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= 018960
(348 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L2N|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
The First Dsrbd Of Protein Hyl1
Length = 103
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 49/77 (63%)
Query: 1 MHKNRLQEHAQRSGIPLPVYQSHNEGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDV 60
+ K+RLQE+AQ+ +P PVY+ EG H F+++V +DGV Y S F +RKAAEQ
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 61 AKIALECISKKIKDEGC 77
A++AL ++K + C
Sbjct: 78 AEVALRELAKSSELSQC 94
>pdb|3ADG|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|B Chain B, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|C Chain C, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 73
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 47/70 (67%)
Query: 1 MHKNRLQEHAQRSGIPLPVYQSHNEGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDV 60
+ K+RLQE+AQ+ +P PVY+ EG H F+++V +DGV Y S F +RKAAEQ
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 63
Query: 61 AKIALECISK 70
A++AL ++K
Sbjct: 64 AEVALRELAK 73
>pdb|2L2M|A Chain A, Solution Structure Of The Second Dsrbd Of Hyl1
Length = 77
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 83 DTVFCKSILNEFAVKMNLELPAYSTRQSEALLPV--FVSSLVFNGVTYTGEPGRSKKEAE 140
+T CK++L E+A KMN +P Y ++ E L V F ++ G+ YTG R+KK+AE
Sbjct: 5 ETGLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAE 64
Query: 141 QLAARAVI 148
A R +
Sbjct: 65 ISAGRTAL 72
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 3 KNRLQEHAQRSGIPLPVYQSHN-EGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDVA 61
KN LQE+AQ+ +P+YQ E +F +V + G+ YT T + +K AE
Sbjct: 10 KNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRT-KKDAEISAG 68
Query: 62 KIAL 65
+ AL
Sbjct: 69 RTAL 72
>pdb|3ADJ|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 76
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 86 FCKSILNEFAVKMNLELPAYSTRQSEALLPV--FVSSLVFNGVTYTGEPGRSKKEAEQLA 143
CK++L E+A KMN +P Y ++ E L V F ++ G+ YTG R+KK+AE A
Sbjct: 5 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEISA 64
Query: 144 ARAVI 148
R +
Sbjct: 65 GRTAL 69
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 1 MHKNRLQEHAQRSGIPLPVYQSHN-EGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQD 59
+ KN LQE+AQ+ +P+YQ E +F +V + G+ YT T + +K AE
Sbjct: 5 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRT-KKDAEIS 63
Query: 60 VAKIAL 65
+ AL
Sbjct: 64 AGRTAL 69
>pdb|1X47|A Chain A, Solution Structure Of Dsrm Domain In Dgcr8 Protein
Length = 98
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 6 LQEHAQRSGIPLPVYQSHNEGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDVAKIAL 65
L E+ QR PVY E + F ASV++DGVTY S T S +K A+ A+ L
Sbjct: 22 LHEYMQRVLKVRPVYNFF-ECENPSEPFGASVTIDGVTYGS-GTASSKKLAKNKAARATL 79
Query: 66 ECI 68
E +
Sbjct: 80 EIL 82
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%)
Query: 90 ILNEFAVKMNLELPAYSTRQSEALLPVFVSSLVFNGVTYTGEPGRSKKEAEQLAARAVIR 149
IL+E+ ++ P Y+ + E F +S+ +GVTY SKK A+ AARA +
Sbjct: 21 ILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTYGSGTASSKKLAKNKAARATLE 80
Query: 150 TLL 152
L+
Sbjct: 81 ILI 83
>pdb|2YT4|A Chain A, Crystal Structure Of Human Dgcr8 Core
Length = 232
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%)
Query: 90 ILNEFAVKMNLELPAYSTRQSEALLPVFVSSLVFNGVTYTGEPGRSKKEAEQLAARAVIR 149
IL+E+ ++ P Y+ + E F +S+ +GVTY SKK A+ AARA +
Sbjct: 27 ILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTYGSGTASSKKLAKNKAARATLE 86
Query: 150 TLL 152
L+
Sbjct: 87 ILI 89
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 6 LQEHAQRSGIPLPVYQSHNEGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDVAKIAL 65
L E+ QR PVY + E + F ASV++DGVTY S T S +K A+ A+ L
Sbjct: 28 LHEYMQRVLKVRPVY-NFFECENPSEPFGASVTIDGVTYGS-GTASSKKLAKNKAARATL 85
Query: 66 ECI 68
E +
Sbjct: 86 EIL 88
>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 = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%)
Query: 116 VFVSSLVFNGVTYTGEPGRSKKEAEQLAARAVIRTLL 152
+FV + NG T GR+KKEAE+ AAR LL
Sbjct: 212 IFVVEVRVNGKTIATGKGRTKKEAEKEAARIAYEKLL 248
>pdb|3AYX|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An H2-Reduced Condition
pdb|3AYX|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An H2-Reduced Condition
pdb|3AYY|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
Condition
pdb|3AYY|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
Condition
pdb|3AYZ|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An Air-Oxidized Condition
pdb|3AYZ|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An Air-Oxidized Condition
Length = 596
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 189 ATSYVPTTAIPKSSSG-IHPI-PTTPEA--SVGMHSIPTIPEATAGIHPTPAITE 239
+T +P AI G IHP+ P PE HS P+ T G+HP ITE
Sbjct: 316 STDQLPGGAIINGDWGKIHPVDPRDPEQVQEFVTHSWYKYPDETKGLHPWDGITE 370
>pdb|1X48|A Chain A, Solution Structure Of The Second Dsrm Domain In
Interferon- Induced, Double-Stranded Rna-Activated
Protein Kinase
Length = 88
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 28/63 (44%)
Query: 90 ILNEFAVKMNLELPAYSTRQSEALLPVFVSSLVFNGVTYTGEPGRSKKEAEQLAARAVIR 149
++N FA K L + + L F+ Y G +K+EA+QLAA+ +
Sbjct: 11 LVNSFAQKKKLSVNYEQCEPNSELPQRFICKCKIGQTMYGTGSGVTKQEAKQLAAKEAYQ 70
Query: 150 TLL 152
LL
Sbjct: 71 KLL 73
>pdb|3VYY|A Chain A, Structural Insights Into Risc Assembly Facilitated By
Dsrna Binding Domains Of Human Rna Helicase A (dhx9)
pdb|3VYY|B Chain B, Structural Insights Into Risc Assembly Facilitated By
Dsrna Binding Domains Of Human Rna Helicase A (dhx9)
Length = 91
Score = 27.7 bits (60), Expect = 9.2, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 18 PVYQSHNEGFQHAPKFRASVSVDGVTYTSPNTFSHRKAAEQDVAKIALECISK--KIKDE 75
P Y+ G ++ KF V V+G YT +++K A+ + A+ + + + +IK E
Sbjct: 19 PSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNAARDFVNYLVRINEIKSE 78
Query: 76 GCP 78
P
Sbjct: 79 EVP 81
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
0.311 0.125 0.355
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,741,437
Number of Sequences: 62578
Number of extensions: 318649
Number of successful extensions: 738
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 718
Number of HSP's gapped (non-prelim): 27
length of query: 348
length of database: 14,973,337
effective HSP length: 100
effective length of query: 248
effective length of database: 8,715,537
effective search space: 2161453176
effective search space used: 2161453176
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)