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= 030336
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 130 bits (327), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 69/168 (41%), Positives = 101/168 (60%), Gaps = 10/168 (5%)
Query: 11 DTLAFMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVL 70
+T +M+ A+ AK AL++ EVPVGC+++ + +V+ M AID +
Sbjct: 25 ETEKWMEEAMHMAKEALENTEVPVGCLMVYNNEVVGKGRNEVNQTKNATRHAEMVAIDQV 84
Query: 71 LDQWQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSI 130
LD +++G S SE+ F LYVT EPCIMCAAAL ++ I V YGC NE+FGGCGS+
Sbjct: 85 LDWCRQSGKSPSEV---FEHTVLYVTVEPCIMCAAALRLMKIPLVVYGCQNERFGGCGSV 141
Query: 131 LSLHLSDSKMLNSGDVLGRKGFKCTGGVMASEAVSLFRSFYEQGNPNG 178
L++ +D + N+G + F+C G A EAV + ++FY+Q NPN
Sbjct: 142 LNIASAD--LPNTG-----RPFQCIPGYRAEEAVEMLKTFYKQENPNA 182
>pdb|2NX8|A Chain A, The Crystal Structure Of The Trna-Specific Adenosine
Deaminase From Streptococcus Pyogenes
Length = 179
Score = 79.0 bits (193), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 81/161 (50%), Gaps = 18/161 (11%)
Query: 15 FMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQW 74
FM A+++++ +L E+P+GCVI++DG++I M AI
Sbjct: 19 FMQEALKESEKSLQKAEIPIGCVIVKDGEIIGRGHNAREESNQAIMHAEMMAI------- 71
Query: 75 QKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSILSLH 134
N + E + L+VT EPC+MC+ A+ + I V YG +N+KFGG S+ +
Sbjct: 72 --NEANAHEGNWRLLDTTLFVTIEPCVMCSGAIGLARIPHVIYGASNQKFGGVDSLYQI- 128
Query: 135 LSDSKMLNSGDVLGRKGFKCTGGVMASEAVSLFRSFYEQGN 175
L+D ++ + V G++A++ ++ ++F+ QG
Sbjct: 129 LTDERLNHRVQV--------ERGLLAADCANIMQTFFRQGR 161
>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 = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 70/156 (44%), Gaps = 18/156 (11%)
Query: 15 FMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQW 74
FM+LA+ +A+ A + EVP+G V++ DG+VI + I + +
Sbjct: 7 FMELALVEARSAGERDEVPIGAVLVLDGRVIARSGNRTRELNDVTAHAEIAVIRMACE-- 64
Query: 75 QKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSILSLH 134
L Q E+ LYVT EPC MCAAA+S I+ +YYG + K G S +
Sbjct: 65 ---ALGQ----ERLPGADLYVTLEPCTMCAAAISFARIRRLYYGAQDPKGGAVESGVRF- 116
Query: 135 LSDSKMLNSGDVLGRKGFKCTGGVMASEAVSLFRSF 170
S ++ DV G+ SE+ + R F
Sbjct: 117 FSQPTCHHAPDVY--------SGLAESESAEILRQF 144
>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 = 63.9 bits (154), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 59/126 (46%), Gaps = 15/126 (11%)
Query: 11 DTLAFMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDV- 69
+ + FM LAI++AK A EVP+G +I +D +VI AI+
Sbjct: 6 NDIYFMTLAIEEAKKAAQLGEVPIGAIITKDDEVIARAHNLRETLQQPTAHAEHIAIERA 65
Query: 70 --LLDQWQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGC 127
+L W+ G C LYVT EPC+MCA + + I V YG + K G
Sbjct: 66 AKVLGSWRLEG------------CTLYVTLEPCVMCAGTIVMSRIPRVVYGADDPKGGCS 113
Query: 128 GSILSL 133
GS+++L
Sbjct: 114 GSLMNL 119
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 59/119 (49%), Gaps = 9/119 (7%)
Query: 15 FMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQW 74
F+ +A+++AK A + EVPVG +I+++G++I M AI +
Sbjct: 26 FLKVALREAKRAFEKGEVPVGAIIVKEGEIISKAHNSVEELKDPTAHAEMLAIKEACRRL 85
Query: 75 QKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSILSL 133
L C LYVT EPCIMC+ AL + I++V + ++K GG S+ ++
Sbjct: 86 NTKYLEG---------CELYVTLEPCIMCSYALVLSRIEKVIFSALDKKHGGVVSVFNI 135
>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 = 59.7 bits (143), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 45/162 (27%), Positives = 67/162 (41%), Gaps = 26/162 (16%)
Query: 15 FMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQW 74
+M A+ AK A D EVPVG V++ + +VI + A+
Sbjct: 12 WMRHALTLAKRAWDEREVPVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMAL------- 64
Query: 75 QKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSILSLH 134
++ GL + LYVT EPC+MCA A+ I V +G + K G GS++
Sbjct: 65 RQGGLVMQNY--RLIDATLYVTLEPCVMCAGAMIHSRIGRVVFGARDAKTGAAGSLM--- 119
Query: 135 LSDSKMLNSGDVLGRKGF----KCTGGVMASEAVSLFRSFYE 172
DVL G + T G++A E +L F+
Sbjct: 120 ----------DVLHHPGMNHRVEITEGILADECAALLSDFFR 151
>pdb|3OCQ|A Chain A, Crystal Structure Of Trna-Specific Adenosine Deaminase
From Salmonella Enterica
Length = 183
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/166 (27%), Positives = 66/166 (39%), Gaps = 26/166 (15%)
Query: 11 DTLAFMDLAIQQAKLALDSLEVPVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDVL 70
D +M A+ AK A D EVPVG V++ + +VI + A+
Sbjct: 18 DHEYWMRHALTLAKRAWDEREVPVGAVLVHNHRVIGEGWNRPIGRHDPTAHAEIMAL--- 74
Query: 71 LDQWQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGIKEVYYGCANEKFGGCGSI 130
++ GL + LYVT EPC+MCA A+ I V +G + K G GS+
Sbjct: 75 ----RQGGLVLQNY--RLLDTTLYVTLEPCVMCAGAMVHSRIGRVVFGARDAKTGAAGSL 128
Query: 131 LSLHLSDSKMLNSGDVLGRKGF----KCTGGVMASEAVSLFRSFYE 172
+ DVL G + GV+ E +L F+
Sbjct: 129 I-------------DVLHHPGMNHRVEIIEGVLRDECATLLSDFFR 161
>pdb|1WKQ|A Chain A, Crystal Structure Of Bacillus Subtilis Guanine Deaminase.
The First Domain-Swapped Structure In The Cytidine
Deaminase Superfamily
pdb|1WKQ|B Chain B, Crystal Structure Of Bacillus Subtilis Guanine Deaminase.
The First Domain-Swapped Structure In The Cytidine
Deaminase Superfamily
Length = 164
Score = 34.7 bits (78), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 33/89 (37%), Gaps = 15/89 (16%)
Query: 33 PVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDV---LLDQWQKNGLSQSEIAEKFS 89
P G VI++DG +I + AI +L +Q
Sbjct: 33 PFGAVIVKDGAIIAEGQNNVTTSNDPTAHAEVTAIRKACKVLGAYQ------------LD 80
Query: 90 KCCLYVTCEPCIMCAAALSILGIKEVYYG 118
C LY +CEPC MC A+ K V+Y
Sbjct: 81 DCILYTSCEPCPMCLGAIYWARPKAVFYA 109
>pdb|1TIY|A Chain A, X-Ray Structure Of Guanine Deaminase From Bacillus
Subtilis Northeast Structural Genomics Consortium Target
Sr160
pdb|1TIY|B Chain B, X-Ray Structure Of Guanine Deaminase From Bacillus
Subtilis Northeast Structural Genomics Consortium Target
Sr160
Length = 164
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 32/89 (35%), Gaps = 15/89 (16%)
Query: 33 PVGCVILEDGKVIXXXXXXXXXXXXXXXXXXMEAIDV---LLDQWQKNGLSQSEIAEKFS 89
P G VI++DG +I + AI +L +Q
Sbjct: 25 PFGAVIVKDGAIIAEGQNNVTTSNDPTAHAEVTAIRKACKVLGAYQ------------LD 72
Query: 90 KCCLYVTCEPCIMCAAALSILGIKEVYYG 118
C LY +CEPC C A+ K V+Y
Sbjct: 73 DCILYTSCEPCPXCLGAIYWARPKAVFYA 101
>pdb|2HVV|A Chain A, Crystal Structure Of Dcmp Deaminase From Streptococcus
Mutans
pdb|2HVV|B Chain B, Crystal Structure Of Dcmp Deaminase From Streptococcus
Mutans
pdb|2HVW|A Chain A, Crystal Structure Of Dcmp Deaminase From Streptococcus
Mutans
pdb|2HVW|B Chain B, Crystal Structure Of Dcmp Deaminase From Streptococcus
Mutans
pdb|2HVW|C Chain C, Crystal Structure Of Dcmp Deaminase From Streptococcus
Mutans
Length = 184
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 93 LYVTCEPCIMCAAALSILGIKEVYYGCA 120
+YVT PCI C AL G+K++ Y A
Sbjct: 126 IYVTHFPCINCTKALLQAGVKKITYNTA 153
>pdb|1VQ2|A Chain A, Crystal Structure Of T4-Bacteriophage Deoxycytidylate
Deaminase, Mutant R115e
Length = 193
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 93 LYVTCEPCIMCAAALSILGIKEVYY 117
+YVT PC CA A++ GIK++ Y
Sbjct: 125 MYVTLSPCPDCAKAIAQSGIKKLVY 149
>pdb|1P6O|A Chain A, The Crystal Structure Of Yeast Cytosine Deaminase Bound To
4(R)-Hydroxyl-3,4-Dihydropyrimidine At 1.14 Angstroms.
pdb|1P6O|B Chain B, The Crystal Structure Of Yeast Cytosine Deaminase Bound To
4(R)-Hydroxyl-3,4-Dihydropyrimidine At 1.14 Angstroms.
pdb|1RB7|A Chain A, Yeast Cytosine Deaminase Crystal Form P212121 With Sodium
Acetate.
pdb|1RB7|B Chain B, Yeast Cytosine Deaminase Crystal Form P212121 With Sodium
Acetate
Length = 161
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 12/99 (12%)
Query: 16 MDLAIQQAKLALDSLEVPVG-CVIL-EDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQ 73
MD+A ++A L VP+G C+I +DG V+ + +
Sbjct: 18 MDIAYEEAALGYKEGGVPIGGCLINNKDGSVLGRGHNMRFQKGSATLHGEISTL------ 71
Query: 74 WQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGI 112
+ G + ++ + LY T PC MC A+ + GI
Sbjct: 72 -ENCGRLEGKV---YKDTTLYTTLSPCDMCTGAIIMYGI 106
>pdb|1UAQ|A Chain A, The Crystal Structure Of Yeast Cytosine Deaminase
pdb|1UAQ|B Chain B, The Crystal Structure Of Yeast Cytosine Deaminase
Length = 158
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 12/99 (12%)
Query: 16 MDLAIQQAKLALDSLEVPVG-CVIL-EDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQ 73
MD+A ++A L VP+G C+I +DG V+ + +
Sbjct: 15 MDIAYEEAALGYKEGGVPIGGCLINNKDGSVLGRGHNMRFQKGSATLHGEISTL------ 68
Query: 74 WQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGI 112
+ G + ++ + LY T PC MC A+ + GI
Sbjct: 69 -ENCGRLEGKV---YKDTTLYTTLSPCDMCTGAIIMYGI 103
>pdb|1YSD|A Chain A, Yeast Cytosine Deaminase Double Mutant
pdb|1YSD|B Chain B, Yeast Cytosine Deaminase Double Mutant
Length = 161
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 12/99 (12%)
Query: 16 MDLAIQQAKLALDSLEVPVG-CVIL-EDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQ 73
MD+A ++A L VP+G C+I +DG V+ + +
Sbjct: 18 MDIAYEEALLGYKEGGVPIGGCLINNKDGSVLGRGHNMRFQKGSATLHGEISTL------ 71
Query: 74 WQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGI 112
+ G + ++ + LY T PC MC A+ + GI
Sbjct: 72 -ENCGRLEGKV---YKDTTLYTTLSPCDMCTGAIIMYGI 106
>pdb|1YSB|A Chain A, Yeast Cytosine Deaminase Triple Mutant
pdb|1YSB|B Chain B, Yeast Cytosine Deaminase Triple Mutant
Length = 161
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 12/99 (12%)
Query: 16 MDLAIQQAKLALDSLEVPVG-CVIL-EDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQ 73
MD+A ++A L VP+G C+I +DG V+ + +
Sbjct: 18 MDIAYEEALLGYKEGGVPIGGCLINNKDGSVLGRGHNMRFQKGSATLHGEISTL------ 71
Query: 74 WQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGI 112
+ G + ++ + LY T PC MC A+ + GI
Sbjct: 72 -ENCGRLEGKV---YKDTTLYTTLSPCDMCTGAIIMYGI 106
>pdb|2O3K|A Chain A, Yeast Cytosine Deaminase D92e Triple Mutant Bound To
Transition State Analogue Hpy
pdb|2O3K|B Chain B, Yeast Cytosine Deaminase D92e Triple Mutant Bound To
Transition State Analogue Hpy
Length = 161
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 12/99 (12%)
Query: 16 MDLAIQQAKLALDSLEVPVG-CVIL-EDGKVIXXXXXXXXXXXXXXXXXXMEAIDVLLDQ 73
MD+A ++A L VP+G C+I +DG V+ + +
Sbjct: 18 MDIAYEEALLGYKEGGVPIGGCLINNKDGSVLGRGHNMRFQKGSATLHGEISTL------ 71
Query: 74 WQKNGLSQSEIAEKFSKCCLYVTCEPCIMCAAALSILGI 112
+ G + ++ + LY T PC MC A+ + GI
Sbjct: 72 -ENCGRLEGKV---YKDTTLYTTLSPCEMCTGAIIMYGI 106
>pdb|3HKM|A Chain A, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|B Chain B, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|C Chain C, Crystal Structure Of Rice(Oryza Sativa) Rrp46
Length = 246
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 23 AKLALDSLEVPVGCVILEDGKVI 45
A + L L V +GC +LEDG+VI
Sbjct: 130 AGIPLKHLAVAIGCGVLEDGEVI 152
>pdb|3G8Q|A Chain A, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|B Chain B, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|C Chain C, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|D Chain D, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
Length = 278
Score = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 92 CLYVTCEPCIMCAAALSILGIKEVYY 117
++VT PC+ CA L+ G+ V Y
Sbjct: 59 VVFVTARPCLYCARELAEAGVAGVVY 84
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 0.136 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,805,089
Number of Sequences: 62578
Number of extensions: 155249
Number of successful extensions: 277
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 250
Number of HSP's gapped (non-prelim): 20
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
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: 48 (23.1 bits)