RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 001050
(1173 letters)
>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 = 1198 bits (3102), Expect = 0.0
Identities = 406/1248 (32%), Positives = 614/1248 (49%), Gaps = 110/1248 (8%)
Query: 1 MDSDDNGFTDPTSLCDLGEEFLKTFCRKAAVSFFNEYGLVSHQINSYNEFIKNGLQKAFD 60
+S+ DP D +FF E GLVS Q++S+N+F+ LQ
Sbjct: 5 ANSEKYYDEDPYGFEDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIIC 64
Query: 61 SFGETIVEPGYDPSKKGEGEWRYASMRFGQVTLDKPSFFAGNGGDEHDMFPRHARLQNMT 120
I+E + + + R + FG++ + KP +G H ++P+ ARL+N+T
Sbjct: 65 EDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDGV-THALYPQEARLRNLT 123
Query: 121 YSSRMKVKVQFQVYTQKRVTSDKFKTGREQYIQKEVLSDETTNIIIGRIPVMVKSDLCWM 180
YSS + V V+ + Y + E ++ E+ + IGR+P+M++S C++
Sbjct: 124 YSSGLFVDVKKRTYEAID--VPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYL 181
Query: 181 KG------VEKGDCDFDHGGYFIIKGAEKVFVAQEQICLKRLWV-----SNSMGWTVAYK 229
+ +C FD GGYFII G+EKV +AQE+ + V + + +
Sbjct: 182 SEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIR 241
Query: 230 S--ENKRNRLIVRLVDMSKFEDIKGGEKVLSVYFLSTEIPIWILFFALGVSSDKEIVNLI 287
S E + V + E ++ ++ +IPI I+F ALG+ D EI+ I
Sbjct: 242 SALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHI 301
Query: 288 DFTCEDCSILNILFASIHDADNKCDEFRKGRNALKYVDKLIKGTTFPPGESTE---ECMN 344
+ D +L +L + D D AL ++ + + + + +
Sbjct: 302 CYDVNDWQMLEMLKPCVEDGFVIQDR----ETALDFIGRRGTALGIKKEKRIQYAKDILQ 357
Query: 345 TYLFPSLHGT----KQKARFLGYMVKCLLQAYSGRRKCDNRDDFRNKRLELAGELLEREL 400
P + +KA FLGYM+ LL R+ D+RD F KRL+LAG LL +
Sbjct: 358 KEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLF 417
Query: 401 KVHIAHARKRMAKALQRDLYGDRTVRPIEYYLDASILTNGLSRAFSTGAWSHPFKRTERI 460
K K + + +QR + ++ ++A +T+GL A +TG W K
Sbjct: 418 KTLFKKLTKDIFRYMQRTVEEAHDFN-MKLAINAKTITSGLKYALATGNWGEQKKAMSSR 476
Query: 461 SGIVANLGRANPLQTLVDLRRTRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLV 520
+G+ L R TL LRRT + GK+ R H +HWG +C TP+G+ CGLV
Sbjct: 477 AGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLV 536
Query: 521 KNLGVTGLVST-SILEPIFEQLFNSGMEKLADDASYSLGGKFKVFVDGDWIGVCKDSLSF 579
KNL + +S + PI L GME L D + +VFV+G W GV ++
Sbjct: 537 KNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARL 596
Query: 580 VSELRRKRRRKELPTQVEIKRDELQSEVRIFMDAGRILRPLLVVEN------------MG 627
+ LR RR+ ++ +V + RD + E++IF DAGR+ RPL +VE+ G
Sbjct: 597 METLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKG 656
Query: 628 KIKSL-------------EGKNYTFQALLDHGIIELVGTEEEEDCCTAWGIKYLLKDIED 674
I L + + YT+ +LL+ G++E + EEEE A + L +
Sbjct: 657 HIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEAN 716
Query: 675 K----------------KPIKFTHCELDMSFLLGLSCGIIPFANHDHARRVLYQSQKHSS 718
+ FTHCE+ S +LG++ IIPF +H+ + R YQS
Sbjct: 717 EENDLDVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQS-AMGK 775
Query: 719 QAIGFPTTNPSIRVDTLSHQLFYPQRPLFRTMISDCLGKPGYGHNHILPRPELYNGQNAI 778
QA+G TN ++R+DT+++ L+YPQ+PL T + L EL GQNAI
Sbjct: 776 QAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFR-----------ELPAGQNAI 824
Query: 779 VAVNVHLGYNQEDSLVMNRASLERGMFRSEHIRSYKAEVDNKEMQVKRRSSDDMVNFGKI 838
VA+ + GYNQEDS++MN++S++RG+FRS RSY + M + +
Sbjct: 825 VAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQ-RTNTL 883
Query: 839 QSKIGRVDSLDDDGFPFIGANLQSGDIVIGKYA---------------DSGADHSIKLKH 883
+ K G D LDDDG G + D++IGK S D S L+
Sbjct: 884 RMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRS 943
Query: 884 TERGMVQKVVLSSNDDGKNFSVVSLRQVRSPCLGDKFSSMHGQKGVLGFLESQENFPFTI 943
TE G+V +V++++N DG F V +R + P +GDKF+S HGQKG +G +E+ PFT
Sbjct: 944 TENGIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTA 1003
Query: 944 QGIVPDIVINPHAFPSRQTPGQLLEAALGKGIAALGKGICSGLKRYATPFATPSVDAITE 1003
+GIVPD++INPHA PSR T L+E L K SG + A+PF +V+ I++
Sbjct: 1004 EGIVPDLIINPHAIPSRMTVAHLIECLLSKV------AALSGNEGDASPFTDITVEGISK 1057
Query: 1004 QLHRAGFSKWGTERLYDGRTGEMVRSLIFIGPTFYQRLIHMSEDKVKFRNTGPVHPLTRQ 1063
L G+ G E +Y+G TG+ + + IF GPT+YQRL HM +DK+ R GP+ LTRQ
Sbjct: 1058 LLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQ 1117
Query: 1064 PVADRKRFGGIKFGEMERDCLIAHGAAANLHERLFTLSDSYQMHICRKCKNVANVIQRVV 1123
PV R R GG++FGEMERDC+IAHGAA+ L ERL SD++++HIC C + +
Sbjct: 1118 PVEGRSRDGGLRFGEMERDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVI----- 1172
Query: 1124 GGGRKVRGPYCRICDSGDDIVKANVPYGAKLLCQELFSMGITLKFDTE 1171
C+ CD+ DI + ++PY AKLL QEL +M IT + T+
Sbjct: 1173 -AKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNITPRLYTD 1219
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1210
Score = 1197 bits (3098), Expect = 0.0
Identities = 408/1237 (32%), Positives = 612/1237 (49%), Gaps = 117/1237 (9%)
Query: 16 DLGEEFLKTFCRKAAVSFFNEYGLVSHQINSYNEFIKNGLQKAFDSFGETIVEPGYDPSK 75
E + C SFF E L Q+ S++EF++N +Q+ D ++ +
Sbjct: 7 QYNETLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTG 66
Query: 76 KGEGEWRYASMRFGQVTLDKPSFFAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVYT 135
R + FGQ+ L +P+ +G MFP+ ARL+N+TYSS + V ++ +V
Sbjct: 67 AQGDVTRRYEINFGQIYLSRPTMTEADG-STTTMFPQEARLRNLTYSSPLYVDMRKKVMV 125
Query: 136 QKRVTSDKFKTGREQYIQKEVLSDETTNIIIGRIPVMVKSDLCWMKG------VEKGDCD 189
S+ E +++E E + + IG+IP+M++S C + G + +C
Sbjct: 126 AAD--SNVPIGEEEWLVEEEDE--EPSKVFIGKIPIMLRSTFCILNGVSDSELYDLNECP 181
Query: 190 FDHGGYFIIKGAEKVFVAQEQICLKRLWV-----SNSMGWTVAYKSENKRNRL---IVRL 241
+D GGYFII G+EKV +AQE+ + V + + + +S +R +++
Sbjct: 182 YDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQI 241
Query: 242 VDMSKFEDIKGGEKVLSVYFLSTEIPIWILFFALGVSSDKEIVNLIDFTCEDCSILNILF 301
M++ + G ++ ++ ++IPI I+F ALGV D++I+ I + D +L ++
Sbjct: 242 KLMARNTENSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMK 301
Query: 302 ASIHDADNKCDEFRKGRNALKYVDKLIKGTTFPPG---ESTEECMNTYLFPSLHGT---- 354
I + + AL Y+ K T + + L P +
Sbjct: 302 PCIEE----AFVIQDKDIALDYIGKRGSTTGVTREKRLRYAHDILQKELLPHITTMEGFE 357
Query: 355 KQKARFLGYMVKCLLQAYSGRRKCDNRDDFRNKRLELAGELLERELKVHIAHARKRMAKA 414
+KA FLGYM+ +L RR+ D+RD F KRL+LAG LL ++ + + K
Sbjct: 358 TRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKY 417
Query: 415 LQRDLYGDRTVRPIEYYLDASILTNGLSRAFSTGAWSHPFKRTERISGIVANLGRANPLQ 474
+Q+ + +R + + ++I+TNGL + +TG W + G+ L R
Sbjct: 418 MQKCVETNREFN-LTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFAS 476
Query: 475 TLVDLRRTRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLVKNLGVTGLVST-SI 533
TL LRRT + GK+ R H +HWG +C TP+G+ CGLVKNL + VS S
Sbjct: 477 TLSHLRRTNTPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSP 536
Query: 534 LEPIFEQLFNSGMEKLADDASYSLGGKFKVFVDGDWIGVCKDSLSFVSELRRKRRRKELP 593
PI E L G+E L D + KVFV+G W+GV +D LR RRR ++
Sbjct: 537 SAPIIEFLEEWGLETLEDYNPSASPNATKVFVNGVWLGVHRDPAHLTETLRSLRRRLDIS 596
Query: 594 TQVEIKRDELQSEVRIFMDAGRILRPLLVVENMGK-------------IKSLE------- 633
+V I RD + E+R+F DAGRI RPL +V+N I+ L
Sbjct: 597 AEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQLIEDKDRYD 656
Query: 634 ---GKNYTFQALLDHGIIELVGTEEEEDCCTAWGIKYL---------------------L 669
+ + + AL+ G+IE + EEEE A + L +
Sbjct: 657 IDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRV 716
Query: 670 KDIEDKKPIKFTHCELDMSFLLGLSCGIIPFANHDHARRVLYQSQKHSSQAIGFPTTNPS 729
K + +THCE+ + +LG+ IIPF +H+ + R YQS QA+G TN
Sbjct: 717 KPAPNPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQS-AMGKQAMGVYLTNYQ 775
Query: 730 IRVDTLSHQLFYPQRPLFRTMISDCLGKPGYGHNHILPRPELYNGQNAIVAVNVHLGYNQ 789
+R+DT+++ L+YPQ+PL T + L EL GQNAIVA+ + GYNQ
Sbjct: 776 VRMDTMANILYYPQKPLATTRSMEYLKFR-----------ELPAGQNAIVAILCYSGYNQ 824
Query: 790 EDSLVMNRASLERGMFRSEHIRSYKAEVDNKEMQVKRRSSDDMVNFGKIQSKIGRVDSLD 849
EDS++MN+AS++RG+FRS R+Y + M V + ++ K G D L+
Sbjct: 825 EDSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPV-RSTTLRMKHGTYDKLE 883
Query: 850 DDGFPFIGANLQSGDIVIGKYADSGA---------------DHSIKLKHTERGMVQKVVL 894
DDG G + DI+IGK A D S L+ TE G+V +V++
Sbjct: 884 DDGLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMV 943
Query: 895 SSNDDGKNFSVVSLRQVRSPCLGDKFSSMHGQKGVLGFLESQENFPFTIQGIVPDIVINP 954
++N +G F V +R R P +GDKF+S HGQKG +G E+ PF+ QGIVPDI+INP
Sbjct: 944 TTNQEGLKFVKVRMRSTRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINP 1003
Query: 955 HAFPSRQTPGQLLEAALGKGIAALGKGICSGLKRYATPFATPSVDAITEQLHRAGFSKWG 1014
HA PSR T L+E L K SG + ATPF +V+A+++ L GF G
Sbjct: 1004 HAIPSRMTVAHLVECQLSKV------SALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRG 1057
Query: 1015 TERLYDGRTGEMVRSLIFIGPTFYQRLIHMSEDKVKFRNTGPVHPLTRQPVADRKRFGGI 1074
E +Y G TG + + +F+GPT+YQRL H+ +DK+ R GPV LTRQPV R R GG+
Sbjct: 1058 FEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGL 1117
Query: 1075 KFGEMERDCLIAHGAAANLHERLFTLSDSYQMHICRKCKNVANVIQRVVGGGRKVRGPYC 1134
+FGEMERDC I+HG ++ L ERLF SD+Y++ +C C +A K C
Sbjct: 1118 RFGEMERDCQISHGCSSVLRERLFDCSDAYRVIVCDICGLIAIA-------SYKKDSYEC 1170
Query: 1135 RICDSGDDIVKANVPYGAKLLCQELFSMGITLKFDTE 1171
R C + + +PY AKLL QEL SM I + T+
Sbjct: 1171 RSCQNRTRFSQVYLPYAAKLLFQELMSMNIAPRLFTK 1207
>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 = 1100 bits (2847), Expect = 0.0
Identities = 357/1206 (29%), Positives = 561/1206 (46%), Gaps = 139/1206 (11%)
Query: 16 DLGEEFLKTFCRKAAVSFFNEYGLVSHQINSYNEFIKNGLQKAFDSFGETIVE-PGYDPS 74
+L K ++F GLV ++SYN+F++N LQ+ D GE E PG
Sbjct: 3 ELSSNLSIDERWKVIEAYFKSKGLVRQHLDSYNDFVRNKLQEIIDEQGEIPTEIPGL--- 59
Query: 75 KKGEGEWRYASMRFGQVTLDKPSFFAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVY 134
+R G++ + KP + E ++ P ARL+N+TY++ + + +
Sbjct: 60 ----------KVRLGKIRIGKPRVRESDR-GEREISPMEARLRNLTYAAPLWLTMIPVEN 108
Query: 135 TQKRVTSDKFKTGREQYIQKEVLSDETTNIIIGRIPVMVKSDLCWMKG------VEKGDC 188
+ E + IG +P+M+KS + + +E G+
Sbjct: 109 NIEA---------------------EPEEVYIGDLPIMLKSAIDPISQYTLDKLIEIGED 147
Query: 189 DFDHGGYFIIKGAEKVFVAQEQICLKRLWVS-----NSMGWTVAYKSENKRNRLIVRLVD 243
D GGYFI+ G+E+V V QE + R+ V +++ T S R+ V +
Sbjct: 148 PKDPGGYFIVNGSERVIVTQEDLAPNRVLVDTGKTGSNITHTAKIISSTAGYRVPVTIER 207
Query: 244 MSKFEDIKGGEKVLSVYFLSTEIPIWILFFALGVSSDKEIVNLIDFTCEDCSILNILFAS 303
+ K G +S + +IP IL ALG+ +D++IV + D I N LF S
Sbjct: 208 L------KDGTFHVSFPAVPGKIPFVILMRALGILTDRDIVYAV---SLDPEIQNELFPS 258
Query: 304 IHDADNKCDEFRKGRNALKYVDKLIK--GTTFPPGESTEECMNTYLFP----SLHGTKQK 357
+ A + + +AL ++ + E ++ ++ Y P S ++K
Sbjct: 259 LEQASSIANV----DDALDFIGSRVAIGQKRENRIEKAQQIIDKYFLPHLGTSADDRRKK 314
Query: 358 ARFLGYMVKCLLQAYSGRRKCDNRDDFRNKRLELAGELLERELKVHIAHARKRMAKALQR 417
A +L Y + +++ Y GRR+ D++D + NKRL LAG+L +V K + L++
Sbjct: 315 AYYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQLEK 374
Query: 418 DLYGDRTVRPIEYYLDASILTNGLSRAFSTGAWSHPFKRTERISGIVANLGRANPLQTLV 477
R + ++ + I+T + A +TG W +G+ L R N L L
Sbjct: 375 SKVRGRKL-ALKALVRPDIVTERIRHALATGNWVGGR------TGVSQLLDRTNWLSMLS 427
Query: 478 DLRRTRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLVKNLGVTGLVSTSILE-P 536
LRR + +AR H + WG++C TP+G N GLVKNL + ++ I E
Sbjct: 428 HLRRVISSLARGQPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALMAQIAVGINEKI 487
Query: 537 IFEQLFNSGMEKLADDASYSLGGK---------FKVFVDGDWIGVCKDSLSFVSELRRKR 587
+ + L+ G+ + + G KV ++G +G +D ++R +R
Sbjct: 488 VEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYRDGEELAKKIRERR 547
Query: 588 RRKELPTQVEIKRD--ELQSEVRIFMDAGRILRPLLVVEN------MGKIKSLEGKNYTF 639
R+ E+ +V + + +EV + D+GR+ RPL++V N I+ L+ + TF
Sbjct: 548 RKGEISDEVNVGHIVTDFINEVHVNCDSGRVRRPLIIVSNGNPLVTREDIEKLDSGSITF 607
Query: 640 QALLDHGIIELVGTEEEEDCCTAWGIKYLLKDIEDKKPIKFTHCELDMSFLLGLSCGIIP 699
L+ G IE + EEEE+ A L + TH E+ +LG++ IIP
Sbjct: 608 DDLVRQGKIEYLDAEEEENAYVALEPSDLTP--------EHTHLEIWSPAILGITASIIP 659
Query: 700 FANHDHARRVLYQSQKHSSQAIGFPTTNPSIRVDTLSHQLFYPQRPLFRTMISDCLGKPG 759
+ H+ + R YQS + QA+G N +R DT +H L YPQRPL +T D +G
Sbjct: 660 YPEHNQSPRNTYQSAM-AKQALGLYAANYQLRTDTRAHLLHYPQRPLVQTRALDIIGYT- 717
Query: 760 YGHNHILPRPELYNGQNAIVAVNVHLGYNQEDSLVMNRASLERGMFRSEHIRSYKAEVDN 819
G NAI+AV GYN EDS++MNR+S+ERGM+RS R Y E
Sbjct: 718 ----------NRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFRLYSTEEVK 767
Query: 820 KEMQVKRRSSDDMVNFGKIQSKIGRVDSLDDDGFPFIGANLQSGDIVIGKY--------- 870
+ + + L+D+G ++ GD++IGK
Sbjct: 768 YPGGQEDKIVM-PEPGVRGYKGKEYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQEF 826
Query: 871 -----ADSGADHSIKLKHTERGMVQKVVLSSNDDGKNFSVVSLRQVRSPCLGDKFSSMHG 925
+ D SI +H E G+V V+++ +G V +R +R P +GDKF+S HG
Sbjct: 827 KELSPEQAKRDTSIVTRHGEMGIVDLVLITETAEGNKLVKVRVRDLRIPSIGDKFASRHG 886
Query: 926 QKGVLGFLESQENFPFTIQGIVPDIVINPHAFPSRQTPGQLLEAALGKGIAALGKGICSG 985
QKGV+G L Q + P+T++G+VPD+++NPHA PSR T GQ++E GK SG
Sbjct: 887 QKGVIGMLIPQVDMPYTVKGVVPDVILNPHALPSRMTLGQIMEGIAGKY------AALSG 940
Query: 986 LKRYATPFATPSVDAITEQLHRAGFSKWGTERLYDGRTGEMVRSLIFIGPTFYQRLIHMS 1045
ATPF ++ + ++ + G+ TE YDGRTG+ ++S I+ G +YQ+L HM
Sbjct: 941 NIVDATPFYKTPIEQLQNEILKYGYLPDATEVTYDGRTGQKIKSRIYFGVVYYQKLHHMV 1000
Query: 1046 EDKVKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGAAANLHERLFTLSDSYQ 1105
DK+ R GPV LTRQP R R GG++FGEMERDCLI G A L +RL SD
Sbjct: 1001 ADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGFGTAMLLKDRLLDNSDRTT 1060
Query: 1106 MHICRKCKNVANVIQRVVGGGRKVRGPYCRICDSGDDIVKANVPYGAKLLCQELFSMGIT 1165
+++C +C + + C I ++ V Y KLL QEL SM I+
Sbjct: 1061 IYVCDQCGYIGWY-------DKNKNKYVCPIHGDKSNLFPVTVSYAFKLLIQELMSMIIS 1113
Query: 1166 LKFDTE 1171
+ E
Sbjct: 1114 PRLILE 1119
>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 = 144 bits (366), Expect = 3e-35
Identities = 132/484 (27%), Positives = 198/484 (40%), Gaps = 126/484 (26%)
Query: 770 ELYNGQNAIVAVNVHLGYNQEDSLVMNRASLERGMFRSEHIRSYKAEV-DNKEMQVKRRS 828
L GQN +VA+ GYN ED++V++ L+R + S HI Y+ E D K
Sbjct: 665 FLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFYTSIHIERYEIEARDTKL------- 717
Query: 829 SDDMVNFG--KIQSKIGRVDS-----LDDDGFPFIGANLQSGDIVIGKY----------- 870
G +I I + LD++G IGA ++ GDI++G+
Sbjct: 718 -------GPERITRDIPHLSEAALRDLDEEGVVRIGAEVKPGDILVGRTSFKGESEPTPE 770
Query: 871 -----------ADSGADHSIKLKHTERGMVQKVVLSS-------NDDGKNFSV-VSLRQV 911
A D S+++ E G+V + V G V V + Q
Sbjct: 771 ERLLRSIFGEKARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGVREVVRVYVAQK 830
Query: 912 RSPCLGDKFSSMHGQKGVLGFLESQENFPFTIQGIVPDIVINPHAFPSRQTPGQLLEAAL 971
R +GDK ++ HG KGV+ + E+ P G D+++NP PSR GQ+LE L
Sbjct: 831 RKLQVGDKLANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHL 890
Query: 972 GKGIAALGKGICSGLKRYATP-FATPSVDAITEQLHRAGFSKWGTE-------------- 1016
G +A G +RY +P F I E L +A +G
Sbjct: 891 G--LAGYFLG-----QRYISPIFDGAKEPEIKELLAQAFEVYFGKRKGEGFGVDKREVEV 943
Query: 1017 -----------------------------RLYDGRTGEMVRSLIFIGPTFYQRLIHMSED 1047
LYDGRTGE + I +G F +L HM ED
Sbjct: 944 LRRAEKLGLVTPGKTPEEQLKELFLQGKVVLYDGRTGEPIEGPIVVGQMFIMKLYHMVED 1003
Query: 1048 KVKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGAAANLHERLFTLSDSYQMH 1107
K+ R+TGP +T+QP+ + +FGG +FGEME L A+GAA L E L SD
Sbjct: 1004 KMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEMLTLKSD----D 1059
Query: 1108 ICRKCKNVANVIQRVVGGGRKVRGPYCRICDSGDDIVKANVPYGAKLLCQELFSMGITLK 1167
I + +I+ G+D+ + +VP ++L +EL ++ + ++
Sbjct: 1060 IEGRNAAYEAIIK-------------------GEDVPEPSVPESFRVLVKELQALALDVQ 1100
Query: 1168 FDTE 1171
E
Sbjct: 1101 TLDE 1104
Score = 68.1 bits (167), Expect = 2e-11
Identities = 98/545 (17%), Positives = 176/545 (32%), Gaps = 165/545 (30%)
Query: 38 GLVSHQINSYNEFIKN----------GLQKAFDSFGETIVEPGYDPSKKGEGEWRYASMR 87
L Q+ SY ++ G+Q AF P ++ + +
Sbjct: 17 PLTEIQVESYRRALQADVPPEKRENVGIQAAFRETF---------PIEEEDKGKGGLVLD 67
Query: 88 FGQVTLDKPSFFAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVYTQKRVTSDKFKTG 147
F + L +P F + + R +++TY + + ++Q +
Sbjct: 68 FLEYRLGEPPF------PQDE-----CREKDLTYQAPLYARLQLIHKDTGLI-------- 108
Query: 148 REQYIQKEVLSDETTNIIIGRIPVMVKSDLCWMKGVEKGDCDFDHGGYFIIKGAEKVFVA 207
+E + +G IP+M + G FII GA++V V+
Sbjct: 109 KED------------EVFLGHIPLMTED------------------GSFIINGADRVIVS 138
Query: 208 QEQICLKRLWVSNSMGWTVAYKSENKRNRLIV-----------RLVDMSKFE-DIKGGEK 255
Q + R S G V + + R + + E + G
Sbjct: 139 Q----IHR-----SPG--VYFTPDPARPGRYIASIIPLPKRGPWI----DLEVEPNG--- 180
Query: 256 VLSVYFLSTEIPIWILFFALGVSSDKEIVNLIDFTCEDCSILNILFASIHDADNKCDEFR 315
V+S+ + P+ +L LG + L + +++ ++ + F
Sbjct: 181 VVSMKVNKRKFPLVLLLRVLGYDQETLARELGAYGELVQGLMDESVFAMRPEEALIRLFT 240
Query: 316 KGRNA----LKYVDKLIKGTTFPP-----GESTEECMNTYLFPSLHGTKQKARFLG---- 362
R + G P GE+ L L G G
Sbjct: 241 LLRPGDPPKRDKAVAYVYGLIADPRRYDLGEAGRYKAEEKLGIRLSGRTLARFEDGEFKD 300
Query: 363 ----YMVKCLLQAYSGRR--KCDNRDDFRNKRLELAGELLERELKVHIAHARKRMAKALQ 416
++ L +G + D+ D N+R+ GEL+ + +V +A R+A+ ++
Sbjct: 301 EVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMTDQFRVGLA----RLARGVR 356
Query: 417 RDLYGDRTVRPIEYYLDASILTNGLSRAFST------GAWSHP---FKRTERISGIVANL 467
+R + E L + L N SR F
Sbjct: 357 -----ERMLMGSEDSLTPAKLVN--SRPLEAAIREFFS--RSQLSQF------------K 395
Query: 468 GRANPLQTLVDLRR---------TRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCG 518
NPL +L RR TR++ + D R H +H+G+IC + TP+G N G
Sbjct: 396 DETNPLSSLRHKRRISALGPGGLTRERAGF-----DVRDVHRTHYGRICPVETPEGANIG 450
Query: 519 LVKNL 523
L+ +L
Sbjct: 451 LITSL 455
>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 = 100 bits (250), Expect = 2e-21
Identities = 93/377 (24%), Positives = 144/377 (38%), Gaps = 85/377 (22%)
Query: 791 DSLVMNRASLERGMFRSEHIRSYKAEVDNKEMQVKRRSSD--------DMVNFGKIQSKI 842
D V R +E+ R+ I + + K++ + + + ++ G + +
Sbjct: 930 DVQVFTRDGVEKDK-RALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGV--EA 986
Query: 843 GRVDSLDDDGFPFIGANLQSGDIVIGKYADSGADHSIKLKHTERG-------MVQKVVLS 895
++D L D + ++ + + ++ E ++ ++
Sbjct: 987 EKLDKLPRD---------RWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKIT 1037
Query: 896 SNDD---GKNFSV-VSLRQVRSPCLGDKFSSMHGQKGVLGFLESQENFPFTIQGIVPDIV 951
DD G V V L R GDK + HG KGV+ + E+ P+ G DIV
Sbjct: 1038 QGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIV 1097
Query: 952 INPHAFPSRQTPGQLLEAALGKGIAALGKGICSGLKRYAT-------------------- 991
+NP PSR GQ+LE LG +G I + LK+
Sbjct: 1098 LNPLGVPSRMNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQ 1157
Query: 992 -----------------------PFATP-----SVDAITEQLHRAGFSKWGTERLYDGRT 1023
P ATP I E L G RLYDGRT
Sbjct: 1158 KVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPTSGQIRLYDGRT 1217
Query: 1024 GEMVRSLIFIGPTFYQRLIHMSEDKVKFRNTGP---VHPLTRQPVADRKRFGGIKFGEME 1080
GE + +G + +L H+ +DK+ R+TG V T+QP+ + +FGG +FGEME
Sbjct: 1218 GEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLV---TQQPLGGKAQFGGQRFGEME 1274
Query: 1081 RDCLIAHGAAANLHERL 1097
L A+GAA L E L
Sbjct: 1275 VWALEAYGAAYTLQEML 1291
Score = 61.3 bits (149), Expect = 2e-09
Identities = 54/269 (20%), Positives = 104/269 (38%), Gaps = 86/269 (31%)
Query: 39 LVSHQINSYNEFIKN------GLQKAFDSFGETIVEPGYDPSKKGEGEWRYASMRFGQVT 92
L+S Q++S+ +FI+ GL+ AF S V P S + +++
Sbjct: 27 LLSIQLDSFQKFIEQDPEGQYGLEAAFRS-----VFPIQSYSGN-------SELQYVSYR 74
Query: 93 LDKPSFFAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVYTQKRVTSDKFKTGREQYI 152
L +P F + +++ +TYS+ ++VK++ +Y ++ K +EQ
Sbjct: 75 LGEPVFD-----------VQECQIRGVTYSAPLRVKLRLVIY-EREAPEGTVKDIKEQ-- 120
Query: 153 QKEVLSDETTNIIIGRIPVMVKSDLCWMKGVEKGDCDFDHGGYFIIKGAEKVFVAQEQIC 212
+ +G IP+M + G F+I G E+V V+Q
Sbjct: 121 ----------EVYMGEIPLMTDN------------------GTFVINGTERVIVSQ---- 148
Query: 213 LKRLWVSNSMGWTVAYKSENKRNRLIVRLVDMSK----------FE-DIKGGEKVLSVYF 261
L R S G V + S+ + +++ ++ FE D K L V
Sbjct: 149 LHR-----SPG--VFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKD---NLFVRI 198
Query: 262 -LSTEIPIWILFFALGVSSDKEIVNLIDF 289
++P I+ AL ++++ + +
Sbjct: 199 DRRRKLPATIILRALNYTTEQILDLFFEK 227
Score = 56.7 bits (137), Expect = 5e-08
Identities = 40/172 (23%), Positives = 78/172 (45%), Gaps = 34/172 (19%)
Query: 365 VKCLLQAYSGRRKCDNRDDFRNKRLELAGELLERELKVHIAHARKRMAKALQR--DLYGD 422
+K L+ +G+ + D+ D N+R+ GE+ E + +V + R+ +A++ L
Sbjct: 429 MKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLV----RVERAVKERLSLGDL 484
Query: 423 RTVRPIEYYLDASILTNGLSRAFSTGAWSHPFKRTERISGIVANLGRANPLQTLVDLRR- 481
T+ P + ++A ++ + F + S + NPL + RR
Sbjct: 485 DTLMPQDM-INAKPISAAVKEFFGSSQLSQFMVQN-------------NPLSEITHKRRI 530
Query: 482 --------TRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLVKNLGV 525
TR++ + + R HP+H+G++C + TP+G N GL+ +L V
Sbjct: 531 SALGPGGLTRERAGF-----EVRDVHPTHYGRVCPIETPEGPNIGLINSLSV 577
Score = 51.6 bits (124), Expect = 2e-06
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 12/103 (11%)
Query: 770 ELYNGQNAIVAVNVHLGYNQEDSLVMNRASLERGMFRSEHIRSYKAEV-DNK--EMQVKR 826
EL GQN VA GYN EDS++++ ++ F + HI+ D K ++
Sbjct: 793 ELALGQNMRVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITA 852
Query: 827 RSSDDMVNFGKIQSKIGRVDSLDDDGFPFIGANLQSGDIVIGK 869
D+ N G+ LD+ G +IGA + GDI++GK
Sbjct: 853 ----DIPNVGEAALS-----KLDESGIVYIGAEVTGGDILVGK 886
>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 = 61.2 bits (148), Expect = 2e-09
Identities = 98/554 (17%), Positives = 163/554 (29%), Gaps = 201/554 (36%)
Query: 522 NLGVTGLVSTSILEPIFEQL---FNSGM----EKLA-DDASYS---LGGKFKVFVD---- 566
+L LV T+ I QL FN + E A DD + L GKF +V
Sbjct: 15 SLEHVLLVPTASF-FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 567 ----GDWIGVCKDSL-SFVSE-LRRK---RRRKELPTQVEIKRDELQSEVRIFMDAGRIL 617
G + V L F + L +L + + + + ++ ++ A +
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 618 -RP--------LLVVENMGKIK--SLEG-----KNY---------TFQALLDHGII---- 648
RP L G + ++ G +Y T+ L+ I
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE 193
Query: 649 ---ELVGTEEEEDCCTAWGIKYL--LKDIEDKKP-------------------------- 677
EL+ T + + G+ L L++ P
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILEWLEN-PSNTPDKDYLLSIPISCPLIGVIQLAHYVVT 252
Query: 678 ---IKFTHCELDMSF--LLGLSCGIIP-------------FANHDHARRVLYQSQKHSSQ 719
+ FT EL G S G++ F + A VL+ +
Sbjct: 253 AKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE 312
Query: 720 AIGFPTTN--PSIRVDTLSHQLFYPQRPLFRTMISDCLGKPGYGHNHILPRPELYNGQNA 777
A +P T+ PSI D+L + P P M+S L + ++ Q+
Sbjct: 313 A--YPNTSLPPSILEDSLENNEGVP-SP----MLS-ISN---------LTQEQV---QDY 352
Query: 778 IVAVNVHLG---------YNQEDSLVM--NRASLERGMFRSEHIRSYKAEVDNKEMQV-- 824
+ N HL N +LV+ SL +R KA + ++
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG--LNL-TLRKAKAPSGLDQSRIPF 409
Query: 825 -KRRSSDDMVNFGKIQSKIGRVDSLDDDGFPF-----------IGANLQSGDIVIGKYAD 872
+R+ F + S PF I +L ++
Sbjct: 410 SERKLKFSNR-FLPVAS-------------PFHSHLLVPASDLINKDLVKNNVSF----- 450
Query: 873 SGADHSIKLKHTERGMVQKVVLSSNDDGKNFSVVS-------LRQV-RSPC---LGDKFS 921
+ D I + T DG + V+S + + R P +F
Sbjct: 451 NAKDIQIPVYDTF-------------DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 922 SMH----GQKGVLG 931
+ H G G G
Sbjct: 498 ATHILDFGPGGASG 511
Score = 56.2 bits (135), Expect = 6e-08
Identities = 104/682 (15%), Positives = 185/682 (27%), Gaps = 266/682 (39%)
Query: 576 SLSFVSELRRKRRRKELP--TQVEIKRDELQSEVRIFMDAGRILRPLLVVENMGKIKSL- 632
+ F++ +++ K LP T+ DE + LV + +G + SL
Sbjct: 25 ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE------------LVGKFLGYVSSLV 72
Query: 633 -EGKNYTFQALLDHGIIELVGTEEEEDCCTAWGIKYLL-KDIEDKKPIKFTHCELDMSF- 689
K F +L+ + E E YL DI H +
Sbjct: 73 EPSKVGQFDQVLNLCLTEF-----ENC--------YLEGNDI---------H-----ALA 105
Query: 690 --LLGLSCGIIPFANHDHARRVLYQSQKHSSQAIGFPTTNPSIRVDTLSHQLFYPQRPLF 747
LL + + + L ++ + P LF
Sbjct: 106 AKLLQENDTTLV------KTKELIKNYITARIMAKRPFDKK-------------SNSALF 146
Query: 748 RTMISDCLGKPGYGHNHILPRPELYNGQNAIVAVNVHLGYNQE--DSLVMNRASLERGMF 805
R + G+ ++ ++ GQ G + + L R ++
Sbjct: 147 RAVGE--------GNAQLVA---IFGGQ----------GNTDDYFEEL--------RDLY 177
Query: 806 RS--EHIRSYKAEVDNKEMQVKRRSSDDMVNFGK---IQSKIGRVDSLDDDG-------- 852
++ + ++ R + D F + I + + D
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
Query: 853 FPFIGANLQSGD-IVIGKYADSGADHSIKLKHTE------RGMVQKVVLSSNDDGKNFSV 905
P IG +Q +V K G + + +G+V V ++ D ++F V
Sbjct: 238 CPLIGV-IQLAHYVVTAKL--LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 906 VSLRQVRSPCLGDKFSSMHGQKGVLGFLESQENFPFT----------------------- 942
+ + L F +G + E +P T
Sbjct: 295 SVRKAIT--VL---FF--------IG-VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 943 IQGIVPDIV------INPHAFPSRQ----------------TPGQL--LEAALGKGIAAL 978
I + + V N H +Q P L L L K A
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 979 GKGIC----SGLK-----RY---ATPFATP----SVDAITEQLHRAGFSKWGTERL---- 1018
G S K R+ A+PF + + D I + L + S + + +
Sbjct: 401 GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS-FNAKDIQIPV 459
Query: 1019 YDGRTGEMVRSLIFIGPTFYQRLIHMSEDKVKFRNTGPVHPLTRQPV----ADRKRFGG- 1073
YD G +R L + +R++ + R PV + F
Sbjct: 460 YDTFDGSDLRVL---SGSISERIVDC---------------IIRLPVKWETTTQ--FKAT 499
Query: 1074 --IKFGEMERDCLIAHGAAANLHERLFTLSDSYQMHICRKCKNVANVIQRVVGGGRKVRG 1131
+ FG G A+ L + R G G
Sbjct: 500 HILDFGP---------GGASGL----------------------GVLTHRNKDG----TG 524
Query: 1132 PYCRICDSGDDIVKANVPYGAK 1153
R+ +G + + YG K
Sbjct: 525 --VRVIVAGTLDINPDDDYGFK 544
Score = 50.0 bits (119), Expect = 5e-06
Identities = 44/218 (20%), Positives = 76/218 (34%), Gaps = 60/218 (27%)
Query: 2 DSDDNGFTDPT---SLCDLGEEFLKTFCRKAAVSFFNEYGLVSHQI-----NSYNEFIKN 53
DS +N P+ S+ +L +E ++ + K N + Q+ N + +
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNK-----TNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 54 GLQKAFDSFGETI----VEPGYDPSKKGEGEWR--YASMRFGQVTLDKPSFFAGNGGDEH 107
G ++ T+ G D S+ E R S RF V P F H
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE-RKLKFSNRFLPVAS--P-F--------H 428
Query: 108 --------DMFPRHARLQNMTYSSRMKVKVQFQVYTQKRVTSDKFKTGREQYIQKEVLSD 159
D+ + N++++++ +Q VY T D G + + +S+
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAK---DIQIPVYD----TFD----GSDLRVLSGSISE 477
Query: 160 ETTNIIIGRIPVMVKSDLCWMKGVEKGDC---DFDHGG 194
+ II R+PV W + DF GG
Sbjct: 478 RIVDCII-RLPV----K--WETTTQFKATHILDFGPGG 508
Score = 47.7 bits (113), Expect = 3e-05
Identities = 98/648 (15%), Positives = 184/648 (28%), Gaps = 248/648 (38%)
Query: 3 SDDNGFTDPTSLCDLGEEFLKTFCRKAAVSFFNEYGLVSHQI-----NSYNEFIKNGLQK 57
+DD +PT+ +L +FL G VS + +++ + L
Sbjct: 50 ADD----EPTTPAELVGKFL---------------GYVSSLVEPSKVGQFDQVLNLCLT- 89
Query: 58 AFDSFGETIVEPGYDPSKKGEGEWRYASMRFGQVTLDKPSFFAGNGGDEHDMFPRHARLQ 117
F++ + GN D H + A+L
Sbjct: 90 EFEN-----------------------------------CYLEGN--DIHALA---AKLL 109
Query: 118 NMTYSSRMKVKVQFQVYTQKRVTSDKFKTGREQYIQKEVLSDETTNIIIGRIPVMVKSDL 177
++ +K K + Y R+ + + + S L
Sbjct: 110 QENDTTLVKTKELIKNYITARIMAKRPFDKKSN------------------------SAL 145
Query: 178 CWMKGVEKGDCD----FDHGG------YF--------IIKGAEKVFVAQEQICLKRLWVS 219
+ V +G+ F GG YF + L L
Sbjct: 146 --FRAVGEGNAQLVAIF--GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL--- 198
Query: 220 NSMGWTVAYKSENKRNRLIVRLVDMSKFEDIKGGEKVLSVYFLSTEIP-----IWILFFA 274
++ ++ + +++ ++ ++ +L + IP I ++ A
Sbjct: 199 --------IRTTLDAEKVFTQGLNILEW--LENPSNTPDKDYLLS-IPISCPLIGVIQLA 247
Query: 275 --------LGVSSDKEIVNLID--FTCEDCSILNILFASIHDADNKCDEFRKGRNALKYV 324
LG + E+ + + + + A D+ + F + K +
Sbjct: 248 HYVVTAKLLGFTP-GELRSYLKGATGHSQGLVTAVAIAE---TDSW-ESFFV--SVRKAI 300
Query: 325 DKL--IKG---------TTFPPGESTEECMNTYLFPSLHGTKQKARFLGYMVKCLLQAYS 373
L I G T+ PP + N PS M+
Sbjct: 301 TVLFFI-GVRCYEAYPNTSLPPSILEDSLENNEGVPS------------PMLSI------ 341
Query: 374 GRRKCDNRDDFRNKRLELAGELLERELKVHIA--HARKRMAKA-LQRDLYG-DRTVRPIE 429
+ + + L +V I+ + K + + + LYG + T+R +
Sbjct: 342 ----SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 430 YYLDASILTNGL--SRAFSTGAWSHPF-KRTERISG----IVA-----NLGRANPLQTLV 477
A +GL SR PF +R + S + + L A+ L
Sbjct: 398 ----AP---SGLDQSRI--------PFSERKLKFSNRFLPVASPFHSHLLVPASDLI-NK 441
Query: 478 DLRRTRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLVKNLGVTGLVSTSILEPI 537
DL + V + K D + P T DG + ++ L S SI E I
Sbjct: 442 DL--VKNNVSFNAK--DIQIP---------VYDTFDGSD---LRVL------SGSISERI 479
Query: 538 FEQLFNSGM--EKLAD-DASY----------SLGGKFKVFVDGDWIGV 572
+ + + E A++ LG DG + V
Sbjct: 480 VDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRV 527
Score = 46.2 bits (109), Expect = 7e-05
Identities = 41/280 (14%), Positives = 73/280 (26%), Gaps = 111/280 (39%)
Query: 700 FANHDHARRVLYQSQKHSSQAIGFP-----TTNP-------------SIRVDTLSHQL-- 739
+ A+ V ++ H GF NP IR + +
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 740 ----FYPQRPLFRTMISDCLGKPGYGHNHILPRPELY---NGQNAIVAVNV----HL--- 785
+F+ I++ + + L Q A+ + L
Sbjct: 1696 IVDGKLKTEKIFKE-INEHSTSYTFRS----EKGLLSATQFTQPALTLMEKAAFEDLKSK 1750
Query: 786 GYNQED------SL-----------VMNRASLE--------RGMFRSEHIRSYKAEVDNK 820
G D SL VM S+E RGM V
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADVM---SIESLVEVVFYRGMTMQV-------AVPRD 1800
Query: 821 EMQVKRRSSDDM--VNFGKIQSKIGRVDSLDDDGFPFI--------G-----ANL----- 860
E+ RS+ M +N G++ S + ++ G N
Sbjct: 1801 EL---GRSNYGMIAINPGRV------AASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Query: 861 Q---SGDI----VIGKYADSGADHSIKLKH-TERGMVQKV 892
Q +GD+ + + I + + +++V
Sbjct: 1852 QYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 34.6 bits (79), Expect = 0.22
Identities = 53/305 (17%), Positives = 75/305 (24%), Gaps = 139/305 (45%)
Query: 885 ERGMVQKVVLSSNDDGK----NFSVVSLRQV--RSPCLGDKFSSMHGQKGVLGFLESQEN 938
E+GM G + V R D ++
Sbjct: 1628 EQGM-----------GMDLYKTSKAA--QDVWNR----ADNHF--------------KDT 1656
Query: 939 FPFTIQGIVPDIVINPHA----FPS------RQTPGQLLEAALGKGIAA---LGKGICSG 985
+ F+I IV + NP F R+ ++ + G + K I
Sbjct: 1657 YGFSILDIVIN---NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH 1713
Query: 986 LKRY----------ATPFATP-----SVDAITEQLHR----------AGFSKWGTERLYD 1020
Y AT F P A E L AG S L
Sbjct: 1714 STSYTFRSEKGLLSATQFTQPALTLMEK-AAFEDLKSKGLIPADATFAGHS------L-- 1764
Query: 1021 GRTGEMVRSLIFIGPTFYQRLIHMS-----EDKVK---FRNTGPVHPLTRQPVADRKRFG 1072
GE Y L ++ E V+ +R G +T Q R G
Sbjct: 1765 ---GE------------YAALASLADVMSIESLVEVVFYR--G----MTMQVAVPRDELG 1803
Query: 1073 GIKFGEMERDCLIAHGAAANLHERLFTLSDSYQMHICRKCK------------NVANVIQ 1120
+G M A N + S ++ + NV N Q
Sbjct: 1804 RSNYG-M---------IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ-Q 1852
Query: 1121 RVVGG 1125
V G
Sbjct: 1853 YVAAG 1857
>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 = 58.3 bits (140), Expect = 1e-08
Identities = 98/807 (12%), Positives = 193/807 (23%), Gaps = 341/807 (42%)
Query: 39 LVSHQINSYNEFIKNGLQKAFDSFGETIVEPGYDPSKKGEGEWRYASMRFGQVTLDKPSF 98
L+S Q +F++ L+ + I PS Y R
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR---MYIEQR----------- 116
Query: 99 FAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVYTQKRVTSDKFKTGREQYIQ--KEV 156
RL N QV+ + V+ R Q ++
Sbjct: 117 ---------------DRLYNDN-----------QVFAKYNVS-------RLQPYLKLRQA 143
Query: 157 LS--DETTNIII-GRIPVMV---KS----DLCWMKGVEKGDCDFDHGGYFIIKG----AE 202
L N++I G ++ K+ D+C V+ C D +++ E
Sbjct: 144 LLELRPAKNVLIDG----VLGSGKTWVALDVCLSYKVQ---CKMDFKIFWLNLKNCNSPE 196
Query: 203 KVFVAQEQICLKRLWVSNSMGWTVAYKSENKRNRLIVRLVDMSKFEDIKGGEKVLSVYFL 262
V +++ + + + + S N + R+ I+ L
Sbjct: 197 TVLEMLQKLLYQ----IDPNWTSRSDHSSNIKLRI----------HSIQ---AELRRLLK 239
Query: 263 STEIP--------IWILFFALGVSSDKEIVNLIDFTCE------DCSILNILFASIHDAD 308
S + + + N + +C+ + + L A
Sbjct: 240 SKPYENCLLVLLNVQ----------NAKAWNAFNLSCKILLTTRFKQVTDFL-----SAA 284
Query: 309 NKCDEFRKGRNALKYVDKLIKGTTFPPGESTEECMNTYLFPSLHGTKQKARFLGYMVKCL 368
+D P E L ++L + L
Sbjct: 285 TTTHIS---------LDHHSMT--LTPDEVKS------LL---------LKYLDCRPQDL 318
Query: 369 -LQAYSGRRKCDNRDDFRNKR-LELAGELLERELKVHIAHAR----KRMAKALQRDLYGD 422
+ + N R L + E + R+ + + ++ ++ L
Sbjct: 319 PREVLTT-----------NPRRLSIIAESI-RDGLATWDNWKHVNCDKLTTIIESSL--- 363
Query: 423 RTVRPIE---YYLDASILTNGLSRAFSTGAWSHPFKRTERISGIVANLGRANPLQTLVDL 479
+ P E + S+ F + I P L +
Sbjct: 364 NVLEPAEYRKMFDRLSV-----------------FPPSAHI-----------PTILLSLI 395
Query: 480 RRTRQQVQYTGKVGDARYPHPSHWGKICFLSTPDGENCGLVKNLGVTGLVSTSILEPIFE 539
W + S + +
Sbjct: 396 -----------------------WFDV-----------------------IKSDVMVVVN 409
Query: 540 QLFNSGM-EKLADDASYSLGGKFKVFVDGDWIGVCKDSLSFVSELRRKRRRKELPTQVEI 598
+L + EK +++ S+ S+ EL+
Sbjct: 410 KLHKYSLVEKQPKESTISI-----------------PSIYL--ELKV------------- 437
Query: 599 KRDELQSEVRIFMDAGRILRPLLVVENMGKIKSLEGKNYTFQALLDHGIIELVGTEEEED 658
K + + R +D I + ++ I Y + + H L E E
Sbjct: 438 KLENEYALHRSIVDHYNIPKTF---DSDDLIPPYL-DQYFYSHIGHH----LKNIEHPE- 488
Query: 659 CCTAWGIKYLLKDIEDKKPIKFTHCELDMSFLLGLSCGIIPFANHDHARRVLYQSQKHSS 718
+ L F LD FL +++ +H
Sbjct: 489 -------RMTL----------FRMVFLDFRFL---------------EQKI-----RHD- 510
Query: 719 QAIGFPTTNPSIRVDTLSHQLFY-----PQRPLFRTMISDCLGKPGYGHNHILPRPE--L 771
++TL FY P + +++ L LP+ E L
Sbjct: 511 ---STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--------DFLPKIEENL 559
Query: 772 YNGQNAIVAVNVHLGYNQEDSLVMNRA 798
+ + + + ED + A
Sbjct: 560 ICSKYTDL---LRIALMAEDEAIFEEA 583
Score = 51.8 bits (123), Expect = 1e-06
Identities = 88/629 (13%), Positives = 162/629 (25%), Gaps = 204/629 (32%)
Query: 636 NYTFQALLDHGIIELVGTEEEEDCCTAWGIKYLLKDIEDK-KPIKFTHCELDMSFLLGLS 694
Y ++ +L V + DC KD++D K I + E+D
Sbjct: 15 QYQYKDILSVFEDAFV---DNFDC----------KDVQDMPKSI-LSKEEIDH------- 53
Query: 695 CGIIPFANHDHARRVLYQS--QKHSSQAIGFPTTNPSIRVDTLSHQLFYP---------- 742
II + L+ + K F V+ + ++ Y
Sbjct: 54 --IIMSKDAVSGTLRLFWTLLSKQEEMVQKF--------VEEV-LRINYKFLMSPIKTEQ 102
Query: 743 -QRPLFRTMISDCLGKPGYGHNHIL-----PRPELYNG-QNAIVAVNVHLGYNQEDSLVM 795
Q + M + + Y N + R + Y + A++ + +++
Sbjct: 103 RQPSMMTRMYIEQRDRL-YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN------VLI 155
Query: 796 NRASLERGMFRS-------EHIRSYKAEVDNKEMQVKRRSSDDM--VNFGKIQSKIGRVD 846
+ G+ S + SYK V+ + + +N S
Sbjct: 156 D------GVLGSGKTWVALDVCLSYK---------VQCKMDFKIFWLNLKNCNS------ 194
Query: 847 SLDDDGFPFIGANLQSGDIVIGKYADSGADHSIKLKH-TERGMVQKVVLSSNDDGKNFSV 905
+ + LQ I S +DHS +K + L + +N +
Sbjct: 195 --PET----VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN-CL 247
Query: 906 VSLRQVRSPCLGDKFSSMHG--------QKGVLGFLESQENFPFTI----QGIVPD---- 949
+ L V++ + F+ K V FL + ++ + PD
Sbjct: 248 LVLLNVQNAKAWNAFN--LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 950 -----IVINPHAFPSRQTPGQLLEAALGKGIAALGKGICSGLKRYATPFATP-------S 997
+ P P ++ IA + + + S
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSI---IAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 998 VDAITEQLHRAGFSK------------------WGTERLYDGRTGEMV-----RSLIFIG 1034
++ + +R F + W D +V SL+
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD--VMVVVNKLHKYSLVEKQ 420
Query: 1035 PTFYQRLIHM--SEDKVKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERD----CLIA-H 1087
P I E KVK N +H K F D I H
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480
Query: 1088 GAAANLHER--LF-----------------------------TLSD--SYQMHICRKC-- 1112
ER LF TL Y+ +IC
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK 540
Query: 1113 -----KNVANVIQRVVGGGRKVRGPYCRI 1136
+ + + ++ + Y +
Sbjct: 541 YERLVNAILDFLPKI--EENLICSKYTDL 567
Score = 51.0 bits (121), Expect = 3e-06
Identities = 97/670 (14%), Positives = 196/670 (29%), Gaps = 217/670 (32%)
Query: 406 HARKRMAKALQRDLYGDRTVRPIEYYLDASILTNGLSRAFSTGAWSHPFKRTERISGIVA 465
+ K + + + + ++ SIL+ E I I+
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMP-KSILSK------------------EEIDHIIM 56
Query: 466 NLGRANPLQTLVDLRRTRQQVQYTGKVGDA---RYPHPSHWGKICFLSTPDGENCGLVKN 522
+ + L ++Q+ V + Y FL +P
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---------FLMSPIKTEQ----- 102
Query: 523 LGVTGLVSTSILEPIFEQ----LFNSG-------------MEKLADDASYSLGGKFKVFV 565
S++ ++ + L+N KL A L V +
Sbjct: 103 ------RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL-RQALLELRPAKNVLI 155
Query: 566 DGDWIGVCKDSLSFVSELRRKRRRKELPTQVEIKRDELQSEVRIF-MDAGRILRPLLVVE 624
DG +G K ++ + + + ++ + IF ++ P V+E
Sbjct: 156 DGV-LGSGKTWVA-LDVCLSYKVQCKMDFK-------------IFWLNLKNCNSPETVLE 200
Query: 625 NMGKIKSLEGKNYTFQALLDHGIIELVGTEEEEDCCTAWGIKYLLK------------DI 672
+ K+ N+T + DH + + ++ LLK ++
Sbjct: 201 MLQKLLYQIDPNWT--SRSDHSSNIKLRIHSIQA-----ELRRLLKSKPYENCLLVLLNV 253
Query: 673 EDKKPIK-FT-HCEL-----DMSFLLGLSCGIIPFANHDHARRVLYQSQKHS--SQAIGF 723
++ K F C++ LS + DH L + S + +
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 724 P---------TTNP--------SIRVDTLSHQLFYPQRPL--FRTMISDCLGKPGYGHNH 764
TTNP SIR D L+ + T+I L N
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIR-DGLATWDNWKHVNCDKLTTIIESSL-------NV 365
Query: 765 ILP---RPELYNGQNAIVAVNVHL-----------GYNQEDSLVMN---RASL-ERGMFR 806
+ P R ++++ + ++ + H+ + +V+N + SL E+
Sbjct: 366 LEPAEYR-KMFD-RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 807 SEH-----IRSYKAEVDNKEMQVKRRSSDDMVNFGKIQSKIGRVDSLDD--DG--FPFIG 857
S K +++N E + R +V+ I D + D + IG
Sbjct: 424 STISIPSIYLELKVKLEN-EYALHRS----IVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 858 ANLQSGDIVIGKYADSGADHSIKLKHTER-GMVQKVVLSSNDDGKNFSVVS--LRQVRSP 914
+ H ++H ER + + V L +F + +R +
Sbjct: 479 ------------H------HLKNIEHPERMTLFRMVFL-------DFRFLEQKIRHDSTA 513
Query: 915 C---------LGD-KFSSMHGQKGVLGF---LESQENFPFTIQGIVPDIVINPHAFPSRQ 961
L KF + + + + +F + I +++ + +
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF---LPKIEENLICSKYT----- 565
Query: 962 TPGQLLEAAL 971
LL AL
Sbjct: 566 ---DLLRIAL 572
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor,
transferase-transcription complex; 2.91A {Thermus
aquaticus}
Length = 188
Score = 48.7 bits (117), Expect = 2e-06
Identities = 32/180 (17%), Positives = 59/180 (32%), Gaps = 68/180 (37%)
Query: 39 LVSHQINSYNEFIKN----------GLQKAFDSFGETIVEPGYDPSKKGEGEWRYASMRF 88
L Q+ SY + ++ G+Q AF P + K + F
Sbjct: 3 LTEIQVESYKKALQADVPPEKRENVGIQAAFKE-----TFPIEEGDKGKG----GLVLDF 53
Query: 89 GQVTLDKPSFFAGNGGDEHDMFPRHARLQNMTYSSRMKVKVQFQVYTQKRVTSDKFKTGR 148
+ + P F + + R +++TY + + ++Q + +
Sbjct: 54 LEYRIGDPPF------SQDE-----CREKDLTYQAPLYARLQLIHKDTGLI--------K 94
Query: 149 EQYIQKEVLSDETTNIIIGRIPVMVKSDLCWMKGVEKGDCDFDHGGYFIIKGAEKVFVAQ 208
E EV +G +P+M + G FII GA++V V+Q
Sbjct: 95 ED----EVF--------LGHLPLMTED------------------GSFIINGADRVIVSQ 124
>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 = 35.7 bits (81), Expect = 0.034
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 980 KGICSGLKRYATPFATPSVDAITEQL 1005
K + + LK YA + P++ AI +
Sbjct: 23 KKLQASLKLYA-DDSAPAL-AIKATM 46
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory
protein, transcription; 3.00A {Escherichia coli}
Length = 228
Score = 31.9 bits (73), Expect = 0.89
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 848 LDDDGFPFIGANLQSGDIVIGK 869
LD+ G +IGA + GDI++GK
Sbjct: 36 LDESGIVYIGAEVTGGDILVGK 57
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 31.5 bits (70), Expect = 1.9
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 1083 CLIAHGAAANLHERLFTLSDSYQMHICRKCKNVANVIQRVVGGGRKVRGPYCRIC 1137
+I L++ + CR+C++ N + GR+ R +CR+
Sbjct: 89 LVIRPYQHLYDDIDPPPLNEDGLIVRCRRCRSYMNPFVTFIEQGRRWRCNFCRLA 143
>3m0m_A L-rhamnose isomerase; beta/alpha barrel, HOMO-tetramer,
metal-binding protein, TIM isomerase; HET: AOS; 1.45A
{Pseudomonas stutzeri} PDB: 3m0l_A* 3m0h_A* 3m0v_A*
3m0x_A* 3m0y_A* 3itx_A 2hcv_A* 2i57_A* 2i56_A 3ity_A
3iud_A 3iuh_A 3iui_A 3itv_A* 3itt_A* 3itl_A* 3ito_A*
Length = 438
Score = 30.9 bits (69), Expect = 2.6
Identities = 13/85 (15%), Positives = 31/85 (36%), Gaps = 8/85 (9%)
Query: 35 NEYGLVSHQINSYNEFIKNGLQKAFDSFGETIVEPGYDPSKKGEGEWRYASMRFGQVTLD 94
E+ + + N+ + L++ +++ G + G D + + + +
Sbjct: 2 AEFRIAQDVVARENDRRASALKEDYEALGANLARRGVDIEA--------VTAKVEKFFVA 53
Query: 95 KPSFFAGNGGDEHDMFPRHARLQNM 119
PS+ G GG FP + +
Sbjct: 54 VPSWGVGTGGTRFARFPGTGEPRGI 78
>1kf6_B Fumarate reductase iron-sulfur protein; respiration, fumarate
reductace, succinate dehydrogenase, CO quinol, quinone,
oxidoreductase; HET: FAD HQO CE1 1PE; 2.70A {Escherichia
coli} SCOP: a.1.2.1 d.15.4.2 PDB: 1kfy_B* 1l0v_B*
2b76_B* 3cir_B* 3p4p_B* 3p4q_B* 3p4r_B* 3p4s_B*
Length = 243
Score = 29.1 bits (66), Expect = 7.8
Identities = 13/85 (15%), Positives = 23/85 (27%), Gaps = 29/85 (34%)
Query: 360 FLGYMVKCLLQAYSGRRKCDNRDDFRNKRLELAGELLERELKVH---------------- 403
F+G + A+ R D+RD + +R+ L + V
Sbjct: 167 FIGPAA--ITLAH--RYNEDSRDHGKKERM----AQLNSQNGVWSCTFVGYCSEVCPKHV 218
Query: 404 -----IAHARKRMAKALQRDLYGDR 423
I + +K R
Sbjct: 219 DPAAAIQQGKVESSKDFLIATLKPR 243
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
0.321 0.138 0.418
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: 18,312,253
Number of extensions: 1155749
Number of successful extensions: 2398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2308
Number of HSP's successfully gapped: 38
Length of query: 1173
Length of database: 6,701,793
Length adjustment: 104
Effective length of query: 1069
Effective length of database: 3,798,009
Effective search space: 4060071621
Effective search space used: 4060071621
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: 63 (28.3 bits)