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= 043381
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WQ8|A Chain A, Glycan Labelling Using Engineered Variants Of Galactose
Oxidase Obtained By Directed Evolution
Length = 661
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 461 RTFHTSVVLPDGSTFITGGQRRGII---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 514
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R HS S++LPDG++ G G + F P Y +S + RP
Sbjct: 515 RAYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYDSNGNLATRPK 567
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 568 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 616
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 617 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 645
>pdb|1K3I|A Chain A, Crystal Structure Of The Precursor Of Galactose Oxidase
Length = 656
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 456 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPEQ---DTFYKQNPNSIV 509
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 510 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 562
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 563 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 611
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 612 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 640
>pdb|2EIE|A Chain A, Crystal Structure Of Galactose Oxidase Complexed With
Azide
pdb|1GOF|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|1GOG|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|1GOH|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|2JKX|A Chain A, Galactose Oxidase. Matgo. Copper Free, Expressed In Pichia
Pastoris.
pdb|2VZ1|A Chain A, Premat-Galactose Oxidase
pdb|2VZ3|A Chain A, Bleached Galactose Oxidase
Length = 639
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 492
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 493 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 545
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 546 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 594
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 595 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 623
>pdb|2EID|A Chain A, Galactose Oxidase W290g Mutant
Length = 639
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 492
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 493 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 545
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 546 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 594
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 595 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 623
>pdb|1T2X|A Chain A, Glactose Oxidase C383s Mutant Identified By Directed
Evolution
Length = 639
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 492
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 493 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 545
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 546 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 594
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 595 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 623
>pdb|2EIC|A Chain A, Crystal Structure Of Galactose Oxidase Mutant W290f
Length = 639
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 492
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 493 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 545
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 546 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 594
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 595 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 623
>pdb|2EIB|A Chain A, Crystal Structure Of Galactose Oxidase, W290h Mutant
Length = 639
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 86/211 (40%), Gaps = 29/211 (13%)
Query: 65 RVMGEMLLLPTGDVLIINGAKKGTAGWNFA-TDPNTTPVLYEPNDPINERFSELTPTSKP 123
R ++LP G I G ++G F + P TP +Y P + F + P S
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIP---FEDSTPVFTPEIYVPE---QDTFYKQNPNSIV 492
Query: 124 RMCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPS 181
R+ HS S++LPDG++ G G + F P Y S + RP
Sbjct: 493 RVYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPK 545
Query: 182 IVSKFKGKMVKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVLATKEL 241
I ++ + VK G I + S++ + Y TH V+ QR + L L
Sbjct: 546 I-TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQRRIPLT---L 594
Query: 242 IDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+ G + V P + +A P +++LFV+
Sbjct: 595 TNNGGNSYSFQV--PSDSGVALPGYWMLFVM 623
>pdb|2V0C|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate In The
Synthetic Site And An Adduct Of Amp With 5-Fluoro-1,3-
Dihydro-1-Hydroxy-2,1-Benzoxaborole (An2690) In The
Editing Site
Length = 878
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 23/120 (19%)
Query: 145 PHSRYNLTSGSKYPTELRIEKFYPPYFDESFASYRPSIVSKFKGKMVKYGQNFVIQFKLD 204
P S +L K ELR P+ D + ++P+++SK KG V G FV + D
Sbjct: 606 PESALSLEDVRKMGAELR------PHEDGTLHLWKPAVMSKSKGNGVMVGP-FVKEQGAD 658
Query: 205 ELEVSLNDLKVTMYAPP-----FTTHGVSMGQRLL------VLATKELIDVGSGIFQVSV 253
+ + + APP +T GV R L V +E + SG+FQ
Sbjct: 659 -----IARITILFAAPPENEMVWTEEGVQGAWRFLNRIYRRVAEDREALLETSGVFQAEA 713
>pdb|1OBH|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Pre-Transfer Editing Substrate Analogue In Both
Synthetic Active Site And Editing Site
pdb|2BTE|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BTE|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BYT|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|2BYT|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|1H3N|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate
pdb|1OBC|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Post-Transfer Editing Substrate Analogue
pdb|2V0G|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site.
pdb|2V0G|D Chain D, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site
Length = 878
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 23/120 (19%)
Query: 145 PHSRYNLTSGSKYPTELRIEKFYPPYFDESFASYRPSIVSKFKGKMVKYGQNFVIQFKLD 204
P S +L K ELR P+ D + ++P+++SK KG V G FV + D
Sbjct: 606 PESALSLEDVRKMGAELR------PHEDGTLHLWKPAVMSKSKGNGVMVGP-FVKEQGAD 658
Query: 205 ELEVSLNDLKVTMYAPP-----FTTHGVSMGQRLL------VLATKELIDVGSGIFQVSV 253
+ + + APP +T GV R L V +E + SG+FQ
Sbjct: 659 -----IARITILFAAPPENEMVWTEEGVQGAWRFLNRIYRRVAEDREALLETSGVFQAEA 713
>pdb|1DKN|A Chain A, Crystal Structure Of Escherichia Coli Phytase At Ph 5.0
With Hg2+ Cation Acting As An Intermolecular Bridge
pdb|1DKO|A Chain A, Crystal Structure Of Tungstate Complex Of Escherichia Coli
Phytase At Ph 6.6 With Tungstate Bound At The Active
Site And With Hg2+ Cation Acting As An Intermolecular
Bridge
pdb|1DKM|A Chain A, Crystal Structure Of Escherichia Coli Phytase At Ph 6.6
With Hg2+ Cation Acting As An Intermolecular Bridge
Length = 410
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 215 VTMYAPPFTTHGVSMGQRLLVLATKE--LIDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+T + P +GV++ +L +A + L ++G G +++ T P PP L+F
Sbjct: 279 LTPHPPQKQAYGVTLPTSVLFIAGHDTNLANLG-GALELNWTLPGQPDNTPPGGELVFER 337
Query: 273 YRQVPSPGTWVQI 285
+R++ W+Q+
Sbjct: 338 WRRLSDNSQWIQV 350
>pdb|1DKL|A Chain A, Crystal Structure Of Escherichia Coli Phytase At Ph 4.5
(No Ligand Bound)
pdb|1DKL|B Chain B, Crystal Structure Of Escherichia Coli Phytase At Ph 4.5
(No Ligand Bound)
Length = 410
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 215 VTMYAPPFTTHGVSMGQRLLVLATKE--LIDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+T + P +GV++ +L +A + L ++G G +++ T P PP L+F
Sbjct: 279 LTPHPPQKQAYGVTLPTSVLFIAGHDTNLANLG-GALELNWTLPGQPDNTPPGGELVFER 337
Query: 273 YRQVPSPGTWVQI 285
+R++ W+Q+
Sbjct: 338 WRRLSDNSQWIQV 350
>pdb|1DKP|A Chain A, Crystal Structure Of Phytate Complex Of Escherichia Coli
Phytase At Ph 6.6. Phytate Is Bound With Its 3-Phosphate
In The Active Site. Hg2+ Cation Acts As An
Intermolecular Bridge
pdb|1DKQ|A Chain A, Crystal Structure Of Phytate Complex Escherichia Coli
Phytase At Ph 5.0. Phytate Is Bound With Its 3-Phosphate
In The Active Site. Hg2+ Cation Acts As An
Intermolecular Bridge
Length = 410
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 215 VTMYAPPFTTHGVSMGQRLLVLATKE--LIDVGSGIFQVSVTAPPTAKIAPPSFYLLFVV 272
+T + P +GV++ +L +A + L ++G G +++ T P PP L+F
Sbjct: 279 LTPHPPQKQAYGVTLPTSVLFIAGHDTNLANLG-GALELNWTLPGQPDNTPPGGELVFER 337
Query: 273 YRQVPSPGTWVQI 285
+R++ W+Q+
Sbjct: 338 WRRLSDNSQWIQV 350
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
0.318 0.136 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,133,480
Number of Sequences: 62578
Number of extensions: 380316
Number of successful extensions: 872
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 857
Number of HSP's gapped (non-prelim): 14
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)