RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10448
(1001 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 772 bits (1996), Expect = 0.0
Identities = 264/785 (33%), Positives = 393/785 (50%), Gaps = 146/785 (18%)
Query: 78 EVYHPQLLKSYMKKMNNDFTEPPALEEPLDEEDKRMARLNRHNINDEELEKKYYRYGIKP 137
+V + L +Y K+ + + L+ + ED + + R R
Sbjct: 96 QVRGLKRLDNYCKQFIIE-DQQVRLDPYVTAEDIEIMDMER-----------ERRLDEFE 143
Query: 138 EWLIANRVINSKTLRD----GSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
E+ + R+I+S+ YLVKWR L YD+ATWE+ + + E ++ + ++
Sbjct: 144 EFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVKLAPEQVKHFQNRE 203
Query: 194 SKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQ 253
+ SK +K QPPF+ G +L +Q
Sbjct: 204 N--------------------SKILPQYSSNYTSQRPRFEKLSVQPPFI--KGGELRDFQ 241
Query: 254 LEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGPFLVSAPLSTIINW 313
L GINW+ + W + + ILADEMGLGKT+QT+ F+ L GP ++ PLST+ W
Sbjct: 242 LTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAW 301
Query: 314 EREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIRSSTVKFHVLLTSY 373
FE WAPD + Y+G++ R +R+++ A KF+VLLT+Y
Sbjct: 302 LDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTM--------KFNVLLTTY 353
Query: 374 ELITNDVALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNKLLLTGTPLQNNLEEL 433
E I D A LGSI+W + VDEAHRLK+ +S ++ L+ + + N++L+TGTPLQNN++EL
Sbjct: 354 EYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKEL 413
Query: 434 FHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLGPHMLRRLKADVLKNMPSKSEF 493
L+NFL P +F E D +EE + LH + P +LRRLK DV K++PSK+E
Sbjct: 414 AALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTER 473
Query: 494 IVRVELSPMQKKYYKYILTRNFEALNPKGGGQQVSLLNIMMDLKKCCNHPYLFPAAAEEA 553
I+RVELS +Q +YYK ILT+N+ AL G SLLNIM +LKK NHPYLF A E
Sbjct: 474 ILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERV 533
Query: 554 PVQGG------QYEIQALTRAAGKLVLLSKMLKKLKEDGHRYGIKPEWLIANRVINSKTL 607
+ G + ++ L ++GK+VLL ++L +LK+DGHR I + + R+++ L
Sbjct: 534 LQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMV---RMLD--IL 588
Query: 608 RDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTKMLDILEDYLDGEGYKYER 667
D YL + + + + LDG
Sbjct: 589 GD----YL-SIKGINFQR--------------------------------LDG------- 604
Query: 668 IDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQ 727
+ + R+ SID FN+P ++ FVFLLSTR+GGLG
Sbjct: 605 ---TVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLG----------------------- 638
Query: 728 AFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMIYRFVTRN 787
INL TADTV+I+DSDWNP D+QA +RAHRIGQ+N VM+YR V+++
Sbjct: 639 --------------INLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKD 684
Query: 788 SVEERVTQVAKRKMMLTHLVVRPGMG-----GKQANFTKQELDDILRFGTEELFKEEEEQ 842
+VEE V + A++KM+L + ++ G+ K+ EL IL+FG +F + Q
Sbjct: 685 TVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTATDNQ 744
Query: 843 PENTE 847
+ +
Sbjct: 745 KKLED 749
Score = 32.8 bits (75), Expect = 0.74
Identities = 20/98 (20%), Positives = 33/98 (33%), Gaps = 3/98 (3%)
Query: 158 YLVKWRDLPYDKATWEDENE--DIPGLKESIEFYNKKKSKGRGKTKTKELQEDEDGASGS 215
+L+KW D + TWE + GLK ++ Y K+ + + ED
Sbjct: 74 FLIKWTDESHLHNTWETYESIGQVRGLK-RLDNYCKQFIIEDQQVRLDPYVTAEDIEIMD 132
Query: 216 KPRRYTPPPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQ 253
R + + + Q L+D QL
Sbjct: 133 MERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLV 170
Score = 30.1 bits (68), Expect = 4.9
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 614 YLVKWRDLPYDKATWEDENE 633
+L+KW D + TWE
Sbjct: 74 FLIKWTDESHLHNTWETYES 93
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 637 bits (1646), Expect = 0.0
Identities = 152/658 (23%), Positives = 261/658 (39%), Gaps = 138/658 (20%)
Query: 220 YTPPPEKPTTDLRKKYEKQPPFL---DDTGMQLHAYQLEGINWL-----RYSWGQNIDTI 271
Y PP ++ EK P + L +Q EG+ +L + I
Sbjct: 24 YEPPAISAHDLIKADKEKLPVHVVVDPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCI 83
Query: 272 LADEMGLGKTIQTITFLYSLFKEGHCKGP----FLVSAPLSTIINWEREFETWAPDF-YV 326
+ADEMGLGKT+Q IT +++L K+ P +V +P S + NW E W
Sbjct: 84 MADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGRVQP 143
Query: 327 VTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSI 386
V G I + + + + +L+ SYE +L
Sbjct: 144 VAIDGGSKDEIDSKLVNF------------ISQQGMRIPTPILIISYETFRLHAEVLHKG 191
Query: 387 EWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNKLLLTGTPLQNNLEELFHLLNFLTPEKFN 446
+ +++ DE HRLK++ ++ + L+ + Q ++L++GTP+QN+L E F L++F+
Sbjct: 192 KVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILG 251
Query: 447 DLTSFQAEF---------ADISKEEQ------VKRLHDLLGPHMLRRLKADVLKNMPSKS 491
F+ F AD S +++ ++ L ++ ++RR + K +P K
Sbjct: 252 TAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKI 311
Query: 492 EFIVRVELSPMQKKYYKYILTRNFEALNPKGGGQQVSLLNIMMDLKKCCNHPYLFPAAAE 551
E +V L+P+QK+ YK L + + + G VS L+ + LKK CNHP L
Sbjct: 312 EQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCL 371
Query: 552 EAP---------VQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHRYGIKPEWLIANRVI 602
+ +GK+++L +
Sbjct: 372 TGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYI------------------------ 407
Query: 603 NSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTKMLDILEDYLDGEG 662
L R DK + N T+ LD+ E
Sbjct: 408 ------------LAMTRTTTSDKV---------------VLVSNYTQTLDLFEKLCRNRR 440
Query: 663 YKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYDSDWNP 722
Y Y R+DG ++ R + ++RFN P + +F+F+LS+++GG G+NL A+ ++++D DW
Sbjct: 441 YLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDW-- 498
Query: 723 HNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMIYR 782
NP ND QA +R R GQ+ IYR
Sbjct: 499 -----------------------------------NPANDEQAMARVWRDGQKKTCYIYR 523
Query: 783 FVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQANFTKQELDDILRFGTEELFKEEE 840
++ ++EE++ Q K L+ VV ++ +F+ EL ++ + L +
Sbjct: 524 LLSTGTIEEKILQRQAHKKALSSCVVDEEQDVER-HFSLGELRELFSLNEKTLSDTHD 580
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 240 bits (614), Expect = 1e-69
Identities = 94/347 (27%), Positives = 167/347 (48%), Gaps = 46/347 (13%)
Query: 248 QLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGPFLVSAPL 307
L YQ++G +W+R+ LAD+MGLGKT+QTI K+ + P LV PL
Sbjct: 37 NLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDA-KKENELTPSLVICPL 95
Query: 308 STIINWEREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIRSSTVKFH 367
S + NWE E +AP + D+ L D+D
Sbjct: 96 SVLKNWEEELSKFAPHLRFAVFHEDRSKIK-LEDYD------------------------ 130
Query: 368 VLLTSYELITNDVALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNKLLLTGTPLQ 427
++LT+Y ++ D L +EW +V+DEA +K+ Q+K FK + + ++ LTGTP++
Sbjct: 131 IILTTYAVLLRDTR-LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIE 189
Query: 428 NNLEELFHLLNFLTPEKFNDLTSFQAEFAD-ISK--EEQVKRLHDLLGPHMLRRLKAD-- 482
N +++L+ ++ FL P + F+++FA I K + L ++ P +LRR K D
Sbjct: 190 NKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTKYDKA 249
Query: 483 VLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEALNPKGGGQ-QVSLLNIMMDLKKCCN 541
++ ++P K E V L+P Q YK + F ++ G + + +L+ ++ LK+ +
Sbjct: 250 IINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVD 309
Query: 542 HPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHR 588
HP L + R +GK++ +++++ ++G +
Sbjct: 310 HPALLKGGEQ-------------SVRRSGKMIRTMEIIEEALDEGDK 343
Score = 127 bits (322), Expect = 5e-31
Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 40/187 (21%)
Query: 648 TKMLDILEDYLDGE-GYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGIN 706
M I+ + ++ E + + G ++ R + I +F S +LS ++GG GIN
Sbjct: 351 VDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN-NPSVKFIVLSVKAGGFGIN 409
Query: 707 LATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAF 766
L +A+ VI +D WNP A D QA
Sbjct: 410 LTSANRVIHFDRWWNP----------------------AVED---------------QAT 432
Query: 767 SRAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQANFTKQELDD 826
R +RIGQ V++++ ++ ++EE++ Q+ K L ++ G + +EL
Sbjct: 433 DRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG-DSWITELSTEELRK 491
Query: 827 ILRFGTE 833
++
Sbjct: 492 VIELSVG 498
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 243 bits (621), Expect = 2e-67
Identities = 112/702 (15%), Positives = 197/702 (28%), Gaps = 106/702 (15%)
Query: 242 LDDTGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGPF 301
L L +QL + + + +LADE+GLGKTI+ L+ G +
Sbjct: 147 LRGQRTSLIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLLSGAAE-RV 203
Query: 302 LVSAPLSTIINWEREFETW-APDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIR 360
L+ P + W E F + + + D ++
Sbjct: 204 LIIVPETLQHQWLVEMLRRFNLRFALFDDERYAEAQ---HDAYNPFD------------- 247
Query: 361 SSTVKFHVLLTSYELITND---VALLGSIEWAVLVVDEAHRL---KSNQSKFFKFLSG-- 412
+++ S + + L EW +LVVDEAH L + S+ ++ +
Sbjct: 248 ----TEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLA 303
Query: 413 YSIQNKLLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLG 472
+ LLLT TP Q +E F L L P +F+D F E + + D +
Sbjct: 304 EHVPGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEEQ------KNYCPVADAVA 357
Query: 473 PHML-RRLKADVLKNMPSK-SEFIVRVELSPMQKKYYKYILTRNF--EALNPKGGGQQVS 528
+ +L D L + E + L R L + G +V
Sbjct: 358 MLLAGNKLSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVL 417
Query: 529 LLNIMMDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHR 588
N +K FP + Q + +G + +K ED R
Sbjct: 418 FRNTRNGVK-------GFPKRELHTIKLPLPTQYQTAIKVSGIM-----GARKSAEDRAR 465
Query: 589 YGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMT 648
+ PE + ++ T + + L K +
Sbjct: 466 DMLYPERIYQEFEGDNATWWNFDP----RVEWL-------MGYLTSHRSQKVLV-ICAKA 513
Query: 649 KMLDILEDYLDG-EGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGINL 707
LE L EG + ++ R + F LL + G G N
Sbjct: 514 ATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQ-VLLCSEIGSEGRNF 572
Query: 708 ATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAFS 767
A ++++D +NP Q RIG
Sbjct: 573 QFASHMVMFDLPFNPDLLEQ------RIG------------------------------- 595
Query: 768 RAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQANFTKQELDDI 827
R RIGQ + + I+ + + + + + P + ++ +
Sbjct: 596 RLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDAFEHTC-PTGRTIYDSVYNDLINYL 654
Query: 828 LRFGTEELFKEEEEQPENTEIIKQEAENQDPAYWVKLLRHHYEQHQEDVSRTLGKGKRVR 887
E F + + + Q +++ + E+ Q +
Sbjct: 655 ASPDQTEGFDDLIKNCREQHEALKAQLEQGRDRLLEIHSNGGEKAQALAESIEEQDDDTN 714
Query: 888 KQTDDENDDDDFDEKNDGDLTGRRSAKKKEMSKQERDRPLPP 929
N D D + L
Sbjct: 715 LIAFAMNLFDIIGINQDDRGDNMIVLTPSDHMLVPDFPGLSE 756
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 198 bits (505), Expect = 7e-57
Identities = 49/326 (15%), Positives = 88/326 (26%), Gaps = 105/326 (32%)
Query: 486 NMPSKSEFIVRVELSPMQKKYYKYILTRN-------FEALNPKGGGQQVSLLNIMMDLKK 538
+ + ++ + +S QK+ I++ + FE + K S+ + ++
Sbjct: 19 SGNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKEDVILESMKTMCLNGSL 78
Query: 539 CCNHPYLFPAAAEEAPVQGGQYEIQA-LTRAAGKLVLLSKMLKKLKEDGHRYGIKPEWLI 597
HPYL P ++ A L +GK +L ++ ++E I +
Sbjct: 79 VATHPYLL--IDHYMPKSLITRDVPAHLAENSGKFSVLRDLINLVQEYETETAI-----V 131
Query: 598 ANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTKMLDILEDY 657
+T+ D+LE
Sbjct: 132 CR---PGRTM--------------------------------------------DLLEAL 144
Query: 658 LDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYD 717
L G +R DG+ SI A L + G
Sbjct: 145 LLGNKVHIKRYDGH--------SIKSAAAANDFSCTVHLFSSEGINFTKYPIK------- 189
Query: 718 SDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHN-DIQAFSRAHRI--GQ 774
+ A D +I D+ + DIQ + R G
Sbjct: 190 -------------------------SKARFDMLICLDTTVDTSQKDIQYLLQYKRERKGL 224
Query: 775 QNKVMIYRFVTRNSVEERVTQVAKRK 800
+ I R V NS++ K+
Sbjct: 225 ERYAPIVRLVAINSIDHCRLFFGKKF 250
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 125 bits (316), Expect = 4e-32
Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 40/187 (21%)
Query: 648 TKMLDILEDYLDGE-GYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGIN 706
M I+ + ++ E + + G ++ R + I +F S +LS ++GG GIN
Sbjct: 122 VDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN-NPSVKFIVLSVKAGGFGIN 180
Query: 707 LATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAF 766
L +A+ VI +D WNP A D QA
Sbjct: 181 LTSANRVIHFDRWWNP----------------------AVED---------------QAT 203
Query: 767 SRAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQANFTKQELDD 826
R +RIGQ V++++ ++ ++EE++ Q+ K L ++ G + +EL
Sbjct: 204 DRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG-DSWITELSTEELRK 262
Query: 827 ILRFGTE 833
++
Sbjct: 263 VIELSVG 269
Score = 79.6 bits (197), Expect = 2e-16
Identities = 23/125 (18%), Positives = 53/125 (42%), Gaps = 15/125 (12%)
Query: 465 KRLHDLLGPHMLRRLKADVLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEALNPKGGG 524
H ++ R + + ++P K E V L+P Q YK + F ++ G
Sbjct: 4 SHHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGI 62
Query: 525 Q-QVSLLNIMMDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLK 583
+ + +L+ ++ LK+ +HP L + R +GK++ +++++
Sbjct: 63 KRKGMILSTLLKLKQIVDHPALLKGGEQ-------------SVRRSGKMIRTMEIIEEAL 109
Query: 584 EDGHR 588
++G +
Sbjct: 110 DEGDK 114
>2ee1_A Chromodomain helicase-DNA-binding protein 4; EC 3.6.1.-, ATP-
dependent helicase CHD4, CHD-4, MI-2 autoantigen 218 kDa
protein, MI2-beta; NMR {Homo sapiens}
Length = 64
Score = 81.9 bits (202), Expect = 2e-19
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 134 GIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNK 191
KPEW++ +R++N + G YL+KWRDLPYD+A+WE E+ +I + Y
Sbjct: 6 SGKPEWMMIHRILNHSVDKKGHVHYLIKWRDLPYDQASWESEDVEIQDYDLFKQSYWN 63
Score = 81.9 bits (202), Expect = 2e-19
Identities = 23/57 (40%), Positives = 35/57 (61%)
Query: 590 GIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 646
KPEW++ +R++N + G YL+KWRDLPYD+A+WE E+ +I + Y
Sbjct: 6 SGKPEWMMIHRILNHSVDKKGHVHYLIKWRDLPYDQASWESEDVEIQDYDLFKQSYW 62
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 82.5 bits (203), Expect = 2e-16
Identities = 84/525 (16%), Positives = 168/525 (32%), Gaps = 76/525 (14%)
Query: 247 MQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGPFLV-SA 305
+Q YQ + + + ++ GLGKT+ + + K L +
Sbjct: 8 IQPRIYQEVIYAKCKET-----NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTK 62
Query: 306 PLSTIINWEREFETWA--PDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIRSST 363
PL F P +V G+K P +
Sbjct: 63 PLVLQ--HAESFRRLFNLPPEKIVALTGEK---------------------SPEERSKAW 99
Query: 364 VKFHVLLTSYELITNDV--ALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNK--- 418
+ V++ + + I ND+ + + +++V DEAHR N + F
Sbjct: 100 ARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLV 159
Query: 419 LLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLGPHMLRR 478
+ LT +P E++ ++N L I E + P++
Sbjct: 160 IGLTASPGSTP-EKIMEVINNL----------------GIEHIEYRSENSPDVRPYVKGI 202
Query: 479 LKADVLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEALNPKGGGQQVSLLNIMMDLKK 538
V ++P + + ++ ++ T E+ +P ++V +++ +
Sbjct: 203 RFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEM 262
Query: 539 CCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHRYGIKPEWLIA 598
+ L A + I+ L + +KKL E+ K I
Sbjct: 263 AKGNHDLRGLLLYHAMALKLHHAIELLETQGLSALR--AYIKKLYEEAKAGSTKASKEI- 319
Query: 599 NRVINSKTLRDGSTIYLVKWRDLPYDKATW-----EDENEDIPGLKESIEFYNMTKMLDI 653
+ + + S + K L + K ++ + K I F N +
Sbjct: 320 --FSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKI-IVFTNYRETAKK 376
Query: 654 LEDYLDGEGYKYERIDG--------NITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGI 705
+ + L +G K +R G ++ ++ +D F + L++T G G+
Sbjct: 377 IVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFN---VLVATSVGEEGL 433
Query: 706 NLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTV 750
++ D V+ Y+ + IQ R R + I L T
Sbjct: 434 DVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPG-RVIILMAKGTR 477
>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 = 74.9 bits (183), Expect = 9e-14
Identities = 122/767 (15%), Positives = 218/767 (28%), Gaps = 251/767 (32%)
Query: 69 QNLDFTSFLEVYHPQLLKSYMKKMNNDFTEPPALEEPLDEEDKRMARLNRHNINDEELEK 128
+ L V+ + +F + D +D + + ++ EE++
Sbjct: 14 HQYQYKDILSVFEDAFVD--------NF-------DCKDVQD-----MPKSILSKEEIDH 53
Query: 129 KYYRYGIKPEWLIANRVINSKTLRDGSTIYLVKW--RDLP---YDKATWEDENEDIPGLK 183
+I SK S + W K E + L
Sbjct: 54 ----------------IIMSKD--AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLM 95
Query: 184 ESIEFYNKKKSKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKK-YEKQP-PF 241
I+ ++ S T+ Q D +Y +P LR+ E +P
Sbjct: 96 SPIKTEQRQPS---MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 242 LDDTGMQ-----------LHAYQLE-----GINWLRYSWGQNIDTILADEMGLGKTIQTI 285
+ G+ +Y+++ I WL + +T+L EM +Q
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL--EM-----LQK- 204
Query: 286 TFLYSLFKEGHCKGPFLVSAP---LSTIINWEREFETWAPDFYVVTYVGDKDCRIVLRD- 341
L S + +I R P Y ++C +VL +
Sbjct: 205 --LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP--Y-------ENCLLVLLNV 253
Query: 342 -HDISWEDTANRGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSIEWAVLVVDEAHRLK 400
+ +W C+I LLT T V D
Sbjct: 254 QNAKAWNAFNLS----CKI---------LLT-----TRFKQ----------VTD------ 279
Query: 401 SNQSKFFKFLSGYSIQNKLLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISK 460
FLS + + L H LTP++ L ++ D
Sbjct: 280 --------FLSAATTTH-------------ISLDHHSMTLTPDEVKSL--L-LKYLDCRP 315
Query: 461 E---EQVKRLHDLLGPHMLRRLKADVLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEA 517
+ +V + P + A+ +++ + + V + I+ +
Sbjct: 316 QDLPREVLTTN----P-RRLSIIAESIRDGLATWDNWKHVNCDKLTT-----IIESSLNV 365
Query: 518 LNPKGGGQQVSLLNIMMDLKKCCNHPY----LFPAAAEEAPVQGGQYEIQALTR--AAGK 571
L P + +K + +FP A + L+
Sbjct: 366 LEPA-------------EYRKM----FDRLSVFP---PSAHI-----PTILLSLIWFDVI 400
Query: 572 LVLLSKMLKKLKEDGHRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ ++ KL H+Y L+ + STI + + Y + + E
Sbjct: 401 KSDVMVVVNKL----HKYS-----LVEKQ-------PKESTISI---PSI-YLELKVKLE 440
Query: 632 NEDIPGL-KESIEFYNMTKML---DILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAP 687
NE L + ++ YN+ K D++ YLD Y Y I ++ E + F
Sbjct: 441 NE--YALHRSIVDHYNIPKTFDSDDLIPPYLD--QYFYSHIGHHLKNIEHPERMTLFRM- 495
Query: 688 GASQFVFL-----------LSTRSGGLGINLATADTVIIY-----DSDWNPH---NDIQA 728
VFL ST G L T + Y D+D N I
Sbjct: 496 -----VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
Query: 729 FSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQ 775
F ++N + T ++ + I F AH+ Q+
Sbjct: 551 FLPKI---EENLIC---SKYTDLLRIALMAEDEAI--FEEAHKQVQR 589
Score = 62.2 bits (150), Expect = 7e-10
Identities = 66/547 (12%), Positives = 154/547 (28%), Gaps = 150/547 (27%)
Query: 20 RRYDRDREEEKKEKEEA----R------IYGQMARQILLALFLGTGDRYL--QTSSPKSP 67
+Y+ R + + +A R I G + G+G ++
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDG-VL---------GSGKTWVALDVCLSYKV 176
Query: 68 SQNLDFTSF-LEVYHPQLLKSYMKKMNNDFTEPPALEEPLDEEDKRMARLNRHNINDEEL 126
+DF F L + + ++ ++ + + ++ + + + I+ +
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ---IDPNWTSRSDHSSNI-KLRIHSIQA 232
Query: 127 EKKYY----RYGIKPEWLIANRVINSKTLRD---GSTIYLVKWRDLPYDKATWEDENEDI 179
E + Y + L+ V N+K I L+ R + D
Sbjct: 233 ELRRLLKSKPY--ENCLLVLLNVQNAKAWNAFNLSCKI-LLTTRF---------KQVTDF 280
Query: 180 PGLKESIEFYNKKKSKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKKYEKQP 239
+ S + K L +Y + DL ++
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLL-----------LKYL---DCRPQDLPREVLTTN 326
Query: 240 PFLDDT-GMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQ-TITFL--------Y 289
P + NW N D L I+ ++ L +
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHV----NCDK-------LTTIIESSLNVLEPAEYRKMF 375
Query: 290 ---SLFKEGHCKGPFLVSAPLSTI-INWEREFETWAPDFYVVTYVGDKDCR--IVLRD-- 341
S+F P + + W + V V +K + +V +
Sbjct: 376 DRLSVFPPS-------AHIPTILLSLIW------FDVIKSDVMVVVNKLHKYSLVEKQPK 422
Query: 342 ------HDISWEDTANRGGKPCRIRSSTVKFH-VLLTSYELI----TNDVALL---GSIE 387
I E + H ++ Y + ++D+
Sbjct: 423 ESTISIPSIYLELKVKLENEY--------ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFY 474
Query: 388 WAV----LVVDEAHRLKSNQSKF--FKFLSGYSIQNKLLLTGTPLQNNLEELFHLLNFLT 441
+ ++ R+ + F F+F ++ K+ T N + + L
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRF-----LEQKIRHDSTAW-NASGSILNTL---- 524
Query: 442 PEKFNDLTSFQAEFADISKEEQVKRLHDLLGPHMLRRLKADVLKNMPSKSEFIVRVELSP 501
L ++ D + + + ++ +L L +++ +++ SK ++R+ L
Sbjct: 525 ----QQLKFYKPYICD-NDPKYERLVNAIL--DFLPKIEENLIC---SKYTDLLRIALMA 574
Query: 502 MQKKYYK 508
+ ++
Sbjct: 575 EDEAIFE 581
Score = 47.9 bits (113), Expect = 2e-05
Identities = 86/639 (13%), Positives = 172/639 (26%), Gaps = 176/639 (27%)
Query: 433 LFHLL-NFLTPEKFNDLTSF------QAEFADI----SKEEQVKRLHDLL---GPHMLRR 478
L F+ D+ + E I RL L M+++
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 479 LKADVLKNMPSKSEFI---VRVELSPMQKKYYKYILTRNFEALNPKGGGQQVSLLNI--- 532
+VL+ +F+ ++ E YI R+ Q + N+
Sbjct: 82 FVEEVLR---INYKFLMSPIKTEQRQPSMMTRMYIEQRD----RLYNDNQVFAKYNVSRL 134
Query: 533 --MMDLKKCC----NHPYLFPAAAEEAPVQG--GQYEIQALTRAAGKLVLLSKMLKKLK- 583
+ L++ + + G G +GK + + K
Sbjct: 135 QPYLKLRQALLELRPAKNVL--------IDGVLG----------SGKTWVALDVCLSYKV 176
Query: 584 EDGHRYGIKPEWL-IANRVINSKTLRDGSTIYLV---KWRDLPYDKATWEDENEDI-PGL 638
+ + I WL + N L + W + + I L
Sbjct: 177 QCKMDFKI--FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 639 KESIEFYNMTKMLDILED---------------------------YLDGEGYKYERIDGN 671
+ ++ L +L + +L + +D +
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 672 ITGSMRQESIDRFNAPGASQFVFLLSTRSGGL-----GIN-LAT---ADTVIIYDSDWN- 721
E ++ L R L N A+++ + W+
Sbjct: 295 SMTLTPDEVKSLL-----LKY---LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 722 -PHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMI 780
H + + ++ L A+ ++D + F + I +I
Sbjct: 347 WKHVNCDKLTTI----IESSLNVLEPAEYRKMFD-------RLSVFPPSAHIPTILLSLI 395
Query: 781 YRFVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQANFTKQELDDILRFGTEELFKEEE 840
+ V ++ V V ++ K ++ KQ + + I E K E
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVE-----------KQPKESTISIPSIYL---ELKVKLEN 441
Query: 841 EQPENTEII-----KQEAENQDPA------YWVKLLRHHYEQHQEDVSRTLGKGKRVRKQ 889
E + I+ + ++ D Y+ + HH + + TL + +
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL--- 498
Query: 890 TDDENDDDDFDEKNDGDLTGRRSAKKKEMSKQERDRPLPPLLARVGGNIEVLNQL---EE 946
D F E+ K D G + L QL +
Sbjct: 499 ------DFRFLEQ-----------------KIRHD---STAWNASGSILNTLQQLKFYKP 532
Query: 947 LLSDMKSDVSRLPATLAR-IPPVAQRLHMSERSILSRLA 984
+ D RL + +P + + L S+ + L R+A
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA 571
Score = 42.1 bits (98), Expect = 0.001
Identities = 40/333 (12%), Positives = 101/333 (30%), Gaps = 82/333 (24%)
Query: 48 LALFLGTGDRYLQTSSPKSPSQNLDFTSFLEVYHPQLLKSYMKKMNNDFTEPPALEEPLD 107
+L L +YL P + L +P+ L + + + +
Sbjct: 304 KSLLL----KYLDCRPQDLPREVLTT-------NPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 108 EEDKRMARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPY 167
++ + + + + E K + R + P + I + L ++ W D+
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFPP----SAHIPTILL----SLI---WFDVI- 400
Query: 168 DKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTKEL---------QEDEDGASGSK-P 217
+ + + + + + + + K T + + + + A
Sbjct: 401 -----KSDVMVV--VN---KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450
Query: 218 RRYTPPPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQLEGIN-----------WLRYSWGQ 266
Y P + DL PP+LD + L+ I +L + + +
Sbjct: 451 DHYNIPKTFDSDDL------IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 267 N----IDTILADEMGLGKTIQTITFLYSLFKEGH-CKGPFLVSAPLSTIINWEREFETWA 321
T + T+Q + F Y + + C ++ I+++ + E
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKF-Y----KPYICDNDPKYERLVNAILDFLPKIEE-- 557
Query: 322 PDFYVVTYVGDKDCRIV----LRDHDISWEDTA 350
+ K ++ + + + +E+
Sbjct: 558 ------NLICSKYTDLLRIALMAEDEAIFEEAH 584
Score = 33.3 bits (75), Expect = 0.48
Identities = 28/218 (12%), Positives = 72/218 (33%), Gaps = 49/218 (22%)
Query: 4 GAKDIDLAIQRGHWEHRRYDRDRE------EEKKEKEEARIYGQMARQILLALFLGTGDR 57
D +W+H D+ + E +++ + L++F
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR------LSVF------ 381
Query: 58 YLQTSSPKS---PSQNLD-FTSFLEVYHPQLL------KSYMKKMNNDFT-EPPALEEPL 106
P S P+ L + ++ S ++K + T P++ L
Sbjct: 382 ------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 107 DEEDKRMARLNRHNINDEELEKKYYRYGIKPEWL-------IA---NRVINSKTLRDGST 156
+ + L+R ++ + K + + P +L I + + + +
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495
Query: 157 IYL-VKW--RDLPYDKATWEDENEDIPGLKESIEFYNK 191
++L ++ + + +D W + L++ ++FY
Sbjct: 496 VFLDFRFLEQKIRHDSTAWNASGSILNTLQQ-LKFYKP 532
>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 = 61.6 bits (149), Expect = 1e-09
Identities = 103/645 (15%), Positives = 181/645 (28%), Gaps = 240/645 (37%)
Query: 384 GSIEWAVLVVDEAH----RLKSNQSKFFKFLS----GYSIQNKLLLTGTPLQNNLEELF- 434
GS+E +LV + +L+ +F K L G++ ++ TP EL
Sbjct: 14 GSLEHVLLVPTASFFIASQLQ---EQFNKILPEPTEGFAADDE---PTTPA-----ELVG 62
Query: 435 HLLNFLTPE-------KFND-----LTSFQAEF---ADISKEEQVKRLHDLLGPHMLRRL 479
L +++ +F+ LT F+ + DI H L +L
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI---------HALAA-----KL 108
Query: 480 KADVLKNMPSKSEFIVRVELSPMQKKYYK--YILTRNFEALNPKGGGQQVSLLNIMMDLK 537
+ + E I K Y + R F+ +
Sbjct: 109 LQENDTTLVKTKELI---------KNYITARIMAKRPFDKKSN----------------- 142
Query: 538 KCCNHPYLFPAA-AEEAPVQ---GGQ-----Y--EIQALTRAAGKLV--LLSKMLKKLKE 584
LF A A + GGQ Y E++ L + LV L+ + L E
Sbjct: 143 -----SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Query: 585 DGHRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIP-------- 636
LI + K G + W + + P
Sbjct: 198 -----------LIRTTLDAEKVFTQG------------LNILEWLENPSNTPDKDYLLSI 234
Query: 637 -------GLKESIEFYNMTKMLDI----LEDYLDGEGYKYERIDGNITGSMRQ------- 678
G+ + + K+L L YL G TG +
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG-----------ATGHSQGLVTAVAI 283
Query: 679 ---ESIDRF--NAPGASQFVFLLSTRS----GGLGINLATADTVIIYDSDWNPHND---- 725
+S + F + A +F + R + + I+ DS N
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS-----ILEDSLENNEGVPSPM 338
Query: 726 --IQAFSRAH---RIGQQNKYINLATADTVII--YDSDWN-----PHNDIQAFSRAHR-- 771
I ++ + + N + L V I + N P + + R
Sbjct: 339 LSISNLTQEQVQDYVNKTNSH--LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396
Query: 772 ---IGQ-QNKVMIYRFVTRNSVEERVTQVAKRKMMLTH--LVV-----RPGMGGKQANFT 820
G Q+++ F ++RK+ ++ L V +
Sbjct: 397 KAPSGLDQSRI---PF-------------SERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 821 KQELDDILRFGTEEL-------FKEEEEQPENTEIIKQEAEN--QDPAYWVKLLRHHYEQ 871
K + + + F +++ F + + + I ++ + + P W +
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK-AT 499
Query: 872 HQED------------VSRTL-GKGKRVRKQTD-DENDDDDFDEK 902
H D R G G RV D N DDD+ K
Sbjct: 500 HILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 53.9 bits (129), Expect = 3e-07
Identities = 85/526 (16%), Positives = 153/526 (29%), Gaps = 191/526 (36%)
Query: 47 LLALFLGTGDRYLQTSSPKSPSQNLDFTSFLEVYHPQLLKSYMKKMNND---FTEPPALE 103
L+ FLG Y+ SS PS+ F L + + Y++ ND A +
Sbjct: 60 LVGKFLG----YV--SSLVEPSKVGQFDQVLNLCLTEFENCYLE--GNDIHAL----AAK 107
Query: 104 EPLDEEDKRMARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRDGSTIYLVKWR 163
+ + + +EL K Y A +
Sbjct: 108 LLQENDTTLVKT--------KELIKNYIT---------ARIMAKR--------------- 135
Query: 164 DLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTKEL---QEDEDGASGSKPRRY 220
P+DK + S F ++ G G + + Q G+
Sbjct: 136 --PFDKKS------------NSALF----RAVGEGNAQLVAIFGGQ-------GN----- 165
Query: 221 TPPPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQLE---------------GINWLRYSWG 265
+ +LR Y+ + D ++ A L G+N L W
Sbjct: 166 ---TDDYFEELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGLNIL--EWL 219
Query: 266 QNIDTILADE-----------MGLGKTIQTITFLYSL------FKE------GHCKGPFL 302
+N + +G+ + + L + GH +G L
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG--L 277
Query: 303 VSA-PLSTIINWEREFETWAPDFY-VVTYVGDKDCRIVLRDHD----------ISWEDTA 350
V+A ++ +WE F V+ ++G +R ++ I +
Sbjct: 278 VTAVAIAETDSWE-SFFVSVRKAITVLFFIG-------VRCYEAYPNTSLPPSILEDSLE 329
Query: 351 NRGGKPC---RIRS---STVKFHVLLTSYELITND---VALLGSIEWAVL---------V 392
N G P I + V+ +V T+ L ++L+ + V+ +
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 393 VDEAHRLKS----NQSKFFKFLSGYS-----IQNKLLLTGTPLQNNLEELFH--LLNFLT 441
+ K+ +QS+ +S N+ L +P FH LL +
Sbjct: 390 NLTLRKAKAPSGLDQSR-----IPFSERKLKFSNRFLPVASP--------FHSHLLVPAS 436
Query: 442 PEKFNDLTSFQAEFADISKEEQVKRLHDLLGPHMLRRLKADVLKNM 487
DL F + V D G LR L + + +
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFD--GSD-LRVLSGSISERI 479
Score = 42.0 bits (98), Expect = 0.001
Identities = 46/261 (17%), Positives = 79/261 (30%), Gaps = 94/261 (36%)
Query: 793 VTQVAKRKMMLTH-------LVVRPGMGGKQANFTKQELDDILRFGTEELFKEEEEQPEN 845
+ + R + L+H LV P + F +L + +F + PE
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLV--P----TASFFIASQLQE--QF--------NKILPEP 44
Query: 846 TEIIKQEAENQDPA-YWVKLLRHHYEQHQEDVSRTLGKGKRVRKQTDDENDD------DD 898
TE + E PA K L + VS V + D +
Sbjct: 45 TEGFAADDEPTTPAELVGKFLGY--------VSS------LVEPSKVGQFDQVLNLCLTE 90
Query: 899 FDEK----ND---------GDLTGRRSAKKK---------EMSKQERDRPLPPLL----- 931
F+ ND + K+ M+K+ D+ L
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150
Query: 932 ---ARV-----G-GNIEV-LNQLEEL-------LSDMKSDVSRLPATLARIPPVAQRLHM 974
A++ G GN + +L +L + D+ + + L R A+++
Sbjct: 151 EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 975 SERSILSRLAATSTSTNPSSA 995
+IL L NPS+
Sbjct: 211 QGLNILEWL------ENPSNT 225
Score = 40.8 bits (95), Expect = 0.003
Identities = 40/234 (17%), Positives = 71/234 (30%), Gaps = 76/234 (32%)
Query: 25 DREEEKKEKEEARIYGQMARQILLALFLG------TG--------DRYLQ-TSSPKSPSQ 69
+E+ + + + +Q+ ++L G +G + L+ +P Q
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 70 N--------LDF-TSFLEV---YHPQLLKSYMKKMNNDFTE------PPALEEPL-DEED 110
+ L F FL V +H LL +N D + ++ P+ D D
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 111 KRMARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKA 170
R+ +I++ ++ I VKW KA
Sbjct: 465 GSDLRVLSGSISER---------------IV--DCIIRLP---------VKWETTTQFKA 498
Query: 171 TWEDENEDI----PGLKESIEFYNKKKSKGRG----KTKTKELQEDEDGASGSK 216
T I PG + + G G T ++ D+D G K
Sbjct: 499 TH------ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDD--YGFK 544
Score = 38.9 bits (90), Expect = 0.010
Identities = 46/271 (16%), Positives = 73/271 (26%), Gaps = 119/271 (43%)
Query: 392 VVDEAHRLKSNQSKFFKFLSGYSIQ-----NKLLLT-------GTPLQNN---------- 429
V + A FK G+SI N + LT G ++ N
Sbjct: 1645 VWNRA-------DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 430 -----LEELFHLLN-------FLTPEKFNDLTSF-Q--------AEFADISKEEQVKRLH 468
E++F +N F + + T F Q A F D+ K + +
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDL-KSKGLIPAD 1756
Query: 469 DLL-GPHMLRRL--------KADVLKNMPSKSEF-----IVR---------VELSPMQKK 505
G H L ADV+ +V V + +
Sbjct: 1757 ATFAG-H---SLGEYAALASLADVM-------SIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 506 YYKYILTRNFEALNPKGGGQQVSLLNIMMDLKKCCNHPYLFPAAAEEAP--VQ------- 556
Y I A+NP +V+ L+ + V+
Sbjct: 1806 NYGMI------AINP----GRVAASFSQEALQYVVE------RVGKRTGWLVEIVNYNVE 1849
Query: 557 GGQYEIQALTRAAGKLV---LLSKMLKKLKE 584
QY AG L ++ +L +K
Sbjct: 1850 NQQYVA------AGDLRALDTVTNVLNFIKL 1874
Score = 38.9 bits (90), Expect = 0.011
Identities = 51/316 (16%), Positives = 90/316 (28%), Gaps = 124/316 (39%)
Query: 736 GQQNK------YINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMIYRFVTRNSV 789
G Q + Y A V WN RA + Y F S+
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDV------WN---------RADNHFKDT----YGF----SI 1661
Query: 790 EERVTQVAKRKMMLTHLVVRPGMGGKQ--ANFTKQELDDIL--RFGTEELFKEEEE---- 841
+ V + G GK+ N++ + I+ + TE++FKE E
Sbjct: 1662 LDIVINNPVNLT-----IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 842 -----------QPENT------------EIIKQEAENQDPAYW----------------- 861
+ T E +K + A +
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 862 ------VKLLRHHYEQHQEDVSR-TLGKGK---------RVRKQTDDENDDDDFDEKNDG 905
V+++ + Q V R LG+ RV E E+
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE-ALQYVVER--- 1832
Query: 906 DLTGRRSAKKKEM------SKQERDRPLPPLLARVGGNIEVLNQLEELLSDMKS---DVS 956
G+R+ E+ ++Q G++ L+ + +L+ +K D+
Sbjct: 1833 --VGKRTGWLVEIVNYNVENQQ---------YV-AAGDLRALDTVTNVLNFIKLQKIDII 1880
Query: 957 RLPATLARIPPVAQRL 972
L +L+ + V L
Sbjct: 1881 ELQKSLS-LEEVEGHL 1895
>2epb_A Chromodomain-helicase-DNA-binding protein 6; structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 68
Score = 52.6 bits (126), Expect = 5e-09
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 8/63 (12%)
Query: 136 KPEWLIANRVINSKTLRDGSTI-----YLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 190
P+++ +R++ +D T YLVKW LPY+++TWE E ED+ ++ +
Sbjct: 8 NPDYVEVDRILEVAHTKDAETGEEVTHYLVKWCSLPYEESTWELE-EDVD--PAKVKEFE 64
Query: 191 KKK 193
+
Sbjct: 65 SLQ 67
Score = 51.5 bits (123), Expect = 1e-08
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 592 KPEWLIANRVINSKTLRDGSTI-----YLVKWRDLPYDKATWEDENEDIPGLKESIE 643
P+++ +R++ +D T YLVKW LPY+++TWE E + P + E
Sbjct: 8 NPDYVEVDRILEVAHTKDAETGEEVTHYLVKWCSLPYEESTWELEEDVDPAKVKEFE 64
>2b2y_A CHD-1, chromodomain-helicase-DNA-binding protein 1; three stranded
antiparallel beta sheet, alpha helix linker, peptide
binding protein; 2.35A {Homo sapiens} SCOP: b.34.13.2
b.34.13.2 PDB: 2b2u_A* 2b2v_A* 2b2w_A 2b2t_A*
Length = 187
Score = 55.8 bits (133), Expect = 6e-09
Identities = 19/89 (21%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query: 107 DEEDKRMARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRDGSTI--YLVKWRD 164
D+E KR + + ++ + ++ I R+I + + Y KW+
Sbjct: 98 DQETKRWLKNASPEDVEYYNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQG 157
Query: 165 LPYDKATWEDENEDIPGLKESIEFYNKKK 193
LPY + +WED + I+ Y +K
Sbjct: 158 LPYSECSWEDGALISKKFQACIDEYFSRK 186
Score = 51.9 bits (123), Expect = 1e-07
Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 2/69 (2%)
Query: 580 KKLKEDGHRYGIKPEWLIANRVINSKTLRDGSTI--YLVKWRDLPYDKATWEDENEDIPG 637
+ + ++ I R+I + + Y KW+ LPY + +WED
Sbjct: 115 YYNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQGLPYSECSWEDGALISKK 174
Query: 638 LKESIEFYN 646
+ I+ Y
Sbjct: 175 FQACIDEYF 183
Score = 31.1 bits (69), Expect = 1.3
Identities = 12/61 (19%), Positives = 19/61 (31%)
Query: 573 VLLSKMLKKLKEDGHRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDEN 632
+ ++ +K E K G YL+KW+ + TWE E
Sbjct: 19 FMDCRIGRKGATGATTTIYAVEADGDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWETEE 78
Query: 633 E 633
Sbjct: 79 T 79
Score = 29.2 bits (64), Expect = 5.4
Identities = 18/115 (15%), Positives = 30/115 (26%), Gaps = 13/115 (11%)
Query: 148 SKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTKELQE 207
K G YL+KW+ + TWE E K+ RG K ++
Sbjct: 50 EKNKEPGEIQYLIKWKGWSHIHNTWETEET-------------LKQQNVRGMKKLDNYKK 96
Query: 208 DEDGASGSKPRRYTPPPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQLEGINWLRY 262
+ E + + + H+ Q + Y
Sbjct: 97 KDQETKRWLKNASPEDVEYYNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDY 151
>2h1e_A Chromo domain protein 1; CHD1, tandem chromodomains, three-stranded
ANT B-sheet, hydrolase; 2.20A {Saccharomyces cerevisiae}
PDB: 2dy7_A 2dy8_A
Length = 177
Score = 51.9 bits (123), Expect = 1e-07
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 4/89 (4%)
Query: 107 DEEDKRMARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRD----GSTIYLVKW 162
+++ R+ + ++ R E+ + R+I+S+ YLVKW
Sbjct: 88 EDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKW 147
Query: 163 RDLPYDKATWEDENEDIPGLKESIEFYNK 191
R L YD+ATWE+ + + E ++ + K
Sbjct: 148 RRLNYDEATWENATDIVKLAPEQVKHFQK 176
Score = 48.1 bits (113), Expect = 3e-06
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 4/63 (6%)
Query: 588 RYGIKPEWLIANRVINSKTLRD----GSTIYLVKWRDLPYDKATWEDENEDIPGLKESIE 643
R E+ + R+I+S+ YLVKWR L YD+ATWE+ + + E ++
Sbjct: 113 RLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVKLAPEQVK 172
Query: 644 FYN 646
+
Sbjct: 173 HFQ 175
>2dnt_A Chromodomain protein, Y chromosome-like, isoform B; histone H3
tail, choromatin organization modifier, structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.34.13.2
Length = 78
Score = 45.1 bits (107), Expect = 2e-06
Identities = 14/61 (22%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 144 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTK 203
R+++ + + G T YLV+W+ + TWE E + + +E I +N++ ++ + ++
Sbjct: 18 RIVDKRKNKKGKTEYLVRWKGYDSEDDTWEPE-QHLVNCEEYIHDFNRRHTEKQKESGPS 76
Query: 204 E 204
Sbjct: 77 S 77
Score = 37.8 bits (88), Expect = 0.001
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 600 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 646
R+++ + + G T YLV+W+ + TWE E + + +E I +N
Sbjct: 18 RIVDKRKNKKGKTEYLVRWKGYDSEDDTWEPE-QHLVNCEEYIHDFN 63
>3g7l_A Chromo domain-containing protein 1; chromodomain, protein-peptide
complex, silencing, cell cycle, chromosome partition,
DNA-binding, nucleus; HET: M3L; 2.20A
{Schizosaccharomyces pombe}
Length = 61
Score = 44.6 bits (106), Expect = 3e-06
Identities = 11/50 (22%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 144 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
++ + ++G Y +KW + TWE E +++ G ++ ++ + K+K
Sbjct: 12 DILADRVNKNGINEYYIKWAGYDWYDNTWEPE-QNLFGAEKVLKKWKKRK 60
Score = 40.0 bits (94), Expect = 1e-04
Identities = 10/50 (20%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 600 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTK 649
++ + ++G Y +KW + TWE E +++ G ++ ++ + K
Sbjct: 12 DILADRVNKNGINEYYIKWAGYDWYDNTWEPE-QNLFGAEKVLKKWKKRK 60
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 49.6 bits (117), Expect = 5e-06
Identities = 83/624 (13%), Positives = 172/624 (27%), Gaps = 97/624 (15%)
Query: 183 KESIEFYNKKKSKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKKYEKQPPFL 242
+ S + ++ + ++ + ED AS + P P
Sbjct: 183 RASELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPP 242
Query: 243 DDTGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFK----EGHCK 298
+ +YQ+E + ++ G GKT +I F+ K
Sbjct: 243 VYETKKARSYQIELAQPAI----NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK 298
Query: 299 GPFLV-SAPLSTIINWEREFETWA--PDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGK 355
FL P+ + F+ + V G+ + + ED+
Sbjct: 299 VVFLATKVPVYE--QQKNVFKHHFERQGYSVQGISGENFSNVSVEKV---IEDS------ 347
Query: 356 PCRIRSSTVKFHVLLTSYELITNDV---ALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSG 412
+++ + +++ N L + +++ DE H N
Sbjct: 348 -----------DIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRY 396
Query: 413 YSIQNK--------LLLTGTPLQNN-------------LEELFHLLNFLTPEKFNDLTSF 451
+ L LT + N L + T +
Sbjct: 397 LEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQR 456
Query: 452 QAEFADISKEEQVKRLHDLLGPHMLRRLKA--DVLKNMPSKSEFIVRVELSPMQKKYYKY 509
+I +R+H+ + + +++ + S + + Y +
Sbjct: 457 FMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHW 516
Query: 510 ILTRNFEALNPKGGGQQVSLLNIMMDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRA- 568
I+ + + ++ I L C H + A + + LT
Sbjct: 517 IVVTQRKCRLLQLEDKE-EESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFF 575
Query: 569 ---------------AGKLVLLSKMLKKLKEDGHRYGIKPEWLIANRVINSKTLRDGSTI 613
K L L +D K E L+ + T+
Sbjct: 576 TNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTL 635
Query: 614 YLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTKMLDILEDYLDGEGYKYERIDGNIT 673
K R L +EN + +K L G G + + +T
Sbjct: 636 LFAKTRALVSALKKCMEENPILNYIK---------------PGVLMGRGRRDQ--TTGMT 678
Query: 674 GSMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAH 733
++ +D F ++ L++T GI++ + V++Y+ N IQ R
Sbjct: 679 LPSQKGVLDAFKTSKDNR--LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 736
Query: 734 RIGQQNKYINLATADTVIIYDSDW 757
+K I + + V+ +
Sbjct: 737 A--AGSKCILVTSKTEVVENEKCN 758
>3lwe_A M-phase phosphoprotein 8; MPP8, structural genomics, structural
genomics consortium, S repeat, nucleus, cell cycle;
2.05A {Homo sapiens} PDB: 3r93_A* 3svm_A* 3qo2_A*
Length = 62
Score = 41.9 bits (99), Expect = 3e-05
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 144 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGK 199
++++ KT G +Y V+W+ D TWE E + KE + + KK ++ + K
Sbjct: 9 KILDMKT-EGGKVLYKVRWKGYTSDDDTWEPE-IHLEDCKEVLLEFRKKIAENKAK 62
Score = 35.4 bits (82), Expect = 0.005
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 600 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 646
++++ KT G +Y V+W+ D TWE E + KE + +
Sbjct: 9 KILDMKT-EGGKVLYKVRWKGYTSDDDTWEPE-IHLEDCKEVLLEFR 53
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 46.9 bits (110), Expect = 3e-05
Identities = 72/544 (13%), Positives = 158/544 (29%), Gaps = 65/544 (11%)
Query: 245 TGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKT---IQTITFLYSLFKEGHCKGPF 301
+ + YQLE G+N TI+ G GKT + F +G KG
Sbjct: 10 SPFKPRNYQLELALPAMK--GKN--TIICAPTGCGKTFVSLLICEHHLKKFPQGQ-KGKV 64
Query: 302 LVSAPLSTIIN-WEREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIR 360
+ A + + F Y R+ + + +
Sbjct: 65 VFFANQIPVYEQNKSVFSK---------YFERHGYRVTGISGATAENVPVEQIVE----- 110
Query: 361 SSTVKFHVLLTSYELITNDVA---LLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQN 417
+++ + +++ N++ + + +++ DE H + +
Sbjct: 111 ----NNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKL 166
Query: 418 KLLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLGPHMLR 477
P L + + T ++ D D S VK + L + +
Sbjct: 167 GGSSGPLPQVIGLTASVGVGDAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYK 226
Query: 478 RLKADVLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEALNPKGGGQQVS--LLNIMMD 535
K +F + + + ++ E L+ + + ++
Sbjct: 227 PQKFFRKVESRISDKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVT 286
Query: 536 LKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHRYGIKPEW 595
++K C + E + T K + + + +K +
Sbjct: 287 VQKACMVFQMPDKDEE----SRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFF 342
Query: 596 LIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTK------ 649
+ +D + + K ++L +EN + L ++
Sbjct: 343 SNVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITI 402
Query: 650 -----------MLDILEDYLDGEGYKYERI--------DGNITGSMRQESIDRFNAPGAS 690
+ + +E K + + +T ++ +D F A G
Sbjct: 403 LFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASG-- 460
Query: 691 QFVFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTV 750
L++T GI++A + VI+Y+ N IQ R + +K L + V
Sbjct: 461 DHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRA--RGSKCFLLTSNAGV 518
Query: 751 IIYD 754
I +
Sbjct: 519 IEKE 522
Score = 32.6 bits (73), Expect = 0.72
Identities = 23/158 (14%), Positives = 53/158 (33%), Gaps = 8/158 (5%)
Query: 742 INLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKM 801
I++A + VI+Y+ N IQ R G + ++ +E+ + K KM
Sbjct: 475 IDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNA---GVIEKEQINMYKEKM 531
Query: 802 MLTHLVVRPGMGGKQANFTKQELDDILRFGTEELFKEEEEQPENTEIIKQEAENQ--DPA 859
M ++ + ++++ I +E+ +P + K+ + A
Sbjct: 532 MNDSIL---RLQTWDEAVFREKILHIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALA 588
Query: 860 YWVKLLRHHYEQHQEDVSRTLGKGKRVRKQTDDENDDD 897
+ +R + H + + R +
Sbjct: 589 CYTADVRVIEDCHYTVLGDAFKECFVSRPHPKPKQFSS 626
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 46.5 bits (109), Expect = 4e-05
Identities = 77/605 (12%), Positives = 171/605 (28%), Gaps = 59/605 (9%)
Query: 183 KESIEFYNKKKSKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKKYEKQPPFL 242
+ S + ++ + ++ + ED AS + P P
Sbjct: 183 RASELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPP 242
Query: 243 DDTGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFK--EGHCKGP 300
+ +YQ+E + ++ G GKT +I F+ K
Sbjct: 243 VYETKKARSYQIELAQPAI----NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK 298
Query: 301 FLVSAPLSTIIN-WEREFETWA--PDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPC 357
+ A + + F+ + V G+ + + ED+
Sbjct: 299 VVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKV---IEDS-------- 347
Query: 358 RIRSSTVKFHVLLTSYELITNDVA---LLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYS 414
+++ + +++ N L + +++ DE H N + ++ Y
Sbjct: 348 ---------DIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHP-YNVLMTRYL 397
Query: 415 IQNKLLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLGPH 474
Q + P L + N E+ + + DI V+ L
Sbjct: 398 EQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRF 457
Query: 475 MLRRLKADVLKNMPSKSEFI-VRVELSPMQKKYYKYILTRNFEALNPKGGGQQVSLLNIM 533
M + L + F + L + + I + + N K + + +
Sbjct: 458 MNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWI 517
Query: 534 MDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLS--------KMLKKLKED 585
+ ++ C L E + + L + L++ L + +
Sbjct: 518 VVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTN 577
Query: 586 GHRYGIKP-----EWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKE 640
+ L T K +L N L
Sbjct: 578 VKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLF 637
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDG--------NITGSMRQESIDRFNAPGASQF 692
+ ++ + +E+ K + G +T ++ +D F ++
Sbjct: 638 AKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR- 696
Query: 693 VFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVII 752
L++T GI++ + V++Y+ N IQ R +K I + + V+
Sbjct: 697 -LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA--AGSKCILVTSKTEVVE 753
Query: 753 YDSDW 757
+
Sbjct: 754 NEKCN 758
Score = 33.4 bits (75), Expect = 0.51
Identities = 19/161 (11%), Positives = 52/161 (32%), Gaps = 22/161 (13%)
Query: 742 INLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKM 801
I++ + V++Y+ N IQ R G + ++ + T E+ + + M
Sbjct: 708 IDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSK--TEVVENEKCNRYKEEMM 765
Query: 802 MLTHLVVRPGMGGKQANFTKQELDDILRFGTEELFKEEEEQPENTEIIKQEAENQDPAYW 861
+ ++ I ++ E K+ +++ +
Sbjct: 766 -------------------NKAVEKIQKWDEETFAKKIHNLQMKERVLRDSRRKEIKPKV 806
Query: 862 VKLLRHHYEQHQEDVSRTLGKGKRVRKQTDDENDDDDFDEK 902
V+ ++ + + + R+ K + + F E+
Sbjct: 807 VEGQKNLLCGKCKAYACS-TDDIRIIKDSHHIVLGEAFKER 846
>1g6z_A CLR4 protein; transferase; NMR {Schizosaccharomyces pombe} SCOP:
b.34.13.2
Length = 70
Score = 41.7 bits (98), Expect = 5e-05
Identities = 13/57 (22%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 144 RVINSKTLRDGSTI-YLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGK 199
R+++ K R+G+ Y ++W + TWE E++ G + + ++K + +G
Sbjct: 13 RIVDEKLDRNGAVKLYRIRWLNYSSRSDTWEPP-ENLSGCSAVLAEWKRRKRRLKGS 68
Score = 35.5 bits (82), Expect = 0.006
Identities = 11/48 (22%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 600 RVINSKTLRDGSTI-YLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 646
R+++ K R+G+ Y ++W + TWE E++ G + +
Sbjct: 13 RIVDEKLDRNGAVKLYRIRWLNYSSRSDTWEPP-ENLSGCSAVLAEWK 59
>2d9u_A Chromobox protein homolog 2 (isoform 2); chromobox homolog 2,
chromo domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 74
Score = 40.2 bits (94), Expect = 1e-04
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTKE 204
I SK LR G YLVKWR +WE E E+I + + F K+ K +
Sbjct: 16 ILSKRLRKGKLEYLVKWRGWSSKHNSWEPE-ENILDPRLLLAFQKKEHEKEVQNSGPSS 73
Score = 34.0 bits (78), Expect = 0.021
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYN 646
I SK LR G YLVKWR +WE E E+I + + F
Sbjct: 16 ILSKRLRKGKLEYLVKWRGWSSKHNSWEPE-ENILDPRLLLAFQK 59
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 42.1 bits (99), Expect = 8e-04
Identities = 32/209 (15%), Positives = 63/209 (30%), Gaps = 48/209 (22%)
Query: 233 KKYEKQPPFLDDTGMQLHAYQLEGIN-WLRYSWGQNIDTILADEMGLGKTIQTITFLYSL 291
+ P D + L YQ + + WL G + G GKT +
Sbjct: 78 NAADPIPTPYFDAEISLRDYQEKALERWLVDKRG-----CIVLPTGSGKTH-VAMAAIN- 130
Query: 292 FKEGHCKGPFLVSAPLSTIIN-WEREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTA 350
P L+ P + W+ + G++
Sbjct: 131 ----ELSTPTLIVVPTLALAEQWKERLGIF----------GEEYVGEF------------ 164
Query: 351 NRGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSIEWAVLVVDEAHRLKSNQSKFFKFL 410
G+ ++ + +++Y+ + LG+ + +L+ DE H L + + +
Sbjct: 165 --SGRIKELKP------LTVSTYDSAYVNAEKLGN-RFMLLIFDEVHHLPAE--SYVQIA 213
Query: 411 SGYSIQNKLLLTGTP--LQNNLEELFHLL 437
+L LT T E L ++
Sbjct: 214 QMSIAPFRLGLTATFEREDGRHEILKEVV 242
>2dnv_A Chromobox protein homolog 8; chromo domain, histone H3 tail,
choromatin organization modifier, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: b.34.13.2
Length = 64
Score = 37.7 bits (88), Expect = 8e-04
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKG 196
+ + +R G YLVKW+ +TWE E E+I + + S G
Sbjct: 16 LLKRRIRKGRMEYLVKWKGWSQKYSTWEPE-ENI-LDARLLAAFESGPSSG 64
Score = 33.1 bits (76), Expect = 0.037
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ + +R G YLVKW+ +TWE E
Sbjct: 16 LLKRRIRKGRMEYLVKWKGWSQKYSTWEPE 45
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 42.2 bits (98), Expect = 8e-04
Identities = 77/563 (13%), Positives = 175/563 (31%), Gaps = 97/563 (17%)
Query: 245 TGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGP---- 300
+ ++ YQLE + G+N TI+ G GKT ++ K+ C
Sbjct: 1 SPLKPRNYQLELALPAKK--GKN--TIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVV 56
Query: 301 FLV-SAPLSTIINWEREFETWA--PDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPC 357
F P+ F + + + + G + ++ ED
Sbjct: 57 FFANQIPVYE--QQATVFSRYFERLGYNIASISGATSDSVSVQHI---IEDN-------- 103
Query: 358 RIRSSTVKFHVLLTSYELITNDV---ALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYS 414
+++ + +++ N++ A+ + +++ DE H N Y+
Sbjct: 104 ---------DIIILTPQILVNNLNNGAIPSLSVFTLMIFDECHNTSKNHP--------YN 146
Query: 415 IQNKLLLTGTPLQNNLEELFHLLNFLTPEKFNDLTSFQAEFADISKEEQVKRLHDLLGPH 474
L L + + L ++ LT E + + +L L
Sbjct: 147 QIMFRYLD-HKLGESRDPLPQVVG-LTASVGVGDAKTAEEA-----MQHICKLCAALDAS 199
Query: 475 MLRRLK---ADVLKNMPSKSEFIVRVELSPMQ--KKYYKYILTRNFEALNPKGGGQQVSL 529
++ ++ A++ + + + +V K ++ + +++
Sbjct: 200 VIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCIISQLMKETEKLAKDVS--EELGK 257
Query: 530 LNIMMDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHRY 589
L + + + + +A + + +R L L + L+K +
Sbjct: 258 LFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVCKALFLYTSHLRKYNDALIIS 317
Query: 590 GIKPEWLIANRVIN----------SKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLK 639
N + +T R+ + + K +L +EN + L
Sbjct: 318 EDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPKLRDLY 377
Query: 640 ESIEFYNMTK-----------------MLDILEDYLDGEGYKYERIDG--------NITG 674
++ K + +E+ K + G +T
Sbjct: 378 LVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTL 437
Query: 675 SMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHR 734
++ ++ F A G + L++T GI++A + VI+Y+ N IQ R
Sbjct: 438 PAQKCVLEAFRASGDNNI--LIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRA 495
Query: 735 IGQQNKYINLATADTVIIYDSDW 757
+ +K L ++ VI +
Sbjct: 496 --RDSKCFLLTSSADVIEKEKAN 516
>2kvm_A Chromobox protein homolog 7; histone modification, lysine
methylation, chromobox, polycom chromatin-binding; HET:
MLY; NMR {Mus musculus}
Length = 74
Score = 37.9 bits (88), Expect = 0.001
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTK 201
I K +R G YLVKW+ P +TWE E E I + + + K++ +
Sbjct: 19 IRKKRVRKGKVEYLVKWKGWPPKYSTWEPE-EHILDPRLVMAYEEKEERDRASGYR 73
Score = 32.8 bits (75), Expect = 0.060
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
I K +R G YLVKW+ P +TWE E
Sbjct: 19 IRKKRVRKGKVEYLVKWKGWPPKYSTWEPE 48
>3f2u_A Chromobox protein homolog 1; human chromobox homolog 1, CBX1,
structural genomics, struct genomics consortium, SGC,
centromere, nucleus; 1.80A {Homo sapiens} PDB: 3tzd_A*
2l11_A* 3dm1_A*
Length = 55
Score = 36.9 bits (86), Expect = 0.001
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKS 194
+ + + G YL+KW+ + TWE E E++ EF +K+
Sbjct: 8 VLDRRVVKGKVEYLLKWKGFSDEDNTWEPE-ENLDCPDLIAEFLQSQKT 55
Score = 33.0 bits (76), Expect = 0.034
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ + + G YL+KW+ + TWE E
Sbjct: 8 VLDRRVVKGKVEYLLKWKGFSDEDNTWEPE 37
>3mts_A Histone-lysine N-methyltransferase SUV39H1; histone
methyltransferase, histone-lysine N-methyltransferas
SUV39H1, histone H3, TRI-methylation; 2.20A {Homo
sapiens}
Length = 64
Score = 36.6 bits (85), Expect = 0.002
Identities = 11/58 (18%), Positives = 24/58 (41%), Gaps = 2/58 (3%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTK 203
+ YLVKWR P ++TWE +++ ++ ++K + + +
Sbjct: 6 LCDYKKIREQEYYLVKWRGYPDSESTWEPR-QNL-KCVRILKQFHKDLERELLRRHHR 61
Score = 32.4 bits (74), Expect = 0.056
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ YLVKWR P ++TWE
Sbjct: 6 LCDYKKIREQEYYLVKWRGYPDSESTWEPR 35
>1pfb_A Polycomb protein; chromatin, histone methylation, polycomb,
chromodomain, peptide binding protein; HET: M3L; 1.40A
{Drosophila melanogaster} SCOP: b.34.13.2
Length = 55
Score = 35.8 bits (83), Expect = 0.003
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
I K ++ G Y VKW+ TWE E +I + I+ Y +
Sbjct: 9 IIQKRVKKGVVEYRVKWKGWNQRYNTWEPE-VNILD-RRLIDIYEQTN 54
Score = 33.4 bits (77), Expect = 0.022
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
I K ++ G Y VKW+ TWE E
Sbjct: 9 IIQKRVKKGVVEYRVKWKGWNQRYNTWEPE 38
>1ap0_A Modifier protein 1; chromatin-binding, protein interaction motif,
alpha+beta; NMR {Mus musculus} SCOP: b.34.13.2 PDB:
1guw_A*
Length = 73
Score = 36.3 bits (84), Expect = 0.003
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGRGK 199
+ + + G YL+KW+ + TWE E E++ EF +K+
Sbjct: 19 VLDRRVVKGKVEYLLKWKGFSDEDNTWEPE-ENLDCPDLIAEFLQSQKTAHETD 71
Score = 32.0 bits (73), Expect = 0.12
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ + + G YL+KW+ + TWE E
Sbjct: 19 VLDRRVVKGKVEYLLKWKGFSDEDNTWEPE 48
>3i91_A Chromobox protein homolog 8; chromobox homolog 8, CBX8, structural
genomics structural genomics consortium, SGC, chromatin
regulator, N phosphoprotein, repressor; HET: M3L; 1.55A
{Homo sapiens} PDB: 3gv6_A* 3i90_A*
Length = 54
Score = 35.4 bits (82), Expect = 0.004
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
+ + +R G YLVKW+ +TWE E E+I + + +++
Sbjct: 9 LLKRRIRKGRMEYLVKWKGWSQKYSTWEPE-ENI-LDARLLAAFEERE 54
Score = 32.7 bits (75), Expect = 0.039
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ + +R G YLVKW+ +TWE E
Sbjct: 9 LLKRRIRKGRMEYLVKWKGWSQKYSTWEPE 38
>2k1b_A Chromobox protein homolog 7; alpha/beta protein, chromatin
regulator, nucleus, repressor, transcription,
transcription regulation; NMR {Homo sapiens} PDB:
2l12_A* 2l1b_A*
Length = 73
Score = 35.9 bits (83), Expect = 0.005
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
I K +R G YLVKW+ P +TWE E E I + + + K++
Sbjct: 27 IRKKRVRKGKVEYLVKWKGWPPKYSTWEPE-EHILDPRLVMAYEEKEE 73
Score = 33.2 bits (76), Expect = 0.045
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
I K +R G YLVKW+ P +TWE E
Sbjct: 27 IRKKRVRKGKVEYLVKWKGWPPKYSTWEPE 56
>3h91_A Chromobox protein homolog 2; human chromobox homolog 2, CBX2,
structural genomics, structural genomics consortium,
SGC, chromatin regulator, D binding, nucleus; HET: M3L;
1.50A {Homo sapiens} PDB: 2k28_A 3i8z_A
Length = 54
Score = 34.9 bits (81), Expect = 0.006
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
I SK LR G YLVKWR +WE E E+I + + KK+
Sbjct: 9 ILSKRLRKGKLEYLVKWRGWSSKHNSWEPE-ENILD-PRLLLAFQKKE 54
Score = 32.6 bits (75), Expect = 0.041
Identities = 15/30 (50%), Positives = 16/30 (53%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
I SK LR G YLVKWR +WE E
Sbjct: 9 ILSKRLRKGKLEYLVKWRGWSSKHNSWEPE 38
>3fdt_A Chromobox protein homolog 5; chromobox homolog5, CBX5, structural
GENO structural genomics consortium, SGC, centromere,
nucleus, phosphoprotein; HET: M3L; 2.00A {Homo sapiens}
Length = 59
Score = 35.0 bits (81), Expect = 0.006
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSKGR 197
+ + + G YL+KW+ + TWE E +++ E I + KK K +
Sbjct: 9 VLDRRVVKGQVEYLLKWKGFSEEHNTWEPE-KNL-DCPELISEFMKKYKKMK 58
Score = 32.3 bits (74), Expect = 0.063
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
+ + + G YL+KW+ + TWE E
Sbjct: 9 VLDRRVVKGQVEYLLKWKGFSEEHNTWEPE 38
>1pdq_A Polycomb protein; methyllysine, chromodomain, polycomb, lysine
methylation, trimethyllysine, cation-PI, chromo,
structural protein; HET: M3L; 1.76A {Drosophila
melanogaster} SCOP: b.34.13.2
Length = 72
Score = 35.1 bits (81), Expect = 0.007
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 146 INSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
I K ++ G Y VKW+ TWE E +I + I+ Y +
Sbjct: 26 IIQKRVKKGVVEYRVKWKGWNQRYNTWEPE-VNILD-RRLIDIYEQTN 71
Score = 33.2 bits (76), Expect = 0.044
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 602 INSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
I K ++ G Y VKW+ TWE E
Sbjct: 26 IIQKRVKKGVVEYRVKWKGWNQRYNTWEPE 55
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 37.2 bits (87), Expect = 0.009
Identities = 30/132 (22%), Positives = 53/132 (40%), Gaps = 22/132 (16%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRS 700
++ F N + ++ L L + + I ++ R + F + G+S+ L+ST
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS-GSSR--ILISTDL 89
Query: 701 GGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKY------INLATADTVIIYD 754
GI++ VI YD N N I HRIG+ ++ IN T +
Sbjct: 90 LARGIDVQQVSLVINYDLPANKENYI------HRIGRGGRFGRKGVAINFVTNE------ 137
Query: 755 SDWNPHNDIQAF 766
D +++ F
Sbjct: 138 -DVGAMRELEKF 148
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 37.8 bits (88), Expect = 0.017
Identities = 33/204 (16%), Positives = 55/204 (26%), Gaps = 50/204 (24%)
Query: 240 PFLDDTGMQLHAYQLEGINWLRYSWGQNIDTILADEM--GLGKTIQTITFLYSLFKEGHC 297
P+ +G YQ IN S Q L M G GKT+ + L+
Sbjct: 170 PYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLI-TMATGTGKTVVAFQISWKLWSARWN 228
Query: 298 KGP--------FLV-------SAPLSTIINWEREFETWAPDFYVVTYVGDKDCRIVLRDH 342
+ FL + + T D G
Sbjct: 229 RTGDYRKPRILFLADRNVLVDDP--------KDKTFTPFGDARHKIEGGKVV-------- 272
Query: 343 DISWEDTANRGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSIEWAVLVVDEAHR-LKS 401
K I + + S E + ++++DE HR
Sbjct: 273 ------------KSREIYFAIY---QSIASDERRPGLYKEFPQDFFDLIIIDECHRGSAR 317
Query: 402 NQSKFFKFLSGYSIQNKLLLTGTP 425
+ S + + L + ++ +T TP
Sbjct: 318 DNSNWREILEYFEPAFQIGMTATP 341
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 36.8 bits (86), Expect = 0.037
Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 15/102 (14%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
SI F + + + +G+ + GN+ G+ R +D F G S+ L++T
Sbjct: 360 SIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRV-GTSK--VLVTTNV 416
Query: 699 --RSGGLGINLATADTVIIYD--SDWNPHNDIQAFSRAHRIG 736
R GI+++ + V+ YD D D Q + HRIG
Sbjct: 417 IAR----GIDVSQVNLVVNYDMPLDQAGRPDPQTY--LHRIG 452
>1q3l_A Heterochromatin protein 1; chromodomain, HP1, chromatin,
methyllysine, monomethyllysine, structural protein; HET:
MLZ; 1.64A {Drosophila melanogaster} SCOP: b.34.13.2
PDB: 1kne_A* 1kna_A*
Length = 69
Score = 32.8 bits (75), Expect = 0.059
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 144 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKK 193
++I+ + R G Y +KW+ P + TWE E ++ ++ I+ Y +
Sbjct: 21 KIIDRRV-RKGMVEYYLKWKGYPETENTWEPE-NNL-DCQDLIQQYEASR 67
Score = 31.6 bits (72), Expect = 0.15
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 600 RVINSKTLRDGSTIYLVKWRDLPYDKATWEDE 631
++I+ + R G Y +KW+ P + TWE E
Sbjct: 21 KIIDRRV-RKGMVEYYLKWKGYPETENTWEPE 51
>1x3p_A Cpsrp43; chromo-2 domain, chloroplasts, LHCP, protein
translocation, unknown function; NMR {Arabidopsis
thaliana} SCOP: b.34.13.2
Length = 54
Score = 32.3 bits (73), Expect = 0.061
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 141 IANRVINSKTLRDGSTI-YLVKWRDLPYDKATWEDENEDIPGLKESIEFYNKKKSK 195
+A VI + DG TI YLVKW D ATWE ++ L + ++
Sbjct: 2 VAESVIGKRVGDDGKTIEYLVKWTD--MSDATWEPQDNVDSTLVL--LYQQQQPMN 53
Score = 31.9 bits (72), Expect = 0.074
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 597 IANRVINSKTLRDGSTI-YLVKWRDLPYDKATWEDENEDIPGLKESIE 643
+A VI + DG TI YLVKW D ATWE ++ L +
Sbjct: 2 VAESVIGKRVGDDGKTIEYLVKWTD--MSDATWEPQDNVDSTLVLLYQ 47
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 35.2 bits (81), Expect = 0.074
Identities = 28/179 (15%), Positives = 61/179 (34%), Gaps = 38/179 (21%)
Query: 238 QPPFLDDTGMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKT---IQTITFLYSLFKE 294
+ +QL YQ+E G+N I+ G GKT + K+
Sbjct: 23 AARASPEPELQLRPYQMEVAQ--PALEGKN--IIICLPTGSGKTRVAVYIAKDHLDKKKK 78
Query: 295 GHCKGPFLVSAPLSTIIN--WEREFETW-APDFYVVTYVGDKDCRIVLRDHDISWEDTAN 351
G +V ++ + +EF+ + + V+ GD +I + +
Sbjct: 79 ASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEV---VK---- 131
Query: 352 RGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSIEWA--------VLVVDEAHRLKSN 402
+++++ +++ N + L + E A ++++DE H
Sbjct: 132 -------------SCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKE 177
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 33.7 bits (78), Expect = 0.15
Identities = 21/96 (21%), Positives = 38/96 (39%), Gaps = 3/96 (3%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRS 700
+I F + L + +G++ + G +T R I RF G + L++T
Sbjct: 37 AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRD-GKEK--VLITTNV 93
Query: 701 GGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
GI++ V+ +D + + HRIG
Sbjct: 94 CARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIG 129
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 33.9 bits (78), Expect = 0.19
Identities = 34/195 (17%), Positives = 62/195 (31%), Gaps = 46/195 (23%)
Query: 233 KKYEKQPPFLDDTGMQLHAYQLEGIN-WLRYSWGQNIDTILADEMGLGKTIQTITFLYSL 291
+ P D + L YQ + + WL G + G GKT + + L
Sbjct: 78 NAADPIPTPYFDAEISLRDYQEKALERWLVDKRG-----CIVLPTGSGKTHVAMAAINEL 132
Query: 292 FKEGHCKGPFLVSAPLSTIIN-WEREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTA 350
P L+ P + W+ + + YV + G
Sbjct: 133 ------STPTLIVVPTLALAEQWKERLGIF-GEEYVGEFSGRI----------------- 168
Query: 351 NRGGKPCRIRSSTVKFHVLLTSYELITNDVALLGSIEWAVLVVDEAHRLKSNQSKFFKFL 410
+ KP + +++Y+ + LG+ + +L+ DE H L + + +
Sbjct: 169 -KELKP-----------LTVSTYDSAYVNAEKLGN-RFMLLIFDEVHHLPAE--SYVQIA 213
Query: 411 SGYSIQNKLLLTGTP 425
+L LT T
Sbjct: 214 QMSIAPFRLGLTATF 228
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 34.5 bits (78), Expect = 0.20
Identities = 27/222 (12%), Positives = 57/222 (25%), Gaps = 17/222 (7%)
Query: 536 LKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRAAGKLVLLSKMLKKLKEDGHRYGIKPEW 595
+ N + F + + + + K KL EDG +K
Sbjct: 246 ISGLNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFK----PVTTSKLMEDGQVTELKINS 301
Query: 596 LIANRVINSKTLRDGSTI---YLVKWRDLPYDKATWEDENEDIPGLKESIEFYNMTKMLD 652
+ T G T + +K + + + + +
Sbjct: 302 IFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGK 361
Query: 653 ILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGLGINLATADT 712
+ D + E K + G + R + + S GI++
Sbjct: 362 AIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAEN--GKGIIIVASYGVFSTGISVKNLHH 419
Query: 713 VIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYD 754
V++ + +Q R R +K ++D
Sbjct: 420 VVLAHGVKSKIIVLQTIGRVLRKH-GSK-------TIATVWD 453
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 33.6 bits (76), Expect = 0.21
Identities = 9/65 (13%), Positives = 23/65 (35%), Gaps = 8/65 (12%)
Query: 833 EELFKEEEEQPENTEIIKQEAENQDPAYWVKLLRHHYEQHQEDVSRTLGKGKRVRKQTDD 892
+ L + + + +++A+ +D W ++ E V + + K
Sbjct: 96 KRLQELDAASKVMEQEWREKAK-KDLEEW-------NQRQSEQVEKNKINNRIADKAFYQ 147
Query: 893 ENDDD 897
+ D D
Sbjct: 148 QPDAD 152
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 34.5 bits (78), Expect = 0.21
Identities = 59/436 (13%), Positives = 124/436 (28%), Gaps = 66/436 (15%)
Query: 365 KFHVLLTSYELITNDVA---LLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNK--- 418
+++ + +++ N L + +++ DE H N + ++ Y Q
Sbjct: 105 DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHP-YNVLMTRYLEQKFNSA 163
Query: 419 ------LLLTGTPLQN-------------NLEELFHLLNFLTPEKFNDLTSFQAEFADIS 459
L LT + +L + T + +I
Sbjct: 164 SQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEID 223
Query: 460 KEEQVKRLHDLLGPHMLRRLKA--DVLKNMPSKSEFIVRVELSPMQKKYYKYILTRNFEA 517
+R+H+ + + +++ + S + + Y +I+ +
Sbjct: 224 VRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKC 283
Query: 518 LNPKGGGQQVSLLNIMMDLKKCCNHPYLFPAAAEEAPVQGGQYEIQALTRA--------- 568
+ + I L C H + A + + LT
Sbjct: 284 RLLQLE-DKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPY 342
Query: 569 -------AGKLVLLSKMLKKLKEDGHRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDL 621
K L L +D K E L+ + T+ K R L
Sbjct: 343 TELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRAL 402
Query: 622 PYDKATWEDENEDIPGLKESIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESI 681
+EN + +K L G G + + +T ++ +
Sbjct: 403 VSALKKCMEENPILNYIKP---------------GVLMGRGRRDQ--TTGMTLPSQKGVL 445
Query: 682 DRFNAPGASQFVFLLSTRSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKY 741
D F + L++T GI++ + V++Y+ N IQ R +K
Sbjct: 446 DAFKT--SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA--AGSKC 501
Query: 742 INLATADTVIIYDSDW 757
I + + V+ +
Sbjct: 502 ILVTSKTEVVENEKCN 517
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 32.9 bits (76), Expect = 0.26
Identities = 20/126 (15%), Positives = 43/126 (34%), Gaps = 9/126 (7%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRS 700
+ F + L L + + I + R +F + L++T
Sbjct: 34 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKD-FQRR--ILVATNL 90
Query: 701 GGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIGQQNKYINLATADTVIIYDSDWNPH 760
G G+++ + YD + + HR+ + ++ A T + ++D
Sbjct: 91 FGRGMDIERVNIAFNYDMPEDSDTYL------HRVARAGRFGTKGLAITFVSDENDAKIL 144
Query: 761 NDIQAF 766
ND+Q
Sbjct: 145 NDVQDR 150
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 32.5 bits (75), Expect = 0.78
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
++ F + K L L EG++ + G + R I+RF G + L++T
Sbjct: 269 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE-GKEK--VLVTTNV 325
Query: 699 --RSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
R GI++ VI +D + + + HRIG
Sbjct: 326 CAR----GIDVEQVSVVINFDLPVDKDGNPDNETYLHRIG 361
>2b2y_C CHD-1, chromodomain-helicase-DNA-binding protein 1; three stranded
antiparallel beta sheet, alpha helix linker, peptide
binding protein; 2.35A {Homo sapiens} SCOP: b.34.13.2
PDB: 2b2u_C* 2b2v_C* 2b2t_C* 2b2w_C
Length = 115
Score = 30.5 bits (68), Expect = 1.0
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 158 YLVKWRDLPYDKATWEDENE----DIPGLKESIEFYNKKKSKGR-GKTKTKELQE 207
YL+KW+ + TWE E ++ G+K+ + K + R K + E E
Sbjct: 60 YLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETKRWLKNASPEDVE 114
Score = 28.5 bits (63), Expect = 4.2
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 614 YLVKWRDLPYDKATWEDENE----DIPGLKESIEFYNMTKMLDILEDYLDGE 661
YL+KW+ + TWE E ++ G+K+ + + E
Sbjct: 60 YLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETKRWLKNASPE 111
>3nat_A Uncharacterized protein; alpha-beta half sandwich, structural
genomics, PSI-2, protei structure initiative; HET: CIT;
2.92A {Enterococcus faecalis}
Length = 164
Score = 31.1 bits (70), Expect = 1.0
Identities = 17/84 (20%), Positives = 29/84 (34%), Gaps = 5/84 (5%)
Query: 113 MARLNRHNINDEELEKKYYRYGIKPEWLIANRVINSKTLRDGSTIYLVKWRDLPYDKATW 172
M + +E+LEK Y + +W N I +Y + D
Sbjct: 4 MKKATMLTYLEEQLEKHLGDYEVGLDWDRKNHTIEVIV-----RLYAENNEQVAIDDVDG 58
Query: 173 EDENEDIPGLKESIEFYNKKKSKG 196
E+ ++ + FYN +KS
Sbjct: 59 TLSEEEFIEFEDGLLFYNPQKSVV 82
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 31.9 bits (71), Expect = 1.0
Identities = 28/242 (11%), Positives = 61/242 (25%), Gaps = 32/242 (13%)
Query: 186 IEFYNKKKSKGRGKTKTKELQEDEDGASGSKPRRYTPPPEKPTTDLRKKYEKQPPFLDDT 245
I + + G + D G + E D + K + +
Sbjct: 51 IRLLDYNRLLPFGLVGQIKKFCDNFGYKAWIDPQINEKEELSRKDFDEWLSKLEIYSGNK 110
Query: 246 GMQLHAYQLEGINWLRYSWGQNIDTILADEMGLGKTIQTITFLYSLFKEGHCKGPFLVSA 305
++ H YQ + + N IL G+++ + L+
Sbjct: 111 RIEPHWYQKDAVFE----GLVNRRRILNLPTSAGRSLIQALLARYYLENYEG--KILIIV 164
Query: 306 PLSTIIN-WEREFETWAPDFYVVTYVGDKDCRIVLRDHDISWEDTANRGGKPCRIRSSTV 364
P + + +F + GG +
Sbjct: 165 PTTALTTQMADDFVDYRLFS--------------------HAMIKKIGGGASKDDKYKND 204
Query: 365 KFHVLLTSYELITNDVALLGSIEWAVLVVDEAHRLKSNQSKFFKFLSGYSIQNKLL-LTG 423
V+ T ++ ++ +++ DE H +SG + L+G
Sbjct: 205 APVVVGTWQTVVKQPKEWFS--QFGMMMNDECHLATGKS--ISSIISGLNNCMFKFGLSG 260
Query: 424 TP 425
+
Sbjct: 261 SL 262
>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR),
beta-hairpin, alpha-solenoi transport protein; 2.60A
{Bos taurus}
Length = 320
Score = 31.9 bits (72), Expect = 1.1
Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 9/76 (11%)
Query: 28 EEKKEKEEARIYGQMARQILLALFLGTGDRYLQTSSPKSPSQNLD----FTSF-LEVYHP 82
+ K+E EA+ + R+ ++ L + T + L + + + + FT L+ H
Sbjct: 138 DNKQEIAEAQQLITICREYIVGLSMETERKKLPKETLEQQKRICEMAAYFTHSNLQPVHM 197
Query: 83 QL-LKSYMK---KMNN 94
L L++ + K+ N
Sbjct: 198 ILVLRTALNLFFKLKN 213
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 31.7 bits (73), Expect = 1.1
Identities = 26/100 (26%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
++ F N + ++ L L + + I ++ R + F + G+S+ L+ST
Sbjct: 262 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS-GSSR--ILISTDL 318
Query: 699 --RSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
R GI++ VI YD N N I HRIG
Sbjct: 319 LAR----GIDVQQVSLVINYDLPANKENYI------HRIG 348
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 31.9 bits (73), Expect = 1.2
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
++ F + K L L EG++ + G + R I+RF G + L++T
Sbjct: 336 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE-GKEK--VLVTTNV 392
Query: 699 --RSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
R GI++ VI +D + + + HRIG
Sbjct: 393 CAR----GIDVEQVSVVINFDLPVDKDGNPDNETYLHRIG 428
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 31.3 bits (71), Expect = 2.1
Identities = 24/148 (16%), Positives = 57/148 (38%), Gaps = 20/148 (13%)
Query: 821 KQELDDILRFGTEELFKEEEEQPENTEIIKQ--EAENQDPAYWVKLLRHHYEQHQEDVSR 878
+ + ++ E K+EE+ + E IK+ E E+ D + L+ + + +++
Sbjct: 1038 ESMISEL-----EVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAK 1092
Query: 879 TLGKGKRVRKQTDDENDDDDFDEKNDGDLTGRRSAKKKEMS--KQERDRPLPPLLARVGG 936
+ + + +DE + K +L S ++++ K R++
Sbjct: 1093 KEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNK----------- 1141
Query: 937 NIEVLNQLEELLSDMKSDVSRLPATLAR 964
+ L E L +K+++ T A
Sbjct: 1142 AEKQKRDLSEELEALKTELEDTLDTTAT 1169
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 30.6 bits (70), Expect = 3.0
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 17/100 (17%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
++ F N + +D L + + + + G++ R + F + G+S+ L++T
Sbjct: 283 AVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRS-GSSR--VLITTDL 339
Query: 699 --RSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
R GI++ VI YD N N I HRIG
Sbjct: 340 LAR----GIDVQQVSLVINYDLPTNRENYI------HRIG 369
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 30.2 bits (69), Expect = 3.7
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 15/102 (14%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
SI F K ++L L EG++ + G++ R ID F G S+ L++T
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFRE-GRSK--VLITTNV 302
Query: 699 --RSGGLGINLATADTVIIYD--SDWNPHNDIQAFSRAHRIG 736
R GI++ T V+ YD + N D + HRIG
Sbjct: 303 LAR----GIDIPTVSMVVNYDLPTLANGQADPATY--IHRIG 338
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 29.4 bits (67), Expect = 3.9
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLST-- 698
I F + ++ L D LD GY ++I G + R + ++ F G + +L++T
Sbjct: 38 CIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKR-GEYR--YLVATDV 94
Query: 699 --RSGGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
R GI++ VI YD + + HR G
Sbjct: 95 AAR----GIDIENISLVINYDLPLEKESYV------HRTG 124
>1h6g_A Alpha-1 catenin; adhesion modulation, cytoskeleton; 2.2A {Homo
sapiens} SCOP: a.24.9.1 a.24.9.1 PDB: 1l7c_A
Length = 256
Score = 29.7 bits (66), Expect = 4.5
Identities = 6/57 (10%), Positives = 17/57 (29%)
Query: 847 EIIKQEAENQDPAYWVKLLRHHYEQHQEDVSRTLGKGKRVRKQTDDENDDDDFDEKN 903
++ E +N +P + + + + V + + + DE
Sbjct: 178 HVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRFTEQVEAAVEALSSDPAQPMDENE 234
>2l16_A SEC-independent protein translocase protein tatad; membrane
protein, protein transport; NMR {Bacillus subtilis}
Length = 78
Score = 27.6 bits (61), Expect = 5.0
Identities = 8/49 (16%), Positives = 15/49 (30%)
Query: 875 DVSRTLGKGKRVRKQTDDENDDDDFDEKNDGDLTGRRSAKKKEMSKQER 923
++ R G+ K D E+ +LT + K +
Sbjct: 28 EIGRAAGRTLLEFKSATKSLVSGDEKEEKSAELTAVKQDKNAGLEHHHH 76
>2uv8_G Fatty acid synthase subunit beta (FAS1); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_G* 3hmj_G*
Length = 2051
Score = 30.0 bits (67), Expect = 5.4
Identities = 10/51 (19%), Positives = 16/51 (31%)
Query: 768 RAHRIGQQNKVMIYRFVTRNSVEERVTQVAKRKMMLTHLVVRPGMGGKQAN 818
+G N + +F TRN + V V G G ++
Sbjct: 1625 SIQHVGMINGRKLIKFETRNEDDVVVLTGEAEIEQPVTTFVFTGQGSQEQG 1675
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 29.5 bits (67), Expect = 5.9
Identities = 23/96 (23%), Positives = 42/96 (43%), Gaps = 9/96 (9%)
Query: 641 SIEFYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRS 700
++ F N + +D L + + + + G++ R+ + F + GAS+ L+ST
Sbjct: 279 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS-GASR--VLISTDV 335
Query: 701 GGLGINLATADTVIIYDSDWNPHNDIQAFSRAHRIG 736
G+++ +I YD N I HRIG
Sbjct: 336 WARGLDVPQVSLIINYDLPNNRELYI------HRIG 365
>2fvy_A D-galactose-binding periplasmic protein; periplasmic binding
protien, hinge, chemotaxis, transport,; HET: BGC; 0.92A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1glg_A* 2fw0_A*
2gbp_A* 2qw1_A* 2hph_A* 2ipn_A* 2ipm_A* 2ipl_A* 1gca_A*
1gcg_A 3ga5_A* 3gbp_A*
Length = 309
Score = 29.3 bits (66), Expect = 5.9
Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 16/71 (22%)
Query: 223 PPEKPTTDLRKKYEKQPPFLDDTGMQLHAYQLEGINWLR------------YSWGQNIDT 270
P P + R Y + L+D G++ QL+ W I+
Sbjct: 149 EPGHPDAEARTTYVIKE--LNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEV 206
Query: 271 ILA--DEMGLG 279
++A D M +G
Sbjct: 207 VIANNDAMAMG 217
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 28.7 bits (65), Expect = 6.5
Identities = 24/104 (23%), Positives = 37/104 (35%), Gaps = 31/104 (29%)
Query: 644 FYNMTKMLDILEDYLDGEGYKYERIDGNITGSMRQESIDRFNAPGASQFVFLLSTRSGGL 703
F +D + +YL +G + I G R ++I+ F R G
Sbjct: 60 FAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAF--------------REGKK 105
Query: 704 GINLATA-----------DTVIIYDSDWNPHNDIQAFSRAHRIG 736
+ +AT VI YD P +I+ + HRIG
Sbjct: 106 DVLVATDVASKGLDFPAIQHVINYDM---P-EEIENYV--HRIG 143
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL
nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo
sapiens} PDB: 1zxn_A*
Length = 400
Score = 29.2 bits (66), Expect = 8.3
Identities = 6/42 (14%), Positives = 13/42 (30%)
Query: 169 KATWEDENEDIPGLKESIEFYNKKKSKGRGKTKTKELQEDED 210
K + G + ++ Y K K G + ++
Sbjct: 226 KVFLNGNKLPVKGFRSYVDMYLKDKLDETGNSLKVIHEQVNH 267
>2frx_A Hypothetical protein YEBU; rossmann-type
S-adenosylmethionine-dependent methyltransfera domain;
2.90A {Escherichia coli}
Length = 479
Score = 28.9 bits (65), Expect = 9.0
Identities = 10/60 (16%), Positives = 18/60 (30%)
Query: 79 VYHPQLLKSYMKKMNNDFTEPPALEEPLDEEDKRMARLNRHNINDEELEKKYYRYGIKPE 138
VY P + M++ +R R+N I+ + + YG
Sbjct: 6 VYFPDAFLTQMREAMPSTLSFDDFLAACQRPLRRSIRVNTLKISVADFLQLTAPYGWTLT 65
>1eex_G Propanediol dehydratase; coenzyme B12, potassium ION, TIM barrel,
lyase; HET: COY; 1.70A {Klebsiella oxytoca} SCOP:
a.23.2.1 PDB: 1dio_G* 1egm_G* 1egv_G* 1iwb_G* 1uc4_G*
1uc5_G* 3auj_G*
Length = 173
Score = 28.4 bits (63), Expect = 9.6
Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 41 QMARQILLALFLGTGDRYLQTSSPKSPSQNLDFTSF-LEVYHPQLLKSYMKKMNNDFTEP 99
M R +L + G+ + S++ + + L HP+ +K+ K +DFT
Sbjct: 8 SMVRDVLSRMNSLQGEAPAAAPAAGGASRSARVSDYPLANKHPEWVKTATNKTLDDFTLE 67
Query: 100 PALEEPLDEEDKRMA 114
L + +D R+
Sbjct: 68 NVLSNKVTAQDMRIT 82
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
0.316 0.134 0.395
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 15,890,905
Number of extensions: 1007237
Number of successful extensions: 2745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2662
Number of HSP's successfully gapped: 147
Length of query: 1001
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 898
Effective length of database: 3,825,930
Effective search space: 3435685140
Effective search space used: 3435685140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 62 (27.8 bits)