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= psy14776
(1022 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 72.0 bits (175), Expect = 1e-12, Method: Composition-based stats.
Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 12/127 (9%)
Query: 822 HNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFML 881
+NERLEFLGDAV++ + +LFH F EG L+ RAA+V + A +A + L DF+L
Sbjct: 59 NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
Query: 882 YAHGSDLCHEVELKHAMANCFEALMGALFLDGGIDVAD------------QVFSSVLYKD 929
+ + E +++ EA++GA+ L+ G + A Q+ + +L KD
Sbjct: 119 MSVAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKNFPQIDAKILIKD 178
Query: 930 NEVRFKQ 936
+ + ++
Sbjct: 179 YKTKLQE 185
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 959 QSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITS 1018
QS +K ++ LE S F LL T +S + +N+RLEFLGD VL L+
Sbjct: 21 QSNAMKNIEKLEQSLTYEFKDKNLLIHALTHKSFKKSY----NNERLEFLGDAVLDLVVG 76
Query: 1019 DYLY 1022
+YL+
Sbjct: 77 EYLF 80
>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 = 71.6 bits (174), Expect = 2e-12, Method: Composition-based stats.
Identities = 37/108 (34%), Positives = 62/108 (57%)
Query: 822 HNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFML 881
+NERLEFLGDAV++ + +LFH F EG L+ RAA+V + A +A + L DF+L
Sbjct: 34 NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 93
Query: 882 YAHGSDLCHEVELKHAMANCFEALMGALFLDGGIDVADQVFSSVLYKD 929
+ + E +++ EA++GA+ L+ G + A + ++ K+
Sbjct: 94 MSVAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKN 141
Score = 36.2 bits (82), Expect = 0.10, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 966 LQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLY 1022
++ LE S F LL T +S + +N+RLEFLGD VL L+ +YL+
Sbjct: 2 IEKLEQSLTYEFKDKNLLIHALTHKSFXKKSY---NNERLEFLGDAVLDLVVGEYLF 55
>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 = 71.6 bits (174), Expect = 2e-12, Method: Composition-based stats.
Identities = 37/108 (34%), Positives = 62/108 (57%)
Query: 822 HNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFML 881
+NERLEFLGDAV++ + +LFH F EG L+ RAA+V + A +A + L DF+L
Sbjct: 59 NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
Query: 882 YAHGSDLCHEVELKHAMANCFEALMGALFLDGGIDVADQVFSSVLYKD 929
+ + E +++ EA++GA+ L+ G + A + ++ K+
Sbjct: 119 MSVAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKN 166
Score = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 959 QSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITS 1018
QS +K ++ LE S F LL T +S + +N+RLEFLGD VL L+
Sbjct: 21 QSNAMKNIEKLEQSLTYEFKDKNLLIHALTHKSFKKSY----NNERLEFLGDAVLDLVVG 76
Query: 1019 DYLY 1022
+YL+
Sbjct: 77 EYLF 80
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 71.2 bits (173), Expect = 2e-12, Method: Composition-based stats.
Identities = 41/102 (40%), Positives = 59/102 (57%), Gaps = 3/102 (2%)
Query: 823 NERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRI---GLEDF 879
NERLEFLGDAV+ + LFH PD EG LA RA++V Q LA +A+R+ GL
Sbjct: 42 NERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVH 101
Query: 880 MLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGIDVADQV 921
+L G + +A+ E+L+GA++L G++ A +V
Sbjct: 102 VLLGRGEANTGGADKSSILADGMESLLGAIYLQHGMEKAREV 143
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 21/41 (51%), Positives = 26/41 (63%)
Query: 982 LLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLY 1022
LL+ T RS Y N L +N+RLEFLGD VL L +D L+
Sbjct: 22 LLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALF 62
>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 = 67.8 bits (164), Expect = 3e-11, Method: Composition-based stats.
Identities = 37/118 (31%), Positives = 65/118 (55%), Gaps = 5/118 (4%)
Query: 805 NIMSKLGRKVATESNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQN 864
N ++ GRK ++ NE+LEFLGDAV+E L+ +P+ E G LA ++A
Sbjct: 49 NEQNQAGRK-----DVESNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASE 103
Query: 865 QHLAHLAKRIGLEDFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGIDVADQVF 922
+ LA +++++ L F+ G + + +A+ FEAL+ A++LD G + ++F
Sbjct: 104 EVLAMVSRKMNLGKFLFLGKGEEKTGGRDRDSILADAFEALLAAIYLDQGYEKIKELF 161
Score = 34.3 bits (77), Expect = 0.41, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 964 KQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLG-----SNQRLEFLGDTVLQLITS 1018
K ++ + +G+ F + LL R S G SN++LEFLGD VL+L
Sbjct: 19 KIVEEFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVC 78
Query: 1019 DYLY 1022
+ LY
Sbjct: 79 EILY 82
>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 = 50.4 bits (119), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 48/87 (55%), Gaps = 5/87 (5%)
Query: 824 ERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYA 883
+RLE LGDAV+ FI + L +FPD G L + +V+N+ L +L + +GL ++
Sbjct: 335 QRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQLAEFS 394
Query: 884 HGSDLCHEVELKHAMANCFEALMGALF 910
+ + V A+ +E ++G++F
Sbjct: 395 N-----NLVAKSKTWADMYEEIVGSIF 416
Score = 36.2 bits (82), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 49/98 (50%), Gaps = 8/98 (8%)
Query: 824 ERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIG--LEDFML 881
++LE LGDA ++ ++HL + P + EG L R + N L L KR + + ++
Sbjct: 648 QKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRLTKRFPSVVSEVII 707
Query: 882 YAHGSDLCHEVELKHAM-ANCFEALMGALFLDGGIDVA 918
+H +++ + + FEA++ A+ L G + A
Sbjct: 708 ESH-----PKIQPDSKVYGDTFEAILAAILLACGEEAA 740
>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 = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 32/99 (32%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 32 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 91
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + FEAL A+++D G D
Sbjct: 92 KFIRIKRGK--INET----IIGDVFEALWAAVYIDSGRD 124
>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 = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 32/99 (32%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + FEAL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFEALWAAVYIDSGRD 123
>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 = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 32/99 (32%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + FEAL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFEALWAAVYIDSGRD 123
>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 = 47.8 bits (112), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 49/94 (52%), Gaps = 7/94 (7%)
Query: 823 NERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLY 882
NERLEFLGD+ + + S ++ FP EG L+ + +IV N +L + ++ +F
Sbjct: 129 NERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKL---NFTKR 185
Query: 883 AHGSDLCHEVELKHAM----ANCFEALMGALFLD 912
G+ +K M A+C EA +GAL +D
Sbjct: 186 LQGNIATPTRVVKDKMSKRYADCVEAYIGALVID 219
>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 = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 49/94 (52%), Gaps = 7/94 (7%)
Query: 823 NERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLY 882
NERLEFLGD+ + + S ++ FP EG L+ + +IV N +L + ++ +F
Sbjct: 129 NERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKL---NFTKR 185
Query: 883 AHGSDLCHEVELKHAM----ANCFEALMGALFLD 912
G+ +K M A+C +A +GAL +D
Sbjct: 186 LQGNIATPTRVVKDKMSKRYADCVQAYIGALVID 219
>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 = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + F+AL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFQALWAAVYIDSGRD 123
>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 = 46.6 bits (109), Expect = 8e-05, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + F+AL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFKALWAAVYIDSGRD 123
>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 = 46.2 bits (108), Expect = 8e-05, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLGDA+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + F+AL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFKALWAAVYIDSGRD 123
>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 = 46.2 bits (108), Expect = 1e-04, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 6/99 (6%)
Query: 818 SNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLE 877
S H E LEFLG+A+V F L P+ EG L+ +A ++ + LA+++ L
Sbjct: 31 SKKEHYETLEFLGNALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH 90
Query: 878 DFMLYAHGSDLCHEVELKHAMANCFEALMGALFLDGGID 916
F+ G +E + + FEAL A+++D G D
Sbjct: 91 KFIRIKRGK--INET----IIGDVFEALWAAVYIDSGRD 123
>pdb|3C4T|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 58/134 (43%), Gaps = 36/134 (26%)
Query: 824 ERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYA 883
+RLEFLGDA+++++ + HL+ G L R+A+V N A LA + + A
Sbjct: 51 QRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKY-FKA 109
Query: 884 HGSDLCHEVE---------------------------------LKHAMANCFEALMGALF 910
+L H ++ + AM + FE+L GA++
Sbjct: 110 VSPELFHVIDDFVKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIY 169
Query: 911 LDGG--IDVADQVF 922
+D G ++V QV+
Sbjct: 170 MDSGMSLEVVWQVY 183
Score = 33.1 bits (74), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 977 FNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLY 1022
F + L + FT S Y +T QRLEFLGD +L + + +LY
Sbjct: 26 FKNKAYLLQAFTHASYHYNTIT-DXYQRLEFLGDAILDYLITKHLY 70
>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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/215 (21%), Positives = 78/215 (36%), Gaps = 90/215 (41%)
Query: 737 LEDRIQYKFQNR-YLLQLALTHPSYRENFGTNPDHARNSLSNCGVRQPEYGDRRIHFQNT 795
E +I Y+F+N+ YLLQ A TH SY N++++C
Sbjct: 11 FEKKINYRFKNKAYLLQ-AFTHASYH----------YNTITDC----------------- 42
Query: 796 RKRGINTLINIMSKLGRKVATESNITHNERLEFLGDAVVEFITSIHLFHVFPDIEEGGLA 855
+RLEFLGDA+++++ + HL+ G L
Sbjct: 43 ---------------------------YQRLEFLGDAILDYLITKHLYEDPRQHSPGVLT 75
Query: 856 TYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVE---------------------- 893
R+A+V N A LA + + A +L H ++
Sbjct: 76 DLRSALVNNTIFASLAVKYDYHKY-FKAVSPELFHVIDDFVQFQLEKNEMQGMDSELRRS 134
Query: 894 -----------LKHAMANCFEALMGALFLDGGIDV 917
+ AM + FE+L GA+++D G+ +
Sbjct: 135 EEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSL 169
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 977 FNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLY 1022
F + L + FT S Y +T QRLEFLGD +L + + +LY
Sbjct: 19 FKNKAYLLQAFTHASYHYNTIT-DCYQRLEFLGDAILDYLITKHLY 63
>pdb|3C4B|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 38.1 bits (87), Expect = 0.025, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 824 ERLEFLGDAVVEFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLA 871
+RLEFLGDA+++++ + HL+ G L R+A+V N A LA
Sbjct: 51 QRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLA 98
Score = 33.1 bits (74), Expect = 0.76, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 962 LLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYL 1021
L+ + E F + L + FT S Y +T QRLEFLGD +L + + +L
Sbjct: 11 LISGFETFEKKINYRFKNKAYLLQAFTHASYHYNTIT-DXYQRLEFLGDAILDYLITKHL 69
Query: 1022 Y 1022
Y
Sbjct: 70 Y 70
>pdb|3BBL|A Chain A, Crystal Structure Of A Regulatory Protein Of Laci Family
From Chloroflexus Aggregans
Length = 287
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 921 VFSSVLYKDNEVRFKQWMYYPQHPLQEQEPDGDRQWVEQSPLLKQLQYLEYSSGVIFNHI 980
V SS+ Y D V+F +P PD D WV+ Q +EY G I
Sbjct: 69 VLSSINYNDPRVQFLLKQKFPFVAFGRSNPDWDFAWVDIDGTAGTRQAVEYLIGRGHRRI 128
Query: 981 RLLA-----RVFTTRSMGY 994
+LA RV R GY
Sbjct: 129 AILAWPEDSRVGNDRLQGY 147
>pdb|4E0T|A Chain A, Crystal Structure Of Cdpnpt In Its Unbound State
pdb|4E0T|B Chain B, Crystal Structure Of Cdpnpt In Its Unbound State
pdb|4E0T|C Chain C, Crystal Structure Of Cdpnpt In Its Unbound State
pdb|4E0T|D Chain D, Crystal Structure Of Cdpnpt In Its Unbound State
pdb|4E0U|A Chain A, Crystal Structure Of Cdpnpt In Complex With
Thiolodiphosphate And (S)- Benzodiazependione
pdb|4E0U|B Chain B, Crystal Structure Of Cdpnpt In Complex With
Thiolodiphosphate And (S)- Benzodiazependione
Length = 428
Score = 29.6 bits (65), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 656 VKLRHLVANKPKRTAEDKRRLAAKEQRLQEMRTNSKMKRGVTVAISSRGFYRTGIMC 712
++L HL++ TA+D+R L E++L + TN ++K VA+ R +TGI+
Sbjct: 155 IELHHLLSEHLTLTAKDERNL--NEEQLTKYLTNFQVKTQYVVALDLR---KTGIVA 206
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
0.319 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,948,786
Number of Sequences: 62578
Number of extensions: 1144165
Number of successful extensions: 2126
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: 2072
Number of HSP's gapped (non-prelim): 50
length of query: 1022
length of database: 14,973,337
effective HSP length: 109
effective length of query: 913
effective length of database: 8,152,335
effective search space: 7443081855
effective search space used: 7443081855
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)