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= 000607
(1396 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3C4T|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 154 bits (389), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 136/257 (52%), Gaps = 28/257 (10%)
Query: 1154 LESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYPGLS 1213
E +NY F++ + L++A TH SY I YQRLEFLGDA+LDYLIT +LY S
Sbjct: 18 FEKKINYRFKNKAYLLQAFTHASYHYNTITDXYQRLEFLGDAILDYLITKHLYEDPRQHS 77
Query: 1214 PGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSL--GSTFG 1271
PG LTD+RSA VNN +A +VK+ HK+ S EL+ +D F K L G
Sbjct: 78 PGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFH----VIDDFVKFQLEKNEMQG 133
Query: 1272 WES-------------VTSFPKALGDIIESLAGAIFVDSGCNREVVFQSIRPLLEPMITP 1318
+S PKA+GDI ESLAGAI++DSG + EVV+Q P+++P+I
Sbjct: 134 MDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLEVVWQVYYPMMQPLIEK 193
Query: 1319 ETMRF--HPVRELTEY-CQKNHFSMKKPVASRISGKAAVTVEVQANGRLFEHTFLDADKK 1375
+ PVREL E + FS P GK VTVEV G+ + +
Sbjct: 194 FSANVPRSPVRELLEMEPETAKFS---PAERTYDGKVRVTVEVVGKGKF---KGVGRSYR 247
Query: 1376 TAKKVACKEVLKSLRAS 1392
AK A + L+SL+A+
Sbjct: 248 IAKSAAARRALRSLKAN 264
Score = 30.0 bits (66), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 24/132 (18%), Positives = 55/132 (41%), Gaps = 8/132 (6%)
Query: 997 ESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIRTE 1056
+ LE LGD+ L Y ++ L++ + + G+L+ + +++N L + + +
Sbjct: 51 QRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAV 110
Query: 1057 SFDPKMWIIPGD------NSGSYELNDDSLFNGRKIYVTGRKKVKSKTVADVVEALIGAF 1110
S P+++ + D + D L + K + D+ E+L GA
Sbjct: 111 S--PELFHVIDDFVKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAI 168
Query: 1111 LSTGGENVGLIF 1122
G ++ +++
Sbjct: 169 YMDSGMSLEVVW 180
>pdb|3C4B|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 148 bits (374), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 132/257 (51%), Gaps = 28/257 (10%)
Query: 1154 LESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYPGLS 1213
E +NY F++ + L++A TH SY I YQRLEFLGDA+LDYLIT +LY S
Sbjct: 18 FEKKINYRFKNKAYLLQAFTHASYHYNTITDXYQRLEFLGDAILDYLITKHLYEDPRQHS 77
Query: 1214 PGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSL--GSTFG 1271
PG LTD+RSA VNN +A +VK+ HK+ S EL+ +D F K L G
Sbjct: 78 PGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFH----VIDDFVKFQLEKNEXQG 133
Query: 1272 WES-------------VTSFPKALGDIIESLAGAIFVDSGCNREVVFQSIRPLLEPMITP 1318
+S PKA GDI ESLAGAI+ DSG + EVV+Q P +P+I
Sbjct: 134 XDSELRRSEEDEEKEEDIEVPKAXGDIFESLAGAIYXDSGXSLEVVWQVYYPXXQPLIEK 193
Query: 1319 ETMRF--HPVRELTEY-CQKNHFSMKKPVASRISGKAAVTVEVQANGRLFEHTFLDADKK 1375
+ PVREL E + FS P GK VTVEV G+ + +
Sbjct: 194 FSANVPRSPVRELLEXEPETAKFS---PAERTYDGKVRVTVEVVGKGKF---KGVGRSYR 247
Query: 1376 TAKKVACKEVLKSLRAS 1392
AK A + L+SL+A+
Sbjct: 248 IAKSAAARRALRSLKAN 264
Score = 30.4 bits (67), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 24/132 (18%), Positives = 54/132 (40%), Gaps = 8/132 (6%)
Query: 997 ESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIRTE 1056
+ LE LGD+ L Y ++ L++ + + G+L+ + +++N L + + +
Sbjct: 51 QRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAV 110
Query: 1057 SFDPKMWIIPGD------NSGSYELNDDSLFNGRKIYVTGRKKVKSKTVADVVEALIGAF 1110
S P+++ + D + D L + K D+ E+L GA
Sbjct: 111 S--PELFHVIDDFVKFQLEKNEXQGXDSELRRSEEDEEKEEDIEVPKAXGDIFESLAGAI 168
Query: 1111 LSTGGENVGLIF 1122
G ++ +++
Sbjct: 169 YXDSGXSLEVVW 180
>pdb|2EB1|A Chain A, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
pdb|2EB1|B Chain B, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
pdb|2EB1|C Chain C, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
Length = 200
Score = 135 bits (340), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 77/178 (43%), Positives = 102/178 (57%), Gaps = 19/178 (10%)
Query: 1154 LESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYPGLS 1213
E +NY F++ + L++A TH SY I CYQRLEFLGDA+LDYLIT +LY S
Sbjct: 11 FEKKINYRFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAILDYLITKHLYEDPRQHS 70
Query: 1214 PGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSL--GSTFG 1271
PG LTD+RSA VNN +A +VK+ HK+ S EL+ +D F + L G
Sbjct: 71 PGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFH----VIDDFVQFQLEKNEMQG 126
Query: 1272 WES-------------VTSFPKALGDIIESLAGAIFVDSGCNREVVFQSIRPLLEPMI 1316
+S PKA+GDI ESLAGAI++DSG + E V+Q P++ P+I
Sbjct: 127 MDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLETVWQVYYPMMRPLI 184
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 24/125 (19%), Positives = 50/125 (40%), Gaps = 8/125 (6%)
Query: 997 ESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIRTE 1056
+ LE LGD+ L Y ++ L++ + + G+L+ + +++N L + + +
Sbjct: 44 QRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAV 103
Query: 1057 SFDPKMWIIPGD------NSGSYELNDDSLFNGRKIYVTGRKKVKSKTVADVVEALIGAF 1110
S P+++ + D + D L + K + D+ E+L GA
Sbjct: 104 S--PELFHVIDDFVQFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAI 161
Query: 1111 LSTGG 1115
G
Sbjct: 162 YMDSG 166
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 76.6 bits (187), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/149 (30%), Positives = 81/149 (54%), Gaps = 5/149 (3%)
Query: 370 EKIVCLIESLLEY--RGVEDIRCIIFVERVITAIVLQSLLSELLP-RHCTWKTKYI--AG 424
EK+ L +++E R E R IIF + +A L ++E K ++ AG
Sbjct: 381 EKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAG 440
Query: 425 NNSGIQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQ 484
++S + ++ +Q E++ +FR G +N+++AT++ EEGLD++ CN+VI + + +Q
Sbjct: 441 HSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQ 500
Query: 485 SRGRARMQNSDYLLMVKSGDSTTQSRLEN 513
+RGRAR S Y+L+ SG + N
Sbjct: 501 ARGRARADESTYVLVAHSGSGVIERETVN 529
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 50/193 (25%), Positives = 86/193 (44%), Gaps = 35/193 (18%)
Query: 23 RNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXXXXXX 81
R YQ+E + AL+ +N I+ L TG GKT +A+ + + + L +K
Sbjct: 9 RPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDH--LDKKKKASEPGKVIVLVNKV 66
Query: 82 XXXXEAIKMHTDLKVGKYWGDMGV--DFWDGATWKEEMSKHEVLVMTPQILLD------- 132
+ + + K++ +G+ D ++ E + ++++ T QIL +
Sbjct: 67 LLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLEN 126
Query: 133 ----GLRLSYFKLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSN--------- 179
G++LS F L +I+DECHH + Y IM H L++ +N
Sbjct: 127 GEDAGVQLSDFSL-----IIIDECHHTNKEAVYNNIMR---HYLMQKLKNNRLKKENKPV 178
Query: 180 --LPRIFGMTASP 190
LP+I G+TASP
Sbjct: 179 IPLPQILGLTASP 191
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 73.9 bits (180), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 123/504 (24%), Positives = 207/504 (41%), Gaps = 91/504 (18%)
Query: 37 NTIVFLETGSGKTLIAIML----LRSYA---YLLRKPSPXXXXXXXXXXXXXXXXXEAIK 89
N ++ L TG GKTLIA+M+ L Y +L P E I
Sbjct: 25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIV 84
Query: 90 MHTDLKVGKYWGDMGVDFWDGATWKEEMSKHEVLVMTPQILLDGLRLSYFKLNMIKVLIL 149
T G+ + W ++ +V+V TPQ + + L L + +++
Sbjct: 85 ALT----GEKSPEERSKAW---------ARAKVIVATPQTIENDLLAGRISLEDVSLIVF 131
Query: 150 DECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTASPIKSKVSSSEQDYWQKIHDL 209
DE H A G + Y I E+ + + P + G+TASP S+ + + I++L
Sbjct: 132 DEAHRAVGNYAYVFIAREYKRQ------AKNPLVIGLTASP-----GSTPEKIMEVINNL 180
Query: 210 ETLMNSKVYTCASESVLSNFIPFSTAKFKFYK------YDEIPHALYTHLADELAMIELK 263
+ Y + + ++ +F++ + Y E+ L L D A+ L
Sbjct: 181 G--IEHIEYRSENSPDVRPYV--KGIRFEWVRVDLPEIYKEVRKLLREMLRD--ALKPLA 234
Query: 264 HTRSLENLDLNEAQAELIR------KKVSKINSTLLYCLSELGVWLALKAAETISCYESD 317
T LE+ + + E++R ++++K N L L L +ALK I E+
Sbjct: 235 ETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLL--LYHAMALKLHHAIELLETQ 292
Query: 318 FFAWEQLDGFGETIIKKFGSDASQALVTYVPSGAEWSIGDDSKFNLDSGLLTE------- 370
+ L + IKK +A + A I D + LL +
Sbjct: 293 GLS--ALRAY----IKKLYEEAKAG-----STKASKEIFSDKRMKKAISLLVQAKEIGLD 341
Query: 371 -----KIVCLIESLLEYRGVEDIRCIIFVERVITAIVLQSLLSELLPRHCTWKTKYIAG- 424
K+ +I L+ + ++ + I+F TA + +++EL+ K K G
Sbjct: 342 HPKMDKLKEIIREQLQRK--QNSKIIVFTNYRETA---KKIVNELVKDGI--KAKRFVGQ 394
Query: 425 ----NNSGIQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVC 480
N+ G+ S+++Q I++EF RG NV+VATS+ EEGLDV +LV+ ++P +
Sbjct: 395 ASKENDRGL---SQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAI 451
Query: 481 SFIQSRGRA--RMQNSDYLLMVKS 502
IQ RGR M +LM K
Sbjct: 452 RSIQRRGRTGRHMPGRVIILMAKG 475
>pdb|2KOU|A Chain A, Dicer Like Protein
Length = 102
Score = 73.2 bits (178), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 40/94 (42%), Positives = 55/94 (58%), Gaps = 6/94 (6%)
Query: 559 SSVSLIYFYCSRLPSDGYFKPTPKFHIN--KEMG--ICTLYLPNNCPIQTVIAQ--GNIK 612
SS+S++Y YCSRLP D +F+P P+F E G IC + LP N PI + + + +
Sbjct: 5 SSISMMYKYCSRLPHDEFFQPKPEFQFKPVDEFGGTICRITLPANAPISEIESSLLPSTE 64
Query: 613 TLKQAACLEACKKLHQIGALTDNLLPDIVVEKHD 646
K+ ACL+A +LH +G L D LLPD E D
Sbjct: 65 AAKKDACLKAVHELHNLGVLNDFLLPDSKDEIED 98
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease Domain
Ribonuclase Iii (Rnc) From Campylobacter Jejuni
pdb|3N3W|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Nuclease Domain
Ribonuclase Iii (Rnc) From Campylobacter Jejuni
Length = 248
Score = 70.5 bits (171), Expect = 7e-12, Method: Composition-based stats.
Identities = 53/160 (33%), Positives = 81/160 (50%), Gaps = 30/160 (18%)
Query: 1141 FQVHAERLVNVRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCY--QRLEFLGDAVLD 1198
FQ +A + N+ LE L Y F+D +LL+ ALTH S+ + Y +RLEFLGDAVLD
Sbjct: 20 FQSNAMK--NIEKLEQSLTYEFKDKNLLIHALTHKSF-----KKSYNNERLEFLGDAVLD 72
Query: 1199 YLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITV 1258
++ YL++K+ + G L+ +R+A VN +A + L IL + E
Sbjct: 73 LVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAE--------- 123
Query: 1259 DSFEKLSLGSTFGWESVTSFPKALGDIIESLAGAIFVDSG 1298
+ G E P L D +E++ GAI +++G
Sbjct: 124 --------ENNGGKEK----PSILSDALEAIIGAIHLEAG 151
Score = 38.1 bits (87), Expect = 0.037, Method: Composition-based stats.
Identities = 30/129 (23%), Positives = 55/129 (42%), Gaps = 28/129 (21%)
Query: 981 VLEAITTKKCQEDFHLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAAL 1040
++ A+T K ++ ++ E LE LGD+ L + LF + + EG LS + +++ +
Sbjct: 45 LIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSF 104
Query: 1041 CKLGCEQKLPGFIRTESFDPKMWIIPGDNSGSYELNDDSLFNGRKIYVTGRKKVKSKTVA 1100
K+ L FI + + +N+G E K ++
Sbjct: 105 AKIANSLNLGDFI--------LMSVAEENNGGKE--------------------KPSILS 136
Query: 1101 DVVEALIGA 1109
D +EA+IGA
Sbjct: 137 DALEAIIGA 145
>pdb|1YYK|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYK|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYW|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|C Chain C, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|D Chain D, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|2NUE|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUE|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUF|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUF|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUG|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
pdb|2NUG|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
Length = 221
Score = 70.1 bits (170), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 74/150 (49%), Gaps = 30/150 (20%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN 1300
+GD+ E+L A+++DSG +
Sbjct: 105 -----------IGDVFEALWAAVYIDSGRD 123
Score = 31.6 bits (70), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>pdb|3O2R|A Chain A, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
pdb|3O2R|C Chain C, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
Length = 170
Score = 69.7 bits (169), Expect = 1e-11, Method: Composition-based stats.
Identities = 53/160 (33%), Positives = 81/160 (50%), Gaps = 30/160 (18%)
Query: 1141 FQVHAERLVNVRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCY--QRLEFLGDAVLD 1198
FQ +A + N+ LE L Y F+D +LL+ ALTH S+ + Y +RLEFLGDAVLD
Sbjct: 20 FQSNAMK--NIEKLEQSLTYEFKDKNLLIHALTHKSF-----KKSYNNERLEFLGDAVLD 72
Query: 1199 YLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITV 1258
++ YL++K+ + G L+ +R+A VN +A + L IL + E
Sbjct: 73 LVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAE--------- 123
Query: 1259 DSFEKLSLGSTFGWESVTSFPKALGDIIESLAGAIFVDSG 1298
+ G E P L D +E++ GAI +++G
Sbjct: 124 --------ENNGGKEK----PSILSDALEAIIGAIHLEAG 151
Score = 37.7 bits (86), Expect = 0.043, Method: Composition-based stats.
Identities = 30/129 (23%), Positives = 55/129 (42%), Gaps = 28/129 (21%)
Query: 981 VLEAITTKKCQEDFHLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAAL 1040
++ A+T K ++ ++ E LE LGD+ L + LF + + EG LS + +++ +
Sbjct: 45 LIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSF 104
Query: 1041 CKLGCEQKLPGFIRTESFDPKMWIIPGDNSGSYELNDDSLFNGRKIYVTGRKKVKSKTVA 1100
K+ L FI + + +N+G E K ++
Sbjct: 105 AKIANSLNLGDFI--------LMSVAEENNGGKE--------------------KPSILS 136
Query: 1101 DVVEALIGA 1109
D +EA+IGA
Sbjct: 137 DALEAIIGA 145
>pdb|3O2R|B Chain B, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
pdb|3O2R|D Chain D, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
Length = 144
Score = 68.9 bits (167), Expect = 2e-11, Method: Composition-based stats.
Identities = 50/151 (33%), Positives = 76/151 (50%), Gaps = 27/151 (17%)
Query: 1150 NVRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCY--QRLEFLGDAVLDYLITVYLYN 1207
N+ LE L Y F+D +LL+ ALTH S+ + Y +RLEFLGDAVLD ++ YL++
Sbjct: 1 NIEKLEQSLTYEFKDKNLLIHALTHKSFX----KKSYNNERLEFLGDAVLDLVVGEYLFH 56
Query: 1208 KYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLG 1267
K+ + G L+ +R+A VN +A + L IL + E
Sbjct: 57 KFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAE-----------------E 99
Query: 1268 STFGWESVTSFPKALGDIIESLAGAIFVDSG 1298
+ G E P L D +E++ GAI +++G
Sbjct: 100 NNGGKEK----PSILSDALEAIIGAIHLEAG 126
>pdb|1YZ9|A Chain A, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
pdb|1YZ9|B Chain B, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
Length = 221
Score = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 30/150 (20%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN 1300
+GD+ ++L A+++DSG +
Sbjct: 105 -----------IGDVFQALWAAVYIDSGRD 123
Score = 31.6 bits (70), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>pdb|1YYO|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
pdb|1YYO|B Chain B, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
Length = 221
Score = 68.2 bits (165), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 30/150 (20%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN 1300
+GD+ ++L A+++DSG +
Sbjct: 105 -----------IGDVFKALWAAVYIDSGRD 123
Score = 31.6 bits (70), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>pdb|1RC7|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Ds-Rna At 2.15 Angstrom
Resolution
Length = 220
Score = 68.2 bits (165), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 30/150 (20%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN 1300
+GD+ ++L A+++DSG +
Sbjct: 105 -----------IGDVFKALWAAVYIDSGRD 123
Score = 31.6 bits (70), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 68.2 bits (165), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 81/170 (47%), Gaps = 4/170 (2%)
Query: 22 ARNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXXXXX 80
AR+YQ+E + A+ +N ++ TGSGKT ++I++ + +
Sbjct: 8 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 67
Query: 81 XXXXXEAIKMHTDLKVGKYWGDMGVDFWDGATWKEEMSKHEVLVMTPQILLDGLRLSYF- 139
K H + + G G +F + + K + +++V+TPQIL++
Sbjct: 68 YEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKV-IEDSDIIVVTPQILVNSFEDGTLT 126
Query: 140 KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTAS 189
L++ ++I DECH+ G H Y +MT + + + S LP+I G+TAS
Sbjct: 127 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSA-SQLPQILGLTAS 175
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 437 QNEIVEEFRRGLVN-VIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRARMQNSD 495
Q +++ F+ N +++ATS+ +EG+D+ CNLV++++ S V IQ RGR R S
Sbjct: 441 QKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSK 500
Query: 496 YLLMVKSGDSTTQSRLENY 514
+L+ + + Y
Sbjct: 501 CILVTSKTEVVENEKCNRY 519
>pdb|1I4S|A Chain A, Crystal Structure Of Rnase Iii Endonuclease Domain From
Aquifex Aeolicus At 2.15 Angstrom Resolution
pdb|1I4S|B Chain B, Crystal Structure Of Rnase Iii Endonuclease Domain From
Aquifex Aeolicus At 2.15 Angstrom Resolution
Length = 147
Score = 67.8 bits (164), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 79/160 (49%), Gaps = 34/160 (21%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN----REVVFQ 1306
+GD+ E+L A+++DSG + RE+ ++
Sbjct: 105 -----------IGDVFEALWAAVYIDSGRDANFTRELFYK 133
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>pdb|2EZ6|A Chain A, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
pdb|2EZ6|B Chain B, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
Length = 221
Score = 67.8 bits (164), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 30/150 (20%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLG+A++++ I L P
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGNALVNFFIVDLLVQYSP 60
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 104
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN 1300
+GD+ E+L A+++DSG +
Sbjct: 105 -----------IGDVFEALWAAVYIDSGRD 123
>pdb|1JFZ|A Chain A, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|B Chain B, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|C Chain C, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|D Chain D, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1RC5|A Chain A, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|B Chain B, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|C Chain C, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|D Chain D, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
Length = 154
Score = 67.8 bits (164), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 79/160 (49%), Gaps = 34/160 (21%)
Query: 1151 VRHLESLLNYSFRDPSLLVEALTHGSYMLPEIPRCYQRLEFLGDAVLDYLITVYLYNKYP 1210
+ LE L Y+F+D SLL +ALTH SY E Y+ LEFLGDA++++ I L P
Sbjct: 5 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSP 61
Query: 1211 GLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTF 1270
G+L+ +++ ++ + + L + K LHK I +IN T+
Sbjct: 62 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG----KINETI------------ 105
Query: 1271 GWESVTSFPKALGDIIESLAGAIFVDSGCN----REVVFQ 1306
+GD+ E+L A+++DSG + RE+ ++
Sbjct: 106 -----------IGDVFEALWAAVYIDSGRDANFTRELFYK 134
Score = 32.7 bits (73), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%)
Query: 995 HLESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAALCKLGCEQKLPGFIR 1054
H E+LE LGD+ + + L + N EG LS K +IS L + +L FIR
Sbjct: 36 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR 95
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 67.0 bits (162), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 81/170 (47%), Gaps = 4/170 (2%)
Query: 22 ARNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXXXXX 80
AR+YQ+E + A+ +N ++ TGSGKT ++I++ + +
Sbjct: 249 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 308
Query: 81 XXXXXEAIKMHTDLKVGKYWGDMGVDFWDGATWKEEMSKHEVLVMTPQILLDGLRLSYF- 139
K H + + G G +F + ++ + +++V+TPQIL++
Sbjct: 309 YEQQKNVFKHHFERQGYSVQGISGENF-SNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 367
Query: 140 KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTAS 189
L++ ++I DECH+ G H Y +MT + + + S LP+I G+TAS
Sbjct: 368 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSA-SQLPQILGLTAS 416
Score = 50.4 bits (119), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 437 QNEIVEEFRRGLVN-VIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRARMQNSD 495
Q +++ F+ N +++ATS+ +EG+D+ CNLV++++ S V IQ RGR R S
Sbjct: 682 QKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSK 741
Query: 496 YLLMVKSGDSTTQSRLENY 514
+L+ + + Y
Sbjct: 742 CILVTSKTEVVENEKCNRY 760
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 67.0 bits (162), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 81/170 (47%), Gaps = 4/170 (2%)
Query: 22 ARNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXXXXX 80
AR+YQ+E + A+ +N ++ TGSGKT ++I++ + +
Sbjct: 249 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 308
Query: 81 XXXXXEAIKMHTDLKVGKYWGDMGVDFWDGATWKEEMSKHEVLVMTPQILLDGLRLSYF- 139
K H + + G G +F + ++ + +++V+TPQIL++
Sbjct: 309 YEQQKNVFKHHFERQGYSVQGISGENF-SNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 367
Query: 140 KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTAS 189
L++ ++I DECH+ G H Y +MT + + + S LP+I G+TAS
Sbjct: 368 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSA-SQLPQILGLTAS 416
Score = 50.1 bits (118), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 437 QNEIVEEFRRGLVN-VIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRARMQNSD 495
Q +++ F+ N +++ATS+ +EG+D+ CNLV++++ S V IQ RGR R S
Sbjct: 682 QKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSK 741
Query: 496 YLLMVKSGDSTTQSRLENY 514
+L+ + + Y
Sbjct: 742 CILVTSKTEVVENEKCNRY 760
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 63.9 bits (154), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 56/189 (29%), Positives = 89/189 (47%), Gaps = 20/189 (10%)
Query: 13 EVSADTL--PFA-RNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSP 68
EVS L PF RNYQLE A+K +NTI+ TG GKT +++++ + K P
Sbjct: 2 EVSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHL----KKFP 57
Query: 69 XXXXXXXXXXXXXXXXXEAIKMHTDLKVGKYWGDMG--VDFWDGATWK-----EEMSKHE 121
E K KY+ G V GAT + + + ++
Sbjct: 58 QGQKGKVVFFANQIPVYEQNKS----VFSKYFERHGYRVTGISGATAENVPVEQIVENND 113
Query: 122 VLVMTPQILLDGLRLSYF-KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNL 180
++++TPQIL++ L+ L++ ++I DECH+ +H Y IM + + L L
Sbjct: 114 IIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPL 173
Query: 181 PRIFGMTAS 189
P++ G+TAS
Sbjct: 174 PQVIGLTAS 182
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 75/145 (51%), Gaps = 13/145 (8%)
Query: 407 LSELLPRHCTWKTKYIAGNNSGIQCQSRKKQNEIVEEFR-RGLVNVIVATSILEEGLDVQ 465
LS L P T + K N+G+ ++K I++ F+ G N+++ATS+ +EG+D+
Sbjct: 424 LSFLKPGILTGRGK--TNQNTGMTLPAQKC---ILDAFKASGDHNILIATSVADEGIDIA 478
Query: 466 SCNLVIMFDPSRTVCSFIQSRGRARMQNSDYLLMVKSGDSTTQSRLENYLASGNKMRKEV 525
CNLVI+++ V IQ+RGR R + S L+ + + ++ Y ++++
Sbjct: 479 QCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMY-------KEKM 531
Query: 526 LSHASLPCSPLNNHMYGEDFYHVES 550
++ + L + ++ E H+++
Sbjct: 532 MNDSILRLQTWDEAVFREKILHIQT 556
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 63.5 bits (153), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 85/180 (47%), Gaps = 18/180 (10%)
Query: 20 PFA-RNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXX 77
PF RNYQLE A+K +NTI+ TG GKT +++++ + K P
Sbjct: 10 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHL----KKFPQGQKGKVVF 65
Query: 78 XXXXXXXXEAIKMHTDLKVGKYWGDMG--VDFWDGATWK-----EEMSKHEVLVMTPQIL 130
E K KY+ G V GAT + + + ++++++TPQIL
Sbjct: 66 FANQIPVYEQQKS----VFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQIL 121
Query: 131 LDGLRLSYF-KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTAS 189
++ L+ L++ ++I DECH+ +H Y IM + + L LP++ G+TAS
Sbjct: 122 VNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTAS 181
Score = 55.8 bits (133), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 75/145 (51%), Gaps = 13/145 (8%)
Query: 407 LSELLPRHCTWKTKYIAGNNSGIQCQSRKKQNEIVEEFR-RGLVNVIVATSILEEGLDVQ 465
LS L P T + K N+G+ ++K I++ F+ G N+++ATS+ +EG+D+
Sbjct: 423 LSFLKPGILTGRGK--TNQNTGMTLPAQKC---ILDAFKASGDHNILIATSVADEGIDIA 477
Query: 466 SCNLVIMFDPSRTVCSFIQSRGRARMQNSDYLLMVKSGDSTTQSRLENYLASGNKMRKEV 525
CNLVI+++ V IQ+RGR R + S L+ + + ++ Y ++++
Sbjct: 478 QCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMY-------KEKM 530
Query: 526 LSHASLPCSPLNNHMYGEDFYHVES 550
++ + L + ++ E H+++
Sbjct: 531 MNDSILRLQTWDEAVFREKILHIQT 555
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 63.2 bits (152), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 85/180 (47%), Gaps = 18/180 (10%)
Query: 20 PFA-RNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXX 77
PF RNYQLE A+K +NTI+ TG GKT +++++ + K P
Sbjct: 2 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHL----KKFPQGQKGKVVF 57
Query: 78 XXXXXXXXEAIKMHTDLKVGKYWGDMG--VDFWDGATWK-----EEMSKHEVLVMTPQIL 130
E K KY+ G V GAT + + + ++++++TPQIL
Sbjct: 58 FANQIPVYEQNKS----VFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQIL 113
Query: 131 LDGLRLSYF-KLNMIKVLILDECHHARGKHQYACIMTEFYHRLLETGDSNLPRIFGMTAS 189
++ L+ L++ ++I DECH+ +H Y IM + + L LP++ G+TAS
Sbjct: 114 VNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTAS 173
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 75/145 (51%), Gaps = 13/145 (8%)
Query: 407 LSELLPRHCTWKTKYIAGNNSGIQCQSRKKQNEIVEEFR-RGLVNVIVATSILEEGLDVQ 465
LS L P T + K N+G+ ++K I++ F+ G N+++ATS+ +EG+D+
Sbjct: 415 LSFLKPGILTGRGK--TNQNTGMTLPAQKC---ILDAFKASGDHNILIATSVADEGIDIA 469
Query: 466 SCNLVIMFDPSRTVCSFIQSRGRARMQNSDYLLMVKSGDSTTQSRLENYLASGNKMRKEV 525
CNLVI+++ V IQ+RGR R + S L+ + + ++ Y ++++
Sbjct: 470 QCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMY-------KEKM 522
Query: 526 LSHASLPCSPLNNHMYGEDFYHVES 550
++ + L + ++ E H+++
Sbjct: 523 MNDSILRLQTWDEAVFREKILHIQT 547
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 61.2 bits (147), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 62/114 (54%), Gaps = 8/114 (7%)
Query: 437 QNEIVEEFR-RGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRARMQNSD 495
Q ++E FR G N+++ATS+ +EG+D+ CNLVI+++ V IQ+RGR R ++S
Sbjct: 440 QKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSK 499
Query: 496 YLLMVKSGDSTTQSRLENYLASGNKMRKEVLSHASLPCSPLNNHMYGEDFYHVE 549
L+ S D + + N +++++ + + L + +G+ + ++
Sbjct: 500 CFLLTSSADVIEKEK-------ANXIKEKIXNESILRLQTWDEXKFGKTVHRIQ 546
Score = 57.8 bits (138), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 50/177 (28%), Positives = 82/177 (46%), Gaps = 19/177 (10%)
Query: 23 RNYQLE-ALENALKQNTIVFLETGSGKTLIAIMLLRSYAYLLRKPSPXXXXXXXXXXXXX 81
RNYQLE AL +NTI+ TG GKT +++++ + L + P
Sbjct: 6 RNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHH--LKKFPCGQKGKVVFFANQIP 63
Query: 82 XXXXEAIKMHTDLKVGKYWGDMGVDFWD--GATWKEEMSKH-----EVLVMTPQILLDGL 134
+A +Y+ +G + GAT +H +++++TPQIL++ L
Sbjct: 64 VYEQQATVF------SRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNL 117
Query: 135 RLSYF-KLNMIKVLILDECHHARGKHQYACIMTEFY-HRLLETGDSNLPRIFGMTAS 189
L++ + I DECH+ H Y I + H+L E+ D LP++ G+TAS
Sbjct: 118 NNGAIPSLSVFTLXIFDECHNTSKNHPYNQIXFRYLDHKLGESRDP-LPQVVGLTAS 173
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
pdb|1O0W|B Chain B, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
Length = 252
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 71/258 (27%), Positives = 110/258 (42%), Gaps = 39/258 (15%)
Query: 1145 AERLVNVRHLESLLNYSFRDPSLLVEALTHGSYMLPEIP------RCYQRLEFLGDAVLD 1198
+ER + V + +F++ LL AL H SY + ++LEFLGDAVL+
Sbjct: 16 SERKI-VEEFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLE 74
Query: 1199 YLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILHASHELYKRINITV 1258
+ LY KYP G L ++SA+ + + A+ S K L K + E
Sbjct: 75 LFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLFLGKGE--------- 125
Query: 1259 DSFEKLSLGSTFGWESVTSFPKALGDIIESLAGAIFVDSGCN--REVVFQSIRPLLEPMI 1316
EK T G + L D E+L AI++D G +E+ Q +E ++
Sbjct: 126 ---EK-----TGGRDR----DSILADAFEALLAAIYLDQGYEKIKELFEQEFEFYIEKIM 173
Query: 1317 TPETMRFHPVRELTEYCQKNHFSMKKPVASRIS---GKAAVTVEVQANGRLFE----HTF 1369
E M F L E Q H + + R G VEV+ NG+ T
Sbjct: 174 KGE-MLFDYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTK 232
Query: 1370 LDADKKTAKKVACKEVLK 1387
+A+K+ A ++A +++LK
Sbjct: 233 KEAEKEAA-RIAYEKLLK 249
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii From
Mycobacterium Tuberculosis
Length = 242
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 55/155 (35%), Positives = 73/155 (47%), Gaps = 23/155 (14%)
Query: 1167 LLVEALTHGSYMLPE--IPRCYQRLEFLGDAVLDYLITVYLYNKYPGLSPGYLTDMRSAS 1224
LL ALTH SY +P +RLEFLGDAVL IT L++++P S G L +R++
Sbjct: 22 LLSLALTHRSYAYENGGLP-TNERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKLRASV 80
Query: 1225 VNNDCYALSSVKHGLHKHILHASHELYKRINITVDSFEKLSLGSTFGWESVTSFPKALGD 1284
VN AL+ V L L H L R +K S+ L D
Sbjct: 81 VNTQ--ALADVARRLCAEGL-GVHVLLGRGEANTGGADKSSI---------------LAD 122
Query: 1285 IIESLAGAIFVDSGCN--REVVFQSIRPLLEPMIT 1317
+ESL GAI++ G REV+ + PLL+ T
Sbjct: 123 GMESLLGAIYLQHGMEKAREVILRLFGPLLDAAPT 157
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 55.8 bits (133), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 63/109 (57%), Gaps = 5/109 (4%)
Query: 370 EKIVCLIESLLEY--RGVEDIRCIIFVERVITAIVLQSLLSELLP-RHCTWKTKYI--AG 424
EK+ L ++ E+ R E R IIF + +A L +++ K ++ AG
Sbjct: 131 EKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAG 190
Query: 425 NNSGIQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMF 473
++S + ++ +Q E++ +FR G +N+++AT++ EEGLD++ CN+VI +
Sbjct: 191 HSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 58/212 (27%), Positives = 95/212 (44%), Gaps = 34/212 (16%)
Query: 5 SMESDTTEE-VSADTLPFA----RNYQLEALENALK-QNTIVFLETGSGKTLIAIMLLRS 58
+M SD+ EE V+A P R YQ+E + AL+ +N I+ L TGSGKT +A+ + +
Sbjct: 12 TMGSDSDEENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKD 71
Query: 59 YAYLLRKPSPXXXXXXXXXXXXXXXXXEAIKMHTDLKVGKYWGDMGV--DFWDGATWKEE 116
+ +K S + LK K++ +G+ D ++ E
Sbjct: 72 HLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLK--KWYRVIGLSGDTQLKISFPEV 129
Query: 117 MSKHEVLVMTPQILLD-----------GLRLSYFKLNMIKVLILDECHHARGKHQYACIM 165
+ ++++ T QIL + G++LS F L +I+DECHH + Y IM
Sbjct: 130 VKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSL-----IIIDECHHTNKEAVYNNIM 184
Query: 166 TEFYHRLLETGDSN--------LPRIFGMTAS 189
+ + L+ LP+I G+TAS
Sbjct: 185 RHYLMQKLKNNRLKKENKPVIPLPQILGLTAS 216
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 47.8 bits (112), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 38/56 (67%)
Query: 434 RKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRA 489
++++N++ EFR+G V +V + +L G+D+Q+ N+VI FD +T +++ GR+
Sbjct: 294 QQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRS 349
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 46.6 bits (109), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR 488
SR+++ EI+E FR G IV++ +L+EG+DV N+ ++ S + +IQ GR
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR 488
SR+++ EI+E FR G IV++ +L+EG+DV N+ ++ S + +IQ GR
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 35/129 (27%), Positives = 58/129 (44%), Gaps = 22/129 (17%)
Query: 386 EDIRCIIFVERVITAIVLQSLLSELLPRHCTWKTKYIAGNNSGIQCQSRKKQNEIVEEFR 445
E R I+FV + L + L E +C + + + G K+NE ++
Sbjct: 29 EATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQG-----------KRNEAIKRLT 77
Query: 446 RGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR-AR----------MQNS 494
G VNV+VAT + G+D+ + V FD R+ +++ GR AR ++
Sbjct: 78 EGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAH 137
Query: 495 DYLLMVKSG 503
D+LL+ K G
Sbjct: 138 DHLLLGKVG 146
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 55/105 (52%), Gaps = 12/105 (11%)
Query: 391 IIFVERVITAIVLQSLLSELLPRHCTWKTKYIAGNNSGIQCQSRKKQNEIVEEFRRGLVN 450
I+FVE A L S LSE + T I G+ + QS+++Q + +F+ G +
Sbjct: 304 IVFVETKRGADFLASFLSEK-----EFPTTSIHGD----RLQSQREQA--LRDFKNGSMK 352
Query: 451 VIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR-ARMQNS 494
V++ATS+ GLD+++ VI +D + ++ GR R+ N+
Sbjct: 353 VLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNN 397
>pdb|3RV0|A Chain A, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|B Chain B, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|C Chain C, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|D Chain D, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
Length = 341
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 29/42 (69%)
Query: 1187 QRLEFLGDAVLDYLITVYLYNKYPGLSPGYLTDMRSASVNND 1228
+RLEFLGD+ L L++ +Y ++P + G L+ M+ + VNN+
Sbjct: 130 ERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNN 171
Score = 36.6 bits (83), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 997 ESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAAL----CKLGCEQKLPGF 1052
E LE LGDS+L S ++ + + +EG+LS KE I++N L KL ++L G
Sbjct: 130 ERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQGN 189
Query: 1053 IRT 1055
I T
Sbjct: 190 IAT 192
>pdb|3RV1|A Chain A, Crystal Structure Of The N-Terminal And Rnase Iii Domains Of
K. Polysporus Dcr1 E224q Mutant
pdb|3RV1|B Chain B, Crystal Structure Of The N-Terminal And Rnase Iii Domains Of
K. Polysporus Dcr1 E224q Mutant
Length = 246
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 1187 QRLEFLGDAVLDYLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHI 1243
+RLEFLGD+ L L++ +Y ++P + G L+ M+ + VNN+ S K K +
Sbjct: 130 ERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL 186
Score = 37.0 bits (84), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 997 ESLETLGDSFLKYAASQQLFKTYQNNHEGLLSVKKERIISNAAL----CKLGCEQKLPGF 1052
E LE LGDS+L S ++ + + +EG+LS KE I++N L KL ++L G
Sbjct: 130 ERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQGN 189
Query: 1053 IRT 1055
I T
Sbjct: 190 IAT 192
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 33/56 (58%)
Query: 434 RKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRA 489
++ +N + +FR GL +V T + G+D+Q+ N+VI FD + +++ GR+
Sbjct: 80 QEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRS 135
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 511 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 570
Query: 494 SDYLLMVKSGDSTTQS 509
+ +++M D+ T+S
Sbjct: 571 NGHVIMY--ADTITKS 584
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 486 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
Query: 494 SDYLLMVKSGDSTTQS 509
+ +++M D+ T+S
Sbjct: 546 NGHVIMY--ADTITKS 559
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 485 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 544
Query: 494 SDYLLMVKSGDSTTQS 509
+ +++M D+ T+S
Sbjct: 545 NGHVIMY--ADTITKS 558
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 486 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
Query: 494 SDYLLMVKSGDSTTQS 509
+ +++M D+ T+S
Sbjct: 546 NGHVIMY--ADTITKS 559
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 486 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
Query: 494 SDYLLMVKSGDSTTQS 509
+ +++M D+ T+S
Sbjct: 546 NGHVIMY--ADTITKS 559
>pdb|2FFL|A Chain A, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|B Chain B, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|C Chain C, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|D Chain D, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2QVW|A Chain A, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|B Chain B, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|C Chain C, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|D Chain D, Structure Of Giardia Dicer Refined Against Twinned Data
Length = 756
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 57/138 (41%), Gaps = 25/138 (18%)
Query: 1183 PRCYQRLEFLGDAVLDYLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKH 1242
P YQ+LE LGDA L + ++L+ +P L+ G LT MR ++ N SV L K
Sbjct: 644 PHVYQKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETN------SVLGRLTKR 697
Query: 1243 ILHASHELYKRINITVDSFEKLSLGSTFGWESVTSFPKALGDIIESLAGAIFVDSGCNRE 1302
E + ++S K+ S K GD E++ AI + C E
Sbjct: 698 FPSVVSE------VIIESHPKIQPDS-----------KVYGDTFEAILAAILL--ACGEE 738
Query: 1303 VVFQSIRPLLEPMITPET 1320
+R + P + +
Sbjct: 739 AAGAFVREHVLPQVVADA 756
Score = 40.8 bits (94), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 1186 YQRLEFLGDAVLDYLITVYLYNKYPGLSPGYLTDMRSASVNNDCYALSSVKHGLHKHILH 1245
+QRLE LGDAVL +++T L +P S G L +++ V N+ GL +
Sbjct: 334 FQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGL-PQLAE 392
Query: 1246 ASHELYKRINITVDSFEKLSLGSTF 1270
S+ L + D +E++ +GS F
Sbjct: 393 FSNNLVAKSKTWADMYEEI-VGSIF 416
Score = 33.5 bits (75), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 831 TCKIHNSLVCTPH-NGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDR 889
+ +H +V TP + +Y + G+ + S FTR N S+ TY ++Y + I L
Sbjct: 153 SASLHGRMVATPEISWSLYVVLGIDSTQTSLSYFTRANESI-TYMRYYATAHNIHLRAAD 211
Query: 890 EPLLNGRRIFHVQNY 904
PL+ R+ ++++
Sbjct: 212 LPLVAAVRLDDLKDH 226
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 63/135 (46%), Gaps = 21/135 (15%)
Query: 368 LTEKIVCLIES--------LLEYRGVEDIRCIIFVERVITAIVLQSLLSELLPRHCTWKT 419
+T+K+V + ES LL G +D ++FVE A L+ L H +
Sbjct: 20 ITQKVVWVEESDKRSFLLDLLNATG-KDSLTLVFVETKKGADSLEDFL-----YHEGYAC 73
Query: 420 KYIAGNNSGIQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTV 479
I G+ +S++ + E + +FR G ++VAT++ GLD+ + VI FD +
Sbjct: 74 TSIHGD------RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI 127
Query: 480 CSFIQSRGR-ARMQN 493
++ GR R+ N
Sbjct: 128 EEYVHRIGRTGRVGN 142
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 60/129 (46%), Gaps = 20/129 (15%)
Query: 368 LTEKIVCLIES--------LLEYRGVEDIRCIIFVERVITAIVLQSLLSELLPRHCTWKT 419
+T+K+V + ES LL G +D ++FVE A L+ L H +
Sbjct: 250 ITQKVVWVEESDKRSFLLDLLNATG-KDSLTLVFVETKKGADSLEDFLY-----HEGYAC 303
Query: 420 KYIAGNNSGIQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTV 479
I G+ +S++ + E + +FR G ++VAT++ GLD+ + VI FD +
Sbjct: 304 TSIHGD------RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI 357
Query: 480 CSFIQSRGR 488
++ GR
Sbjct: 358 EEYVHRIGR 366
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 492 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 551
Query: 494 SDYLLMVKSGDSTTQS 509
++M D T+S
Sbjct: 552 EGRVIMY--ADKITKS 565
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 7/76 (9%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGRARMQN 493
EI+ + R G +V+V ++L EGLD+ +LV + D R+ S IQ+ GRA
Sbjct: 486 EIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
Query: 494 SDYLLMVKSGDSTTQS 509
++M D T+S
Sbjct: 546 EGRVIMY--ADKITKS 559
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + + + +K+++ I+ EFR G V++ T +L G+DVQ +
Sbjct: 291 RKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVS 350
Query: 469 LVIMFD 474
LVI +D
Sbjct: 351 LVINYD 356
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSR-TVCSFIQSRGRA 489
S+++++ ++ EF G +++V+T+++E G+DV N++++ +P R + Q RGR
Sbjct: 624 SQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRV 681
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + + + +K+++ I+ EFR G V++ T +L G+DVQ +
Sbjct: 265 RKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVS 324
Query: 469 LVIMFD 474
LVI +D
Sbjct: 325 LVINYD 330
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 38.1 bits (87), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 30/41 (73%)
Query: 434 RKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+++++ I++EFR G ++++T +L G+DVQ +LVI +D
Sbjct: 296 QQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYD 336
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 38.1 bits (87), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 30/41 (73%)
Query: 434 RKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+++++ I++EFR G ++++T +L G+DVQ +LVI +D
Sbjct: 66 QQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYD 106
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 37.7 bits (86), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 49/100 (49%), Gaps = 18/100 (18%)
Query: 379 LLEYRGVEDI-RCIIFVERVITAIVLQSLLSELLPRHCTWKTKYIA---GNNSGIQCQSR 434
L+E G+ I + IIF ++ TA E + R T +A GN G Q
Sbjct: 348 LVELYGLLTIGQSIIFCKKKDTA--------EEIARRMTADGHTVACLTGNLEGAQ---- 395
Query: 435 KKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++ I++ FR G V+V T+++ G+DV NLV+ +D
Sbjct: 396 --RDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYD 433
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 37.7 bits (86), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 29/41 (70%)
Query: 434 RKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+++++ I +EFR G ++++T +L G+DVQ +LVI +D
Sbjct: 295 QQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYD 335
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 37.4 bits (85), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 251 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 310
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 311 LIINYDLPNNRELYIHRIGRS 331
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 37.4 bits (85), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 266 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 325
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 326 LIINYDLPNNRELYIHRIGRS 346
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 37.4 bits (85), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 288 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 347
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 348 LIINYDLPNNRELYIHRIGRS 368
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 37.4 bits (85), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 251 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 310
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 311 LIINYDLPNNRELYIHRIGRS 331
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 37.4 bits (85), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 287 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 346
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 347 LIINYDLPNNRELYIHRIGRS 367
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 37.4 bits (85), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 413 RHCTWKTKYIAGNNSGIQCQ----SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCN 468
R W T+ + N + +K++ I++EFR G V+++T + GLDV +
Sbjct: 288 RKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVS 347
Query: 469 LVIMFDPSRTVCSFIQSRGRA 489
L+I +D +I GR+
Sbjct: 348 LIINYDLPNNRELYIHRIGRS 368
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 37.0 bits (84), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 30/50 (60%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR 488
+++ EF+RG +VAT + G+D+++ +LVI +D S++ GR
Sbjct: 76 DVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 36.6 bits (83), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 33/57 (57%)
Query: 432 QSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR 488
+ ++++ + +E FR G +V+VAT + +GLD + VI +D + +++ GR
Sbjct: 88 KDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGR 144
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 35.8 bits (81), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 70/159 (44%), Gaps = 23/159 (14%)
Query: 436 KQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGR-A 489
K+ ++ + R G + +V ++L EGLD+ +LV + D R+ S IQ+ GR A
Sbjct: 478 KRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA 537
Query: 490 RMQNSDYLL--------MVKSGDSTTQSRL--ENY-LASG---NKMRKE---VLSHASLP 532
R + L M ++ + T + R E Y L G +RKE V+
Sbjct: 538 RNARGEVWLYADRVSEAMQRAIEETNRRRALQEAYNLEHGITPETVRKEVRAVIRPEGYE 597
Query: 533 CSPLNNHMYGEDFYHVESTGTIATLSSSVSLIYFYCSRL 571
+PL + GED + +A ++ +L + +RL
Sbjct: 598 EAPLEADLSGEDLRERIAELELAMWQAAEALDFERAARL 636
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 35.8 bits (81), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 70/159 (44%), Gaps = 23/159 (14%)
Query: 436 KQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPS-----RTVCSFIQSRGR-A 489
K+ ++ + R G + +V ++L EGLD+ +LV + D R+ S IQ+ GR A
Sbjct: 477 KRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA 536
Query: 490 RMQNSDYLL--------MVKSGDSTTQSRL--ENY-LASG---NKMRKE---VLSHASLP 532
R + L M ++ + T + R E Y L G +RKE V+
Sbjct: 537 RNARGEVWLYADRVSEAMQRAIEETNRRRALQEAYNLEHGITPETVRKEVRAVIRPEGYE 596
Query: 533 CSPLNNHMYGEDFYHVESTGTIATLSSSVSLIYFYCSRL 571
+PL + GED + +A ++ +L + +RL
Sbjct: 597 EAPLEADLSGEDLRERIAELELAMWQAAEALDFERAARL 635
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 35.8 bits (81), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 429 IQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+Q Q R + ++++FR G V++ T++L G+D+ + ++V+ +D
Sbjct: 277 LQTQER---DRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYD 319
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 35.8 bits (81), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 429 IQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+Q Q R + ++++FR G V++ T++L G+D+ + ++V+ +D
Sbjct: 277 LQTQER---DRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYD 319
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 35.8 bits (81), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRA 489
++ E+F+R + ++VAT G++ + V+ FD R + S+ Q GRA
Sbjct: 277 DVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRA 327
>pdb|3O7X|A Chain A, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|B Chain B, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|C Chain C, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|D Chain D, Crystal Structure Of Human Hili Paz Domain
Length = 140
Score = 35.8 bits (81), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%)
Query: 830 CTCKIHNSLVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDR 889
CT + ++V T +N + Y I V + FT ++G T+ ++Y + YGI + +
Sbjct: 24 CTKLLVGNIVITRYNNRTYRIDDVDWNKTPKDSFTMSDGKEITFLEYYSKNYGITVKEED 83
Query: 890 EPLLNGR 896
+PLL R
Sbjct: 84 QPLLIHR 90
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 35.4 bits (80), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 429 IQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+Q Q R + ++++FR G V++ T++L G+D+ + ++V+ +D
Sbjct: 69 LQTQERDR---LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYD 111
>pdb|3QIR|A Chain A, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|B Chain B, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|C Chain C, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|D Chain D, Crystal Structure Of Piwil2 Paz Domain
Length = 148
Score = 35.4 bits (80), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%)
Query: 830 CTCKIHNSLVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDR 889
CT + ++V T +N + Y I V + FT ++G T+ ++Y + YGI + +
Sbjct: 24 CTKLLVGNIVITRYNNRTYRIDDVDWNKTPKDSFTMSDGKEITFLEYYSKNYGITVKEED 83
Query: 890 EPLLNGR 896
+PLL R
Sbjct: 84 QPLLIHR 90
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 35.4 bits (80), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 440 IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++E FR G V+V T++ G+DV+ ++VI FD
Sbjct: 375 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 409
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 35.0 bits (79), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 440 IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++E FR G V+V T++ G+DV+ ++VI FD
Sbjct: 324 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 358
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 35.0 bits (79), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%)
Query: 439 EIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGRA 489
++ E+F+R + ++VAT G++ + V+ FD R + S+ Q GRA
Sbjct: 277 DVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRA 327
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 35.0 bits (79), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 440 IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++E FR G V+V T++ G+DV+ ++VI FD
Sbjct: 308 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 342
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 35.0 bits (79), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 440 IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++E FR G V+V T++ G+DV+ ++VI FD
Sbjct: 345 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 379
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 35.0 bits (79), Expect = 0.33, Method: Composition-based stats.
Identities = 27/97 (27%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 379 LLEYRGVEDI-RCIIFVERVITAIVLQSLLSELLPRHCTWKTKYIAGNNSGIQCQSRKKQ 437
L E GV I IIFV TA VL L + ++ + +Q Q R +
Sbjct: 27 LTELYGVXTIGSSIIFVATKKTANVLYGKLKS--------EGHEVSILHGDLQTQERDR- 77
Query: 438 NEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
++++FR G V++ T++L G+D+ + + V+ +D
Sbjct: 78 --LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYD 112
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 34.3 bits (77), Expect = 0.49, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 429 IQCQSRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
+Q Q R + ++++FR G V++ T++L G+D+ + + V+ +D
Sbjct: 71 LQTQERDR---LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYD 113
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 33.9 bits (76), Expect = 0.70, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 26/41 (63%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMF 473
S+ ++ ++ FR+G V V+VAT + GLD+ +LV+ +
Sbjct: 66 SQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 106
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 33.9 bits (76), Expect = 0.72, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 26/41 (63%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMF 473
S+ ++ ++ FR+G V V+VAT + GLD+ +LV+ +
Sbjct: 63 SQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 103
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 33.1 bits (74), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 437 QNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR-ARM 491
+N ++ FR G ++++ T + GLD+ VI FD + + ++I GR RM
Sbjct: 255 RNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRM 310
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 45/88 (51%), Gaps = 7/88 (7%)
Query: 432 QSRKKQNE-IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSR-TVCSFIQSRGR- 488
Q R+++ E ++ +F NV+V T+I+E G+D+ + N +I+ + Q RGR
Sbjct: 847 QMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRV 906
Query: 489 ARMQNSDYLLMV----KSGDSTTQSRLE 512
R + Y ++ K+ + Q RLE
Sbjct: 907 GRSHHQAYAWLLTPHPKAMTTDAQKRLE 934
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 22/35 (62%)
Query: 440 IVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFD 474
I++ FR G V++ T++ G+DV+ +V+ FD
Sbjct: 76 IIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFD 110
>pdb|1QN0|A Chain A, Solution Structure Of Desulfovibrio Gigas Ferrocytochrome
C3, Nmr, 20 Structures
pdb|1QN1|A Chain A, Solution Structure Of Desulfovibrio Gigas Ferricytochrome
C3, Nmr, 15 Structures
Length = 112
Score = 31.6 bits (70), Expect = 2.9, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 150 DECHHARGKHQYACIMTEFYHRLLETGDSNL 180
D+CHH G QYA T+ H +L+ D ++
Sbjct: 35 DDCHHQPGDKQYAGCTTDGCHNILDKADKSV 65
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 31.2 bits (69), Expect = 3.7, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 30/56 (53%)
Query: 433 SRKKQNEIVEEFRRGLVNVIVATSILEEGLDVQSCNLVIMFDPSRTVCSFIQSRGR 488
S+ ++ +++ F++ + +++AT + G+DV N VI + + S+ GR
Sbjct: 273 SQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGR 328
>pdb|1WAD|A Chain A, Cytochrome C3 With 4 Heme Groups And One Calcium Ion
Length = 112
Score = 31.2 bits (69), Expect = 3.8, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 150 DECHHARGKHQYACIMTEFYHRLLETGDSNL 180
D+CHH G QYA T+ H +L+ D ++
Sbjct: 35 DDCHHDPGDKQYAGCTTDGCHNILDKADKSV 65
>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 = 4.5, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 838 LVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDREPLL 893
+V T +N + Y + + N S F + +GS ++ ++Y ++Y ++ ++P+L
Sbjct: 33 IVLTKYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEITDLKQPVL 88
>pdb|2HB6|A Chain A, Structure Of Caenorhabditis Elegans Leucine Aminopeptidase
(Lap1)
pdb|2HB6|B Chain B, Structure Of Caenorhabditis Elegans Leucine Aminopeptidase
(Lap1)
pdb|2HC9|A Chain A, Structure Of Caenorhabditis Elegans Leucine
Aminopeptidase-Zinc Complex (Lap1)
Length = 491
Score = 30.8 bits (68), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 7/83 (8%)
Query: 646 DAQKRGNEPYNAEHPIYFPPELVNQSPQDTKITYHCYLIELKQHFNYDIS-ARNIV-LAM 703
DA RGN P NA H IY + +N P+DTK + E ++ + AR +M
Sbjct: 79 DASSRGNTPTNA-HSIYKELKPINY-PEDTKNVHFVLFAEYPDVLSHVAAIARTFCKFSM 136
Query: 704 RTELESEIKKVNFDLEVERGRLT 726
+T S I+++N +++V +LT
Sbjct: 137 KT---SGIRELNVNIDVVCDKLT 156
>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 = 30.8 bits (68), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 838 LVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDREPLL 893
+V T +N + Y + + N S F + +GS ++ ++Y ++Y ++ ++P+L
Sbjct: 32 VVLTKYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEITDLKQPVL 87
>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 = 30.8 bits (68), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 838 LVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDREPLL 893
+V T +N + Y + + N S F + +GS ++ ++Y ++Y ++ ++P+L
Sbjct: 32 VVLTKYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEITDLKQPVL 87
>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 = 30.4 bits (67), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 838 LVCTPHNGQIYCITGVLGHLNANSLFTRNNGSVTTYKKHYEERYGIQLCFDREPLL 893
+V T +N + Y + + N S F + +GS ++ ++Y ++Y ++ ++P+L
Sbjct: 42 VVLTKYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEITDLKQPVL 97
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.136 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,578,664
Number of Sequences: 62578
Number of extensions: 1617877
Number of successful extensions: 3389
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 86
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 3209
Number of HSP's gapped (non-prelim): 151
length of query: 1396
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1285
effective length of database: 8,027,179
effective search space: 10314925015
effective search space used: 10314925015
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: 58 (26.9 bits)