RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12466
(680 letters)
>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 = 392 bits (1008), Expect = e-128
Identities = 137/350 (39%), Positives = 196/350 (56%), Gaps = 19/350 (5%)
Query: 347 EEEGQWKHNPSGKPLVDVTVDGFLSRVLKPHQRQGVSFLYERVCDLASLDLEGAILADEM 406
K V V VD LS+VL+PHQR+GV FL++ V + G I+ADEM
Sbjct: 29 ISAHDLIKADKEKLPVHVVVDPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEM 88
Query: 407 GLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVN 466
GLGKTLQCI LIWTLL+Q P P I KV++V+PSSL NW +E KWLG R+ P ++
Sbjct: 89 GLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLG-GRVQPVAID 147
Query: 467 QKNKAE----------DYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNG 516
+K E +P+LIISYE + + + L+ICDEGHRLKN
Sbjct: 148 GGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNS 207
Query: 517 KSKLYELMTGLNIRKRILLSGTPLQNDLQEFFYLNDFANPGVLGSLREFRKNFEEPILES 576
++ Y + +N ++R+L+SGTP+QNDL E+F L F N G+LG+ +EF+K FE PIL+
Sbjct: 208 DNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKG 267
Query: 577 RSPNSTEAQKSLGELRSSQLAKRTAGFILRRT-SDVQASLLNSKRETLLVCRATPLQQSL 635
R ++++ ++ GE + +L ++RRT + L K E ++ C TPLQ+ L
Sbjct: 268 RDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLP-VKIEQVVCCNLTPLQKEL 326
Query: 636 YLRCVEYWDARA------SRDSHLSVTHALRKICNHPGLVQQPDMMEEEG 679
Y ++ S LS +L+K+CNHP L+ + + EEG
Sbjct: 327 YKLFLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEG 376
Score = 84.7 bits (210), Expect = 3e-17
Identities = 31/97 (31%), Positives = 48/97 (49%), Gaps = 11/97 (11%)
Query: 183 HQEKNRRSYILRVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQKNKAE---------- 232
Q + + I +V++V+PSSL NW +E KWLG R+ P ++ +K E
Sbjct: 105 KQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLG-GRVQPVAIDGGSKDEIDSKLVNFIS 163
Query: 233 DYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDE 269
+P+LIISYE + + + L+ICDE
Sbjct: 164 QQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDE 200
Score = 35.7 bits (83), Expect = 0.059
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 321 NSHLSVTHALRKICNHPGLVQQPDVMEEEG 350
S LS +L+K+CNHP L+ + + EEG
Sbjct: 347 VSSLSSITSLKKLCNHPALIYEKCLTGEEG 376
>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 = 199 bits (508), Expect = 1e-56
Identities = 90/309 (29%), Positives = 147/309 (47%), Gaps = 43/309 (13%)
Query: 373 VLKPHQRQGVSFLYERVCDLASLDLEGAILADEMGLGKTLQCIALIWTLLRQGPYGMPVI 432
L+P+Q +G S++ + L G LAD+MGLGKTLQ IA+ ++
Sbjct: 37 NLRPYQIKGFSWMRF----MNKLGF-GICLADDMGLGKTLQTIAVFSDAKKENELT---- 87
Query: 433 RKVLIVTPSSLTSNWNDEFKKWLGLTRMCPYH-VNQKNKAEDYVYSRVSPVLIISYEMLI 491
L++ P S+ NW +E K+ R +H K K EDY +++ +Y +L+
Sbjct: 88 -PSLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDY------DIILTTYAVLL 140
Query: 492 R--AYQTIVDTEFDLLICDEGHRLKNGKSKLYELMTGLNIRKRILLSGTPLQNDLQEFFY 549
R + + E+ ++ DE +KN ++K+++ + L + RI L+GTP++N + + +
Sbjct: 141 RDTRLKEV---EWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWS 197
Query: 550 LNDFANPGVLGSLREFRKNFEEPILESRSPNSTEAQKSLGELRSSQLAKRTAGFILRRT- 608
+ F NPG+LGS EF+ F PI + + E +L + FILRRT
Sbjct: 198 IMTFLNPGLLGSYSEFKSKFATPI-KKGDNMAKE-----------ELKAIISPFILRRTK 245
Query: 609 SDVQ-ASLLNSKRETLLVCRATPLQQSLYLRCVEYWDARASRDSH-------LSVTHALR 660
D + L K ET + C TP Q ++Y VE + LS L+
Sbjct: 246 YDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLK 305
Query: 661 KICNHPGLV 669
+I +HP L+
Sbjct: 306 QIVDHPALL 314
Score = 44.1 bits (105), Expect = 1e-04
Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 12/78 (15%)
Query: 195 VLIVTPSSLTSNWNDEFKKWLGLTRMCPYH-VNQKNKAEDYVYSRVSPVLIISYEMLIR- 252
L++ P S+ NW +E K+ R +H K K EDY +++ +Y +L+R
Sbjct: 89 SLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDY------DIILTTYAVLLRD 142
Query: 253 -AYQTIVDTEFDLLICDE 269
+ + E+ ++ DE
Sbjct: 143 TRLKEV---EWKYIVIDE 157
Score = 30.2 bits (69), Expect = 2.8
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 7/30 (23%)
Query: 330 LRKICNHPGLVQQPDVMEEEGQWKHNPSGK 359
L++I +HP L++ G+ SGK
Sbjct: 304 LKQIVDHPALLK-------GGEQSVRRSGK 326
>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 = 194 bits (494), Expect = 2e-52
Identities = 60/323 (18%), Positives = 118/323 (36%), Gaps = 31/323 (9%)
Query: 374 LKPHQRQGVSFLYERVCDLASLDLEGAILADEMGLGKTLQCIALIWTLLRQGPYGMPVIR 433
L PHQ + R +LADE+GLGKT++ ++ L G
Sbjct: 154 LIPHQLNIAHDVGRR-------HAPRVLLADEVGLGKTIEAGMILHQQLLSGA-----AE 201
Query: 434 KVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQKNKAEDYVYSRVS--PVLIISYEMLI 491
+VLI+ P +L W E + L R + + +A+ Y+ ++I S +
Sbjct: 202 RVLIIVPETLQHQWLVEMLRRFNL-RFALFDDERYAEAQHDAYNPFDTEQLVICSLDFAR 260
Query: 492 R---AYQTIVDTEFDLLICDEGHRL---KNGKSKLYELMTGL--NIRKRILLSGTPLQND 543
R + + + E+DLL+ DE H L ++ S+ Y+ + L ++ +LL+ TP Q
Sbjct: 261 RSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLG 320
Query: 544 LQEFFYLNDFANPGVLGSLREFRKNFEEPILESRSPNSTEAQKSLGELRSSQLAKRTAGF 603
++ F +P +F + + + + A L + L +
Sbjct: 321 MESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQ 380
Query: 604 ILRR-----TSDVQASLLNSKRETLLVCRATPLQQSLY---LRCVEYWDARASRDSHLSV 655
+ SD + + + ++ + L+ V+ + R L +
Sbjct: 381 DIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPL 440
Query: 656 THALRKICNHPGLVQQPDMMEEE 678
+ G++ E+
Sbjct: 441 PTQYQTAIKVSGIMGARKSAEDR 463
Score = 67.8 bits (165), Expect = 8e-12
Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 6/91 (6%)
Query: 184 QEKNRRSYILRVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQKNKAEDYVYSRVS--P 241
++ RVLI+ P +L W E + L R + + +A+ Y+
Sbjct: 192 HQQLLSGAAERVLIIVPETLQHQWLVEMLRRFNL-RFALFDDERYAEAQHDAYNPFDTEQ 250
Query: 242 VLIISYEMLIR---AYQTIVDTEFDLLICDE 269
++I S + R + + + E+DLL+ DE
Sbjct: 251 LVICSLDFARRSKQRLEHLCEAEWDLLVVDE 281
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 192 bits (490), Expect = 3e-52
Identities = 92/316 (29%), Positives = 140/316 (44%), Gaps = 52/316 (16%)
Query: 374 LKPHQRQGVSFLYERVCDLASLDLEGAILADEMGLGKTLQCIALIWTLLR----QGPYGM 429
L+ Q G++++ + ILADEMGLGKT+Q +A I L+ GP+
Sbjct: 237 LRDFQLTGINWMAFLWSKGDN-----GILADEMGLGKTVQTVAFISWLIFARRQNGPH-- 289
Query: 430 PVIRKVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQKNKA---EDYVYSRVSP----- 481
+IV P S W D F+KW Y NQK++ E Y+
Sbjct: 290 ------IIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKT 343
Query: 482 ----VLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLYELMTGLNIRKRILLSG 537
VL+ +YE +++ + ++ + DE HRLKN +S LYE + + R+L++G
Sbjct: 344 MKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITG 403
Query: 538 TPLQNDLQEFFYLNDFANPGVLGSLREFRKNFEEPILESRSPNSTEAQKSLGELRSSQLA 597
TPLQN+++E L +F PG +E ++ E Q E L
Sbjct: 404 TPLQNNIKELAALVNFLMPGRFTIDQEIDFENQD-----------EEQ----EEYIHDLH 448
Query: 598 KRTAGFILRRT-SDVQASLLNSKRETLLVCRATPLQQSLYLRCVEY------WDARASRD 650
+R FILRR DV+ SL SK E +L + +Q Y + A+
Sbjct: 449 RRIQPFILRRLKKDVEKSLP-SKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHF 507
Query: 651 SHLSVTHALRKICNHP 666
S L++ + L+K NHP
Sbjct: 508 SLLNIMNELKKASNHP 523
Score = 42.8 bits (101), Expect = 3e-04
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 12/86 (13%)
Query: 196 LIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQKNKA---EDYVYSRVSP---------VL 243
+IV P S W D F+KW Y NQK++ E Y+ VL
Sbjct: 290 IIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVL 349
Query: 244 IISYEMLIRAYQTIVDTEFDLLICDE 269
+ +YE +++ + ++ + DE
Sbjct: 350 LTTYEYILKDRAELGSIKWQFMAVDE 375
Score = 29.0 bits (65), Expect = 6.5
Identities = 9/57 (15%), Positives = 21/57 (36%), Gaps = 5/57 (8%)
Query: 330 LRKICNHPGLVQQPDVMEEEGQWKHNPSGKPLVDVTVDG-----FLSRVLKPHQRQG 381
L+K NHP L + + + + ++ + L ++L ++ G
Sbjct: 516 LKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDG 572
>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 = 66.0 bits (160), Expect = 3e-11
Identities = 99/618 (16%), Positives = 183/618 (29%), Gaps = 185/618 (29%)
Query: 90 ILKDTLGKVI-DSKVK-ILDEIKPGTSS------LQSSPRLNASDNVQSSTVNAQTSSVN 141
IL + + K + D K S + S ++ + + + ++ Q V
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 142 AQTSSVSASSSLPWRPVKKSRLSLHAKTEVNPLILPKPIVDHQEKNRRSYILRVLIVTPS 201
V + + L PI E+ + S + R+ I
Sbjct: 81 KFVEEVLRIN-YKF--------------------LMSPI--KTEQRQPSMMTRMYIEQRD 117
Query: 202 SLTSNWND--EFKKWLGLTRMCPYHVN---QKNKAEDYVYS-RVSPVLIISYEML----- 250
L +ND F K Y+V+ K + R + ++I +L
Sbjct: 118 RL---YNDNQVFAK---------YNVSRLQPYLKLRQALLELRPAKNVLI-DGVLGSGKT 164
Query: 251 ------IRAYQTIVDTEFDLLI-------CDE-KSLLKPPSGNSPGNDSGIPSLPRKSDS 296
+Y+ V + D I C+ +++L+ + L + D
Sbjct: 165 WVALDVCLSYK--VQCKMDFKIFWLNLKNCNSPETVLEM-----------LQKLLYQIDP 211
Query: 297 GIGSLPCKRPLEESTAETLQCNQINSHLSVTHALRKICNHPGL-----VQQPDVMEEEGQ 351
S + S+ L+ + I + L + N L VQ
Sbjct: 212 NWTSRS-----DHSSNIKLRIHSIQAELRRLLKSKPYEN--CLLVLLNVQNAKA------ 258
Query: 352 WKH-NPSGKPLVDVTVDGFLSRVLKPHQRQGVS-------FLYERVCDLAS--LDLEGAI 401
W N S K L+ T ++ L +S + V L LD
Sbjct: 259 WNAFNLSCKILL-TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317
Query: 402 LADEMGLGKTLQCIALIWTLLRQGP-----YGMPVIRKVLIVTPSSLTSNWNDEFKK--- 453
L E+ + +++I +R G + K+ + SSL E++K
Sbjct: 318 LPREVLTTNPRR-LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 454 -------------------WLGLTRMCPYH----------VNQKNKAEDY----VYSRVS 480
W + + V ++ K +Y +
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 481 PVLIISYEM---LIRAYQTIVDTEFDLLICDE---------GHRLKN-GKSKLYELMTG- 526
L Y + ++ Y + D LI GH LKN + L
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 527 -LN---IRKRILLSGTP------LQNDLQEF-FYL-----NDFANPGVLGSLREFRKNFE 570
L+ + ++I T + N LQ+ FY ND ++ ++ +F E
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE 556
Query: 571 EPILESRSPNSTEAQKSL 588
E ++ S + + +L
Sbjct: 557 ENLI--CSKYTDLLRIAL 572
Score = 51.8 bits (123), Expect = 8e-07
Identities = 49/307 (15%), Positives = 89/307 (28%), Gaps = 79/307 (25%)
Query: 395 LDLEGAILADE-----MGLGKTL-QCIALIWTLLRQGP--------------YG--MPVI 432
D+ +IL+ E + + + L WTLL + Y M I
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI 98
Query: 433 RKVLIVTPSSLTSNWNDEFKK-WLGLTRMCPYHVN---QKNKAEDYVYS-RVSPVLIISY 487
+ PS +T + ++ + + Y+V+ K + R + ++I
Sbjct: 99 KTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI-D 156
Query: 488 EML-----------IRAYQTIVDTEFDLLI-------CDEGHRLKNGKSKLYELMTG--- 526
+L +Y+ V + D I C+ + KL +
Sbjct: 157 GVLGSGKTWVALDVCLSYK--VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 527 ---------------LNIRKRILLSGTPLQNDLQEFFYLNDFANPGVLGSLREFRKNFEE 571
+ R LL P +N L L + N F N
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL---LVLLNVQNAKA---WNAF--NLSC 266
Query: 572 PIL-ESRSPNSTEAQKSLGELRSSQLAKRTAGFILRRTSDVQASLLNSKRETL--LVCRA 628
IL +R T+ + S L + + L+ + + L V
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHIS-LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 629 TPLQQSL 635
P + S+
Sbjct: 326 NPRRLSI 332
Score = 43.3 bits (101), Expect = 3e-04
Identities = 54/255 (21%), Positives = 78/255 (30%), Gaps = 69/255 (27%)
Query: 468 KNKAEDYVYSRVSPVLIISYEMLIRAYQT-IVDTEFDLLICDEGH-RLKNGKSKLYELMT 525
+K E+ V V VL I+Y+ L+ +T + E RL N ++
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN----QVFA 127
Query: 526 GLNI-RKRILLSGTPLQNDLQEFFYLNDFAN---PGVLGS---------LREFR--KNFE 570
N+ R + L L+ L E L N GVLGS ++ +
Sbjct: 128 KYNVSRLQPYLK---LRQALLE---LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 571 EPIL-----ESRSPNST-EAQKSLGELRSSQLAKRTAGF--ILRRTSDVQAS---LLNSK 619
I SP + E + L R+ I R +QA LL SK
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 620 R--ETLLVCRATPLQQSLYLRCVEYWDARA-------------SRDSHLSVTHALR-KIC 663
LLV L V +A+A +R VT L
Sbjct: 242 PYENCLLV-----------LLNV--QNAKAWNAFNLSCKILLTTRFK--QVTDFLSAATT 286
Query: 664 NHPGLVQQPDMMEEE 678
H L + +
Sbjct: 287 THISLDHHSMTLTPD 301
Score = 40.6 bits (94), Expect = 0.002
Identities = 48/352 (13%), Positives = 98/352 (27%), Gaps = 104/352 (29%)
Query: 1 MAGKDLTNVLDILNEAYLDQE--EQFD-------STLSKENHNYVYPEPGGTEVSEAQNS 51
+ K N L +L + + F+ +T K+ +++ +
Sbjct: 238 LKSKPYENCLLVLLNVQ-NAKAWNAFNLSCKILLTTRFKQVTDFL----SAATTTHISLD 292
Query: 52 NHATSVT---------RIFNVVYGK--PSAKKHKS------WE--QDGVLEISGTMAILK 92
+H+ ++T + + E +DG+ +
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 93 DTLGKVIDSKVKILD--EIKPGTSSLQSSPRLNASDNVQSSTVNAQTSSV---NAQTSSV 147
D L +I+S + +L+ E + L P + + S+ + S V
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFP-----PSAH---IPTILLSLIWFDVIKSDV 404
Query: 148 S------ASSSLPWRPVKKSRLSLHA------KTEVNPLILPKPIVDHQEKNRRSYILRV 195
SL + K+S +S+ + N L + IVDH +
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD---- 460
Query: 196 LIVTPSSLTSNWNDE-FKKWLGLTRMCPYHVNQKNKAEDY-----VY------------- 236
L + D+ F +G +H+ E V+
Sbjct: 461 ----SDDLIPPYLDQYFYSHIG------HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510
Query: 237 -------SRVSPVL--IISYEMLIRAYQTIVDTEFDLLICDEKSLLKPPSGN 279
+ L + Y + Y D +++ L+ L N
Sbjct: 511 STAWNASGSILNTLQQLKFY----KPYICDNDPKYERLVNAILDFLPKIEEN 558
>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 = 61.8 bits (150), Expect = 4e-10
Identities = 28/134 (20%), Positives = 47/134 (35%), Gaps = 24/134 (17%)
Query: 407 GLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPS-SLTSNWNDEFKKWLGLTRMCPYHV 465
G GKT +A I L LIV P+ +L W + + G + +
Sbjct: 118 GSGKTHVAMAAINELST----------PTLIVVPTLALAEQWKERLGIF-GEEYVGEFSG 166
Query: 466 NQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLYELMT 525
K + P+ + +Y+ + + + F LLI DE H L ++
Sbjct: 167 RIKE---------LKPLTVSTYDSAYVNAEKLGN-RFMLLIFDEVHHL--PAESYVQIAQ 214
Query: 526 GLNIRKRILLSGTP 539
R+ L+ T
Sbjct: 215 MSIAPFRLGLTATF 228
Score = 39.8 bits (93), Expect = 0.002
Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 12/77 (15%)
Query: 194 RVLIVTPS-SLTSNWNDEFKKWLGLTRMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIR 252
LIV P+ +L W + + G + + K + P+ + +Y+
Sbjct: 135 PTLIVVPTLALAEQWKERLGIF-GEEYVGEFSGRIKE---------LKPLTVSTYDSAYV 184
Query: 253 AYQTIVDTEFDLLICDE 269
+ + + F LLI DE
Sbjct: 185 NAEKLGN-RFMLLIFDE 200
>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 = 59.4 bits (143), Expect = 2e-09
Identities = 34/270 (12%), Positives = 86/270 (31%), Gaps = 19/270 (7%)
Query: 401 ILADEMGLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFKKWLGLT-- 458
++ GLGKTL + + L + + +++ L + F++ L
Sbjct: 27 LIVLPTGLGKTLIAMMIAEYRLTK-----YGGKVLMLAPTKPLVLQHAESFRRLFNLPPE 81
Query: 459 RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQ--TIVDTEFDLLICDEGHRLKNG 516
++ + + ++R + V++ + + + I + L++ DE HR
Sbjct: 82 KIVALTGEKSPEERSKAWAR-AKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGN 140
Query: 517 KS--KLYELMTGLNIRKRIL-LSGTPL--QNDLQEFFYLNDFANPGVLGSLREF-RKNFE 570
+ + ++ L+ +P + E + R +
Sbjct: 141 YAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENSPDVRPYVK 200
Query: 571 EPILESRSPNSTEAQKSLGELRSSQLAKRTAGFILRRTSDVQASLLNSKRETLLVCRATP 630
E + E K + +L L L T +++S + ++ +L
Sbjct: 201 GIRFEWVRVDLPEIYKEVRKLLREMLRDALK--PLAETGLLESSSPDIPKKEVLRAGQI- 257
Query: 631 LQQSLYLRCVEYWDARASRDSHLSVTHALR 660
+ + + + L + HA+
Sbjct: 258 INEEMAKGNHDLRGLLLYHAMALKLHHAIE 287
>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 = 58.1 bits (140), Expect = 8e-09
Identities = 90/555 (16%), Positives = 155/555 (27%), Gaps = 203/555 (36%)
Query: 11 DILNEAYLDQEEQFDSTLSKEN-HNYVYPEPGGTEVSEAQNSNHATSVTRIF---NVVYG 66
+LN + E + L + H + + + + + + ++
Sbjct: 82 QVLNLCLTEFENCY---LEGNDIHALAAKLLQENDTTLVKTK----ELIKNYITARIMAK 134
Query: 67 KPSAKKHKSWEQDGVLEISGTMAILKDTLGKVIDSKVKI-------------LDEIKPGT 113
+P KK S A+ + V + ++ +E++
Sbjct: 135 RPFDKKSNS-------------ALFR----AVGEGNAQLVAIFGGQGNTDDYFEELR--- 174
Query: 114 SSLQSSPRLNASDNVQSSTVNAQTSSVNAQTSSVSASSSLP---WRPVKKSRLSLHAKTE 170
L + + D ++ S + + L W L
Sbjct: 175 -DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW---------LE---- 220
Query: 171 VNPLILPKPIVDHQEKNRRSYILRVLIVTPSSLTSNWNDEFKKWLGLTRMCPYHVNQK-- 228
NP P Y+L + P S +G+ ++ Y V K
Sbjct: 221 -NPSNTPDK----------DYLLSI----PISC---------PLIGVIQLAHYVVTAKLL 256
Query: 229 --NKAEDYVYSR---------VSPVLI---ISYEMLIRAYQTIVDTEFDLLI---CDE-- 269
E Y + V+ V I S+E + + + F I C E
Sbjct: 257 GFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF--FIGVRCYEAY 314
Query: 270 --KSLLKPPS--GNSPGNDSGIPS-------LPRKS-DSGIGSLPCKRPLEESTAETLQC 317
SL PPS +S N+ G+PS L ++ + P + +L
Sbjct: 315 PNTSL--PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL-- 370
Query: 318 NQINS--HLSVT----------HALRKICNHPGLVQQPDVMEEEGQWKHNPSGKPLVDVT 365
+N +L V+ LRK GL Q E K
Sbjct: 371 --VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSER---------KLKFSNR 419
Query: 366 VDGFLSRVLKP-HQRQGVSFLYERVCDLASLDLEG---AILADEMGL-------GKTLQ- 413
FL V P H S L DL + DL + A ++ + G L+
Sbjct: 420 ---FL-PVASPFH-----SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRV 470
Query: 414 -----------CIA---LIWTLLRQ---------GPYGMPVIRKVL----------IVTP 440
CI + W Q GP G + + ++
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVA 530
Query: 441 SSLTSNWNDE--FKK 453
+L N +D+ FK+
Sbjct: 531 GTLDINPDDDYGFKQ 545
Score = 56.2 bits (135), Expect = 3e-08
Identities = 96/559 (17%), Positives = 154/559 (27%), Gaps = 223/559 (39%)
Query: 173 PLILPKPIVDHQEKNRRSYILRVLIVTPSSLTSNWN---DEFKKWLGL-TRMCPYHVNQK 228
PL L H L +++ P++ + ++F K L T
Sbjct: 8 PLTL-----SHGS-------LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 229 NKAE------DYVYSRVSPVLIISYEMLIRAYQTIVDTEF----D-------LLICDEKS 271
AE YV S V P + ++ ++ T + + D LL ++ +
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 272 LLKPPS-----------GNSPGNDSGIPSLPRKSDSGIGSL------------------- 301
L+K P + +L R G L
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 302 ------PCKRPLEESTAETLQCNQINSHLSVTHALRKICNHPGLVQQPDVMEEEGQWKHN 355
L + +AETL + T K+ GL +++ +W N
Sbjct: 176 LYQTYHVLVGDLIKFSAETLS-----ELIRTTLDAEKVFTQ-GL----NIL----EWLEN 221
Query: 356 PSGKPLVDVTVDGFLSRVLKPHQRQGVSFLYERVCDLASLDLEGAILADEMGLGKTLQCI 415
PS P D +L + P +S C L I G+ +Q
Sbjct: 222 PSNTPDKD-----YLLSI--P-----IS------CPL--------I-----GV---IQLA 247
Query: 416 ALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFKKWL-GLTRMCPYHVNQKNKAEDY 474
+ V K+L TP E + +L G T +
Sbjct: 248 HYV------------VTAKLLGFTPG--------ELRSYLKGAT-GHSQGL--------- 277
Query: 475 VYSRVSPVLI---ISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLYELMTGLNIRK 531
V+ V I S+E + + + F I G R
Sbjct: 278 ----VTAVAIAETDSWESFFVSVRKAITVLF--FI---GVR-------------CYEAYP 315
Query: 532 RILLSGTPLQNDLQEFFYLNDFANPGVLGSLREFRKNFEEPILESRSPNSTEAQKSLGEL 591
L + L++ L+ N+ P P+L + + Q + +
Sbjct: 316 NTSLPPSILEDSLE-----NNEGVPS--------------PMLSISNLTQEQVQDYVNKT 356
Query: 592 RSSQLAKRTAGFILRRTSDVQASLLNSKRETLLVCRATPLQQSLYLRCVEYWDARASRDS 651
S L V+ SL+N + LV P QSLY
Sbjct: 357 NSH----------LPAGKQVEISLVNGAKN--LVVSGPP--QSLY--------------- 387
Query: 652 HLSVTHALRKICNHPGLVQ 670
+ LRK GL Q
Sbjct: 388 --GLNLTLRKAKAPSGLDQ 404
Score = 55.4 bits (133), Expect = 6e-08
Identities = 104/714 (14%), Positives = 180/714 (25%), Gaps = 322/714 (45%)
Query: 54 ATSVTRIFNVVYGKPSAKKHKSWEQDGVLEISGTMAI----LKDTLGKVIDSKVKILDEI 109
A S TR + +G S E VL + L++
Sbjct: 3 AYS-TRPLTLSHG--------SLEH--VLLVPTASFFIASQLQEQF-------------- 37
Query: 110 KPGTSSLQSSPRLNASDNVQSSTVNAQTSSVNAQTSSVSASSSLPWRPVKKSRLSLHAK- 168
L A+D+ ++ L K
Sbjct: 38 ---NKILPEPTEGFAADDEPTTPA------------------------------ELVGKF 64
Query: 169 -----TEVNPLILPKPIVDHQEKNRRSYILRVLIVTPSSLTSNWNDEF-KKWLGLTRMCP 222
+ V P + + +L + + EF +L
Sbjct: 65 LGYVSSLVEP----------SKVGQFDQVLNLCL-----------TEFENCYL------- 96
Query: 223 YHVNQKNKAEDYVYSRVSPVL------IISYEMLIRAYQTIVDTEFDLLICDEKSLLKPP 276
+ D +++ + +L ++ + LI+ Y I ++ K
Sbjct: 97 -------EGND-IHALAAKLLQENDTTLVKTKELIKNY-------ITARIMAKRPFDKKS 141
Query: 277 SGNSPGNDSGIPSLPRKSDSGIGSL-------------------------PCKRPLEEST 311
+ +L R G L L + +
Sbjct: 142 N----------SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 312 AETLQCNQINSHLSVTHALRKICNHPGLVQQPDVMEEEGQWKHNPSGKPLVDVTVDGFLS 371
AETL + T K+ GL +++ +W NPS P D +L
Sbjct: 192 AETLS-----ELIRTTLDAEKVFTQ-GL----NIL----EWLENPSNTPDKD-----YLL 232
Query: 372 RVLKPHQRQGVSF----L-----YERVCDLASLDLEGAILADEM-GLGKTLQCIALIWTL 421
+ P +S + Y L L L + G T
Sbjct: 233 SI--P-----ISCPLIGVIQLAHYVVTAKL--LGFTPGELRSYLKGA-----------TG 272
Query: 422 LRQGPYGMPVIRKVLIVTPSSLTSNWNDEFKK----------WLGL--------TRMCPY 463
QG ++ V I + T +W + F ++G+ T + P
Sbjct: 273 HSQG-----LVTAVAI----AETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 464 HVNQKNKAEDYVYSRV---SPVLIIS------YEMLIRAYQTIVDTEFDLLICDEGHRLK 514
+ ED + + SP+L IS + + + + + I L
Sbjct: 323 IL------EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI-----SLV 371
Query: 515 NGKSKLYELMTGLNIRKRILLSGTPLQNDLQEFFYLNDFANPGVLGSLREFRKNFEEPIL 574
NG K +++SG P L G RK L
Sbjct: 372 NG-------------AKNLVVSGPPQ--SLY--------------GLNLTLRKAKAPSGL 402
Query: 575 E-SRSPNSTEAQKSLGELR---------SSQLAKRTAGFILRRTSDVQASLLNSKRETLL 624
+ SR P S +K R S L + D+ + ++ + +
Sbjct: 403 DQSRIPFS--ERKLKFSNRFLPVASPFHSHLLVPASDLIN----KDLVKNNVSFNAKDI- 455
Query: 625 VCRATP------------LQQSLYLRCVE-------YWDARASRDSHLSVTHAL 659
P L S+ R V+ W+ TH L
Sbjct: 456 ---QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTT----QFKATHIL 502
Score = 45.0 bits (106), Expect = 9e-05
Identities = 62/388 (15%), Positives = 111/388 (28%), Gaps = 127/388 (32%)
Query: 2 AGKDLTNVLDILNEAYLDQEEQ------FDS--------TLSKENHNYVYPEPGGTEVSE 47
A K T L+IL +L+ S + + H V + G E
Sbjct: 205 AEKVFTQGLNIL--EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE 262
Query: 48 AQNSNHATSVTRIFNVVYGKPSAKKHKSWEQDGVLEISGTMAILKDTLGKVIDSKVKILD 107
++ + +V A+ SWE + + + +L
Sbjct: 263 LRSYLKGAT-GHSQGLVTAVAIAET-DSWE----------------SFFVSVRKAITVLF 304
Query: 108 EIKPGTSSLQSSPRLN-ASDNVQSSTVNAQTSSVNAQTSSVSASSSLPWRPVKKSRLSLH 166
I G ++ P + ++ S N + S L + + ++ +
Sbjct: 305 FI--GVRCYEAYPNTSLPPSILEDSLENNEGV----------PSPMLSISNLTQEQVQDY 352
Query: 167 AKTEVNPLILPKPIVDHQEKNRRSYI-L----RVLIVT--PSSLTSNWNDEFKKWL---- 215
+ N H ++ I L + L+V+ P SL L
Sbjct: 353 VN-KTN---------SHLPAGKQVEISLVNGAKNLVVSGPPQSLYG-----LNLTLRKAK 397
Query: 216 ---GL--TRM-----------------CPYHVNQKNKAEDYVYSRVSP--VLIISYEMLI 251
GL +R+ P+H + A D + + V + ++ I
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Query: 252 RAYQT------------IVDTEFDLLICD----EKSLLKPPS-----GNSPGNDSGIPSL 290
Y T I + D +I E + + G PG SG+ L
Sbjct: 458 PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG--PGGASGLGVL 515
Query: 291 PRKSDSGIGSLPCKRPLEESTAETLQCN 318
++ G G + A TL N
Sbjct: 516 THRNKDGTG-------VRVIVAGTLDIN 536
Score = 38.1 bits (88), Expect = 0.012
Identities = 44/281 (15%), Positives = 77/281 (27%), Gaps = 85/281 (30%)
Query: 424 QG---PYGM--------PVIRKVLIVTPSSLTSNWN--DE-FKKWLGLTRMCPYHVNQKN 469
QG GM + V WN D FK G + + N
Sbjct: 1624 QGSQEQ-GMGMDLYKTSKAAQDV-----------WNRADNHFKDTYGFS---ILDIVINN 1668
Query: 470 KAEDYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLYELMTGLNI 529
PV + + + + I + + +I + +GK K ++ +N
Sbjct: 1669 -----------PVNLTIHFGGEKG-KRIREN-YSAMIFETI---VDGKLKTEKIFKEINE 1712
Query: 530 RKRILLSGTPLQNDLQEFFYLNDFANPGVL----GSLREFRKNFEEPILESRSPNSTEAQ 585
+ + F P + + + + P ++T A
Sbjct: 1713 HSTSYTFRSE-----KGLLSATQFTQPALTLMEKAAFEDLKSKGLIP------ADATFAG 1761
Query: 586 KSLGELRSSQLAKRTAGFI----------LR-RTSDVQASLLNSKRETLLVCRATPLQQS 634
SLGE + LA A + R T V R + P + +
Sbjct: 1762 HSLGEY--AALAS-LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVA 1818
Query: 635 LYLR--CVEYWDARASRDSHLSVTHALRKICNH--PGLVQQ 671
++Y R + + V I N+ QQ
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVE-----IVNYNVEN--QQ 1852
Score = 33.9 bits (77), Expect = 0.21
Identities = 39/244 (15%), Positives = 74/244 (30%), Gaps = 84/244 (34%)
Query: 1 MAGKDLTN----VLDILNEAYLDQEEQFDSTLSKENHNYVYPEPGGTEVSEAQNSNHATS 56
M G DL D+ N A + F T G + + +N +
Sbjct: 1631 M-GMDLYKTSKAAQDVWNRA----DNHFKDTY-------------GFSILDIVINN-PVN 1671
Query: 57 VTRIFNVVYGKPSAKKHKSWEQDGVLEISGTMAILKDTLGKVIDSKVKILDEIKPGTSSL 116
+T F GK + + A++ +T+ KI EI ++S
Sbjct: 1672 LTIHFGGEKGKRIRENY--------------SAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
Query: 117 Q-SSPR--LNASDNVQSSTVNAQTSSVNAQTSSVSASSSLPWRPVKKSRL---------- 163
S + L+A T Q + +A + +K L
Sbjct: 1718 TFRSEKGLLSA-------TQFTQPALT---LMEKAA-----FEDLKSKGLIPADATFAGH 1762
Query: 164 S------LHAKTEVNPL-----------ILPKPIVDHQEKNRRSYILRVLIVTPSSLTSN 206
S L + +V + + + V E R +Y ++ + P + ++
Sbjct: 1763 SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNY--GMIAINPGRVAAS 1820
Query: 207 WNDE 210
++ E
Sbjct: 1821 FSQE 1824
>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 = 54.7 bits (132), Expect = 2e-08
Identities = 35/197 (17%), Positives = 63/197 (31%), Gaps = 41/197 (20%)
Query: 355 NPSGKPLVDVTVDGFLSRVLK------PHQRQGVSFLYERVCDLASLDLEGAILADEMGL 408
+G VD D + +Q + + L + + G
Sbjct: 69 ESNGIEFVDNAADPIPTPYFDAEISLRDYQEKALE---------RWLVDKRGCIVLPTGS 119
Query: 409 GKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPS-SLTSNWNDEFKKWLGLTRMCPYHVNQ 467
GKT +A I L LIV P+ +L W + + + +
Sbjct: 120 GKTHVAMAAINELST----------PTLIVVPTLALAEQWKERLGIFGE-EYVGEFSGRI 168
Query: 468 KNKAEDYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLYE-LMTG 526
K + P+ + +Y+ + + + F LLI DE H L ++ Y +
Sbjct: 169 KE---------LKPLTVSTYDSAYVNAEKLGN-RFMLLIFDEVHHL---PAESYVQIAQM 215
Query: 527 LNIRKRILLSGTPLQND 543
R+ L+ T + D
Sbjct: 216 SIAPFRLGLTATFERED 232
Score = 36.6 bits (85), Expect = 0.018
Identities = 15/77 (19%), Positives = 29/77 (37%), Gaps = 12/77 (15%)
Query: 194 RVLIVTPS-SLTSNWNDEFKKWLGLTRMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIR 252
LIV P+ +L W + + + + K + P+ + +Y+
Sbjct: 135 PTLIVVPTLALAEQWKERLGIFGE-EYVGEFSGRIKE---------LKPLTVSTYDSAYV 184
Query: 253 AYQTIVDTEFDLLICDE 269
+ + + F LLI DE
Sbjct: 185 NAEKLGN-RFMLLIFDE 200
>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 = 53.8 bits (130), Expect = 4e-08
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 591 LRSSQLAKRTAGFILRRTSDVQASLLNSKRETLLVCRATPLQQSLY-------LRCVEYW 643
+ SS + ++ R S + AS L K ET + C TP Q ++Y ++
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHM-ASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSV 59
Query: 644 DARASRDSHLSVTHALRKICNHPGLV 669
+ LS L++I +HP L+
Sbjct: 60 TGIKRKGMILSTLLKLKQIVDHPALL 85
Score = 29.5 bits (67), Expect = 3.1
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 7/30 (23%)
Query: 330 LRKICNHPGLVQQPDVMEEEGQWKHNPSGK 359
L++I +HP L+ + G+ SGK
Sbjct: 75 LKQIVDHPALL-------KGGEQSVRRSGK 97
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 39.2 bits (90), Expect = 0.005
Identities = 28/201 (13%), Positives = 64/201 (31%), Gaps = 9/201 (4%)
Query: 393 ASLDLEGAILADEMGLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPS-SLTSNWNDEF 451
++ + I+ G GKT + + L++ P G KV+ + F
Sbjct: 24 PAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK--GKVVFFANQIPVYEQNKSVF 81
Query: 452 KKWLGLT--RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQT---IVDTEFDLLI 506
K+ R+ + ++I++ ++L+ + + F L+I
Sbjct: 82 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 141
Query: 507 CDEGHRLKNGKSKLYELMTGLNIRKRILLSGTPLQNDLQEFFYLNDFANPG-VLGSLREF 565
DE H + L+ + P L + D L + +
Sbjct: 142 FDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAKTTDEALDYICKL 201
Query: 566 RKNFEEPILESRSPNSTEAQK 586
+ + ++ + N E ++
Sbjct: 202 CASLDASVIATVKHNLEELEQ 222
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 38.2 bits (89), Expect = 0.009
Identities = 33/154 (21%), Positives = 59/154 (38%), Gaps = 9/154 (5%)
Query: 407 GLGKTLQCIALIWTLLRQGPYGMPVIR--KVLIVTP-SSLTSNWNDEFKKWLGLTRMCPY 463
G GKT+ + W L R ++L + + L + D+ G
Sbjct: 208 GTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFG-DARHKI 266
Query: 464 HVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVDTEFDLLICDEGHRLKNGKSKLY-E 522
+ K+ + ++ I S E Y+ FDL+I DE HR + + E
Sbjct: 267 EGGKVVKSREIYFA--IYQSIASDERRPGLYKEFPQDFFDLIIIDECHRGSARDNSNWRE 324
Query: 523 LMTGLNIRKRILLSGTPLQNDLQEFFYLNDFANP 556
++ +I ++ TPL+ D ++ + F NP
Sbjct: 325 ILEYFEPAFQIGMTATPLREDNRDTYRY--FGNP 356
>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 = 36.9 bits (84), Expect = 0.027
Identities = 31/200 (15%), Positives = 66/200 (33%), Gaps = 8/200 (4%)
Query: 393 ASLDLEGAILADEMGLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFK 452
+++ + A++ G GKT I + + P G + V + T + + FK
Sbjct: 259 PAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRK-AKVVFLATKVPVYEQQKNVFK 317
Query: 453 KWLGLT--RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQT---IVDTEFDLLIC 507
+ + S +++++ ++L+ +++ + F L+I
Sbjct: 318 HHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIF 377
Query: 508 DEGHRLKNGKSKLYELMTGLNIRKRILLSGTP-LQNDLQEFFYLNDFANPGVLGSLREFR 566
DE H G LMT +K S P + N + +
Sbjct: 378 DECHNTT-GNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLC 436
Query: 567 KNFEEPILESRSPNSTEAQK 586
+ + + N E Q+
Sbjct: 437 SYLDIQAISTVRENIQELQR 456
>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 = 34.5 bits (78), Expect = 0.043
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 108 EIKPGTSSLQSSPRLNASDNVQSSTVNAQ 136
+K LQ+S +L A D+ + + A
Sbjct: 21 ALK----KLQASLKLYADDSAPALAIKAT 45
>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 = 34.9 bits (79), Expect = 0.095
Identities = 32/200 (16%), Positives = 68/200 (34%), Gaps = 8/200 (4%)
Query: 393 ASLDLEGAILADEMGLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFK 452
+++ + A++ G GKT I + + P G + V + T + + FK
Sbjct: 259 PAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRK-AKVVFLATKVPVYEQQKNVFK 317
Query: 453 KWLGLT--RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQT---IVDTEFDLLIC 507
+ + S +++++ ++L+ +++ + F L+I
Sbjct: 318 HHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIF 377
Query: 508 DEGHRLKNGKSKLYELMTGLNIRKRILLSGTPLQNDLQEFFYLNDFANP-GVLGSLREFR 566
DE H G LMT +K S P L + + N + +
Sbjct: 378 DECHNTT-GNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLC 436
Query: 567 KNFEEPILESRSPNSTEAQK 586
+ + + N E Q+
Sbjct: 437 SYLDIQAISTVRENIQELQR 456
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 34.1 bits (77), Expect = 0.16
Identities = 24/201 (11%), Positives = 63/201 (31%), Gaps = 25/201 (12%)
Query: 401 ILADEMGLGKTLQCIALIWTLLRQGPYGMPVIRKVLIVTPS-SLTSNWNDEFKKWLGLT- 458
I+ G GKT + + L++ P G KV+ + F ++
Sbjct: 23 IICAPTGCGKTFVSLLICEHHLKKFPCGQK--GKVVFFANQIPVYEQQATVFSRYFERLG 80
Query: 459 -RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVD---TEFDLLICDEGHRLK 514
+ + + ++I++ ++L+ + F L+I DE H
Sbjct: 81 YNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMIFDECHNTS 140
Query: 515 NGKS--------KLYELMTGLNIRKRIL-LSGTPLQNDLQEFFYLNDFANPGVLGSLREF 565
++L + +++ L+ + D + + + +
Sbjct: 141 KNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTA--------EEAMQHICKL 192
Query: 566 RKNFEEPILESRSPNSTEAQK 586
+ ++ + N E ++
Sbjct: 193 CAALDASVIATVRDNVAELEQ 213
>1nyn_A Hypothetical 12.0 kDa protein in NAM8-GAR1 intergenic region;
hypothetical protein, structural genomics, PSI; NMR
{Saccharomyces cerevisiae} SCOP: d.235.1.1
Length = 131
Score = 31.6 bits (71), Expect = 0.30
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 13/77 (16%)
Query: 351 QWKHNPSGKPLVDVTVDGFLSRVLKPHQRQGVSFLYERVCDLASLDLEGAILADEMGLGK 410
++ NPS L +V V+ F V P +G E AS A + +E G GK
Sbjct: 48 EYLKNPSIGKLSEV-VELF--EVFTPQDGRGA----EGELGAAS----KAQVENEFGKGK 96
Query: 411 TLQCIALIWTLLRQGPY 427
++ + I +LR G
Sbjct: 97 KIEEV--IDLILRNGKP 111
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 30.2 bits (68), Expect = 2.3
Identities = 19/145 (13%), Positives = 50/145 (34%), Gaps = 20/145 (13%)
Query: 400 AILADEMGLGKTLQCI-ALIWTLLRQGPYGMPVIRKVLIVTPSSLTSNWNDEFKKWLGLT 458
I+ G GKT + + +++ L + + LI+ P+ + + E ++
Sbjct: 22 TIMDLHPGAGKTKRILPSIVREALLRR-------LRTLILAPTRVVA---AEMEE----- 66
Query: 459 RMCPYHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVD-TEFDLLICDEGHRLKNGK 517
+ + + A ++ V ++ + + ++L++ DE H
Sbjct: 67 ALRGLPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCS 126
Query: 518 SKLYELMTGLNIR---KRILLSGTP 539
++ I ++ TP
Sbjct: 127 VAARGYISTRVEMGEAAAIFMTATP 151
>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 = 29.9 bits (67), Expect = 2.5
Identities = 12/72 (16%), Positives = 22/72 (30%), Gaps = 13/72 (18%)
Query: 616 LNSKRETLLVCRATPLQQSLY-----------LRCVEYWDARAS--RDSHLSVTHALRKI 662
N+ + L + Q+ L LR E + +S ++ +
Sbjct: 20 GNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKEDVILESMKTMCLNGSLV 79
Query: 663 CNHPGLVQQPDM 674
HP L+ M
Sbjct: 80 ATHPYLLIDHYM 91
Score = 29.5 bits (66), Expect = 4.1
Identities = 7/36 (19%), Positives = 11/36 (30%), Gaps = 7/36 (19%)
Query: 330 LRKICNHPGLV------QQPDVMEEEGQWKHNPSGK 359
+ HP L+ + + N SGK
Sbjct: 76 GSLVATHPYLLIDHYMPKSLITRDVPAHLAEN-SGK 110
>3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_1* 2fug_1* 3iam_1* 3ias_1*
3m9s_1*
Length = 438
Score = 29.4 bits (67), Expect = 3.9
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 554 ANPGVLGSLREFRKNFEEPILESRSPNSTEAQK 586
P V GSLR F+ + E R +
Sbjct: 407 VWP-VKGSLRHFKDQYLALAREKRPVPRPSLWR 438
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 28.8 bits (64), Expect = 7.2
Identities = 9/81 (11%), Positives = 25/81 (30%), Gaps = 4/81 (4%)
Query: 463 YHVNQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVD-TEFDLLICDEGHRLKNGKSKLY 521
+ + A ++ V ++ + + ++L++ DE H
Sbjct: 238 LPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAAR 297
Query: 522 ELMTGLNIRKR---ILLSGTP 539
++ I ++ TP
Sbjct: 298 GYISTRVEMGEAAAIFMTATP 318
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 28.7 bits (64), Expect = 7.7
Identities = 13/82 (15%), Positives = 24/82 (29%), Gaps = 10/82 (12%)
Query: 465 VNQKNKAEDYVYSRVSPVLIISYEMLIRAYQTIVD-TEFDLLICDEGHRLK------NGK 517
V A +S V ++ + L + + ++L + DE H G
Sbjct: 295 VRYLTPAVQREHSGNEIVDVMCHATLTHRLMSPLRVPNYNLFVMDEAHFTDPASIAARGY 354
Query: 518 SKLYELMTGLNIRKRILLSGTP 539
I ++ TP
Sbjct: 355 IATRVEAGEA---AAIFMTATP 373
>2cxn_A Glucose-6-phosphate isomerase; 1.40A {Mus musculus} PDB: 2cvp_A
2cxo_A* 2cxp_A* 2cxq_A* 2cxr_A* 2cxs_A* 2cxt_A* 2cxu_A
1u0e_A 1u0f_A* 1u0g_A* 1jiq_A 1iri_A 1nuh_A* 1jlh_A
1iat_A 1hm5_A 1g98_A 1hox_A* 1xtb_A* ...
Length = 557
Score = 28.8 bits (65), Expect = 7.9
Identities = 25/96 (26%), Positives = 35/96 (36%), Gaps = 29/96 (30%)
Query: 319 QINS--HLSVTH-ALRKICNHPGLVQQPDVMEE----------------EGQWKHNPSGK 359
+IN +V H ALR N P V DVM E G WK +GK
Sbjct: 89 KINYTEDRAVLHVALRNRSNTPIKVDGKDVMPEVNRVLDKMKSFCQRVRSGDWK-GYTGK 147
Query: 360 PLVDVTVDG---------FLSRVLKPHQRQGVSFLY 386
+ D+ G ++ LKP+ + G +
Sbjct: 148 SITDIINIGIGGSDLGPLMVTEALKPYSKGGPRVWF 183
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
0.315 0.132 0.384
Gapped
Lambda K H
0.267 0.0498 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,996,436
Number of extensions: 585966
Number of successful extensions: 983
Number of sequences better than 10.0: 1
Number of HSP's gapped: 946
Number of HSP's successfully gapped: 47
Length of query: 680
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 580
Effective length of database: 3,909,693
Effective search space: 2267621940
Effective search space used: 2267621940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.8 bits)