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= 038761
(365 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 = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/68 (45%), Positives = 45/68 (66%)
Query: 83 YKSVLQNYARRKNLDSPLYSSIREGPAHACSFKARVTIDGHTFESLEFFKNLKQAEHAAA 142
+KS LQ YA++ L +P+Y ++EGP+H F++ V +DG + SL F N K AE +AA
Sbjct: 19 FKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSAA 78
Query: 143 KVALFSLA 150
+VAL LA
Sbjct: 79 EVALRELA 86
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 175 YKNVLHELSLREGLPVPLYETIKCGAPHMPTFISMVEVDG 214
+K+ L E + + LP P+YE +K G H F S V +DG
Sbjct: 19 FKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDG 58
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 32/65 (49%)
Query: 1 MYKTKVQELCHQKRWSLPRYSTMKDGADHDPRFKSSVSVNGLXXXXXXXXXXXXXXQNDA 60
++K+++QE + + P Y +K+G H F+S+V ++G+ + A
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 61 AKLAF 65
A++A
Sbjct: 78 AEVAL 82
>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 = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 31/68 (45%), Positives = 45/68 (66%)
Query: 83 YKSVLQNYARRKNLDSPLYSSIREGPAHACSFKARVTIDGHTFESLEFFKNLKQAEHAAA 142
+KS LQ YA++ L +P+Y ++EGP+H F++ V +DG + SL F N K AE +AA
Sbjct: 5 FKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSAA 64
Query: 143 KVALFSLA 150
+VAL LA
Sbjct: 65 EVALRELA 72
Score = 34.7 bits (78), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 175 YKNVLHELSLREGLPVPLYETIKCGAPHMPTFISMVEVDG 214
+K+ L E + + LP P+YE +K G H F S V +DG
Sbjct: 5 FKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDG 44
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 32/65 (49%)
Query: 1 MYKTKVQELCHQKRWSLPRYSTMKDGADHDPRFKSSVSVNGLXXXXXXXXXXXXXXQNDA 60
++K+++QE + + P Y +K+G H F+S+V ++G+ + A
Sbjct: 4 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 63
Query: 61 AKLAF 65
A++A
Sbjct: 64 AEVAL 68
>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 = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 2 YKTKVQELCHQKRWSLPRYSTMKD-GADHDPRFKSSVSVNG 41
YKTK+QE+ K P+Y T++ G DH +F+ ++ ++G
Sbjct: 179 YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDG 219
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 18/38 (47%)
Query: 2 YKTKVQELCHQKRWSLPRYSTMKDGADHDPRFKSSVSV 39
+KT +QEL + P Y G DHD F + V V
Sbjct: 164 WKTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVVVV 201
>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 = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 173 VFYKNVLHELS-LREGLPVPLYETIKCGAPHMPTFISMVEVDGEVFYG 219
V KN L +L+ ++ GL L + G H P F+ VEV+G+VF G
Sbjct: 4 VLPKNALMQLNEIKPGLQYMLLS--QTGPVHAPLFVMSVEVNGQVFEG 49
>pdb|2LRS|A Chain A, The Second Dsrbd Domain From A. Thaliana Dicer-like 1
Length = 71
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 8 ELCHQKRWSLPRYSTMKDGAD-HDPRFKSSVSVN 40
++C +K W +P Y +K+G H RF V VN
Sbjct: 2 DICLRKNWPMPSYRCVKEGGPAHAKRFTFGVRVN 35
>pdb|3ADJ|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 76
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 84 KSVLQNYARRKNLDSPLYSSIR-EGPAHACSFKARVTIDGHTFESLEFFKNLKQAEHAAA 142
K++LQ YA++ N PLY + E F V I G + + K AE +A
Sbjct: 7 KNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAA-TRTKKDAEISAG 65
Query: 143 KVALFSLACD 152
+ AL ++ D
Sbjct: 66 RTALLAIQSD 75
>pdb|2L3C|A Chain A, Solution Structure Of Adar2 Dsrbm1 Bound To Lsl Rna
Length = 74
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 173 VFYKNVLHELS-LREGLPVPLYETIKCGAPHMPTFISMVEVDGEVFYG 219
V KN L +L+ ++ GL L + G H P F+ VEV+G+VF G
Sbjct: 4 VLPKNALMQLNEIKPGLQYMLLS--QTGPVHAPLFVMSVEVNGQVFEG 49
>pdb|1WHN|A Chain A, Solution Structure Of The Dsrbd From Hypothetical Protein
Bab26260
Length = 128
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 84 KSVLQNYARRKNLDSPLYSSIREGPAHACSFKARVTIDGHTFESLEFFKNLKQAEHAAAK 143
K L + RR+ L P+Y +++ F + VT+ ++S + K+ K AE AA
Sbjct: 29 KMCLLEWCRREKLPQPVYETVQRTIDRM--FCSVVTVAEQKYQSTLWDKSKKLAEQTAAI 86
Query: 144 VALFS 148
V L S
Sbjct: 87 VCLRS 91
>pdb|2B7T|A Chain A, Structure Of Adar2 Dsrbm1
Length = 73
Score = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 173 VFYKNVLHELS-LREGLPVPLYETIKCGAPHMPTFISMVEVDGEVFYG 219
V KN L +L+ ++ GL L + G H P F+ VEV+G+VF G
Sbjct: 4 VLPKNALMQLNEIKPGLQYMLLS--QTGPVHAPLFVMSVEVNGQVFEG 49
>pdb|2B7J|A Chain A, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|B Chain B, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|C Chain C, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|D Chain D, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7K|A Chain A, Crystal Structure Of Yeast Sco1
pdb|2B7K|B Chain B, Crystal Structure Of Yeast Sco1
pdb|2B7K|C Chain C, Crystal Structure Of Yeast Sco1
pdb|2B7K|D Chain D, Crystal Structure Of Yeast Sco1
Length = 200
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 2/67 (2%)
Query: 270 GVPNSTLSSDLDVTLDPNFIQKSMSVSSPVL--EHGEDGKDSMAAKRATVTSSYLLCNRV 327
G+ +TLSS +TL P FI + SP + E+ D S+ T C +
Sbjct: 65 GLWLNTLSSKYGITLQPLFITCDPARDSPAVLKEYLSDFHPSILGLTGTFDEVKNACKKY 124
Query: 328 RVYTRIP 334
RVY P
Sbjct: 125 RVYFSTP 131
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
0.320 0.134 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,724,776
Number of Sequences: 62578
Number of extensions: 344800
Number of successful extensions: 613
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 597
Number of HSP's gapped (non-prelim): 27
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)