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= 041023
(303 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 = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 73/252 (28%), Positives = 123/252 (48%), Gaps = 34/252 (13%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFS--YERLEYVGDSVLNLLLTKEQFFLYPNLPP 128
E+ + YRF NK L +AFT S + Y+RLE++GD++L+ L+TK + P
Sbjct: 19 EKKINYRFKNKAYLLQAFTHASYHYNTITDXYQRLEFLGDAILDYLITKHLYEDPRQHSP 78
Query: 129 GSLTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGL--- 185
G LT LRSA VN A +A+K HKY + P L I +F + + L N +
Sbjct: 79 GVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDF----VKFQLEKNEMQGM 134
Query: 186 ----------------VDAPKVLADIVESTIGAVFIDCNSSIDIVWKVFKELLKPMIS-- 227
++ PK + DI ES GA+++D S+++VW+V+ +++P+I
Sbjct: 135 DSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLEVVWQVYYPMMQPLIEKF 194
Query: 228 PETLKTHPVTELYEVCQKNKLKVKFVDLWKESTAFHIFIEDQLLGRGAY---APKKEIAH 284
+ PV EL E+ + KF + + + +++G+G + IA
Sbjct: 195 SANVPRSPVRELLEMEPET---AKFSPAERTYDG-KVRVTVEVVGKGKFKGVGRSYRIAK 250
Query: 285 NRAAKDALNNIE 296
+ AA+ AL +++
Sbjct: 251 SAAARRALRSLK 262
>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 = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 58/177 (32%), Positives = 91/177 (51%), Gaps = 25/177 (14%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFS--YERLEYVGDSVLNLLLTKEQFFLYPNLPP 128
E+ + YRF NK L +AFT S + Y+RLE++GD++L+ L+TK + P
Sbjct: 12 EKKINYRFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAILDYLITKHLYEDPRQHSP 71
Query: 129 GSLTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGL--- 185
G LT LRSA VN A +A+K HKY + P L I +F + + L N +
Sbjct: 72 GVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDF----VQFQLEKNEMQGM 127
Query: 186 ----------------VDAPKVLADIVESTIGAVFIDCNSSIDIVWKVFKELLKPMI 226
++ PK + DI ES GA+++D S++ VW+V+ +++P+I
Sbjct: 128 DSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLETVWQVYYPMMRPLI 184
>pdb|3C4B|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 70/222 (31%), Positives = 98/222 (44%), Gaps = 43/222 (19%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFS--YERLEYVGDSVLNLLLTKEQFFLYPNLPP 128
E+ + YRF NK L +AFT S + Y+RLE++GD++L+ L+TK + P
Sbjct: 19 EKKINYRFKNKAYLLQAFTHASYHYNTITDXYQRLEFLGDAILDYLITKHLYEDPRQHSP 78
Query: 129 GSLTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAIL--------DYPL 180
G LT LRSA VN A +A+K HKY + P L I +F + L D L
Sbjct: 79 GVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVKFQLEKNEXQGXDSEL 138
Query: 181 HSNGLVD-------APKVLADIVESTIGAVFIDCNSSIDIVWKVFKELLKPMI------- 226
+ + PK DI ES GA++ D S+++VW+V+ +P+I
Sbjct: 139 RRSEEDEEKEEDIEVPKAXGDIFESLAGAIYXDSGXSLEVVWQVYYPXXQPLIEKFSANV 198
Query: 227 -----------SPETLKTHPVTELY--------EVCQKNKLK 249
PET K P Y EV K K K
Sbjct: 199 PRSPVRELLEXEPETAKFSPAERTYDGKVRVTVEVVGKGKFK 240
>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 = 70.9 bits (172), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 68/257 (26%), Positives = 119/257 (46%), Gaps = 45/257 (17%)
Query: 58 ESESLPNANNLDEEEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTK 117
+S ++ N L E+ L Y F +KNLL A T S ++ ++ ERLE++GD+VL+L++ +
Sbjct: 21 QSNAMKNIEKL--EQSLTYEFKDKNLLIHALTHKSF-KKSYNNERLEFLGDAVLDLVVGE 77
Query: 118 EQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILD 177
F + G L++LR+A VN + A++A L L ++ ++
Sbjct: 78 YLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFI-----------------LMS 120
Query: 178 YPLHSNGLVDAPKVLADIVESTIGAVFIDCN------SSIDIVWKVFKELLKPMISPETL 231
+NG + P +L+D +E+ IGA+ ++ ++ ++ K F P I + L
Sbjct: 121 VAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKNF-----PQIDAKIL 175
Query: 232 KTHPVTELYEVCQKNKLKVKFVDLWKESTAFH----------IFIEDQLLGRGAYAPKKE 281
T+L E+ Q K+ ++ AF + ++ + L R KKE
Sbjct: 176 IKDYKTKLQEITQG---KIGQTPQYETVRAFGPDHLKQFEIALMLDGKELARAIAGSKKE 232
Query: 282 IAHNRAAKDALNNIERL 298
A AAK AL + L
Sbjct: 233 -AQQMAAKIALEKLGAL 248
>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 = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 74/138 (53%), Gaps = 17/138 (12%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ L Y F +KNLL A T S ++ ++ ERLE++GD+VL+L++ + F + G
Sbjct: 6 EQSLTYEFKDKNLLIHALTHKSFXKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGD 65
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L++LR+A VN + A++A L L ++ ++ +NG + P
Sbjct: 66 LSKLRAALVNEKSFAKIANSLNLGDFI-----------------LMSVAEENNGGKEKPS 108
Query: 191 VLADIVESTIGAVFIDCN 208
+L+D +E+ IGA+ ++
Sbjct: 109 ILSDALEAIIGAIHLEAG 126
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/151 (29%), Positives = 80/151 (52%), Gaps = 20/151 (13%)
Query: 58 ESESLPNANNLDEEEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTK 117
+S ++ N L E+ L Y F +KNLL A T S ++ ++ ERLE++GD+VL+L++ +
Sbjct: 21 QSNAMKNIEKL--EQSLTYEFKDKNLLIHALTHKSF-KKSYNNERLEFLGDAVLDLVVGE 77
Query: 118 EQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILD 177
F + G L++LR+A VN + A++A L L ++ ++
Sbjct: 78 YLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFI-----------------LMS 120
Query: 178 YPLHSNGLVDAPKVLADIVESTIGAVFIDCN 208
+NG + P +L+D +E+ IGA+ ++
Sbjct: 121 VAEENNGGKEKPSILSDALEAIIGAIHLEAG 151
>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 = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 69/247 (27%), Positives = 110/247 (44%), Gaps = 57/247 (23%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKELLKPMISPETLKTHPVTELYEVCQKN 246
+ D+ E+ AV+I D N + ++ +K+FKE + I +K T L E+ QK
Sbjct: 105 -IGDVFEALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKR 163
Query: 247 KLKVKFVDLWKESTAFHI-----------FI------EDQLLGRGAYAPKKEIAHNRAAK 289
WKE + + FI E + LG G KKE A RAA+
Sbjct: 164 ---------WKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG--KSKKE-AEQRAAE 211
Query: 290 DALNNIE 296
+ + +E
Sbjct: 212 ELIKLLE 218
>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 = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 110/247 (44%), Gaps = 57/247 (23%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKELLKPMISPETLKTHPVTELYEVCQKN 246
+ D+ ++ AV+I D N + ++ +K+FKE + I +K T L E+ QK
Sbjct: 105 -IGDVFQALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKR 163
Query: 247 KLKVKFVDLWKESTAFHI-----------FI------EDQLLGRGAYAPKKEIAHNRAAK 289
WKE + + FI E + LG G KKE A RAA+
Sbjct: 164 ---------WKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG--KSKKE-AEQRAAE 211
Query: 290 DALNNIE 296
+ + +E
Sbjct: 212 ELIKLLE 218
>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 = 63.9 bits (154), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 110/247 (44%), Gaps = 57/247 (23%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKELLKPMISPETLKTHPVTELYEVCQKN 246
+ D+ ++ AV+I D N + ++ +K+FKE + I +K T L E+ QK
Sbjct: 105 -IGDVFKALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKR 163
Query: 247 KLKVKFVDLWKESTAFHI-----------FI------EDQLLGRGAYAPKKEIAHNRAAK 289
WKE + + FI E + LG G KKE A RAA+
Sbjct: 164 ---------WKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG--KSKKE-AEQRAAE 211
Query: 290 DALNNIE 296
+ + +E
Sbjct: 212 ELIKLLE 218
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 110/247 (44%), Gaps = 57/247 (23%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKELLKPMISPETLKTHPVTELYEVCQKN 246
+ D+ ++ AV+I D N + ++ +K+FKE + I +K T L E+ QK
Sbjct: 105 -IGDVFKALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKR 163
Query: 247 KLKVKFVDLWKESTAFHI-----------FI------EDQLLGRGAYAPKKEIAHNRAAK 289
WKE + + FI E + LG G KKE A RAA+
Sbjct: 164 ---------WKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG--KSKKE-AEQRAAE 211
Query: 290 DALNNIE 296
+ + +E
Sbjct: 212 ELIKLLE 218
>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 = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 110/247 (44%), Gaps = 57/247 (23%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++G++++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGNALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKELLKPMISPETLKTHPVTELYEVCQKN 246
+ D+ E+ AV+I D N + ++ +K+FKE + I +K T L E+ QK
Sbjct: 105 -IGDVFEALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKR 163
Query: 247 KLKVKFVDLWKESTAFHI-----------FI------EDQLLGRGAYAPKKEIAHNRAAK 289
WKE + + FI E + LG G KKE A RAA+
Sbjct: 164 ---------WKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG--KSKKE-AEQRAAE 211
Query: 290 DALNNIE 296
+ + +E
Sbjct: 212 ELIKLLE 218
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 45/154 (29%), Positives = 76/154 (49%), Gaps = 28/154 (18%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 8 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 66
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 67 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 104
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKE 220
+ D+ E+ AV+I D N + ++ +K+FKE
Sbjct: 105 -IGDVFEALWAAVYIDSGRDANFTRELFYKLFKE 137
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 45/154 (29%), Positives = 76/154 (49%), Gaps = 28/154 (18%)
Query: 71 EEILGYRFNNKNLLEEAFTDPSCPERFFSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGS 130
E+ LGY F +K+LLE+A T S ++ YE LE++GD+++N + PN G
Sbjct: 9 EKKLGYTFKDKSLLEKALTHVSYSKKE-HYETLEFLGDALVNFFIVDLLVQYSPNKREGF 67
Query: 131 LTRLRSANVNTEKLARVAIKLGLHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPK 190
L+ L++ ++ E +A KL LHK++R + + E I
Sbjct: 68 LSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINETI---------------------- 105
Query: 191 VLADIVESTIGAVFI----DCNSSIDIVWKVFKE 220
+ D+ E+ AV+I D N + ++ +K+FKE
Sbjct: 106 -IGDVFEALWAAVYIDSGRDANFTRELFYKLFKE 138
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 65/129 (50%), Gaps = 26/129 (20%)
Query: 101 ERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARVAIK-----LGLHK 155
ERLE++GD+VL L +T F +P+ G L +LR++ VNT+ LA VA + LG+H
Sbjct: 43 ERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHV 102
Query: 156 YLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIVESTIGAVFI--DCNSSIDI 213
L + + G D +LAD +ES +GA+++ + ++
Sbjct: 103 LLGRGEA-------------------NTGGADKSSILADGMESLLGAIYLQHGMEKAREV 143
Query: 214 VWKVFKELL 222
+ ++F LL
Sbjct: 144 ILRLFGPLL 152
>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 = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 52/108 (48%), Gaps = 17/108 (15%)
Query: 99 SYERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYLR 158
S E+LE++GD+VL L + + + YP G L R++SA + E LA V+ K+ L K+L
Sbjct: 61 SNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFL- 119
Query: 159 HNKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIVESTIGAVFID 206
L G D +LAD E+ + A+++D
Sbjct: 120 ----------------FLGKGEEKTGGRDRDSILADAFEALLAAIYLD 151
>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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 61/134 (45%), Gaps = 26/134 (19%)
Query: 100 YERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYLRH 159
++RLE +GD+VL ++T L+P+ G+L L+ V E L + LGL
Sbjct: 334 FQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGL------ 387
Query: 160 NKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIVESTIGAVFIDCNSSIDIVWKVFK 219
Q+ EF SN LV K AD+ E +G++F N ++ +
Sbjct: 388 ------PQLAEF----------SNNLVAKSKTWADMYEEIVGSIFTGPNG----IYGCEE 427
Query: 220 ELLKPMISPETLKT 233
L K ++SPE KT
Sbjct: 428 FLAKTLMSPEHSKT 441
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 100 YERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARV 147
Y++LE +GD+ L L L+P L G+LTR+R + L R+
Sbjct: 647 YQKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRL 694
>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 = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 63/213 (29%), Positives = 94/213 (44%), Gaps = 30/213 (14%)
Query: 98 FSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYL 157
S ERLE++GDS L L++ + +P+ G L++++ + VN L + KL K L
Sbjct: 127 LSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL 186
Query: 158 RHNKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIVESTIGAVFIDCNSS--IDIV- 214
+ N +++ K AD VE+ IGA+ ID + +DI
Sbjct: 187 QGNIATPTRVVKD----------------KMSKRYADCVEAYIGALVIDRFGTEFLDIKE 230
Query: 215 W---KVFKELLKP--MISPETLKTHPVTELYEVCQKNKL--KVKFVDLWKESTAFHIFIE 267
W K+L K M+ E L + EL E+ Q NKL K+ + L E F + ++
Sbjct: 231 WLEELSEKKLAKSSQMVIKEPLNKNAKNELAELLQINKLGHKLHYRKL-TEMPPFRVEVK 289
Query: 268 --DQLLGRGAYAPKKEIAHNRAAKDALNNIERL 298
D LL +E H RAA L N E L
Sbjct: 290 IGDILLDEAEGNSIREAEH-RAAMKVLENDELL 321
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 16/109 (14%)
Query: 98 FSYERLEYVGDSVLNLLLTKEQFFLYPNLPPGSLTRLRSANVNTEKLARVAIKLGLHKYL 157
S ERLE++GDS L L++ + +P+ G L++++ + VN L + KL K L
Sbjct: 127 LSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL 186
Query: 158 RHNKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIVESTIGAVFID 206
+ N +++ K AD V++ IGA+ ID
Sbjct: 187 QGNIATPTRVVKD----------------KMSKRYADCVQAYIGALVID 219
>pdb|2IF2|A Chain A, Crystal Structure Of The Putative Dephospho-Coa Kinase
From Aquifex Aeolicus, Northeast Structural Genomics
Target Qr72.
pdb|2IF2|B Chain B, Crystal Structure Of The Putative Dephospho-Coa Kinase
From Aquifex Aeolicus, Northeast Structural Genomics
Target Qr72.
pdb|2IF2|C Chain C, Crystal Structure Of The Putative Dephospho-Coa Kinase
From Aquifex Aeolicus, Northeast Structural Genomics
Target Qr72
Length = 204
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 153 LHKYLRHNKPLLEEQIREFSEAILDYPLHSNGLVDAPKVLADIV 196
+H + R P+ EE ++ F + ILD G +D K LADIV
Sbjct: 35 IHSFYRKGHPVYEEVVKTFGKGILD----EEGNIDRKK-LADIV 73
>pdb|1URJ|A Chain A, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
pdb|1URJ|B Chain B, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
Length = 1136
Score = 28.9 bits (63), Expect = 3.9, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 2 DTNTNKYLLALVVFSLHSLQIQWSLVVAMEEAHQEEALISHL 43
D ++ ++ L +L +WS A+E AH+ EAL+S L
Sbjct: 1094 DEYLSEEMMELTARALERGNGEWSTDAALEVAHEAEALVSQL 1135
>pdb|1REQ|B Chain B, Methylmalonyl-Coa Mutase
pdb|1REQ|D Chain D, Methylmalonyl-Coa Mutase
pdb|2REQ|B Chain B, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|2REQ|D Chain D, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|3REQ|B Chain B, Methylmalonyl-Coa Mutase, Substrate-Free State (Poor
Quality Structure)
pdb|6REQ|B Chain B, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|6REQ|D Chain D, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|B Chain B, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|D Chain D, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|4REQ|B Chain B, Methylmalonyl-Coa Mutase Substrate Complex
pdb|4REQ|D Chain D, Methylmalonyl-Coa Mutase Substrate Complex
pdb|5REQ|B Chain B, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|5REQ|D Chain D, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|1E1C|B Chain B, Methylmalonyl-Coa Mutase H244a Mutant
pdb|1E1C|D Chain D, Methylmalonyl-Coa Mutase H244a Mutant
Length = 637
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 177 DYPLH---SNGLVDAPKV-LADIVESTIGAVFID--CNSSIDIVWKVFKELLKPMISPET 230
D+PL + G+V A +V + + + G+ +++ S D WK F+E+ K +
Sbjct: 372 DFPLRIARNTGIVLAEEVNIGRVNDPAGGSYYVESLTRSLADAAWKEFQEVEKLGGMSKA 431
Query: 231 LKTHPVTELYEVCQKNKLK 249
+ T VT++ + C + K
Sbjct: 432 VMTEHVTKVLDACNAERAK 450
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
0.317 0.135 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,000,713
Number of Sequences: 62578
Number of extensions: 376651
Number of successful extensions: 879
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 831
Number of HSP's gapped (non-prelim): 22
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)