RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13010
(573 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 392 bits (1009), Expect = e-128
Identities = 116/346 (33%), Positives = 187/346 (54%), Gaps = 23/346 (6%)
Query: 5 RHAVEVEKQRSQQFGSTTPSFSTEVERPQPGLFRGNLKHYQLKGMNWLANLYDQGINGIL 64
R ++ Q S + S P F +P P + G L+ +QL G+NW+A L+ +G NGIL
Sbjct: 202 RENSKILPQYSSNYTSQRPRFEKLSVQP-PFIKGGELRDFQLTGINWMAFLWSKGDNGIL 260
Query: 65 ADEMGLGKTVQSIAFLCHIAETYDVWGPFLIISPASTLHNWQQEMERFVPDFKVVPYWGS 124
ADEMGLGKTVQ++AF+ + GP +I+ P ST+ W E++ PD + Y G+
Sbjct: 261 ADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGN 320
Query: 125 PQERKILRQ---FWDMKNLHTKDASFHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIK 181
+ R +R+ + + + K F+V++T+Y+ ++ D IKWQ++ +DEA +K
Sbjct: 321 QKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLK 380
Query: 182 SSSSMRWKLLLGFSCRNRLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIE 241
++ S ++ L F NR+L++GTP+QN++ EL AL++F+MP F E + D E
Sbjct: 381 NAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ-DEE 439
Query: 242 SHAENKTSIDERHLSRLHMILKPFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSAL 301
E ++ LH ++PF+LRR+KKDVE L K E ++ L+ Q Y +
Sbjct: 440 ---------QEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNI 490
Query: 302 KKKIKIEDLIHSSSGGSIQLSNNIASNLMNLVMQFRKVCNHPELFE 347
K L + GG +L+N++ + +K NHP LF+
Sbjct: 491 LTK-NYSALTAGAKGGH--------FSLLNIMNELKKASNHPYLFD 527
Score = 128 bits (324), Expect = 2e-31
Identities = 37/117 (31%), Positives = 65/117 (55%), Gaps = 9/117 (7%)
Query: 441 SNLMNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKLTLVYDAGK 500
+L+N++ + +K NHP LF+ + + + + + V L+ +GK
Sbjct: 507 FSLLNIMNELKKASNHPYLFDNAEERVLQKFG-DGKMTRENVLRG--------LIMSSGK 557
Query: 501 LSVLDDLLKRLKASGHRVLVYSQMTKMIDLLEEFMVYRKYRFMRLDGSSKISERRDM 557
+ +LD LL RLK GHRVL++SQM +M+D+L +++ + F RLDG+ ++RR
Sbjct: 558 MVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRIS 614
>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 = 316 bits (813), Expect = e-100
Identities = 78/336 (23%), Positives = 147/336 (43%), Gaps = 25/336 (7%)
Query: 34 PGLFRGNLKHYQLKGMNWLANLY-----DQGINGILADEMGLGKTVQSIAFLCHIAETYD 88
+ L+ +Q +G+ +L + + I+ADEMGLGKT+Q I + + +
Sbjct: 49 DPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSP 108
Query: 89 VWGP----FLIISPASTLHNWQQEMERFVPDF-KVVPYWGSPQERKILRQFWDMKNLHTK 143
P +++SP+S + NW E+ +++ + V G ++ + + +
Sbjct: 109 DCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEID-SKLVNFISQQGM 167
Query: 144 DASFHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIKSSSSMRWKLLLGFSCRNRLLLS 203
++I SY+ + ++ K +I DE +K+S + + L + + R+L+S
Sbjct: 168 RIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLIS 227
Query: 204 GTPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDERHL-----SRL 258
GTPIQN + E ++L+HF+ + + EF + F I + S +R L
Sbjct: 228 GTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQEL 287
Query: 259 HMILKPFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGS 318
I+ ++RR + L KIE +V C LT QK LY K+ K + + +
Sbjct: 288 ISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKIS- 346
Query: 319 IQLSNNIASNLMNLVMQFRKVCNHPELFERRDAKAP 354
+ ++ + +K+CNHP L +
Sbjct: 347 --------VSSLSSITSLKKLCNHPALIYEKCLTGE 374
Score = 123 bits (312), Expect = 5e-30
Identities = 29/137 (21%), Positives = 62/137 (45%), Gaps = 7/137 (5%)
Query: 422 EDLIHSSSGGSIQLSNNIASNLMNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYVIPKL 481
+ + + + I+ + ++ + +K+CNHP L + + P+
Sbjct: 328 KLFLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQN 387
Query: 482 VFEEALLCHKLTLVYDAGKLSVLDDLLKRLKA-SGHRVLVYSQMTKMIDLLEEFMVYRKY 540
+A+ +GK+ VLD +L + + +V++ S T+ +DL E+ R+Y
Sbjct: 388 YSTKAVE------PQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRY 441
Query: 541 RFMRLDGSSKISERRDM 557
++RLDG+ I +R +
Sbjct: 442 LYVRLDGTMSIKKRAKI 458
>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 = 307 bits (789), Expect = 1e-98
Identities = 95/321 (29%), Positives = 165/321 (51%), Gaps = 33/321 (10%)
Query: 28 EVERPQPGLFRGNLKHYQLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETY 87
+ +P + NL+ YQ+KG +W+ + G LAD+MGLGKT+Q+IA +
Sbjct: 25 SFQLLEPYNIKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKE- 83
Query: 88 DVWGPFLIISPASTLHNWQQEMERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASF 147
+ P L+I P S L NW++E+ +F P + + + K+ +
Sbjct: 84 NELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIKL--------------EDY 129
Query: 148 HVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIKSSSSMRWKLLLGFSCRNRLLLSGTPI 207
+++T+Y +++ D + ++W+Y+++DEAQ IK+ + +K + + R+ L+GTPI
Sbjct: 130 DIILTTYAVLLRDTRL-KEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPI 188
Query: 208 QNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDERHLSRLHMILKPFML 267
+N + +LW+++ F+ P + S+ EF F+ I+ D L I+ PF+L
Sbjct: 189 ENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKG-------DNMAKEELKAIISPFIL 241
Query: 268 RRIKKD--VENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGSIQLSNNI 325
RR K D + N+L DKIE VYC LT Q +Y A + + + I S +G + I
Sbjct: 242 RRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLF--NNIDSVTGIKRKG--MI 297
Query: 326 ASNLMNLVMQFRKVCNHPELF 346
S L+ L +++ +HP L
Sbjct: 298 LSTLLKL----KQIVDHPALL 314
Score = 62.9 bits (154), Expect = 1e-10
Identities = 13/111 (11%), Positives = 36/111 (32%), Gaps = 29/111 (26%)
Query: 448 MQFRKVCNHPELFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKLTLVYDAGKLSVLDDL 507
++ +++ +HP L + + +GK+ ++
Sbjct: 302 LKLKQIVDHPALLK------------GGEQSVR----------------RSGKMIRTMEI 333
Query: 508 LKRLKASGHRVLVYSQMTKMIDLLEEFMVYR-KYRFMRLDGSSKISERRDM 557
++ G ++ +++Q M ++ + L G ER D+
Sbjct: 334 IEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDI 384
>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 = 173 bits (439), Expect = 4e-46
Identities = 70/413 (16%), Positives = 137/413 (33%), Gaps = 29/413 (7%)
Query: 34 PGLFRGNLKHYQLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPF 93
R +L +QL + + + + +LADE+GLGKT+++ L +
Sbjct: 147 LRGQRTSLIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLLSGAA-ERV 203
Query: 94 LIISPASTLHNWQQEM-ERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVIT 152
LII P + H W EM RF F + + + +D + +VI
Sbjct: 204 LIIVPETLQHQWLVEMLRRFNLRFALFDDERYAEAQHDAYNPFD---------TEQLVIC 254
Query: 153 SYQLVVSD---FKYFNRIKWQYLILDEAQAI---KSSSSMRWKLL--LGFSCRNRLLLSG 204
S ++ +W L++DEA + + + S ++ + L LLL+
Sbjct: 255 SLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTA 314
Query: 205 TPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDERHLSRLHM-ILK 263
TP Q M +A L + P+ F +F E + LS + +L
Sbjct: 315 TPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLG 374
Query: 264 PFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGSIQLSN 323
+ + + + + E L+ ++ + + G
Sbjct: 375 EMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKG---FPKR 431
Query: 324 NIASNLMNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYHRLYRGRQMEREEGTILPEFP 383
+ + + L Q++ + R + A R+Y ++ E + T P
Sbjct: 432 ELHTIKLPLPTQYQTAIKVSGIMGARKSAEDRARDMLYPERIY--QEFEGDNATWWNFDP 489
Query: 384 HVPRDPVILPQQPTYLPVCFFES--TQNMVSPALKKKIKIEDLIHSSSGGSIQ 434
V L + + T + L+++ I + I+
Sbjct: 490 RVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIE 542
Score = 42.8 bits (100), Expect = 3e-04
Identities = 18/111 (16%), Positives = 30/111 (27%), Gaps = 2/111 (1%)
Query: 451 RKVCNHPELFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKLTLVYDAGKLSVLDDLLKR 510
+ + + S ED L E + ++ L+
Sbjct: 438 LPLPTQYQTAIKVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGY 497
Query: 511 LKAS-GHRVLVYSQMTKMIDLLEEFMVYRK-YRFMRLDGSSKISERRDMFA 559
L + +VLV LE+ + R+ R I ER A
Sbjct: 498 LTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAA 548
>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 = 107 bits (268), Expect = 1e-25
Identities = 29/131 (22%), Positives = 49/131 (37%), Gaps = 16/131 (12%)
Query: 425 IHSSSGGSIQLSNNIASNLMNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYVIPKLVFE 484
I S + I ++ + + V HP L D+ +PK +
Sbjct: 51 ILRYFETSHYKEDVILESMKTMCLNGSLVATHPYLLI-------------DHYMPKSLIT 97
Query: 485 EALLCHKLTLVYDAGKLSVLDDLLKRLKASGHRVLVYSQMTKMIDLLEEFMVYRKYRFMR 544
+ H L ++GK SVL DL+ ++ + + + +DLLE ++ K R
Sbjct: 98 RDVPAH---LAENSGKFSVLRDLINLVQEYETETAIVCRPGRTMDLLEALLLGNKVHIKR 154
Query: 545 LDGSSKISERR 555
DG S S
Sbjct: 155 YDGHSIKSAAA 165
Score = 54.5 bits (131), Expect = 3e-08
Identities = 9/75 (12%), Positives = 24/75 (32%), Gaps = 2/75 (2%)
Query: 272 KDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGSIQLSNNIASNLMN 331
+ + + + ++ QK L + D++ + + I ++
Sbjct: 14 TTLGISGNTSGDYWLPTTMSLYQKELTDQIVSL-HYSDILRYFETSHYK-EDVILESMKT 71
Query: 332 LVMQFRKVCNHPELF 346
+ + V HP L
Sbjct: 72 MCLNGSLVATHPYLL 86
>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 = 86.4 bits (213), Expect = 1e-17
Identities = 94/541 (17%), Positives = 174/541 (32%), Gaps = 146/541 (26%)
Query: 11 EKQRSQQFGSTTPSFSTEVERPQPGL-FRGNLKHYQLK--------GM-----NWLAN-- 54
+QR + + V R QP L R L +L+ G+ W+A
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL--LELRPAKNVLIDGVLGSGKTWVALDV 170
Query: 55 LYDQGINGILADE---MGLGK------TVQSIAFLCHIAETYDVWGPFLIISPASTLHNW 105
+ + + + L ++ + L + + + +H+
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 106 QQEMERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDFKYFN 165
Q E+ R K PY +L + K + + S +++T+ V+DF
Sbjct: 231 QAELRRL---LKSKPY---ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 166 RIKWQYLILDEAQAIKSSSSMRWKLLLGF-SCRNRLL----LSGTPIQNSMAELWALLHF 220
+ + + LLL + CR + L L+ P + S+ + +
Sbjct: 285 TTT-HISLDHHSMTLTPDEVK--SLLLKYLDCRPQDLPREVLTTNPRRLSI--IAESIR- 338
Query: 221 IMPSMFDSHDEFNEW-FSKDIESHAENKTSIDERHLSRLHMILKPFMLRRIKKDVENELS 279
+ +D+ N + IES + R + + F
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV---FP-----PSA----- 385
Query: 280 DKIEIMVYC----------PLTSRQKLL-YSALKKKIKIEDL-IHSSSGGSIQLSNNIAS 327
I ++ + KL YS ++K+ K + I SI L +
Sbjct: 386 -HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-----SIYLE--LKV 437
Query: 328 NLMNLVMQFRKVCNH---PELFERRDAKAPLAMSCED--------YHRLYRGRQMEREEG 376
L N R + +H P+ F+ D P D +H L ER
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPP----YLDQYFYSHIGHH-LKNIEHPERMT- 491
Query: 377 TILPEFPHVPRDPVILPQQPTYLPVCFFESTQNMVSPALKKKIKIEDLIHSSSGGSIQLS 436
F V +L F L++KI+ H S+ +
Sbjct: 492 ----LFRMV------------FLDFRF-----------LEQKIR-----HDST------A 513
Query: 437 NNIASNLMNLVMQFRK----VCNHPELFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKL 492
N + +++N + Q + +C++ +ER L + D++ PK+ EE L+C K
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDPKYER------LVNAILDFL-PKI--EENLICSKY 564
Query: 493 T 493
T
Sbjct: 565 T 565
>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 = 73.8 bits (182), Expect = 8e-15
Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 13/93 (13%)
Query: 256 SRLHMILKPFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKI--KIEDLIHS 313
S H ++ R + ++L DKIE VYC LT Q +Y A + + I+ +
Sbjct: 4 SHHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGI 62
Query: 314 SSGGSIQLSNNIASNLMNLVMQFRKVCNHPELF 346
G I ++ +++ +++ +HP L
Sbjct: 63 KRKGMI----------LSTLLKLKQIVDHPALL 85
Score = 62.2 bits (152), Expect = 7e-11
Identities = 13/111 (11%), Positives = 36/111 (32%), Gaps = 29/111 (26%)
Query: 448 MQFRKVCNHPELFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKLTLVYDAGKLSVLDDL 507
++ +++ +HP L + + +GK+ ++
Sbjct: 73 LKLKQIVDHPALLKGGEQSVR----------------------------RSGKMIRTMEI 104
Query: 508 LKRLKASGHRVLVYSQMTKMIDLLEEFMVYR-KYRFMRLDGSSKISERRDM 557
++ G ++ +++Q M ++ + L G ER D+
Sbjct: 105 IEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDI 155
>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 = 73.9 bits (181), Expect = 9e-14
Identities = 96/545 (17%), Positives = 156/545 (28%), Gaps = 208/545 (38%)
Query: 30 ERPQPGLFR----GNLKHY-QLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIA 84
++ LFR GN + G QG +E+
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGG---------QGNTDDYFEEL---------------R 174
Query: 85 ETYDVWGPF---LIISPASTLHNWQQEMERFVPDFKVVPYWGSPQERKILRQFWDMKNLH 141
+ Y + LI A TL E+ R D + V + Q IL W L
Sbjct: 175 DLYQTYHVLVGDLIKFSAETL----SELIRTTLDAEKV-F---TQGLNILE--W----LE 220
Query: 142 TKDA------------SFHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIKSSSSMRWK 189
S +I QL Y++ + + +R
Sbjct: 221 NPSNTPDKDYLLSIPISC-PLIGVIQLA------------HYVVTAKLLGF-TPGELR-S 265
Query: 190 LLLGFSCRNRLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEW-FSKDIESH-AENK 247
L G + ++ L++ I + + W S F S + F + + A
Sbjct: 266 YLKGATGHSQGLVTAVAI--AETDSWE-------SFFVSVRKAITVLFFIGVRCYEAYPN 316
Query: 248 TSIDERHLSRLHMILKPFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKI 307
TS+ P +L ++ E S P+ L S L ++ ++
Sbjct: 317 TSLP------------PSILEDSLENNEGVPS---------PM-----LSISNLTQE-QV 349
Query: 308 EDLI-----HSSSGGSIQLSN-NIASN---------LMNLVMQFRKVCNHPELFERRDAK 352
+D + H +G +++S N A N L L + RK K
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA------------K 397
Query: 353 APLAMSCEDYHRLYRGRQMEREEGTILPEFPHVPRDPVILPQQPTYLPVC--FF----ES 406
AP S D R+ P R +LPV F
Sbjct: 398 AP---SGLDQSRI-----------------PFSERKLKF---SNRFLPVASPFHSHLLVP 434
Query: 407 TQNMVSPALKKK---IKIEDL----IHSSSGGSIQ-LSNNIASNLMNLVMQFRKVCNHPE 458
++++ L K +D+ + G ++ LS +I+ + + P
Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI------VDCIIRLP- 487
Query: 459 LFERRDAKAPLAMSCEDYVIPKLVFEEALLCHKLT--LVYDAGKLSVLDDLLKRLK-ASG 515
V E K T L + G S L L R K +G
Sbjct: 488 -----------------------VKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 516 HRVLV 520
RV+V
Sbjct: 525 VRVIV 529
Score = 57.8 bits (139), Expect = 8e-09
Identities = 72/451 (15%), Positives = 119/451 (26%), Gaps = 183/451 (40%)
Query: 210 SMAELWA-LLHFIM-------PSMFD-----SHDEFNEWF--SKDIESHAENKTSIDERH 254
+ AEL L ++ FD EF + DI + A ++
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 255 LSRLHMILKPF------MLRRIKKDVENEL-----SDKIEIMV----------YCPLTSR 293
L + ++K + R K + L +++ Y
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY--FEEL 173
Query: 294 QKL--LYSALKKKIKIEDLIHSSSGGSIQLSNN--------------------------- 324
+ L Y L + DLI S+ +L
Sbjct: 174 RDLYQTYHVL-----VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 325 -------IASNLMNLV--MQFRKVC-----NHPELFER--------RD---AKAP-LAMS 358
I+ L+ ++ + EL + A A S
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS 288
Query: 359 CEDYHRL------------YRGRQMEREEGTILPEFPHVPRDPVILPQ-------QPTYL 399
E + R + +P+ P IL P+
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYE----------AYPNTSLPPSILEDSLENNEGVPSP- 337
Query: 400 PVCFFESTQNMVS-PALKKKIKIEDLI-----HSSSGGSIQLSN-NIASN---------L 443
M+S L ++ +++D + H +G +++S N A N L
Sbjct: 338 ----------MLSISNLTQE-QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL 386
Query: 444 MNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYVIP----KLVFEEALL-----CHKLTL 494
L + RK L + R IP KL F L H L
Sbjct: 387 YGLNLTLRKAKAPSGLDQSR--------------IPFSERKLKFSNRFLPVASPFHSHLL 432
Query: 495 VYDAGKLSVLDDLLKR---LKASGHRVLVYS 522
V A L + DL+K A ++ VY
Sbjct: 433 V-PASDL-INKDLVKNNVSFNAKDIQIPVYD 461
Score = 35.4 bits (81), Expect = 0.059
Identities = 31/193 (16%), Positives = 49/193 (25%), Gaps = 92/193 (47%)
Query: 356 AMSCEDYHRL--YRGRQMEREEGTILPEFPHVPRDPVILPQQPTYLPVCFFESTQNM--V 411
MS E + YRG M+ VPRD + S M +
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVA----------VPRDELG-------------RSNYGMIAI 1812
Query: 412 SP-ALKKKIKIEDL------IHSSSGGSIQLSN-NIASNLMNLVMQFRKVCNHPELFERR 463
+P + E L + +G +++ N N+ + Q
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVEN------QQ-------------- 1852
Query: 464 DAKAPLAMSCEDYVIPKLVFEEALLCHKLTLVYDAGKLSVLDDLLKRLKASGHRVLVYSQ 523
YV AG L LD + L Q
Sbjct: 1853 ------------YVA-------------------AGDLRALDTVTNVLNFIK------LQ 1875
Query: 524 MTKMIDLLEEFMV 536
+I+L + +
Sbjct: 1876 KIDIIELQKSLSL 1888
>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 = 51.0 bits (122), Expect = 6e-07
Identities = 35/197 (17%), Positives = 71/197 (36%), Gaps = 36/197 (18%)
Query: 37 FRGNLKHYQLKGMN-WLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLI 95
+L+ YQ K + WL + G + G GKT ++A + ++ P LI
Sbjct: 90 AEISLRDYQEKALERWLVD-----KRGCIVLPTGSGKTHVAMAAINELST------PTLI 138
Query: 96 ISPASTLHN-WQQEMERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSY 154
+ P L W++ + F + V + G +E K + +++Y
Sbjct: 139 VVPTLALAEQWKERLGIF-GEEYVGEFSGRIKELK------------------PLTVSTY 179
Query: 155 QLVVSDFKYFNRIKWQYLILDEAQAIKSSSSMRWKLLLGFSCRNRLLLSGTPIQNSMAEL 214
+ + ++ LI DE + + S + ++ RL L+ T +
Sbjct: 180 DSAYVNAEKLGN-RFMLLIFDEVHHLPAESYV--QIAQMSIAPFRLGLTATFEREDGRH- 235
Query: 215 WALLHFIMPSMFDSHDE 231
L + +F+ +
Sbjct: 236 EILKEVVGGKVFELFPD 252
>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 = 49.0 bits (116), Expect = 3e-06
Identities = 35/228 (15%), Positives = 74/228 (32%), Gaps = 28/228 (12%)
Query: 61 NGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLIISPASTL-HNWQQEMERF--VPDFK 117
N ++ GLGKT+ ++ + Y G L+++P L + R +P K
Sbjct: 25 NCLIVLPTGLGKTLIAMMIAEYRLTKYG--GKVLMLAPTKPLVLQHAESFRRLFNLPPEK 82
Query: 118 VVPYWG--SPQERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDF--KYFNRIKWQYLI 173
+V G SP+ER + W V++ + Q + +D + ++
Sbjct: 83 IVALTGEKSPEERS---KAWA---------RAKVIVATPQTIENDLLAGRISLEDVSLIV 130
Query: 174 LDEAQAIKSSSSMRWKLLLGFSCRNR---LLLSGTPI--QNSMAELWALLHFIMPSMFDS 228
DEA + + + + L+ +P + E+ L
Sbjct: 131 FDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSE 190
Query: 229 HDEFNEWF--SKDIESHAENKTSIDERHLSRLHMILKPFMLRRIKKDV 274
+ + E + I + L +L+ + + +
Sbjct: 191 NSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGL 238
>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 = 43.5 bits (103), Expect = 7e-05
Identities = 37/174 (21%), Positives = 65/174 (37%), Gaps = 37/174 (21%)
Query: 37 FRGNLKHYQLKGMN-WLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLI 95
+L+ YQ K + WL + G + G GKT ++A + ++ P LI
Sbjct: 90 AEISLRDYQEKALERWLVD----K-RGCIVLPTGSGKTHVAMAAINELST------PTLI 138
Query: 96 ISPASTL-HNWQQEMERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSY 154
+ P L W++ + F + V + G +E K + +++Y
Sbjct: 139 VVPTLALAEQWKERLGIF-GEEYVGEFSGRIKELK------------------PLTVSTY 179
Query: 155 Q-LVVSDFKYFNRIKWQYLILDEAQAIKSSSSMRWKLLLGFSCRNRLLLSGTPI 207
V+ K NR + LI DE + + S ++ RL L+ T
Sbjct: 180 DSAYVNAEKLGNR--FMLLIFDEVHHLP-AESYV-QIAQMSIAPFRLGLTATFE 229
>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 = 42.7 bits (99), Expect = 3e-04
Identities = 47/406 (11%), Positives = 112/406 (27%), Gaps = 30/406 (7%)
Query: 11 EKQRSQQFGSTTPSFSTEVERPQPGLFRGNLKHYQLKGMNWLANLYDQGINGILADEMGL 70
E + S + + +P P + YQ++ LA G N ++ G
Sbjct: 219 EAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIE----LAQPAINGKNALICAPTGS 274
Query: 71 GKTVQSIAFLCHIAETYDVWGPFLIISPASTLHNWQQEMERF-----VPDFKVVPYWGSP 125
GKT SI H + ++ A+ + ++Q+ F + V G
Sbjct: 275 GKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGEN 334
Query: 126 QERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDFKYFNRIKWQ---YLILDEAQAIKS 182
+ + + +++ + Q++V+ F+ +I DE
Sbjct: 335 FSNVSVEKVIE---------DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTG 385
Query: 183 SSS----MRWKLLLGFSCRNR----LLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNE 234
+ M L F+ ++ L L+ + + + + I +
Sbjct: 386 NHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIS 445
Query: 235 WFSKDIESHAENKTSIDERHLSRLHMILKPF-MLRRIKKDVENELSDKIEIMVYCPLTSR 293
++I+ + I PF + L I + S+
Sbjct: 446 TVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSK 505
Query: 294 QKLLYSALKKKIKIEDLIHSSSGGSIQLSNNIASNLMNLVMQFRKVCNHPELFERRDAKA 353
+ + I + + + + + + + N +
Sbjct: 506 KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARII 565
Query: 354 PLAMSCEDYHRLYRGRQMEREEGTILPEFPHVPRDPVILPQQPTYL 399
++ + E + +F + + L + T
Sbjct: 566 DALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNE 611
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 39.9 bits (92), Expect = 0.002
Identities = 52/376 (13%), Positives = 114/376 (30%), Gaps = 48/376 (12%)
Query: 44 YQLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLIISPASTLH 103
YQL+ LA +G N I+ G GKT S+ H + + ++ A+ +
Sbjct: 8 YQLE----LALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIP 63
Query: 104 NWQQEMERF-----VPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSYQLVV 158
++Q+ F + + G+ + ++ + ++I + Q++V
Sbjct: 64 VYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIE---------DNDIIILTPQILV 114
Query: 159 SDFK---YFNRIKWQYLILDEAQAIKSSSSMRW--------KLLLGFSCRNRLL-LSGTP 206
++ + + +I DE + KL +++ L+ +
Sbjct: 115 NNLNNGAIPSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASV 174
Query: 207 IQNSMAELWALLHFIMP---SMFDSHDEFNEWFSKDIESHAENKTSIDERHLSRLHMILK 263
+ I ++ S ++E I + SR K
Sbjct: 175 GVGDAKTAEEAMQHICKLCAALDASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFK 234
Query: 264 PFM------LRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIK-IEDLIHSSSG 316
+ ++ KDV EL +I T + + + K +
Sbjct: 235 CIISQLMKETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEES 294
Query: 317 GSIQLSNNIASNLMNLV--------MQFRKVCNHPELFERRDAKAPLAMSCEDYHRLYRG 368
+ S+L Q N+ + F +A + + R +
Sbjct: 295 RVCKALFLYTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEE 354
Query: 369 RQMEREEGTILPEFPH 384
+ E E+ + P +
Sbjct: 355 KLEELEKVSRDPSNEN 370
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 38.2 bits (89), Expect = 0.006
Identities = 24/148 (16%), Positives = 55/148 (37%), Gaps = 23/148 (15%)
Query: 69 GLGKTVQSIAFLCHIAETYDVWGPFLIISPASTLHNWQ--QEMERF-VPDFKVVPYWGSP 125
G+GKT + ++ P TL Q + +++ K+ ++ S
Sbjct: 46 GVGKTT---FGMMTALWLARKGKKSALVFPTVTLVK-QTLERLQKLADEKVKIFGFYSS- 100
Query: 126 QERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIKSSSS 185
K + K+ D +H+++ S Q V + + ++ ++ ++ +D+ A+
Sbjct: 101 --MKKEEKEKFEKSFEEDD--YHILVFSTQFVSKNREKLSQKRFDFVFVDDVDAV----- 151
Query: 186 MRWKLLLGFSCRNRLLLSGTP--IQNSM 211
L + L++ G P I
Sbjct: 152 ----LKASRNIDTLLMMVGIPEEIIRKA 175
>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 = 37.6 bits (86), Expect = 0.012
Identities = 42/338 (12%), Positives = 96/338 (28%), Gaps = 39/338 (11%)
Query: 11 EKQRSQQFGSTTPSFSTEVERPQPGLFRGNLKHYQLKGMNWLANLYDQGINGILADEMGL 70
E + S + + +P P + YQ++ LA G N ++ G
Sbjct: 219 EAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIE----LAQPAINGKNALICAPTGS 274
Query: 71 GKTVQSIAFLCHIAETYDVWGPFLIISPASTLHNWQQEMERF-----VPDFKVVPYWGSP 125
GKT SI H + ++ A+ + ++Q+ F + V G
Sbjct: 275 GKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGEN 334
Query: 126 QERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDFKYFNRIKWQ---YLILDEAQAIKS 182
+ + + +++ + Q++V+ F+ +I DE
Sbjct: 335 FSNVSVEKVIE---------DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTG 385
Query: 183 ----SSSMRWKLLLGFSCRNR----LLLSGTPI----------QNSMAELWALLHFIMPS 224
+ M L F+ ++ L L+ + + L + L S
Sbjct: 386 NHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIS 445
Query: 225 MFDSHDEFNEWFSKDIESHAENKTSIDERHLSRLHMILKPFMLRRIKKDVENELSDKIEI 284
+ + + F E + + L ++ + +
Sbjct: 446 TVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSK 505
Query: 285 MVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGSIQLS 322
+ ++ + K ++ + S L
Sbjct: 506 KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALF 543
>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 = 33.0 bits (74), Expect = 0.27
Identities = 46/375 (12%), Positives = 107/375 (28%), Gaps = 32/375 (8%)
Query: 44 YQLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLIISPASTLH 103
YQ++ LA G N ++ G GKT SI H + ++ A+ +
Sbjct: 11 YQIE----LAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVP 66
Query: 104 NWQQEMERF-----VPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSYQLVV 158
++Q+ F + V G + + + +++ + Q++V
Sbjct: 67 VYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE---------DSDIIVVTPQILV 117
Query: 159 SDFKYFNRIKWQ---YLILDEAQAIKSSSS--------MRWKLLLGFSCRNRLLLSGTPI 207
+ F+ +I DE + + K L L+ +
Sbjct: 118 NSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVG 177
Query: 208 QNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDERHLSRLHMILKPF-- 265
+ + + I + ++I+ + I PF
Sbjct: 178 VGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAA 237
Query: 266 MLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGGSIQLSNNI 325
++ + + E + + + + + + + + + I
Sbjct: 238 IISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRI 297
Query: 326 ASNLMNLVMQFRKVCNHPELFERRDAKAPLAMSCEDYHRLYRGRQMEREEGTILPEFPHV 385
L RK + + E L+ E + + G E E+ + +F
Sbjct: 298 CRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQ-HLTAKFQEK 356
Query: 386 PRDPVILPQQPTYLP 400
+ + L + T
Sbjct: 357 EPELIALSKDETNEN 371
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 33.0 bits (74), Expect = 0.34
Identities = 43/305 (14%), Positives = 98/305 (32%), Gaps = 39/305 (12%)
Query: 44 YQLKGMNWLANLYDQGINGILADEMGLGKTVQSIAFLCHIAETYDVWGPFLIISPASTLH 103
YQL+ LA +G N I+ G GKT S+ H + + ++ A+ +
Sbjct: 17 YQLE----LALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIP 72
Query: 104 NWQQEMERF-----VPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSYQLVV 158
++Q F ++V G+ E + Q + + ++I + Q++V
Sbjct: 73 VYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVE---------NNDIIILTPQILV 123
Query: 159 SDFKYFNRIK---WQYLILDEAQAIKSSSS--------MRWKLLLGFSCRNRLLLSGTPI 207
++ K + +I DE + KL +++ +
Sbjct: 124 NNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASV 183
Query: 208 QNS----MAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKT----SIDERHLSRLH 259
E + + S+ S + +++E ++ R +
Sbjct: 184 GVGDAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFK 243
Query: 260 MILKPFM--LRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHSSSGG 317
I+ M + K + +L + +I T + + ++K + +
Sbjct: 244 YIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEES 303
Query: 318 SIQLS 322
I +
Sbjct: 304 RICKA 308
>2fvy_A D-galactose-binding periplasmic protein; periplasmic binding
protien, hinge, chemotaxis, transport,; HET: BGC; 0.92A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1glg_A* 2fw0_A*
2gbp_A* 2qw1_A* 2hph_A* 2ipn_A* 2ipm_A* 2ipl_A* 1gca_A*
1gcg_A 3ga5_A* 3gbp_A*
Length = 309
Score = 31.6 bits (72), Expect = 0.62
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 50 NWLANLYDQGINGILA--DEMGLG 71
WL+ I ++A D M +G
Sbjct: 194 AWLSGPNANKIEVVIANNDAMAMG 217
>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 = 28.4 bits (62), Expect = 4.1
Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 9/25 (36%)
Query: 398 YLPVCFFESTQNMVSPALKKKIKIE 422
Y +S +PAL K +E
Sbjct: 32 YAD----DS-----APALAIKATME 47
>2yhb_A QDE-2, post-transcriptional gene silencing protein QDE-2; RNA
binding protein, argonaute, miRNA, siRNA; 3.65A
{Neurospora crassa}
Length = 437
Score = 28.6 bits (63), Expect = 6.9
Identities = 14/145 (9%), Positives = 39/145 (26%), Gaps = 23/145 (15%)
Query: 199 RLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDERHLSRL 258
++ I+ W L + + F++ + +
Sbjct: 6 KVARPCRKIEK-----WTYLELKGSKANEGVPQAMTAFAEFLNRTG-----------IPI 49
Query: 259 HMILKPFMLRRIKKDVENELSDKIEI-----MVYCPLTSRQKLLYSALKKKIKIEDLIHS 313
+ P M + + + E+ V L + +Y+ +K+ I +H+
Sbjct: 50 NPRFSPGMSMSVPGSEKEFFAKVKELMSSHQFVVVLLPRKDVAIYNMVKRAADITFGVHT 109
Query: 314 S--SGGSIQLSNNIASNLMNLVMQF 336
+ N+ ++
Sbjct: 110 VCCVAEKFLSTKGQLGYFANVGLKV 134
>1ivy_A Human protective protein; carboxypeptidase, serine
carboxypeptidase, protective protei glycoprotein,
zymogen; HET: NAG NDG; 2.20A {Homo sapiens} SCOP:
c.69.1.5
Length = 452
Score = 28.2 bits (63), Expect = 7.7
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 496 YDAGKLSVLDDLLKRLKASGHRVLVYS 522
Y S+ LK L + +++L+Y+
Sbjct: 342 YRRLYRSMNSQYLKLLSSQKYQILLYN 368
>1tp6_A Hypothetical protein PA1314; structural genomics, alpha-beta
sandwich, PSI, protein structure initiative; 1.50A
{Pseudomonas aeruginosa PAO1} SCOP: d.17.4.12
Length = 128
Score = 26.9 bits (59), Expect = 9.1
Identities = 15/80 (18%), Positives = 28/80 (35%), Gaps = 8/80 (10%)
Query: 109 MERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDASFHVVITSYQLVVSDFKYFNRIK 168
M RF DF +V G ++ L + ++ + I L+ S +
Sbjct: 33 MARFAEDFSMVTPHGVVLDKTALGEL--FRSKGGTRPGLRIEIDGESLLASGVDGA-TLA 89
Query: 169 WQYLILDEAQAIKSSSSMRW 188
++ E Q+ + S R
Sbjct: 90 YR-----EIQSDAAGRSERL 104
>4f3t_A Protein argonaute-2; hydrolase/gene regulation, RNAI, slicer,
hydrolase-RNA; 2.25A {Homo sapiens} PDB: 4ei1_A 4ei3_A*
1r4k_A 1si2_A 1si3_A
Length = 861
Score = 28.2 bits (62), Expect = 9.9
Identities = 19/143 (13%), Positives = 43/143 (30%), Gaps = 14/143 (9%)
Query: 196 CRNRLLLSGTPIQNSMAELWALLHFIMPSMFD--SHDEFNEWFSKDIESHAENKTSIDER 253
RN+ +G I+ WA+ F F E K I +
Sbjct: 439 MRNKQFHTGIEIKV-----WAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMP---IQGQ 490
Query: 254 HLSRLHMILKPFMLRRIKKDVENELSDKIEIMVYCPLTSRQKLLYSALKKKIKIEDLIHS 313
+ + + + ++N + ++V P + +Y+ +K+ + +
Sbjct: 491 PCFCKYAQ-GADSVEPMFRHLKNTYAGLQLVVVILP---GKTPVYAEVKRVGDTVLGMAT 546
Query: 314 SSGGSIQLSNNIASNLMNLVMQF 336
+ L NL ++
Sbjct: 547 QCVQMKNVQRTTPQTLSNLCLKI 569
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
0.322 0.136 0.408
Gapped
Lambda K H
0.267 0.0552 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,855,824
Number of extensions: 532138
Number of successful extensions: 1260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1224
Number of HSP's successfully gapped: 37
Length of query: 573
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 474
Effective length of database: 3,937,614
Effective search space: 1866429036
Effective search space used: 1866429036
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.3 bits)