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= 001961
(990 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 = 613 bits (1582), Expect = e-176, Method: Compositional matrix adjust.
Identities = 340/800 (42%), Positives = 481/800 (60%), Gaps = 47/800 (5%)
Query: 202 PLRPGRGSTGTRCIVKANHFFAELPDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRES 261
P RP G++G ++AN F ++P D++ Y++ I PE R VNR ++E +V+ ++
Sbjct: 28 PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 87
Query: 262 HLGKRLPAYDGRKSLYTAGPLPFLSK--EFRITLLXXXXXXXXXXXXXXFKVVIKLAARA 319
G R P +DGRK+LYTA PLP E +TL FKV IK +
Sbjct: 88 IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTL-------PGEGKDRIFKVSIKWVSCV 140
Query: 320 DLHHLGLFLQGRQADAPQEALQVLDIVLRELPTTRYCPVGRSFYSPDLGRRQPLGEGLES 379
L L L GR P E +Q LD+V+R LP+ RY PVGRSF++ G PLG G E
Sbjct: 141 SLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGREV 200
Query: 380 WRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNR---DVSSRPLSDADRVKI 436
W GF+QS+RP+ + LNID+S+TAF + PVI+FV ++L+ + +PL+D+ RVK
Sbjct: 201 WFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPLTDSQRVKF 260
Query: 437 KKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVD-ESGTLK--SVVEYFYETYGF 493
K ++G++VE+TH G M+RKYR+ +T + TFP+ ESG +V +YF + +
Sbjct: 261 TKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKL 320
Query: 494 VIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERD 553
V+++ PCLQVG +Q+ YLP+EVC IV GQR K+L + Q + +++ T + +R+ +
Sbjct: 321 VLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEE 380
Query: 554 IMQTVHHNAYHEDPYAREFGIKISEKLASVEARILPAPWLKYHDTGKEKD-CLPQVGQWN 612
I + + +++ DPY REFGI + +++ V R+L P + Y G+ K P G W+
Sbjct: 381 ISKLMRSASFNTDPYVREFGIMVKDEMTDVTGRVLQPPSILY--GGRNKAIATPVQGVWD 438
Query: 613 MMNKKMVNGGTVNHWICINFS--RHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISA 670
M NK+ G + W F+ R + + F +L ++ +GM +P +
Sbjct: 439 MRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQ 498
Query: 671 RPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCL 730
+ VE + + H T G L L++VILP +Y ++KR+ +T LG+ +QC
Sbjct: 499 GADSVEPMFR---HLKNTYAG----LQLVVVILPGKT-PVYAEVKRVGDTVLGMATQCVQ 550
Query: 731 TKHVFKMSKQYMANVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGE 790
K+V + + Q ++N+ LKINVK+GG N +L + + P V +P I GADVTHP G+
Sbjct: 551 MKNVQRTTPQTLSNLCLKINVKLGGVNNIL---LPQGRPPVFQQPVIFLGADVTHPPAGD 607
Query: 791 DSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLI 850
PSIAAVV S D +Y V Q HRQE+IQDL M++ELLI
Sbjct: 608 GKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL-------------AAMVRELLI 653
Query: 851 SFRRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRH 910
F ++T KP RIIFYRDGVSEGQF QVL +EL AIR+AC LE +YQP +TF+VVQKRH
Sbjct: 654 QFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRH 713
Query: 911 HTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLW 970
HTRLF + ++R V +SGNI GT VD+KI HPTEFDFYLCSHAGIQGTSRP+HYHVLW
Sbjct: 714 HTRLFCTDKNER--VGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGTSRPSHYHVLW 771
Query: 971 DENKFTADGLQSLTNNLCYT 990
D+N+F++D LQ LT LC+T
Sbjct: 772 DDNRFSSDELQILTYQLCHT 791
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 613 bits (1580), Expect = e-175, Method: Compositional matrix adjust.
Identities = 340/800 (42%), Positives = 479/800 (59%), Gaps = 47/800 (5%)
Query: 202 PLRPGRGSTGTRCIVKANHFFAELPDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRES 261
P RP G++G ++AN F ++P D++ Y++ I PE R VNR ++E +V+ ++
Sbjct: 26 PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 85
Query: 262 HLGKRLPAYDGRKSLYTAGPLPFLSK--EFRITLLXXXXXXXXXXXXXXFKVVIKLAARA 319
G R P +DGRK+LYTA PLP E +TL FKV IK +
Sbjct: 86 IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTL-------PGEGKDRIFKVSIKWVSCV 138
Query: 320 DLHHLGLFLQGRQADAPQEALQVLDIVLRELPTTRYCPVGRSFYSPDLGRRQPLGEGLES 379
L L L GR P E +Q LD+V+R LP+ RY PVGRSF++ G PLG G E
Sbjct: 139 SLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGREV 198
Query: 380 WRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNR---DVSSRPLSDADRVKI 436
W GF+QS+RP+ + LNID+S+TAF + PVI+FV ++L+ + +PL+D+ RVK
Sbjct: 199 WFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPLTDSQRVKF 258
Query: 437 KKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVD-ESGTLK--SVVEYFYETYGF 493
K ++G++VE+TH G M+RKYR+ +T + TFP+ ESG +V +YF + +
Sbjct: 259 TKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKL 318
Query: 494 VIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERD 553
V+++ PCLQVG +Q+ YLP+EVC IV GQR K+L + Q + +++ T + +R+ +
Sbjct: 319 VLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEE 378
Query: 554 IMQTVHHNAYHEDPYAREFGIKISEKLASVEARILPAPWLKYHDTGKEKD-CLPQVGQWN 612
I + + ++ DPY REFGI + +++ V R+L P + Y G+ K P G W+
Sbjct: 379 ISKLMRSADFNTDPYVREFGIMVKDEMTDVTGRVLQPPSILY--GGRNKAIATPVQGVWD 436
Query: 613 MMNKKMVNGGTVNHWI--CINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISA 670
M NK+ G + W C R + + F +L ++ +GM +P +
Sbjct: 437 MRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQ 496
Query: 671 RPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCL 730
+ VE + + H T G L L++VILP +Y ++KR+ +T LG+ +QC
Sbjct: 497 GADSVEPMFR---HLKNTYAG----LQLVVVILPGKT-PVYAEVKRVGDTVLGMATQCVQ 548
Query: 731 TKHVFKMSKQYMANVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGE 790
K+V + + Q ++N+ LKINVK+GG N +L + + P V +P I GADVTHP G+
Sbjct: 549 MKNVQRTTPQTLSNLCLKINVKLGGVNNIL---LPQGRPPVFQQPVIFLGADVTHPPAGD 605
Query: 791 DSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLI 850
PSIAAVV S D +Y V Q HRQE+IQDL M++ELLI
Sbjct: 606 GKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL-------------AAMVRELLI 651
Query: 851 SFRRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRH 910
F ++T KP RIIFYRDGVSEGQF QVL +EL AIR+AC LE +YQP +TF+VVQKRH
Sbjct: 652 QFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRH 711
Query: 911 HTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLW 970
HTRLF + ++R V +SGNI GT VD+KI HPTEFDFYLCSHAGIQGTSRP+HYHVLW
Sbjct: 712 HTRLFCTDKNER--VGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGTSRPSHYHVLW 769
Query: 971 DENKFTADGLQSLTNNLCYT 990
D+N+F++D LQ LT LC+T
Sbjct: 770 DDNRFSSDELQILTYQLCHT 789
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 287 bits (734), Expect = 2e-77, Method: Compositional matrix adjust.
Identities = 131/148 (88%), Positives = 142/148 (95%)
Query: 614 MNKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPE 673
MNKKM+NGGTVN+WICINFSR VQD++AR FC ELAQMCY+SGMAFNPEPV+PP+SARPE
Sbjct: 1 MNKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPE 60
Query: 674 HVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKH 733
VEKVLKTRYHDA +KL QGKE+DLLIVILPDNNGSLYGDLKRICET+LG+VSQCCLTKH
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKH 120
Query: 734 VFKMSKQYMANVALKINVKVGGRNTVLV 761
VFKMSKQYMANVALKINVKVGGRNTVLV
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 = 283 bits (725), Expect = 3e-76, Method: Compositional matrix adjust.
Identities = 129/146 (88%), Positives = 140/146 (95%)
Query: 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEH 674
NKKM+NGGTVN+WICINFSR VQD++AR FC ELAQMCY+SGMAFNPEPV+PP+SARPE
Sbjct: 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPEQ 61
Query: 675 VEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHV 734
VEKVLKTRYHDA +KL QGKE+DLLIVILPDNNGSLYGDLKRICET+LG+VSQCCLTKHV
Sbjct: 62 VEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHV 121
Query: 735 FKMSKQYMANVALKINVKVGGRNTVL 760
FKMSKQYMANVALKINVKVGGRNTVL
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 = 276 bits (707), Expect = 3e-74, Method: Compositional matrix adjust.
Identities = 128/149 (85%), Positives = 139/149 (93%), Gaps = 1/149 (0%)
Query: 614 MNKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPE 673
MNKKM+NGGTVN+WICINFSR VQD++AR FC ELAQMCY+SGMAFNPEPV+PP+SARPE
Sbjct: 1 MNKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPE 60
Query: 674 HVEKVLKTRYHDAMTKLGQGKELDLLIVILPD-NNGSLYGDLKRICETDLGLVSQCCLTK 732
VEKVLKTRYHDA +KL QGKE+DLLIVILPD N LYGDLKRICET+LG+VSQCCLTK
Sbjct: 61 QVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGIVSQCCLTK 120
Query: 733 HVFKMSKQYMANVALKINVKVGGRNTVLV 761
HVFKMSKQYMANVALKINVKVGGRNTVLV
Sbjct: 121 HVFKMSKQYMANVALKINVKVGGRNTVLV 149
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 270 bits (690), Expect = 3e-72, Method: Compositional matrix adjust.
Identities = 124/146 (84%), Positives = 135/146 (92%)
Query: 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEH 674
NKK +NGGTVN+WICINFSR VQD++AR FC ELAQ CY+SG AFNPEPV+PP+SARPE
Sbjct: 2 NKKXINGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAFNPEPVLPPVSARPEQ 61
Query: 675 VEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHV 734
VEKVLKTRYHDA +KL QGKE+DLLIVILPDNNGSLYGDLKRICET+LG+VSQCCLTKHV
Sbjct: 62 VEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHV 121
Query: 735 FKMSKQYMANVALKINVKVGGRNTVL 760
FK SKQY ANVALKINVKVGGRNTVL
Sbjct: 122 FKXSKQYXANVALKINVKVGGRNTVL 147
>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 (413), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 104/306 (33%), Positives = 163/306 (53%), Gaps = 29/306 (9%)
Query: 698 LLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRN 757
+L V+ N+ ++Y LK I + G ++ C + + K S QY +NV +K+N+K+ G N
Sbjct: 684 ILYVLRRGNDSAVYDRLKYITDLKFGALNSCVVWDNFKKNSIQYNSNVVMKMNLKLLGSN 743
Query: 758 TVL-VDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTKYAGLVC 816
L ++ I S+ P ++ G+DVTH +P +D + SIA++V S D + T++ G
Sbjct: 744 HSLSIENNKLLIDKESNLPILVLGSDVTH-YPEKDQN-SIASLVGSYD-DKFTQFPGDYM 800
Query: 817 AQ-AHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGVSEGQF 875
Q +E+I + V M+ L I + G+ P +I+++RDGVS QF
Sbjct: 801 LQDGPGEEIITN------------VGSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQF 848
Query: 876 YQVLLYELDAIRKACASLEP------NYQPPVTFVVVQKRHHTRLFANNHHDRN------ 923
QV+ E+ +I+++ P Y PPVT + KR+ R + +N
Sbjct: 849 SQVVKIEVKSIKESVRKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEV 908
Query: 924 AVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDENKFTADGLQSL 983
AV GN++PGTVVD I FDF++ SH ++GT P HY L+DEN+ T+D LQ +
Sbjct: 909 AVQSMGNVMPGTVVDRGITSVAHFDFFIQSHQALKGTGVPCHYWCLYDENQSTSDYLQEI 968
Query: 984 TNNLCY 989
NNLCY
Sbjct: 969 CNNLCY 974
>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 = 154 bits (388), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 79/146 (54%), Positives = 96/146 (65%), Gaps = 8/146 (5%)
Query: 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEH 674
+KKMVNG V W C++FS + + + FC +L MC GM F P+P IP IS PEH
Sbjct: 2 DKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEH 61
Query: 675 VEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHV 734
+E+ L + A L LLIVILPD GS YG +KRICET+LG+VSQCC + V
Sbjct: 62 IEEALLDIHKRA-------PGLQLLIVILPDVTGS-YGKIKRICETELGIVSQCCQPRQV 113
Query: 735 FKMSKQYMANVALKINVKVGGRNTVL 760
K++KQYM NVALKINVK GGRNTVL
Sbjct: 114 NKLNKQYMENVALKINVKTGGRNTVL 139
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 151 bits (381), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 162/307 (52%), Gaps = 32/307 (10%)
Query: 698 LLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGG 755
++V+LP + ++Y +KR + G+ + CC+ + Q Y ANV LK+N+K GG
Sbjct: 81 FVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGG 140
Query: 756 RNTVLVDAISRRIPLVSDRPTIIFGADVTHP---HPGED--SSPSIAAVVASQDWPEVTK 810
N I IPL++ T++ G DVTHP G+ S+PSI +V++ D + +
Sbjct: 141 TN----HNIKTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQ 195
Query: 811 YAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGV 870
+ +V H QE + + F D + + EL S P+ I+ +RDGV
Sbjct: 196 WPAMVWNNPHGQESMTEQF---TDKFKTRL------ELWRSNPANNRSLPENILIFRDGV 246
Query: 871 SEGQFYQVLLYELDAIRKACASLEPNYQ-PPVTFVVVQKRHHTRLFANNHHDRNAVDRSG 929
SEGQF V+ EL +R AC + P + P +T +V KRH TR F + ++ +S
Sbjct: 247 SEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKRHQTRFFPTD--PKHIHFKSK 304
Query: 930 NILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDE-------NKFTADGLQS 982
+ GTVVD + + +DF+L +HA +QGT+R AHY VL DE NK AD L+
Sbjct: 305 SPKEGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTVLVDEIFRADYGNK-AADTLEQ 363
Query: 983 LTNNLCY 989
LT+++CY
Sbjct: 364 LTHDMCY 370
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 125 bits (315), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 66/168 (39%), Positives = 109/168 (64%), Gaps = 6/168 (3%)
Query: 403 TAFIEPLPVIDFVQQLLN-RDVSS--RPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRI 459
TAF + PVIDF+ ++L+ RD++ +PL+D+ RVK K ++G+++E+TH G MRRKYR+
Sbjct: 2 TAFYKAQPVIDFMCEVLDIRDINEQRKPLTDSQRVKFTKEIKGLKIEITHCGQMRRKYRV 61
Query: 460 SGLTSQTTGELTFPVD-ESG-TLK-SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPM 516
+T + +FP+ E+G T++ +V +YF + Y +++ PCLQVG + + YLP+
Sbjct: 62 CNVTRRPAQMQSFPLQLENGQTVECTVAKYFLDKYRMKLRYPHLPCLQVGQEHKHTYLPL 121
Query: 517 EVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYH 564
EVC IV GQR K+L + Q + ++K T + +RER+I V ++
Sbjct: 122 EVCNIVAGQRCIKKLTDMQTSTMIKATARSAPDREREINNLVKRADFN 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 = 119 bits (297), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 60/140 (42%), Positives = 93/140 (66%), Gaps = 6/140 (4%)
Query: 410 PVIDFVQQLL---NRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQT 466
PVI+F+ ++L N D +PL+D+ RV+ K ++G++VEVTH G M+RKYR+ +T +
Sbjct: 7 PVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRP 66
Query: 467 TGELTFPVD-ESG-TLK-SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVE 523
TFP+ ESG T++ +V +YF + Y +++ PCLQVG +Q+ YLP+EVC IV
Sbjct: 67 ASHQTFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVA 126
Query: 524 GQRYSKRLNERQITALLKVT 543
GQR K+L + Q + ++K T
Sbjct: 127 GQRCIKKLTDNQTSTMIKAT 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 = 114 bits (284), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 59/140 (42%), Positives = 90/140 (64%), Gaps = 6/140 (4%)
Query: 410 PVIDFVQQLL---NRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQT 466
PVI+F ++L N D +PL+D+ RV+ K ++G++VEVTH G +RKYR+ +T +
Sbjct: 7 PVIEFXCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQXKRKYRVCNVTRRP 66
Query: 467 TGELTFPVD-ESG-TLK-SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVE 523
TFP+ ESG T++ +V +YF + Y +++ PCLQVG +Q+ YLP+EVC IV
Sbjct: 67 ASHQTFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVA 126
Query: 524 GQRYSKRLNERQITALLKVT 543
GQR K+L + Q + +K T
Sbjct: 127 GQRCIKKLTDNQTSTXIKAT 146
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 96.7 bits (239), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 73/229 (31%), Positives = 114/229 (49%), Gaps = 26/229 (11%)
Query: 698 LLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGG 755
++V+LP + ++Y +KR + G+ + CC+ + Q Y ANV LK+N+K GG
Sbjct: 81 FVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGG 140
Query: 756 RNTVLVDAISRRIPLVSDRPTIIFGADVTHP---HPGED--SSPSIAAVVASQDWPEVTK 810
N I IPL++ T++ G DVTHP G+ S+PSI +V++ D + +
Sbjct: 141 TN----HNIKTPIPLLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQ 195
Query: 811 YAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGV 870
+ +V H QE + + F D + + EL S P+ I+ +RDGV
Sbjct: 196 WPAMVWNNPHGQESMTEQF---TDKFKTRL------ELWRSNPANNRSLPENILIFRDGV 246
Query: 871 SEGQFYQVLLYELDAIRKACASLEPNYQ-PPVTFVVVQK----RHHTRL 914
SEGQF V+ EL +R AC + P + P +T +V K H+T L
Sbjct: 247 SEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKGSGSAHYTVL 295
>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 = 69.7 bits (169), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 9/151 (5%)
Query: 616 KKMVNGGTVNHWICINFSRHVQ-DSIARGFCFELAQMCYISGMAFNPEPVIPPIS----- 669
K + G V HW ++F+ + + + F L C+ GM P++ S
Sbjct: 3 KGVTRGSIVKHWAVLDFTASERFNKMPNDFVDNLIDRCWRLGMQMEA-PIVYKTSRMETL 61
Query: 670 ARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCC 729
+ +E++L++ +A K G + +L + ++G Y LK I ET LGLV+QC
Sbjct: 62 SNGNAIEELLRSVIDEASRKHGGARPTLVLCAMSRKDDG--YKTLKWIAETKLGLVTQCF 119
Query: 730 LTKHVFKMSKQYMANVALKINVKVGGRNTVL 760
LT K QY AN+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 = 60.5 bits (145), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 10/145 (6%)
Query: 615 NKKMVNGGTVNHWICINFS--RHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARP 672
NK+ G + W F+ R + + F +L ++ +GM +P +
Sbjct: 2 NKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGA 61
Query: 673 EHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTK 732
+ VE + + H T G L L++VILP +Y ++KR+ +T LG+ +QC K
Sbjct: 62 DSVEPMFR---HLKNTYAG----LQLVVVILPGKT-PVYAEVKRVGDTVLGMATQCVQMK 113
Query: 733 HVFKMSKQYMANVALKINVKVGGRN 757
+V + + Q ++N+ LKINVK+GG N
Sbjct: 114 NVQRTTPQTLSNLCLKINVKLGGVN 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 = 56.6 bits (135), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 70/145 (48%), Gaps = 10/145 (6%)
Query: 615 NKKMVNGGTVNHWICINFS--RHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARP 672
NK+ G + W F+ R + + F +L ++ +G +P +
Sbjct: 2 NKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGXPIQGQPCFCKYAQGA 61
Query: 673 EHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTK 732
+ VE + H T G L L++VILP +Y ++KR+ +T LG +QC K
Sbjct: 62 DSVEPXFR---HLKNTYAG----LQLVVVILPGKT-PVYAEVKRVGDTVLGXATQCVQXK 113
Query: 733 HVFKMSKQYMANVALKINVKVGGRN 757
+V + + Q ++N+ LKINVK+GG N
Sbjct: 114 NVQRTTPQTLSNLCLKINVKLGGVN 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 = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 72/137 (52%), Gaps = 7/137 (5%)
Query: 398 IDMSSTAFIEPLPVIDFVQQL-LNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMR-- 454
+D+S +F +P+I+++++ L +++ D R ++ LRG+ V T + +
Sbjct: 374 VDISHKSFPISMPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSA 433
Query: 455 -RKYRISGLTSQTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNY 513
R YR++GL+ TF D G ++ YF+ + + ++ Q CL VG+ +
Sbjct: 434 PRVYRVNGLSRAPASSETFEHD--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSIL 490
Query: 514 LPMEVCKIVEGQRYSKR 530
LP+E+C I EGQ +++
Sbjct: 491 LPIELCSIEEGQALNRK 507
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 53.5 bits (127), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 71/137 (51%), Gaps = 7/137 (5%)
Query: 409 LPVIDFVQQL-LNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMR---RKYRISGLTS 464
+P+I+++++ L +++ D R ++ LRG+ V T + + R YR++GL+
Sbjct: 5 MPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSR 64
Query: 465 QTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEG 524
TF D G ++ YF+ + + ++ Q CL VG+ + LP+E+C I EG
Sbjct: 65 APASSETFEHD--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSILLPIELCSIEEG 121
Query: 525 QRYSKRLNERQITALLK 541
Q +++ Q+ ++K
Sbjct: 122 QALNRKDGATQVANMIK 138
>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 = 49.7 bits (117), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 63/121 (52%), Gaps = 7/121 (5%)
Query: 409 LPVIDFVQQL-LNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMR---RKYRISGLTS 464
+P+I+++++ L +++ D R ++ LRG+ V T + + R YR++GL+
Sbjct: 5 MPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSR 64
Query: 465 QTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEG 524
TF D G ++ YF+ + + ++ Q CL VG+ + LP+E+C I EG
Sbjct: 65 APASSETFEHD--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSILLPIELCSIEEG 121
Query: 525 Q 525
Q
Sbjct: 122 Q 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 = 49.7 bits (117), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 63/121 (52%), Gaps = 7/121 (5%)
Query: 409 LPVIDFVQQL-LNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMR---RKYRISGLTS 464
+P+I+++++ L +++ D R ++ LRG+ V T + + R YR++GL+
Sbjct: 3 MPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSR 62
Query: 465 QTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEG 524
TF D G ++ YF+ + + ++ Q CL VG+ + LP+E+C I EG
Sbjct: 63 APASSETFEHD--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSILLPIELCSIEEG 119
Query: 525 Q 525
Q
Sbjct: 120 Q 120
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 46.2 bits (108), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 698 LLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGG 755
++V+LP + ++Y +KR + G+ + CC+ + Q Y ANV LK+N+K GG
Sbjct: 81 FVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGG 140
Query: 756 RN 757
N
Sbjct: 141 TN 142
>pdb|1THT|A Chain A, Structure Of A Myristoyl-Acp-Specific Thioesterase From
Vibrio Harveyi
pdb|1THT|B Chain B, Structure Of A Myristoyl-Acp-Specific Thioesterase From
Vibrio Harveyi
Length = 305
Score = 33.1 bits (74), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 32/65 (49%), Gaps = 11/65 (16%)
Query: 367 LGRRQPLGEGLESWRGFYQSIRPTQMGL---SLNIDMSSTAFIEPLPVIDFVQQLLNRDV 423
LG LGE L R FYQS+ + + SL ID+ FIEP DF +QL V
Sbjct: 237 LGSSHDLGENLVVLRNFYQSVTKAAIAMDGGSLEIDVD---FIEP----DF-EQLTIATV 288
Query: 424 SSRPL 428
+ R L
Sbjct: 289 NERRL 293
>pdb|3DLB|A Chain A, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLB|B Chain B, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLH|A Chain A, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLH|B Chain B, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3F73|A Chain A, Alignment Of Guide-Target Seed Duplex Within An Argonaute
Silencing Complex
pdb|3F73|B Chain B, Alignment Of Guide-Target Seed Duplex Within An Argonaute
Silencing Complex
pdb|3HM9|A Chain A, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand
pdb|3HVR|A Chain A, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand With
Two Mg2+ At The Cleavage Site
pdb|3HVR|B Chain B, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand With
Two Mg2+ At The Cleavage Site
pdb|3HXM|A Chain A, Structure Of An Argonaute Complexed With Guide Dna And
Target Rna Duplex Containing Two Mismatches
Length = 685
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 9/58 (15%)
Query: 844 MIKELLISFRRATGQKPQRIIFYRDG-VSEGQFYQVL--------LYELDAIRKACAS 892
+++E L +FRR G+ P R++ RDG V + +F L Y+L ++RK+
Sbjct: 522 LLEETLWAFRRKAGRLPSRVLLLRDGRVPQDEFALALEALAREGIAYDLVSVRKSGGG 579
>pdb|3HK2|A Chain A, Crystal Structure Of T. Thermophilus Argonaute N478 Mutant
Protein Complexed With Dna Guide Strand And 19-Nt Rna
Target Strand
pdb|3HK2|B Chain B, Crystal Structure Of T. Thermophilus Argonaute N478 Mutant
Protein Complexed With Dna Guide Strand And 19-Nt Rna
Target Strand
Length = 685
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 9/58 (15%)
Query: 844 MIKELLISFRRATGQKPQRIIFYRDG-VSEGQFYQVL--------LYELDAIRKACAS 892
+++E L +FRR G+ P R++ RDG V + +F L Y+L ++RK+
Sbjct: 522 LLEETLWAFRRKAGRLPSRVLLLRDGRVPQDEFALALEALAREGIAYDLVSVRKSGGG 579
>pdb|3HJF|A Chain A, Crystal Structure Of T. Thermophilus Argonaute E546 Mutant
Protein Complexed With Dna Guide Strand And 15-Nt Rna
Target Strand
Length = 685
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 9/58 (15%)
Query: 844 MIKELLISFRRATGQKPQRIIFYRDG-VSEGQFYQVL--------LYELDAIRKACAS 892
+++E L +FRR G+ P R++ R+G V + +F L Y+L ++RK+
Sbjct: 522 LLEETLWAFRRKAGRLPSRVLLLREGRVPQDEFALALEALAREGIAYDLVSVRKSGGG 579
>pdb|4GHK|A Chain A, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|B Chain B, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|C Chain C, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|D Chain D, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
Length = 444
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 231 HQYDVTITPE--VTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKSLYTAGPLPFL 285
H+Y T E + +RG+ AV+ L +LYRE + R+ A D R L AG P +
Sbjct: 274 HRYGTCNTMETLLVARGIAPAVLSPLGRLYREKGVELRVDA-DARAVLEAAGVGPLV 329
>pdb|2YL5|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 380 WRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRV--KIK 437
+R Y ++R + N++ S E L +D + LN +++ ++ D + +K
Sbjct: 357 FRANYNALREELAKIPTNLEGYSK---ESLEALDAAKTALNYNLNRNKQAELDTLVANLK 413
Query: 438 KALRGVRVEVTHRGNM 453
AL+G++ VTH G++
Sbjct: 414 AALQGLKPAVTHSGSL 429
>pdb|2YLA|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 380 WRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRV--KIK 437
+R Y ++R + N++ S E L +D + LN +++ ++ D + +K
Sbjct: 357 FRANYNALREELAKIPTNLEGYSK---ESLEALDAAKTALNYNLNRNKQAELDTLVANLK 413
Query: 438 KALRGVRVEVTHRGNM 453
AL+G++ VTH G++
Sbjct: 414 AALQGLKPAVTHSGSL 429
>pdb|2YL9|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 457
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 380 WRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRV--KIK 437
+R Y ++R + N++ S E L +D + LN +++ ++ D + +K
Sbjct: 374 FRANYNALREELAKIPTNLEGYSK---ESLEALDAAKTALNYNLNRNKQAELDTLVANLK 430
Query: 438 KALRGVRVEVTHRGNM 453
AL+G++ VTH G++
Sbjct: 431 AALQGLKPAVTHSGSL 446
>pdb|3TAS|A Chain A, Small Laccase From Streptomyces Viridosporus T7a
pdb|3TAS|B Chain B, Small Laccase From Streptomyces Viridosporus T7a
pdb|3TAS|C Chain C, Small Laccase From Streptomyces Viridosporus T7a
pdb|3TBB|A Chain A, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form.
pdb|3TBB|B Chain B, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form.
pdb|3TBB|C Chain C, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form.
pdb|3TBC|A Chain A, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form Complexed With Acetovanillone.
pdb|3TBC|B Chain B, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form Complexed With Acetovanillone.
pdb|3TBC|C Chain C, Small Laccase From Streptomyces Viridosporus T7a;
Alternate Crystal Form Complexed With Acetovanillone
Length = 313
Score = 29.6 bits (65), Expect = 8.0, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 901 VTFVVVQKRHHTRLFANNHHDRNAVDRSGNIL----PGTVVDSKICHPTE-FDFYLCSHA 955
V FV++ + F + H R A +R+G + P V+D+KIC P + F F + +
Sbjct: 184 VEFVMITHGEYYHTF-HLHGHRWADNRTGMLTGPDDPSQVIDNKICGPADSFGFQVIAGE 242
Query: 956 GIQGTSRPAHYHV 968
G+ + H HV
Sbjct: 243 GVGAGAWMYHCHV 255
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 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,030,882
Number of Sequences: 62578
Number of extensions: 1049491
Number of successful extensions: 2313
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 2254
Number of HSP's gapped (non-prelim): 31
length of query: 990
length of database: 14,973,337
effective HSP length: 108
effective length of query: 882
effective length of database: 8,214,913
effective search space: 7245553266
effective search space used: 7245553266
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)