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= 012154
(470 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 = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 46/86 (53%)
Query: 1 MYKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSA 60
++K++LQE AQ+ P Y ++EGP H F++TV +G + S + AE SA
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 61 AEVALSSLSHRGPSPSLAARILDETG 86
AEVAL L+ ++ + ETG
Sbjct: 78 AEVALRELAKSSELSQCVSQPVHETG 103
Score = 35.4 bits (80), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 87 VYKNLLQEIAQRVGAPLPQYTTIRSGLGHLPVFTGIVELAGIAFTGEP 134
V+K+ LQE AQ+ P P Y ++ G H +F V L G+ + P
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLP 65
>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 = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 40/69 (57%)
Query: 1 MYKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSA 60
++K++LQE AQ+ P Y ++EGP H F++TV +G + S + AE SA
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 63
Query: 61 AEVALSSLS 69
AEVAL L+
Sbjct: 64 AEVALRELA 72
Score = 35.0 bits (79), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 87 VYKNLLQEIAQRVGAPLPQYTTIRSGLGHLPVFTGIVELAGIAFTGEP 134
V+K+ LQE AQ+ P P Y ++ G H +F V L G+ + P
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLP 51
>pdb|2L2M|A Chain A, Solution Structure Of The Second Dsrbd Of Hyl1
Length = 77
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 82 LDETGVYKNLLQEIAQRVGAPLPQYTTIR-SGLGHLPVFTGIVELAGIAFTG 132
+ ETG+ KNLLQE AQ++ +P Y + LG + FT VE+ GI +TG
Sbjct: 3 MHETGLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTG 54
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 3 KNQLQELAQRSCFNLPSYTCIR-EGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAA 61
KN LQE AQ+ + +P Y C + E +F TV G I + T + AE SA
Sbjct: 10 KNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGG-IKYTGAATRTKKDAEISAG 68
Query: 62 EVALSSL 68
AL ++
Sbjct: 69 RTALLAI 75
>pdb|3ADJ|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 76
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 86 GVYKNLLQEIAQRVGAPLPQYTTIR-SGLGHLPVFTGIVELAGIAFTG 132
G+ KNLLQE AQ++ +P Y + LG + FT VE+ GI +TG
Sbjct: 4 GLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTG 51
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 3 KNQLQELAQRSCFNLPSYTCIR-EGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAA 61
KN LQE AQ+ + +P Y C + E +F TV G I + T + AE SA
Sbjct: 7 KNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGG-IKYTGAATRTKKDAEISAG 65
Query: 62 EVALSSL 68
AL ++
Sbjct: 66 RTALLAI 72
>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 = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 2 YKNQLQELAQRSCFNLPSYTCIRE-GPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSA 60
YK +LQE+ Q P Y +R GPDH +F+ + +G+ + + ++A+ A
Sbjct: 179 YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKEL-ARAIAGSKKEAQQMA 237
Query: 61 AEVALSSLS 69
A++AL L
Sbjct: 238 AKIALEKLG 246
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 75 PSLAARILDETGVYKNLLQEIAQRVGAPLPQYTTIRS-GLGHLPVFTGIVELAG 127
P + A+IL + YK LQEI Q PQY T+R+ G HL F + L G
Sbjct: 168 PQIDAKILIKD--YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDG 219
>pdb|2B7T|A Chain A, Structure Of Adar2 Dsrbm1
Length = 73
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAAEVA 64
QL E+ + L S T GP HAP F +V NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGS--GPTKKKAKLHAAEKA 65
Query: 65 LSSL 68
L S
Sbjct: 66 LRSF 69
>pdb|2L3C|A Chain A, Solution Structure Of Adar2 Dsrbm1 Bound To Lsl Rna
Length = 74
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAAEVA 64
QL E+ + L S T GP HAP F +V NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGS--GPTKKKAKLHAAEKA 65
Query: 65 LSSL 68
L S
Sbjct: 66 LRSF 69
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 16/36 (44%)
Query: 2 YKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKATV 37
+K LQEL PSY GPDH F A V
Sbjct: 164 WKTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVV 199
>pdb|2L3J|A Chain A, The Solution Structure Of The Adar2 Dsrbm-Rna Complex
Reveals A Sequence-Specific Read Out Of The Minor
Groove
Length = 236
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAAEVA 64
QL E+ + L S T GP HAP F +V NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGS--GPTKKKAKLHAAEKA 65
Query: 65 LSSL 68
L S
Sbjct: 66 LRSF 69
>pdb|2TMD|A Chain A, Correlation Of X-Ray Deduced And Experimental Amino Acid
Sequences Of Trimethylamine Dehydrogenase
pdb|2TMD|B Chain B, Correlation Of X-Ray Deduced And Experimental Amino Acid
Sequences Of Trimethylamine Dehydrogenase
pdb|1DJN|A Chain A, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJN|B Chain B, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1O94|A Chain A, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O94|B Chain B, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|A Chain A, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|B Chain B, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
Length = 729
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 72 GPSPSLAARILDETGVYKNLLQEIAQRVGAPLPQYTTIRSGLG 114
GPS S AAR+L E+G Y L + A+++G L Q + GLG
Sbjct: 398 GPSGSEAARVLMESG-YTVHLTDTAEKIGGHLNQVAAL-PGLG 438
>pdb|1DJQ|A Chain A, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJQ|B Chain B, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
Length = 729
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 72 GPSPSLAARILDETGVYKNLLQEIAQRVGAPLPQYTTIRSGLG 114
GPS S AAR+L E+G Y L + A+++G L Q + GLG
Sbjct: 398 GPSGSEAARVLMESG-YTVHLTDTAEKIGGHLNQVAAL-PGLG 438
>pdb|2LRS|A Chain A, The Second Dsrbd Domain From A. Thaliana Dicer-like 1
Length = 71
Score = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 8 ELAQRSCFNLPSYTCIRE-GPDHAPRFKATVNFN 40
++ R + +PSY C++E GP HA RF V N
Sbjct: 2 DICLRKNWPMPSYRCVKEGGPAHAKRFTFGVRVN 35
>pdb|1DI2|A Chain A, Crystal Structure Of A Dsrna-Binding Domain Complexed
With Dsrna: Molecular Basis Of Double-Stranded
Rna-Protein Interactions
pdb|1DI2|B Chain B, Crystal Structure Of A Dsrna-Binding Domain Complexed
With Dsrna: Molecular Basis Of Double-Stranded
Rna-Protein Interactions
Length = 69
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 4 NQLQELAQRSCFNLPSYTCIRE-GPDHAPRFKATVNFNGEIFESPHYCSTLRQAEHSAAE 62
LQELA + + LP YT +E GP H F T+ E F ++ + A+ AAE
Sbjct: 4 GSLQELAVQKGWRLPEYTVAQESGPPHKREF--TITCRVETFVETGSGTSKQVAKRVAAE 61
Query: 63 VALSSL 68
L+
Sbjct: 62 KLLTKF 67
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
0.314 0.129 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,630,797
Number of Sequences: 62578
Number of extensions: 483989
Number of successful extensions: 769
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 753
Number of HSP's gapped (non-prelim): 21
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)