BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 002661
(895 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 404 bits (1038), Expect = e-112, Method: Compositional matrix adjust.
Identities = 292/894 (32%), Positives = 453/894 (50%), Gaps = 100/894 (11%)
Query: 38 RRGVGNCGRRISLLTNHFKVSVNTTDAVFYHYTVTISGEDXXXXXXXXXXXXVVDKLYQT 97
R G GR I L N F++ + D YHY + I E +V+ + Q
Sbjct: 30 RPDFGTSGRTIKLQANFFEMDIPKID--IYHYELDIKPEKCPRRVNRE----IVEHMVQH 83
Query: 98 YSAELAGKRF-AYDGEKSLYTVGPLP--QNKFEFTVVLEESRAKQQNGSPRGRDSPIGPG 154
+ ++ G R +DG K+LYT PLP ++K E V L G G
Sbjct: 84 FKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLP------------------GEG 125
Query: 155 KRSKHSFQSKTFMVEISFATKIPLRSIALALKGNEVDNTQDALRVLDIVLRQQAANWGCL 214
K + F V I + + + L+++ AL G + ++ LD+V+R +
Sbjct: 126 K-------DRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRH-LPSMRYT 177
Query: 215 LVRQSFFHDDSRNLVDVGGGVSGIRGFHSSFRPTQGGLSLNMDVSTTMILKPGPVIDFL- 273
V +SFF +GGG GFH S RP+ + LN+DVS T K PVI+F+
Sbjct: 178 PVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVC 237
Query: 274 --IANQNVREPR--FIDWTKAK--KMLRNLRVKPRH---RNMEFKIVGLSEKPCNQQFFP 324
+ +++ E + D + K K ++ L+V+ H ++++ ++ +P + Q FP
Sbjct: 238 EVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFP 297
Query: 325 MKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVGKPKRPNYLPLELCSLVS 384
++ +S G+T+E TV YF ++ L Y +LPCL VG+ ++ YLPLE+C++V+
Sbjct: 298 LQQES------GQTVECTVAQYFKDRHKLVLRY-PHLPCLQVGQEQKHTYLPLEVCNIVA 350
Query: 385 LQRYTKALSSMQRASLVEKSRQKPQDRMRTLTDALRSYSYDEDPVLAACGISIGKQLTQV 444
QR K L+ Q ++++ + + DR ++ +RS S++ DP + GI + ++T V
Sbjct: 351 GQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSASFNTDPYVREFGIMVKDEMTDV 410
Query: 445 DGRILEIPKLKVGKSEDCI--PRNGRWNFNNKRFLEATRIDRWIVVNFSAR--CDTSHI- 499
GR+L+ P + G I P G W+ NK+F I W + F+ + C H+
Sbjct: 411 TGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLK 470
Query: 500 --SRELINCGRNKGIHIERPFTLIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCV 557
+ +L R+ G+ I+ + Q VE MF + G Q ++ +
Sbjct: 471 SFTEQLRKISRDAGMPIQGQPCFCKYAQGADS------VEPMFRHLKNTYAGL-QLVVVI 523
Query: 558 LPERKNSDIYGPWKKKSLSDFGIATQCISPTKIN---DQYLTNVLLKINSKLGGINSLLA 614
LP + + +Y K+ + G+ATQC+ + Q L+N+ LKIN KLGG+N++L
Sbjct: 524 LPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNIL- 580
Query: 615 LEQSSLIPLIKDTPTMILGMDVSHGSPGRSDIPSVAAVVGSQ-SWPLISRYRAAVRTQSS 673
L Q P + P + LG DV+H G PS+AAVVGS + P +RY A VR Q
Sbjct: 581 LPQGR--PPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHP--NRYCATVRVQQH 636
Query: 674 KVEMIDALYKPIANGNDDGIIRELLLDFYRTSKQRKPKQIIIFRDGVSESQFNQVLNIEL 733
+ E+I L ++RELL+ FY++++ KP +II +RDGVSE QF QVL+ EL
Sbjct: 637 RQEIIQDL---------AAMVRELLIQFYKSTR-FKPTRIIFYRDGVSEGQFQQVLHHEL 686
Query: 734 EQIIKAYQHLGEADIPKFTVIVAQKNHHTKLFQASGPE------NVPPGTVVDTRIVHPR 787
I +A L + P T IV QK HHT+LF E N+P GT VDT+I HP
Sbjct: 687 LAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKITHPT 746
Query: 788 NYDFYMCAHAGMIGTSRPAHYHVLLDEIGFSPDDLQNLIHSLSYVYQRSTTAISIVAPIC 847
+DFY+C+HAG+ GTSRP+HYHVL D+ FS D+LQ L + L + Y R T ++SI AP
Sbjct: 747 EFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAY 806
Query: 848 YAHLAASQMGQFI--KFEDSSDTSITSAGS-----VPVPELPRLHKNVESSMFF 894
YAHL A + + K DS++ S TS S + + ++H++ +M+F
Sbjct: 807 YAHLVAFRARYHLVDKEHDSAEGSHTSGQSNGRDHQALAKAVQVHQDTLRTMYF 860
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 403 bits (1035), Expect = e-112, Method: Compositional matrix adjust.
Identities = 291/894 (32%), Positives = 452/894 (50%), Gaps = 100/894 (11%)
Query: 38 RRGVGNCGRRISLLTNHFKVSVNTTDAVFYHYTVTISGEDXXXXXXXXXXXXVVDKLYQT 97
R G GR I L N F++ + D YHY + I E +V+ + Q
Sbjct: 28 RPDFGTSGRTIKLQANFFEMDIPKID--IYHYELDIKPEKCPRRVNRE----IVEHMVQH 81
Query: 98 YSAELAGKRF-AYDGEKSLYTVGPLP--QNKFEFTVVLEESRAKQQNGSPRGRDSPIGPG 154
+ ++ G R +DG K+LYT PLP ++K E V L G G
Sbjct: 82 FKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLP------------------GEG 123
Query: 155 KRSKHSFQSKTFMVEISFATKIPLRSIALALKGNEVDNTQDALRVLDIVLRQQAANWGCL 214
K + F V I + + + L+++ AL G + ++ LD+V+R +
Sbjct: 124 K-------DRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRH-LPSMRYT 175
Query: 215 LVRQSFFHDDSRNLVDVGGGVSGIRGFHSSFRPTQGGLSLNMDVSTTMILKPGPVIDFL- 273
V +SFF +GGG GFH S RP+ + LN+DVS T K PVI+F+
Sbjct: 176 PVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVC 235
Query: 274 --IANQNVREPR--FIDWTKAK--KMLRNLRVKPRH---RNMEFKIVGLSEKPCNQQFFP 324
+ +++ E + D + K K ++ L+V+ H ++++ ++ +P + Q FP
Sbjct: 236 EVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFP 295
Query: 325 MKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVGKPKRPNYLPLELCSLVS 384
++ +S G+T+E TV YF ++ L Y +LPCL VG+ ++ YLPLE+C++V+
Sbjct: 296 LQQES------GQTVECTVAQYFKDRHKLVLRY-PHLPCLQVGQEQKHTYLPLEVCNIVA 348
Query: 385 LQRYTKALSSMQRASLVEKSRQKPQDRMRTLTDALRSYSYDEDPVLAACGISIGKQLTQV 444
QR K L+ Q ++++ + + DR ++ +RS ++ DP + GI + ++T V
Sbjct: 349 GQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSADFNTDPYVREFGIMVKDEMTDV 408
Query: 445 DGRILEIPKLKVGKSEDCI--PRNGRWNFNNKRFLEATRIDRWIVVNFSAR--CDTSHI- 499
GR+L+ P + G I P G W+ NK+F I W + F+ + C H+
Sbjct: 409 TGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLK 468
Query: 500 --SRELINCGRNKGIHIERPFTLIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCV 557
+ +L R+ G+ I+ + Q VE MF + G Q ++ +
Sbjct: 469 SFTEQLRKISRDAGMPIQGQPCFCKYAQGADS------VEPMFRHLKNTYAGL-QLVVVI 521
Query: 558 LPERKNSDIYGPWKKKSLSDFGIATQCISPTKIN---DQYLTNVLLKINSKLGGINSLLA 614
LP + + +Y K+ + G+ATQC+ + Q L+N+ LKIN KLGG+N++L
Sbjct: 522 LPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNIL- 578
Query: 615 LEQSSLIPLIKDTPTMILGMDVSHGSPGRSDIPSVAAVVGSQ-SWPLISRYRAAVRTQSS 673
L Q P + P + LG DV+H G PS+AAVVGS + P +RY A VR Q
Sbjct: 579 LPQGR--PPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHP--NRYCATVRVQQH 634
Query: 674 KVEMIDALYKPIANGNDDGIIRELLLDFYRTSKQRKPKQIIIFRDGVSESQFNQVLNIEL 733
+ E+I L ++RELL+ FY++++ KP +II +RDGVSE QF QVL+ EL
Sbjct: 635 RQEIIQDL---------AAMVRELLIQFYKSTR-FKPTRIIFYRDGVSEGQFQQVLHHEL 684
Query: 734 EQIIKAYQHLGEADIPKFTVIVAQKNHHTKLFQASGPE------NVPPGTVVDTRIVHPR 787
I +A L + P T IV QK HHT+LF E N+P GT VDT+I HP
Sbjct: 685 LAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKITHPT 744
Query: 788 NYDFYMCAHAGMIGTSRPAHYHVLLDEIGFSPDDLQNLIHSLSYVYQRSTTAISIVAPIC 847
+DFY+C+HAG+ GTSRP+HYHVL D+ FS D+LQ L + L + Y R T ++SI AP
Sbjct: 745 EFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAY 804
Query: 848 YAHLAASQMGQFI--KFEDSSDTSITSAGS-----VPVPELPRLHKNVESSMFF 894
YAHL A + + K DS++ S TS S + + ++H++ +M+F
Sbjct: 805 YAHLVAFRARYHLVDKEHDSAEGSHTSGQSNGRDHQALAKAVQVHQDTLRTMYF 858
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 142 bits (359), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 112/347 (32%), Positives = 170/347 (48%), Gaps = 53/347 (15%)
Query: 537 ERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQCISP-----TKIN 591
E+ F ++L QF++ +LP RK+ IY K+ + FG+ T C TK
Sbjct: 65 EKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 592 DQYLTNVLLKINSKLGGINSLLALEQSSLIPLIKDTPTMILGMDVSHGS---PGRS--DI 646
Y NV LK+N K GG N + + IPL+ TM++G DV+H + G+S
Sbjct: 124 LGYFANVGLKVNLKFGGTNHNI----KTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASA 179
Query: 647 PSVAAVVGS-----QSWPLISRYRAAVRTQSSKVEMIDALYKPIANGNDDGIIRELLLDF 701
PS+ +V + WP + Q S E +K L+
Sbjct: 180 PSIVGLVSTIDQHLGQWPAMVWNNP--HGQESMTEQFTDKFK-------------TRLEL 224
Query: 702 YRTSKQRK---PKQIIIFRDGVSESQFNQVLNIELEQIIKAYQHLGEA-DIPKFTVIVAQ 757
+R++ P+ I+IFRDGVSE QF V+ EL + A + + A +P+ T+IV+
Sbjct: 225 WRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSV 284
Query: 758 KNHHTKLFQASGPENV-------PPGTVVDTRIVHPRNYDFYMCAHAGMIGTSRPAHYHV 810
K H T+ F + P+++ GTVVD + + R +DF++ AHA + GT+R AHY V
Sbjct: 285 KRHQTRFF-PTDPKHIHFKSKSPKEGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTV 343
Query: 811 LLDEI------GFSPDDLQNLIHSLSYVYQRSTTAISIVAPICYAHL 851
L+DEI + D L+ L H + Y++ R+T A+SI P YA L
Sbjct: 344 LVDEIFRADYGNKAADTLEQLTHDMCYLFGRATKAVSICPPAYYADL 390
>pdb|4F1N|A Chain A, Crystal Structure Of Kluyveromyces Polysporus Argonaute With
A Guide Rna
pdb|4F1N|B Chain B, Crystal Structure Of Kluyveromyces Polysporus Argonaute With
A Guide Rna
Length = 1046
Score = 130 bits (328), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 110/374 (29%), Positives = 178/374 (47%), Gaps = 43/374 (11%)
Query: 553 FILCVLPERKNSDIYGPWKKKSLSDFGIATQCI---SPTKINDQYLTNVLLKINSKLGGI 609
+IL VL +S +Y K + FG C+ + K + QY +NV++K+N KL G
Sbjct: 683 YILYVLRRGNDSAVYDRLKYITDLKFGALNSCVVWDNFKKNSIQYNSNVVMKMNLKLLGS 742
Query: 610 NSLLALEQSSL-IPLIKDTPTMILGMDVSHGSPGRSDIPSVAAVVGSQSWPLISRYRAAV 668
N L++E + L I + P ++LG DV+H D S+A++VGS +++
Sbjct: 743 NHSLSIENNKLLIDKESNLPILVLGSDVTHYP--EKDQNSIASLVGSYD-DKFTQFPGDY 799
Query: 669 RTQSSKVEMIDALYKPIANGNDDGIIRELLLDFYRTSKQRKPKQIIIFRDGVSESQFNQV 728
Q E I N ++ L + + + + P +I+ FRDGVS QF+QV
Sbjct: 800 MLQDGPGEEIIT--------NVGSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQFSQV 851
Query: 729 LNIELEQIIKAYQHLG------EADIPKFTVIVAQKNHHTKLF-------QASGPE---- 771
+ IE++ I ++ + G P T I K + + G E
Sbjct: 852 VKIEVKSIKESVRKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEVAVQ 911
Query: 772 ---NVPPGTVVDTRIVHPRNYDFYMCAHAGMIGTSRPAHYHVLLDEIGFSPDDLQNLIHS 828
NV PGTVVD I ++DF++ +H + GT P HY L DE + D LQ + ++
Sbjct: 912 SMGNVMPGTVVDRGITSVAHFDFFIQSHQALKGTGVPCHYWCLYDENQSTSDYLQEICNN 971
Query: 829 LSYVYQRSTTAISIVAPICYAHLAASQMGQFIK--FEDSSDTSITSAGSVPVPE------ 880
L Y++ RSTT++ + AP+ YA L ++ F K FE + + GS P
Sbjct: 972 LCYIFGRSTTSVKVPAPVYYADLLCTRATCFFKAGFELNMAQAPKEKGSKDQPTVSKNVL 1031
Query: 881 LPRLHKNVESSMFF 894
LP+++ N++S M++
Sbjct: 1032 LPQVNDNIKSVMYY 1045
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 93.6 bits (231), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 95/340 (27%), Positives = 141/340 (41%), Gaps = 88/340 (25%)
Query: 537 ERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQCISP-----TKIN 591
E+ F ++L QF++ +LP RK+ IY K+ + FG+ T C TK
Sbjct: 65 EKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 592 DQYLTNVLLKINSKLGGINSLLALEQSSLIPLIKDTPTMILGMDVSHGS---PGRS--DI 646
Y NV LK+N K GG N + + IPL+ TM++G DV+H + G+S
Sbjct: 124 LGYFANVGLKVNLKFGGTNHNI----KTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASA 179
Query: 647 PSVAAVVGS-----QSWPLISRYRAAVRTQSSKVEMIDALYKPIANGNDDGIIRELLLDF 701
PS+ +V + WP + Q S E +K L+
Sbjct: 180 PSIVGLVSTIDQHLGQWPAMVWNNP--HGQESMTEQFTDKFK-------------TRLEL 224
Query: 702 YRTSKQRK---PKQIIIFRDGVSESQFNQVLNIELEQIIKAYQHLGEA-DIPKFTVIVAQ 757
+R++ P+ I+IFRDGVSE QF V+ EL + A + + A +P+ T+IV+
Sbjct: 225 WRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSV 284
Query: 758 KNHHTKLFQASGPENVPPGTVVDTRIVHPRNYDFYMCAHAGMIGTSRPAHYHVLLDEI-- 815
K S AHY VL+DEI
Sbjct: 285 KG-------------------------------------------SGSAHYTVLVDEIFR 301
Query: 816 ----GFSPDDLQNLIHSLSYVYQRSTTAISIVAPICYAHL 851
+ D L+ L H + Y++ R+T A+SI P YA L
Sbjct: 302 ADYGNKAADTLEQLTHDMCYLFGRATKAVSICPPAYYADL 341
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 83.6 bits (205), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 51/175 (29%), Positives = 97/175 (55%), Gaps = 17/175 (9%)
Query: 261 TMILKPGPVIDFLIANQNVR---EPR--FIDWTKAK--KMLRNLRVKPRH---RNMEFKI 310
T K PVIDF+ ++R E R D + K K ++ L+++ H ++++
Sbjct: 2 TAFYKAQPVIDFMCEVLDIRDINEQRKPLTDSQRVKFTKEIKGLKIEITHCGQMRRKYRV 61
Query: 311 VGLSEKPCNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVGKPK 370
++ +P Q FP+++++ G+T+E TV YF R++L Y +LPCL VG+
Sbjct: 62 CNVTRRPAQMQSFPLQLEN------GQTVECTVAKYFLDKYRMKLRYP-HLPCLQVGQEH 114
Query: 371 RPNYLPLELCSLVSLQRYTKALSSMQRASLVEKSRQKPQDRMRTLTDALRSYSYD 425
+ YLPLE+C++V+ QR K L+ MQ +++++ + + DR R + + ++ ++
Sbjct: 115 KHTYLPLEVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVKRADFN 169
>pdb|1SI2|A Chain A, Crystal Structure Of The Paz Domain Of Human Eif2c1 In
Complex With A 9-Mer Sirna-Like Duplex Of
Deoxynucleotide Overhang
Length = 149
Score = 76.3 bits (186), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 87/147 (59%), Gaps = 17/147 (11%)
Query: 268 PVIDFLIANQNVR----EPR-FIDWTKAK--KMLRNLRVKPRH---RNMEFKIVGLSEKP 317
PVI+F+ ++R +P+ D + + K ++ L+V+ H ++++ ++ +P
Sbjct: 7 PVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRP 66
Query: 318 CNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVGKPKRPNYLPL 377
+ Q FP++++S G+T+E TV YF Q ++L Y +LPCL VG+ ++ YLPL
Sbjct: 67 ASHQTFPLQLES------GQTVECTVAQYFKQKYNLQLKY-PHLPCLQVGQEQKHTYLPL 119
Query: 378 ELCSLVSLQRYTKALSSMQRASLVEKS 404
E+C++V+ QR K L+ Q +++++ +
Sbjct: 120 EVCNIVAGQRCIKKLTDNQTSTMIKAT 146
>pdb|1SI3|A Chain A, Crystal Structure Of The Paz Domain Of Human Eif2c1 In
Complex With A 9-Mer Sirna-Like Duplex
Length = 149
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 85/147 (57%), Gaps = 17/147 (11%)
Query: 268 PVIDFLIANQNVR----EPR-FIDWTKAK--KMLRNLRVKPRH---RNMEFKIVGLSEKP 317
PVI+F ++R +P+ D + + K ++ L+V+ H ++++ ++ +P
Sbjct: 7 PVIEFXCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQXKRKYRVCNVTRRP 66
Query: 318 CNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVGKPKRPNYLPL 377
+ Q FP++++S G+T+E TV YF Q ++L Y +LPCL VG+ ++ YLPL
Sbjct: 67 ASHQTFPLQLES------GQTVECTVAQYFKQKYNLQLKY-PHLPCLQVGQEQKHTYLPL 119
Query: 378 ELCSLVSLQRYTKALSSMQRASLVEKS 404
E+C++V+ QR K L+ Q ++ ++ +
Sbjct: 120 EVCNIVAGQRCIKKLTDNQTSTXIKAT 146
>pdb|4G0O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago5 Mid Domain
pdb|4G0O|B Chain B, Crystal Structure Of Arabidopsis Thaliana Ago5 Mid Domain
Length = 139
Score = 61.6 bits (148), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 72/152 (47%), Gaps = 23/152 (15%)
Query: 472 NNKRFLEATRIDRWIVVNFSARCDTS---HISRELINCGRNKGIHIER----PFTLIEED 524
++K+ + ++ W V+FS R D ++LI +KG+ + PF
Sbjct: 1 SDKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFI----- 55
Query: 525 QQTRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQC 584
P +E I ++ PG Q ++ +LP+ S YG K+ ++ GI +QC
Sbjct: 56 -----SCPPEHIEEALLDIHKRAPGL-QLLIVILPDVTGS--YGKIKRICETELGIVSQC 107
Query: 585 ISP---TKINDQYLTNVLLKINSKLGGINSLL 613
P K+N QY+ NV LKIN K GG N++L
Sbjct: 108 CQPRQVNKLNKQYMENVALKINVKTGGRNTVL 139
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 43/158 (27%), Positives = 76/158 (48%), Gaps = 26/158 (16%)
Query: 473 NKRFLEATRIDRWIVVNFSARCDTS---HISRELINCGRNKGIHIE----------RPFT 519
NK+ + ++ WI +NFS + + +EL G+ RP
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARP-E 60
Query: 520 LIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFG 579
+E+ +TR + ++ + E+ ++ +LP++KNSD+YG K+ ++ G
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEI---------DLLIVILPDKKNSDLYGDLKRICETELG 111
Query: 580 IATQCISPT---KINDQYLTNVLLKINSKLGGINSLLA 614
I +QC K++ QY+ NV LKIN K+GG N++L
Sbjct: 112 IVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 149
>pdb|3LUC|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|C Chain C, Crystal Structure Of Mid Domain From Hago2
pdb|3LUD|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUG|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUH|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUJ|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3QX8|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX9|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
Length = 138
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/147 (27%), Positives = 67/147 (45%), Gaps = 17/147 (11%)
Query: 472 NNKRFLEATRIDRWIVVNFSAR--CDTSHI---SRELINCGRNKGIHIERPFTLIEEDQQ 526
+NK+F I W + F+ + C H+ + +L R+ G+ I+ + Q
Sbjct: 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQG 60
Query: 527 TRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQCIS 586
VE MF + G Q ++ +LP + + +Y K+ + G+ATQC+
Sbjct: 61 ADS------VEPMFRHLKNTYAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGMATQCVQ 111
Query: 587 PTKI---NDQYLTNVLLKINSKLGGIN 610
+ Q L+N+ LKIN KLGG+N
Sbjct: 112 MKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 72/158 (45%), Gaps = 27/158 (17%)
Query: 473 NKRFLEATRIDRWIVVNFSARCDTS---HISRELINCGRNKGIHIE----------RPFT 519
NK+ + ++ WI +NFS + + +EL G+ RP
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARP-E 60
Query: 520 LIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFG 579
+E+ +TR + ++ + E+ ++ +LP+ N +YG K+ ++ G
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEI---------DLLIVILPDN-NGSLYGDLKRICETELG 110
Query: 580 IATQCISPT---KINDQYLTNVLLKINSKLGGINSLLA 614
I +QC K++ QY+ NV LKIN K+GG N++L
Sbjct: 111 IVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 148
>pdb|4G0P|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Ump
pdb|4G0Q|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Cmp
pdb|4G0Y|A Chain A, Crystal Structure Of Arabidopsis Ago1 In Complex With Amp
pdb|4G0Z|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Gmp
Length = 147
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 72/157 (45%), Gaps = 27/157 (17%)
Query: 473 NKRFLEATRIDRWIVVNFSARCDTS---HISRELINCGRNKGIHIE----------RPFT 519
NK+ + ++ WI +NFS + + +EL G+ RP
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARP-E 60
Query: 520 LIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFG 579
+E+ +TR + ++ + E+ ++ +LP+ N +YG K+ ++ G
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEI---------DLLIVILPDN-NGSLYGDLKRICETELG 110
Query: 580 IATQCISPT---KINDQYLTNVLLKINSKLGGINSLL 613
I +QC K++ QY+ NV LKIN K+GG N++L
Sbjct: 111 IVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|4G0M|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
pdb|4G0M|B Chain B, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
Length = 150
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 14/140 (10%)
Query: 482 IDRWIVVNFSARCDTSHISRELIN-----CGRNKGIHIERPFTLIEEDQQT-RRGNPVVR 535
+ W V++F+A + + + ++ C R G+ +E P +T GN +
Sbjct: 11 VKHWAVLDFTASERFNKMPNDFVDNLIDRCWR-LGMQMEAPIVYKTSRMETLSNGNAIEE 69
Query: 536 VER-MFELITEKLPGP-PQFILCVLPERKNSDIYGPWKKKSLSDFGIATQCI---SPTKI 590
+ R + + + K G P +LC + + D Y K + + G+ TQC TK
Sbjct: 70 LLRSVIDEASRKHGGARPTLVLCAMSRK--DDGYKTLKWIAETKLGLVTQCFLTGPATKG 127
Query: 591 NDQYLTNVLLKINSKLGGIN 610
DQY N+ LK+N+K+GG N
Sbjct: 128 GDQYRANLALKMNAKVGGSN 147
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 27/157 (17%)
Query: 473 NKRFLEATRIDRWIVVNFSARCDTS---HISRELINCGRNKGIHIE----------RPFT 519
NK+ + ++ WI +NFS + + +EL G RP
Sbjct: 2 NKKXINGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAFNPEPVLPPVSARP-E 60
Query: 520 LIEEDQQTRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFG 579
+E+ +TR + ++ + E+ ++ +LP+ N +YG K+ ++ G
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEI---------DLLIVILPDN-NGSLYGDLKRICETELG 110
Query: 580 IATQCISPT---KINDQYLTNVLLKINSKLGGINSLL 613
I +QC K + QY NV LKIN K+GG N++L
Sbjct: 111 IVSQCCLTKHVFKXSKQYXANVALKINVKVGGRNTVL 147
>pdb|3LUK|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|C Chain C, Crystal Structure Of Mid Domain From Hago2
Length = 138
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 39/147 (26%), Positives = 64/147 (43%), Gaps = 17/147 (11%)
Query: 472 NNKRFLEATRIDRWIVVNFSAR--CDTSHI---SRELINCGRNKGIHIERPFTLIEEDQQ 526
+NK+F I W + F+ + C H+ + +L R+ G I+ + Q
Sbjct: 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGXPIQGQPCFCKYAQG 60
Query: 527 TRRGNPVVRVERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQCIS 586
VE F + G Q ++ +LP + + +Y K+ + G ATQC+
Sbjct: 61 ADS------VEPXFRHLKNTYAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGXATQCVQ 111
Query: 587 PTKIN---DQYLTNVLLKINSKLGGIN 610
+ Q L+N+ LKIN KLGG+N
Sbjct: 112 XKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 28/79 (35%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 537 ERMFELITEKLPGPPQFILCVLPERKNSDIYGPWKKKSLSDFGIATQC-----ISPTKIN 591
E+ F ++L QF++ +LP RK+ IY K+ + FG+ T C TK
Sbjct: 65 EKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 592 DQYLTNVLLKINSKLGGIN 610
Y NV LK+N K GG N
Sbjct: 124 LGYFANVGLKVNLKFGGTN 142
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 13/95 (13%)
Query: 308 FKIVGLSEKPCNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVG 367
+++ GLS P + + F E + ++T+ YF H R L CL+VG
Sbjct: 57 YRVNGLSRAPASSETF-----------EHDGKKVTIASYF--HSRNYPLKFPQLHCLNVG 103
Query: 368 KPKRPNYLPLELCSLVSLQRYTKALSSMQRASLVE 402
+ LP+ELCS+ Q + + Q A++++
Sbjct: 104 SSIKSILLPIELCSIEEGQALNRKDGATQVANMIK 138
>pdb|1R6Z|P Chain P, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
pdb|1R6Z|A Chain A, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
pdb|1R6Z|Z Chain Z, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
Length = 509
Score = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 13/75 (17%)
Query: 308 FKIVGLSEKPCNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVG 367
+++ GLS P + + F E + ++T+ YF H R L CL+VG
Sbjct: 437 YRVNGLSRAPASSETF-----------EHDGKKVTIASYF--HSRNYPLKFPQLHCLNVG 483
Query: 368 KPKRPNYLPLELCSL 382
+ LP+ELCS+
Sbjct: 484 SSIKSILLPIELCSI 498
>pdb|3MJ0|A Chain A, Crystal Structure Of Drosophia Ago-Paz Domain In Complex
With 3'-End 2'-O-Methylated Rna
Length = 124
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 13/75 (17%)
Query: 308 FKIVGLSEKPCNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVG 367
+++ GLS P + + F E + ++T+ YF H R L CL+VG
Sbjct: 55 YRVNGLSRAPASSETF-----------EHDGKKVTIASYF--HSRNYPLKFPQLHCLNVG 101
Query: 368 KPKRPNYLPLELCSL 382
+ LP+ELCS+
Sbjct: 102 SSIKSILLPIELCSI 116
>pdb|1T2R|A Chain A, Structural Basis For 3' End Recognition Of Nucleic Acids
By The Drosophila Argonaute 2 Paz Domain
pdb|1T2S|A Chain A, Structural Basis For 3' End Recognition Of Nucleic Acids
By The Drosophila Argonaute 2 Paz Domain
Length = 123
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 13/75 (17%)
Query: 308 FKIVGLSEKPCNQQFFPMKVKSTEGTNEGETLEITVYDYFTQHCRIELTYSAYLPCLDVG 367
+++ GLS P + + F E + ++T+ YF H R L CL+VG
Sbjct: 57 YRVNGLSRAPASSETF-----------EHDGKKVTIASYF--HSRNYPLKFPQLHCLNVG 103
Query: 368 KPKRPNYLPLELCSL 382
+ LP+ELCS+
Sbjct: 104 SSIKSILLPIELCSI 118
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,290,505
Number of Sequences: 62578
Number of extensions: 1051100
Number of successful extensions: 2453
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2391
Number of HSP's gapped (non-prelim): 23
length of query: 895
length of database: 14,973,337
effective HSP length: 108
effective length of query: 787
effective length of database: 8,214,913
effective search space: 6465136531
effective search space used: 6465136531
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)