RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7773
(1281 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 808 bits (2089), Expect = 0.0
Identities = 245/775 (31%), Positives = 394/775 (50%), Gaps = 47/775 (6%)
Query: 335 NYHINAEKEQKKEQERIEKERMRRLMAEDE--EGYRKLIDQKKDKRLAFLLSQTDEYISN 392
N + E + + R++ + E + E ++ K+ + + ++ N
Sbjct: 27 EASANPQPEDFHGIDIVINHRLKTSLEEGKVLEKTVPDLNNCKENYEFLIKWTDESHLHN 86
Query: 393 LTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDE--SSQLEDLRITVKETN 450
+ + + + K + K+ Q++ + E + E +E +
Sbjct: 87 TWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFH 146
Query: 451 SDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTE 510
++ + L W + DE + + K P + + E
Sbjct: 147 VPERIIDSQRASLEDGTSQLQYLVKWR---RLNYDEATWENATDIVKLAPEQVKHFQNRE 203
Query: 511 DDEYKDAGEEATYYSIAHTYHEKVTEQASIMVNGKLKEYQIKGLEWMVSLYNNNLNGILA 570
+ + + ++ Y+ EK++ Q + G+L+++Q+ G+ WM L++ NGILA
Sbjct: 204 NSKILP--QYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILA 261
Query: 571 DEMGLGKTVQTIALLTYLMEKKKNLGPYLVIVPLSTLSNWVLEFEKWAPSANVVAYKGSP 630
DEMGLGKTVQT+A +++L+ ++ GP++++VPLST+ W+ FEKWAP N + Y G+
Sbjct: 262 DEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQ 321
Query: 631 LARRALQ----------GRMKNSKFNVLLTTYEFIIKDKSVLSKIQWKCMIIDEGHRMKN 680
+R ++ K KFNVLLTTYE+I+KD++ L I+W+ M +DE HR+KN
Sbjct: 322 KSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKN 381
Query: 681 HHCKLTQTLNTFYNSSHRVLLTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFA 740
L ++LN+F ++R+L+TGTPLQN + EL AL+NFL+P F +
Sbjct: 382 AESSLYESLNSF-KVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ---- 436
Query: 741 TTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLY 800
+EE I LH+ ++PF+LRRLKK+VE LP K E I++ ++S +Q Y
Sbjct: 437 ---------DEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYY 487
Query: 801 QHLHNRGILLTDGSEKGKTGEGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNT 860
++ IL + S +GG +L N + +L+K NHP++F N EE+ Q G
Sbjct: 488 KN-----ILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKM 542
Query: 861 V--VSGPDIYRTSGKFELLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRL 918
+ +SGK LLD++L + K+ HRVL+F QM +++ IL DY + ++ RL
Sbjct: 543 TRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRL 602
Query: 919 DGTTKSEDRGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQA 978
DGT S R + FN P+S F+FLLSTRAGGLG+NL ADTV+IFDSDWNP DLQA
Sbjct: 603 DGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQA 662
Query: 979 QDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGSERH-- 1036
RAHRIGQKN V V RL++ ++VEE +L AR K+ ++ +I G+ D +
Sbjct: 663 MARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPN 722
Query: 1037 -EFLQTILHQDDE----EEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGE 1086
L IL + + +D ++ ++ ED +T ++ E
Sbjct: 723 AGELSAILKFGAGNMFTATDNQKKLEDLNLDDVLNHAEDHVTTPDLGESHLGGEE 777
Score = 469 bits (1209), Expect = e-149
Identities = 144/396 (36%), Positives = 208/396 (52%), Gaps = 29/396 (7%)
Query: 1 TPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKV 60
TPLQN + EL AL+NFL+P F + +EE I LH+
Sbjct: 404 TPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ-------------DEEQEEYIHDLHRR 450
Query: 61 LRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGG 120
++PF+LRRLKK+VE LP K E I++ ++S +Q Y++ IL + S +GG
Sbjct: 451 IQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKN-----ILTKNYSALTAGAKGG 505
Query: 121 ARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNTV--VSGPDIYRTSGKFELLDRIL 178
+L N + +L+K NHP++F N EE+ Q G + +SGK LLD++L
Sbjct: 506 HFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLL 565
Query: 179 PKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESKY 238
+ K+ HRVL+F QM +++ IL DY + ++ RLDGT S R + FN P+S
Sbjct: 566 TRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSND 625
Query: 239 FIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNS 298
F+FLLSTRAGGLG+NL ADTV+IFDSDWNP DLQA RAHRIGQKN V V RL++ ++
Sbjct: 626 FVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDT 685
Query: 299 VEERILAAARYKLNMDEK-----EYHRNNTARTQKLNK----AIINYHINAEKEQKKEQE 349
VEE +L AR K+ ++ N + + N AI+ + Q+
Sbjct: 686 VEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTATDNQK 745
Query: 350 RIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQ 385
++E + ++ E+ + L Q
Sbjct: 746 KLEDLNLDDVLNHAEDHVTTPDLGESHLGGEEFLKQ 781
Score = 32.8 bits (75), Expect = 0.93
Identities = 24/183 (13%), Positives = 49/183 (26%), Gaps = 22/183 (12%)
Query: 1099 DWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADD 1158
D + +DD EE E Q + D + + ++E+ +
Sbjct: 6 DLLESEDDYGSEEALSEENVHEASANP------QPEDFHGIDIVINHRLKTSLEEGKVLE 59
Query: 1159 YEEEEEEVKPVTKKRGSGKKGKKSYVEET-APEDEEEEKPVKKRRRRKKVQISDEDEDEE 1217
+ + K +S++ T + + KR Q ED+
Sbjct: 60 -KTVPDLNNCKENYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVR 118
Query: 1218 DESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASK 1277
+ ED E + +R+ EE E + + +
Sbjct: 119 LDPYVTA--------------EDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTS 164
Query: 1278 PRK 1280
+
Sbjct: 165 QLQ 167
Score = 29.7 bits (67), Expect = 7.9
Identities = 19/135 (14%), Positives = 39/135 (28%), Gaps = 13/135 (9%)
Query: 1156 ADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDED 1215
+DD E E+ + ++ PED V R + ++ E
Sbjct: 3 SDDDLLESEDDYGSEE--ALSEENVHEASANPQPEDFHGIDIVINHRLKTSLEEGKVLEK 60
Query: 1216 EEDESPKKKKRKSTKTPAKDK-------HKEDDEEKHVVSKR----KKKVVEEEEEVEEA 1264
+ K+ D+ + + KR K+ + E+++V
Sbjct: 61 TVPDLNNCKENYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLD 120
Query: 1265 EGEEEEEDDKASKPR 1279
E+ + R
Sbjct: 121 PYVTAEDIEIMDMER 135
>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 = 686 bits (1773), Expect = 0.0
Identities = 149/546 (27%), Positives = 251/546 (45%), Gaps = 30/546 (5%)
Query: 513 EYKDAGEEATYYSIAHTYHEKVTEQASIMVNGKLKEYQIKGLEWMVSLYN-----NNLNG 567
Y+ A A V +++ L+ +Q +G++++ N+
Sbjct: 23 LYEPPAISAHDLIKADKEKLPVHVVVDPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGC 82
Query: 568 ILADEMGLGKTVQTIALLTYLMEKKKNLGP----YLVIVPLSTLSNWVLEFEKWAPSA-N 622
I+ADEMGLGKT+Q I L+ L+++ + P +V+ P S + NW E KW
Sbjct: 83 IMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGRVQ 142
Query: 623 VVAYKGSPLARRA------LQGRMKNSKFNVLLTTYEFIIKDKSVLSKIQWKCMIIDEGH 676
VA G + + +L+ +YE VL K + +I DEGH
Sbjct: 143 PVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDEGH 202
Query: 677 RMKNHHCKLTQTLNTFYNSSHRVLLTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFN 736
R+KN + LN+ N+ RVL++GTP+QN L E ++L++F+ I + F++ F
Sbjct: 203 RLKNSDNQTYLALNSM-NAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFE 261
Query: 737 APFATTGEK--VELNEEETILIIRRLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSG 794
P + + + ++ L ++ L+RR + LP K+E ++ C+++
Sbjct: 262 IPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTP 321
Query: 795 LQKLLYQHLHNRGILLTDGSEKGKTGEGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQH 854
LQK LY+ L + + + ++I L+KLCNHP + +
Sbjct: 322 LQKELYKL-----FLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEG 376
Query: 855 I-----GQNNTVVSGPDIYRTSGKFELLDRILPKFK-ETKHRVLMFCQMTQLMTILEDYF 908
+ + SGK +LD IL + T +V++ TQ + + E
Sbjct: 377 FDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLC 436
Query: 909 IWRDFSYLRLDGTTKSEDRGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDS 968
R + Y+RLDGT + R +++ +FN P S FIF+LS++AGG GLNL A+ +++FD
Sbjct: 437 RNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDP 496
Query: 969 DWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQAGMFDQ 1028
DWNP D QA R R GQK + RL++ ++EE+IL +K + V+ +
Sbjct: 497 DWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVE 556
Query: 1029 KSTGSE 1034
+
Sbjct: 557 RHFSLG 562
Score = 445 bits (1146), Expect = e-142
Identities = 93/324 (28%), Positives = 157/324 (48%), Gaps = 13/324 (4%)
Query: 1 TPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEK--VELNEEETILIIRRLH 58
TP+QN L E ++L++F+ I + F++ F P + + + ++ L
Sbjct: 229 TPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELI 288
Query: 59 KVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGE 118
++ L+RR + LP K+E ++ C+++ LQK LY+ L +
Sbjct: 289 SIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKL-----FLKQAKPVESLQTG 343
Query: 119 GGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHI-----GQNNTVVSGPDIYRTSGKFEL 173
+ + ++I L+KLCNHP + + + + SGK +
Sbjct: 344 KISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLV 403
Query: 174 LDRILPKFK-ETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFN 232
LD IL + T +V++ TQ + + E R + Y+RLDGT + R +++ +FN
Sbjct: 404 LDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFN 463
Query: 233 EPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLR 292
P S FIF+LS++AGG GLNL A+ +++FD DWNP D QA R R GQK + R
Sbjct: 464 NPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYR 523
Query: 293 LITVNSVEERILAAARYKLNMDEK 316
L++ ++EE+IL +K +
Sbjct: 524 LLSTGTIEEKILQRQAHKKALSSC 547
>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 = 399 bits (1029), Expect = e-127
Identities = 138/488 (28%), Positives = 240/488 (49%), Gaps = 49/488 (10%)
Query: 542 VNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLVI 601
+ L+ YQIKG WM + LAD+MGLGKT+QTIA+ + ++ + L P LVI
Sbjct: 34 IKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENE-LTPSLVI 92
Query: 602 VPLSTLSNWVLEFEKWAPSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSV 661
PLS L NW E K+AP + + ++++LTTY +++D
Sbjct: 93 CPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIKL-------EDYDIILTTYAVLLRDTR- 144
Query: 662 LSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSHRVLLTGTPLQNKLPELWALLNFLL 721
L +++WK ++IDE +KN K+ + + S +R+ LTGTP++NK+ +LW+++ FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKEL-KSKYRIALTGTPIENKVDDLWSIMTFLN 203
Query: 722 PSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKE--VESQ 779
P + S S F+ F P ++ + L ++ PF+LRR K + + +
Sbjct: 204 PGLLGSYSEFKSKFATP-------IKKGDNMA---KEELKAIISPFILRRTKYDKAIIND 253
Query: 780 LPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGARALK--NTIVQLRKL 837
LP+K+E + C+++ Q +Y+ + + + G R +T+++L+++
Sbjct: 254 LPDKIETNVYCNLTPEQAAMYKA------EVENLFNNIDSVTGIKRKGMILSTLLKLKQI 307
Query: 838 CNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDRILPKFKETKHRVLMFCQM 897
+HP + G R SGK I+ + + ++ +F Q
Sbjct: 308 VDHPALL-----------------KGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQF 350
Query: 898 TQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKFNEPESKYFIFLLSTRAGGLGLN 956
+ I+ + + L G ++R +++ KF +LS +AGG G+N
Sbjct: 351 VDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNP-SVKFIVLSVKAGGFGIN 409
Query: 957 LQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNM 1016
L +A+ VI FD WNP + QA DR +RIGQ V V +LI+V ++EE+I +K ++
Sbjct: 410 LTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSL 469
Query: 1017 DEKVIQAG 1024
+ +I +G
Sbjct: 470 FKDIISSG 477
Score = 243 bits (624), Expect = 2e-70
Identities = 80/310 (25%), Positives = 145/310 (46%), Gaps = 39/310 (12%)
Query: 1 TPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKV 60
TP++NK+ +LW+++ FL P + S S F+ F P ++ + L +
Sbjct: 186 TPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATP-------IKKGDNMAK---EELKAI 235
Query: 61 LRPFLLRRLKKE--VESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGE 118
+ PF+LRR K + + + LP+K+E + C+++ Q +Y+ + + +
Sbjct: 236 ISPFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAE------VENLFNNIDSVT 289
Query: 119 GGARALK--NTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDR 176
G R +T+++L+++ +HP + G R SGK
Sbjct: 290 GIKRKGMILSTLLKLKQIVDHPALL-----------------KGGEQSVRRSGKMIRTME 332
Query: 177 ILPKFKETKHRVLMFCQMTQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKFNEPE 235
I+ + + ++ +F Q + I+ + + L G ++R +++ KF
Sbjct: 333 IIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNP 392
Query: 236 SKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLIT 295
+LS +AGG G+NL +A+ VI FD WNP + QA DR +RIGQ V V +LI+
Sbjct: 393 -SVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLIS 451
Query: 296 VNSVEERILA 305
V ++EE+I
Sbjct: 452 VGTLEEKIDQ 461
>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 = 286 bits (732), Expect = 6e-81
Identities = 94/575 (16%), Positives = 190/575 (33%), Gaps = 28/575 (4%)
Query: 546 LKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLVIVPLS 605
L +Q+ + + + +LADE+GLGKT++ +L + L+IVP +
Sbjct: 154 LIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLLSGA-AERVLIIVPET 210
Query: 606 TLSNWVLEFEKWAPSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDK---SVL 662
W++E + + + A +++ + +F + K L
Sbjct: 211 LQHQWLVEMLRRF-NLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHL 269
Query: 663 SKIQWKCMIIDEGHRMKNHHCKLTQTLNT----FYNSSHRVLLTGTPLQNKLPELWALLN 718
+ +W +++DE H + ++ + +LLT TP Q + +A L
Sbjct: 270 CEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLR 329
Query: 719 FLLPSIFKSCSTF--EQWFNAPFATTGEKVE----LNEEETILIIRRLHKVLRPFLLRRL 772
L P+ F + F EQ P A + L+ +E ++ + + LL+
Sbjct: 330 LLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLLQAA 389
Query: 773 KKEVESQLPEKVEYIIK-CDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGARALKNTI 831
+ E + E + D G ++L+++ N T + T
Sbjct: 390 NSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELH--TIKLPLPTQYQTA 447
Query: 832 VQLRKLCNHPFMFQNIEEKYCQHIG-QNNTVVSGPDIYRTSGKFELLDRILPKFKETKHR 890
+++ + ++ + + E L L + K
Sbjct: 448 IKVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQK-- 505
Query: 891 VLMFCQMTQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKFNEPESKYFIFLLSTR 949
VL+ C LE R +R F E ++ LL +
Sbjct: 506 VLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQ-VLLCSE 564
Query: 950 AGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAA 1009
G G N Q A +++FD +NP Q R RIGQ +++++ + + ++
Sbjct: 565 IGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRW 624
Query: 1010 ARYKLNMDEKVIQAG--MFDQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIAR 1067
L+ E G ++D + D+ + + QL
Sbjct: 625 YHEGLDAFEHTCPTGRTIYDSVYNDLINYLASPDQTEGFDDLIKNCREQHEALKAQLEQG 684
Query: 1068 TEDELTLFQKMDAERRK-GETKPRLVEIKELPDWM 1101
+ L + + + E+ + L +
Sbjct: 685 RDRLLEIHSNGGEKAQALAESIEEQDDDTNLIAFA 719
Score = 162 bits (412), Expect = 7e-41
Identities = 65/426 (15%), Positives = 129/426 (30%), Gaps = 21/426 (4%)
Query: 1 TPLQNKLPELWALLNFLLPSIFKSCSTF--EQWFNAPFATTGEKVE----LNEEETILII 54
TP Q + +A L L P+ F + F EQ P A + L+ +E ++
Sbjct: 315 TPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLG 374
Query: 55 RRLHKVLRPFLLRRLKKEVESQLPEKVEYIIK-CDMSGLQKLLYQHLHNRGILLTDGSEK 113
+ + LL+ + E + E + D G ++L+++ N
Sbjct: 375 EMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELH 434
Query: 114 GKTGEGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIG-QNNTVVSGPDIYRTSGKFE 172
T + T +++ + ++ + + E
Sbjct: 435 --TIKLPLPTQYQTAIKVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVE 492
Query: 173 LLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKF 231
L L + K VL+ C LE R +R F
Sbjct: 493 WLMGYLTSHRSQK--VLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWF 550
Query: 232 NEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVL 291
E ++ LL + G G N Q A +++FD +NP Q R RIGQ +++++
Sbjct: 551 AEEDTGAQ-VLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIH 609
Query: 292 RLITVNSVEERILAAARYKLNMDEKE-------YHRNNTARTQKLNKAIINYHINAEKEQ 344
+ + ++ L+ E Y L + +
Sbjct: 610 VPYLEKTAQSVLVRWYHEGLDAFEHTCPTGRTIYDSVYNDLINYLASPDQTEGFDDLIKN 669
Query: 345 KKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKEEQ 404
+EQ K ++ + E + ++ + + D + + +
Sbjct: 670 CREQHEALKAQLEQGRDRLLEIHSNGGEKAQALAESIEEQDDDTNLIAFAMNLFDIIGIN 729
Query: 405 QKKMRE 410
Q +
Sbjct: 730 QDDRGD 735
>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 = 217 bits (554), Expect = 3e-63
Identities = 49/268 (18%), Positives = 93/268 (34%), Gaps = 26/268 (9%)
Query: 77 LPEKVEYIIKCDMSGLQKLLYQ---HLHNRGILLTDGSEKGKTGEGGARALKNTIVQLRK 133
+Y + MS QK L LH IL + K + ++K +
Sbjct: 20 GNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKE-DVILESMKTMCLNGSL 78
Query: 134 LCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDRILPKFKETKHRVLMFCQ 193
+ HP++ + T + SGKF +L ++ +E + + C+
Sbjct: 79 VATHPYLLIDHYMP-----KSLITRDVPAHLAENSGKFSVLRDLINLVQEYETETAIVCR 133
Query: 194 MTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESKYFIFLLSTRAGGLGLN 253
+ M +LE + R DG + ++ L + G
Sbjct: 134 PGRTMDLLEALLLGNKVHIKRYDGHS--------IKSAAAANDFSCTVHLFSSEGINFTK 185
Query: 254 L-----QAADTVIIFDSDWNP-HQDLQAQDRAHRI--GQKNEVRVLRLITVNSVEERILA 305
D +I D+ + +D+Q + R G + ++RL+ +NS++ L
Sbjct: 186 YPIKSKARFDMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVRLVAINSIDHCRLF 245
Query: 306 AARYKLNMDEKEYHRNNTARTQKLNKAI 333
+ K + + +EY N TA L +
Sbjct: 246 FGK-KFDKNSREYLENVTAAMVILRDRL 272
Score = 216 bits (551), Expect = 9e-63
Identities = 46/268 (17%), Positives = 88/268 (32%), Gaps = 29/268 (10%)
Query: 780 LPEKVEYIIKCDMSGLQKLLYQ---HLHNRGILLTDGSEKGKTGEGGARALKNTIVQLRK 836
+Y + MS QK L LH IL + K + ++K +
Sbjct: 20 GNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKE-DVILESMKTMCLNGSL 78
Query: 837 LCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDRILPKFKETKHRVLMFCQ 896
+ HP++ + T + SGKF +L ++ +E + + C+
Sbjct: 79 VATHPYLLIDHYMP-----KSLITRDVPAHLAENSGKFSVLRDLINLVQEYETETAIVCR 133
Query: 897 MTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESKYFIFLLSTRAGGLGLN 956
+ M +LE + R DG + ++ L + G
Sbjct: 134 PGRTMDLLEALLLGNKVHIKRYDGHS--------IKSAAAANDFSCTVHLFSSEGINFTK 185
Query: 957 L-----QAADTVIIFDSDWNP-HQDLQAQDRAHRI--GQKNEVRVLRLITVNSVEERILA 1008
D +I D+ + +D+Q + R G + ++RL+ +NS++ L
Sbjct: 186 YPIKSKARFDMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVRLVAINSIDHCRLF 245
Query: 1009 AARYKLNMD----EKVIQAGMFDQKSTG 1032
+ E V A + + G
Sbjct: 246 FGKKFDKNSREYLENVTAAMVILRDRLG 273
>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 = 210 bits (537), Expect = 2e-61
Identities = 66/269 (24%), Positives = 122/269 (45%), Gaps = 28/269 (10%)
Query: 759 RLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGK 818
H L+ R + S LP+K+E + C+++ Q +Y+ + +
Sbjct: 5 HHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAE------VENLFNNID 57
Query: 819 TGEGGARALK--NTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFEL 876
+ G R +T+++L+++ +HP + + G R SGK
Sbjct: 58 SVTGIKRKGMILSTLLKLKQIVDHPALLKG-----------------GEQSVRRSGKMIR 100
Query: 877 LDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKFN 935
I+ + + ++ +F Q + I+ + + L G ++R +++ KF
Sbjct: 101 TMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQ 160
Query: 936 EPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLR 995
+LS +AGG G+NL +A+ VI FD WNP + QA DR +RIGQ V V +
Sbjct: 161 NNP-SVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 219
Query: 996 LITVNSVEERILAAARYKLNMDEKVIQAG 1024
LI+V ++EE+I +K ++ + +I +G
Sbjct: 220 LISVGTLEEKIDQLLAFKRSLFKDIISSG 248
Score = 206 bits (527), Expect = 4e-60
Identities = 63/253 (24%), Positives = 113/253 (44%), Gaps = 28/253 (11%)
Query: 56 RLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGK 115
H L+ R + S LP+K+E + C+++ Q +Y+ + +
Sbjct: 5 HHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAE------VENLFNNID 57
Query: 116 TGEGGARALK--NTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFEL 173
+ G R +T+++L+++ +HP + + G R SGK
Sbjct: 58 SVTGIKRKGMILSTLLKLKQIVDHPALLKG-----------------GEQSVRRSGKMIR 100
Query: 174 LDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWR-DFSYLRLDGTTKSEDRGELLRKFN 232
I+ + + ++ +F Q + I+ + + L G ++R +++ KF
Sbjct: 101 TMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQ 160
Query: 233 EPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLR 292
+LS +AGG G+NL +A+ VI FD WNP + QA DR +RIGQ V V +
Sbjct: 161 NNP-SVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 219
Query: 293 LITVNSVEERILA 305
LI+V ++EE+I
Sbjct: 220 LISVGTLEEKIDQ 232
>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 = 98.3 bits (244), Expect = 2e-21
Identities = 84/503 (16%), Positives = 172/503 (34%), Gaps = 51/503 (10%)
Query: 545 KLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLVIVPL 604
+ + YQ N ++ GLGKT+ + + Y + K G L++ P
Sbjct: 9 QPRIYQEVIYA--KCKETN---CLIVLPTGLGKTLIAMMIAEYRLTKYG--GKVLMLAPT 61
Query: 605 STLSN-WVLEFEKWA--PSANVVAYKG--SPLARRALQGRMKNSKFNVLLTTYEFIIKD- 658
L F + P +VA G SP R ++ V++ T + I D
Sbjct: 62 KPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAW-----ARAKVIVATPQTIENDL 116
Query: 659 -KSVLSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSHR---VLLTGTPL--QNKLPE 712
+S ++ DE HR ++ + + + LT +P K+ E
Sbjct: 117 LAGRISLEDVSLIVFDEAHRAVGNYAY-VFIAREYKRQAKNPLVIGLTASPGSTPEKIME 175
Query: 713 LWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRL 772
+ L S + + +V+L E + + L ++LR L
Sbjct: 176 VINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKE-VRKLLREMLRDALKPLA 234
Query: 773 KKEVESQL-PEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGARALKNTI 831
+ + P+ + + + + + + H+ LL + K +
Sbjct: 235 ETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGL 294
Query: 832 VQLRK-LCNHPFMFQNIEEKYCQHIGQN-------NTVVSGPDIYRTSGKFELLDRILPK 883
LR + + K + I + + +V +I K + L I+ +
Sbjct: 295 SALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIRE 354
Query: 884 F--KETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGEL--------LRK 933
++ ++++F + + + + R G E+ L L +
Sbjct: 355 QLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDE 414
Query: 934 FNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRV 993
F E L++T G GL++ D V+ ++ + + +Q R R G+ RV
Sbjct: 415 FARGEFN---VLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ---RRGRTGRHMPGRV 468
Query: 994 LRLITVNSVEERILAAARYKLNM 1016
+ L+ + +E ++R K +
Sbjct: 469 IILMAKGTRDEAYYWSSRQKEKI 491
Score = 61.3 bits (148), Expect = 1e-09
Identities = 50/329 (15%), Positives = 112/329 (34%), Gaps = 26/329 (7%)
Query: 4 QNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRP 63
K+ E+ L S + + +V+L E + + L ++LR
Sbjct: 170 PEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKE-VRKLLREMLRD 228
Query: 64 FLLRRLKKEVESQL-PEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGAR 122
L + + P+ + + + + + + H+ LL + K
Sbjct: 229 ALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIEL 288
Query: 123 ALKNTIVQLRK-LCNHPFMFQNIEEKYCQHIGQN-------NTVVSGPDIYRTSGKFELL 174
+ LR + + K + I + + +V +I K + L
Sbjct: 289 LETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKL 348
Query: 175 DRILPKF--KETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGEL----- 227
I+ + ++ ++++F + + + + R G E+ L
Sbjct: 349 KEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQ 408
Query: 228 ---LRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQ 284
L +F E L++T G GL++ D V+ ++ + + +Q R R G+
Sbjct: 409 KLILDEFARGEFN---VLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ---RRGRTGR 462
Query: 285 KNEVRVLRLITVNSVEERILAAARYKLNM 313
RV+ L+ + +E ++R K +
Sbjct: 463 HMPGRVIILMAKGTRDEAYYWSSRQKEKI 491
>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 = 86.1 bits (212), Expect = 6e-17
Identities = 109/684 (15%), Positives = 206/684 (30%), Gaps = 192/684 (28%)
Query: 400 HKEEQQKKMREEKKKKKKSIKQKILDGNMDKL--DLDESSQLEDLRITVKETNSDNKLRG 457
H + E + + K IL D + D + + + + D+ +
Sbjct: 3 HHHHMDFETGEHQYQYKD-----ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS 57
Query: 458 EDAPPAKQIKEWLASHPGWEVVMEDSEDEGSED-----EEMKEKKEEPSKAVGEKKTEDD 512
+DA W E+V + E+ + +K ++ +PS + D
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
Query: 513 EYKDAGEEATYYSIAHTYHEKVTEQASIMVNGKLKE--YQIKGLEWMVSLYNNNLNGILA 570
+ + Y++ + + KL++ +++ + ++ ++G
Sbjct: 118 RLYNDNQVFAKYNV--SRLQPYL---------KLRQALLELRPAKNVL------IDG--- 157
Query: 571 DEM-GLGKTVQTI-ALLTYLMEKKK-------NLG----PYLVIVPLSTL-----SNWVL 612
+ G GKT + L+Y ++ K NL P V+ L L NW
Sbjct: 158 --VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215
Query: 613 EFEK-WAPSANVVAYKGSPLARRALQGRM-KNS--------------KFN----VLLTTY 652
+ + + + RR L+ + +N FN +LLTT
Sbjct: 216 RSDHSSNIKLRIHSIQAEL--RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT- 272
Query: 653 EFIIKDKSVLSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSHRVLL---TGTPLQNK 709
+ K V D H L T + LL Q
Sbjct: 273 ----RFKQV----------TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ-D 317
Query: 710 LPELWALLNFLLPSIF-----KSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVL 764
LP N SI +T++ W + V ++ TI I VL
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNW---------KHVNCDKLTTI--IESSLNVL 366
Query: 765 RPFLLRRLKKEV-----ESQLPEKVEYIIKCDMSG-LQKLLYQHLHNRGILLTDGSE--- 815
P R++ + + +P + +I D+ ++ LH ++ E
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 816 -------KGKTGEGGARALKNTIVQ----LRKLCNHPFMFQNIEEKYCQHIGQNNTVVSG 864
+ K AL +IV + + + +++ + HIG
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG-------- 478
Query: 865 PDIYRTSGKFELLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYL----RLDG 920
+ H L + + MT+ F+ DF +L R D
Sbjct: 479 ---H--------------------H--LKNIEHPERMTLFRMVFL--DFRFLEQKIRHDS 511
Query: 921 TTKSEDRGELLRKFNEPESKY--FIF----LLSTRAGGLGLNLQAADTVIIFDSDWNPHQ 974
T + G +L + + Y +I + L + +I +
Sbjct: 512 TAWNA-SGSILNTLQQLK-FYKPYICDNDPKYERLVNAILDFLPKIEENLICS----KYT 565
Query: 975 D-----LQAQDR-----AHRIGQK 988
D L A+D AH+ Q+
Sbjct: 566 DLLRIALMAEDEAIFEEAHKQVQR 589
Score = 59.5 bits (143), Expect = 7e-09
Identities = 74/562 (13%), Positives = 143/562 (25%), Gaps = 182/562 (32%)
Query: 13 LLNFLLPSIFKS--CSTFEQWFNAPFATTGEKVE--LNEEETILIIRRLHKVLR------ 62
+L+ + + C + + + E+++ + ++ + RL L
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMPKSIL--SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 63 -------------PFLLRRLKKEVESQLPEKVEYIIKCD-------------------MS 90
FL+ +K E YI + D
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138
Query: 91 GLQKLLYQHLHNRGILLTDGSEKGKTGEG----GARALKNTIVQLR----------KLCN 136
L++ L + + +L+ G G G + VQ + K CN
Sbjct: 139 KLRQALLELRPAKNVLI-----DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193
Query: 137 HPFMFQNIEEKYCQHIGQNNTVVSGPDI-YRTSGKFELL-DRILPKFKETKHR----VL- 189
P + +K I N T S D + + + K + VL
Sbjct: 194 SPETVLEMLQKLLYQIDPNWT--SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 190 ---------MF---CQMTQLMTILEDYFIWRDFSYL-RLDGTTKSEDRGELLRK-FNEPE 235
F C++ L+T R L T + + E
Sbjct: 252 NVQNAKAWNAFNLSCKI--LLTT-------RFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 236 SK-YFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLI 294
K + L R L P + R L +I
Sbjct: 303 VKSLLLKYLDCRPQDL------------------PRE-------VLTTNP----RRLSII 333
Query: 295 TVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINYHINA--EKEQKK------ 346
A + + + ++ KL II +N E +K
Sbjct: 334 -----------AESIRDGLATWDNWKHVN--CDKLTT-IIESSLNVLEPAEYRKMFDRLS 379
Query: 347 ---EQERIEKERMRRL-MAEDEEGYRKLIDQKKDKRLAFLLSQTDE---YISNLTQMVKE 399
I + + + ++++ L + Q E I ++ +K
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL--VEKQPKESTISIPSIYLELKV 437
Query: 400 HKEEQQ---KKMREE----KKKKKKSIKQKILDG--------NMDKLDLDESSQLE---- 440
E + + + + K + LD ++ ++ E L
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Query: 441 -DLRITVKETNSDNKLRGEDAP 461
D R + K+R +
Sbjct: 498 LDFRFL------EQKIRHDSTA 513
Score = 54.5 bits (130), Expect = 2e-07
Identities = 53/325 (16%), Positives = 98/325 (30%), Gaps = 97/325 (29%)
Query: 6 KLPELWALLNFLLPSIF-----KSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKV 60
LP N SI +T++ W + V ++ TI I V
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNW---------KHVNCDKLTTI--IESSLNV 365
Query: 61 LRPFLLRRLKKEV-----ESQLPEKVEYIIKCDMSG-LQKLLYQHLHNRGILLTDGSE-- 112
L P R++ + + +P + +I D+ ++ LH ++ E
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 113 --------KGKTGEGGARALKNTIVQ----LRKLCNHPFMFQNIEEKYCQHIGQNNTVVS 160
+ K AL +IV + + + +++ + HIG
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG------- 478
Query: 161 GPDIYRTSGKFELLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYL----RLD 216
+ H L + + MT+ F+ DF +L R D
Sbjct: 479 ----H--------------------H--LKNIEHPERMTLFRMVFL--DFRFLEQKIRHD 510
Query: 217 GTTKSEDRGELLRKFNEPESKY--FIF----LLSTRAGGLGLNLQAADTVIIFDSDWNPH 270
T + G +L + + Y +I + L + +I +
Sbjct: 511 STAWNA-SGSILNTLQQLK-FYKPYICDNDPKYERLVNAILDFLPKIEENLICS----KY 564
Query: 271 QD-----LQAQDR-----AHRIGQK 285
D L A+D AH+ Q+
Sbjct: 565 TDLLRIALMAEDEAIFEEAHKQVQR 589
Score = 42.5 bits (99), Expect = 9e-04
Identities = 60/440 (13%), Positives = 128/440 (29%), Gaps = 123/440 (27%)
Query: 900 LMTILEDYFIWRDFS------YLRLDGTTKSEDRGELLRKFNEPESKYFIF--LLSTRAG 951
++++ ED F+ +F + E+ ++ + +F LLS +
Sbjct: 21 ILSVFEDAFV-DNFDCKDVQDMPK--SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 952 GLGLNLQAADTVIIFDSDW----------NPHQD----LQAQDRAHRIGQKNEVRVLRLI 997
+ + + V+ + + P ++ +DR + N+ +V
Sbjct: 78 MVQ---KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY-----NDNQVFAKY 129
Query: 998 TVNSVEERI-LAAARYKLNMDEKVIQAGM------------------------------F 1026
V+ ++ + L A +L + V+ G+
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL 189
Query: 1027 DQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGE 1086
++ E LQ +L+Q D D + N + R AE R
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRS---DHSSN-IKLRIHSI-------QAELR--- 235
Query: 1087 TKPRLVEIKELPD-WMVKDDDEVENSMYEEE-----------REREKEEALMGRGSRQRK 1134
RL++ K + +V + V+N+ R ++ + L +
Sbjct: 236 ---RLLKSKPYENCLLVLLN--VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 1135 QVDYTDSLTDQEWL----KAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPE 1190
++ +LT E K ++ D E P S + E+ +
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCR-PQDLPREVLTTNPRR----------LSIIAESIRD 339
Query: 1191 DE---EEEKPVKKRRRRKKVQISDEDEDEEDESPKKKK----RKSTKTPAK------DKH 1237
+ K V + ++ S + + + S P
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 1238 KEDDEEKHVVSKRKKKVVEE 1257
+ D V K +VE+
Sbjct: 400 IKSDVMVVVNKLHKYSLVEK 419
>2v0f_A Chromodomain-helicase-DNA-binding protein 7; nucleotide-binding,
chromatin regulator, charge syndrome, phosphorylation,
disease mutation; NMR {Homo sapiens} SCOP: d.76.2.1
Length = 87
Score = 52.9 bits (126), Expect = 1e-08
Identities = 15/59 (25%), Positives = 29/59 (49%)
Query: 426 GNMDKLDLDESSQLEDLRITVKETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSE 484
G+ + LD ++ + R+ V + K+ G APP K + WL +P + V + ++
Sbjct: 1 GSRNPNKLDINTLTGEERVPVVNKRNGKKMGGAMAPPMKDLPRWLEENPEFAVAPDWTD 59
>2ckc_A Chromodomain-helicase-DNA-binding protein 7; protein-protein
interaction, phosphorylation, disease mutation,
nucleotide-binding; NMR {Homo sapiens} SCOP: d.76.2.1
PDB: 2v0e_A
Length = 80
Score = 52.0 bits (124), Expect = 1e-08
Identities = 19/51 (37%), Positives = 24/51 (47%)
Query: 430 KLDLDESSQLEDLRITVKETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVM 480
+ + S D RI V +L GEDAP K + EWL HP + V M
Sbjct: 13 HMLVPRGSLDPDTRIPVINLEDGTRLVGEDAPKNKDLVEWLKLHPTYTVDM 63
>2dl6_A Chromodomain-helicase-DNA-binding protein 8; BRK, CHD8, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.76.2.1
Length = 83
Score = 51.6 bits (123), Expect = 2e-08
Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 8/79 (10%)
Query: 424 LDGNMDKLDLDESSQLEDLRITVKETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDS 483
G + LD+D + RI V L GEDAP +++ WL HP + V D
Sbjct: 5 SSGEPNHLDVDL-----ETRIPVINKVDGTLLVGEDAPRRAELEMWLQGHPEFAV---DP 56
Query: 484 EDEGSEDEEMKEKKEEPSK 502
++ K+K + K
Sbjct: 57 RFLAYMEDRRKQKWQRCKK 75
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 57.3 bits (137), Expect = 2e-08
Identities = 78/578 (13%), Positives = 186/578 (32%), Gaps = 72/578 (12%)
Query: 545 KLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGP--YLVIV 602
K + YQ++ ++ N I+ G GKT ++ + + ++K +
Sbjct: 13 KPRNYQLELALP--AMKGKNT--IICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFA 68
Query: 603 PLSTLSN-WVLEFEKWA--PSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKD- 658
+ F K+ V G+ ++ ++N+ ++++ T + ++ +
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENN--DIIILTPQILVNNL 126
Query: 659 --KSVLSKIQWKCMIIDEGHRMKNHH-------CKLTQTLNTFYNSSHRVLLTGTPLQN- 708
++ S + MI DE H H L Q L +V+ +
Sbjct: 127 KKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVG 186
Query: 709 ----------KLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETIL--- 755
+ +L A L+ + + K + KVE +
Sbjct: 187 DAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 246
Query: 756 ---------IIRRLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNR 806
+ +R+ K L + ++ + + + + K M +
Sbjct: 247 AQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRIC 306
Query: 807 GILLTDGSEKGK-------TGEGGARALKNTIVQLR---KLCNHPFMFQNIEEKYCQHIG 856
L S K + + + + + + Q++ +++ + +
Sbjct: 307 KALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQ 366
Query: 857 QNNTVVSGPDIYRTSGKFELLDRILPKFKETKH--RVLMFCQMTQLMTILEDYF-IWRDF 913
+ +V P + K E L IL + ++F + L+ L+++
Sbjct: 367 ELESVSRDPSN--ENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKL 424
Query: 914 SYLRLD---GTTKSEDRGELLRKFNEPESKYFIF------LLSTRAGGLGLNLQAADTVI 964
S+L+ G K+ + + F L++T G+++ + VI
Sbjct: 425 SFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVI 484
Query: 965 IFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQAG 1024
+++ N + +Q + R G + L + V E+ + M++ +++
Sbjct: 485 LYEYVGNVIKMIQTRGRGRARGS----KCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQ 540
Query: 1025 MFDQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVN 1062
+D+ + D +E+ VPD E
Sbjct: 541 TWDEAVFREKILHIQTHEKFIRDSQEKPKPVPDKENKK 578
Score = 48.1 bits (113), Expect = 2e-05
Identities = 51/374 (13%), Positives = 128/374 (34%), Gaps = 35/374 (9%)
Query: 59 KVLRPFLLRRLKKEVESQLPEKVEYIIKC-DMSGLQKLLYQHLHNRGILLTDGSEKGKTG 117
+ +++ K + Q+P+K E C + L ++ I +
Sbjct: 278 QKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDAL-- 335
Query: 118 EGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDRI 177
LK+ +R Q++ +++ + + + +V P + K E L I
Sbjct: 336 ----DYLKDFFSNVRAAGFDEIE-QDLTQRFEEKLQELESVSRDPSN--ENPKLEDLCFI 388
Query: 178 LPKFKETKH--RVLMFCQMTQLMTILEDYF-IWRDFSYLRLD---GTTKSEDRGELLRKF 231
L + ++F + L+ L+++ S+L+ G K+ +
Sbjct: 389 LQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPA 448
Query: 232 NEPESKYFIF------LLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQK 285
+ F L++T G+++ + VI+++ N + +Q + R G
Sbjct: 449 QKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGS- 507
Query: 286 NEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINYHINAEKEQK 345
+ L + V E + ++NM +++ ++ R Q ++A+ I + +
Sbjct: 508 ---KCFLLTSNAGVIE------KEQINMYKEKMMNDSILRLQTWDEAVFREKILHIQTHE 558
Query: 346 KEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYI---SNLTQMVKEHKE 402
K +++ E+++ + + + Y +
Sbjct: 559 KFIRDSQEKPKPVPDKENKKLLCRKCKALACYTADVRVIEDCHYTVLGDAFKECFVSRPH 618
Query: 403 EQQKKMREEKKKKK 416
+ K+ +K+ K
Sbjct: 619 PKPKQFSSFEKRAK 632
>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 = 56.9 bits (136), Expect = 4e-08
Identities = 87/649 (13%), Positives = 193/649 (29%), Gaps = 77/649 (11%)
Query: 476 WEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTEDDEYKDAGEEATYYSIAHTYHEKVT 535
W++ ++++D SE + E E S E+ DD + + I T
Sbjct: 188 WDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSEN-LGSAAEGIGKPPPVYET 246
Query: 536 EQASIMVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNL 595
+ K + YQI+ + ++ N ++ G GKT +I + + +
Sbjct: 247 K--------KARSYQIELAQPAIN----GKNALICAPTGSGKTFVSILICEHHFQNMPAG 294
Query: 596 GPYLVI--VPLSTLSN-WVLEFEKWA--PSANVVAYKGSPLARRALQGRMKNSKFNVLLT 650
V+ + F+ +V G + +++ +++S ++++
Sbjct: 295 RKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDS--DIIVV 352
Query: 651 TYEFIIKD---KSVLSKIQWKCMIIDEGHRMKNHHCK-------LTQTLNTFYNSSHRVL 700
T + ++ ++ S + MI DE H +H L Q N+ +
Sbjct: 353 TPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILG 412
Query: 701 LTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRL 760
LT + + + + + E + L+ RR+
Sbjct: 413 LTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRI 472
Query: 761 HKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTG 820
H ++ L E E+ + S + H +
Sbjct: 473 HNPFAA-IISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED 531
Query: 821 EGGARALKNTIVQLRKLCNHPFMFQNIEE--------KYCQHIGQNNTVVSGPDIYR--- 869
+ + + + I E Y N ++ +
Sbjct: 532 KEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLT 591
Query: 870 -------------------TSGKFELLDRILPKF--KETKHRVLMFCQMTQ----LMTIL 904
+ K E L IL + R L+F + L +
Sbjct: 592 AKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCM 651
Query: 905 EDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEP------ESKYFIFLLSTRAGGLGLNLQ 958
E+ I L G + + + + SK L++T G+++
Sbjct: 652 EENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIV 711
Query: 959 AADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDE 1018
+ V++++ N + +Q + R G + + + + V E + M++
Sbjct: 712 QCNLVVLYEYSGNVTKMIQVRGRGRAAGS----KCILVTSKTEVVENEKCNRYKEEMMNK 767
Query: 1019 KVIQAGMFDQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIAR 1067
V + +D+++ + H D +E + E L+
Sbjct: 768 AVEKIQKWDEETFAKKIHNLQMKERVLRDSRRKEIKPKVVEGQKNLLCG 816
Score = 42.6 bits (99), Expect = 0.001
Identities = 45/261 (17%), Positives = 91/261 (34%), Gaps = 35/261 (13%)
Query: 172 ELLDRILPKFKETK-HRVLMFCQMTQ----LMTILEDYFIWRDFSYLRLDGTTKSEDRGE 226
EL+ + ++ R L+F + L +E+ I L G + +
Sbjct: 617 ELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 676
Query: 227 LLRKFNEP------ESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAH 280
+ + SK L++T G+++ + V++++ N + +Q + R
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 736
Query: 281 RIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINY-HIN 339
G K L+T + + E + N + + +NKA+ +
Sbjct: 737 AAGSK-----CILVTSKT---------------EVVENEKCNRYKEEMMNKAVEKIQKWD 776
Query: 340 AEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKK---DKRLAFLLSQTDEYISNLTQM 396
E KK KER+ R E + + QK K A+ S D I +
Sbjct: 777 EETFAKKIHNLQMKERVLRDSRRKEIKPKVVEGQKNLLCGKCKAYACSTDDIRIIKDSHH 836
Query: 397 VKEHKEEQQKKMREEKKKKKK 417
+ + +++ + KK +
Sbjct: 837 IVLGEAFKERYTTKPHKKPMQ 857
>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 = 55.4 bits (133), Expect = 1e-07
Identities = 87/551 (15%), Positives = 170/551 (30%), Gaps = 156/551 (28%)
Query: 16 FLLP-SIFKSCSTFEQWFNAPFATTGEKVELNEEETI---LIIRRLHKVLRPFLLRRLKK 71
L+P + F S ++ FN E ++E T L+ + L ++ ++
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG-----YVSSLVEP 74
Query: 72 EVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGI------LLTDGSEKGKTGEGGARALK 125
Q + ++ L + +L I LL + + K
Sbjct: 75 SKVGQFDQ----VLN---LCLTEFENCYLEGNDIHALAAKLLQEN-------DTTLVKTK 120
Query: 126 NTI---VQLRKLCNHPF-------MFQNIEEK----YCQHIGQNNTVVSGP-----DIYR 166
I + R + PF +F+ + E GQ NT D+Y+
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT--DDYFEELRDLYQ 178
Query: 167 TSGKF--ELLDRILPKFKETKHRVLMFCQM-TQLMTILEDYFIWRDFSYLRLDGTTKSED 223
T +L+ E L ++ TQ + ILE W L T +D
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE----W-----LENPSNTPDKD 229
Query: 224 RGELLRKFNEPESKYFIFLLSTRAG--GLGLNLQAADTVIIFD-SDWNPHQDLQAQDRAH 280
+LLS +G+ +Q A V+ + P + R++
Sbjct: 230 -----------------YLLSIPISCPLIGV-IQLAHYVVTAKLLGFTP-----GELRSY 266
Query: 281 RIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAI-INYHIN 339
G T +S + ++ A + + + + KAI + + I
Sbjct: 267 LKG----------ATGHS--QGLVTAVAIAETDSWESFFVS-------VRKAITVLFFIG 307
Query: 340 AEKEQKKEQERIEKERMRRLMAEDEEGY-----------RKLIDQKKDKRLAFLLSQTDE 388
+ + + E+ EG ++ + +K + L +
Sbjct: 308 VRCYEAYPNTSLP-PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 389 YIS--N----------------LTQMVKEHK---EEQQKKMREEKKKKKKSIK------- 420
IS N L +++ K Q ++ ++K K S +
Sbjct: 367 EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Query: 421 --QKILDGNMDKLDLDESSQ-----LEDLRITVKETNSDNKLRGEDAPPAKQIKEWLASH 473
+L D ++ D +D++I V +T + LR +++I + +
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 474 P-GWEVVMEDS 483
P WE +
Sbjct: 487 PVKWETTTQFK 497
Score = 51.2 bits (122), Expect = 3e-06
Identities = 44/313 (14%), Positives = 95/313 (30%), Gaps = 90/313 (28%)
Query: 626 YKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSVLSKIQWKCMII----DEGHRMKNH 681
YK S A+ R N TY F I D + + I ++G R++ +
Sbjct: 1636 YKTSKAAQDVWN-RADNH----FKDTYGFSILD---IVINNPVNLTIHFGGEKGKRIREN 1687
Query: 682 HCKLTQTLNTFYNSSHRVLLTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFAT 741
+ + ++ G K+ + +N S TF
Sbjct: 1688 YSAMI----------FETIVDGKLKTEKIFKE---INEHSTSY-----TFR--------- 1720
Query: 742 TGEKVELNE-EET---ILIIRRLHKVLRPFLLRRLKKEVESQLPEKV------EY----- 786
EK L+ + T + ++ + LK + EY
Sbjct: 1721 -SEKGLLSATQFTQPALTLMEKA-------AFEDLKSKGLIPADATFAGHSLGEYAALAS 1772
Query: 787 ---IIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGARALKNTIVQLRKLCNHPFM 843
++ + L ++++ RG+ + + + G + ++ +
Sbjct: 1773 LADVM--SIESLVEVVFY----RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE-A 1825
Query: 844 FQNIEEKYCQHIGQ-----N-NT----VVSGPDIYRTSGKFELLDRILPKFKETKHRVLM 893
Q + E+ + G N N V+ +G LD + K + +
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNYNVENQQYVA-------AGDLRALDTVTNVLNFIKLQKID 1878
Query: 894 FCQMTQLMTILED 906
++ + ++ LE+
Sbjct: 1879 IIELQKSLS-LEE 1890
Score = 48.1 bits (114), Expect = 2e-05
Identities = 114/659 (17%), Positives = 197/659 (29%), Gaps = 227/659 (34%)
Query: 472 SHPGWEVVMEDSEDEGSEDEEMKEK--KEEPSKAVGEKKTEDDEYKDAGEEATYYS--IA 527
SH E V+ +++E+ K P E DDE E + ++
Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQFNKILP--EPTEGFAADDEPTTPAELVGKFLGYVS 69
Query: 528 HTYHEKVTEQASIMVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTY 587
Q ++N L E++ LE N+++ + A L + T
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLE------GNDIHALAA---KLLQENDTT----- 115
Query: 588 LMEKKKNLGPYLVIVPLSTLSNWVLEFEKWAPSA--NVVAYKGSPLARRAL---QGRMKN 642
L++ K+ + Y+ ++ F+K + SA V + L A+ QG N
Sbjct: 116 LVKTKELIKNYITARIMAKRP-----FDKKSNSALFRAVGEGNAQLV--AIFGGQG---N 165
Query: 643 SK--FNVLL---TTYEFIIKDKSVLSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSH 697
+ F L TY ++ D +I + + T +
Sbjct: 166 TDDYFEELRDLYQTYHVLVGD------------LIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 698 RVL--LTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETIL 755
+L L + P+ ++LL SI SC P L
Sbjct: 214 NILEWLENP---SNTPDK----DYLL-SIPISC---------P----------------L 240
Query: 756 IIRRLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQ-KLLYQHL-----HNRGIL 809
I ++ QL Y++ + G L +L H++G++
Sbjct: 241 I----------GVI---------QL---AHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 810 LTDGSEKGKTGEG---------------GARA--------LKNTIVQ--LRKLCNHP-FM 843
+ + E G R L +I++ L P M
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Query: 844 F----------QNIEEKYCQHI------------GQNNTVVSGP--DIYRTSGKFELLDR 879
Q+ K H+ G N VVSGP +Y L+
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG-------LNL 391
Query: 880 ILPKFK----ETKHRVLMFCQMTQLMTILEDYFIWRDF---------SYLRLDGTTK-SE 925
L K K + R+ F + +L F R F L + ++
Sbjct: 392 TLRKAKAPSGLDQSRIP-FSER-KLK------FSNR-FLPVASPFHSHLLV-PASDLINK 441
Query: 926 DRGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVI---IFDS------DWNPHQDL 976
D + FN + + ++ T G +L+ I I D W +
Sbjct: 442 DLVKNNVSFNAKDIQIPVY--DTFDGS---DLRVLSGSISERIVDCIIRLPVKW----ET 492
Query: 977 QAQDRAHRI---GQKNEVRVLRLITVNSVEE----RILAAARYKLNMDEKVIQAGMFDQ 1028
Q +A I G + L + ++ R++ A +N D+ G F Q
Sbjct: 493 TTQFKATHILDFGPGGASGLGVL--THRNKDGTGVRVIVAGTLDINPDDDY---G-FKQ 545
Score = 47.4 bits (112), Expect = 4e-05
Identities = 95/580 (16%), Positives = 185/580 (31%), Gaps = 162/580 (27%)
Query: 379 LAFLLSQ-TDEYISNLTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESS 437
F+ SQ +++ L + + + + E + K L ++ +
Sbjct: 26 SFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE-------LVGKFLGYVSSLVEPSKVG 78
Query: 438 QLED-LRITVKETNSD----N-------KLRGEDAPPAKQIKEWLASHPGWEVVMEDSED 485
Q + L + + E + N KL E+ + KE + ++ ++ + D
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 486 EGSEDEEMKEKKEEPSK--AV--GEKKTED--DE----YKDAGEEATYYSIAHTYHEKVT 535
+ S + E ++ A+ G+ T+D +E Y+ TY+ + +
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ------TYHVLVGDLIKFSA 192
Query: 536 E--QASIMVNGKLKEYQIKGL---EWM----------------VSLYNNNLNGILADEMG 574
E I ++ +GL EW+ +S L G+
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC---PLIGV------ 243
Query: 575 LGKTVQTIALLTYLMEKKK------NLGPYL---------VI--VPLSTLSNWVLEFEKW 617
+Q L Y++ K L YL ++ V ++ +W F
Sbjct: 244 ----IQ---LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE-SFFVS 295
Query: 618 APSANVV----------AYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSVLSKIQW 667
A V AY + L L+ ++N++ + + I + L++ Q
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG---VPSPMLSISN---LTQEQV 349
Query: 668 KCMIIDEGHRMKNHHCKLTQTLN-TFYNSSHRVLLTGTPLQNKLPELWALLNFLLPSIFK 726
+ + N H + + + N + ++++G P L+ LN L K
Sbjct: 350 QDYV-----NKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ-----SLYG-LNLTLRKA-K 397
Query: 727 SCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPF---LLRRLKKEVESQLPEK 783
+ S +Q PF E + R V PF LL + L +
Sbjct: 398 APSGLDQS-RIPF----------SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 784 VEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGARALKNTIVQ--LRKLCNHP 841
+ + +Q +Y DGS+ R L +I + + + P
Sbjct: 447 ---NVSFNAKDIQIPVY---DTF-----DGSD--------LRVLSGSISERIVDCIIRLP 487
Query: 842 FMFQNIEEKYCQHIGQNNTVVSGPDIYRTSGKFELLDRIL 881
++ + HI + GP SG L R
Sbjct: 488 VKWETTTQFKATHI-----LDFGPG--GASGLGVLTHRNK 520
Score = 45.8 bits (108), Expect = 1e-04
Identities = 48/249 (19%), Positives = 78/249 (31%), Gaps = 85/249 (34%)
Query: 117 GEGGA------RALKNTIVQ--LRKLCNH-PFMFQNIEEKYCQHI------GQNNTVVSG 161
EG L VQ + K +H P K + G N VVSG
Sbjct: 331 NEGVPSPMLSISNLTQEQVQDYVNKTNSHLP------AGK---QVEISLVNGAKNLVVSG 381
Query: 162 P--DIYRTSGKFELLDRILPKFK----ETKHRVLMFCQMTQLMTILEDYFIWRDF----- 210
P +Y L+ L K K + R+ F + +L F R F
Sbjct: 382 PPQSLYG-------LNLTLRKAKAPSGLDQSRIP-FSER-KLK------FSNR-FLPVAS 425
Query: 211 ----SYLRLDGTTK-SEDRGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVI---I 262
L + ++D + FN + + ++ T G +L+ I I
Sbjct: 426 PFHSHLLV-PASDLINKDLVKNNVSFNAKDIQIPVY--DTFDGS---DLRVLSGSISERI 479
Query: 263 FDS------DWNPHQDLQAQDRAHRI---GQKNEVRVLRLITVNSVEE----RILAAARY 309
D W + Q +A I G + L + ++ R++ A
Sbjct: 480 VDCIIRLPVKW----ETTTQFKATHILDFGPGGASGLGVL--THRNKDGTGVRVIVAGTL 533
Query: 310 KLNMDEKEY 318
+N D+ +Y
Sbjct: 534 DINPDD-DY 541
Score = 43.1 bits (101), Expect = 8e-04
Identities = 85/519 (16%), Positives = 146/519 (28%), Gaps = 176/519 (33%)
Query: 751 EETILIIRRLHKVLRPFLLRRLKKEVESQLPEKVEYIIKCD-MSGLQKLLYQHLHNRGIL 809
E +L+ F+ +L+++ LPE E D + +L+ + L
Sbjct: 17 EHVLLVPTASF-----FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG----Y 67
Query: 810 LTDGSEKGKTGEGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIGQNN--TVVS---G 864
++ E K G+ + ++ L E Y + N+ + +
Sbjct: 68 VSSLVEPSKVGQ------FDQVLNL--------CLTEFENCY---LEGNDIHALAAKLLQ 110
Query: 865 PDIYRTSGKFELLD-----RIL---PKFKETKHRVLMFCQM--TQLMTIL------EDYF 908
+ EL+ RI+ P K++ + QL+ I +DYF
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 909 -----IWRDFSYLRLDGTTKSEDR-GELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADT 962
+++ + L D S + EL+R + E + GLN+
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF----------TQGLNILEW-- 218
Query: 963 VIIFDSDWNPHQD--------------LQAQDRAH-----RIGQKN--EVRVLRLITVNS 1001
+ + P +D +Q AH ++ E+R L
Sbjct: 219 --LENPSNTPDKDYLLSIPISCPLIGVIQL---AHYVVTAKLLGFTPGELRS-YLKGATG 272
Query: 1002 VEERILAAARYKLNMDEKVIQAGM----FDQKST---------GSERHE-----FLQTIL 1043
+ ++ A I F G +E L +
Sbjct: 273 HSQGLVTAV---------AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 1044 HQDDEEEEENEVP---------DDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEI 1094
+D E E VP E V + +T L A ++ VEI
Sbjct: 324 LEDSLENNEG-VPSPMLSISNLTQEQVQDYVNKTNSHL------PAGKQ--------VEI 368
Query: 1095 KEL---PDWMVKDDDEVE---NSMYEEEREREKEEALMGRG-SR----QRKQVDYTDSL- 1142
L +V V S+Y K +A G SR +RK L
Sbjct: 369 S-LVNGAKNLV-----VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP 422
Query: 1143 ------TDQEWLKAIEDDGADDYEEEEEEVK------PV 1169
+ L D D + PV
Sbjct: 423 VASPFHSH--LLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Score = 41.2 bits (96), Expect = 0.003
Identities = 33/216 (15%), Positives = 67/216 (31%), Gaps = 56/216 (25%)
Query: 27 TFEQWFNAPFATTGEKV--ELNEEETILIIRRLHKVLR------PFLL-------RRLKK 71
FE + T EK+ E+NE T R +L P L LK
Sbjct: 1692 IFETIVDGKLKT--EKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 72 EVESQLPEKV------EY--------IIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTG 117
+ EY ++ + L ++++ RG+ + + + G
Sbjct: 1750 KGLIPADATFAGHSLGEYAALASLADVM--SIESLVEVVFY----RGMTMQVAVPRDELG 1803
Query: 118 EGGARALKNTIVQLRKLCNHPFMFQNIEEKYCQHIGQ-----N-NT----VVSGPDIYRT 167
+ ++ + Q + E+ + G N N V+
Sbjct: 1804 RSNYGMIAINPGRVAASFSQE-ALQYVVERVGKRTGWLVEIVNYNVENQQYVA------- 1855
Query: 168 SGKFELLDRILPKFKETKHRVLMFCQMTQLMTILED 203
+G LD + K + + ++ + ++ LE+
Sbjct: 1856 AGDLRALDTVTNVLNFIKLQKIDIIELQKSLS-LEE 1890
Score = 39.6 bits (92), Expect = 0.009
Identities = 45/288 (15%), Positives = 81/288 (28%), Gaps = 83/288 (28%)
Query: 354 ERMRRLMAEDEEGYRKL-IDQKKDKRLAFLLS-QTDEYI-SNLTQMVKEHKEEQQKKMRE 410
R +D G+ L I L + + I N + M+ E + + K +
Sbjct: 1647 NRADNHF-KDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEK 1705
Query: 411 EKKKKKKSIKQKILDGNMDKLDLDESSQ----------LEDLRITVKETNSDNK------ 454
K+ + L + +Q EDL+ +
Sbjct: 1706 IFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK---SKGLIPADATFAGH 1762
Query: 455 -LRGE-DAPPAKQIKEWLASHPGWEVVMEDSEDE-------GSEDEEMKEKKEEPSK--- 502
L GE A LAS VM E G + + E
Sbjct: 1763 SL-GEYAA---------LASLAD---VM-SIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 503 --AVGEKKTEDDEYKDAGEEATYYSIAHTYHEKVTEQASIMVNGKLKEYQIKGLEWMVSL 560
A+ + +EA + V E+ K W+V +
Sbjct: 1809 MIAINPGRVA----ASFSQEAL---------QYVVERVG------------KRTGWLVEI 1843
Query: 561 YNNNLNG---ILADEMGLGKTVQTIA-LLTYLMEKKKNLGPYLVIVPL 604
N N+ + A G + + T+ +L ++ +K ++ + L
Sbjct: 1844 VNYNVENQQYVAA---GDLRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
>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 = 52.4 bits (126), Expect = 2e-07
Identities = 36/168 (21%), Positives = 58/168 (34%), Gaps = 35/168 (20%)
Query: 543 NGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLVIV 602
L++YQ K LE + + G + G GKT +A + L L ++V
Sbjct: 91 EISLRDYQEKALERWLV----DKRGCIVLPTGSGKTHVAMAAINEL--STPTL----IVV 140
Query: 603 PLSTLSN-WVLEFEKWAPSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSV 661
P L+ W + V + GR+K K + ++TY+ +
Sbjct: 141 PTLALAEQWKERLGIF-GEEYVGEF----------SGRIKELK-PLTVSTYDSAYVNAEK 188
Query: 662 LSKIQWKCMIIDEGHRMKNHHCK---LTQTLNTFYNSSHRVL-LTGTP 705
L ++ +I DE HH Q + L LT T
Sbjct: 189 LGN-RFMLLIFDEV-----HHLPAESYVQIAQMS--IAPFRLGLTATF 228
>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 = 54.2 bits (129), Expect = 2e-07
Identities = 89/622 (14%), Positives = 190/622 (30%), Gaps = 78/622 (12%)
Query: 476 WEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTEDDEYKDAGEEATYYSIAHTYHEKVT 535
W++ ++++D SE + E E S E+ DD + + I T
Sbjct: 188 WDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSEN-LGSAAEGIGKPPPVYET 246
Query: 536 EQASIMVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNL 595
+ K + YQI+ + ++ N ++ G GKT +I + + +
Sbjct: 247 K--------KARSYQIELAQP--AINGKNA--LICAPTGSGKTFVSILICEHHFQNMPAG 294
Query: 596 GPY--LVIVPLSTLSN-WVLEFEKWA--PSANVVAYKGSPLARRALQGRMKNSKFNVLLT 650
+ + + F+ +V G + +++ +++S ++++
Sbjct: 295 RKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDS--DIIVV 352
Query: 651 TYEFI---IKDKSVLSKIQWKCMIIDEGHRMKNHHCK-------LTQTLNTFYNSSHRVL 700
T + + +D ++ S + MI DE H +H L Q N+ +
Sbjct: 353 TPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILG 412
Query: 701 LTGTPLQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRL 760
LT + + + + + E + L+ RR+
Sbjct: 413 LTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRI 472
Query: 761 HKVLRPFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTG 820
H ++ L E E+ + S + H +
Sbjct: 473 HNPFAA-IISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED 531
Query: 821 EGGARALKNTIVQLRKLCNHPFMFQNIEE--------KYCQHIGQN-------------- 858
+ + + + I E Y N
Sbjct: 532 KEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLT 591
Query: 859 --------NTVVSGPDIYRTSGKFELLDRILPKF--KETKHRVLMFCQMTQLMTILEDYF 908
+ D + K E L IL + R L+F + L++ L+
Sbjct: 592 AKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCM 651
Query: 909 IW-RDFSYLR---LDGTTKSEDRGELLRKFNEP------ESKYFIFLLSTRAGGLGLNLQ 958
+Y++ L G + + + + SK L++T G+++
Sbjct: 652 EENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIV 711
Query: 959 AADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDE 1018
+ V++++ N + +Q + R G K L+T + RYK M
Sbjct: 712 QCNLVVLYEYSGNVTKMIQVRGRGRAAGSK-----CILVTSKTEVVENEKCNRYKEEMMN 766
Query: 1019 KVIQAGMFDQKSTGSERHEFLQ 1040
K ++ + T +++ LQ
Sbjct: 767 KAVEKIQKWDEETFAKKIHNLQ 788
Score = 40.0 bits (92), Expect = 0.006
Identities = 35/199 (17%), Positives = 74/199 (37%), Gaps = 32/199 (16%)
Query: 172 ELLDRILPKFKETK-HRVLMFCQMTQLMTILEDYFIW-RDFSYLR---LDGTTKSEDRGE 226
EL+ + ++ R L+F + L++ L+ +Y++ L G + +
Sbjct: 617 ELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 676
Query: 227 LLRKFNEP------ESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAH 280
+ + SK L++T G+++ + V++++ N + +Q + R
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 736
Query: 281 RIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIIN-YHIN 339
G K L+T + + E + N + + +NKA+ +
Sbjct: 737 AAGSK-----CILVTSKT---------------EVVENEKCNRYKEEMMNKAVEKIQKWD 776
Query: 340 AEKEQKKEQERIEKERMRR 358
E KK KER+ R
Sbjct: 777 EETFAKKIHNLQMKERVLR 795
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 50.5 bits (120), Expect = 5e-07
Identities = 13/85 (15%), Positives = 36/85 (42%), Gaps = 9/85 (10%)
Query: 1188 APEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVV 1247
A +E + ++K R ++ ++ + D + + + AK K E+ ++
Sbjct: 77 ADRLTQEPESIRKWREEQRKRLQELDAASK------VMEQEWREKAK-KDLEEWNQRQ-- 127
Query: 1248 SKRKKKVVEEEEEVEEAEGEEEEED 1272
S++ +K ++A ++ + D
Sbjct: 128 SEQVEKNKINNRIADKAFYQQPDAD 152
Score = 42.8 bits (100), Expect = 2e-04
Identities = 15/90 (16%), Positives = 28/90 (31%), Gaps = 12/90 (13%)
Query: 338 INAEKEQKKEQERIEK---ERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLT 394
I +E E I K E+ +RL D + ++ + + +
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWRE---------KAKKDLEEWN 124
Query: 395 QMVKEHKEEQQKKMREEKKKKKKSIKQKIL 424
Q E E+ + R K + I+
Sbjct: 125 QRQSEQVEKNKINNRIADKAFYQQPDADII 154
Score = 38.6 bits (89), Expect = 0.006
Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 9/78 (11%)
Query: 1045 QDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEIKELPDWMVKD 1104
Q D +E E++ + L Q++DA + E + R K+L +W +
Sbjct: 76 QADRLTQE-----PESIRKWREEQRKRL---QELDAASKVMEQEWREKAKKDLEEWNQRQ 127
Query: 1105 DDEVENSMYEEEREREKE 1122
++VE + R +K
Sbjct: 128 SEQVEKNK-INNRIADKA 144
Score = 35.1 bits (80), Expect = 0.077
Identities = 12/88 (13%), Positives = 34/88 (38%), Gaps = 12/88 (13%)
Query: 1156 ADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDED 1215
AD +E E ++ K ++ + D + ++ R+K + E+ +
Sbjct: 77 ADRLTQEPESIR----------KWREEQRKRLQELDAASKV--MEQEWREKAKKDLEEWN 124
Query: 1216 EEDESPKKKKRKSTKTPAKDKHKEDDEE 1243
+ +K + + + K +++ D +
Sbjct: 125 QRQSEQVEKNKINNRIADKAFYQQPDAD 152
>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 = 52.9 bits (127), Expect = 5e-07
Identities = 48/273 (17%), Positives = 86/273 (31%), Gaps = 30/273 (10%)
Query: 543 NGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLVIV 602
L++YQ K LE + + G + G GKT +A + L L++V
Sbjct: 91 EISLRDYQEKALERWL----VDKRGCIVLPTGSGKTHVAMAAINEL---STPT---LIVV 140
Query: 603 PLSTLSN-WVLEFEKWAPSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSV 661
P L+ W + V + G + ++TY+ +
Sbjct: 141 PTLALAEQWKERLGIF-GEEYVGEFSGR-----------IKELKPLTVSTYDSAYVNAEK 188
Query: 662 LSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSHRVLLTGTPLQNKLPELWALLNFLL 721
L ++ +I DE H + Q + R+ LT T + L +
Sbjct: 189 LGN-RFMLLIFDEVHHLPAE--SYVQIAQMS-IAPFRLGLTATFEREDGRH-EILKEVVG 243
Query: 722 PSIFK-SCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKEVESQL 780
+F+ + A + V L E+E + + KV + FL R ++
Sbjct: 244 GKVFELFPDSLAGKHLAKYTIKRIFVPLAEDERVE-YEKREKVYKQFLRARGITLRRAED 302
Query: 781 PEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDG 813
K+ D + L R +
Sbjct: 303 FNKIVMASGYDERAYEALRAWEEARRIAFNSKN 335
Score = 46.7 bits (111), Expect = 4e-05
Identities = 28/140 (20%), Positives = 60/140 (42%), Gaps = 11/140 (7%)
Query: 164 IYRTSGKFELLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSED 223
+ + K L IL + + K ++++F + +L+ Y I + F + T E+
Sbjct: 330 AFNSKNKIRKLREILERHR--KDKIIIFTRHNELV-----YRISKVFLIPAITHRTSREE 382
Query: 224 RGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIG 283
R E+L F + ++S++ G+++ A+ +I + + +Q R R
Sbjct: 383 REEILEGFRTGRFRA---IVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPS 439
Query: 284 Q-KNEVRVLRLITVNSVEER 302
+ K E + LI+ + E
Sbjct: 440 KGKKEAVLYELISRGTGEVN 459
Score = 46.7 bits (111), Expect = 4e-05
Identities = 28/140 (20%), Positives = 60/140 (42%), Gaps = 11/140 (7%)
Query: 867 IYRTSGKFELLDRILPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSED 926
+ + K L IL + + K ++++F + +L+ Y I + F + T E+
Sbjct: 330 AFNSKNKIRKLREILERHR--KDKIIIFTRHNELV-----YRISKVFLIPAITHRTSREE 382
Query: 927 RGELLRKFNEPESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIG 986
R E+L F + ++S++ G+++ A+ +I + + +Q R R
Sbjct: 383 REEILEGFRTGRFRA---IVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPS 439
Query: 987 Q-KNEVRVLRLITVNSVEER 1005
+ K E + LI+ + E
Sbjct: 440 KGKKEAVLYELISRGTGEVN 459
>2cka_A Chromodomain-helicase-DNA-binding protein 8; BRK domain,
transcription elongation, chromatin remodeling,
protein-protein interaction, transcription; NMR {Homo
sapiens} SCOP: d.76.2.1
Length = 95
Score = 48.3 bits (114), Expect = 5e-07
Identities = 24/98 (24%), Positives = 37/98 (37%), Gaps = 10/98 (10%)
Query: 399 EHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVKETNSDNKLRGE 458
H R KK + + + + N +DL+ RI V L GE
Sbjct: 8 HHHSSHMLVPRGSLKKLVELEVECMEEPNHLDVDLET-------RIPVINKVDGTLLVGE 60
Query: 459 DAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEK 496
DAP +++ WL HP + V D ++ K+K
Sbjct: 61 DAPRRAELEMWLQGHPEFAV---DPRFLAYMEDRRKQK 95
>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 = 50.2 bits (120), Expect = 5e-06
Identities = 47/310 (15%), Positives = 125/310 (40%), Gaps = 14/310 (4%)
Query: 974 QDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGS 1033
+ + Q +A ++ E + +L ++ + L A +L + + ++ + +K
Sbjct: 868 RTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAET-ELYAEAEEMRVRLAAKKQELE 926
Query: 1034 ERHEFLQTILHQDDEEEEENEVPDD-----ETVNQLIARTEDELTLFQKMDAERRKGETK 1088
E ++ + ++EEE ++ + + + L + E+E QK+ E+ + K
Sbjct: 927 EILHEMEARI--EEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGK 984
Query: 1089 PRLVEIKELPDWMVKDDDEVENSMYEEER-EREKEEALMGRGSRQRKQVDYTDSLTDQEW 1147
IK++ D ++ +D+ E + E + + K + T E
Sbjct: 985 -----IKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHES 1039
Query: 1148 LKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKV 1207
+ + + E+ +E++ + +K + E + E + + K+ +
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQA 1099
Query: 1208 QISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGE 1267
++ +++ ++ KK + ++ D ++ + EK +K +K+ + EE+E + E
Sbjct: 1100 ALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTE 1159
Query: 1268 EEEEDDKASK 1277
E+ D +
Sbjct: 1160 LEDTLDTTAT 1169
Score = 45.2 bits (107), Expect = 2e-04
Identities = 49/311 (15%), Positives = 112/311 (36%), Gaps = 21/311 (6%)
Query: 976 LQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYK---LNMDEKVIQAGMFDQKSTG 1032
L R Q + + R E L K L ++ ++Q + +
Sbjct: 849 LLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELY 908
Query: 1033 SERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLV 1092
+E E + + E EE ++++ AR E+E Q++ AE++K +
Sbjct: 909 AEAEEMRVRLAAKKQELEEI--------LHEMEARIEEEEERSQQLQAEKKKMQQ----- 955
Query: 1093 EIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIE 1152
++ +L + +++++ + E+ + + M + +++ L+
Sbjct: 956 QMLDL-EEQLEEEEAARQKLQLEKVTADGKIKKM-EDDILIMEDQNNKLTKERKLLEERV 1013
Query: 1153 DDGADDYEEEEEEVKPVTKKRGSGKKGKKSY---VEETAPEDEEEEKPVKKRRRRKKVQI 1209
D + EEEE+ K +TK + + +++ +E EK +K
Sbjct: 1014 SDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLH 1073
Query: 1210 SDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEE 1269
E + + K + + + ++E + KK+ E E + + + + E
Sbjct: 1074 EQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLE 1133
Query: 1270 EEDDKASKPRK 1280
E +K K
Sbjct: 1134 SEKAARNKAEK 1144
Score = 43.3 bits (102), Expect = 6e-04
Identities = 45/277 (16%), Positives = 106/277 (38%), Gaps = 39/277 (14%)
Query: 271 QDLQAQDRAHRIGQKN-EVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKL 329
LQ + +A E +RL E IL ++ +E+ + + +K+
Sbjct: 895 NLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEK-KKM 953
Query: 330 NKAIINY--------HINAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKD----- 376
+ +++ + + +K + ++M + E+ KL ++K
Sbjct: 954 QQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERV 1013
Query: 377 KRLAFLLSQTDEYISNLTQMVKEHK----------EEQQKKMREEKKKKKKSIKQ-KILD 425
L L++ +E NLT++ +H+ ++++K +E +K K+K + L
Sbjct: 1014 SDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLH 1073
Query: 426 GNMDKLDLDESSQLEDLRITVKETNSDN-KLRGEDAPPAKQIKEWLASHPGWEVVMEDSE 484
+ +L + L +E + +L E + +K+ + + E
Sbjct: 1074 EQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKK-----------IRELE 1122
Query: 485 DEGSE-DEEMKEKKEEPSKAVGEKKTEDDEYKDAGEE 520
S+ E+++ +K +KA +K+ +E + E
Sbjct: 1123 SHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTE 1159
Score = 38.7 bits (90), Expect = 0.016
Identities = 26/162 (16%), Positives = 55/162 (33%), Gaps = 15/162 (9%)
Query: 338 INAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMV 397
+ + E + + ++ + E E+ RKL + D E I+ L +
Sbjct: 1033 LKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSD---------LHEQIAELQAQI 1083
Query: 398 KEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVKETNSDNKLRG 457
E K + KK E + + + N K + S + DL+ +
Sbjct: 1084 AELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQ------EDLESEKA 1137
Query: 458 EDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEE 499
KQ ++ + +ED+ D + +E++ +
Sbjct: 1138 ARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYK 1179
Score = 37.5 bits (87), Expect = 0.031
Identities = 44/299 (14%), Positives = 118/299 (39%), Gaps = 10/299 (3%)
Query: 974 QDLQAQDRAHRIGQKN-EVRVLRLITVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTG 1032
LQ + +A E +RL E IL ++ +E+ Q + +K
Sbjct: 895 NLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQ-LQAEKKKM 953
Query: 1033 SERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLV 1092
++ L+ L +++E + + T + I + ED++ + + + + K E K
Sbjct: 954 QQQMLDLEEQL-EEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTK-ERKLLEE 1011
Query: 1093 EIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIE 1152
+ +L + +++++ +N + + L R ++ K + + + +E
Sbjct: 1012 RVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKI-----KRKLE 1066
Query: 1153 DDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDE 1212
+ +D +E+ E + + + K ++ A ++E + ++ ++++
Sbjct: 1067 GESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHIS 1126
Query: 1213 DEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEE 1271
D E+ ES +K R + +D +E + K + ++E +++++
Sbjct: 1127 DLQEDLES-EKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDDK 1184
Score = 34.0 bits (78), Expect = 0.35
Identities = 38/251 (15%), Positives = 95/251 (37%), Gaps = 23/251 (9%)
Query: 273 LQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKA 332
+Q R+ + + + + + + + +E + + + + K
Sbjct: 824 IQYNVRSF-MNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKE 882
Query: 333 IINYHINAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISN 392
+ H +E+ QE+++ E L AE EE +L +K++
Sbjct: 883 LEQKHTQLCEEKNLLQEKLQAET--ELYAEAEEMRVRLAAKKQELE------------EI 928
Query: 393 LTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLD-ESSQLEDLRITVKETNS 451
L +M +EE+++ + + +KKK + L+ +++ + + QLE + K
Sbjct: 929 LHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKM 988
Query: 452 DNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTED 511
++ + + K KE +++ E D + E +EK + +K + ++
Sbjct: 989 EDDILIMEDQNNKLTKE-------RKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMI 1041
Query: 512 DEYKDAGEEAT 522
E + ++
Sbjct: 1042 SELEVRLKKEE 1052
Score = 32.1 bits (73), Expect = 1.7
Identities = 34/163 (20%), Positives = 69/163 (42%), Gaps = 25/163 (15%)
Query: 314 DEKEYHRNNTARTQKLNKAIINYHINAEKEQKKEQE--------RIEKERMRRLMAEDEE 365
+E+E +N T K I + +KE+K QE E + +AE +
Sbjct: 1022 EEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQA 1081
Query: 366 GYRKLIDQ--KKDKRLAFLLSQTDEYISNLTQMVKEHKE--------------EQQKKMR 409
+L Q KK++ L L++ ++ S +K+ +E E+ + +
Sbjct: 1082 QIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNK 1141
Query: 410 EEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVKETNSD 452
EK+K+ S + + L ++ LD ++ ++LR + + + D
Sbjct: 1142 AEKQKRDLSEELEALKTELEDT-LDTTATQQELRGSDYKDDDD 1183
>3gdb_A Endo-D, putative uncharacterized protein SPR0440; alpha-beta-barrels,
cell WALL, peptidoglycan-anchor, secreted, hydrolase;
HET: PGE; 1.87A {Streptococcus pneumoniae} PDB: 2xqx_A
Length = 937
Score = 48.8 bits (115), Expect = 1e-05
Identities = 21/132 (15%), Positives = 42/132 (31%), Gaps = 5/132 (3%)
Query: 1152 EDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISD 1211
+ Y + EE P + +S T D++ E + + +K +
Sbjct: 11 HHQLENLYFQGEETAVPENSGANTELVSGES-EHSTNEADKQNEGEHARENKLEKAEGVA 69
Query: 1212 EDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHV----VSKRKKKVVEEEEEVEEAEGE 1267
+ + + T A E+ + V ++ K K +E E EA +
Sbjct: 70 TASETASPASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEATNQ 129
Query: 1268 EEEEDDKASKPR 1279
+E A +
Sbjct: 130 GDESKPAAEANK 141
Score = 30.3 bits (67), Expect = 5.5
Identities = 30/204 (14%), Positives = 59/204 (28%), Gaps = 31/204 (15%)
Query: 1043 LHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEIKELPDWMV 1102
H + EN E A E+ + E GE++ E + +
Sbjct: 6 HHHGHHHQLENLYFQGEET----AVPENS-----GANTELVSGESEHSTNEADKQNEGEH 56
Query: 1103 KDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEE 1162
++++E + A E + A + E
Sbjct: 57 ARENKLEKAEGVATASETASPA-------------------SNEAATTETAEAASAAKPE 97
Query: 1163 EEEVKPVTKKRGSGKKGKKSYVEETAPEDE---EEEKPVKKRRRRKKVQISDEDEDEEDE 1219
E+ + V + + K K E PE +E KP + + +K D ++ E
Sbjct: 98 EKASEVVAETPSAEAKPKSDKETEAKPEATNQGDESKPAAEANKTEKEVQPDVPKNTEKT 157
Query: 1220 SPKKKKRKSTKTPAKDKHKEDDEE 1243
K+ + ++ E+
Sbjct: 158 LKPKEIKFNSWEELLKWEPGARED 181
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 48.6 bits (116), Expect = 1e-05
Identities = 40/234 (17%), Positives = 82/234 (35%), Gaps = 9/234 (3%)
Query: 289 RVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINYHINAEKEQKKEQ 348
+ R+ V + + A + RN + +K+II +K +
Sbjct: 824 KFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSII-----IQKHVRGWL 878
Query: 349 ERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKEEQQKKM 408
R+ R + + + YR+++ +++ K+L + Y + + + Q+K
Sbjct: 879 ARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKID 938
Query: 409 REEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVKET-NSDNKLRGEDAPPAKQIK 467
+ K+ K K L+ S +E LR++ +E N+ N++ AK K
Sbjct: 939 EQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRK 998
Query: 468 EWLASHPGWEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTEDDEYKDAGEEA 521
E + E E ++ E + KTE +E +
Sbjct: 999 ELHQTQ---TEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQ 1049
Score = 42.4 bits (100), Expect = 0.001
Identities = 25/203 (12%), Positives = 63/203 (31%), Gaps = 14/203 (6%)
Query: 1081 ERRKGETKPRLVEIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTD 1140
R + + + + E R E+ + L + K +
Sbjct: 878 LARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIG--LENKIMQLQR 935
Query: 1141 SLTDQE-----------WLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAP 1189
+ +Q L+ + + E ++ ++ + S EE A
Sbjct: 936 KIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAK 995
Query: 1190 EDEE-EEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVS 1248
+E + +K+ + + ++ K++ + + D+ K +
Sbjct: 996 LRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITE 1055
Query: 1249 KRKKKVVEEEEEVEEAEGEEEEE 1271
+KK+VEE +++E +E
Sbjct: 1056 TMEKKLVEETKQLELDLNDERLR 1078
Score = 39.7 bits (93), Expect = 0.008
Identities = 29/212 (13%), Positives = 70/212 (33%), Gaps = 6/212 (2%)
Query: 1067 RTEDELTLFQKMD----AERRKGETKPRLVEIKELPDWMVKDDDEVENSMYEEEREREKE 1122
R + QK +R + + ++ L + + M E + +
Sbjct: 814 RRTRAAIIIQKFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQM--MLREHKSIIIQ 871
Query: 1123 EALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKS 1182
+ + G +R + Q + + + E KK G + K
Sbjct: 872 KHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIM 931
Query: 1183 YVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDE 1242
++ E +E K + ++ ++ S E E + + + + A ++ E
Sbjct: 932 QLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQE 991
Query: 1243 EKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDK 1274
E + K + E++ +EE + + E ++
Sbjct: 992 EIAKLRKELHQTQTEKKTIEEWADKYKHETEQ 1023
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA
processing, artemis, V(D)J recombination, double-strand
break repair; 2.50A {Saccharomyces cerevisiae} SCOP:
d.157.1.10
Length = 717
Score = 48.3 bits (114), Expect = 2e-05
Identities = 25/210 (11%), Positives = 55/210 (26%), Gaps = 6/210 (2%)
Query: 1070 DELTLFQKMDAERRKGETKPRLV---EIKELPDWMVKDDDEVENSMYEEEREREKEEALM 1126
+E F+ E+++ K L+ E K+L + DD + + +
Sbjct: 420 EETEAFKVQLKEKKRDRNKKILLVKRESKKLANGNAIIDDTNGERAMRNQDILVENVNGV 479
Query: 1127 GRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKS---Y 1183
+ D + + L + D ++ ++ PV K +
Sbjct: 480 PPIDHIMGGDEDDDEEEENDNLLNLLKDNSEKSAAKKNTEVPVDIIIQPSAASKHKMFPF 539
Query: 1184 VEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEE 1243
+D+ +++ + K +ED
Sbjct: 540 NPAKIKKDDYGTVVDFTMFLPDDSDNVNQNSRKRPLKDGAKTTSPVNEEDNKNEEEDGYN 599
Query: 1244 KHVVSKRKKKVVEEEEEVEEAEGEEEEEDD 1273
++ K GE E D+
Sbjct: 600 MSDPISKRSKHRASRYSGFSGTGEAENFDN 629
Score = 37.1 bits (85), Expect = 0.049
Identities = 20/240 (8%), Positives = 62/240 (25%), Gaps = 17/240 (7%)
Query: 1032 GSERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRL 1091
E F + + + ++ + E+ D + + +
Sbjct: 419 KEETEAFKVQLKEKKRDRNKKILLVKRESKKLANGNAII--------DDTNGERAMRNQD 470
Query: 1092 VEIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAI 1151
+ ++ + D + +EE E + L+ S + T+ D +
Sbjct: 471 ILVENVNGVPPIDHIMGGDEDDDEEEENDNLLNLLKDNSEKSAAKKNTEVPVDIIIQPSA 530
Query: 1152 EDDGA--------DDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRR 1203
++ V ++ + + + PV +
Sbjct: 531 ASKHKMFPFNPAKIKKDDYGTVVDFTMFLPDDSDNVNQNSRKRPLKDGAKTTSPVNEEDN 590
Query: 1204 RKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRK-KKVVEEEEEVE 1262
+ + + D + K + + + + + D ++ + K V+
Sbjct: 591 KNEEEDGYNMSDPISKRSKHRASRYSGFSGTGEAENFDNLDYLKIDKTLSKRTISTVNVQ 650
Score = 29.8 bits (66), Expect = 7.7
Identities = 23/204 (11%), Positives = 58/204 (28%), Gaps = 12/204 (5%)
Query: 1018 EKVIQAGMFDQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQK 1077
+K+ + G ++ + + + + + ++ L L +
Sbjct: 448 KKLANGNAIIDDTNGERAMRNQDILVENVNGVPPIDHIMGGDEDDDEEEENDNLLNLLKD 507
Query: 1078 MDAERRKGETKPRLVEIKELP------------DWMVKDDDEVENSMYEEEREREKEEAL 1125
+ + V+I P +K DD + + +
Sbjct: 508 NSEKSAAKKNTEVPVDIIIQPSAASKHKMFPFNPAKIKKDDYGTVVDFTMFLPDDSDNVN 567
Query: 1126 MGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVE 1185
R K T S ++E K E+DG + + + K + ++
Sbjct: 568 QNSRKRPLKDGAKTTSPVNEEDNKNEEEDGYNMSDPISKRSKHRASRYSGFSGTGEAENF 627
Query: 1186 ETAPEDEEEEKPVKKRRRRKKVQI 1209
+ + ++ K+ VQ+
Sbjct: 628 DNLDYLKIDKTLSKRTISTVNVQL 651
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 47.2 bits (111), Expect = 3e-05
Identities = 72/561 (12%), Positives = 166/561 (29%), Gaps = 68/561 (12%)
Query: 545 KLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPY--LVIV 602
K + YQ++ + N I+ G GKT ++ + + ++K +
Sbjct: 4 KPRNYQLELALP--AKKGKNT--IICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFA 59
Query: 603 PLSTLSN-WVLEFEKWA--PSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIKD- 658
+ F ++ N+ + G+ ++Q ++++ +++ T + ++ +
Sbjct: 60 NQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDND--IIILTPQILVNNL 117
Query: 659 --KSVLSKIQWKCMIIDEGHRMKNHHCK-------LTQTLNTFYNSSHRVL-LTGTPLQN 708
++ S + MI DE H +H L L + +V+ LT +
Sbjct: 118 NNGAIPSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVG 177
Query: 709 K-------LPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLH 761
+ + L L S+ + + T + +
Sbjct: 178 DAKTAEEAMQHICKLCAALDASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCII 237
Query: 762 KVLRP--------------FLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHN-R 806
L L + +E +Q E+ + S Q +
Sbjct: 238 SQLMKETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVC 297
Query: 807 GILLTDGSEKGKTGEGGARALKNTIVQLRKLCNHPF------MFQNIEEKYCQHIGQNNT 860
L S K + + + F F E + + +
Sbjct: 298 KALFLYTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEEKLE 357
Query: 861 VVSGP--DIYRTSGKFELLDRILPKFKETKHRVLMFCQMTQ------LMTILEDYFIWRD 912
+ D + K L +L + K + L +E+
Sbjct: 358 ELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSF 417
Query: 913 FSYLRLDGTTKSEDRGELLRKFNEPESKYFIF------LLSTRAGGLGLNLQAADTVIIF 966
L G ++ + + + F L++T G+++ + VI++
Sbjct: 418 LKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILY 477
Query: 967 DSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQAGMF 1026
+ N + +Q + R + + + L + V E+ A + M+E +++ +
Sbjct: 478 EYVGNVIKMIQTRGRG----RARDSKCFLLTSSADVIEKEKANMIKEKIMNESILRLQTW 533
Query: 1027 DQKSTGSERHEFLQTILHQDD 1047
D+ G H D
Sbjct: 534 DEMKFGKTVHRIQVNEKLLRD 554
Score = 36.8 bits (84), Expect = 0.050
Identities = 20/118 (16%), Positives = 47/118 (39%), Gaps = 21/118 (17%)
Query: 242 LLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEE 301
L++T G+++ + VI+++ N + +Q + R + + + L +
Sbjct: 456 LIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRG----RARDSKCFLLTSSA---- 507
Query: 302 RILAAARYKLNMDEKEYHRNNTARTQKLNKAIINYHINAEKEQKKEQERIE-KERMRR 358
D E + N + + +N++I+ E + K RI+ E++ R
Sbjct: 508 ------------DVIEKEKANMIKEKIMNESILRLQTWDEMKFGKTVHRIQVNEKLLR 553
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 45.5 bits (108), Expect = 1e-04
Identities = 20/165 (12%), Positives = 52/165 (31%), Gaps = 6/165 (3%)
Query: 1104 DDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEEE 1163
D++ E + EE+ E ++ ++++E + D +
Sbjct: 18 DEEPGEEELTEEQEEE------FRSAVATVRETLLGVPISEKEIADTVWYYYFDVEKSVN 71
Query: 1164 EEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKK 1223
++ + K G+ +K +E +E K + +++ P
Sbjct: 72 YLLQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDEPAF 131
Query: 1224 KKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEE 1268
+ K + E+K + + +V E E++ +
Sbjct: 132 QTNGEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFEQSNPKP 176
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 44.3 bits (105), Expect = 3e-04
Identities = 21/231 (9%), Positives = 64/231 (27%), Gaps = 22/231 (9%)
Query: 271 QDLQAQDRAH--RIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQK 328
+ +Q+ AH + + + + ++ + R
Sbjct: 799 ESVQSFMNAHKEYKKTEKPPKGQEVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDS 858
Query: 329 LNKAIINYHINAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDE 388
A+ + + E +R +K L+ + +KL + K + ++T +
Sbjct: 859 TWSALEKAEQEHAEALRIELKRQKKIA--VLLQKYNRILKKLENWATTKSVYLGSNETGD 916
Query: 389 YISNLTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVKE 448
I+ + +K + + E + + + + + + E
Sbjct: 917 SITAVQAKLKNLEAFDGECQSLEGQSNSD----------LLSILAQLTELNYNGVPELTE 966
Query: 449 TNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEE 499
A+Q +S ++ + + + E++
Sbjct: 967 RKDTFF--------AQQWTGVKSSAETYKNTLLAELERLQKIEDLHHHHHH 1009
Score = 37.0 bits (86), Expect = 0.053
Identities = 21/190 (11%), Positives = 57/190 (30%), Gaps = 22/190 (11%)
Query: 1074 LFQKMDAERRKGETKPRLVEIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQR 1133
+++A +TK RL++ + +E++++ E+ ++ + +
Sbjct: 822 EVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALRI--ELK 879
Query: 1134 KQVDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEE 1193
+Q L + ++ A + T + + K +E E +
Sbjct: 880 RQKKIAVLLQKYNRILKKLENWATTKSVYLGSNE--TGDSITAVQAKLKNLEAFDGECQS 937
Query: 1194 EEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKT------------------PAKD 1235
E Q+++ + + E ++K + +
Sbjct: 938 LEGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELERL 997
Query: 1236 KHKEDDEEKH 1245
+ ED H
Sbjct: 998 QKIEDLHHHH 1007
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 43.9 bits (103), Expect = 3e-04
Identities = 14/103 (13%), Positives = 32/103 (31%)
Query: 1159 YEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEED 1218
+ E+ + + +K E+ A + + D + D
Sbjct: 534 HSEDLGKDVEFEVVGDAPEKVGPKQAEDAAKSITNGSDDGAQPSTSTAQEQDDVLIVDSD 593
Query: 1219 ESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEV 1261
E ++ K K D++E + + + EE ++V
Sbjct: 594 EEDSSNNADVSEEERSRKRKLDEKENLSAKRSRIEQKEELDDV 636
>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 = 39.9 bits (92), Expect = 0.006
Identities = 73/555 (13%), Positives = 167/555 (30%), Gaps = 68/555 (12%)
Query: 541 MVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPYLV 600
M K + YQI+ + ++ N ++ G GKT +I + + + V
Sbjct: 3 METKKARSYQIELAQP--AINGKNA--LICAPTGSGKTFVSILICEHHFQNMPAGRKAKV 58
Query: 601 I--VPLSTLSNWVLEFEKW---APSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFI 655
+ + K +V G + +++ +++S ++++ T + +
Sbjct: 59 VFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDS--DIIVVTPQIL 116
Query: 656 ---IKDKSVLSKIQWKCMIIDEGHRMKNHHC-------KLTQTLNTFYNSSHRVLLTGTP 705
+D ++ S + MI DE H +H L Q N+ + LT +
Sbjct: 117 VNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV 176
Query: 706 LQNKLPELWALLNFLLPSIFKSCSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLR 765
+ + + + E + L+ RR+H
Sbjct: 177 GVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFA 236
Query: 766 PFLLRRLKKEVESQLPEKVEYIIKCDMSGLQKLLYQHLHNRGILLTDGSEKGKTGEGGAR 825
++ L E E+ + S + H + +
Sbjct: 237 A-IISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEES 295
Query: 826 ALKNTIVQLRKLCNHPFMFQNIEE--------KYCQHIGQN------------------- 858
+ + + I E Y N
Sbjct: 296 RICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQE 355
Query: 859 ---NTVVSGPDIYRTSGKFELLDRILPKF--KETKHRVLMFCQMTQLMTILEDYFIW-RD 912
+ D + K E L IL + R L+F + L++ L+
Sbjct: 356 KEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPI 415
Query: 913 FSYLR---LDGTTKSEDRGELLRKFNEP------ESKYFIFLLSTRAGGLGLNLQAADTV 963
+Y++ L G + + + + SK L++T G+++ + V
Sbjct: 416 LNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLV 475
Query: 964 IIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKVIQA 1023
++++ N + +Q + R + + + + + V E + M++ V +
Sbjct: 476 VLYEYSGNVTKMIQVRGRG----RAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKI 531
Query: 1024 GMFDQKSTGSERHEF 1038
+D+++ + H
Sbjct: 532 QKWDEETFAKKIHNL 546
Score = 36.1 bits (82), Expect = 0.082
Identities = 31/199 (15%), Positives = 73/199 (36%), Gaps = 32/199 (16%)
Query: 172 ELLDRILPKFKETK-HRVLMFCQMTQLMTILEDYFIW-RDFSYLR---LDGTTKSEDRGE 226
EL+ + ++ R L+F + L++ L+ +Y++ L G + +
Sbjct: 376 ELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 435
Query: 227 LLRKFNEP------ESKYFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAH 280
+ + SK L++T G+++ + V++++ N + +Q + R
Sbjct: 436 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRG- 494
Query: 281 RIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINY-HIN 339
+ + + + + + E + N + + +NKA+ +
Sbjct: 495 ---RAAGSKCILVTS----------------KTEVVENEKCNRYKEEMMNKAVEKIQKWD 535
Query: 340 AEKEQKKEQERIEKERMRR 358
E KK KER+ R
Sbjct: 536 EETFAKKIHNLQMKERVLR 554
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 39.1 bits (91), Expect = 0.008
Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 9/96 (9%)
Query: 1194 EEKPVKKRRRRKKVQISDEDED-----EEDESPKKKKRKSTKTPAKDKHKEDDEEKHV-- 1246
EE + D +E EE K++K+K +K P+ +E D+E
Sbjct: 5 EEVAASGSHLNGDLDPDDREEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASV 64
Query: 1247 --VSKRKKKVVEEEEEVEEAEGEEEEEDDKASKPRK 1280
V+++ ++ E++E +E + + + + D A+ +K
Sbjct: 65 DEVARQLERSALEDKERDEDDEDGDGDGDGATGKKK 100
Score = 34.5 bits (79), Expect = 0.24
Identities = 25/109 (22%), Positives = 40/109 (36%), Gaps = 3/109 (2%)
Query: 1135 QVDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYV---EETAPED 1191
+V + S + + ++GA EE + K KK+ G E A D
Sbjct: 6 EVAASGSHLNGDLDPDDREEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVD 65
Query: 1192 EEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKED 1240
E + + K+ DED D + + KK+K K K + D
Sbjct: 66 EVARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKVQTD 114
Score = 31.8 bits (72), Expect = 1.8
Identities = 27/139 (19%), Positives = 52/139 (37%), Gaps = 23/139 (16%)
Query: 1103 KDDDEVENSMYEEE--REREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYE 1160
D +E S EE ++R K++ G + ++ D + E + +E +D E
Sbjct: 21 DDREEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKE 80
Query: 1161 EEEEEVKP------VTKKRGSGKKGKKSYVEETA---------------PEDEEEEKPVK 1199
+E++ T K+ KK K+ +T P+ +E E P
Sbjct: 81 RDEDDEDGDGDGDGATGKKKKKKKKKRGPKVQTDPPSVPICDLYPNGVFPKGQECEYPPT 140
Query: 1200 KRRRRKKVQISDEDEDEED 1218
+ R + + E++ D
Sbjct: 141 QDGRTAAWRTTSEEKKALD 159
>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 = 38.5 bits (88), Expect = 0.010
Identities = 28/168 (16%), Positives = 62/168 (36%), Gaps = 13/168 (7%)
Query: 539 SIMVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEKKKNLGPY 598
S + YQ + + LN G+++ L Y +E +
Sbjct: 107 SGNKRIEPHWYQKDAVFEGLVNRRRILNL----PTSAGRSLIQALLARYYLENYEG--KI 160
Query: 599 LVIVPLSTLSN-WVLEFEKWAPSANVVAYKGSPLARRALQGRMKNSKFNVLLTTYEFIIK 657
L+IVP + L+ +F + ++ + K + A + + V++ T++ ++K
Sbjct: 161 LIIVPTTALTTQMADDFVDYRLFSHAMIKK---IGGGASKDDKYKNDAPVVVGTWQTVVK 217
Query: 658 DKSVLSKIQWKCMIIDEGHRMKNHHCKLTQTLNTFYNSSHRVLLTGTP 705
Q+ M+ DE H ++ ++ N + L+G+
Sbjct: 218 QPKEWFS-QFGMMMNDECHLATGK--SISSIISGLNNCMFKFGLSGSL 262
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 39.3 bits (92), Expect = 0.011
Identities = 26/99 (26%), Positives = 37/99 (37%), Gaps = 10/99 (10%)
Query: 574 GLGKTVQTIALLTYLMEKKKNLGPYLVIVPLSTLSNWVLE-FEKWAPSA------NVVAY 626
G+GKT +A+ +L K K VI P S L E K+A A + Y
Sbjct: 81 GVGKTSFGLAMSLFLALKGKRC---YVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYY 137
Query: 627 KGSPLARRALQGRMKNSKFNVLLTTYEFIIKDKSVLSKI 665
G R F +++TT +F+ K L
Sbjct: 138 HGRIPKREKENFMQNLRNFKIVITTTQFLSKHYRELGHF 176
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 38.3 bits (88), Expect = 0.018
Identities = 23/174 (13%), Positives = 57/174 (32%)
Query: 1107 EVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEEEEEEV 1166
E + + +R + A+ + Q + +QE +E D E E+
Sbjct: 644 EPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKAR 703
Query: 1167 KPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKR 1226
K + + + + + E E ++ + ++ + E E+ ++ +
Sbjct: 704 KELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVK 763
Query: 1227 KSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASKPRK 1280
K + + + E + ++ +E+ EA G D + P
Sbjct: 764 KVREMELIYARAQLELEVSKAQQLANVEAKKFKEMTEALGPGTIRDLAVAGPEM 817
Score = 33.6 bits (76), Expect = 0.50
Identities = 28/179 (15%), Positives = 61/179 (34%), Gaps = 10/179 (5%)
Query: 300 EERILAAARYKLNMDEKEYHRNNTARTQKLNKAIINYHIN-AEKEQKKEQERIEKERMRR 358
E R + L+ E E R + ++ A+ + AE E + E RIE E
Sbjct: 683 EARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVL 742
Query: 359 LMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKE----EQQKKMREEKKK 414
+ + + ++ + + L V + ++ E +K +
Sbjct: 743 QAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEAKKFKEMTEAL 802
Query: 415 KKKSIKQKILDGNMDKLDLDESSQLEDLRIT-----VKETNSDNKLRGEDAPPAKQIKE 468
+I+ + G ++ L +S L+ IT + ++ L G + ++
Sbjct: 803 GPGTIRDLAVAGPEMQVKLLQSLGLKSTLITDGSSPINLFSTAFGLLGLGSDGQPPAQK 861
Score = 32.5 bits (73), Expect = 1.3
Identities = 26/173 (15%), Positives = 57/173 (32%), Gaps = 3/173 (1%)
Query: 1108 VENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIEDDGADDYEE-EEEEV 1166
V E+ + R Q S D + ++ ++ D + + +
Sbjct: 603 VFGFEMSEDTGPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAI 662
Query: 1167 KPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRR--RRKKVQISDEDEDEEDESPKKK 1224
+ T + + K + +E+ A E +K + + + +K + E ES
Sbjct: 663 EITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNA 722
Query: 1225 KRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASK 1277
K ++ + + + K + +E E E+E + E E A
Sbjct: 723 KAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARA 775
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 36.1 bits (82), Expect = 0.023
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 27/53 (50%)
Query: 415 KKKSIKQKILDGNMDKLDLDESSQLEDLRITVKETNSDNKLRGEDAPPAKQIK 467
+K+++K KL ++S L KL +D+ PA IK
Sbjct: 18 EKQALK---------KL---QAS----L-----------KLYADDSAPALAIK 43
Score = 31.8 bits (71), Expect = 0.70
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 7/28 (25%)
Query: 1162 EEEEVKPVTKKRGSGKKGKKSYVEETAP 1189
E++ +K K + S K Y +++AP
Sbjct: 18 EKQALK---KLQASLKL----YADDSAP 38
Score = 28.4 bits (62), Expect = 9.8
Identities = 8/38 (21%), Positives = 17/38 (44%), Gaps = 13/38 (34%)
Query: 547 KEYQIKGLEWMVSLYNNNLNGILADE----MGLGKTVQ 580
K+ +K L+ + LY AD+ + + T++
Sbjct: 19 KQ-ALKKLQASLKLY--------ADDSAPALAIKATME 47
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 35.7 bits (81), Expect = 0.051
Identities = 13/87 (14%), Positives = 33/87 (37%), Gaps = 9/87 (10%)
Query: 1186 ETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKH 1245
A +E + ++K R ++ ++ + D + + + AK K E+ ++
Sbjct: 90 AQADRLTQEPESIRKWREEQRKRLQELDAASK------VMEQEWREKAK-KDLEEWNQRQ 142
Query: 1246 VVSKRKKKVVEEEEEVEEAEGEEEEED 1272
K K ++A ++ + D
Sbjct: 143 SEQVEKNK--INNRIADKAFYQQPDAD 167
>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 = 34.8 bits (80), Expect = 0.11
Identities = 31/165 (18%), Positives = 64/165 (38%), Gaps = 20/165 (12%)
Query: 532 EKVTEQASIMVNGKLKEYQIKGLEWMVSLYNNNLNGILADEMGLGKTVQTIALLTYLMEK 591
E V +AS +L+ YQ++ + +L N+ I+ G GKT + + ++K
Sbjct: 20 ENVAARASPEPELQLRPYQMEVAQ--PALEGKNI--IICLPTGSGKTRVAVYIAKDHLDK 75
Query: 592 KKNLGPY---LVIVPLSTLSN--WVLEFEKW-APSANVVAYKGSPLARRALQGRMKNSKF 645
KK +V+V L + EF+ + V+ G + + +K+
Sbjct: 76 KKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCD- 134
Query: 646 NVLLTTYEFIIKD--------KSVLSKIQWKCMIIDEGHRMKNHH 682
++++T + + + + + +IIDE H
Sbjct: 135 -IIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEA 178
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 35.6 bits (81), Expect = 0.11
Identities = 22/171 (12%), Positives = 49/171 (28%), Gaps = 6/171 (3%)
Query: 180 KFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESKYF 239
K + + + + D + G +E R + +
Sbjct: 342 KLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGI-- 399
Query: 240 IFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQ-KNEVRVLRLITVNS 298
I + S G++++ V++ + LQ R R K V LI
Sbjct: 400 IIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVWDLIDDAG 459
Query: 299 VEERILAAARYKLNMDEKEYH---RNNTARTQKLNKAIINYHINAEKEQKK 346
V+ + + ++++ H R +K N + ++
Sbjct: 460 VKPKSANTKKKYVHLNYLLKHGIDRIQRYADEKFNYVMKTVNLLEHHHHHH 510
Score = 34.9 bits (79), Expect = 0.17
Identities = 15/113 (13%), Positives = 31/113 (27%), Gaps = 3/113 (2%)
Query: 883 KFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESKYF 942
K + + + + D + G +E R + +
Sbjct: 342 KLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGI-- 399
Query: 943 IFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQ-KNEVRVL 994
I + S G++++ V++ + LQ R R K V
Sbjct: 400 IIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I,
activator, RNA polymeras holoenzyme, sigma70, open
complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli
k-12}
Length = 613
Score = 34.2 bits (78), Expect = 0.30
Identities = 28/247 (11%), Positives = 78/247 (31%), Gaps = 28/247 (11%)
Query: 1046 DDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEIKELPDWMVKDD 1105
DE+ E +V I RT D + ++ + E+ + ++ +
Sbjct: 72 ADEDAAEAAAQVLSSVESEIGRTTDPVRMY---------------MREMGTVE--LLTRE 114
Query: 1106 DEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQ-----EWLKAIEDDGADDYE 1160
E++ + E+ + + ++ ++ + + + + + D A++
Sbjct: 115 GEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDL 174
Query: 1161 EEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDES 1220
+ + E+ + +++ + R+K ++
Sbjct: 175 APTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDT 234
Query: 1221 PKKKKRKSTKT-PAKDKHKEDDEEKHVVSKRKKKVVEE----EEEVEEAEGEEEE-EDDK 1274
K K R K E ++ +V K+ +V + V E + ++
Sbjct: 235 IKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQ 294
Query: 1275 ASKPRKS 1281
P+K+
Sbjct: 295 CKMPKKN 301
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc
finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus
musculus} PDB: 3av5_A* 3av6_A*
Length = 1330
Score = 34.2 bits (77), Expect = 0.35
Identities = 19/102 (18%), Positives = 42/102 (41%), Gaps = 2/102 (1%)
Query: 1170 TKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKST 1229
K+R + ++ E DE+E + +KRR+ + ++ + S +K + +
Sbjct: 2 AKRRPKEAEPEQVAPETPEDRDEDERE--EKRRKTTRKKLESHTVPVQSRSERKAAQSKS 59
Query: 1230 KTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEE 1271
P + K + +H+ K E+ V+E + E+
Sbjct: 60 VIPKINSPKCPECGQHLDDPNLKYQQHPEDAVDEPQMLTSEK 101
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1
a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F*
2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Length = 423
Score = 33.7 bits (77), Expect = 0.41
Identities = 26/176 (14%), Positives = 54/176 (30%), Gaps = 9/176 (5%)
Query: 1037 EFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEIKE 1096
E +T + +E EE E P+ E L + E + + E ++
Sbjct: 13 EAQETEVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLDLE---EEEED 69
Query: 1097 LPDWMVKDDDEVENSMYE----EEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIE 1152
LP + D V ++E E+E L + + + +T + E
Sbjct: 70 LPIPKISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIRE 129
Query: 1153 DDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEE--KPVKKRRRRKK 1206
A P K+ K ++ + + E + ++ ++
Sbjct: 130 VVRAKILGSARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAREGEAARQ 185
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA
methyltransferase fold, maintenance methyla transferase;
HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A*
3pt6_A* 3pt9_A* 4da4_A*
Length = 1002
Score = 34.1 bits (77), Expect = 0.43
Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 17/92 (18%)
Query: 1182 SYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDD 1241
++ E +D+ E+K +RRR V + + K D
Sbjct: 32 TFFAEQIEKDDREDKENAFKRRRCGVCEVCQQPECGKCKACK-----------------D 74
Query: 1242 EEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDD 1273
K S R K+ +E A E +++++
Sbjct: 75 MVKFGGSGRSKQACQERRCPNMAMKEADDDEE 106
Score = 32.2 bits (72), Expect = 1.4
Identities = 12/67 (17%), Positives = 26/67 (38%), Gaps = 12/67 (17%)
Query: 1220 SPKKKKRKSTK---TPA---------KDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGE 1267
S ++K R TK T ++ ++DD E + ++++ E + G+
Sbjct: 9 STREKDRGPTKATTTKLVYQIFDTFFAEQIEKDDREDKENAFKRRRCGVCEVCQQPECGK 68
Query: 1268 EEEEDDK 1274
+ D
Sbjct: 69 CKACKDM 75
Score = 30.6 bits (68), Expect = 4.7
Identities = 20/87 (22%), Positives = 33/87 (37%), Gaps = 9/87 (10%)
Query: 1185 EETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDE-------SPKKKKRKSTKTPAKDKH 1237
+ K + RR + + + D+DEE + SPKK + K K++
Sbjct: 74 DMVKFGGSGRSKQACQERRCPNMAMKEADDDEEVDDNIPEMPSPKKMHQGKKKKQNKNRI 133
Query: 1238 KEDDEEKHVVSKRK--KKVVEEEEEVE 1262
E K+ KKV + E +E
Sbjct: 134 SWVGEAVKTDGKKSYYKKVCIDAETLE 160
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 33.6 bits (76), Expect = 0.44
Identities = 25/119 (21%), Positives = 50/119 (42%)
Query: 1159 YEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEED 1218
+++ + + KP + + K + E E+E + V++ + ++ E E E
Sbjct: 308 FKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKELHEK 367
Query: 1219 ESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASK 1277
KK + K +DK K D+E + +RK + + +A G + + DK K
Sbjct: 368 FDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQTLKRDKEKK 426
>3itf_A Periplasmic adaptor protein CPXP; CPXR, CPXA, cpxrap, CPX-pathway,
envelope stress, transduction; HET: MSE; 1.45A
{Escherichia coli str} PDB: 3qzc_A
Length = 145
Score = 32.3 bits (73), Expect = 0.49
Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 7/86 (8%)
Query: 340 AEKEQKKEQERIEKERMRRLMAE---DEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQM 396
+ ++ E E M RL+ DE R ++ ++++A + E QM
Sbjct: 60 QARHEQPPVNVSELETMHRLVTAENFDENAVRAQAEKMANEQIARQV----EMAKVRNQM 115
Query: 397 VKEHKEEQQKKMREEKKKKKKSIKQK 422
+ EQQ + E+ +++ + ++
Sbjct: 116 YRLLTPEQQAVLNEKHQQRMEQLRDV 141
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle; HET:
ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12
Length = 430
Score = 33.1 bits (76), Expect = 0.64
Identities = 24/132 (18%), Positives = 42/132 (31%), Gaps = 7/132 (5%)
Query: 1157 DDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDE--DE 1214
D ++ + K K V + E + PV+ R ++V S + E
Sbjct: 122 DGKTVSYKDYSIFLENENILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGSIQYKKE 181
Query: 1215 DEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKK-----KVVEEEEEVEEAEGEEE 1269
EE + +K KS K++ + E K S + +E E
Sbjct: 182 YEELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLFQGPRGSRYDEAEGRFEVIN 241
Query: 1270 EEDDKASKPRKS 1281
E ++ K
Sbjct: 242 NETEQLKAEEKK 253
Score = 29.3 bits (66), Expect = 9.7
Identities = 15/134 (11%), Positives = 45/134 (33%)
Query: 388 EYISNLTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDLRITVK 447
Y + + + + K K + Q ++ + ++ S E++ +++
Sbjct: 118 SYKIDGKTVSYKDYSIFLENENILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGSIQ 177
Query: 448 ETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEK 507
+L+ + +K E + + ++ + G E + +A G
Sbjct: 178 YKKEYEELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLFQGPRGSRYDEAEGRF 237
Query: 508 KTEDDEYKDAGEEA 521
+ ++E + E
Sbjct: 238 EVINNETEQLKAEE 251
>3uw3_A Aspartate-semialdehyde dehydrogenase; structural genomics, seattle
structural genomics center for infectious disease
(ssgcid); 1.55A {Burkholderia thailandensis}
Length = 377
Score = 33.0 bits (76), Expect = 0.67
Identities = 25/120 (20%), Positives = 35/120 (29%), Gaps = 38/120 (31%)
Query: 401 KEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDL--RITVKETNSDNKLRG- 457
+EE K E K IL + S ++ L RI +R
Sbjct: 243 REEW--KGGAETNK--------IL--GKPAMGEPGSVPVDGLCVRIGA--------MRCH 282
Query: 458 --------EDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKT 509
+ P +I LAS W V +E E S + P+K G
Sbjct: 283 SQALTIKLKKDVPLDEINGILASANDWVKV-VPNEREASMRDLS------PAKVTGTLSV 335
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 33.0 bits (75), Expect = 0.77
Identities = 32/272 (11%), Positives = 89/272 (32%), Gaps = 38/272 (13%)
Query: 178 LPKFKETKHRVLMFCQMTQLMTILEDYFIWRDFSYLRLDGTTKSEDRGELLRKFNEPESK 237
+ KE K V +F + + IL++Y + L+ + + + + K
Sbjct: 769 IESEKEKKDFVKLFGEYLRAENILQNYDEFATLKALQQIDLSDPVAVEKFKAEHYVDDEK 828
Query: 238 YFIFLLSTRAGGLGLNLQAADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLITVN 297
+ L + + D++ R + +K E +
Sbjct: 829 F-----------AELQTIRLPADRKIQDYRSAYNDIRDWQRREKEAEKKEKST---TDWD 874
Query: 298 SVEERILAAARYKLNMDE-----KEYHRNNTARTQKLNKAIINYHINAEKEQKKE--QER 350
V + ++N+D E++R N + + + + + K+ +
Sbjct: 875 DVVFEVDLLKSQEINLDYILGLIFEHNRQNKGKGEMIEEVKRLIRSSLGNRAKEGLVVDF 934
Query: 351 IEKERMRRLMAEDE--EGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKEEQQ--- 405
I++ + L + + + +++ + L+ + + + ++ + +
Sbjct: 935 IQQTNLDDLPDKASIIDAFFTFAQREQQREAEALIKEENLNEDAAKRYIRTSLKREYATE 994
Query: 406 ---------KKMRE---EKKKKKKSIKQKILD 425
K+ + K KK+++ QKI+
Sbjct: 995 NGTELNETLPKLSPLNPQYKTKKQAVFQKIVS 1026
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z 1pnu_T
1pny_T 1vor_W ...
Length = 237
Score = 32.4 bits (74), Expect = 0.77
Identities = 7/61 (11%), Positives = 24/61 (39%)
Query: 1184 VEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEE 1243
E + + + + + + E E D S ++ K ++++ A +++ +
Sbjct: 177 TAEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDA 236
Query: 1244 K 1244
+
Sbjct: 237 Q 237
Score = 30.9 bits (70), Expect = 2.6
Identities = 9/42 (21%), Positives = 14/42 (33%)
Query: 1240 DDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASKPRKS 1281
D E VVS ++ EE E E + ++
Sbjct: 162 ADPELTVVSVLPPRLTAEELEAEVQAAQVAGLVAAGELSEEA 203
>3o39_A Periplasmic protein related to spheroblast format; alpha-helical,
structural genomics, montreal-kingston bacter structural
genomics initiative; HET: MSE; 2.60A {Escherichia coli}
Length = 108
Score = 30.1 bits (68), Expect = 1.1
Identities = 14/79 (17%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 340 AEKEQKKEQERIEKERMRRLMAE---DEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQM 396
+++Q K E+ M ++A D+ I + +++R A +L ++ ++
Sbjct: 32 GQRDQMKRPPLEERRAMHDIIASDTFDKAKAEAQIAKMEEQRKANML----AHMETQNKI 87
Query: 397 VKEHKEEQQKKMREEKKKK 415
EQ+K+ +K+
Sbjct: 88 YNILTPEQKKQFNANFEKR 106
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 32.5 bits (73), Expect = 1.2
Identities = 18/165 (10%), Positives = 50/165 (30%), Gaps = 35/165 (21%)
Query: 1149 KAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQ 1208
+ E+ + E+ V T + + + K + E++++E K++ R +
Sbjct: 797 RMYEEASGKEVEKVATAVLSTTARAKA-RAKKTKKEKGPNEEEKKKEHEEKEKERETNKK 855
Query: 1209 ISDEDEDEEDESPKKKKRKST--------KTPAKDKH----------------------- 1237
E ++ ++E K K P + ++
Sbjct: 856 GIKETKENDEEFYKNKYSSKPYKVDNMTRILPQQSRYISFIKDDRFVPVRKFKGNNGVVV 915
Query: 1238 ---KEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASKPR 1279
+E E ++ ++ + ++ + A +P
Sbjct: 916 LRDREPKEPVALIETVRQMKDVNAPLPTPFKVDDNVDFPSALQPS 960
>3oeo_A Spheroplast protein Y; LTXXQ, extracytoplasmic stress
response-related, signaling P; 2.70A {Escherichia coli}
Length = 138
Score = 30.7 bits (69), Expect = 1.4
Identities = 13/86 (15%), Positives = 33/86 (38%), Gaps = 7/86 (8%)
Query: 340 AEKEQKKEQERIEKERMRRLMAE---DEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQM 396
+++Q K E+ M ++ D+ I + +++R A +L ++ ++
Sbjct: 48 GQRDQMKRPPLEERRAMHDIITSDTFDKVKAEAQIAKMEEQRKANML----AHMETQNKI 103
Query: 397 VKEHKEEQQKKMREEKKKKKKSIKQK 422
EQ+K+ +K+
Sbjct: 104 YNILTPEQKKQFNANFEKRLTERPAA 129
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 30.8 bits (69), Expect = 1.5
Identities = 10/93 (10%), Positives = 29/93 (31%)
Query: 1162 EEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESP 1221
+ + + K+ K +++ + + + + R+ ++ Q ++ +
Sbjct: 61 KGQSEEIQKKRTRRAVKFQRAITGASLADIMAKRNQKPEVRKAQREQAIRAAKEAKKAKQ 120
Query: 1222 KKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKV 1254
KK A K + V +V
Sbjct: 121 ASKKTAMAAAKAPTKAAPKQKIVKPVKVSAPRV 153
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 31.8 bits (71), Expect = 1.5
Identities = 22/150 (14%), Positives = 49/150 (32%), Gaps = 5/150 (3%)
Query: 274 QAQDRAHRIGQKNEVRVLRLITVNSVEERILAAARYKLNMDEKEYHRNNTARTQKLNKAI 333
+ I E V I R+ L E R + L +
Sbjct: 406 RCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYL 465
Query: 334 INYHINAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNL 393
+ + + +Q EKE+ + E + Q K L + + ++ +
Sbjct: 466 KSKESMTDAILQTDQTLTEKEK-----EIEVERVKAESAQASAKMLHEMQRKNEQMMEQK 520
Query: 394 TQMVKEHKEEQQKKMREEKKKKKKSIKQKI 423
+ +EH ++ +KM ++ + K ++ +
Sbjct: 521 ERSYQEHLKQLTEKMENDRVQLLKEQERTL 550
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit,
ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Length = 421
Score = 31.8 bits (71), Expect = 1.7
Identities = 14/97 (14%), Positives = 31/97 (31%), Gaps = 7/97 (7%)
Query: 1157 DDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDEDE 1216
+ Y + + + + + K+ A +E+ K RR++ K + +
Sbjct: 329 NPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKK--- 385
Query: 1217 EDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKK 1253
PKK K + + + +KK
Sbjct: 386 ----PKKPVVGKKAAATKKPAADKKPAEKKPTTEEKK 418
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae}
PDB: 3u5g_H
Length = 190
Score = 31.2 bits (70), Expect = 2.0
Identities = 4/130 (3%), Positives = 25/130 (19%), Gaps = 21/130 (16%)
Query: 1166 VKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRR--------RKKVQISDEDEDEE 1217
V + S + + + + ++ + +
Sbjct: 22 QAFVELENSSPEL------KAELRPLQFKSIREIDVAGGKKALAIFVPVPSLAGFHKVQT 75
Query: 1218 DESPKKKKRKSTKTPAKDKHKED---DEEKHVVSK---RKKKVVEEEEEVEEAEGEEEEE 1271
+ + +K+ + + + + + + + + E
Sbjct: 76 KLTRELEKKFQDR-HVIFLAERRILPKPSRTSRQVQKRPRSRTLTAVHDKILEDLVFPTE 134
Query: 1272 DDKASKPRKS 1281
Sbjct: 135 IVGKRVRYLV 144
>3pzr_A Aspartate-semialdehyde dehydrogenase; NADP,
oxidoreductase-oxidoreductase inhibitor complex; HET:
NAP; 1.75A {Vibrio cholerae} PDB: 1mc4_A 1mb4_A* 3q0e_A
Length = 370
Score = 31.0 bits (71), Expect = 2.4
Identities = 18/99 (18%), Positives = 32/99 (32%), Gaps = 39/99 (39%)
Query: 401 KEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLD-------------ESSQLEDLRITVK 447
KEE K E K IL + +D ++ +T+
Sbjct: 239 KEEW--KAGVEANK--------ILGLQDSPVPIDGTCVRIGAMRCHSQA-------LTI- 280
Query: 448 ETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDE 486
+ + P +I+E +A+H W V+ + D
Sbjct: 281 KLKQN--------IPLDEIEEMIATHNDWVKVIPNERDI 311
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 30.8 bits (69), Expect = 2.7
Identities = 24/117 (20%), Positives = 44/117 (37%), Gaps = 10/117 (8%)
Query: 1158 DYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISDEDED-- 1215
++ E EE+ P + Y+EE A +DEE + K + +D ED
Sbjct: 182 GWDFETEEIDPELLRSYIFGGHVSQYMEELADDDEERFSELFKGYLADDID-ADSLEDIY 240
Query: 1216 -------EEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAE 1265
D + K ++K TK + K+ + K +R +V + + +
Sbjct: 241 TSAHEAIRADPAFKPTEKKFTKEQYAAESKKYRQTKLSKEERAARVAAKIAALAGQQ 297
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane protein,
P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 31.1 bits (71), Expect = 2.8
Identities = 14/88 (15%), Positives = 27/88 (30%)
Query: 1184 VEETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEE 1243
AP + K + + ED+ + + D H ++EE
Sbjct: 5 SASGAPALSTNIESGKFDEKAAEAAAYQPKPKVEDDEDEDIDALIEDLESHDGHDAEEEE 64
Query: 1244 KHVVSKRKKKVVEEEEEVEEAEGEEEEE 1271
+ + V E+ + + G EE
Sbjct: 65 EEATPGGGRVVPEDMLQTDTRVGLTSEE 92
>2our_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A;
PDE10, substrate specificity, hydrolase; HET: CMP; 1.45A
{Homo sapiens} PDB: 2ous_A 2ouu_A* 3sn7_A* 3sni_A*
3snl_A* 4dff_A* 2wey_A* 2oun_A* 2oup_A 2ouq_A* 2ouv_A
2ouy_A* 4ael_A* 2y0j_A* 4ddl_A* 3uuo_A* 3ui7_A* 2o8h_A*
2ovv_A* 2ovy_A* ...
Length = 331
Score = 30.9 bits (70), Expect = 3.0
Identities = 17/121 (14%), Positives = 36/121 (29%), Gaps = 23/121 (19%)
Query: 583 ALLTYLMEKKKNLGPYLVIVPLSTLSNWVLEFEKWAPSANVVAYKGSPLARRALQGRMKN 642
+ L L +++ +K + V Y A
Sbjct: 40 MWPGIFVYMVHRSCGTSCF-ELEKLCRFIMSVKK---NYRRVPYHNWKHA---------- 85
Query: 643 SKFNVLLTTYEFIIKDKSVLSKIQWKCMII-----DEGHRMKN--HHCKLTQTLNTFYNS 695
V Y + + ++ + ++ K ++I D HR + + K L Y++
Sbjct: 86 --VTVAHCMYAILQNNHTLFTDLERKGLLIACLCHDLDHRGFSNSYLQKFDHPLAALYST 143
Query: 696 S 696
S
Sbjct: 144 S 144
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix,
antiparallel-coiled-COI domain, ATP-binding, helicase,
hydrolase; 3.39A {Saccharomyces cerevisiae}
Length = 1108
Score = 31.0 bits (69), Expect = 3.2
Identities = 13/120 (10%), Positives = 37/120 (30%), Gaps = 1/120 (0%)
Query: 1152 EDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQISD 1211
D D +EE E+ + + + T + E+ ++
Sbjct: 38 STDLFDVFEETPVELPTDSNGEKNADTNVGDTPDHTQDKKHGLEEEKEEHEENNSENKKI 97
Query: 1212 EDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHV-VSKRKKKVVEEEEEVEEAEGEEEE 1270
+ + E KK + ++ + + ++ + VE++ +V + +
Sbjct: 98 KSNKSKTEDKNKKVVVPVLADSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQ 157
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 30.6 bits (68), Expect = 3.4
Identities = 18/77 (23%), Positives = 31/77 (40%), Gaps = 3/77 (3%)
Query: 343 EQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKE 402
+ KE+ + K+ L E+ + L + + K L Q ++ +N + E
Sbjct: 344 MKVKEKVQKLKDSEAELQRRHEQMKKNL--EAQHKELEEKRRQFEDEKANWEAQ-QRILE 400
Query: 403 EQQKKMREEKKKKKKSI 419
+Q EK KKK I
Sbjct: 401 QQNSSRTLEKNKKKGKI 417
Score = 30.2 bits (67), Expect = 5.1
Identities = 20/133 (15%), Positives = 54/133 (40%), Gaps = 9/133 (6%)
Query: 1145 QEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRR 1204
L A+ +G D+ + + +TK + + ++ + E E + V + + +
Sbjct: 292 SRKLAAVTYNGVDNNKNKG----QLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVK 347
Query: 1205 KKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEA 1264
+K + ++ E+ +++ + K + +HKE +E++ K ++ +E+
Sbjct: 348 EK-----VQKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQ 402
Query: 1265 EGEEEEEDDKASK 1277
E +K
Sbjct: 403 NSSRTLEKNKKKG 415
Score = 29.4 bits (65), Expect = 7.9
Identities = 18/118 (15%), Positives = 43/118 (36%), Gaps = 10/118 (8%)
Query: 1035 RHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEI 1094
R L + + + + + Q+ + + +KM+ E + ++
Sbjct: 291 RSRKLAAVTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEKV 350
Query: 1095 KELPDW----------MVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSL 1142
++L D M K+ + + E+ R+ E E+A R +Q + + +L
Sbjct: 351 QKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNSSRTL 408
>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane
protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1
Length = 602
Score = 30.8 bits (68), Expect = 3.5
Identities = 20/206 (9%), Positives = 64/206 (31%), Gaps = 5/206 (2%)
Query: 1076 QKMDAERRKGETKPRLVEIKELPDWMVKDDDEVENSMYEEEREREKEEALMGRGSRQRKQ 1135
+ D E+R E + E + REK+E + + +
Sbjct: 44 TRSDIEKRDKEITAYKNTLSAQQKENENKRTEAGKRLSAAIAAREKDEN-----TLKTLR 98
Query: 1136 VDYTDSLTDQEWLKAIEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEE 1195
D+ + +Y E + + + + + E
Sbjct: 99 AGNADAADITRQEFRLLQAELREYGFRTEIAGYDALRLHTESRMLFADADSLRISPREAR 158
Query: 1196 KPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVV 1255
+++ +R+K + + + + + ++++ T + K V+ ++ +++
Sbjct: 159 SLIEQAEKRQKDAQNADKKAADMLAEYERRKGILDTRLSELEKNGGAALAVLDAQQARLL 218
Query: 1256 EEEEEVEEAEGEEEEEDDKASKPRKS 1281
++ + A E + ++ +
Sbjct: 219 GQQTRNDRAISEARNKLSSVTESLNT 244
>1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S
rRNA-protein complex, cadmium IONS, ribosome; 2.30A
{Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T
2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z
2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z
2wrl_Z 2wro_Z ...
Length = 206
Score = 30.0 bits (68), Expect = 3.5
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 1240 DDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKASK 1277
E+ + + + VE+ E AE E E K +
Sbjct: 165 VSPEETIAAVVPPEDVEKLAEEAAAEVAEPEVIKKGKE 202
Score = 29.3 bits (66), Expect = 6.3
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 1245 HVVSKRKKKVVEEEEEVEEAEGEEEEEDDKAS 1276
VV + + EE E AE E ++ +
Sbjct: 173 AVVPPEDVEKLAEEAAAEVAEPEVIKKGKEEE 204
>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S, protein-protein
complex, RNA-RNA complex, PROT complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: j.84.1.1 PDB: 1k73_I*
1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I* 1m90_I*
1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I* 1qvf_G
1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...
Length = 348
Score = 30.6 bits (68), Expect = 3.6
Identities = 13/90 (14%), Positives = 39/90 (43%), Gaps = 6/90 (6%)
Query: 1186 ETAPEDEEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKH 1245
+ A ED E + + + ++ + +DEE + + ++ + +DD+
Sbjct: 258 QAAIEDPEVVPDLVSKADAQVRALASQIDDEEALPEELQGVEADVATEEPTDDQDDDTA- 316
Query: 1246 VVSKRKKKVVEEEEEVEEAEGEEEEEDDKA 1275
+ + ++ EEA+ ++++++D
Sbjct: 317 -----SEDDADADDAAEEADDDDDDDEDAG 341
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_C*
Length = 1342
Score = 30.8 bits (70), Expect = 4.1
Identities = 31/232 (13%), Positives = 75/232 (32%), Gaps = 47/232 (20%)
Query: 326 TQKLNKAIINYHINAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLA----- 380
Q + + A + ++ + ++ +K+ L + + ++ +
Sbjct: 931 VQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLD 990
Query: 381 -------FLLSQTDEYISNLTQMVKEHKEEQQKKMREEKKKKKKSI-------------- 419
L TDE N + + E +E + + ++ + K++ I
Sbjct: 991 KLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIV 1050
Query: 420 ------KQKILDGNMDKLD--------LDESSQLEDLRITVKETNSDNKLRGEDAPPAKQ 465
K++I G DK+ + + + +ED+ T D L P
Sbjct: 1051 KVYLAVKRRIQPG--DKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMN 1108
Query: 466 IKEWLASHPGWE-----VVMEDSEDEGSEDEEMKEKKEEPSKAVGEKKTEDD 512
I + L +H G + + E +++E + + + + D
Sbjct: 1109 IGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVD 1160
>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral
twinning, leucine-rich repeat protein, LRR, merohedral
twinning; 2.2A {Schizosaccharomyces pombe} SCOP:
c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A
Length = 386
Score = 30.5 bits (69), Expect = 4.2
Identities = 15/85 (17%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 437 SQLEDLRITVKETNSDNKLRGEDAPPAKQIKEWLASHPGWEVVMEDSEDEGSEDEEMKEK 496
L L + + N+ E+ +I+E ++ E+ D +E +++EE E+
Sbjct: 303 PDLLFLEL------NGNRF-SEEDDVVDEIREVFSTRGRGELDELDDMEELTDEEEEDEE 355
Query: 497 KEEPSKAVGEKKTEDDEYKDAGEEA 521
+E S++ + +E+++ +
Sbjct: 356 EEAESQSPEPETSEEEKEDKELADE 380
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 29.5 bits (65), Expect = 4.4
Identities = 10/66 (15%), Positives = 31/66 (46%)
Query: 1213 DEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEED 1272
++ + P + ++ + EEK + + + +E+E+ ++ + E+EEE+
Sbjct: 11 EQLKITVVPVVAAAEDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEE 70
Query: 1273 DKASKP 1278
++ +
Sbjct: 71 EEVTDQ 76
Score = 28.3 bits (62), Expect = 9.0
Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 11/72 (15%)
Query: 1210 SDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVEEEEEVEEAEGEEE 1269
+ ED+D E K + + + D+ +++DE++ +++++ +E E EEE
Sbjct: 23 AAEDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDE-----------DDDDDDDEDEEEEE 71
Query: 1270 EEDDKASKPRKS 1281
E D+ R+
Sbjct: 72 EVTDQLEDLREH 83
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding;
2.40A {Homo sapiens} PDB: 4apf_B
Length = 364
Score = 30.2 bits (67), Expect = 5.0
Identities = 17/127 (13%), Positives = 47/127 (37%), Gaps = 7/127 (5%)
Query: 306 AARYKLNMDEKEYHRNNTARTQKLNKAIINYHIN--AEKEQKKEQERIEKERMRRLMAED 363
+ ++ Y + AR + + +++ E K + + + M+ ++ +
Sbjct: 204 SQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEME 263
Query: 364 EEGYRKLIDQKKD---KRLAFLLSQTDEYISNLTQMVKEHKEEQQKKMREEKKKKKKSIK 420
G ++ K + L S+ + + + + + EQ K + E+ + K +
Sbjct: 264 NSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVD 323
Query: 421 --QKILD 425
Q + D
Sbjct: 324 YRQGLDD 330
>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90,
heat shock protein, ATP-binding, heat shock,
nucleotide-binding, acetylation; HET: ATP; 3.1A
{Saccharomyces cerevisiae}
Length = 677
Score = 30.1 bits (68), Expect = 5.7
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 1197 PVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVVE 1256
P++ ++ + E+E+ + KK + K + K K +E DEE+ + KKV E
Sbjct: 204 PIQLVVTKEVEKEVPIPEEEKKDEEKKDEEKKDEDDKKPKLEEVDEEE-EKKPKTKKVKE 262
Query: 1257 EEEEVEE 1263
E +E+EE
Sbjct: 263 EVQEIEE 269
>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone,
H2A/H2B, tata-DNA, transcription initiation, NC2,
negative cofactor, structural genomics, PSI; 2.62A {Homo
sapiens} SCOP: a.22.1.3
Length = 179
Score = 29.0 bits (64), Expect = 7.3
Identities = 13/82 (15%), Positives = 31/82 (37%), Gaps = 4/82 (4%)
Query: 1192 EEEEKPVKKRRRRKKVQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRK 1251
K K R + + I +E+ + + K R+ A+ ++ + +++
Sbjct: 99 TVALKRRKASSRLENLGIPEEELLRQQQELFAKARQQQAELAQ----QEWLQMQQAAQQA 154
Query: 1252 KKVVEEEEEVEEAEGEEEEEDD 1273
+ +A ++EEDD
Sbjct: 155 QLAAASASASNQAGSSQDEEDD 176
>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 308
Score = 29.5 bits (66), Expect = 7.7
Identities = 27/115 (23%), Positives = 43/115 (37%), Gaps = 7/115 (6%)
Query: 1147 WLKAIEDDGADD-YEEEEEEVKPVTKKRGSGKKGKK--SYVEETAPEDEEEEKPVKKRRR 1203
L I+ D D + E++ + +T +G V+E E EEE +
Sbjct: 53 HLYCIKKDDIDITFFEQDNPDEEITFDPPEKPEGYIPPRAVDEPPFESEEEIALAYEELY 112
Query: 1204 RKK---VQISDEDEDEEDESPKKKKRKSTKTPAKDKHKEDDEEKHVVSKRKKKVV 1255
+ D D KK +K+ K+K ++ EE V +R KVV
Sbjct: 113 GAAYSGESLLGNDVYAMDSKIKKATGFGSKSK-KEKIRDGFEENVVQVRRVTKVV 166
>3obv_E Protein diaphanous homolog 1; autoinhibition, actin, nucleation,
cytoskeleton, structural; HET: SUC; 2.75A {Mus musculus}
PDB: 3o4x_E 2bap_D
Length = 457
Score = 29.5 bits (66), Expect = 8.1
Identities = 11/51 (21%), Positives = 23/51 (45%)
Query: 392 NLTQMVKEHKEEQQKKMREEKKKKKKSIKQKILDGNMDKLDLDESSQLEDL 442
N + E K + K +E+ +K++ +QK + DE+ ++ L
Sbjct: 383 NQKRRETEEKMRRAKLAKEKAEKERLEKQQKREQLIDMNAEGDETGVMDSL 433
>3gwf_A Cyclohexanone monooxygenase; flavoprotein biocatalysis
baeyer-villiger oxidation green CH monooxygenase,
oxidoreductase; HET: FAD NAP; 2.20A {Rhodococcus SP} PDB:
3gwd_A* 3ucl_A*
Length = 540
Score = 29.5 bits (67), Expect = 8.1
Identities = 22/108 (20%), Positives = 37/108 (34%), Gaps = 18/108 (16%)
Query: 1063 QLIARTEDELTLFQ------------KMDAERRKGETKPRLVEIKE-----LPDWMVKDD 1105
+A + LT+F ++ E+ E K I E + ++
Sbjct: 195 TSLAPEVEHLTVFVRTPQYSVPVGNRPVNPEQIA-EIKADYDRIWERAKNSAVAFGFEES 253
Query: 1106 DEVENSMYEEEREREKEEALMGRGSRQRKQVDYTDSLTDQEWLKAIED 1153
S+ EEER R +EA G + + D TD+ +A
Sbjct: 254 TLPAMSVSEEERNRIFQEAWDHGGGFRFMFGTFGDIATDEAANEAAAS 301
>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_B
Length = 241
Score = 29.1 bits (65), Expect = 8.1
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 1239 EDDEEKHVVSKRKKKVVEEEEEVEEAEGEEEEEDDKAS 1276
E+ + + EE+ E EGE E+ D +
Sbjct: 203 LPTAEQKEAEEEEGAEGAEEKVAEVKEGEAEQNTDNKN 240
>3hr1_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A;
PDE 10A, PDE10 inhibitors, allosteric enzyme,
alternative splicing; HET: PF9; 1.53A {Rattus
norvegicus} PDB: 3hqy_A* 3hqz_A* 3hqw_A*
Length = 380
Score = 29.5 bits (66), Expect = 8.2
Identities = 17/121 (14%), Positives = 35/121 (28%), Gaps = 23/121 (19%)
Query: 583 ALLTYLMEKKKNLGPYLVIVPLSTLSNWVLEFEKWAPSANVVAYKGSPLARRALQGRMKN 642
+ L L +++ +K + V Y A
Sbjct: 71 MWPGIFVYMIHRSCGTSCF-ELEKLCRFIMSVKK---NYRRVPYHNWKHA---------- 116
Query: 643 SKFNVLLTTYEFIIKDKSVLSKIQWKCMII-----DEGHRMKN--HHCKLTQTLNTFYNS 695
V Y + + + + ++ K ++I D HR + + K L Y++
Sbjct: 117 --VTVAHCMYAILQNNNGLFTDLERKGLLIACLCHDLDHRGFSNSYLQKFDHPLAALYST 174
Query: 696 S 696
S
Sbjct: 175 S 175
>3bg1_B Nucleoporin NUP145; NPC, transport, WD repeat, autocatalytic
cleavage, mRNA transport, nuclear pore complex, nucleus,
phosphoprotein; 3.00A {Saccharomyces cerevisiae} PDB:
3bg0_B 3iko_B
Length = 442
Score = 29.3 bits (65), Expect = 8.8
Identities = 22/138 (15%), Positives = 48/138 (34%), Gaps = 6/138 (4%)
Query: 307 ARYKLNMDEKEYHRNNTARTQKLNKAIINYHINAEKEQKKEQERIEKERMRRLMAEDEEG 366
YK + D+ + R +L I++ +E+ + ++ L+ D
Sbjct: 136 YPYKTDNDQVKMALLKKERHCRLTSWIVSQIGPEIEEKIRNSSNEIEQIFLYLLLNDVVR 195
Query: 367 YRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKEEQQKKMREEKKKKKKSIKQ--KIL 424
KL + K+ L+ L+S + + + Q +K K+I + K+L
Sbjct: 196 ASKLAIESKNGHLSVLISYLGSNDPRIRDLAE----LQLQKWSTGGCSIDKNISKIYKLL 251
Query: 425 DGNMDKLDLDESSQLEDL 442
G+ + +
Sbjct: 252 SGSPFEGLFSLKELESEF 269
>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring
domain, structural GE consortium, SGC; 2.39A {Homo
sapiens} PDB: 2asq_B
Length = 360
Score = 29.2 bits (64), Expect = 9.0
Identities = 11/74 (14%), Positives = 27/74 (36%), Gaps = 3/74 (4%)
Query: 1151 IEDDGADDYEEEEEEVKPVTKKRGSGKKGKKSYVEETAPEDEEEEKPVKKRRRRKKVQIS 1210
++DG+ ++E V+ + + + + P K++
Sbjct: 290 FQEDGSWCPMRPKKEAMKVSSQPCTKIESSSV---LSKPCSVTVASEASKKKVDVIDLTI 346
Query: 1211 DEDEDEEDESPKKK 1224
+ DEE++ P K+
Sbjct: 347 ESSSDEEEDPPAKR 360
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
{Saccharomyces cerevisiae} SCOP: e.15.1.1
Length = 223
Score = 28.7 bits (64), Expect = 9.1
Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 313 MDEKEYHRNNTART--QKLNKAIINYHINAEKEQKKEQERIEKERMRRLMAEDEEGYRK- 369
+ E N + + + + +KEQKK+ EK+++R + EE Y+
Sbjct: 74 LKESGGPLNGIEIKEFSRCDFTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEEDYKFC 133
Query: 370 LIDQKKDK 377
+D ++++
Sbjct: 134 ELDGRREQ 141
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
0.314 0.132 0.374
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 19,641,662
Number of extensions: 1249255
Number of successful extensions: 4602
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4107
Number of HSP's successfully gapped: 357
Length of query: 1281
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1176
Effective length of database: 3,770,088
Effective search space: 4433623488
Effective search space used: 4433623488
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 63 (28.8 bits)