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= 014044
(432 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A8N|A Chain A, Biochemical And Structural Studies Of A-To-I Editing By
Trna:a34 Deaminases At The Wobble Position Of Transfer
Rna
pdb|2A8N|B Chain B, Biochemical And Structural Studies Of A-To-I Editing By
Trna:a34 Deaminases At The Wobble Position Of Transfer
Rna
Length = 144
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 35/64 (54%)
Query: 345 GYDIYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNHHYAVFRVL 404
G D+Y+ EPC MCA A+ RIRR++Y +P GA+ S R + + +H V+ L
Sbjct: 73 GADLYVTLEPCTMCAAAISFARIRRLYYGAQDPKGGAVESGVRFFSQPTCHHAPDVYSGL 132
Query: 405 LPKE 408
E
Sbjct: 133 AESE 136
>pdb|2B3J|A Chain A, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|B Chain B, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|C Chain C, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|D Chain D, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
Length = 159
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 34/63 (53%)
Query: 345 GYDIYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNHHYAVFRVL 404
G +Y+ EPCVMCA +V RI R+ Y +P G GS+ L + + NH V + +
Sbjct: 76 GCTLYVTLEPCVMCAGTIVMSRIPRVVYGADDPKGGCSGSLMNLLQQSNFNHRAIVDKGV 135
Query: 405 LPK 407
L +
Sbjct: 136 LKE 138
>pdb|1Z3A|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
Escherichia Coli
pdb|1Z3A|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
Escherichia Coli
Length = 168
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%)
Query: 341 YLCTGYDIYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNHHYAV 400
Y +Y+ EPCVMCA A++H RI R+ + + GA GS+ + +NH +
Sbjct: 74 YRLIDATLYVTLEPCVMCAGAMIHSRIGRVVFGARDAKTGAAGSLMDVLHHPGMNHRVEI 133
Query: 401 FRVLLPKE 408
+L E
Sbjct: 134 TEGILADE 141
>pdb|3OCQ|A Chain A, Crystal Structure Of Trna-Specific Adenosine Deaminase
From Salmonella Enterica
Length = 183
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 348 IYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNHHYAVFRVLLPK 407
+Y+ EPCVMCA A+VH RI R+ + + GA GS+ + +NH + +L
Sbjct: 91 LYVTLEPCVMCAGAMVHSRIGRVVFGARDAKTGAAGSLIDVLHHPGMNHRVEIIEGVLRD 150
Query: 408 E 408
E
Sbjct: 151 E 151
>pdb|1WWR|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|C Chain C, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|D Chain D, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
Length = 171
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 32/52 (61%)
Query: 345 GYDIYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNH 396
G ++Y+ EPC+MC+ ALV RI ++ ++ + G + SV + E +LNH
Sbjct: 92 GCELYVTLEPCIMCSYALVLSRIEKVIFSALDKKHGGVVSVFNILDEPTLNH 143
>pdb|2NX8|A Chain A, The Crystal Structure Of The Trna-Specific Adenosine
Deaminase From Streptococcus Pyogenes
Length = 179
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 348 IYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSVHRLQGEKSLNHHYAVFRVLLPK 407
+++ EPCVMC+ A+ RI + Y N G + S++++ ++ LNH V R LL
Sbjct: 88 LFVTIEPCVMCSGAIGLARIPHVIYGASNQKFGGVDSLYQILTDERLNHRVQVERGLLAA 147
Query: 408 EILN 411
+ N
Sbjct: 148 DCAN 151
>pdb|3DH1|A Chain A, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|B Chain B, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|C Chain C, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|D Chain D, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
Length = 189
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 348 IYLVWEPCVMCAMALVHQRIRRIFYAFPNPNEGALGSV 385
+Y+ EPC+MCA AL +I + Y N G GSV
Sbjct: 104 LYVTVEPCIMCAAALRLMKIPLVVYGCQNERFGGCGSV 141
>pdb|2B3Z|A Chain A, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2B3Z|B Chain B, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2B3Z|C Chain C, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2B3Z|D Chain D, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2D5N|A Chain A, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2D5N|B Chain B, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2D5N|C Chain C, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|2D5N|D Chain D, Crystal Structure Of A Bifunctional Deaminase And
Reductase Involved In Riboflavin Biosynthesis
pdb|3EX8|A Chain A, Complex Structure Of Bacillus Subtilis Ribg Reduction
Mechanism In Riboflavin Biosynthesis
pdb|3EX8|B Chain B, Complex Structure Of Bacillus Subtilis Ribg Reduction
Mechanism In Riboflavin Biosynthesis
pdb|3EX8|C Chain C, Complex Structure Of Bacillus Subtilis Ribg Reduction
Mechanism In Riboflavin Biosynthesis
pdb|3EX8|D Chain D, Complex Structure Of Bacillus Subtilis Ribg Reduction
Mechanism In Riboflavin Biosynthesis
pdb|4G3M|A Chain A, Complex Structure Of Bacillus Subtilis Ribg: The
Deamination Process In Riboflavin Biosynthesis
pdb|4G3M|B Chain B, Complex Structure Of Bacillus Subtilis Ribg: The
Deamination Process In Riboflavin Biosynthesis
pdb|4G3M|C Chain C, Complex Structure Of Bacillus Subtilis Ribg: The
Deamination Process In Riboflavin Biosynthesis
pdb|4G3M|D Chain D, Complex Structure Of Bacillus Subtilis Ribg: The
Deamination Process In Riboflavin Biosynthesis
Length = 373
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 345 GYDIYLVWEPCVM------CAMALVHQRIRRIFYAFPNPN 378
G DIY+ EPC CA +++ I+R+F A +PN
Sbjct: 76 GADIYVTLEPCSHYGKTPPCAELIINSGIKRVFVAMRDPN 115
>pdb|4EGC|B Chain B, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 294
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 9/77 (11%)
Query: 316 DLANVENSEELDP---SAGGFHPESARPYLCTGYDIY--LVWEPCVMCAMALVHQRIRRI 370
D+++ +N ++L SA GFH + LC G ++ + W M +A ++R++ +
Sbjct: 91 DVSSDDNGQDLSTYNFSADGFHSSAPGANLCLGSGVHGGVDW----MRKLAFRYRRVKEM 146
Query: 371 FYAFPNPNEGALGSVHR 387
+ + N G +G+ R
Sbjct: 147 YNTYKNNVGGLIGTPKR 163
>pdb|3HB0|A Chain A, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|B Chain B, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|C Chain C, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|D Chain D, Structure Of Edeya2 Complexed With Bef3
pdb|3HB1|A Chain A, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|B Chain B, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|C Chain C, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|D Chain D, Crystal Structure Of Ed-Eya2 Complexed With Alf3
Length = 274
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 9/77 (11%)
Query: 316 DLANVENSEELDP---SAGGFHPESARPYLCTGYDIY--LVWEPCVMCAMALVHQRIRRI 370
D+++ +N ++L SA GFH + LC G ++ + W M +A ++R++ +
Sbjct: 71 DVSSDDNGQDLSTYNFSADGFHSSAPAANLCLGSGVHGGVDW----MRKLAFRYRRVKEM 126
Query: 371 FYAFPNPNEGALGSVHR 387
+ + N G +G+ R
Sbjct: 127 YNTYKNNVGGLIGTPKR 143
>pdb|3GEB|A Chain A, Crystal Structure Of Edeya2
pdb|3GEB|B Chain B, Crystal Structure Of Edeya2
pdb|3GEB|C Chain C, Crystal Structure Of Edeya2
pdb|3GEB|D Chain D, Crystal Structure Of Edeya2
Length = 274
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 9/77 (11%)
Query: 316 DLANVENSEELDP---SAGGFHPESARPYLCTGYDIY--LVWEPCVMCAMALVHQRIRRI 370
D+++ +N ++L SA GFH + LC G ++ + W M +A ++R++ +
Sbjct: 71 DVSSDDNGQDLSTYNFSADGFHSSAPGANLCLGSGVHGGVDW----MRKLAFRYRRVKEM 126
Query: 371 FYAFPNPNEGALGSVHR 387
+ + N G +G+ R
Sbjct: 127 YNTYKNNVGGLIGTPKR 143
>pdb|3IPR|A Chain A, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
pdb|3IPR|B Chain B, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
pdb|3IPR|C Chain C, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
pdb|3IPR|D Chain D, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
pdb|3IPR|E Chain E, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
pdb|3IPR|F Chain F, Crystal Structure Of The Enterococcus Faecalis Gluconate
Specific Eiia Phosphotransferase System Component
Length = 150
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 122 CKLWPTSYHPPTYNIDGIPGFNEDDSQSIFSFMKSAVELAQSGDGSIV 169
K T T NI+ + + DD Q++ +K+A+E Q GDG +V
Sbjct: 16 AKDAATVIMGATENIETVNLNSGDDVQALGGQIKTAIENVQQGDGVLV 63
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
0.316 0.132 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,791,055
Number of Sequences: 62578
Number of extensions: 511262
Number of successful extensions: 1008
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 996
Number of HSP's gapped (non-prelim): 15
length of query: 432
length of database: 14,973,337
effective HSP length: 102
effective length of query: 330
effective length of database: 8,590,381
effective search space: 2834825730
effective search space used: 2834825730
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)