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= 012622
(460 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L2M|A Chain A, Solution Structure Of The Second Dsrbd Of Hyl1
Length = 77
Score = 57.8 bits (138), Expect = 1e-08, Method: Composition-based stats.
Identities = 31/74 (41%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 82 LDETGIYKNLLQETAHRAGLNLPVYTTVR-SGPGHVPIFTCTVELAGMNFTGEPAKTKKQ 140
+ ETG+ KNLLQE A + +P+Y + G V FTCTVE+ G+ +TG +TKK
Sbjct: 3 MHETGLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKD 62
Query: 141 AEKNAAIAAWSALK 154
AE +A A A++
Sbjct: 63 AEISAGRTALLAIQ 76
>pdb|3ADJ|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 76
Score = 53.1 bits (126), Expect = 3e-07, Method: Composition-based stats.
Identities = 29/70 (41%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 86 GIYKNLLQETAHRAGLNLPVYTTVR-SGPGHVPIFTCTVELAGMNFTGEPAKTKKQAEKN 144
G+ KNLLQE A + +P+Y + G V FTCTVE+ G+ +TG +TKK AE +
Sbjct: 4 GLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEIS 63
Query: 145 AAIAAWSALK 154
A A A++
Sbjct: 64 AGRTALLAIQ 73
>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 = 7e-06, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 46/86 (53%)
Query: 1 MYKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAA 60
++K++LQE AQ+ P Y ++EGP H F+++V +G + S + AE +A
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 61 AEVALNVLSTRGPSRSLTARVLDETG 86
AEVAL L+ ++ + ETG
Sbjct: 78 AEVALRELAKSSELSQCVSQPVHETG 103
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 87 IYKNLLQETAHRAGLNLPVYTTVRSGPGHVPIFTCTVELAGMNFTGEPA-KTKKQAEKNA 145
++K+ LQE A + L PVY V+ GP H +F TV L G+ + P +K AE++A
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 146 AIAAWSALKRMPNL 159
A A L + L
Sbjct: 78 AEVALRELAKSSEL 91
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 40/69 (57%)
Query: 1 MYKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAA 60
++K++LQE AQ+ P Y ++EGP H F+++V +G + S + AE +A
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 63
Query: 61 AEVALNVLS 69
AEVAL L+
Sbjct: 64 AEVALRELA 72
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 87 IYKNLLQETAHRAGLNLPVYTTVRSGPGHVPIFTCTVELAGMNFTGEPA-KTKKQAEKNA 145
++K+ LQE A + L PVY V+ GP H +F TV L G+ + P +K AE++A
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 63
Query: 146 AIAAWSALKR 155
A A L +
Sbjct: 64 AEVALRELAK 73
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 2 YKNQLQELAQRSCFNLPSYTCIRE-GPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAA 60
YK +LQE+ Q P Y +R GPDH +F+ ++ +G+ + + + ++A+ A
Sbjct: 179 YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKEL-ARAIAGSKKEAQQMA 237
Query: 61 AEVALNVLS 69
A++AL L
Sbjct: 238 AKIALEKLG 246
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 5/95 (5%)
Query: 60 AAEVALNVLSTRGPSRSLTARVLDETGIYKNLLQETAHRAGLNLPVYTTVRS-GPGHVPI 118
A +AL ++ P + A++L + YK LQE P Y TVR+ GP H+
Sbjct: 155 AKTIALRLIEKNFPQ--IDAKILIKD--YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQ 210
Query: 119 FTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSAL 153
F + L G A +KK+A++ AA A L
Sbjct: 211 FEIALMLDGKELARAIAGSKKEAQQMAAKIALEKL 245
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 110 RSGPGHVPIFTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSALKRMPN 158
++GP H P+F +VE+ G F G TKK+A+ +AA A + + PN
Sbjct: 27 QTGPVHAPLFVMSVEVNGQVFEGS-GPTKKKAKLHAAEKALRSFVQFPN 74
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAAAEVA 64
QL E+ + L S T GP HAP F SV NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKA 65
Query: 65 L 65
L
Sbjct: 66 L 66
>pdb|2L3C|A Chain A, Solution Structure Of Adar2 Dsrbm1 Bound To Lsl Rna
Length = 74
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 110 RSGPGHVPIFTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSALKRMPN 158
++GP H P+F +VE+ G F G TKK+A+ +AA A + + PN
Sbjct: 27 QTGPVHAPLFVMSVEVNGQVFEGS-GPTKKKAKLHAAEKALRSFVQFPN 74
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAAAEVA 64
QL E+ + L S T GP HAP F SV NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKA 65
Query: 65 L 65
L
Sbjct: 66 L 66
>pdb|2B7T|A Chain A, Structure Of Adar2 Dsrbm1
Length = 73
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 110 RSGPGHVPIFTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSALKRMP 157
++GP H P+F +VE+ G F G TKK+A+ +AA A + + P
Sbjct: 27 QTGPVHAPLFVMSVEVNGQVFEGS-GPTKKKAKLHAAEKALRSFVQFP 73
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 5 QLQELAQRSCFNLPSYTCIREGPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAAAEVA 64
QL E+ + L S T GP HAP F SV NG++FE T ++A+ AAE A
Sbjct: 12 QLNEIKPGLQYMLLSQT----GPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKA 65
Query: 65 L 65
L
Sbjct: 66 L 66
>pdb|2DIX|A Chain A, Solution Structure Of The Dsrm Domain Of Protein Activator
Of The Interferon-Induced Protein Kinase
Length = 84
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 97 HRAGL---NLPVYTTVRSGPG-HVPIFTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSA 152
H G+ N+PVY RS HVP FT V + + TGE +KK A+ AA AA +
Sbjct: 15 HEYGMKTKNIPVYECERSDVQIHVPTFTFRVTVGDITCTGE-GTSKKLAKHRAAEAAINI 73
Query: 153 LK 154
LK
Sbjct: 74 LK 75
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 5/62 (8%)
Query: 16 NLPSYTCIREGPD-HAPRFKASVNFNGEIFESPSYCTTLRQAEHAAAEVALNVL--STRG 72
N+P Y C R H P F V G+I T+ + A+H AAE A+N+L + G
Sbjct: 23 NIPVYECERSDVQIHVPTFTFRVTV-GDI-TCTGEGTSKKLAKHRAAEAAINILKANASG 80
Query: 73 PS 74
PS
Sbjct: 81 PS 82
>pdb|2LJH|A Chain A, Nmr Structure Of Double-Stranded Rna-Specific Editase Adar
Length = 114
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 110 RSGPGHVPIFTCTVELAGMNFTGEPAKTKKQAEKNAAIAAWSAL 153
++GP H P+FT +VE+ G + G+ ++KK A AA A +
Sbjct: 57 QTGPVHAPLFTISVEVDGQKYLGQ-GRSKKVARIEAAATALRSF 99
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 16/36 (44%)
Query: 2 YKNQLQELAQRSCFNLPSYTCIREGPDHAPRFKASV 37
+K LQEL PSY GPDH F A V
Sbjct: 164 WKTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVV 199
>pdb|2DMY|A Chain A, Solution Structure Of Dsrm Domain In Spermatid Perinuclear
Rna-Bind Protein
Length = 97
Score = 32.7 bits (73), Expect = 0.46, Method: Composition-based stats.
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 72 GPSRSLTARVLDETGI--YKNLLQETAHRAGLNLPVYTTVRSGPGHVPIFTCTVELAGMN 129
G S S ++LD I L++ R GL + + +SGP H P+FT +V++ G
Sbjct: 1 GSSGSSGRKILDSKAIDLMNALMRLNQIRPGLQYKLLS--QSGPVHAPVFTMSVDVDGTT 58
Query: 130 FTGEPAKTKKQAEKNAAIAAWSALKRMPNLDS 161
+ +KK A+ + A+ A+ D+
Sbjct: 59 YEAS-GPSKKTAKLHVAVKVLQAMGYPTGFDA 89
>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 = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 28/67 (41%), Gaps = 1/67 (1%)
Query: 88 YKNLLQETAHRAGLNLPVYTTVRSGPGHVP-IFTCTVELAGMNFTGEPAKTKKQAEKNAA 146
YK LQE P Y VR+ IF V + G +TKK+AEK AA
Sbjct: 181 YKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTKKEAEKEAA 240
Query: 147 IAAWSAL 153
A+ L
Sbjct: 241 RIAYEKL 247
>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 = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 6 LQELAQRSCFNLPSYTCIRE-GPDHAPRFKASVNFNGEIFESPSYCTTLRQAEHAAAEVA 64
LQELA + + LP YT +E GP H F ++ E F T+ + A+ AAE
Sbjct: 6 LQELAVQKGWRLPEYTVAQESGPPHKREF--TITCRVETFVETGSGTSKQVAKRVAAEKL 63
Query: 65 LNVLST 70
L T
Sbjct: 64 LTKFKT 69
>pdb|2LRS|A Chain A, The Second Dsrbd Domain From A. Thaliana Dicer-like 1
Length = 71
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 8 ELAQRSCFNLPSYTCIRE-GPDHAPRFKASVNFNGEIFESPSYCT-----TLRQAEHAAA 61
++ R + +PSY C++E GP HA RF V N C ++++A+ +AA
Sbjct: 2 DICLRKNWPMPSYRCVKEGGPAHAKRFTFGVRVNTSDRGWTDECIGEPMPSVKKAKDSAA 61
Query: 62 EVALNVLS 69
+ L +L+
Sbjct: 62 VLLLELLN 69
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
0.315 0.129 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,285,879
Number of Sequences: 62578
Number of extensions: 332674
Number of successful extensions: 621
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 593
Number of HSP's gapped (non-prelim): 33
length of query: 460
length of database: 14,973,337
effective HSP length: 102
effective length of query: 358
effective length of database: 8,590,381
effective search space: 3075356398
effective search space used: 3075356398
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)