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= 005816
(676 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 = 232 bits (591), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 184/650 (28%), Positives = 305/650 (46%), Gaps = 86/650 (13%)
Query: 51 PISRRGLGSRGQRISLLTNHFKVNVTNVEGHFYHYSVSVSYEDGRPVDGKGAGRKVIDRV 110
P R G+ G+ I L N F++++ ++ YHY + + E + R++++ +
Sbjct: 27 PPPRPDFGTSGRTIKLQANFFEMDIPKID--IYHYELDIKPEKC----PRRVNREIVEHM 80
Query: 111 QETYNAELDG-KDFAYDGEKSLFTVGPLP--RNKLEFTVVLEDISSNRNNGNASPDAHGS 167
+ + ++ G + +DG K+L+T PLP R+K+E V L
Sbjct: 81 VQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPG----------------- 123
Query: 168 PNGNDRKRLRRPYRSKTFKVEISFAAKIPIQAIANALRGQESENSQEAFRVLDIILRQHA 227
G DR FKV I + + + +QA+ +AL G+ E + LD+++R H
Sbjct: 124 -EGKDR----------IFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMR-HL 171
Query: 228 AKQGCLLVRQSFFHNDPKNFADVGGGVLGCRGFHSSFRTTQGGLSLNIDVSTTMIIQPGP 287
V +SFF +GGG GFH S R + + LNIDVS T + P
Sbjct: 172 PSMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQP 231
Query: 288 VVDFLIANQNVRDPFSIDW----------AKAKRTLKNLRIKTITSNQ---EYKITGLSE 334
V++F+ V D SI+ K + +K L+++ Q +Y++ ++
Sbjct: 232 VIEFVC---EVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTR 288
Query: 335 KLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINVGKPKRPTY 394
+ Q F L+Q++ Q +E TV YF + + LRY LPC+ VG+ ++ TY
Sbjct: 289 RPASHQTFPLQQES-------GQTVECTVAQYFKDRHKLVLRYP-HLPCLQVGQEQKHTY 340
Query: 395 IPLELCELVSLQRYTKALTNLQRASLVEKSRQKPQERMSVLSNALKLSKYDNEPMLRSCG 454
+PLE+C +V+ QR K LT+ Q ++++ + + +R +S ++ + ++ +P +R G
Sbjct: 341 LPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSASFNTDPYVREFG 400
Query: 455 ISISTNFAQVEGRVLPAPRLKFG--NGEDFSPRNGRWNFNNKKLVQPTKIERWAVVNFS- 511
I + V GRVL P + +G N +P G W+ NK+ +I+ WA+ F+
Sbjct: 401 IMVKDEMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAP 460
Query: 512 ----ARCDIRSLVRDLIKCGEMKGILID-QPFDVFEESPQFRRSSPVVRVEKMFDEIQSK 566
++S L K G+ I QP F + Q S VE MF +++
Sbjct: 461 QRQCTEVHLKSFTEQLRKISRDAGMPIQGQP--CFCKYAQGADS-----VEPMFRHLKNT 513
Query: 567 LPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMA---PMRVNDQYLTNVLLKIN 623
G Q ++ +LP + + +Y KR G+ TQC+ R Q L+N+ LKIN
Sbjct: 514 YAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKIN 570
Query: 624 AKLGGLNSLLAVEHSPSIPIVSKVPTIILGMDVSHGSPGHSDIPSIAAVI 673
KLGG+N++L + P V + P I LG DV+H G PSIAAV+
Sbjct: 571 VKLGGVNNILLPQGRPP---VFQQPVIFLGADVTHPPAGDGKKPSIAAVV 617
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 231 bits (589), Expect = 9e-61, Method: Compositional matrix adjust.
Identities = 184/650 (28%), Positives = 305/650 (46%), Gaps = 86/650 (13%)
Query: 51 PISRRGLGSRGQRISLLTNHFKVNVTNVEGHFYHYSVSVSYEDGRPVDGKGAGRKVIDRV 110
P R G+ G+ I L N F++++ ++ YHY + + E + R++++ +
Sbjct: 25 PPPRPDFGTSGRTIKLQANFFEMDIPKID--IYHYELDIKPEKC----PRRVNREIVEHM 78
Query: 111 QETYNAELDG-KDFAYDGEKSLFTVGPLP--RNKLEFTVVLEDISSNRNNGNASPDAHGS 167
+ + ++ G + +DG K+L+T PLP R+K+E V L
Sbjct: 79 VQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPG----------------- 121
Query: 168 PNGNDRKRLRRPYRSKTFKVEISFAAKIPIQAIANALRGQESENSQEAFRVLDIILRQHA 227
G DR FKV I + + + +QA+ +AL G+ E + LD+++R H
Sbjct: 122 -EGKDR----------IFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMR-HL 169
Query: 228 AKQGCLLVRQSFFHNDPKNFADVGGGVLGCRGFHSSFRTTQGGLSLNIDVSTTMIIQPGP 287
V +SFF +GGG GFH S R + + LNIDVS T + P
Sbjct: 170 PSMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQP 229
Query: 288 VVDFLIANQNVRDPFSIDW----------AKAKRTLKNLRIKTITSNQ---EYKITGLSE 334
V++F+ V D SI+ K + +K L+++ Q +Y++ ++
Sbjct: 230 VIEFVC---EVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTR 286
Query: 335 KLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINVGKPKRPTY 394
+ Q F L+Q++ Q +E TV YF + + LRY LPC+ VG+ ++ TY
Sbjct: 287 RPASHQTFPLQQES-------GQTVECTVAQYFKDRHKLVLRYP-HLPCLQVGQEQKHTY 338
Query: 395 IPLELCELVSLQRYTKALTNLQRASLVEKSRQKPQERMSVLSNALKLSKYDNEPMLRSCG 454
+PLE+C +V+ QR K LT+ Q ++++ + + +R +S ++ + ++ +P +R G
Sbjct: 339 LPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSADFNTDPYVREFG 398
Query: 455 ISISTNFAQVEGRVLPAPRLKFG--NGEDFSPRNGRWNFNNKKLVQPTKIERWAVVNFS- 511
I + V GRVL P + +G N +P G W+ NK+ +I+ WA+ F+
Sbjct: 399 IMVKDEMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAP 458
Query: 512 ----ARCDIRSLVRDLIKCGEMKGILID-QPFDVFEESPQFRRSSPVVRVEKMFDEIQSK 566
++S L K G+ I QP F + Q S VE MF +++
Sbjct: 459 QRQCTEVHLKSFTEQLRKISRDAGMPIQGQP--CFCKYAQGADS-----VEPMFRHLKNT 511
Query: 567 LPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMA---PMRVNDQYLTNVLLKIN 623
G Q ++ +LP + + +Y KR G+ TQC+ R Q L+N+ LKIN
Sbjct: 512 YAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKIN 568
Query: 624 AKLGGLNSLLAVEHSPSIPIVSKVPTIILGMDVSHGSPGHSDIPSIAAVI 673
KLGG+N++L + P V + P I LG DV+H G PSIAAV+
Sbjct: 569 VKLGGVNNILLPQGRPP---VFQQPVIFLGADVTHPPAGDGKKPSIAAVV 615
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 77.4 bits (189), Expect = 3e-14, Method: Composition-based stats.
Identities = 50/177 (28%), Positives = 96/177 (54%), Gaps = 20/177 (11%)
Query: 280 TMIIQPGPVVDFLIANQNVRD------PFSIDWAKAKRT--LKNLRIKTITSNQ---EYK 328
T + PV+DF+ ++RD P + D + K T +K L+I+ Q +Y+
Sbjct: 2 TAFYKAQPVIDFMCEVLDIRDINEQRKPLT-DSQRVKFTKEIKGLKIEITHCGQMRRKYR 60
Query: 329 ITGLSEKLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINVGK 388
+ ++ + + Q F L+ +N Q +E TV YF++ + LRY LPC+ VG+
Sbjct: 61 VCNVTRRPAQMQSFPLQLENG-------QTVECTVAKYFLDKYRMKLRYP-HLPCLQVGQ 112
Query: 389 PKRPTYIPLELCELVSLQRYTKALTNLQRASLVEKSRQKPQERMSVLSNALKLSKYD 445
+ TY+PLE+C +V+ QR K LT++Q +++++ + + +R ++N +K + ++
Sbjct: 113 EHKHTYLPLEVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVKRADFN 169
>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 = 75.9 bits (185), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 52/146 (35%), Positives = 79/146 (54%), Gaps = 11/146 (7%)
Query: 492 NNKKLVQPTKIERWAVVNFSARCDIRSLVRDLIKCGEMKGILIDQPFDVFEESPQFR-RS 550
++KK+V K+ W V+FS R D R L ++ C ++ G+ + + + F+ P S
Sbjct: 1 SDKKMVNGAKVTSWTCVSFSTRID-RGLPQEF--CKQLIGMCVSKGME-FKPQPAIPFIS 56
Query: 551 SPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMAPMRV 610
P +E+ +I + PG Q L+ +LP+ S YG KR + GIV+QC P +V
Sbjct: 57 CPPEHIEEALLDIHKRAPGL-QLLIVILPDVTGS--YGKIKRICETELGIVSQCCQPRQV 113
Query: 611 ND---QYLTNVLLKINAKLGGLNSLL 633
N QY+ NV LKIN K GG N++L
Sbjct: 114 NKLNKQYMENVALKINVKTGGRNTVL 139
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 50/151 (33%), Positives = 79/151 (52%), Gaps = 12/151 (7%)
Query: 493 NKKLVQPTKIERWAVVNFSARCD---IRSLVRDLIKCGEMKGILIDQPFDVFEESPQFRR 549
NKK++ + W +NFS + R+ ++L + + G+ + P V P R
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVL--PPVSAR 58
Query: 550 SSPVVRVEKM-FDEIQSKLPGAPQ--FLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMA 606
V +V K + + SKL + L+ +LP++KNSDLYG KR + GIV+QC
Sbjct: 59 PEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGIVSQCCL 118
Query: 607 P---MRVNDQYLTNVLLKINAKLGGLNSLLA 634
+++ QY+ NV LKIN K+GG N++L
Sbjct: 119 TKHVFKMSKQYMANVALKINVKVGGRNTVLV 149
>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 = 64.7 bits (156), Expect = 2e-10, Method: Composition-based stats.
Identities = 41/144 (28%), Positives = 75/144 (52%), Gaps = 24/144 (16%)
Query: 284 QPGPVVDFLIANQNVRDPFSIDWAKAKRTLKNLRIKTITSNQ---EYKITGLSEKLCKEQ 340
QP P+ D +Q VR + +K L+++ Q +Y++ ++ + Q
Sbjct: 24 QPKPLTD----SQRVR---------FTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQ 70
Query: 341 MFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINVGKPKRPTYIPLELC 400
F L+ ++ Q +E TV YF N+ L+Y LPC+ VG+ ++ TY+PLE+C
Sbjct: 71 TFPLQLESG-------QTVECTVAQYFKQKYNLQLKYP-HLPCLQVGQEQKHTYLPLEVC 122
Query: 401 ELVSLQRYTKALTNLQRASLVEKS 424
+V+ QR K LT+ Q +++++ +
Sbjct: 123 NIVAGQRCIKKLTDNQTSTMIKAT 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 = 62.8 bits (151), Expect = 6e-10, Method: Composition-based stats.
Identities = 41/144 (28%), Positives = 74/144 (51%), Gaps = 24/144 (16%)
Query: 284 QPGPVVDFLIANQNVRDPFSIDWAKAKRTLKNLRIKTITSNQ---EYKITGLSEKLCKEQ 340
QP P+ D +Q VR + +K L+++ Q +Y++ ++ + Q
Sbjct: 24 QPKPLTD----SQRVR---------FTKEIKGLKVEVTHCGQXKRKYRVCNVTRRPASHQ 70
Query: 341 MFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINVGKPKRPTYIPLELC 400
F L+ ++ Q +E TV YF N+ L+Y LPC+ VG+ ++ TY+PLE+C
Sbjct: 71 TFPLQLESG-------QTVECTVAQYFKQKYNLQLKYP-HLPCLQVGQEQKHTYLPLEVC 122
Query: 401 ELVSLQRYTKALTNLQRASLVEKS 424
+V+ QR K LT+ Q ++ ++ +
Sbjct: 123 NIVAGQRCIKKLTDNQTSTXIKAT 146
>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 = 59.7 bits (143), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 76/151 (50%), Gaps = 13/151 (8%)
Query: 492 NNKKLVQPTKIERWAVVNFSARCD---IRSLVRDLIKCGEMKGILIDQPFDVFEESPQFR 548
+NKK++ + W +NFS + R+ ++L + + G+ + P V P
Sbjct: 1 SNKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVL--PPVSA 57
Query: 549 RSSPVVRVEKM-FDEIQSKLPGAPQ--FLLCLLPERKNSDLYGPWKRKNLADFGIVTQCM 605
R V +V K + + SKL + L+ +LP+ N LYG KR + GIV+QC
Sbjct: 58 RPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDN-NGSLYGDLKRICETELGIVSQCC 116
Query: 606 AP---MRVNDQYLTNVLLKINAKLGGLNSLL 633
+++ QY+ NV LKIN K+GG N++L
Sbjct: 117 LTKHVFKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 75/151 (49%), Gaps = 13/151 (8%)
Query: 493 NKKLVQPTKIERWAVVNFSARCD---IRSLVRDLIKCGEMKGILIDQPFDVFEESPQFRR 549
NKK++ + W +NFS + R+ ++L + + G+ + P V P R
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFN-PEPVL--PPVSAR 58
Query: 550 SSPVVRVEKM-FDEIQSKLPGAPQ--FLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMA 606
V +V K + + SKL + L+ +LP+ N LYG KR + GIV+QC
Sbjct: 59 PEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDN-NGSLYGDLKRICETELGIVSQCCL 117
Query: 607 P---MRVNDQYLTNVLLKINAKLGGLNSLLA 634
+++ QY+ NV LKIN K+GG N++L
Sbjct: 118 TKHVFKMSKQYMANVALKINVKVGGRNTVLV 148
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 48/151 (31%), Positives = 72/151 (47%), Gaps = 13/151 (8%)
Query: 492 NNKKLVQPTKIERWAVVNFSARCD---IRSLVRDLIKCGEMKGILIDQPFDVFEESPQFR 548
+NKK + + W +NFS + R+ ++L + + G + P V P
Sbjct: 1 SNKKXINGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAFN-PEPVL--PPVSA 57
Query: 549 RSSPVVRVEKM-FDEIQSKLPGAPQ--FLLCLLPERKNSDLYGPWKRKNLADFGIVTQCM 605
R V +V K + + SKL + L+ +LP+ N LYG KR + GIV+QC
Sbjct: 58 RPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDN-NGSLYGDLKRICETELGIVSQCC 116
Query: 606 APMRV---NDQYLTNVLLKINAKLGGLNSLL 633
V + QY NV LKIN K+GG N++L
Sbjct: 117 LTKHVFKXSKQYXANVALKINVKVGGRNTVL 147
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 57/194 (29%), Positives = 85/194 (43%), Gaps = 26/194 (13%)
Query: 495 KLVQPT-KIERWAVVNFSARCDIRSLVRDLIKCGEM---KGILIDQPFDVFEESPQFRRS 550
K+ +P KIE+W + + + + E GI I+ F SP S
Sbjct: 6 KVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRF-----SPGMSMS 60
Query: 551 SPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMAPMRV 610
P EK F +L + QF++ LLP RK+ +Y KR FG+ T C +
Sbjct: 61 VP--GSEKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKF 117
Query: 611 NDQ-----YLTNVLLKINAKLGGLNSLLAVEHSPSIPIVSKVPTIILGMDVSHGS---PG 662
Y NV LK+N K GG N + IP+++K T+++G DV+H + G
Sbjct: 118 LSTKGQLGYFANVGLKVNLKFGGTNHNIKT----PIPLLAKGKTMVVGYDVTHPTNLAAG 173
Query: 663 HS--DIPSIAAVIS 674
S PSI ++S
Sbjct: 174 QSPASAPSIVGLVS 187
>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 = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 91/413 (22%), Positives = 162/413 (39%), Gaps = 82/413 (19%)
Query: 329 ITGLSEKLCKEQMFSLKQKNVKDDDG---EVQELEITVYDYFVNNRNIDLRYSGDLPCIN 385
I G + + F++ + ++K + + + I DYF +I L+Y D+ +N
Sbjct: 387 IVGFTRESAVSMRFNVLESSLKKNSAPKPNEKPININTIDYFKRKYDITLKYP-DMKLVN 445
Query: 386 VGKPKRPTYIPLELCELVSLQRYTKALTNLQRASLVEKSRQKPQERMSVLSN----ALKL 441
+G + +P E +V Q+ + + + + ++ S +P E+ ++S A+K
Sbjct: 446 LGG--KNDVVPPECLTIVPGQKLKGQIFDTK--TYIDFSAIRPTEKFDLISRLSMPAIKR 501
Query: 442 SKYDNEPMLRSCGISISTNFAQVEGRVLPAPRLKF----------GNGEDFSPRNGRWNF 491
D+E S + + F +V R+L AP ++F G G WN
Sbjct: 502 GLTDSEKEESSAPHNSAYQFMRVPSRILDAPVVQFKESTFEYKDKSYGTKHEESKGNWNM 561
Query: 492 --------------------NNKKLVQPTKIERWAVVNFSA-RCDIRSLVRDLIKCGEMK 530
NN P +E ++ D++ L D G K
Sbjct: 562 KGHQFISTPAKQVNLRAIFINNANTAPPASMESELDISMDKFASDVKQLGVDFNVSG--K 619
Query: 531 GILIDQ---PFDVFEES-----------------------PQFRRSSPVVRVEKMFDEIQ 564
ILI+Q P F+ P F S + + + + I
Sbjct: 620 PILINQFGPPIKKFQGGGRGGRGGRGSRGGRGGRGAPSGPPTFETSPGEISLLNLLENIP 679
Query: 565 SKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMA--PMRVND-QYLTNVLLK 621
S ++L +L +S +Y K FG + C+ + N QY +NV++K
Sbjct: 680 SN-----TYILYVLRRGNDSAVYDRLKYITDLKFGALNSCVVWDNFKKNSIQYNSNVVMK 734
Query: 622 INAKLGGLNSLLAVEHSP-SIPIVSKVPTIILGMDVSHGSPGHSDIPSIAAVI 673
+N KL G N L++E++ I S +P ++LG DV+H D SIA+++
Sbjct: 735 MNLKLLGSNHSLSIENNKLLIDKESNLPILVLGSDVTHYP--EKDQNSIASLV 785
Score = 32.7 bits (73), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 60/274 (21%), Positives = 111/274 (40%), Gaps = 67/274 (24%)
Query: 53 SRRGLGSRGQRISLLTNHFKVNVTN--------------VEGHF---YHYSVSVSY---E 92
+R G++G ++ +LTNH + V N ++G + + ++ + + +
Sbjct: 21 NRHDYGTKGTKVDILTNHILLAVGNDVPTEKIDKELVPKLDGWWKTAFIFTYHIDFKPQQ 80
Query: 93 DGRPVDGKGAGRKVIDRVQ--ETYNAELDGKD--------FAYDGEKSLFTVGPLPRNKL 142
G P GK + + + + E A LD + A++GE ++++ PL L
Sbjct: 81 KGPPRRGKPVPPQELSKPKKYELIEALLDEDEILYKYRDRIAFNGEDTIYSHVPLEEFTL 140
Query: 143 EFTVVLEDISSNRNNGNASPDAHGSPN--GNDRKRLRRPYRSKTFKVEISFAAKIPIQAI 200
F E SN+ P G+P+ + +K++ ++ + F+ K+ ++ I
Sbjct: 141 -FDGCWE--VSNKQKKKVVP-GMGAPSNKASLQKKIDPELEEMVSQITLKFSGKVGLKDI 196
Query: 201 ANALRGQESENSQEAFRVLDIILRQHAAKQGCL--LVRQSFFHNDP-------------K 245
N Q++E QE+ R A + CL L+ F D
Sbjct: 197 YNDTTTQDTE-VQES--------RMSAIDKTCLLSLLGAKFMSTDDLIFQVQGNKFFIFN 247
Query: 246 NFA-----DVGGGVLGCRGFHSSFRTTQGGLSLN 274
NFA +GG +L +GF S GG++LN
Sbjct: 248 NFAKAIPFQIGGYLL--QGFTVSLTHVYGGVALN 279
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 57/194 (29%), Positives = 85/194 (43%), Gaps = 26/194 (13%)
Query: 495 KLVQPT-KIERWAVVNFSARCDIRSLVRDLIKCGEM---KGILIDQPFDVFEESPQFRRS 550
K+ +P KIE+W + + + + E GI I+ F SP S
Sbjct: 6 KVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRF-----SPGMSMS 60
Query: 551 SPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMAPMRV 610
P EK F +L + QF++ LLP RK+ +Y KR FG+ T C +
Sbjct: 61 VP--GSEKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKF 117
Query: 611 NDQ-----YLTNVLLKINAKLGGLNSLLAVEHSPSIPIVSKVPTIILGMDVSHGS---PG 662
Y NV LK+N K GG N + IP+++K T+++G DV+H + G
Sbjct: 118 LSTKGQLGYFANVGLKVNLKFGGTNHNIKT----PIPLLAKGKTMVVGYDVTHPTNLAAG 173
Query: 663 HS--DIPSIAAVIS 674
S PSI ++S
Sbjct: 174 QSPASAPSIVGLVS 187
>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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 70/150 (46%), Gaps = 18/150 (12%)
Query: 494 KKLVQPTKIERWAVVNFSARCDIRSLVRDLI-----KCGEMKGILIDQPFDVFEESPQFR 548
K + + + ++ WAV++F+A + D + +C + G+ ++ P + ++ +
Sbjct: 3 KGVTRGSIVKHWAVLDFTASERFNKMPNDFVDNLIDRCWRL-GMQMEAP--IVYKTSRME 59
Query: 549 RSSPVVRVEKMF----DEIQSKLPGA-PQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQ 603
S +E++ DE K GA P +LC + + D Y K G+VTQ
Sbjct: 60 TLSNGNAIEELLRSVIDEASRKHGGARPTLVLCAMSRK--DDGYKTLKWIAETKLGLVTQ 117
Query: 604 CMA---PMRVNDQYLTNVLLKINAKLGGLN 630
C + DQY N+ LK+NAK+GG N
Sbjct: 118 CFLTGPATKGGDQYRANLALKMNAKVGGSN 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 = 46.2 bits (108), Expect = 6e-05, Method: Composition-based stats.
Identities = 41/148 (27%), Positives = 68/148 (45%), Gaps = 19/148 (12%)
Query: 492 NNKKLVQPTKIERWAVVNFSAR-----CDIRSLVRDLIKCGEMKGILIDQPFDVFEESPQ 546
+NK+ +I+ WA+ F+ + ++S L K G+ I + P
Sbjct: 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPI-------QGQPC 53
Query: 547 F-RRSSPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCM 605
F + + VE MF +++ G Q ++ +LP + + +Y KR G+ TQC+
Sbjct: 54 FCKYAQGADSVEPMFRHLKNTYAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGMATQCV 110
Query: 606 A---PMRVNDQYLTNVLLKINAKLGGLN 630
R Q L+N+ LKIN KLGG+N
Sbjct: 111 QMKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/145 (29%), Positives = 60/145 (41%), Gaps = 17/145 (11%)
Query: 495 KLVQPT-KIERWAVVNFSARCDIRSLVRDLIKCGEM---KGILIDQPFDVFEESPQFRRS 550
K+ +P KIE+W + + + + E GI I+ F SP S
Sbjct: 6 KVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRF-----SPGMSMS 60
Query: 551 SPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCMAPMRV 610
P EK F +L + QF++ LLP RK+ +Y KR FG+ T C +
Sbjct: 61 VP--GSEKEFFAKVKELMSSHQFVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAEKF 117
Query: 611 NDQ-----YLTNVLLKINAKLGGLN 630
Y NV LK+N K GG N
Sbjct: 118 LSTKGQLGYFANVGLKVNLKFGGTN 142
>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 = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 40/148 (27%), Positives = 65/148 (43%), Gaps = 19/148 (12%)
Query: 492 NNKKLVQPTKIERWAVVNFSAR-----CDIRSLVRDLIKCGEMKGILIDQPFDVFEESPQ 546
+NK+ +I+ WA+ F+ + ++S L K G I + P
Sbjct: 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGXPI-------QGQPC 53
Query: 547 F-RRSSPVVRVEKMFDEIQSKLPGAPQFLLCLLPERKNSDLYGPWKRKNLADFGIVTQCM 605
F + + VE F +++ G Q ++ +LP + + +Y KR G TQC+
Sbjct: 54 FCKYAQGADSVEPXFRHLKNTYAGL-QLVVVILPGK--TPVYAEVKRVGDTVLGXATQCV 110
Query: 606 AP---MRVNDQYLTNVLLKINAKLGGLN 630
R Q L+N+ LKIN KLGG+N
Sbjct: 111 QXKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 327 YKITGLSEKLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINV 386
Y++ GLS + F + DG+ ++T+ YF ++RN L++ L C+NV
Sbjct: 57 YRVNGLSRAPASSETF--------EHDGK----KVTIASYF-HSRNYPLKFP-QLHCLNV 102
Query: 387 GKPKRPTYIPLELCEL 402
G + +P+ELC +
Sbjct: 103 GSSIKSILLPIELCSI 118
>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 = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 327 YKITGLSEKLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINV 386
Y++ GLS + F + DG+ ++T+ YF ++RN L++ L C+NV
Sbjct: 57 YRVNGLSRAPASSETF--------EHDGK----KVTIASYF-HSRNYPLKFP-QLHCLNV 102
Query: 387 GKPKRPTYIPLELCEL 402
G + +P+ELC +
Sbjct: 103 GSSIKSILLPIELCSI 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 = 36.2 bits (82), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 327 YKITGLSEKLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINV 386
Y++ GLS + F + DG+ ++T+ YF ++RN L++ L C+NV
Sbjct: 55 YRVNGLSRAPASSETF--------EHDGK----KVTIASYF-HSRNYPLKFP-QLHCLNV 100
Query: 387 GKPKRPTYIPLELCEL 402
G + +P+ELC +
Sbjct: 101 GSSIKSILLPIELCSI 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 = 36.2 bits (82), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 327 YKITGLSEKLCKEQMFSLKQKNVKDDDGEVQELEITVYDYFVNNRNIDLRYSGDLPCINV 386
Y++ GLS + F + DG+ ++T+ YF ++RN L++ L C+NV
Sbjct: 437 YRVNGLSRAPASSETF--------EHDGK----KVTIASYF-HSRNYPLKFP-QLHCLNV 482
Query: 387 GKPKRPTYIPLELCEL 402
G + +P+ELC +
Sbjct: 483 GSSIKSILLPIELCSI 498
>pdb|1TP9|A Chain A, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|B Chain B, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|C Chain C, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|D Chain D, Prx D (Type Ii) From Populus Tremula
Length = 162
Score = 32.7 bits (73), Expect = 0.69, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 52 ISRRGLGSRGQRISLLTNHFKVNVTNVEG 80
+ +GLG+R +R +LL + KV N+EG
Sbjct: 118 LQEKGLGTRSRRFALLVDDLKVKAANIEG 146
>pdb|2IJ9|A Chain A, Crystal Structure Of Uridylate Kinase From Archaeoglobus
Fulgidus
pdb|2IJ9|B Chain B, Crystal Structure Of Uridylate Kinase From Archaeoglobus
Fulgidus
Length = 219
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 365 DYFVNNRNIDLRYSGDLPCINVGKPKRPTYIPLELCELVSLQRYTKALTN----LQRASL 420
D F+N N+D YS D P + K P +L E+VS + KA TN L A +
Sbjct: 130 DVFINATNVDGVYSAD-PKSDTSAVKYDRLSPQQLVEIVS-RSSAKAGTNVVIDLLAAKI 187
Query: 421 VEKSRQKPQERMSVLSNALKLSK 443
+E+S+ K + N +K K
Sbjct: 188 IERSKIKTYVILGTPENIMKAVK 210
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
0.318 0.136 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,833,824
Number of Sequences: 62578
Number of extensions: 837871
Number of successful extensions: 1624
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1578
Number of HSP's gapped (non-prelim): 29
length of query: 676
length of database: 14,973,337
effective HSP length: 105
effective length of query: 571
effective length of database: 8,402,647
effective search space: 4797911437
effective search space used: 4797911437
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)