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= 001684
(1030 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 = 507 bits (1305), Expect = e-143, Method: Compositional matrix adjust.
Identities = 324/852 (38%), Positives = 472/852 (55%), Gaps = 62/852 (7%)
Query: 167 RPDAGGVEGAVISLLANHFLVQLDPSQRIFHYNVEMSPSPS-KEVARLIKQKLVEENSSM 225
RPD G G I L AN F + + P I+HY +++ P + V R I + +V+ +
Sbjct: 28 RPDFG-TSGRTIKLQANFFEMDI-PKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 85
Query: 226 LSG-AYPAFDGRKNIYS--PVEFENDRLEFFVSLPIPTSKSVLPSGELKELIHKQHQLKL 282
+ G P FDGRKN+Y+ P+ D++E V+LP GE K+ ++
Sbjct: 86 IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLP----------GEGKD--------RI 127
Query: 283 FRINIKLVSKYDGKELSRYLSKEDNDWIP-LPQDYLHALDVVLRENPSEKCIPVGRSLYS 341
F+++IK VS + L LS +P +P + + ALDVV+R PS + PVGRS ++
Sbjct: 128 FKVSIKWVSCVSLQALHDALSGR----LPSVPFETIQALDVVMRHLPSMRYTPVGRSFFT 183
Query: 342 SSMXXXXXXXXXXXXLRGFFQSLRPTQQGLSLNVDSSVSAFHESVGVIPYLQKRLEFLKD 401
+S GF QS+RP+ + LN+D S +AF+++ VI ++ + L+F
Sbjct: 184 ASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSI 243
Query: 402 LSQRKTRGLSGDQKKEVERALKNIRVFVCHRETVQR-YRVYGLTEEVTENLWFA--DRDG 458
Q+K L+ Q+ + + +K ++V + H ++R YRV +T + F G
Sbjct: 244 EEQQKP--LTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESG 301
Query: 459 KNIR--LLSYFKDHYNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQKFLGKLSDDQT 515
+ + + YFKD + +++ +LPCLQ+ + K YLP+E+C I GQ+ + KL+D+QT
Sbjct: 302 QTVECTVAQYFKDRHKLVLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQT 361
Query: 516 ARILKMGCQRPKERKAMIDGVMRGPVGPTSGNQGREFKLHVSREMTRLNGRILQPPKLKL 575
+ +++ + +R+ I +MR + REF + V EMT + GR+LQPP +
Sbjct: 362 STMIRATARSAPDRQEEISKLMRS-ADFNTDPYVREFGIMVKDEMTDVTGRVLQPPSILY 420
Query: 576 GDGGHIRDLVPCRHDRQWNFLESHVFEGTRIERWALLSFGGSHD-QKSAIPKFICQLSQR 634
G G + P + W+ G I+ WA+ F + + F QL +
Sbjct: 421 G-GRNKAIATPVQG--VWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKI 477
Query: 635 CEQLGIFLNKSTIISPQF-EQTHVLNNVSLLESKLKKIHEAASNNLQLLICVMERKHKGY 693
G+ + P F + ++V + LK + LQL++ ++ K Y
Sbjct: 478 SRDAGMPIQGQ----PCFCKYAQGADSVEPMFRHLKNTYAG----LQLVVVILPGKTPVY 529
Query: 694 ADLKRIAETSVGVVSQCCLYSNLGKLSSQFLANLALKINAKVGGCTVALYNSLPSQIPRL 753
A++KR+ +T +G+ +QC N+ + + Q L+NL LKIN K+GG L LP P +
Sbjct: 530 AEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNIL---LPQGRPPV 586
Query: 754 FFPDEPVIFMGADVTHPHPLDDFSPSVAAVVGSMNWPAANKYASRMRSQTHRQEIIQDLG 813
F +PVIF+GADVTHP D PS+AAVVGSM+ N+Y + +R Q HRQEIIQDL
Sbjct: 587 F--QQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDLA 643
Query: 814 VMVGELLDDFYHELNKLPRRIIFFRDGVSETQFYKVLQEELQSIREACSRF-PGYSPPIT 872
MV ELL FY P RIIF+RDGVSE QF +VL EL +IREAC + Y P IT
Sbjct: 644 AMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGIT 703
Query: 873 FVVVQKRHHTRLFPYDNDPSSAHNQSSDENIPPGTVVDTVITHPREFDFYLCSHWGVKGT 932
F+VVQKRHHTRLF D + NIP GT VDT ITHP EFDFYLCSH G++GT
Sbjct: 704 FIVVQKRHHTRLFCTDKN----ERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGT 759
Query: 933 SRPTHYHILWDDNKFTSDELQKLVYNLCYTFVRCTKPVSLVPPAYYAHLAAYRGRLYLER 992
SRP+HYH+LWDDN+F+SDELQ L Y LC+T+VRCT+ VS+ PAYYAHL A+R R +L
Sbjct: 760 SRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVD 819
Query: 993 SESATLMGSSSA 1004
E + GS ++
Sbjct: 820 KEHDSAEGSHTS 831
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 506 bits (1304), Expect = e-143, Method: Compositional matrix adjust.
Identities = 325/852 (38%), Positives = 472/852 (55%), Gaps = 62/852 (7%)
Query: 167 RPDAGGVEGAVISLLANHFLVQLDPSQRIFHYNVEMSPSPS-KEVARLIKQKLVEENSSM 225
RPD G G I L AN F + + P I+HY +++ P + V R I + +V+ +
Sbjct: 30 RPDFG-TSGRTIKLQANFFEMDI-PKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 87
Query: 226 LSG-AYPAFDGRKNIYS--PVEFENDRLEFFVSLPIPTSKSVLPSGELKELIHKQHQLKL 282
+ G P FDGRKN+Y+ P+ D++E V+LP GE K+ ++
Sbjct: 88 IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLP----------GEGKD--------RI 129
Query: 283 FRINIKLVSKYDGKELSRYLSKEDNDWIP-LPQDYLHALDVVLRENPSEKCIPVGRSLYS 341
F+++IK VS + L LS +P +P + + ALDVV+R PS + PVGRS ++
Sbjct: 130 FKVSIKWVSCVSLQALHDALSGR----LPSVPFETIQALDVVMRHLPSMRYTPVGRSFFT 185
Query: 342 SSMXXXXXXXXXXXXLRGFFQSLRPTQQGLSLNVDSSVSAFHESVGVIPYLQKRLEFLKD 401
+S GF QS+RP+ + LN+D S +AF+++ VI ++ + L+F
Sbjct: 186 ASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSI 245
Query: 402 LSQRKTRGLSGDQKKEVERALKNIRVFVCHRETVQR-YRVYGLTEEVTENLWFA--DRDG 458
Q+K L+ Q+ + + +K ++V + H ++R YRV +T + F G
Sbjct: 246 EEQQKP--LTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESG 303
Query: 459 KNIR--LLSYFKDHYNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQKFLGKLSDDQT 515
+ + + YFKD + +++ +LPCLQ+ + K YLP+E+C I GQ+ + KL+D+QT
Sbjct: 304 QTVECTVAQYFKDRHKLVLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQT 363
Query: 516 ARILKMGCQRPKERKAMIDGVMRGPVGPTSGNQGREFKLHVSREMTRLNGRILQPPKLKL 575
+ +++ + +R+ I +MR T REF + V EMT + GR+LQPP +
Sbjct: 364 STMIRATARSAPDRQEEISKLMRSASFNTDPYV-REFGIMVKDEMTDVTGRVLQPPSILY 422
Query: 576 GDGGHIRDLVPCRHDRQWNFLESHVFEGTRIERWALLSFGGSHD-QKSAIPKFICQLSQR 634
G G + P + W+ G I+ WA+ F + + F QL +
Sbjct: 423 G-GRNKAIATPVQG--VWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKI 479
Query: 635 CEQLGIFLNKSTIISPQF-EQTHVLNNVSLLESKLKKIHEAASNNLQLLICVMERKHKGY 693
G+ + P F + ++V + LK + LQL++ ++ K Y
Sbjct: 480 SRDAGMPIQGQ----PCFCKYAQGADSVEPMFRHLKNTYAG----LQLVVVILPGKTPVY 531
Query: 694 ADLKRIAETSVGVVSQCCLYSNLGKLSSQFLANLALKINAKVGGCTVALYNSLPSQIPRL 753
A++KR+ +T +G+ +QC N+ + + Q L+NL LKIN K+GG L LP P +
Sbjct: 532 AEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNIL---LPQGRPPV 588
Query: 754 FFPDEPVIFMGADVTHPHPLDDFSPSVAAVVGSMNWPAANKYASRMRSQTHRQEIIQDLG 813
F +PVIF+GADVTHP D PS+AAVVGSM+ N+Y + +R Q HRQEIIQDL
Sbjct: 589 F--QQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDLA 645
Query: 814 VMVGELLDDFYHELNKLPRRIIFFRDGVSETQFYKVLQEELQSIREACSRF-PGYSPPIT 872
MV ELL FY P RIIF+RDGVSE QF +VL EL +IREAC + Y P IT
Sbjct: 646 AMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGIT 705
Query: 873 FVVVQKRHHTRLFPYDNDPSSAHNQSSDENIPPGTVVDTVITHPREFDFYLCSHWGVKGT 932
F+VVQKRHHTRLF D + NIP GT VDT ITHP EFDFYLCSH G++GT
Sbjct: 706 FIVVQKRHHTRLFCTDKN----ERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGT 761
Query: 933 SRPTHYHILWDDNKFTSDELQKLVYNLCYTFVRCTKPVSLVPPAYYAHLAAYRGRLYLER 992
SRP+HYH+LWDDN+F+SDELQ L Y LC+T+VRCT+ VS+ PAYYAHL A+R R +L
Sbjct: 762 SRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVD 821
Query: 993 SESATLMGSSSA 1004
E + GS ++
Sbjct: 822 KEHDSAEGSHTS 833
>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 = 179 bits (455), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 163/603 (27%), Positives = 266/603 (44%), Gaps = 90/603 (14%)
Query: 460 NIRLLSYFKDHYNYNIQFRNLPCLQISRSKPCYLPMELCMICEGQKFLGKLSDDQTARIL 519
NI + YFK Y+ +++ ++ + + K +P E I GQK G++ D +T +
Sbjct: 421 NINTIDYFKRKYDITLKYPDMKLVNLG-GKNDVVPPECLTIVPGQKLKGQIFDTKT--YI 477
Query: 520 KMGCQRPKERKAMIDGVMRGPV--GPTSGNQGREFKLHVSR-EMTRLNGRILQPPKLKLG 576
RP E+ +I + + G T + H S + R+ RIL P ++
Sbjct: 478 DFSAIRPTEKFDLISRLSMPAIKRGLTDSEKEESSAPHNSAYQFMRVPSRILDAPVVQFK 537
Query: 577 DGG--HIRDLVPCRHDR---QWNFLESHVFEGTRIERWALLSF-------GGSHDQKSAI 624
+ + +H+ WN ++ H F T ++ L + +S +
Sbjct: 538 ESTFEYKDKSYGTKHEESKGNWN-MKGHQFISTPAKQVNLRAIFINNANTAPPASMESEL 596
Query: 625 PKFICQLSQRCEQLGIFLN---KSTIIS-------------------------------- 649
+ + + +QLG+ N K +I+
Sbjct: 597 DISMDKFASDVKQLGVDFNVSGKPILINQFGPPIKKFQGGGRGGRGGRGSRGGRGGRGAP 656
Query: 650 ---PQFEQTHVLNNVSLLESKLKKIHEAASNNLQLLICVMERKHKGYADLKRIAETSVGV 706
P FE + +SLL + SN L + Y LK I + G
Sbjct: 657 SGPPTFETSP--GEISLLNL----LENIPSNTYILYVLRRGNDSAVYDRLKYITDLKFGA 710
Query: 707 VSQCCLYSNLGKLSSQFLANLALKINAKVGGCTVALYNSLPSQIPRLFFPDE---PVIFM 763
++ C ++ N K S Q+ +N+ +K+N K+ G +SL + +L E P++ +
Sbjct: 711 LNSCVVWDNFKKNSIQYNSNVVMKMNLKLLGSN----HSLSIENNKLLIDKESNLPILVL 766
Query: 764 GADVTHPHPLDDFSPSVAAVVGSMNWPAANKYASRMRSQTHRQEIIQDLG-VMVGELLDD 822
G+DVTH +P D + S+A++VGS + M +EII ++G +M+ L
Sbjct: 767 GSDVTH-YPEKDQN-SIASLVGSYDDKFTQFPGDYMLQDGPGEEIITNVGSLMLNRLKIY 824
Query: 823 FYHELNKLPRRIIFFRDGVSETQFYKVLQEELQSIREACSRFP-------GYSPPITFVV 875
H KLP +I++FRDGVS QF +V++ E++SI+E+ +F Y PP+T +
Sbjct: 825 QKHNNGKLPTKIMYFRDGVSVDQFSQVVKIEVKSIKESVRKFGPQLNGGNKYDPPVTCIA 884
Query: 876 VQKRHHTRLFPYDNDPSSAHNQSSDE-------NIPPGTVVDTVITHPREFDFYLCSHWG 928
KR+ R P + A N+ +E N+ PGTVVD IT FDF++ SH
Sbjct: 885 TVKRNQVRFIPIQEN---AKNEKGEEVAVQSMGNVMPGTVVDRGITSVAHFDFFIQSHQA 941
Query: 929 VKGTSRPTHYHILWDDNKFTSDELQKLVYNLCYTFVRCTKPVSLVPPAYYAHLAAYRGRL 988
+KGT P HY L+D+N+ TSD LQ++ NLCY F R T V + P YYA L R
Sbjct: 942 LKGTGVPCHYWCLYDENQSTSDYLQEICNNLCYIFGRSTTSVKVPAPVYYADLLCTRATC 1001
Query: 989 YLE 991
+ +
Sbjct: 1002 FFK 1004
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 177 bits (450), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 135/418 (32%), Positives = 207/418 (49%), Gaps = 65/418 (15%)
Query: 605 RIERWALLSFGGSHDQKSAIPKFICQLSQRCEQLGIFLNKSTI-ISPQFEQTHVLNNVSL 663
+IE+W L GS + +P+ + ++ FLN++ I I+P+F ++
Sbjct: 13 KIEKWTYLELKGSKANE-GVPQAMTAFAE-------FLNRTGIPINPRFSPGMSMSVPGS 64
Query: 664 LESKLKKIHEAASNNLQLLICVMERKHKG-YADLKRIAETSVGVVSQCCLYSNLGKLSSQ 722
+ K+ E S++ Q ++ ++ RK Y +KR A+ + GV + CC+ Q
Sbjct: 65 EKEFFAKVKELMSSH-QFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 723 --FLANLALKINAKVGGCTVALYNSLPSQIPRLFFPDEPVIFMGADVTHPHPLDD----- 775
+ AN+ LK+N K GG +++ + IP L + +G DVTHP L
Sbjct: 124 LGYFANVGLKVNLKFGGTN----HNIKTPIPLL--AKGKTMVVGYDVTHPTNLAAGQSPA 177
Query: 776 FSPSVAAVVGSMN-----WPAANKYASRMRSQTHRQEIIQDLGVMVGELLDDFYHELN-- 828
+PS+ +V +++ WPA + + H QE M + D F L
Sbjct: 178 SAPSIVGLVSTIDQHLGQWPAM------VWNNPHGQE------SMTEQFTDKFKTRLELW 225
Query: 829 --------KLPRRIIFFRDGVSETQFYKVLQEELQSIREACSR-FP-GYSPPITFVVVQK 878
LP I+ FRDGVSE QF V+++EL +R AC +P G P IT +V K
Sbjct: 226 RSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVK 285
Query: 879 RHHTRLFPYDNDPSSAHNQSSDENIPPGTVVDTVITHPREFDFYLCSHWGVKGTSRPTHY 938
RH TR FP DP H +S GTVVD +T+ R +DF+L +H ++GT+R HY
Sbjct: 286 RHQTRFFP--TDPKHIHFKSKSPK--EGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHY 341
Query: 939 HILWDD-------NKFTSDELQKLVYNLCYTFVRCTKPVSLVPPAYYAHLAAYRGRLY 989
+L D+ NK +D L++L +++CY F R TK VS+ PPAYYA L R R++
Sbjct: 342 TVLVDEIFRADYGNK-AADTLEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIH 398
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 115 bits (289), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 114/418 (27%), Positives = 177/418 (42%), Gaps = 114/418 (27%)
Query: 605 RIERWALLSFGGSHDQKSAIPKFICQLSQRCEQLGIFLNKSTI-ISPQFEQTHVLNNVSL 663
+IE+W L GS + +P+ + ++ FLN++ I I+P+F ++
Sbjct: 13 KIEKWTYLELKGSKANE-GVPQAMTAFAE-------FLNRTGIPINPRFSPGMSMSVPGS 64
Query: 664 LESKLKKIHEAASNNLQLLICVMERKHKG-YADLKRIAETSVGVVSQCCLYSNLGKLSSQ 722
+ K+ E S++ Q ++ ++ RK Y +KR A+ + GV + CC+ Q
Sbjct: 65 EKEFFAKVKELMSSH-QFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 723 --FLANLALKINAKVGGCTVALYNSLPSQIPRLFFPDEPVIFMGADVTHPHPLDD----- 775
+ AN+ LK+N K GG +++ + IP L + +G DVTHP L
Sbjct: 124 LGYFANVGLKVNLKFGGTN----HNIKTPIPLL--AKGKTMVVGYDVTHPTNLAAGQSPA 177
Query: 776 FSPSVAAVVGSMN-----WPAANKYASRMRSQTHRQEIIQDLGVMVGELLDDFYHELN-- 828
+PS+ +V +++ WPA + + H QE M + D F L
Sbjct: 178 SAPSIVGLVSTIDQHLGQWPAM------VWNNPHGQE------SMTEQFTDKFKTRLELW 225
Query: 829 --------KLPRRIIFFRDGVSETQFYKVLQEELQSIREACSR-FP-GYSPPITFVVVQK 878
LP I+ FRDGVSE QF V+++EL +R AC +P G P IT +V
Sbjct: 226 RSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIV--- 282
Query: 879 RHHTRLFPYDNDPSSAHNQSSDENIPPGTVVDTVITHPREFDFYLCSHWGVKGTSRPTHY 938
VKG S HY
Sbjct: 283 -------------------------------------------------SVKG-SGSAHY 292
Query: 939 HILWDD-------NKFTSDELQKLVYNLCYTFVRCTKPVSLVPPAYYAHLAAYRGRLY 989
+L D+ NK +D L++L +++CY F R TK VS+ PPAYYA L R R++
Sbjct: 293 TVLVDEIFRADYGNK-AADTLEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIH 349
>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 = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 54/148 (36%), Positives = 77/148 (52%), Gaps = 7/148 (4%)
Query: 600 VFEGTRIERWALLSFGGSHDQKSAIPKFICQLSQRCEQLGIFLNKSTIISPQFEQTHVLN 659
V G+ ++ WA+L F S F+ L RC +LG+ + + +T L+
Sbjct: 5 VTRGSIVKHWAVLDFTASERFNKMPNDFVDNLIDRCWRLGMQMEAPIVYKTSRMET--LS 62
Query: 660 NVSLLESKLKKIHEAASNNL-----QLLICVMERKHKGYADLKRIAETSVGVVSQCCLYS 714
N + +E L+ + + AS L++C M RK GY LK IAET +G+V+QC L
Sbjct: 63 NGNAIEELLRSVIDEASRKHGGARPTLVLCAMSRKDDGYKTLKWIAETKLGLVTQCFLTG 122
Query: 715 NLGKLSSQFLANLALKINAKVGGCTVAL 742
K Q+ ANLALK+NAKVGG V L
Sbjct: 123 PATKGGDQYRANLALKMNAKVGGSNVEL 150
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 77.4 bits (189), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 52/151 (34%), Positives = 78/151 (51%), Gaps = 17/151 (11%)
Query: 596 LESHVFEGTRIERWALLSFGGSHDQKSAIPKFICQ-LSQRCEQLGIFLNKSTIISPQFEQ 654
+ + G + W ++F S + + + CQ L+Q C G+ N ++ P
Sbjct: 1 MNKKMINGGTVNNWICINF--SRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPP---- 54
Query: 655 THVLNNVSLLESKLK-KIHEAASN-----NLQLLICVMERKHKG--YADLKRIAETSVGV 706
V +E LK + H+A S + LLI ++ K Y DLKRI ET +G+
Sbjct: 55 --VSARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGI 112
Query: 707 VSQCCLYSNLGKLSSQFLANLALKINAKVGG 737
VSQCCL ++ K+S Q++AN+ALKIN KVGG
Sbjct: 113 VSQCCLTKHVFKMSKQYMANVALKINVKVGG 143
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 75.9 bits (185), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 50/154 (32%), Positives = 79/154 (51%), Gaps = 24/154 (15%)
Query: 596 LESHVFEGTRIERWALLSFGGSHDQKSAIPKFICQ-LSQRCEQLGIFLNKSTIISPQFEQ 654
+ + G + W ++F S + + + CQ L+Q C G+ N ++ P
Sbjct: 1 MNKKMINGGTVNNWICINF--SRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPP---- 54
Query: 655 THVLNNVSLLESKLKKI-----HEAASN-----NLQLLICVMERKHKG-YADLKRIAETS 703
VS +++K+ H+A S + LLI ++ + Y DLKRI ET
Sbjct: 55 ------VSARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETE 108
Query: 704 VGVVSQCCLYSNLGKLSSQFLANLALKINAKVGG 737
+G+VSQCCL ++ K+S Q++AN+ALKIN KVGG
Sbjct: 109 LGIVSQCCLTKHVFKMSKQYMANVALKINVKVGG 142
>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 = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 50/150 (33%), Positives = 78/150 (52%), Gaps = 24/150 (16%)
Query: 600 VFEGTRIERWALLSFGGSHDQKSAIPKFICQ-LSQRCEQLGIFLNKSTIISPQFEQTHVL 658
+ G + W ++F S + + + CQ L+Q C G+ N ++ P
Sbjct: 5 MINGGTVNNWICINF--SRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPP-------- 54
Query: 659 NNVSLLESKLKKI-----HEAASN-----NLQLLICVMERKHKG-YADLKRIAETSVGVV 707
VS +++K+ H+A S + LLI ++ + Y DLKRI ET +G+V
Sbjct: 55 --VSARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIV 112
Query: 708 SQCCLYSNLGKLSSQFLANLALKINAKVGG 737
SQCCL ++ K+S Q++AN+ALKIN KVGG
Sbjct: 113 SQCCLTKHVFKMSKQYMANVALKINVKVGG 142
>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 = 75.5 bits (184), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/141 (31%), Positives = 72/141 (51%), Gaps = 8/141 (5%)
Query: 597 ESHVFEGTRIERWALLSFGGSHDQKSAIPKFICQLSQRCEQLGIFLNKSTIISPQFEQTH 656
+ + G ++ W +SF D+ +P+ C+ + +G+ ++K PQ
Sbjct: 2 DKKMVNGAKVTSWTCVSFSTRIDR--GLPQEFCK-----QLIGMCVSKGMEFKPQPAIPF 54
Query: 657 VLNNVSLLESKLKKIHEAASNNLQLLICVMERKHKGYADLKRIAETSVGVVSQCCLYSNL 716
+ +E L IH+ A LQLLI ++ Y +KRI ET +G+VSQCC +
Sbjct: 55 ISCPPEHIEEALLDIHKRAPG-LQLLIVILPDVTGSYGKIKRICETELGIVSQCCQPRQV 113
Query: 717 GKLSSQFLANLALKINAKVGG 737
KL+ Q++ N+ALKIN K GG
Sbjct: 114 NKLNKQYMENVALKINVKTGG 134
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 50/149 (33%), Positives = 74/149 (49%), Gaps = 24/149 (16%)
Query: 601 FEGTRIERWALLSFGGSHDQKSAIPKFICQ-LSQRCEQLGIFLNKSTIISPQFEQTHVLN 659
G + W ++F S + + + CQ L+Q C G N ++ P
Sbjct: 6 INGGTVNNWICINF--SRQVQDNLARTFCQELAQXCYVSGXAFNPEPVLPP--------- 54
Query: 660 NVSLLESKLKKI-----HEAASN-----NLQLLICVMERKHKG-YADLKRIAETSVGVVS 708
VS +++K+ H+A S + LLI ++ + Y DLKRI ET +G+VS
Sbjct: 55 -VSARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVS 113
Query: 709 QCCLYSNLGKLSSQFLANLALKINAKVGG 737
QCCL ++ K S Q+ AN+ALKIN KVGG
Sbjct: 114 QCCLTKHVFKXSKQYXANVALKINVKVGG 142
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 66.6 bits (161), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 43/165 (26%), Positives = 98/165 (59%), Gaps = 8/165 (4%)
Query: 380 SAFHESVGVIPYLQKRLEFLKDLSQRKTRGLSGDQKKEVERALKNIRVFVCHRETVQR-Y 438
+AF+++ VI ++ + L+ ++D+++++ + L+ Q+ + + +K +++ + H ++R Y
Sbjct: 2 TAFYKAQPVIDFMCEVLD-IRDINEQR-KPLTDSQRVKFTKEIKGLKIEITHCGQMRRKY 59
Query: 439 RVYGLTEEVTENLWFADR--DGKNIR--LLSYFKDHYNYNIQFRNLPCLQISRS-KPCYL 493
RV +T + F + +G+ + + YF D Y +++ +LPCLQ+ + K YL
Sbjct: 60 RVCNVTRRPAQMQSFPLQLENGQTVECTVAKYFLDKYRMKLRYPHLPCLQVGQEHKHTYL 119
Query: 494 PMELCMICEGQKFLGKLSDDQTARILKMGCQRPKERKAMIDGVMR 538
P+E+C I GQ+ + KL+D QT+ ++K + +R+ I+ +++
Sbjct: 120 PLEVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVK 164
>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 = 64.3 bits (155), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 68/119 (57%), Gaps = 6/119 (5%)
Query: 408 RGLSGDQKKEVERALKNIRVFVCHRETVQR-YRVYGLTEEVTENLWFADR--DGKNIR-- 462
+ L+ Q+ + +K ++V V H ++R YRV +T + F + G+ +
Sbjct: 26 KPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLESGQTVECT 85
Query: 463 LLSYFKDHYNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQKFLGKLSDDQTARILK 520
+ YFK YN +++ +LPCLQ+ + K YLP+E+C I GQ+ + KL+D+QT+ ++K
Sbjct: 86 VAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIK 144
>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 = 62.4 bits (150), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 65/117 (55%), Gaps = 6/117 (5%)
Query: 410 LSGDQKKEVERALKNIRVFVCHRETVQR-YRVYGLTEEVTENLWFADR--DGKNIR--LL 464
L+ Q+ + +K ++V V H +R YRV +T + F + G+ + +
Sbjct: 28 LTDSQRVRFTKEIKGLKVEVTHCGQXKRKYRVCNVTRRPASHQTFPLQLESGQTVECTVA 87
Query: 465 SYFKDHYNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQKFLGKLSDDQTARILK 520
YFK YN +++ +LPCLQ+ + K YLP+E+C I GQ+ + KL+D+QT+ +K
Sbjct: 88 QYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTXIK 144
>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 = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 40/60 (66%)
Query: 678 NLQLLICVMERKHKGYADLKRIAETSVGVVSQCCLYSNLGKLSSQFLANLALKINAKVGG 737
LQL++ ++ K YA++KR+ +T +G+ +QC N+ + + Q L+NL LKIN K+GG
Sbjct: 77 GLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGG 136
>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 = 53.5 bits (127), Expect = 5e-07, Method: Composition-based stats.
Identities = 24/59 (40%), Positives = 39/59 (66%)
Query: 679 LQLLICVMERKHKGYADLKRIAETSVGVVSQCCLYSNLGKLSSQFLANLALKINAKVGG 737
LQL++ ++ K YA++KR+ +T +G +QC N+ + + Q L+NL LKIN K+GG
Sbjct: 78 LQLVVVILPGKTPVYAEVKRVGDTVLGXATQCVQXKNVQRTTPQTLSNLCLKINVKLGG 136
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 38/114 (33%), Positives = 55/114 (48%), Gaps = 7/114 (6%)
Query: 415 KKEVERALKNIRVFVCHRETVQR----YRVYGLTEEVTENLWFADRDGKNIRLLSYFKDH 470
++ +E L+ I V ++ Q YRV GL+ + F + DGK + + SYF
Sbjct: 30 RRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETF-EHDGKKVTIASYFHSR 88
Query: 471 YNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQKFLGKLSDDQTARILKMGC 523
NY ++F L CL + S K LP+ELC I EGQ K Q A ++K
Sbjct: 89 -NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNRKDGATQVANMIKYAA 141
>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 = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 44/135 (32%), Positives = 65/135 (48%), Gaps = 11/135 (8%)
Query: 375 VDSSVSAFHESVGVIPYLQKRLEFLKDLSQRKTRGLSGDQKKEVERALKNIRVFVCHRET 434
VD S +F S+ +I YL+ R ++ S ++ +E L+ I V ++
Sbjct: 374 VDISHKSFPISMPMIEYLE-RFSLKAKINNTTNLDYS---RRFLEPFLRGINVVYTPPQS 429
Query: 435 VQR----YRVYGLTEEVTENLWFADRDGKNIRLLSYFKDHYNYNIQFRNLPCLQISRS-K 489
Q YRV GL+ + F + DGK + + SYF NY ++F L CL + S K
Sbjct: 430 FQSAPRVYRVNGLSRAPASSETF-EHDGKKVTIASYFHSR-NYPLKFPQLHCLNVGSSIK 487
Query: 490 PCYLPMELCMICEGQ 504
LP+ELC I EGQ
Sbjct: 488 SILLPIELCSIEEGQ 502
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 50.1 bits (118), Expect = 7e-06, Method: Composition-based stats.
Identities = 37/137 (27%), Positives = 67/137 (48%), Gaps = 13/137 (9%)
Query: 605 RIERWALLSFGGSHDQKSAIPKFICQLSQRCEQLGIFLNKSTI-ISPQFEQTHVLNNVSL 663
+IE+W L GS + +P+ + ++ FLN++ I I+P+F ++
Sbjct: 13 KIEKWTYLELKGSKANE-GVPQAMTAFAE-------FLNRTGIPINPRFSPGMSMSVPGS 64
Query: 664 LESKLKKIHEAASNNLQLLICVMERKHKG-YADLKRIAETSVGVVSQCCLYSNLGKLSSQ 722
+ K+ E S++ Q ++ ++ RK Y +KR A+ + GV + CC+ Q
Sbjct: 65 EKEFFAKVKELMSSH-QFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQ 123
Query: 723 --FLANLALKINAKVGG 737
+ AN+ LK+N K GG
Sbjct: 124 LGYFANVGLKVNLKFGG 140
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 49/95 (51%), Gaps = 7/95 (7%)
Query: 415 KKEVERALKNIRVFVCHRETVQR----YRVYGLTEEVTENLWFADRDGKNIRLLSYFKDH 470
++ +E L+ I V ++ Q YRV GL+ + F + DGK + + SYF
Sbjct: 30 RRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETF-EHDGKKVTIASYFHSR 88
Query: 471 YNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQ 504
NY ++F L CL + S K LP+ELC I EGQ
Sbjct: 89 -NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQ 122
>pdb|3MJ0|A Chain A, Crystal Structure Of Drosophia Ago-Paz Domain In Complex
With 3'-End 2'-O-Methylated Rna
Length = 124
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 49/95 (51%), Gaps = 7/95 (7%)
Query: 415 KKEVERALKNIRVFVCHRETVQR----YRVYGLTEEVTENLWFADRDGKNIRLLSYFKDH 470
++ +E L+ I V ++ Q YRV GL+ + F + DGK + + SYF
Sbjct: 28 RRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETF-EHDGKKVTIASYFHSR 86
Query: 471 YNYNIQFRNLPCLQISRS-KPCYLPMELCMICEGQ 504
NY ++F L CL + S K LP+ELC I EGQ
Sbjct: 87 -NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQ 120
>pdb|2NZH|A Chain A, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 4 21 2
pdb|2NZH|B Chain B, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 4 21 2
pdb|2NZO|A Chain A, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 32 2 1
pdb|2NZO|B Chain B, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 32 2 1
pdb|2NZO|C Chain C, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 32 2 1
pdb|2NZO|D Chain D, Crystal Structure Of A Secretion Chaperone Csaa From
Bacillus Subtilis In The Space Group P 32 2 1
Length = 113
Score = 30.0 bits (66), Expect = 6.1, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 135 PEGLCRRNKVAVKGNDGRRITGAKTQALVAARRPDAGGV 173
PEGL + +AV RRI G K++ LV P G V
Sbjct: 59 PEGLINKQVIAVVNFPPRRIAGFKSEVLVLGGIPGQGDV 97
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,446,919
Number of Sequences: 62578
Number of extensions: 1170101
Number of successful extensions: 2658
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2602
Number of HSP's gapped (non-prelim): 27
length of query: 1030
length of database: 14,973,337
effective HSP length: 109
effective length of query: 921
effective length of database: 8,152,335
effective search space: 7508300535
effective search space used: 7508300535
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)