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= 002204
(954 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 = 569 bits (1467), Expect = e-162, Method: Compositional matrix adjust.
Identities = 335/866 (38%), Positives = 470/866 (54%), Gaps = 49/866 (5%)
Query: 103 PVRPGFGTVGRKCVVRANHFMVQLAERDIHHYDVSITPWVTSRKINRQIISQLINLYRLT 162
P RP FGT GR ++AN F + + + DI+HY++ I P R++NR+I+ ++ ++
Sbjct: 28 PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 87
Query: 163 DLGERIPAYDGMKSIYTAGPLPFESKEFIINXXXXXXXXXXXXXXXERQFRVVIRLASKP 222
G+R P +DG K++YTA PLP I +R F+V I+ S
Sbjct: 88 IFGDRKPVFDGRKNLYTAMPLP-------IGRDKVELEVTLPGEGKDRIFKVSIKWVSCV 140
Query: 223 DLYTLQQFLRRRHFEAPYEVIQVLAVVLRAAPSEKHTVVGRSFFSTDLGPMGQLGDGVEY 282
L L L R P+E IQ L VV+R PS ++T VGRSFF+ G LG G E
Sbjct: 141 SLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGREV 200
Query: 283 WRGYFQSLRPTQMGLSLNIDVSASSFYEPILVTEFVQNYC-----RDLSHPLSDEVRLKV 337
W G+ QS+RP+ + LNIDVSA++FY+ V EFV + PL+D R+K
Sbjct: 201 WFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPLTDSQRVKF 260
Query: 338 KKALKGIKVVLTH-REYNNSHKITGISSQPMSQLMF----TDDSATRMSVIQYFRERYNI 392
K +KG+KV +TH + +++ ++ +P S F +V QYF++R+ +
Sbjct: 261 TKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKL 320
Query: 393 ALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREEN 452
L++ LP L G E + YLP+E+ IVAGQR K+L + Q ++RAT + +R+E
Sbjct: 321 VLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEE 380
Query: 453 IRMMARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASV-NPGFGQW 511
I + R+ ++N D V +EFGI V D++T V R+L P + Y GR ++ P G W
Sbjct: 381 ISKLMRSASFNTDPYV-REFGIMVKDEMTDVTGRVLQPPSILY--GGRNKAIATPVQGVW 437
Query: 512 NMINKKMFNGGRVEVWTCVNFS-TRLNRDVAFQ-FCQGLVDMCNSKGMVFNLRPVIPISS 569
+M NK+ G ++VW F+ R +V + F + L + GM +P +
Sbjct: 438 DMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYA 497
Query: 570 SNPNQIEKALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQ 629
+ +E + N P + Y +KRV +T LG+ +QC Q +
Sbjct: 498 QGADSVEPMFRHLKN----TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKN 553
Query: 630 ASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPLVTDRPTIIFGADVTHPQPGEDSS 689
R Q N+ LKINVK+GG N +L+ Q R P V +P I GADVTHP G+
Sbjct: 554 VQRTTPQTLSNLCLKINVKLGGVNNILLP--QGRPP-VFQQPVIFLGADVTHPPAGDGKK 610
Query: 690 PSIAAVVASMDWPEVAKYRGLVSAQAHHEEIIQDLYKSIQDPQRGFVHGGMIRELLIAFR 749
PSIAAVV SMD +Y V Q H +EIIQDL M+RELLI F
Sbjct: 611 PSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL-------------AAMVRELLIQFY 656
Query: 750 RSTNFKPHRIIFYRDGVGERQFSQVLLHEMNAIRQACASLEEGYAPPVTFVVVQKRCRTR 809
+ST FKP RIIFYRDGV E QF QVL HE+ AIR+AC LE+ Y P +TF+VVQKR TR
Sbjct: 657 KSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRHHTR 716
Query: 810 LFPAENNRCDLTDRSGNILPGTVVDTEICHPTEFDFYLNSHAAIQGTSRPTRYHVLYDEN 869
LF + N + +SGNI GT VDT+I HPTEFDFYL SHA IQGTSRP+ YHVL+D+N
Sbjct: 717 LFCTDKN--ERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGTSRPSHYHVLWDDN 774
Query: 870 RFTADGLQVLTNNLCYTYARCTRSVSVVPPXXXXXXXXXXXXXXI---EDETSAGGSTDG 926
RF++D LQ+LT LC+TY RCTRSVS+ P + E +++ G T G
Sbjct: 775 RFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVDKEHDSAEGSHTSG 834
Query: 927 NRSTAERNLAIRPLPVIKDNVKDVMF 952
+ + + + V +D ++ + F
Sbjct: 835 QSNGRDHQALAKAVQVHQDTLRTMYF 860
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 568 bits (1464), Expect = e-162, Method: Compositional matrix adjust.
Identities = 335/866 (38%), Positives = 469/866 (54%), Gaps = 49/866 (5%)
Query: 103 PVRPGFGTVGRKCVVRANHFMVQLAERDIHHYDVSITPWVTSRKINRQIISQLINLYRLT 162
P RP FGT GR ++AN F + + + DI+HY++ I P R++NR+I+ ++ ++
Sbjct: 26 PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 85
Query: 163 DLGERIPAYDGMKSIYTAGPLPFESKEFIINXXXXXXXXXXXXXXXERQFRVVIRLASKP 222
G+R P +DG K++YTA PLP I +R F+V I+ S
Sbjct: 86 IFGDRKPVFDGRKNLYTAMPLP-------IGRDKVELEVTLPGEGKDRIFKVSIKWVSCV 138
Query: 223 DLYTLQQFLRRRHFEAPYEVIQVLAVVLRAAPSEKHTVVGRSFFSTDLGPMGQLGDGVEY 282
L L L R P+E IQ L VV+R PS ++T VGRSFF+ G LG G E
Sbjct: 139 SLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGREV 198
Query: 283 WRGYFQSLRPTQMGLSLNIDVSASSFYEPILVTEFVQNYC-----RDLSHPLSDEVRLKV 337
W G+ QS+RP+ + LNIDVSA++FY+ V EFV + PL+D R+K
Sbjct: 199 WFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPLTDSQRVKF 258
Query: 338 KKALKGIKVVLTH-REYNNSHKITGISSQPMSQLMF----TDDSATRMSVIQYFRERYNI 392
K +KG+KV +TH + +++ ++ +P S F +V QYF++R+ +
Sbjct: 259 TKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKL 318
Query: 393 ALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREEN 452
L++ LP L G E + YLP+E+ IVAGQR K+L + Q ++RAT + +R+E
Sbjct: 319 VLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEE 378
Query: 453 IRMMARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASV-NPGFGQW 511
I + R+ +N D V +EFGI V D++T V R+L P + Y GR ++ P G W
Sbjct: 379 ISKLMRSADFNTDPYV-REFGIMVKDEMTDVTGRVLQPPSILY--GGRNKAIATPVQGVW 435
Query: 512 NMINKKMFNGGRVEVWTCVNFS-TRLNRDVAFQ-FCQGLVDMCNSKGMVFNLRPVIPISS 569
+M NK+ G ++VW F+ R +V + F + L + GM +P +
Sbjct: 436 DMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYA 495
Query: 570 SNPNQIEKALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQ 629
+ +E + N P + Y +KRV +T LG+ +QC Q +
Sbjct: 496 QGADSVEPMFRHLKN----TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKN 551
Query: 630 ASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPLVTDRPTIIFGADVTHPQPGEDSS 689
R Q N+ LKINVK+GG N +L+ Q R P V +P I GADVTHP G+
Sbjct: 552 VQRTTPQTLSNLCLKINVKLGGVNNILLP--QGRPP-VFQQPVIFLGADVTHPPAGDGKK 608
Query: 690 PSIAAVVASMDWPEVAKYRGLVSAQAHHEEIIQDLYKSIQDPQRGFVHGGMIRELLIAFR 749
PSIAAVV SMD +Y V Q H +EIIQDL M+RELLI F
Sbjct: 609 PSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL-------------AAMVRELLIQFY 654
Query: 750 RSTNFKPHRIIFYRDGVGERQFSQVLLHEMNAIRQACASLEEGYAPPVTFVVVQKRCRTR 809
+ST FKP RIIFYRDGV E QF QVL HE+ AIR+AC LE+ Y P +TF+VVQKR TR
Sbjct: 655 KSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRHHTR 714
Query: 810 LFPAENNRCDLTDRSGNILPGTVVDTEICHPTEFDFYLNSHAAIQGTSRPTRYHVLYDEN 869
LF + N + +SGNI GT VDT+I HPTEFDFYL SHA IQGTSRP+ YHVL+D+N
Sbjct: 715 LFCTDKN--ERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGTSRPSHYHVLWDDN 772
Query: 870 RFTADGLQVLTNNLCYTYARCTRSVSVVPPXXXXXXXXXXXXXXI---EDETSAGGSTDG 926
RF++D LQ+LT LC+TY RCTRSVS+ P + E +++ G T G
Sbjct: 773 RFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVDKEHDSAEGSHTSG 832
Query: 927 NRSTAERNLAIRPLPVIKDNVKDVMF 952
+ + + + V +D ++ + F
Sbjct: 833 QSNGRDHQALAKAVQVHQDTLRTMYF 858
>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 = 177 bits (448), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 84/142 (59%), Positives = 102/142 (71%), Gaps = 4/142 (2%)
Query: 515 NKKMFNGGRVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPNQ 574
+KKM NG +V WTCV+FSTR++R + +FC+ L+ MC SKGM F +P IP S P
Sbjct: 2 DKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEH 61
Query: 575 IEKALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQASRLN 634
IE+AL+D+H R PDV+GSYG+IKR+CETELGIVSQCCQPRQ ++LN
Sbjct: 62 IEEALLDIHKRAPGLQLLIVIL----PDVTGSYGKIKRICETELGIVSQCCQPRQVNKLN 117
Query: 635 MQYFENVALKINVKVGGRNTVL 656
QY ENVALKINVK GGRNTVL
Sbjct: 118 KQYMENVALKINVKTGGRNTVL 139
>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 = 163 bits (412), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 117/372 (31%), Positives = 185/372 (49%), Gaps = 42/372 (11%)
Query: 604 SGSYGRIKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL-VDAVQK 662
S Y R+K + + + G ++ C + ++QY NV +K+N+K+ G N L ++ +
Sbjct: 694 SAVYDRLKYITDLKFGALNSCVVWDNFKKNSIQYNSNVVMKMNLKLLGSNHSLSIENNKL 753
Query: 663 RIPLVTDRPTIIFGADVTHPQPGEDSSPSIAAVVASMDWPEVAKYRGLVSAQ-AHHEEII 721
I ++ P ++ G+DVTH P +D + SIA++V S D + ++ G Q EEII
Sbjct: 754 LIDKESNLPILVLGSDVTH-YPEKDQN-SIASLVGSYD-DKFTQFPGDYMLQDGPGEEII 810
Query: 722 QDLYKSIQDPQRGFVHGGMIRELLIAFRRSTNFK-PHRIIFYRDGVGERQFSQVLLHEMN 780
++ G ++ L +++ N K P +I+++RDGV QFSQV+ E+
Sbjct: 811 TNV-------------GSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQFSQVVKIEVK 857
Query: 781 AIRQAC----ASLEEG--YAPPVTFVVVQKRCRTRLFPAENNRCD------LTDRSGNIL 828
+I+++ L G Y PPVT + KR + R P + N + GN++
Sbjct: 858 SIKESVRKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEVAVQSMGNVM 917
Query: 829 PGTVVDTEICHPTEFDFYLNSHAAIQGTSRPTRYHVLYDENRFTADGLQVLTNNLCYTYA 888
PGTVVD I FDF++ SH A++GT P Y LYDEN+ T+D LQ + NNLCY +
Sbjct: 918 PGTVVDRGITSVAHFDFFIQSHQALKGTGVPCHYWCLYDENQSTSDYLQEICNNLCYIFG 977
Query: 889 RCTRSVSVVPPXXXXXXXXXXXXXXIEDETSAGGSTDGNRSTAERNLAIRP-------LP 941
R T SV V P + AG + ++ E+ +P LP
Sbjct: 978 RSTTSVKVPAPVYYADLLCTRATCFFK----AGFELNMAQAPKEKGSKDQPTVSKNVLLP 1033
Query: 942 VIKDNVKDVMFY 953
+ DN+K VM+Y
Sbjct: 1034 QVNDNIKSVMYY 1045
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 62/150 (41%), Gaps = 14/150 (9%)
Query: 374 DDSATRMSVIQYFRERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNER 433
++ ++ I YF+ +Y+I L++ + + G + + P E IV GQ+ ++ +
Sbjct: 416 NEKPININTIDYFKRKYDITLKYPDMKLVNLGGKNDVV--PPECLTIVPGQKLKGQIFDT 473
Query: 434 QVIALLRATCQRPREREENIRMMARANAYNEDTLVNKEFGI---QVADDLTSVDARILPA 490
+ A RP E+ + I ++ T KE A V +RIL A
Sbjct: 474 KTYIDFSAI--RPTEKFDLISRLSMPAIKRGLTDSEKEESSAPHNSAYQFMRVPSRILDA 531
Query: 491 PMLKYHETGRE-------ASVNPGFGQWNM 513
P++++ E+ E G WNM
Sbjct: 532 PVVQFKESTFEYKDKSYGTKHEESKGNWNM 561
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 152 bits (383), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 110/391 (28%), Positives = 181/391 (46%), Gaps = 33/391 (8%)
Query: 523 RVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPNQIEKALVDV 582
++E WT + + Q + N G+ N R +S S P ++ V
Sbjct: 13 KIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSVPGSEKEFFAKV 72
Query: 583 HNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQ--ASRLNMQYFEN 640
+ DV+ Y +KR + G+ + CC + +++ + YF N
Sbjct: 73 --KELMSSHQFVVVLLPRKDVA-IYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFAN 129
Query: 641 VALKINVKVGGRNTVLVDAVQKRIPLVTDRPTIIFGADVTHP---QPGED--SSPSIAAV 695
V LK+N+K GG N ++ IPL+ T++ G DVTHP G+ S+PSI +
Sbjct: 130 VGLKVNLKFGGTN----HNIKTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGL 185
Query: 696 VASMDWPEVAKYRGLVSAQAHHEEIIQDLYKSIQDPQRGFVHGGMIRELLIAFRRSTNFK 755
V+++D + ++ +V H +E + + + + EL + +
Sbjct: 186 VSTID-QHLGQWPAMVWNNPHGQESMTEQFTDKFKTRL---------ELWRSNPANNRSL 235
Query: 756 PHRIIFYRDGVGERQFSQVLLHEMNAIRQACASL-EEGYAPPVTFVVVQKRCRTRLFPAE 814
P I+ +RDGV E QF V+ E+ +R AC + G P +T +V KR +TR FP +
Sbjct: 236 PENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKRHQTRFFPTD 295
Query: 815 NNRCDLTDRSGNILPGTVVDTEICHPTEFDFYLNSHAAIQGTSRPTRYHVLYDE------ 868
+S GTVVD + + +DF+L +HA++QGT+R Y VL DE
Sbjct: 296 PKHIHFKSKSPK--EGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTVLVDEIFRADY 353
Query: 869 NRFTADGLQVLTNNLCYTYARCTRSVSVVPP 899
AD L+ LT+++CY + R T++VS+ PP
Sbjct: 354 GNKAADTLEQLTHDMCYLFGRATKAVSICPP 384
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 142 bits (358), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 75/148 (50%), Positives = 93/148 (62%), Gaps = 4/148 (2%)
Query: 514 INKKMFNGGRVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPN 573
+NKKM NGG V W C+NFS ++ ++A FCQ L MC GM FN PV+P S+ P
Sbjct: 1 MNKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPE 60
Query: 574 QIEKAL-VDVHNRTTXXXXXXX--XXXXXXPDVSGS-YGRIKRVCETELGIVSQCCQPRQ 629
Q+EK L H+ T+ PD +GS YG +KR+CETELGIVSQCC +
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKH 120
Query: 630 ASRLNMQYFENVALKINVKVGGRNTVLV 657
+++ QY NVALKINVKVGGRNTVLV
Sbjct: 121 VFKMSKQYMANVALKINVKVGGRNTVLV 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 = 140 bits (353), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 74/146 (50%), Positives = 91/146 (62%), Gaps = 4/146 (2%)
Query: 515 NKKMFNGGRVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPNQ 574
NKKM NGG V W C+NFS ++ ++A FCQ L MC GM FN PV+P S+ P Q
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPEQ 61
Query: 575 IEKAL-VDVHNRTTXXXXXXX--XXXXXXPDVSGS-YGRIKRVCETELGIVSQCCQPRQA 630
+EK L H+ T+ PD +GS YG +KR+CETELGIVSQCC +
Sbjct: 62 VEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHV 121
Query: 631 SRLNMQYFENVALKINVKVGGRNTVL 656
+++ QY NVALKINVKVGGRNTVL
Sbjct: 122 FKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 140 bits (352), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 74/149 (49%), Positives = 91/149 (61%), Gaps = 5/149 (3%)
Query: 514 INKKMFNGGRVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPN 573
+NKKM NGG V W C+NFS ++ ++A FCQ L MC GM FN PV+P S+ P
Sbjct: 1 MNKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPE 60
Query: 574 QIEKAL-VDVHNRTTXXX--XXXXXXXXXXPDVSGS--YGRIKRVCETELGIVSQCCQPR 628
Q+EK L H+ T+ PD S YG +KR+CETELGIVSQCC +
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGIVSQCCLTK 120
Query: 629 QASRLNMQYFENVALKINVKVGGRNTVLV 657
+++ QY NVALKINVKVGGRNTVLV
Sbjct: 121 HVFKMSKQYMANVALKINVKVGGRNTVLV 149
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 134 bits (337), Expect = 2e-31, Method: Composition-based stats.
Identities = 71/146 (48%), Positives = 87/146 (59%), Gaps = 4/146 (2%)
Query: 515 NKKMFNGGRVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPNQ 574
NKK NGG V W C+NFS ++ ++A FCQ L C G FN PV+P S+ P Q
Sbjct: 2 NKKXINGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAFNPEPVLPPVSARPEQ 61
Query: 575 IEKAL-VDVHNRTTXXXXXXXX--XXXXXPDVSGS-YGRIKRVCETELGIVSQCCQPRQA 630
+EK L H+ T+ PD +GS YG +KR+CETELGIVSQCC +
Sbjct: 62 VEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHV 121
Query: 631 SRLNMQYFENVALKINVKVGGRNTVL 656
+ + QY NVALKINVKVGGRNTVL
Sbjct: 122 FKXSKQYXANVALKINVKVGGRNTVL 147
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 92.8 bits (229), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 91/391 (23%), Positives = 154/391 (39%), Gaps = 82/391 (20%)
Query: 523 RVEVWTCVNFSTRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISSSNPNQIEKALVDV 582
++E WT + + Q + N G+ N R +S S P ++ V
Sbjct: 13 KIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSVPGSEKEFFAKV 72
Query: 583 HNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQ--ASRLNMQYFEN 640
+ DV+ Y +KR + G+ + CC + +++ + YF N
Sbjct: 73 --KELMSSHQFVVVLLPRKDVA-IYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFAN 129
Query: 641 VALKINVKVGGRNTVLVDAVQKRIPLVTDRPTIIFGADVTHP---QPGED--SSPSIAAV 695
V LK+N+K GG N ++ IPL+ T++ G DVTHP G+ S+PSI +
Sbjct: 130 VGLKVNLKFGGTN----HNIKTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGL 185
Query: 696 VASMDWPEVAKYRGLVSAQAHHEEIIQDLYKSIQDPQRGFVHGGMIRELLIAFRRSTNFK 755
V+++D + ++ +V H +E + + + + EL + +
Sbjct: 186 VSTID-QHLGQWPAMVWNNPHGQESMTEQFTDKFKTRL---------ELWRSNPANNRSL 235
Query: 756 PHRIIFYRDGVGERQFSQVLLHEMNAIRQACASL-EEGYAPPVTFVVVQKRCRTRLFPAE 814
P I+ +RDGV E QF V+ E+ +R AC + G P +T +V
Sbjct: 236 PENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIV------------- 282
Query: 815 NNRCDLTDRSGNILPGTVVDTEICHPTEFDFYLNSHAAIQGTSRPTRYHVLYDE------ 868
+++G S Y VL DE
Sbjct: 283 -------------------------------------SVKG-SGSAHYTVLVDEIFRADY 304
Query: 869 NRFTADGLQVLTNNLCYTYARCTRSVSVVPP 899
AD L+ LT+++CY + R T++VS+ PP
Sbjct: 305 GNKAADTLEQLTHDMCYLFGRATKAVSICPP 335
>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 = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 69/120 (57%), Gaps = 5/120 (4%)
Query: 328 PLSDEVRLKVKKALKGIKVVLTH-REYNNSHKITGISSQPMSQ----LMFTDDSATRMSV 382
PL+D R++ K +KG+KV +TH + +++ ++ +P S L +V
Sbjct: 27 PLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLESGQTVECTV 86
Query: 383 IQYFRERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRAT 442
QYF+++YN+ L++ LP L G E + YLP+E+ IVAGQR K+L + Q +++AT
Sbjct: 87 AQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKAT 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 = 84.3 bits (207), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 68/120 (56%), Gaps = 5/120 (4%)
Query: 328 PLSDEVRLKVKKALKGIKVVLTH-REYNNSHKITGISSQPMSQ----LMFTDDSATRMSV 382
PL+D R++ K +KG+KV +TH + +++ ++ +P S L +V
Sbjct: 27 PLTDSQRVRFTKEIKGLKVEVTHCGQXKRKYRVCNVTRRPASHQTFPLQLESGQTVECTV 86
Query: 383 IQYFRERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRAT 442
QYF+++YN+ L++ LP L G E + YLP+E+ IVAGQR K+L + Q ++AT
Sbjct: 87 AQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTXIKAT 146
>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 = 48/169 (28%), Positives = 89/169 (52%), Gaps = 10/169 (5%)
Query: 305 ASSFYEPILVTEFVQNYC--RDLSH---PLSDEVRLKVKKALKGIKVVLTH-REYNNSHK 358
++FY+ V +F+ RD++ PL+D R+K K +KG+K+ +TH + ++
Sbjct: 1 GTAFYKAQPVIDFMCEVLDIRDINEQRKPLTDSQRVKFTKEIKGLKIEITHCGQMRRKYR 60
Query: 359 ITGISSQPMSQ----LMFTDDSATRMSVIQYFRERYNIALQFTSLPALVAGSEARPIYLP 414
+ ++ +P L + +V +YF ++Y + L++ LP L G E + YLP
Sbjct: 61 VCNVTRRPAQMQSFPLQLENGQTVECTVAKYFLDKYRMKLRYPHLPCLQVGQEHKHTYLP 120
Query: 415 MELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMMARANAYN 463
+E+ IVAGQR K+L + Q +++AT + +RE I + + +N
Sbjct: 121 LEVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVKRADFN 169
>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 = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 71/151 (47%), Gaps = 13/151 (8%)
Query: 516 KKMFNGGRVEVWTCVNF--STRLNRDVAFQFCQGLVDMCNSKGMVFNLRPVIPISS---- 569
K + G V+ W ++F S R N+ + F L+D C GM P++ +S
Sbjct: 3 KGVTRGSIVKHWAVLDFTASERFNK-MPNDFVDNLIDRCWRLGMQMEA-PIVYKTSRMET 60
Query: 570 -SNPNQIE---KALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCC 625
SN N IE ++++D +R G Y +K + ET+LG+V+QC
Sbjct: 61 LSNGNAIEELLRSVIDEASRKHGGARPTLVLCAMSRKDDG-YKTLKWIAETKLGLVTQCF 119
Query: 626 QPRQASRLNMQYFENVALKINVKVGGRNTVL 656
A++ QY N+ALK+N KVGG N L
Sbjct: 120 LTGPATKGGDQYRANLALKMNAKVGGSNVEL 150
>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 = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 59/141 (41%), Gaps = 6/141 (4%)
Query: 515 NKKMFNGGRVEVWTCVNFS-TRLNRDVAFQ-FCQGLVDMCNSKGMVFNLRPVIPISSSNP 572
NK+ G ++VW F+ R +V + F + L + GM +P +
Sbjct: 2 NKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGA 61
Query: 573 NQIEKALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQASR 632
+ +E + N P + Y +KRV +T LG+ +QC Q + R
Sbjct: 62 DSVEPMFRHLKN----TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQR 117
Query: 633 LNMQYFENVALKINVKVGGRN 653
Q N+ LKINVK+GG N
Sbjct: 118 TTPQTLSNLCLKINVKLGGVN 138
>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 = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 37/141 (26%), Positives = 57/141 (40%), Gaps = 6/141 (4%)
Query: 515 NKKMFNGGRVEVWTCVNFS-TRLNRDVAFQ-FCQGLVDMCNSKGMVFNLRPVIPISSSNP 572
NK+ G ++VW F+ R +V + F + L + G +P +
Sbjct: 2 NKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGXPIQGQPCFCKYAQGA 61
Query: 573 NQIEKALVDVHNRTTXXXXXXXXXXXXXPDVSGSYGRIKRVCETELGIVSQCCQPRQASR 632
+ +E + N P + Y +KRV +T LG +QC Q + R
Sbjct: 62 DSVEPXFRHLKN----TYAGLQLVVVILPGKTPVYAEVKRVGDTVLGXATQCVQXKNVQR 117
Query: 633 LNMQYFENVALKINVKVGGRN 653
Q N+ LKINVK+GG N
Sbjct: 118 TTPQTLSNLCLKINVKLGGVN 138
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 55/114 (48%), Gaps = 6/114 (5%)
Query: 331 DEVRLKVKKALKGIKVVLTHREYNNS----HKITGISSQPMSQLMFTDDSATRMSVIQYF 386
D R ++ L+GI VV T + S +++ G+S P S F D ++++ YF
Sbjct: 27 DYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHD-GKKVTIASYF 85
Query: 387 RERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLR 440
R N L+F L L GS + I LP+EL I GQ ++ QV +++
Sbjct: 86 HSR-NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNRKDGATQVANMIK 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 = 46.2 bits (108), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 38/133 (28%), Positives = 64/133 (48%), Gaps = 13/133 (9%)
Query: 301 IDVSASSFYEPILVTEFVQNYCRDLSHPLSDEVRLK-----VKKALKGIKVVLTHREYNN 355
+D+S SF + + E+++ + L +++ L ++ L+GI VV T +
Sbjct: 374 VDISHKSFPISMPMIEYLERFS--LKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQ 431
Query: 356 S----HKITGISSQPMSQLMFTDDSATRMSVIQYFRERYNIALQFTSLPALVAGSEARPI 411
S +++ G+S P S F D ++++ YF R N L+F L L GS + I
Sbjct: 432 SAPRVYRVNGLSRAPASSETFEHD-GKKVTIASYFHSR-NYPLKFPQLHCLNVGSSIKSI 489
Query: 412 YLPMELSRIVAGQ 424
LP+EL I GQ
Sbjct: 490 LLPIELCSIEEGQ 502
>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 = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/98 (33%), Positives = 48/98 (48%), Gaps = 6/98 (6%)
Query: 331 DEVRLKVKKALKGIKVVLTHREYNNS----HKITGISSQPMSQLMFTDDSATRMSVIQYF 386
D R ++ L+GI VV T + S +++ G+S P S F D ++++ YF
Sbjct: 27 DYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHD-GKKVTIASYF 85
Query: 387 RERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQ 424
R N L+F L L GS + I LP+EL I GQ
Sbjct: 86 HSR-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 = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/98 (33%), Positives = 48/98 (48%), Gaps = 6/98 (6%)
Query: 331 DEVRLKVKKALKGIKVVLTHREYNNS----HKITGISSQPMSQLMFTDDSATRMSVIQYF 386
D R ++ L+GI VV T + S +++ G+S P S F D ++++ YF
Sbjct: 25 DYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHD-GKKVTIASYF 83
Query: 387 RERYNIALQFTSLPALVAGSEARPIYLPMELSRIVAGQ 424
R N L+F L L GS + I LP+EL I GQ
Sbjct: 84 HSR-NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQ 120
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 607 YGRIKRVCETELGIVSQCCQPRQ--ASRLNMQYFENVALKINVKVGGRN 653
Y +KR + G+ + CC + +++ + YF NV LK+N+K GG N
Sbjct: 94 YNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTN 142
>pdb|2L5C|A Chain A, Solution Structures Of Human Piwi-Like 1 Paz Domain
pdb|2L5D|A Chain A, Solution Structures Of Human Piwi-Like 1 Paz Domain With
Ssrna (5'- Pugaca)
Length = 134
Score = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 52/100 (52%), Gaps = 5/100 (5%)
Query: 312 ILVTEFVQNYCRDLSHPLSD-EVRLKVKKALKGIKVVLTHREYNN-SHKITGISSQPMSQ 369
+L +E V ++ + H + + + +V K L G+ VVLT +YNN ++++ I +
Sbjct: 8 VLRSETVLDFMFNFYHQTEEHKFQEQVSKELIGL-VVLT--KYNNKTYRVDDIDWDQNPK 64
Query: 370 LMFTDDSATRMSVIQYFRERYNIALQFTSLPALVAGSEAR 409
F + +S ++Y+R++YN + P LV+ + R
Sbjct: 65 STFKKADGSEVSFLEYYRKQYNQEITDLKQPVLVSQPKRR 104
>pdb|3BND|A Chain A, Lipoxygenase-1 (Soybean), I553v Mutant
Length = 839
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP+++Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVEYREEELKSLRGNGTGE 176
>pdb|3PZW|A Chain A, Soybean Lipoxygenase-1 - Re-Refinement
Length = 839
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP+++Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVEYREEELKSLRGNGTGE 176
>pdb|3BNC|A Chain A, Lipoxygenase-1 (Soybean) I553g Mutant
Length = 839
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP+++Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVEYREEELKSLRGNGTGE 176
>pdb|3BNE|A Chain A, Lipoxygenase-1 (Soybean) I553a Mutant
Length = 839
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP+++Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVEYREEELKSLRGNGTGE 176
>pdb|3BNB|A Chain A, Lipoxygenase-1 (Soybean) I553l Mutant
Length = 839
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP+++Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVEYREEELKSLRGNGTGE 176
>pdb|1FGM|A Chain A, Lipoxygenase-1 (Soybean) At 100k, N694h Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1Y4K|A Chain A, Lipoxygenase-1 (Soybean) At 100k, N694g Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1FGT|A Chain A, Lipoxygenase-1 (Soybean) At 100k, Q697n Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|2SBL|B Chain B, The Three-Dimensional Structure Of An Arachidonic Acid 15-
Lipoxygenase
pdb|1F8N|A Chain A, Lipoxygenase-1 (Soybean) At 100k, New Refinement
pdb|1YGE|A Chain A, Lipoxygenase-1 (Soybean) At 100k
pdb|2SBL|A Chain A, The Three-Dimensional Structure Of An Arachidonic Acid 15-
Lipoxygenase
Length = 839
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1FGO|A Chain A, Lipoxygenase-1 (Soybean) At 100k, Q495a Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1FGR|A Chain A, Lipoxygenase-1 (Soybean) At 100k, Q697e Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1FGQ|A Chain A, Lipoxygenase-1 (Soybean) At 100k, Q495e Mutant
Length = 839
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 397 TSLPALVAGSEARPIYLPMELSRIVAGQRYAKRLNERQVIALLRATCQRPREREENIRMM 456
TSLP L AG A I+ + S + G Y K N QV L++ + IR +
Sbjct: 69 TSLPTLGAGESAFNIHFEWDGSMGIPGAFYIK--NYMQVEFFLKSLTLEAISNQGTIRFV 126
Query: 457 ARANAYNEDTLVNKEFGIQVADDLTSVDARILPAPMLKYHETGREASVNPGFGQ 510
+ YN T + K I A+ T V + PAP++ Y E ++ G G+
Sbjct: 127 CNSWVYN--TKLYKSVRIFFANH-TYVPSET-PAPLVSYREEELKSLRGNGTGE 176
>pdb|1XOC|A Chain A, The Structure Of The Oligopeptide-Binding Protein, Appa,
From Bacillus Subtilis In Complex With A Nonapeptide
Length = 520
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 102 FPVRPGFGTVGRKCVVRANHFMVQLAERDIHHYDVSITPWVTSRKINR-QIISQL 155
F RP TV K + AN QL DI+ ++V T + T+ K N +I++ L
Sbjct: 208 FEGRPYLDTVTYKVIPDANAAEAQLQAGDINFFNVPATDYKTAEKFNNLKIVTDL 262
>pdb|2XFM|A Chain A, Complex Structure Of The Miwi Paz Domain Bound To
Methylated Single Stranded Rna
Length = 150
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 336 KVKKALKGIKVVLTHREYNN-SHKITGISSQPMSQLMFTDDSATRMSVIQYFRERYNIAL 394
+V K L G+ +VLT +YNN ++++ I + F + +S ++Y+R++YN +
Sbjct: 24 QVSKELIGL-IVLT--KYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEI 80
Query: 395 QFTSLPALVAGSEAR 409
P LV+ + R
Sbjct: 81 TDLKQPVLVSQPKRR 95
>pdb|3O3I|X Chain X, Crystal Structure Of Human Hiwi1 Paz Domain (Residues
277-399) In Complex With 14-Mer Rna (12-Bp + 2-Nt
Overhang) Containing 2'-Oh At Its 3'-End
Length = 124
Score = 31.2 bits (69), Expect = 2.9, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 336 KVKKALKGIKVVLTHREYNN-SHKITGISSQPMSQLMFTDDSATRMSVIQYFRERYNIAL 394
+V K L G+ VVLT +YNN ++++ I + F + +S ++Y+R++YN +
Sbjct: 23 QVSKELIGL-VVLT--KYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEI 79
Query: 395 QFTSLPALVAGSEAR 409
P LV+ + R
Sbjct: 80 TDLKQPVLVSQPKRR 94
>pdb|3O6E|X Chain X, Crystal Structure Of Human Hiwi1 Paz Domain (Residues
277-399) In Complex With 14-Mer Rna (12-Bp + 2-Nt
Overhang) Containing 2'-Och3 At Its 3'-End
Length = 124
Score = 31.2 bits (69), Expect = 3.2, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 336 KVKKALKGIKVVLTHREYNN-SHKITGISSQPMSQLMFTDDSATRMSVIQYFRERYNIAL 394
+V K L G+ VVLT +YNN ++++ I + F + +S ++Y+R++YN +
Sbjct: 23 QVSKELIGL-VVLT--KYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEI 79
Query: 395 QFTSLPALVAGSEAR 409
P LV+ + R
Sbjct: 80 TDLKQPVLVSQPKRR 94
>pdb|3O7V|X Chain X, Crystal Structure Of Human Hiwi1 (V361m) Paz Domain
(Residues 277-399) In Complex With 14-Mer Rna (12-Bp +
2-Nt Overhang) Containing 2'-Och3 At Its 3'-End
Length = 124
Score = 30.8 bits (68), Expect = 3.8, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 336 KVKKALKGIKVVLTHREYNN-SHKITGISSQPMSQLMFTDDSATRMSVIQYFRERYNIAL 394
+V K L G+ VVLT +YNN ++++ I + F + +S ++Y+R++YN +
Sbjct: 23 QVSKELIGL-VVLT--KYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEI 79
Query: 395 QFTSLPALVAGSEAR 409
P LV+ + R
Sbjct: 80 TDLKQPXLVSQPKRR 94
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
0.322 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,910,618
Number of Sequences: 62578
Number of extensions: 888780
Number of successful extensions: 1869
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1794
Number of HSP's gapped (non-prelim): 56
length of query: 954
length of database: 14,973,337
effective HSP length: 108
effective length of query: 846
effective length of database: 8,214,913
effective search space: 6949816398
effective search space used: 6949816398
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)