BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039491
(1379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 715 bits (1845), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 429/1034 (41%), Positives = 603/1034 (58%), Gaps = 72/1034 (6%)
Query: 370 KEAWVVSGSTEAIADRFHELVPDLALDFPFELDNFQKEAIYYLENGDSVFVAAHTSAGKT 429
K+ W + F EL+P+ A +PFELD FQKEA+Y+LE GDSVFVAAHTSAGKT
Sbjct: 9 KKEWAHVVDLNHKIENFDELIPNPARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKT 68
Query: 430 VVAEYAFALATKHCTRAVYTAPIKTISNQKYRDFSGKFD---VGLLTGDVSLRPEASCLI 486
VVAEYA A+A ++ T+ +YT+PIK +SNQK+RDF FD +GL+TGDV + P+A+CLI
Sbjct: 69 VVAEYAIAMAHRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQINPDANCLI 128
Query: 487 MTTEILRSMLYRGADIIRDIEWVIFDEVHYVNDIERGVVWEEVIIMLPRHINIVLLSATV 546
MTTEILRSMLYRGAD+IRD+E+VIFDEVHYVND +RGVVWEEVIIMLP+H+ +LLSATV
Sbjct: 129 MTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATV 188
Query: 547 PNTVEFADWIGRTKQKKIRVTGTTKRPVPLEHCLYYSGEFYKVC-ENEAFIPQGWKAAKD 605
PNT EFA+WIGRTKQK I V T KRPVPLE ++ E V +N F+ ++ K+
Sbjct: 189 PNTYEFANWIGRTKQKNIYVISTPKRPVPLEINIWAKKELIPVINQNSEFLEANFRKHKE 248
Query: 606 AYKRKNLXXXXXXXXXXXXXXXPRDGARAQKREHPNRGKQNKHSVVGIKNSGGSQNNWGL 665
++ R G R RG + +S G N GGS+ +
Sbjct: 249 ILNGESAKGAPSKTDNGRGGSTAR-GGRGGSNTRDGRGGRG-NSTRGGANRGGSRGAGAI 306
Query: 666 RRSEVSI----------WLTLINKLSKKSLLPVVIFCFSKNHCDKLADGMSGIDLTSSSE 715
++ W ++N L K+ LLP+V+F FSK C++ AD + GI+ ++ E
Sbjct: 307 GSNKRKFFTQDGPSKKTWPEIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFCNNKE 366
Query: 716 KSEIRVFCDKAFSRLKGSDRNLPQIVRVQSLLRRGIAIHHAGLLPIVKEVIEMLFCRGVV 775
KS+I +F +K+ +RLK DR+LPQI++ +SLL RGIA+HH GLLPIVKE+IE+LF +G +
Sbjct: 367 KSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFI 426
Query: 776 KVLFSTETFAMGVNAPARTVVFDNLRKFDGREFRQLLPGEYTQMAGRAGRRGLDKIGTVV 835
KVLF+TETFAMG+N P RTV+F ++RK DG R+L PGE+TQMAGRAGRRGLD GTV+
Sbjct: 427 KVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVI 486
Query: 836 VLCRDEIPGESDLKHIIVGSATRLESQFRLTYIMILHLLRVEELKVEDMLKRSFAEFHSQ 895
V+ + + K + +G TRL+SQFRLTY MIL+LLR+E L+VE+M+K SF+E +
Sbjct: 487 VMAYNSPLSIATFKEVTMGVPTRLQSQFRLTYNMILNLLRIEALRVEEMIKYSFSENAKE 546
Query: 896 KKLPEQQQLLMRKLAQPPKTIE---CIKGEPAIEEYYDMYYEAEKYNNQITEAFMQSAH- 951
PE ++ + + L + +TIE C + IE++ ++ ++ + + ++S
Sbjct: 547 TLQPEHEKQI-KVLQEELQTIEYKSCEICDNDIEKFLELMLAYKEATVNLMQEMVKSPSI 605
Query: 952 -QFLMPGRVLFVKSQTGQDHL-LGAVVKAPSANNKEYIVMLLKP-DLPSASETSLDKKSG 1008
L GR+ V + D L LG V K + I+ KP LP+ L
Sbjct: 606 LHILKEGRL--VAFRDPNDCLKLGFVFKVSLKDAVCVIMTFTKPYKLPNGEPNHLI---- 659
Query: 1009 DFSEGYFVIPKSKRGLEEEYCGSVSHRKGSGVINIKLPYHGAAAGVSYEVRGIDKKELLC 1068
YF PK+ +R+ + K ++ V+ + I K++
Sbjct: 660 -----YF--PKAD-----------GYRRRNFPKFQKTDFYMEEVPVT-AIEVITKRKFAA 700
Query: 1069 ICNCKIKIDQVGLLE---DVSSAAFSKTVQQLLVLKSDEKKYPQALDPVKDLKLKDMNLV 1125
IK D L E + ++ KT+++ + ++ K Q L L N+
Sbjct: 701 PLGKVIKKDVAALNEFNAETNNILDGKTLKEAINIEKQGLKIHQIL-------LDRTNIR 753
Query: 1126 EAYYKWAGLLRKMAANKCHGCIKLEEHMKLTKENKRHKDEVNTLKFQMSDEALQQMPDFQ 1185
+ +K K C L +H+ + K ++ L MSD+ L +PD++
Sbjct: 754 DEIFKL----------KSIKCPNLSQHIVPKFKAHVIKKKIEELYHLMSDQNLSLLPDYE 803
Query: 1186 GRIDVLKEIGCIDADLVVQIKGRVACEMNSGEELICTECLFENQLDDLEPEEAVAIMSAF 1245
R+ VLK+ ID + V +KGRVACE+NSG EL+ TE + +N L EPEE VA++S F
Sbjct: 804 KRLAVLKDTEFIDQNHNVLLKGRVACEINSGYELVLTELILDNFLGSFEPEEIVALLSVF 863
Query: 1246 VFQQRNTSE--PSLTPKLSVAKERLYNTAIR-LGELQAHFKVQIDPEEYARDNLKFGLVE 1302
V++ + E P +TP+L+ K+R+ + L H E D +F ++
Sbjct: 864 VYEGKTREEEPPIVTPRLAKGKQRIEEIYKKMLCVFNTHQIPLTQDEAEFLDRKRFAMMN 923
Query: 1303 VVYEWAKGTPFADICELTDVPEGLIVRTIVRLDETCREFRNAAAIMGNSALYKKMETASN 1362
VVYEWA+G F +I E++ EG +VR I LDE CRE + A+ I+GNS L+ KM A
Sbjct: 924 VVYEWARGLSFKEIMEMSPEAEGTVVRVITWLDEICREVKTASIIIGNSTLHMKMSRAQE 983
Query: 1363 AIKRDIVFAASLYI 1376
IKRDIVFAASLY+
Sbjct: 984 LIKRDIVFAASLYL 997
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 598 bits (1541), Expect = e-171, Method: Compositional matrix adjust.
Identities = 373/1011 (36%), Positives = 580/1011 (57%), Gaps = 108/1011 (10%)
Query: 394 ALDFPFELDNFQKEAIYYLENGDSVFVAAHTSAGKTVVAEYAFALATKHCTRAVYTAPIK 453
A +PF LD FQ AI ++ G+SV V+AHTSAGKTVVAEYA A + K+ R +YT+PIK
Sbjct: 178 ARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIK 237
Query: 454 TISNQKYRDFSGKF-DVGLLTGDVSLRPEASCLIMTTEILRSMLYRGADIIRDIEWVIFD 512
+SNQKYR+ +F DVGL+TGD+++ P+A CL+MTTEILRSMLYRG++++R++ WVIFD
Sbjct: 238 ALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFD 297
Query: 513 EVHYVNDIERGVVWEEVIIMLPRHINIVLLSATVPNTVEFADWIGRTKQKKIRVTGTTKR 572
EVHY+ D ERGVVWEE II+LP + V LSAT+PN +EFA+WI + + + T R
Sbjct: 298 EVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFR 357
Query: 573 PVPLEHCLYYS---GEFYKVCENEAFIPQGWKAAKDAYKRKNLXXXXXXXXXXXXXXXPR 629
P PL+H L+ + G + V E F + ++ A +
Sbjct: 358 PTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISN-------------------- 397
Query: 630 DGARAQKREHPN----RGKQNKHSVVGIKNSGGSQNNWGLRRSEVSIWLTLINKLSKKSL 685
Q + PN RGK+ G GGS G + ++ ++ + KK
Sbjct: 398 -----QIGDDPNSTDSRGKK------GQTYKGGSAK--GDAKGDI---YKIVKMIWKKKY 441
Query: 686 LPVVIFCFSKNHCDKLADGMSGIDLTSSSEKSEIRVFCDKAFSRLKGSDRNLPQIVRVQS 745
PV++F FSK C++LA MS +D S EK + + A + L +DR LPQI +
Sbjct: 442 NPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP 501
Query: 746 LLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDG 805
LLRRGI IHH+GLLPI+KEVIE+LF G +KVLF+TETF++G+N PA+TVVF ++RK+DG
Sbjct: 502 LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDG 561
Query: 806 REFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCRDEIPGESDLKHIIVGSATRLESQFRL 865
++FR + GEY QM+GRAGRRGLD G V+++ DE K ++ G A RL+S F L
Sbjct: 562 QQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMI-DEKMEPQVAKGMVKGQADRLDSAFHL 620
Query: 866 TYIMILHLLRVEELKVEDMLKRSFAEFHSQKKLPEQQQLLMRKLAQPPKTIECI--KGEP 923
Y MIL+L+RVE + E ML+ SF +F + +P ++ +KLA+ K + I + E
Sbjct: 621 GYNMILNLMRVEGISPEFMLEHSFFQFQNVISVP----VMEKKLAELKKDFDGIEVEDEE 676
Query: 924 AIEEYYDMYYEAEKYNNQITEAFMQSAH--QFLMPGRVLFVKSQTGQDHLLGAVV----- 976
++EY+++ + Y + + A+ FL PGR++ + ++ GAVV
Sbjct: 677 NVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKR 736
Query: 977 ---KAPSA---NNKEYIVMLLKPDLPSASETSLDKKSGDFSEGYFVIPKSKRGLEEEYCG 1030
+ PSA +++ YIV ++ + S +L K +P+ R EE
Sbjct: 737 INKRNPSAVYTDHESYIVNVVVNTMYIDSPVNLLKPFNP------TLPEGIRPAEE---- 786
Query: 1031 SVSHRKGSGVINIKLPYHGAAAGVSYEVRGIDKKELLCICNCKIKIDQVGLLEDVSSAAF 1090
+ VI I L + I N ++ + + D+ ++
Sbjct: 787 --GEKSICAVIPITL------------------DSIKSIGNLRLYMPK-----DIRASGQ 821
Query: 1091 SKTVQQLLVLKSDEKKYPQA---LDPVKDLKLKDMNLVEAYYKWAGLLRKMAANKCHGCI 1147
+TV + L+ +++P LDPVK++K++D + ++ K L K+++N +
Sbjct: 822 KETVGK--SLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMKKIDVLNTKLSSNPLTNSM 879
Query: 1148 KLEE-HMKLTKENKRHKDEVNTLKFQMSD-EALQQMPDFQGRIDVLKEIGCIDADLVVQI 1205
+LEE + K ++++ H+D + LK ++S+ +A+ Q+ D + R VL+ +G + ++++
Sbjct: 880 RLEELYGKYSRKHDLHED-MKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIEL 938
Query: 1206 KGRVACEMNSGEELICTECLFENQLDDLEPEEAVAIMSAFVFQQRNTSEPSLTPKLSVAK 1265
KGRVACE++SG+EL+ TE +F ++L+PE+A A++S F FQ+R P L P+L+
Sbjct: 939 KGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQERCKEAPRLKPELAEPL 998
Query: 1266 ERLYNTAIRLGELQAHFKVQIDPEEYARDNLKFGLVEVVYEWAKGTPFADICELTDVPEG 1325
+ + A ++ ++ K+++ ++Y ++ + L+EVVYEW +G F IC++TDV EG
Sbjct: 999 KAMREIAAKIAKIMKDSKIEVVEKDYV-ESFRHELMEVVYEWCRGATFTQICKMTDVYEG 1057
Query: 1326 LIVRTIVRLDETCREFRNAAAIMGNSALYKKMETASNAIKRDIVFAASLYI 1376
++R RL+E +E + A +GNS+L +KME I RDIV A SLY+
Sbjct: 1058 SLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIVSAGSLYL 1108
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 596 bits (1537), Expect = e-170, Method: Compositional matrix adjust.
Identities = 373/1011 (36%), Positives = 580/1011 (57%), Gaps = 108/1011 (10%)
Query: 394 ALDFPFELDNFQKEAIYYLENGDSVFVAAHTSAGKTVVAEYAFALATKHCTRAVYTAPIK 453
A +PF LD FQ AI ++ G+SV V+AHTSAGKTVVAEYA A + K+ R +YT+PIK
Sbjct: 80 ARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIK 139
Query: 454 TISNQKYRDFSGKF-DVGLLTGDVSLRPEASCLIMTTEILRSMLYRGADIIRDIEWVIFD 512
+SNQKYR+ +F DVGL+TGD+++ P+A CL+MTTEILRSMLYRG++++R++ WVIFD
Sbjct: 140 ALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFD 199
Query: 513 EVHYVNDIERGVVWEEVIIMLPRHINIVLLSATVPNTVEFADWIGRTKQKKIRVTGTTKR 572
EVHY+ D ERGVVWEE II+LP + V LSAT+PN +EFA+WI + + + T R
Sbjct: 200 EVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFR 259
Query: 573 PVPLEHCLYYS---GEFYKVCENEAFIPQGWKAAKDAYKRKNLXXXXXXXXXXXXXXXPR 629
P PL+H L+ + G + V E F + ++ A +
Sbjct: 260 PTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISN-------------------- 299
Query: 630 DGARAQKREHPN----RGKQNKHSVVGIKNSGGSQNNWGLRRSEVSIWLTLINKLSKKSL 685
Q + PN RGK+ G GGS G + ++ ++ + KK
Sbjct: 300 -----QIGDDPNSTDSRGKK------GQTYKGGSAK--GDAKGDI---YKIVKMIWKKKY 343
Query: 686 LPVVIFCFSKNHCDKLADGMSGIDLTSSSEKSEIRVFCDKAFSRLKGSDRNLPQIVRVQS 745
PV++F FSK C++LA MS +D S EK + + A + L +DR LPQI +
Sbjct: 344 NPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILP 403
Query: 746 LLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDG 805
LLRRGI IHH+GLLPI+KEVIE+LF G +KVLF+TETF++G+N PA+TVVF ++RK+DG
Sbjct: 404 LLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDG 463
Query: 806 REFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCRDEIPGESDLKHIIVGSATRLESQFRL 865
++FR + GEY QM+GRAGRRGLD G V+++ DE K ++ G A RL+S F L
Sbjct: 464 QQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMI-DEKMEPQVAKGMVKGQADRLDSAFHL 522
Query: 866 TYIMILHLLRVEELKVEDMLKRSFAEFHSQKKLPEQQQLLMRKLAQPPKTIECI--KGEP 923
Y MIL+L+RVE + E ML+ SF +F + +P ++ +KLA+ K + I + E
Sbjct: 523 GYNMILNLMRVEGISPEFMLEHSFFQFQNVISVP----VMEKKLAELKKDFDGIEVEDEE 578
Query: 924 AIEEYYDMYYEAEKYNNQITEAFMQSAH--QFLMPGRVLFVKSQTGQDHLLGAVV----- 976
++EY+++ + Y + + A+ FL PGR++ + ++ GAVV
Sbjct: 579 NVKEYHEIEQAIKGYREDVRQVVTHPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKR 638
Query: 977 ---KAPSA---NNKEYIVMLLKPDLPSASETSLDKKSGDFSEGYFVIPKSKRGLEEEYCG 1030
+ PSA +++ YIV ++ + S +L K +P+ R EE
Sbjct: 639 INKRNPSAVYTDHESYIVNVVVNTMYIDSPVNLLKPFNP------TLPEGIRPAEE---- 688
Query: 1031 SVSHRKGSGVINIKLPYHGAAAGVSYEVRGIDKKELLCICNCKIKIDQVGLLEDVSSAAF 1090
+ VI I L + I N ++ + + D+ ++
Sbjct: 689 --GEKSICAVIPITL------------------DSIKSIGNLRLYMPK-----DIRASGQ 723
Query: 1091 SKTVQQLLVLKSDEKKYPQA---LDPVKDLKLKDMNLVEAYYKWAGLLRKMAANKCHGCI 1147
+TV + L+ +++P LDPVK++K++D + ++ K L K+++N +
Sbjct: 724 KETVGK--SLREVNRRFPDGIPVLDPVKNMKIEDEDFLKLMKKIDVLNTKLSSNPLTNSM 781
Query: 1148 KLEE-HMKLTKENKRHKDEVNTLKFQMSD-EALQQMPDFQGRIDVLKEIGCIDADLVVQI 1205
+LEE + K ++++ H+D + LK ++S+ +A+ Q+ D + R VL+ +G + ++++
Sbjct: 782 RLEELYGKYSRKHDLHED-MKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIEL 840
Query: 1206 KGRVACEMNSGEELICTECLFENQLDDLEPEEAVAIMSAFVFQQRNTSEPSLTPKLSVAK 1265
KGRVACE++SG+EL+ TE +F ++L+PE+A A++S F FQ+R P L P+L+
Sbjct: 841 KGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQERCKEAPRLKPELAEPL 900
Query: 1266 ERLYNTAIRLGELQAHFKVQIDPEEYARDNLKFGLVEVVYEWAKGTPFADICELTDVPEG 1325
+ + A ++ ++ K+++ ++Y ++ + L+EVVYEW +G F IC++TDV EG
Sbjct: 901 KAMREIAAKIAKIMKDSKIEVVEKDYV-ESFRHELMEVVYEWCRGATFTQICKMTDVYEG 959
Query: 1326 LIVRTIVRLDETCREFRNAAAIMGNSALYKKMETASNAIKRDIVFAASLYI 1376
++R RL+E +E + A +GNS+L +KME I RDIV A SLY+
Sbjct: 960 SLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIVSAGSLYL 1010
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 90.9 bits (224), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 50/141 (35%), Positives = 84/141 (59%), Gaps = 6/141 (4%)
Query: 743 VQSLLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRK 802
++SL+ +G+A HHAGL ++++IE F + +KV+ +T T A GVN PARTV+ ++ +
Sbjct: 307 LKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYR 366
Query: 803 FDGR---EFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCRDEIPGESDLKHIIVGSATRL 859
F+ + + ++ EY QM+GRAGR G D+IG +V+ RD+ + K ++ +
Sbjct: 367 FNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPI 426
Query: 860 ESQF---RLTYIMILHLLRVE 877
ES+ R Y +L +L E
Sbjct: 427 ESKLGSERAFYTFLLGILSAE 447
Score = 86.3 bits (212), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 16/180 (8%)
Query: 412 LENGDSVFVAAHTSAGKTVVAEYAF-ALATKHCTRAVYTAPIKTISNQKYRDFSG----K 466
L G+ + + + T +GKT++AE + K+ +A+Y P++ ++N+KY F
Sbjct: 43 LLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTNEKYLTFKDWELIG 102
Query: 467 FDVGLLTGDV----SLRPEASCLIMTTEILRSMLYRGADIIRDIEWVIFDEVHYVNDIER 522
F V + +GD + +I T E L S+ + + ++ + + DE+HY+ND ER
Sbjct: 103 FKVAMTSGDYDTDDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPER 162
Query: 523 GVVWEEVIIMLPRHINIVLLSATVPNTVEFADWIGRTKQKKIRVTGTTKRPVPLEHCLYY 582
G V E V I R N++ LSAT+ N + A W+G T RPVPL + Y
Sbjct: 163 GPVVESVTIRAKRR-NLLALSATISNYKQIAKWLGAEP------VATNWRPVPLIEGVIY 215
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 90.5 bits (223), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 99/193 (51%), Gaps = 17/193 (8%)
Query: 742 RVQSLLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLR 801
++ +R+G A HHAGLL + V+E F RG +KV+ +T T A GVN PAR V+ +L
Sbjct: 290 KLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLY 349
Query: 802 KFDGREFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLC--RDEIPGESDLKHIIVGSATRL 859
+FDG +++ EY QMAGRAGR G+D+ G +++ RD E +K I G R+
Sbjct: 350 RFDGYS-KRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDR---EIAVKRYIFGEPERI 405
Query: 860 ESQFRLTYIMILHLLRV---------EELKVEDMLKRSFAEFHSQKKLPEQQQLLMRKLA 910
S+ + + H L + EEL ED +F ++ L + + ++R+L
Sbjct: 406 TSKLGVETHLRFHSLSIICDGYAKTLEEL--EDFFADTFFFKQNEISLSYELERVVRQLE 463
Query: 911 QPPKTIECIKGEP 923
+E P
Sbjct: 464 NWGMVVEAAHLAP 476
Score = 77.8 bits (190), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 46/163 (28%), Positives = 86/163 (52%), Gaps = 11/163 (6%)
Query: 405 QKEAIYYLENGDSVFVAAHTSAGKTVVAEYAFALATKHCTRAVYTAPIKTISNQKYRDFS 464
Q EA+ + +G ++ +A T+AGKT++AE A +++Y P++ ++ +KY F
Sbjct: 30 QAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALAGEKYESFK 89
Query: 465 G----KFDVGLLTGDVSLRPE--ASC--LIMTTEILRSMLYRGADIIRDIEWVIFDEVHY 516
+G+ TGD R E C ++ T+E S++ A I+ + ++ DE+H
Sbjct: 90 KWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHL 149
Query: 517 VNDIERGVVWEEVIIMLPRH---INIVLLSATVPNTVEFADWI 556
++ +RG E ++ + R + ++ LSAT PN E A+W+
Sbjct: 150 LDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWL 192
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 78.2 bits (191), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 50/179 (27%), Positives = 89/179 (49%), Gaps = 15/179 (8%)
Query: 415 GDSVFVAAHTSAGKTVVAEYAFA-LATKHCTRAVYTAPIKTISNQKYRDFSGKFDVGL-- 471
G + ++ T++GKT++AE A +AVY P+K ++ +K+++F +GL
Sbjct: 39 GKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRV 98
Query: 472 --LTGDVSLRPE----ASCLIMTTEILRSMLYRGADIIRDIEWVIFDEVHYVNDIERGVV 525
TGD + E +I T E S+L G+ I+D++ ++ DE+H + +RG
Sbjct: 99 AMATGDYDSKDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGAT 158
Query: 526 WEEVIIMLPRHINIVLLSATVPNTVEFADWIGRTKQKKIRVTGTTKRPVPLEHCLYYSG 584
E ++ + I+ LSAT+ N E A+W+ + + RPV L ++Y G
Sbjct: 159 LEVILAHMLGKAQIIGLSATIGNPEELAEWLN------AELIVSDWRPVKLRRGVFYQG 211
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 50/175 (28%), Positives = 87/175 (49%), Gaps = 7/175 (4%)
Query: 689 VIFCFSKNHCDKLADGMSGIDLTSSSEKSEIRVFCDKAFSRLKGSDRNLPQIVRVQSLLR 748
+IF + +++A +S + S K EIR A + L S P ++ +R
Sbjct: 241 LIFVNMRRKAERVALELSK-KVKSLLTKPEIR-----ALNELADSLEENPTNEKLAKAIR 294
Query: 749 RGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDGREF 808
G+A HHAGL + ++E F +G++K + +T T + G+N PA V+ ++ ++
Sbjct: 295 GGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGM 354
Query: 809 RQLLPGEYTQMAGRAGRRGLDKIGTVVVLCRDEIPGESDLKHIIVGSATRLESQF 863
++ E QM GRAGR D++G +++ + P E + H I G +L SQ
Sbjct: 355 ERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREV-MNHYIFGKPEKLFSQL 408
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 69.7 bits (169), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 63/203 (31%), Positives = 95/203 (46%), Gaps = 25/203 (12%)
Query: 397 FPFELDNFQKEAIYYLENGD-SVFVAAHTSAGKTVVAEYAF--ALATKHCTRAVYTAPIK 453
FPF + Q + + N D +VFV A T +GKT+ AE+A L R VY P++
Sbjct: 924 FPF-FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPME 982
Query: 454 TISNQKYRDFSGKFD------VGLLTG----DVSLRPEASCLIMTTEI--LRSMLYRGAD 501
++ Q Y D+ KF V LLTG D+ L + + +I T E + S ++
Sbjct: 983 ALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRK 1042
Query: 502 IIRDIEWVIFDEVHYVNDIERGVVWEEVI-------IMLPRHINIVLLSATVPNTVEFAD 554
+++I + DEVH + E G V E + + R I IV LS+++ N + A
Sbjct: 1043 NVQNINLFVVDEVHLIGG-ENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDVAH 1101
Query: 555 WIGRTKQKKIRVTGTTKRPVPLE 577
W+G + RPVPLE
Sbjct: 1102 WLGCSATSTFNFHPNV-RPVPLE 1123
Score = 63.5 bits (153), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 46/154 (29%), Positives = 78/154 (50%), Gaps = 8/154 (5%)
Query: 688 VVIFCFSKNHCDKLADGMSGIDLTSSSEKSEIRVFCDK--AFSRLKGSDRNLPQIVRVQS 745
V++F S+ K A + + L EK + +F + A + + ++ + + ++
Sbjct: 320 VLVFVHSRKETGKTARAIRDMCL----EKDTLGLFLREGSASTEVLRTEAEQCKNLELKD 375
Query: 746 LLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDG 805
LL G AIHHAG+ + + ++E LF ++VL ST T A GVN PA TV+ + +
Sbjct: 376 LLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSP 435
Query: 806 REFR--QLLPGEYTQMAGRAGRRGLDKIGTVVVL 837
+ R +L + QM GRAGR D G +++
Sbjct: 436 EKGRWTELGALDILQMLGRAGRPQYDTKGEGILI 469
Score = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 56/120 (46%), Gaps = 14/120 (11%)
Query: 747 LRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDGR 806
L G+ H GL P+ + ++E LF G ++V+ ++ + G+N A V+ + + ++G+
Sbjct: 1212 LLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGK 1271
Query: 807 --EFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCR------------DEIPGESDLKHII 852
+ + QM G A R D G V++C+ + +P ES L H +
Sbjct: 1272 IHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVESHLDHCM 1331
Score = 50.1 bits (118), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 86/196 (43%), Gaps = 30/196 (15%)
Query: 412 LENGDSVFVAAHTSAGKTVVAEYAFALAT-KHCT----------RAVYTAPIKTISNQKY 460
LE +++ + A T AGKT VA KH + +Y AP++++ +
Sbjct: 92 LETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMV 151
Query: 461 RDFSGKF-----DVGLLTGDVSLRPE----ASCLIMTTEILRSMLYRGAD--IIRDIEWV 509
F + V LTGD L E ++ T E + +G + + + +
Sbjct: 152 GSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRLI 211
Query: 510 IFDEVHYVNDIERGVVWEEVIIMLPRHI-------NIVLLSATVPNTVEFADWIGRTKQK 562
I DE+H ++D +RG V E ++ R+I ++ LSAT+PN + A ++ K
Sbjct: 212 ILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPAK 270
Query: 563 KIRVTGTTKRPVPLEH 578
+ + RPVPLE
Sbjct: 271 GLFYFDNSFRPVPLEQ 286
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 63/203 (31%), Positives = 95/203 (46%), Gaps = 25/203 (12%)
Query: 397 FPFELDNFQKEAIYYLENGD-SVFVAAHTSAGKTVVAEYAF--ALATKHCTRAVYTAPIK 453
FPF + Q + + N D +VFV A T +GKT+ AE+A L R VY P++
Sbjct: 924 FPF-FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPME 982
Query: 454 TISNQKYRDFSGKFD------VGLLTG----DVSLRPEASCLIMTTEI--LRSMLYRGAD 501
++ Q Y D+ KF V LLTG D+ L + + +I T E + S ++
Sbjct: 983 ALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRK 1042
Query: 502 IIRDIEWVIFDEVHYVNDIERGVVWEEVI-------IMLPRHINIVLLSATVPNTVEFAD 554
+++I + DEVH + E G V E + + R I IV LS+++ N + A
Sbjct: 1043 NVQNINLFVVDEVHLIGG-ENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDVAH 1101
Query: 555 WIGRTKQKKIRVTGTTKRPVPLE 577
W+G + RPVPLE
Sbjct: 1102 WLGCSATSTFNFHPNV-RPVPLE 1123
Score = 63.2 bits (152), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 46/154 (29%), Positives = 78/154 (50%), Gaps = 8/154 (5%)
Query: 688 VVIFCFSKNHCDKLADGMSGIDLTSSSEKSEIRVFCDK--AFSRLKGSDRNLPQIVRVQS 745
V++F S+ K A + + L EK + +F + A + + ++ + + ++
Sbjct: 320 VLVFVHSRKETGKTARAIRDMCL----EKDTLGLFLREGSASTEVLRTEAEQCKNLELKD 375
Query: 746 LLRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDG 805
LL G AIHHAG+ + + ++E LF ++VL ST T A GVN PA TV+ + +
Sbjct: 376 LLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSP 435
Query: 806 REFR--QLLPGEYTQMAGRAGRRGLDKIGTVVVL 837
+ R +L + QM GRAGR D G +++
Sbjct: 436 EKGRWTELGALDILQMLGRAGRPQYDTKGEGILI 469
Score = 50.8 bits (120), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 56/120 (46%), Gaps = 14/120 (11%)
Query: 747 LRRGIAIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAPARTVVFDNLRKFDGR 806
L G+ H GL P+ + ++E LF G ++V+ ++ + G+N A V+ + + ++G+
Sbjct: 1212 LLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGK 1271
Query: 807 --EFRQLLPGEYTQMAGRAGRRGLDKIGTVVVLCR------------DEIPGESDLKHII 852
+ + QM G A R D G V++C+ + +P ES L H +
Sbjct: 1272 IHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVESHLDHCM 1331
Score = 50.1 bits (118), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 86/196 (43%), Gaps = 30/196 (15%)
Query: 412 LENGDSVFVAAHTSAGKTVVAEYAFALAT-KHCT----------RAVYTAPIKTISNQKY 460
LE +++ + A T AGKT VA KH + +Y AP++++ +
Sbjct: 92 LETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMV 151
Query: 461 RDFSGKF-----DVGLLTGDVSLRPE----ASCLIMTTEILRSMLYRGAD--IIRDIEWV 509
F + V LTGD L E ++ T E + +G + + + +
Sbjct: 152 GSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRLI 211
Query: 510 IFDEVHYVNDIERGVVWEEVIIMLPRHI-------NIVLLSATVPNTVEFADWIGRTKQK 562
I DE+H ++D +RG V E ++ R+I ++ LSAT+PN + A ++ K
Sbjct: 212 ILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPAK 270
Query: 563 KIRVTGTTKRPVPLEH 578
+ + RPVPLE
Sbjct: 271 GLFYFDNSFRPVPLEQ 286
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 55/112 (49%), Gaps = 24/112 (21%)
Query: 721 VFCDKAFSRLKGSDRNLPQIVRVQSLLRRGI--AIHHAGLLPIVKEVIEMLFCRGVVKVL 778
++C+ SR K D R+QS +GI A +HAGL V+ ++ F R ++++
Sbjct: 241 IYCN---SRAKVED----TAARLQS---KGISAAAYHAGLENNVRADVQEKFQRDDLQIV 290
Query: 779 FSTETFAMGVNAP-ARTVV-FDNLRKFDGREFRQLLPGEYTQMAGRAGRRGL 828
+T F MG+N P R VV FD R + Y Q GRAGR GL
Sbjct: 291 VATVAFGMGINKPNVRFVVHFDIPRNIE----------SYYQETGRAGRDGL 332
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 38.9 bits (89), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 38/112 (33%), Positives = 54/112 (48%), Gaps = 24/112 (21%)
Query: 721 VFCDKAFSRLKGSDRNLPQIVRVQSLLRRGI--AIHHAGLLPIVKEVIEMLFCRGVVKVL 778
++C+ SR K D R+QS +GI A +HAGL V+ ++ F R ++++
Sbjct: 241 IYCN---SRAKVED----TAARLQS---KGISAAAYHAGLENNVRADVQEKFQRDDLQIV 290
Query: 779 FSTETFAMGVNAP-ARTVV-FDNLRKFDGREFRQLLPGEYTQMAGRAGRRGL 828
+T F G+N P R VV FD R + Y Q GRAGR GL
Sbjct: 291 VATVAFGXGINKPNVRFVVHFDIPRNIE----------SYYQETGRAGRDGL 332
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 35.8 bits (81), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 54/127 (42%), Gaps = 22/127 (17%)
Query: 406 KEAIYYLENGDSVFVAAHTSAGKTVVA----EYAFALATKHCTRAVYTAPIKTISNQKYR 461
+E IY + + T GKT++A EY TK+ + + AP K + Q
Sbjct: 14 QEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRL---TKYGGKVLMLAPTKPLVLQHAE 70
Query: 462 DFSGKFD-----VGLLTGDVSLRPE--------ASCLIMTTEILRSMLYRGADIIRDIEW 508
F F+ + LTG+ S PE A ++ T + + + L G + D+
Sbjct: 71 SFRRLFNLPPEKIVALTGEKS--PEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSL 128
Query: 509 VIFDEVH 515
++FDE H
Sbjct: 129 IVFDEAH 135
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 35.0 bits (79), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 776 KVLFSTETFAMGVNAPARTVVFDNLRKFD-----GREFRQLLPGEYTQMAGRAGR 825
K+L +T+ MG+N R ++F +L K RE + + Q+AGRAGR
Sbjct: 374 KILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGR 428
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 34.7 bits (78), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 37/166 (22%), Positives = 70/166 (42%), Gaps = 20/166 (12%)
Query: 404 FQKEAIYYLENGDSVFVAAHTSAGKTVVAEYAFALA-----TKHCTRAVYTAPIKTISNQ 458
Q+E+I +G + A GK+ Y L K +A+ P + ++ Q
Sbjct: 29 IQEESIPIALSGRDILARAKNGTGKS--GAYLIPLLERLDLKKDNIQAMVIVPTRELALQ 86
Query: 459 ------KYRDFSGKFDVGLLTGDVSLRPEASCLIMTTEILRSMLYRGADIIRD------- 505
+ G V TG +LR + L T ++ + R D+I+
Sbjct: 87 VSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDH 146
Query: 506 IEWVIFDEVHYVNDIERGVVWEEVIIMLPRHINIVLLSATVPNTVE 551
++ ++ DE + + + E++I+ LP++ I+L SAT P +V+
Sbjct: 147 VQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQ 192
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 34.3 bits (77), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 47/191 (24%), Positives = 85/191 (44%), Gaps = 33/191 (17%)
Query: 388 ELVPDLALDFPFELDNFQKEAIYYLENGDSV-------FVAAHTSAGKTVVAEYAFALAT 440
+L + PF+L N QK A + N D + + +GKTVVA+ A
Sbjct: 356 KLAEEFIKSLPFKLTNAQKRAHQEIRN-DMISEKPMNRLLQGDVGSGKTVVAQLAILDNY 414
Query: 441 KHCTRAVYTAPIKTISNQKYR----DFSGKFD--VGLLTGDVSLRPEASCLIMTTEILRS 494
+ + + P ++ Q YR FS KF+ V LL G + P E ++S
Sbjct: 415 EAGFQTAFMVPTSILAIQHYRRTVESFS-KFNIHVALLIGATT--PSEK------EKIKS 465
Query: 495 MLYRGA-DIIRDIEWVIFDEVHY-------VNDIER-GVVWEEVIIMLPRHINIVLLSAT 545
L G D++ +I ++VH+ +++ R GV E ++ + ++ +++SAT
Sbjct: 466 GLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDEQHRFGVKQREALMNKGKMVDTLVMSAT 525
Query: 546 -VPNTVEFADW 555
+P ++ A +
Sbjct: 526 PIPRSMALAFY 536
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 34.3 bits (77), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 68/167 (40%), Gaps = 19/167 (11%)
Query: 404 FQKEAIYYLENGDSVFVAAHTSAGKTVV-------AEYAFALATKHCTRAVYTAPIKTIS 456
QK+ I G V AA T +GKT+ A Y + + +P + ++
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELA 110
Query: 457 NQKYRDFS--GK---FDVGLLTGDVSLRPEA------SCLIMT-TEILRSMLYRGADIIR 504
Q + GK F GL+ G L+ EA + L+ T +L+ M +
Sbjct: 111 YQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINNINILVCTPGRLLQHMDETVSFHAT 170
Query: 505 DIEWVIFDEVHYVNDIERGVVWEEVIIMLPRHINIVLLSATVPNTVE 551
D++ ++ DE + D+ VI LP+ +L SAT +V+
Sbjct: 171 DLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVK 217
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 70/175 (40%), Gaps = 23/175 (13%)
Query: 397 FPFELDNFQKEAIYYLEN------GDSVFVAAHTSAGKTVVAEYAFALATKHCTRAVYTA 450
FPFE Q +AI + + V GKT VA A LA + +
Sbjct: 600 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLV 659
Query: 451 PIKTISNQKYRDFSGKF-----DVGLLTGDVSLRPEASCLIMTTE------ILRSMLYRG 499
P ++ Q Y +F +F + +++ S + + L E I L +
Sbjct: 660 PTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQS 719
Query: 500 ADIIRDIEWVIFDEVHYVNDIERGVVWEEVIIMLPRHINIVLLSAT-VPNTVEFA 553
+D+ +I DE H GV +E I + +++I+ L+AT +P T+ A
Sbjct: 720 DVKFKDLGLLIVDEEHRF-----GVRHKERIKAMRANVDILTLTATPIPRTLNMA 769
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 32.3 bits (72), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 776 KVLFSTETFAMGVNAPARTVVFDNLRKFD-----GREFRQLLPGEYTQMAGRAGR 825
K+L +T+ G+N R ++F +L K RE + + Q+AGRAGR
Sbjct: 374 KILVATDAIGXGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGR 428
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 12/84 (14%)
Query: 745 SLLRRGI--AIHHAGLLPIVKEVIEMLFCRGVVKVLFSTETFAMGVNAP-ARTVVFDNLR 801
SL GI +HA L P K + + ++V+ +T F MG++ P R V+ ++
Sbjct: 286 SLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMS 345
Query: 802 KFDGREFRQLLPGEYTQMAGRAGR 825
K Y Q +GRAGR
Sbjct: 346 KS---------MENYYQESGRAGR 360
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 40,837,604
Number of Sequences: 62578
Number of extensions: 1744263
Number of successful extensions: 3881
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 3818
Number of HSP's gapped (non-prelim): 46
length of query: 1379
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1268
effective length of database: 8,027,179
effective search space: 10178462972
effective search space used: 10178462972
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)