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= 002636
(898 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 350 bits (898), Expect = 2e-96, Method: Compositional matrix adjust.
Identities = 263/876 (30%), Positives = 418/876 (47%), Gaps = 102/876 (11%)
Query: 40 PMARRNHGTKGTPMTLLTNHFEVRMRQTEGYFCHYSVALFYEDGHPVDGKGIGRKILDKV 99
P R + GT G + L N FE+ + + + Y HY + + E + + R+I++ +
Sbjct: 25 PPPRPDFGTSGRTIKLQANFFEMDIPKIDIY--HYELDIKPEKC----PRRVNREIVEHM 78
Query: 100 QETYSHELEG-KHFAYDGEKSLFTLGSFQ--RKKLEFTIVVEDLSSNRTARNXXXXXXXX 156
+ + ++ G + +DG K+L+T R K+E + + +R
Sbjct: 79 VQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEGKDR------------ 126
Query: 157 XXXXXRKRMRRPSRSKVIRVEISYAAKIPMQAIANALRGQETEHFQEAMRVLDIILRQNA 216
+ +V I + + + +QA+ +AL G+ E ++ LD+++R
Sbjct: 127 ----------------IFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 170
Query: 217 ANQGCLLVRQSFFHNNPRNFADLGGGVMGCRGFHSSFRATQSGLSLNMDVSTTMIVKPGP 276
+ + + R SFF + LGGG GFH S R + + LN+DVS T K P
Sbjct: 171 SMRYTPVGR-SFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQP 229
Query: 277 VVNFLLANQNVR--EPHQIDWNKAKRV-----LKNLRINTNHSNT---EYKITGLSDLPC 326
V+ F+ + + E Q ++RV +K L++ H +Y++ ++ P
Sbjct: 230 VIEFVCEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPA 289
Query: 327 NQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGKPKRASYIPLEL 386
+ QTF L+Q+SG +E TV +YF + + L Y PC+ VG+ ++ +Y+PLE+
Sbjct: 290 SHQTFPLQQESGQT-----VECTVAQYFKDRHKLVLRY-PHLPCLQVGQEQKHTYLPLEV 343
Query: 387 CTLVSLQRYTKALSNQQRASLVEKSRQKPQERMGVLTEAMRRNNYGADQMLRSFGISIGT 446
C +V+ QR K L++ Q ++++ + + +R +++ MR ++ D +R FGI +
Sbjct: 344 CNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSADFNTDPYVREFGIMVKD 403
Query: 447 QFTQVEGRTLPAPKLKVG--NGEDFFPRGGRWNFNNKQLVEPMQIKWWAIVNFSAR---- 500
+ T V GR L P + G N P G W+ NKQ ++IK WAI F+ +
Sbjct: 404 EMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCT 463
Query: 501 -CDIRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRREAAPIRVERMFEIIXXXXXXXXX 559
++S L + GM I F + Q VE MF +
Sbjct: 464 EVHLKSFTEQLRKISRDAGMPIQG-QPCFCKYAQ-----GADSVEPMFRHLKNTYAGLQL 517
Query: 560 XXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIAPTKV---NDQYITNVLLKINAKLGGM 616
ILP + + +Y KR + G+ TQC+ V Q ++N+ LKIN KLGG+
Sbjct: 518 VV-VILPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGV 574
Query: 617 NSLLTLEHSRSIPLVSKPVTMILGMDVSHGSPGRSDLPSIAAVVSSRQWPSISRYRASVR 676
N++L L R P+ +PV + LG DV+H G PSIAAVV S +RY A+VR
Sbjct: 575 NNIL-LPQGRP-PVFQQPV-IFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVR 630
Query: 677 TQSPKVEMIANLFKPGSETEDYGIIRELFVDFYSTSGKRKPENIIIFRLNTLSCTFLQI- 735
Q + E+I +L ++REL + FY ++ + KP II +R F Q+
Sbjct: 631 VQQHRQEIIQDL---------AAMVRELLIQFYKST-RFKPTRIIFYRDGVSEGQFQQVL 680
Query: 736 --------EASKFLDEKWSPKFTVIVAQKNHHTKFF------QSGRPENVPPGTVVDKGV 781
EA L++ + P T IV QK HHT+ F + G+ N+P GT VD +
Sbjct: 681 HHELLAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKI 740
Query: 782 CHPRNNDFYLCAHAGMIGTSRPTHYHVLHDEIGFSADDLQELVHSLSYVYQRSTTAVSVV 841
HP DFYLC+HAG+ GTSRP+HYHVL D+ FS+D+LQ L + L + Y R T +VS+
Sbjct: 741 THPTEFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIP 800
Query: 842 TPICYAHLAAAQMSQFIKFDEMSDTSSSHNAMTSAG 877
P YAHL A + + E SH + S G
Sbjct: 801 APAYYAHLVAFRARYHLVDKEHDSAEGSHTSGQSNG 836
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 349 bits (896), Expect = 3e-96, Method: Compositional matrix adjust.
Identities = 263/876 (30%), Positives = 418/876 (47%), Gaps = 102/876 (11%)
Query: 40 PMARRNHGTKGTPMTLLTNHFEVRMRQTEGYFCHYSVALFYEDGHPVDGKGIGRKILDKV 99
P R + GT G + L N FE+ + + + Y HY + + E + + R+I++ +
Sbjct: 27 PPPRPDFGTSGRTIKLQANFFEMDIPKIDIY--HYELDIKPEKC----PRRVNREIVEHM 80
Query: 100 QETYSHELEG-KHFAYDGEKSLFTLGSFQ--RKKLEFTIVVEDLSSNRTARNXXXXXXXX 156
+ + ++ G + +DG K+L+T R K+E + + +R
Sbjct: 81 VQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEGKDR------------ 128
Query: 157 XXXXXRKRMRRPSRSKVIRVEISYAAKIPMQAIANALRGQETEHFQEAMRVLDIILRQNA 216
+ +V I + + + +QA+ +AL G+ E ++ LD+++R
Sbjct: 129 ----------------IFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 172
Query: 217 ANQGCLLVRQSFFHNNPRNFADLGGGVMGCRGFHSSFRATQSGLSLNMDVSTTMIVKPGP 276
+ + + R SFF + LGGG GFH S R + + LN+DVS T K P
Sbjct: 173 SMRYTPVGR-SFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQP 231
Query: 277 VVNFLLANQNVR--EPHQIDWNKAKRV-----LKNLRINTNHSNT---EYKITGLSDLPC 326
V+ F+ + + E Q ++RV +K L++ H +Y++ ++ P
Sbjct: 232 VIEFVCEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPA 291
Query: 327 NQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGKPKRASYIPLEL 386
+ QTF L+Q+SG +E TV +YF + + L Y PC+ VG+ ++ +Y+PLE+
Sbjct: 292 SHQTFPLQQESGQT-----VECTVAQYFKDRHKLVLRYP-HLPCLQVGQEQKHTYLPLEV 345
Query: 387 CTLVSLQRYTKALSNQQRASLVEKSRQKPQERMGVLTEAMRRNNYGADQMLRSFGISIGT 446
C +V+ QR K L++ Q ++++ + + +R +++ MR ++ D +R FGI +
Sbjct: 346 CNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSASFNTDPYVREFGIMVKD 405
Query: 447 QFTQVEGRTLPAPKLKVG--NGEDFFPRGGRWNFNNKQLVEPMQIKWWAIVNFSAR---- 500
+ T V GR L P + G N P G W+ NKQ ++IK WAI F+ +
Sbjct: 406 EMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCT 465
Query: 501 -CDIRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRREAAPIRVERMFEIIXXXXXXXXX 559
++S L + GM I F + Q VE MF +
Sbjct: 466 EVHLKSFTEQLRKISRDAGMPIQG-QPCFCKYAQ-----GADSVEPMFRHLKNTYAGLQL 519
Query: 560 XXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIAPTKV---NDQYITNVLLKINAKLGGM 616
ILP + + +Y KR + G+ TQC+ V Q ++N+ LKIN KLGG+
Sbjct: 520 VV-VILPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGV 576
Query: 617 NSLLTLEHSRSIPLVSKPVTMILGMDVSHGSPGRSDLPSIAAVVSSRQWPSISRYRASVR 676
N++L L R P+ +PV + LG DV+H G PSIAAVV S +RY A+VR
Sbjct: 577 NNIL-LPQGRP-PVFQQPV-IFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVR 632
Query: 677 TQSPKVEMIANLFKPGSETEDYGIIRELFVDFYSTSGKRKPENIIIFRLNTLSCTFLQI- 735
Q + E+I +L ++REL + FY ++ + KP II +R F Q+
Sbjct: 633 VQQHRQEIIQDL---------AAMVRELLIQFYKST-RFKPTRIIFYRDGVSEGQFQQVL 682
Query: 736 --------EASKFLDEKWSPKFTVIVAQKNHHTKFF------QSGRPENVPPGTVVDKGV 781
EA L++ + P T IV QK HHT+ F + G+ N+P GT VD +
Sbjct: 683 HHELLAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKI 742
Query: 782 CHPRNNDFYLCAHAGMIGTSRPTHYHVLHDEIGFSADDLQELVHSLSYVYQRSTTAVSVV 841
HP DFYLC+HAG+ GTSRP+HYHVL D+ FS+D+LQ L + L + Y R T +VS+
Sbjct: 743 THPTEFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIP 802
Query: 842 TPICYAHLAAAQMSQFIKFDEMSDTSSSHNAMTSAG 877
P YAHL A + + E SH + S G
Sbjct: 803 APAYYAHLVAFRARYHLVDKEHDSAEGSHTSGQSNG 838
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 124 bits (312), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 110/344 (31%), Positives = 158/344 (45%), Gaps = 55/344 (15%)
Query: 564 ILPERKNSDIYGPWKRKNLSEAGIVTQCIAP-----TKVNDQYITNVLLKINAKLGGMNS 618
+L RK+ IY KR G+ T C TK Y NV LK+N K GG N
Sbjct: 84 VLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNH 143
Query: 619 LLTLEHSRSIPLVSKPVTMILGMDVSHGS---PGRS--DLPSIAAVVSS-----RQWPSI 668
+ IPL++K TM++G DV+H + G+S PSI +VS+ QWP++
Sbjct: 144 NI----KTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTIDQHLGQWPAM 199
Query: 669 SRYRASVRTQSPKVEMIANLFKPGSETEDYGIIRELFVDFYSTSGKRKPENIIIFRLNTL 728
+ Q E + FK E + + PENI+IFR
Sbjct: 200 --VWNNPHGQESMTEQFTDKFKTRLELWRSN----------PANNRSLPENILIFRDGVS 247
Query: 729 SCTFLQI---------EASKFLDEKWS-PKFTVIVAQKNHHTKFFQSG------RPENVP 772
F + A K + P+ T+IV+ K H T+FF + + ++
Sbjct: 248 EGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKRHQTRFFPTDPKHIHFKSKSPK 307
Query: 773 PGTVVDKGVCHPRNNDFYLCAHAGMIGTSRPTHYHVLHDEI------GFSADDLQELVHS 826
GTVVD+GV + R DF+L AHA + GT+R HY VL DEI +AD L++L H
Sbjct: 308 EGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTVLVDEIFRADYGNKAADTLEQLTHD 367
Query: 827 LSYVYQRSTTAVSVVTPICYAHLAA--AQMSQFIKFDEMSDTSS 868
+ Y++ R+T AVS+ P YA L A++ Q FD + + S
Sbjct: 368 MCYLFGRATKAVSICPPAYYADLVCDRARIHQKELFDALDENDS 411
>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 = 98.2 bits (243), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 89/294 (30%), Positives = 142/294 (48%), Gaps = 49/294 (16%)
Query: 600 QYITNVLLKINAKLGGMNSLLTLEHSRSIPLVSK----PVTMILGMDVSHGSPGRSDLPS 655
QY +NV++K+N KL G N L++E+++ L+ K P+ ++LG DV+H D S
Sbjct: 726 QYNSNVVMKMNLKLLGSNHSLSIENNKL--LIDKESNLPI-LVLGSDVTHYP--EKDQNS 780
Query: 656 IAAVVSSRQWPSISRYRASVRTQS-PKVEMIANLFKPGSETEDYGIIRELFVDFYSTSGK 714
IA++V S +++ Q P E+I N+ GS ++ L + +GK
Sbjct: 781 IASLVGSYD-DKFTQFPGDYMLQDGPGEEIITNV---GSL-----MLNRLKIYQKHNNGK 831
Query: 715 RKPENIIIFRLNTLSCTFLQI----------EASKFLDE-----KWSPKFTVIVAQKNHH 759
P I+ FR F Q+ KF + K+ P T I K +
Sbjct: 832 L-PTKIMYFRDGVSVDQFSQVVKIEVKSIKESVRKFGPQLNGGNKYDPPVTCIATVKRNQ 890
Query: 760 TKFF---QSGRPE-----------NVPPGTVVDKGVCHPRNNDFYLCAHAGMIGTSRPTH 805
+F ++ + E NV PGTVVD+G+ + DF++ +H + GT P H
Sbjct: 891 VRFIPIQENAKNEKGEEVAVQSMGNVMPGTVVDRGITSVAHFDFFIQSHQALKGTGVPCH 950
Query: 806 YHVLHDEIGFSADDLQELVHSLSYVYQRSTTAVSVVTPICYAHLAAAQMSQFIK 859
Y L+DE ++D LQE+ ++L Y++ RSTT+V V P+ YA L + + F K
Sbjct: 951 YWCLYDENQSTSDYLQEICNNLCYIFGRSTTSVKVPAPVYYADLLCTRATCFFK 1004
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 37/167 (22%), Positives = 68/167 (40%), Gaps = 19/167 (11%)
Query: 332 SLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGKPKRASYIPLELCTLVS 391
SLK+ S + I I +YF I L+Y D +N+G + +P E T+V
Sbjct: 406 SLKKNSAPKPNEKPININTIDYFKRKYDITLKY-PDMKLVNLG--GKNDVVPPECLTIVP 462
Query: 392 LQRYTKALSNQQRASLVEKSRQKPQERMGVLTE----AMRRNNYGADQMLRSFGISIGTQ 447
Q+ + + + + ++ S +P E+ +++ A++R +++ S + Q
Sbjct: 463 GQKLKGQIFDTK--TYIDFSAIRPTEKFDLISRLSMPAIKRGLTDSEKEESSAPHNSAYQ 520
Query: 448 FTQVEGRTLPAPKLKVGN----------GEDFFPRGGRWNFNNKQLV 484
F +V R L AP ++ G G WN Q +
Sbjct: 521 FMRVPSRILDAPVVQFKESTFEYKDKSYGTKHEESKGNWNMKGHQFI 567
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 92/174 (52%), Gaps = 16/174 (9%)
Query: 269 TMIVKPGPVVNFLLANQNVREPHQ-----IDWNKAK--RVLKNLRINTNHSNT---EYKI 318
T K PV++F+ ++R+ ++ D + K + +K L+I H +Y++
Sbjct: 2 TAFYKAQPVIDFMCEVLDIRDINEQRKPLTDSQRVKFTKEIKGLKIEITHCGQMRRKYRV 61
Query: 319 TGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGKPKR 378
++ P Q+F L+ ++G +E TV +YF++ +KL Y PC+ VG+ +
Sbjct: 62 CNVTRRPAQMQSFPLQLENGQ-----TVECTVAKYFLDKYRMKLRYP-HLPCLQVGQEHK 115
Query: 379 ASYIPLELCTLVSLQRYTKALSNQQRASLVEKSRQKPQERMGVLTEAMRRNNYG 432
+Y+PLE+C +V+ QR K L++ Q +++++ + + +R + ++R ++
Sbjct: 116 HTYLPLEVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVKRADFN 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 = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 39/146 (26%), Positives = 81/146 (55%), Gaps = 16/146 (10%)
Query: 276 PVVNFLLANQNVR----EPHQIDWNKAKRV---LKNLRINTNHSNT---EYKITGLSDLP 325
PV+ F+ ++R +P + ++ R +K L++ H +Y++ ++ P
Sbjct: 7 PVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRP 66
Query: 326 CNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGKPKRASYIPLE 385
+ QTF L+ +SG +E TV +YF +++L+Y PC+ VG+ ++ +Y+PLE
Sbjct: 67 ASHQTFPLQLESGQT-----VECTVAQYFKQKYNLQLKY-PHLPCLQVGQEQKHTYLPLE 120
Query: 386 LCTLVSLQRYTKALSNQQRASLVEKS 411
+C +V+ QR K L++ Q +++++ +
Sbjct: 121 VCNIVAGQRCIKKLTDNQTSTMIKAT 146
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 69.7 bits (169), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 87/328 (26%), Positives = 131/328 (39%), Gaps = 72/328 (21%)
Query: 564 ILPERKNSDIYGPWKRKNLSEAGIVTQCIAP-----TKVNDQYITNVLLKINAKLGGMNS 618
+L RK+ IY KR G+ T C TK Y NV LK+N K GG N
Sbjct: 84 VLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNH 143
Query: 619 LLTLEHSRSIPLVSKPVTMILGMDVSHGS---PGRS--DLPSIAAVVSS-----RQWPSI 668
+ IPL++K TM++G DV+H + G+S PSI +VS+ QWP++
Sbjct: 144 NI----KTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTIDQHLGQWPAM 199
Query: 669 SRYRASVRTQSPKVEMIANLFKPGSETEDYGIIRELFVDFYSTSGKRKPENIIIFRLNTL 728
+ Q E + FK E + + PENI+IFR
Sbjct: 200 --VWNNPHGQESMTEQFTDKFKTRLELWRSN----------PANNRSLPENILIFRDGVS 247
Query: 729 SCTFLQIEASKFLDEKWSPKFTVIVAQKNHHTKFFQSGRPENVPPGTVVDKGVCHPRNND 788
F + + + + K + +G+ +P T++
Sbjct: 248 EGQFQMVIKDELPLVRAACKLV------------YPAGK---LPRITLIVS--------- 283
Query: 789 FYLCAHAGMIGTSRPTHYHVLHDEI------GFSADDLQELVHSLSYVYQRSTTAVSVVT 842
+ S HY VL DEI +AD L++L H + Y++ R+T AVS+
Sbjct: 284 ---------VKGSGSAHYTVLVDEIFRADYGNKAADTLEQLTHDMCYLFGRATKAVSICP 334
Query: 843 PICYAHLAA--AQMSQFIKFDEMSDTSS 868
P YA L A++ Q FD + + S
Sbjct: 335 PAYYADLVCDRARIHQKELFDALDENDS 362
>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 = 67.0 bits (162), Expect = 5e-11, Method: Composition-based stats.
Identities = 33/113 (29%), Positives = 66/113 (58%), Gaps = 9/113 (7%)
Query: 302 LKNLRINTNH---SNTEYKITGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNR 358
+K L++ H +Y++ ++ P + QTF L+ +SG +E TV +YF
Sbjct: 40 IKGLKVEVTHCGQXKRKYRVCNVTRRPASHQTFPLQLESGQT-----VECTVAQYFKQKY 94
Query: 359 HIKLEYSADFPCINVGKPKRASYIPLELCTLVSLQRYTKALSNQQRASLVEKS 411
+++L+Y PC+ VG+ ++ +Y+PLE+C +V+ QR K L++ Q ++ ++ +
Sbjct: 95 NLQLKYP-HLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTXIKAT 146
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 67.0 bits (162), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 49/154 (31%), Positives = 74/154 (48%), Gaps = 18/154 (11%)
Query: 480 NKQLVEPMQIKWWAIVNFSARCD---IRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRR 536
NK+++ + W +NFS + R+ C L + + GM N P V +
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVLPPVS---- 56
Query: 537 EAAPIRVERMFEI------IXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQ 590
A P +VE++ + ILP++KNSD+YG KR +E GIV+Q
Sbjct: 57 -ARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGIVSQ 115
Query: 591 CIAPT---KVNDQYITNVLLKINAKLGGMNSLLT 621
C K++ QY+ NV LKIN K+GG N++L
Sbjct: 116 CCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 149
>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 = 58.2 bits (139), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 69/157 (43%), Gaps = 33/157 (21%)
Query: 479 NNKQLVEPMQIKWWAIVNFSARCD---IRSLCNNLIRCGEMKGMH---------INNPHE 526
++K++V ++ W V+FS R D + C LI KGM I+ P E
Sbjct: 1 SDKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPE 60
Query: 527 VFEESNQFRREAAPIRVERMFEIIXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAG 586
EE+ + AP ILP+ S YG KR +E G
Sbjct: 61 HIEEALLDIHKRAP----------------GLQLLIVILPDVTGS--YGKIKRICETELG 102
Query: 587 IVTQCIAP---TKVNDQYITNVLLKINAKLGGMNSLL 620
IV+QC P K+N QY+ NV LKIN K GG N++L
Sbjct: 103 IVSQCCQPRQVNKLNKQYMENVALKINVKTGGRNTVL 139
>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 = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 40/147 (27%), Positives = 64/147 (43%), Gaps = 7/147 (4%)
Query: 480 NKQLVEPMQIKWWAIVNFSARCD---IRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRR 536
NK+++ + W +NFS + R+ C L + + GM N P V +
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVLPPVSARPE 60
Query: 537 EAAPIRVERMFEIIXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIAPT- 595
+ + R + ++ N +YG KR +E GIV+QC
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKH 120
Query: 596 --KVNDQYITNVLLKINAKLGGMNSLL 620
K++ QY+ NV LKIN K+GG N++L
Sbjct: 121 VFKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 64/148 (43%), Gaps = 7/148 (4%)
Query: 480 NKQLVEPMQIKWWAIVNFSARCD---IRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRR 536
NK+++ + W +NFS + R+ C L + + GM N P V +
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVLPPVSARPE 60
Query: 537 EAAPIRVERMFEIIXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIAPT- 595
+ + R + ++ N +YG KR +E GIV+QC
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKH 120
Query: 596 --KVNDQYITNVLLKINAKLGGMNSLLT 621
K++ QY+ NV LKIN K+GG N++L
Sbjct: 121 VFKMSKQYMANVALKINVKVGGRNTVLV 148
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 50.4 bits (119), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 60/147 (40%), Gaps = 7/147 (4%)
Query: 480 NKQLVEPMQIKWWAIVNFSARCD---IRSLCNNLIRCGEMKGMHINNPHEVFEESNQFRR 536
NK+ + + W +NFS + R+ C L + + G N P V +
Sbjct: 2 NKKXINGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAFN-PEPVLPPVSARPE 60
Query: 537 EAAPIRVERMFEIIXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIAPT- 595
+ + R + ++ N +YG KR +E GIV+QC
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKH 120
Query: 596 --KVNDQYITNVLLKINAKLGGMNSLL 620
K + QY NV LKIN K+GG N++L
Sbjct: 121 VFKXSKQYXANVALKINVKVGGRNTVL 147
>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 = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/147 (29%), Positives = 63/147 (42%), Gaps = 17/147 (11%)
Query: 479 NNKQLVEPMQIKWWAIVNFSAR--CD---IRSLCNNLIRCGEMKGMHINNPHEVFEESNQ 533
+NKQ ++IK WAI F+ + C ++S L + GM I F + Q
Sbjct: 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQG-QPCFCKYAQ 59
Query: 534 FRREAAPIRVERMFEIIXXXXXXXXXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIA 593
VE MF + ILP + + +Y KR + G+ TQC+
Sbjct: 60 -----GADSVEPMFRHLKNTYAGLQLVVV-ILPGK--TPVYAEVKRVGDTVLGMATQCVQ 111
Query: 594 PTKV---NDQYITNVLLKINAKLGGMN 617
V Q ++N+ LKIN KLGG+N
Sbjct: 112 MKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 49/94 (52%), Gaps = 12/94 (12%)
Query: 316 YKITGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGK 375
Y++ GLS P + +TF + D ++T+ YF ++R+ L++ C+NVG
Sbjct: 57 YRVNGLSRAPASSETF----------EHDGKKVTIASYF-HSRNYPLKF-PQLHCLNVGS 104
Query: 376 PKRASYIPLELCTLVSLQRYTKALSNQQRASLVE 409
++ +P+ELC++ Q + Q A++++
Sbjct: 105 SIKSILLPIELCSIEEGQALNRKDGATQVANMIK 138
>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 = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 61/140 (43%), Gaps = 14/140 (10%)
Query: 489 IKWWAIVNFSARCDIRSLCNNLI-----RCGEMKGMHINNPHEVFEESNQFRREAAPIRV 543
+K WA+++F+A + N+ + RC + GM + P + ++++ + +
Sbjct: 11 VKHWAVLDFTASERFNKMPNDFVDNLIDRCWRL-GMQMEAP--IVYKTSRMETLSNGNAI 67
Query: 544 ERMFEIIXXXXXXX---XXXXXCILPERKNSDIYGPWKRKNLSEAGIVTQCIA---PTKV 597
E + + + + D Y K ++ G+VTQC TK
Sbjct: 68 EELLRSVIDEASRKHGGARPTLVLCAMSRKDDGYKTLKWIAETKLGLVTQCFLTGPATKG 127
Query: 598 NDQYITNVLLKINAKLGGMN 617
DQY N+ LK+NAK+GG N
Sbjct: 128 GDQYRANLALKMNAKVGGSN 147
>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 = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 12/74 (16%)
Query: 316 YKITGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGK 375
Y++ GLS P + +TF + D ++T+ YF ++R+ L++ C+NVG
Sbjct: 57 YRVNGLSRAPASSETF----------EHDGKKVTIASYF-HSRNYPLKF-PQLHCLNVGS 104
Query: 376 PKRASYIPLELCTL 389
++ +P+ELC++
Sbjct: 105 SIKSILLPIELCSI 118
>pdb|3MJ0|A Chain A, Crystal Structure Of Drosophia Ago-Paz Domain In Complex
With 3'-End 2'-O-Methylated Rna
Length = 124
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 12/74 (16%)
Query: 316 YKITGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGK 375
Y++ GLS P + +TF + D ++T+ YF ++R+ L++ C+NVG
Sbjct: 55 YRVNGLSRAPASSETF----------EHDGKKVTIASYF-HSRNYPLKF-PQLHCLNVGS 102
Query: 376 PKRASYIPLELCTL 389
++ +P+ELC++
Sbjct: 103 SIKSILLPIELCSI 116
>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 = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 42/74 (56%), Gaps = 12/74 (16%)
Query: 316 YKITGLSDLPCNQQTFSLKQKSGHNGDSDAIEITVYEYFVNNRHIKLEYSADFPCINVGK 375
Y++ GLS P + +TF H+G ++T+ YF ++R+ L++ C+NVG
Sbjct: 437 YRVNGLSRAPASSETFE------HDGK----KVTIASYF-HSRNYPLKFP-QLHCLNVGS 484
Query: 376 PKRASYIPLELCTL 389
++ +P+ELC++
Sbjct: 485 SIKSILLPIELCSI 498
>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 = 35.8 bits (81), Expect = 0.095, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 564 ILPERKNSDIYGPWKRKNLSEAGIVTQCIAPTKVN---DQYITNVLLKINAKLGGMN 617
ILP + + +Y KR + G TQC+ V Q ++N+ LKIN KLGG+N
Sbjct: 84 ILPGK--TPVYAEVKRVGDTVLGXATQCVQXKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 564 ILPERKNSDIYGPWKRKNLSEAGIVTQCIAP-----TKVNDQYITNVLLKINAKLGGMN 617
+L RK+ IY KR G+ T C TK Y NV LK+N K GG N
Sbjct: 84 VLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTN 142
>pdb|3RSJ|A Chain A, Structure Of Hcrf In Complex With Ganglioside Gd1a
pdb|3RSJ|B Chain B, Structure Of Hcrf In Complex With Ganglioside Gd1a
pdb|3RSJ|C Chain C, Structure Of Hcrf In Complex With Ganglioside Gd1a
pdb|3RSJ|D Chain D, Structure Of Hcrf In Complex With Ganglioside Gd1a
Length = 413
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 206 RVLDIILRQNAANQ-GCLLVRQSFFHNNPRNFADLGGGVMGCRGFHSS 252
+++ +I N+ N G ++V S +N NF + GG +G GFHS+
Sbjct: 331 KIIKLIRTSNSNNSLGQIIVMDSIGNNCTMNFQNNNGGNIGLLGFHSN 378
>pdb|3FUQ|A Chain A, Glycosylated Sv2 And Gangliosides As Dual Receptors For
Botulinum Neurotoxin Serotype F
Length = 417
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 206 RVLDIILRQNAANQ-GCLLVRQSFFHNNPRNFADLGGGVMGCRGFHSS 252
+++ +I N+ N G ++V S +N NF + GG +G GFHS+
Sbjct: 335 KIIKLIRTSNSNNSLGQIIVMDSIGNNCTMNFQNNNGGNIGLLGFHSN 382
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 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,032,781
Number of Sequences: 62578
Number of extensions: 1017107
Number of successful extensions: 1833
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1775
Number of HSP's gapped (non-prelim): 33
length of query: 898
length of database: 14,973,337
effective HSP length: 108
effective length of query: 790
effective length of database: 8,214,913
effective search space: 6489781270
effective search space used: 6489781270
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)