VTIRHGELLSGILD-----------KKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLF 190
+T+ HG L +L ++QF + + A+ + A+L
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKI----LPEPTEGFAADDEPT---TPAELV 61
Query: 191 TVYLQRVGFTLGVRDILVRQERDRKRTKIINKARR------L-GTEAACNALGLPLDTDP 243
+L G+ LV + + +++N L G + A L + D
Sbjct: 62 GKFL---GYV----SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 244 EIISSQ--LQEAYASIPQFRAQIDRQYKS-LLDKVTNN------------INQVCLPE-- 286
++ ++ ++ + + D++ S L V E
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
Query: 287 -------GLIEPF---PANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMM---- 332
L+ A L ++ + V T ++ +L +E P
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN-ILEWLENPSNTPDKDYLLS 233
Query: 333 --VSGRTLP-----SFLPYEVSPRAGGFVDGRFMTGIQPQEFF--FHCMAGR-EGLIDTA 382
+S P Y V+ + GF P E G +GL+ TA
Sbjct: 234 IPIS---CPLIGVIQLAHYVVTAKLLGF---------TPGELRSYLKGATGHSQGLV-TA 280
Query: 383 VKTSRSG---YLQRCLVKHLE-----GLTVHYDMTVRDSDLSLIQ--VLYGEDG----LD 428
V + + + K + G+ + S+++ + E L
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 429 VTKRQYLTDKQFSFLEDNIKWICSY-----KVILNL--------LKKHPLSL-ALLLLL- 473
++ LT +Q ++D + S+ +V ++L + P SL L L L
Sbjct: 341 ISN---LTQEQ---VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 474 -TFKSSG-----------KPNF------IFSP-HRTKFTMDLLEQWYQL--DDKARKKYR 512
SG K F + SP H LL L D +
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS-----HLLVPASDLINKDLVKNNVS 449
Query: 513 KKFKACPQPLISTFQPDAH-----FGSISENLADSV----VKYTKG-RTDASHVDKFYDM 562
K P+ TF D GSISE + D + VK+ + A+H+ F
Sbjct: 450 FNAKDIQIPVYDTF--DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF--- 504
Query: 563 IFYKNLLSLANPGEN--VGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILM 620
PG +GVL ++ G G +R I+
Sbjct: 505 ----------GPGGASGLGVLTHRNK--------------DGTG----------VRVIV- 529
Query: 621 MATKAIKTPSMEIPF 635
A P + F
Sbjct: 530 -AGTLDINPDDDYGF 543
Score = 63.5 bits (154), Expect = 3e-10
Identities = 104/651 (15%), Positives = 186/651 (28%), Gaps = 244/651 (37%)
Query: 464 PLSLALLLLLTFKSSGKPNFIFS-PHRTKFTMDLLEQWYQLDDKARKKYRKKF-KACPQP 521
PL+L S G + P + F QL +++F K P+P
Sbjct: 8 PLTL---------SHGSLEHVLLVPTASFFIAS------QL--------QEQFNKILPEP 44
Query: 522 LISTFQPDAHFGSISENLADSVVKYTKGRTDASHVDKFYDMI------FYKNLLSLANPG 575
F D + +E L + Y + S V +F ++ F L G
Sbjct: 45 T-EGFAADDEPTTPAE-LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE----G 98
Query: 576 ENVGVLAAQSIGEPSTQMT-------------------LNTFH----------------- 599
++ LAA+ + E T + +
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 600 -FAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAK-SMTRIT 657
F G+G+ + LR++ +T + D+ ++ A L++ T +
Sbjct: 159 IFGGQGNTDDYF--EELRDLY-------QTYH---VLVGDL--IKFSAETLSELIRTTLD 204
Query: 658 MADVLEK-VKIKEWLEISPE--PHMNYQMKFCFIP-----------AHMY---------- 693
V + + I EWLE +P P +Y IP AH
Sbjct: 205 AEKVFTQGLNILEWLE-NPSNTPDKDY---LLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 694 ---RDK---TSVKPSKII-----------DHFERKFLKELEVA--IAKRAAQGLKNMNIE 734
R + ++ + F K + V I R + N ++
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 735 QSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSH-KKVNQEEDNDFEEP 793
S +ED +E++EG L +++ ++ VQ + K N P
Sbjct: 321 PS--ILEDSLENNEGV----PSPMLSISNLTQEQ-------VQDYVNKTNS------HLP 361
Query: 794 EDEE-RMSEREEDDNT-SNI---G-----ERFKIEFRDSTNVFVKDVVNQHNIVHKYSYD 843
++ +S N N+ G + R ++Q I +S
Sbjct: 362 AGKQVEISLV----NGAKNLVVSGPPQSLYGLNLTLR---KAKAPSGLDQSRI--PFSER 412
Query: 844 KKNHMWCKLLFLPSNLFEEKESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTY 903
K FLP + F S H +
Sbjct: 413 KLKFSNR---FLP-----------------VASPFHS----------------HLLVP-- 434
Query: 904 GIEAANRVIIREVKNVFAVYGIEVDPRHLSL-VADYMTHSGTYVAMNRNGIRLNPSFIQK 962
A+ +I +++ + + + + + V Y T G+ + + I I
Sbjct: 435 ----ASDLINKDLVKN----NVSFNAKDIQIPV--YDTFDGSDLRVLSGSISER---IVD 481
Query: 963 MTFEMPL--EKIRQASMQ-----GREDSLRAPSARVMLG---QECRQGTGL 1003
+P+ E Q G P LG + GTG+
Sbjct: 482 CIIRLPVKWETTTQFKATHILDFG-------PGGASGLGVLTHRNKDGTGV 525
Score = 50.8 bits (121), Expect = 2e-06
Identities = 92/501 (18%), Positives = 135/501 (26%), Gaps = 175/501 (34%)
Query: 29 PKDGSPLSGLIQDHVISG-AKL---------------SLRDTFLTRAEYMNLVYQALCIL 72
P D S L + V G A+L LRD + T Y LV +
Sbjct: 136 PFDKKSNSALFR-AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT---YHVLVGDLIKFS 191
Query: 73 NTEIRTLPPTIWKPMPLWT-G---KQVLSTVIINLTPKDKVIIRHGELLS------GILD 122
+ L T ++T G + L + TP LLS I
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENP--SNTPDKDY------LLSIPISCPLI-- 241
Query: 123 KKQFGSTQYGLVHAVWDTHVT-IRHGEL---LSGILDKKQFGSTQYGLVHAV-------W 171
G Q L H V + GEL L G Q GLV AV W
Sbjct: 242 ----GVIQ--LAHYVVTAKLLGFTPGELRSYLKGATGHSQ------GLVTAVAIAETDSW 289
Query: 172 DT--HGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQE---RDRKRTKIINKARRL 226
++ AI++L F +GVR E I+ +
Sbjct: 290 ESFFVSVRKAITVL---------------FFIGVR----CYEAYPNTSLPPSILEDSLEN 330
Query: 227 GTEAACNAL---GLPLDTDPEIISSQLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVC 283
L L + + + + + +P Q+ SL++ N + V
Sbjct: 331 NEGVPSPMLSISNLTQEQ----VQDYVNKTNSHLPA-GKQV---EISLVNGAKNLV--VS 380
Query: 284 -LPEGLIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFL 342
P+ L L + S ++ Q +I ++ S R LP
Sbjct: 381 GPPQSLY------GLNLTLRKAKAPSGLD--Q-----SRIPFSERKLK--FSNRFLPVAS 425
Query: 343 PYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGL 402
P FH S L + L
Sbjct: 426 P-------------------------FH-----------------SHLLVPASDLINKDL 443
Query: 403 TVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKV----ILN 458
+ +++ D+ I V DG D L S E + I V
Sbjct: 444 VKN-NVSFNAKDIQ-IPVYDTFDGSD------LRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 459 LLKKH-----PLSLALLLLLT 474
H P + L +LT
Sbjct: 496 FKATHILDFGPGGASGLGVLT 516
Score = 47.7 bits (113), Expect = 2e-05
Identities = 53/328 (16%), Positives = 87/328 (26%), Gaps = 123/328 (37%)
Query: 4 WTQNASHFLKAEASF-LMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYM 62
W + A + K F ++++ P + + G + I R Y
Sbjct: 1646 WNR-ADNHFKDTYGFSILDIVINN--PVNLTIHFGGEKGKRI-------------RENYS 1689
Query: 63 NLVYQALCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILD 122
++++ + GK + + E G+L
Sbjct: 1690 AMIFETIV--------------------DGKLKTEKIFKEINEHSTSYTFRSE--KGLLS 1727
Query: 123 KKQFGSTQYGLV---HAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHA 179
QF TQ L A + E L K G A G H
Sbjct: 1728 ATQF--TQPALTLMEKAAF---------EDL------KSKGLIPADATFA-----G--H- 1762
Query: 180 ISL-----LSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKA-------RRLG 227
SL L+ LA + + V +V R + A R
Sbjct: 1763 -SLGEYAALASLADVMS-------IESLVE--VVFY-----RGMTMQVAVPRDELGRSNY 1807
Query: 228 TEAACN----ALGLPLDTDPEIISSQLQEAYASIPQFRAQI------DRQY-----KSLL 272
A N A + ++ E + +I ++QY L
Sbjct: 1808 GMIAINPGRVAASFSQEALQYVV-----ERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL 1862
Query: 273 DKVTN--------NINQVCLPEGL-IEP 291
D VTN I+ + L + L +E
Sbjct: 1863 DTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
Score = 43.9 bits (103), Expect = 4e-04
Identities = 56/371 (15%), Positives = 90/371 (24%), Gaps = 152/371 (40%)
Query: 328 RPAMMVSGRTLPSFLPYEVSP-------RAGGFVDGRFMTGIQ------PQEFFFHCMAG 374
M G L Y+ S RA + I P H G
Sbjct: 1628 EQGM---GMDL-----YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH-FGG 1678
Query: 375 REGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLY-GEDGLDVTKRQ 433
+G K R Y ++G + ++ + + E GL
Sbjct: 1679 EKG------KRIRENYSAMIFETIVDGKLKTEKI-FKEINEHSTSYTFRSEKGL------ 1725
Query: 434 YLTDKQFS----FLEDNIKWICSYKVILNLLKK------------HPLSL----AL---- 469
L+ QF+ L LK H SL AL
Sbjct: 1726 -LSATQFTQPALTL-------MEK-AAFEDLKSKGLIPADATFAGH--SLGEYAALASLA 1774
Query: 470 -------LLLLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKAC-PQP 521
L+ + F R + + D+ R Y A P
Sbjct: 1775 DVMSIESLVEVVFY------------RGMTMQVAVPR----DELGRSNYG--MIAINPGR 1816
Query: 522 LISTFQPDAHFGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKNLLSLAN---PGENV 578
+ ++F +A + + + V K T L+ + N +
Sbjct: 1817 VAASFSQEA-----LQYVVERVGKRTGW------------------LVEIVNYNVENQQY 1853
Query: 579 GVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPD 638
V A GD+ + + + IK ++I L
Sbjct: 1854 -VAA---------------------GDLR---AL----DTVTNVLNFIKLQKIDIIELQK 1884
Query: 639 MPKLEKKANRL 649
LE+ L
Sbjct: 1885 SLSLEEVEGHL 1895
Score = 34.6 bits (79), Expect = 0.24
Identities = 46/288 (15%), Positives = 82/288 (28%), Gaps = 118/288 (40%)
Query: 494 MDLLEQ-------WYQLDDKARKKY----RKKFKACPQPLISTFQPDAHFG-----SISE 537
MDL + W + D+ + Y P L HFG I E
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT------IHFGGEKGKRIRE 1686
Query: 538 NLADSVVKYTKGRTDASHVDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNT 597
N Y + ++ ++ E + + I E ST T
Sbjct: 1687 N---------------------YSAMIFETIVDGKLKTEKI----FKEINEHSTSYT--- 1718
Query: 598 FHFAG-RGDMNVTLGIPRLREI----LMMATKAIKTPSMEIPFLPDMPKLEKKANR---- 648
F +G ++ T + L + KA E L+ K
Sbjct: 1719 --FRSEKGLLSAT-------QFTQPALTLMEKAA----FED--------LKSKGLIPADA 1757
Query: 649 ---------------LAKSMTRITMADVLEKVK-----IKEWLEISPEPHMNYQMKFCFI 688
LA M+ + ++E V ++ + NY M
Sbjct: 1758 TFAGHSLGEYAALASLADVMS---IESLVEVVFYRGMTMQVAVPRDELGRSNYGM----- 1809
Query: 689 PAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLK--NMNIE 734
++ P ++ F ++ L+ + + KR ++ N N+E
Sbjct: 1810 --------IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE 1849
Score = 31.2 bits (70), Expect = 2.6
Identities = 41/225 (18%), Positives = 60/225 (26%), Gaps = 83/225 (36%)
Query: 597 TFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPD-MPKLEKKANRLAKSMTR 655
T HF G R+RE +M + D K EK + + T
Sbjct: 1673 TIHFGGEKG-------KRIRENYS---------AMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 656 ITMADVLEKVKIKEWLEISPEPHMNYQMKFCFIPA---------HMYRDKTSVKPSKIID 706
T + + Q PA + K +
Sbjct: 1717 YTFRSEKGLLSATQ----------FTQ------PALTLMEKAAFEDLKSKGLIPADAT-- 1758
Query: 707 HFERKF----LKE---LEVAIAKRAAQGLKNMNIEQS------RDQ-MEDDVEDDEGEGA 752
F L E L ++A + M+IE R M+ V DE +
Sbjct: 1759 -----FAGHSLGEYAAL-ASLA-----DV--MSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 753 EGAGAAL--GRVDVSSDEERDEE--DAVQSHKK-----VNQEEDN 788
A+ GRV S +E + + V VN N
Sbjct: 1806 NYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN---YN 1847
>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 = 66.0 bits (161), Expect = 6e-11
Identities = 25/49 (51%), Positives = 35/49 (71%), Gaps = 1/49 (2%)
Query: 571 LANPGENVGVLAAQSIGEPSTQMTLNTFHFAG-RGDMNVTLGIPRLREI 618
+ GE VG++AAQSIGEP TQ+T+ TFH G G ++T G+PR+ E+
Sbjct: 1214 PVSIGEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLPRVIEL 1262
Score = 48.2 bits (115), Expect = 2e-05
Identities = 97/423 (22%), Positives = 157/423 (37%), Gaps = 90/423 (21%)
Query: 14 AEASFLMNVSSQYLVPKDGSPLSGLIQDHVI---------SGAKLSLRDTFLTRAEYMNL 64
AEA M + L P G PL+ +D ++ K + F T E +
Sbjct: 757 AEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGL-EFATPEEALAA 815
Query: 65 VYQALCILNTEIR----TLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIR-HGELLSG 119
+ LN I+ K + + +L+ + +D V +R G+ L
Sbjct: 816 HERGEVALNAPIKVAGRETSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLET 875
Query: 120 ILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHA 179
+ F + AV D V +L +K LV+ + G E
Sbjct: 876 SPGRILFARI---VAEAVEDEKVAWELIQL-DVPQEKNSLKD----LVYQAFLRLGMEKT 927
Query: 180 ISLLSCLAKL-FTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLP 238
LL L FT + G T+G+ D ++ +E+ + + +A R +
Sbjct: 928 ARLLDALKYYGFT-FSTTSGITIGIDDAVIPEEKK----QYLEEADR---KLL------- 972
Query: 239 LDTDPEIISSQLQEAYASIPQFRAQIDRQ--YKSLLD---KVTNNINQVCLPEGLIEPFP 293
Q+++AY + + Y +L + T + Q + + E +P
Sbjct: 973 ----------QIEQAYE-----MGFLTDRERYDQILQLWTETTEKVTQA-VFKNFEENYP 1016
Query: 294 ANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMV--SGRTLPSFLPYEVSPRAG 351
N L M +SGA+G N QI Q L G R +M SG T +P
Sbjct: 1017 FNPLYVMAQSGARG---NPQQIR----Q--LCGLR-GLMQKPSGETFE--VP-------- 1056
Query: 352 GFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVR 411
V F G+ E+F R+G DTA++T+ SGYL R LV V +++ VR
Sbjct: 1057 --VRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVD------VTHEIVVR 1108
Query: 412 DSD 414
++D
Sbjct: 1109 EAD 1111
>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 = 65.8 bits (161), Expect = 7e-11
Identities = 25/51 (49%), Positives = 34/51 (66%), Gaps = 5/51 (9%)
Query: 571 LANPGENVGVLAAQSIGEPSTQMTLNTFHF---AGRGDMNVTLGIPRLREI 618
+ GE VGV+AA+SIGEP TQ+T+ TFH A D +T G+PR+ E+
Sbjct: 955 PVSIGEAVGVVAAESIGEPGTQLTMRTFHTGGVAVGTD--ITQGLPRVIEL 1003
Score = 46.1 bits (110), Expect = 6e-05
Identities = 50/188 (26%), Positives = 77/188 (40%), Gaps = 53/188 (28%)
Query: 243 PEIISSQLQEAYASIPQFRAQIDRQYKS-----------LLD---KVTNNINQVCLPEGL 288
+ +EA + QI++ Y+ ++ + T + Q +
Sbjct: 702 QRYL----EEADRKL----RQIEQAYEMGFLTDRERYDQVIQLWTETTEKVTQA-VFNNF 752
Query: 289 IEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMV--SGRTLPSFLPYEV 346
E +P N L M +SGA+G N QI Q L G R +M SG T +P
Sbjct: 753 EENYPFNPLYVMAQSGARG---NPQQIR----Q--LCGMR-GLMQKPSGETFE--VP--- 797
Query: 347 SPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHY 406
V F G+ E+F R+G DTA++T+ SGYL R LV V +
Sbjct: 798 -------VRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVD------VAH 844
Query: 407 DMTVRDSD 414
++ VR++D
Sbjct: 845 EIVVREAD 852
>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 = 62.3 bits (152), Expect = 7e-10
Identities = 20/48 (41%), Positives = 28/48 (58%)
Query: 570 SLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLRE 617
+ N GE +GV+AAQSIGEP TQ+T+ TFH G +++
Sbjct: 907 HIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAESSIQVKN 954
Score = 45.7 bits (109), Expect = 9e-05
Identities = 56/279 (20%), Positives = 102/279 (36%), Gaps = 79/279 (28%)
Query: 154 LDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERD 213
L KK +++ + G + + + Y R G ++G+ D+++ +++
Sbjct: 596 LGKKAISK----MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH 651
Query: 214 RKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQLQEAYASIPQFRAQIDRQ--YKSL 271
+II++A +++QE + + Y +
Sbjct: 652 ----EIISEAEAE--------------------VAEIQEQFQ-----SGLVTAGERYNKV 682
Query: 272 LD---KVTNNI----------NQVCLPEGLIEPFPA-NNLQFMVESGAKGSTVNTMQISC 317
+D + + V +G E + N++ M +SGA+G + QI
Sbjct: 683 IDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFNSIYMMADSGARG---SAAQIR- 738
Query: 318 LLGQIELEGKRPAMMV--SGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGR 375
Q L G R +M G + P + F G+ ++F R
Sbjct: 739 ---Q--LAGMR-GLMAKPDGSIIE--TP----------ITANFREGLNVLQYFISTHGAR 780
Query: 376 EGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSD 414
+GL DTA+KT+ SGYL R LV V D+ V + D
Sbjct: 781 KGLADTALKTANSGYLTRRLVD------VAQDLVVTEDD 813
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class
I, activator, RNA polymeras holoenzyme, sigma70, open
complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia
coli k-12}
Length = 613
Score = 39.6 bits (92), Expect = 0.005
Identities = 17/104 (16%), Positives = 38/104 (36%)
Query: 714 KELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEE 773
+E E+ IAKR G+ + + ++ E A L + + EE
Sbjct: 113 REGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEE 172
Query: 774 DAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGERFKI 817
D + V E + + +++E + ++D + ++
Sbjct: 173 DLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPEL 216
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.8 bits (87), Expect = 0.007
Identities = 17/103 (16%), Positives = 42/103 (40%), Gaps = 29/103 (28%)
Query: 695 DKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEG 754
D+ + +P I RK+ +E + + A ++ R++ + D+E+
Sbjct: 78 DRLTQEPESI-----RKWREEQRKRLQELDAASKVME--QEWREKAKKDLEE-------- 122
Query: 755 AGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDF-EEPEDE 796
++ + E+ V+ +K N+ D F ++P+ +
Sbjct: 123 -----------WNQRQSEQ--VEKNKINNRIADKAFYQQPDAD 152
Score = 33.6 bits (76), Expect = 0.17
Identities = 11/73 (15%), Positives = 30/73 (41%), Gaps = 8/73 (10%)
Query: 765 SSDEERDEEDAVQSHKKVNQE--EDNDFEEPEDEERMSE---REEDD---NTSNIGERFK 816
+D E ++++ ++ ++ ++ D E+ E ++ ++ S E+ K
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 135
Query: 817 IEFRDSTNVFVKD 829
I R + F +
Sbjct: 136 INNRIADKAFYQQ 148
Score = 33.6 bits (76), Expect = 0.21
Identities = 16/103 (15%), Positives = 31/103 (30%), Gaps = 42/103 (40%)
Query: 643 EKKANRLAKSMTRITMADVLEKVKIKEWLEISPEPHMNYQMKFCFIPAHMYRDKTSVKPS 702
E++ RL + D KV +EW E K
Sbjct: 92 EEQRKRLQE-------LDAASKVMEQEWRE---------------------------KAK 117
Query: 703 KIIDHFERKFLKELEVAIAK-RAAQGLKNMNIEQSRDQMEDDV 744
K ++ + ++ +++E R A + Q + D+
Sbjct: 118 KDLEEWNQRQSEQVEKNKINNRIAD-------KAFYQQPDADI 153
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma
factor, transcription regulation; 2.60A {Escherichia
coli} SCOP: a.177.1.1
Length = 339
Score = 33.7 bits (77), Expect = 0.24
Identities = 34/169 (20%), Positives = 57/169 (33%), Gaps = 35/169 (20%)
Query: 715 ELEVAIAKRAAQGLKNMNIEQSRDQME-----------------DDVEDDEGEGAEGAGA 757
E E+ IAKR IE +Q++ + VE +E ++
Sbjct: 5 EGEIDIAKR---------IEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSD---- 51
Query: 758 ALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGERFKI 817
L V + E D +ED D +E EDEE + DD+ S E +
Sbjct: 52 -LITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELARE 110
Query: 818 EFRDSTNVFVK--DVVNQHNIVHKYSYDKKNHMWCKL--LFLPSNLFEE 862
+F + +V D + H + ++ + L F+
Sbjct: 111 KFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDY 159
>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 = 32.2 bits (72), Expect = 0.36
Identities = 8/30 (26%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 709 ERKFLKELEVAI---AKRAAQGLK-NMNIE 734
E++ LK+L+ ++ A +A L +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP
protein, ATA-box DNA, transcription/DNA complex; 2.50A
{Saccharomyces cerevisiae}
Length = 286
Score = 33.0 bits (73), Expect = 0.39
Identities = 16/112 (14%), Positives = 36/112 (32%), Gaps = 14/112 (12%)
Query: 721 AKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHK 780
+ +E D+ E ++++ E E +++ + + E+ +
Sbjct: 156 IELTINNANITTVENIDDESEKKDDEEKEEDVEKTRKEKEQIEQVKLQAKKEKRSALLDT 215
Query: 781 KVNQEEDNDFEEPEDEERMSEREEDDNTSNI-----------GERFKIEFRD 821
E +D ++ E EED N+ R+K +D
Sbjct: 216 DEVGSELDDSDDDYLIS---EGEEDGPDENLMLCLYDKVTRTKARWKCSLKD 264
>2dyt_A Autophagy-related protein 3; E2 fold, ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 312
Score = 32.9 bits (74), Expect = 0.46
Identities = 18/132 (13%), Positives = 40/132 (30%), Gaps = 2/132 (1%)
Query: 696 KTSVKPSKIIDHF--ERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAE 753
D ++FL +V KRA Q ++ + +D ++D+
Sbjct: 52 NEESSDISYRDFLPKNKQFLIIRKVPCDKRAEQCVEVEGPDVIMKGFAEDGDEDDVLEYI 111
Query: 754 GAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGE 813
G+ + + + D + + + ++ D + +E D
Sbjct: 112 GSETEHVQSTPAGGTKDSSIDDIDELIQDMEIKEEDENDDTEEFNAKGGLAKDMAQERYY 171
Query: 814 RFKIEFRDSTNV 825
I + S V
Sbjct: 172 DLYIAYSTSYRV 183
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1
a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F*
2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Length = 423
Score = 32.2 bits (73), Expect = 0.93
Identities = 14/119 (11%), Positives = 34/119 (28%), Gaps = 11/119 (9%)
Query: 733 IEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEE 792
+++ +++ + E + E AL + EE + D ++ ++
Sbjct: 21 VQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLDL----EEEEEDLPIPKIS 76
Query: 793 PEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWCK 851
D R E IG+ + + + K I + +
Sbjct: 77 TSDPVRQYLHE-------IGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIR 128
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces
cerevisiae}
Length = 1030
Score = 32.5 bits (74), Expect = 0.96
Identities = 28/162 (17%), Positives = 53/162 (32%), Gaps = 17/162 (10%)
Query: 734 EQSRDQMED---DVED-DEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDND 789
D+M D D D D E G + ++EE +E+ + D
Sbjct: 10 SDKIDEMYDIFGDGHDYDWALEIENEELENGNDNNEAEEEEIDEETGAIKSTKKKISLQD 69
Query: 790 FEEPED-EERMSEREEDD--NTSNIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKN 846
+ ED ++ + E D ++I ER++ T+ +Q + +
Sbjct: 70 IYDLEDLKKNL-MTEGDMKIRKTDIPERYQELRAGITDYGNMSSEDQELERNWIA----E 124
Query: 847 HMWCKLLFLPSNLFEEKESK-----HLLKTDGINVNFISQYR 883
+ F + E + + + + V FI YR
Sbjct: 125 KISVDKNFDANYDLTEFKEAIGNAIKFITKENLEVPFIYAYR 166
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 30.6 bits (68), Expect = 1.2
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 745 EDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPED 795
EDD+ E E A + + +E ++ED + + E++ + EE D
Sbjct: 25 EDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEVTD 75
Score = 30.2 bits (67), Expect = 1.8
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 766 SDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDD 806
D E+ EE A + +K + D D +E EDE+ + +ED+
Sbjct: 27 DDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDE 67
Score = 29.1 bits (64), Expect = 3.8
Identities = 9/44 (20%), Positives = 25/44 (56%)
Query: 763 DVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDD 806
D +++ ++ + ++ N +ED D +E ED++ + +E++
Sbjct: 26 DDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDEEE 69
Score = 28.7 bits (63), Expect = 5.2
Identities = 15/68 (22%), Positives = 34/68 (50%)
Query: 755 AGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGER 814
AA D EE+ E + + +++ED D +E +D++ + EE++ ++ E
Sbjct: 20 VVAAAEDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEVTDQLED 79
Query: 815 FKIEFRDS 822
+ F+++
Sbjct: 80 LREHFKNT 87
Score = 28.7 bits (63), Expect = 5.3
Identities = 17/108 (15%), Positives = 43/108 (39%), Gaps = 8/108 (7%)
Query: 711 KFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEER 770
++ ++L++ + A + N + E + +++E + D DE+
Sbjct: 8 EYWEQLKITVVPVVAAAEDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDE 67
Query: 771 DEEDAVQSHKKVNQEEDNDFEE--------PEDEERMSEREEDDNTSN 810
+EE+ V + +E + EE E ER+ +++ ++
Sbjct: 68 EEEEEVTDQLEDLREHFKNTEEGKALVHHYEECAERVKIQQQQPGYAD 115
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 31.7 bits (72), Expect = 1.7
Identities = 13/121 (10%), Positives = 42/121 (34%), Gaps = 10/121 (8%)
Query: 630 SMEIPFLPDMPKLEKKAN-----RLAKSMTRITMA--DVLEKVKIKEWLEISPEPHMNYQ 682
++++ FL +P++ K + + +T + + + + +++
Sbjct: 116 TLKVDFLSKLPEMLKMFEDRLCHKTYLNGDHVTHPDFMLYDALDVVLYMDPMCLDAFPKL 175
Query: 683 MKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMED 742
+ F + + +K SK I + + + IE+S ++++
Sbjct: 176 VCFKKRIEAIPQIDKYLKSSKYIAWPLQGWQATFGGGDHPPKS---DEFVIEKSLNRIKK 232
Query: 743 D 743
Sbjct: 233 F 233
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 30.5 bits (68), Expect = 3.3
Identities = 17/98 (17%), Positives = 35/98 (35%)
Query: 695 DKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEG 754
V+ + D E+ K+ E A S Q +DDV + + +
Sbjct: 538 LGKDVEFEVVGDAPEKVGPKQAEDAAKSITNGSDDGAQPSTSTAQEQDDVLIVDSDEEDS 597
Query: 755 AGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEE 792
+ A + S + + +E S K+ E+ + ++
Sbjct: 598 SNNADVSEEERSRKRKLDEKENLSAKRSRIEQKEELDD 635
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 30.2 bits (68), Expect = 3.9
Identities = 27/161 (16%), Positives = 51/161 (31%), Gaps = 23/161 (14%)
Query: 738 DQMED---DVED-DEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEP 793
D+M D D D D E G + ++EE +E+ + D +
Sbjct: 11 DEMYDIFGDGHDYDWALEIENEELENGNDNNEAEEEEIDEETGAIKSTKKKISLQDIYDL 70
Query: 794 ED-EERMSEREEDDN--TSNIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKK---NH 847
ED ++ + E D ++I ER++ T+ ++
Sbjct: 71 EDLKKNL-MTEGDMKIRKTDIPERYQELRAGITDYGNMS-------SEDQELERNWIAEK 122
Query: 848 MWCKLLFLPSNLFEEKESK-----HLLKTDGINVNFISQYR 883
+ F + E + + + + V FI YR
Sbjct: 123 ISVDKNFDANYDLTEFKEAIGNAIKFITKENLEVPFIYAYR 163
>3aek_A Light-independent protochlorophyllide reductase S; iron/sulfur
cluster, oxidoreductase, bacteriochlorophyll
biosynthesis; HET: PMR; 2.30A {Rhodobacter capsulatus}
PDB: 3aeq_A* 3aes_A* 3aer_A* 3aet_A 3aeu_A
Length = 437
Score = 30.2 bits (67), Expect = 4.1
Identities = 11/67 (16%), Positives = 21/67 (31%)
Query: 862 EKESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFA 921
E + LL G+ + R + N +A + E + R K + A
Sbjct: 197 EDQCLSLLTQLGVGPVRMLPARRSDIEPAVGPNTRFILAQPFLGETTGALERRGAKRIAA 256
Query: 922 VYGIEVD 928
+ +
Sbjct: 257 PFPFGEE 263
>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase,
primase, NHEJ, transferase; 1.65A {Mycobacterium
tuberculosis} PDB: 2irx_A* 2iry_A* 2r9l_A* 3pky_A*
Length = 303
Score = 29.4 bits (66), Expect = 5.9
Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 1/47 (2%)
Query: 357 RFMTGIQPQEFFF-HCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGL 402
R+ G+ FF + A RSG ++ GL
Sbjct: 56 RWPNGVDQPAFFEKQLALSAPPWLSRATVAHRSGTTTYPIIDSATGL 102
>3cih_A Putative alpha-rhamnosidase; structural genomics, protein structure
initiative II, NYSGXRC, (alpha/alpha)6 barrel domain;
2.33A {Bacteroides thetaiotaomicron vpi-5482}
Length = 739
Score = 29.7 bits (66), Expect = 5.9
Identities = 10/44 (22%), Positives = 16/44 (36%)
Query: 105 PKDKVIIRHGELLSGILDKKQFGSTQYGLVHAVWDTHVTIRHGE 148
K K+ + +GE DK + L+ T + IR
Sbjct: 213 GKGKIDLYYGESPEEAKDKAYCETLDKLLLEPGQITDLAIRSTS 256
>2d1y_A Hypothetical protein TT0321; strucrtural genomics, thermus
thermophilus HB8, structural genomics, NPPSFA; HET: NAD;
1.65A {Thermus thermophilus} SCOP: c.2.1.2
Length = 256
Score = 29.4 bits (67), Expect = 6.1
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 743 DVEDDEGEGAEGAGAALGRVDVSSDEERDE--EDAVQSHKKV 782
D+ + E AE G A +VD+ + ER E+A + +V
Sbjct: 37 DLRPEGKEVAEAIGGAFFQVDLEDERERVRFVEEAAYALGRV 78
>2dnw_A Acyl carrier protein; ACP, fatty acid biosynthesis, mitochondria,
NADH:ubiquinone oxidereductase, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 99
Score = 27.4 bits (61), Expect = 7.4
Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 646 ANRLAKSMTRITMADVLEKVK--IKEWLEISPE 676
+ + M +T+ + ++V +K + +I PE
Sbjct: 1 GSSGSSGMPPLTLEGIQDRVLYVLKLYDKIDPE 33
>1twf_F ABC23, DNA-directed RNA polymerases I, II, and III 23 KD
polypeptide; transcription, mRNA, multiprotein complex;
HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP:
a.143.1.2 PDB: 1i3q_F 1i6h_F 1k83_F* 1nik_F 1nt9_F
1pqv_F 1r5u_F 1r9s_F* 1r9t_F* 1sfo_F* 1twa_F* 1twc_F*
1i50_F* 1twg_F* 1twh_F* 1wcm_F 1y1v_F 1y1w_F 1y1y_F
1y77_F* ...
Length = 155
Score = 28.1 bits (62), Expect = 9.7
Identities = 15/84 (17%), Positives = 30/84 (35%), Gaps = 8/84 (9%)
Query: 766 SDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDN--TSNIGERFKIEFRDST 823
SD E D ++ ED D E DEE E+ + + T++ + + +
Sbjct: 2 SDYEEAFNDGNEN------FEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGP 55
Query: 824 NVFVKDVVNQHNIVHKYSYDKKNH 847
F + + + + + K
Sbjct: 56 EDFQQHEQIRRKTLKEKAIPKDQR 79
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 0.394
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: 15,496,142
Number of extensions: 977955
Number of successful extensions: 2200
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2103
Number of HSP's successfully gapped: 62
Length of query: 1020
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 917
Effective length of database: 3,825,930
Effective search space: 3508377810
Effective search space used: 3508377810
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: 62 (28.2 bits)