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= 039705
(539 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 = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 461 RTFHTSVVLPDGSTFITGGQRRGIIFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 515
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
HS S++LPDG++ G G + F P Y +S + RP I
Sbjct: 516 AYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYDSNGNLATRPKI 568
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 569 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 619
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 620 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 659
>pdb|1K3I|A Chain A, Crystal Structure Of The Precursor Of Galactose Oxidase
Length = 656
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 456 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 510
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 511 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 563
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 564 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 614
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 615 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 654
>pdb|2EID|A Chain A, Galactose Oxidase W290g Mutant
Length = 639
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 493
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 494 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 546
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 547 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 597
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 598 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 637
>pdb|2EIB|A Chain A, Crystal Structure Of Galactose Oxidase, W290h Mutant
Length = 639
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 493
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 494 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 546
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 547 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 597
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 598 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 637
>pdb|2EIC|A Chain A, Crystal Structure Of Galactose Oxidase Mutant W290f
Length = 639
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 493
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 494 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 546
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 547 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 597
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 598 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 637
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 493
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 494 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 546
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 547 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 597
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 598 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 637
>pdb|1T2X|A Chain A, Glactose Oxidase C383s Mutant Identified By Directed
Evolution
Length = 639
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 28/224 (12%)
Query: 318 RVMGEMLLLPTGDVLIINGAKKGTAGWNFATDPNTTPVLYEPDDPINERFSELTPTSKPR 377
R ++LP G I G ++G + + P TP +Y P+ + F + P S R
Sbjct: 439 RTFHTSVVLPDGSTFITGGQRRGIPFED--STPVFTPEIYVPE---QDTFYKQNPNSIVR 493
Query: 378 MCHSTSVVLPDGKILVAGSNPHSRYNLTSGSKYPTELRIEKFYPPYFDESFA--SYRPSI 435
+ HS S++LPDG++ G G + F P Y S + RP I
Sbjct: 494 VYHSISLLLPDGRVFNGGGG-------LCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKI 546
Query: 436 VSKFKGKMLKYGQNFVIQFKLDELEVSLNDLKVTMYAPPFTTHGVSMGQRLLVPATKELI 495
++ + +K G I + S++ + Y TH V+ QR +P T
Sbjct: 547 -TRTSTQSVKVGGRITI-----STDSSISKASLIRYGT--ATHTVNTDQR-RIPLTLTNN 597
Query: 496 DVGSGIFQVSVMAPPTAKIAPPSFYLLFVVYRQ-VPSPGTWVQI 538
S FQV P + +A P +++LFV+ VPS + +++
Sbjct: 598 GGNSYSFQV----PSDSGVALPGYWMLFVMNSAGVPSVASTIRV 637
>pdb|1NOF|A Chain A, The First Crystallographic Structure Of A Xylanase From
Glycosyl Hydrolase Family 5: Implications For Catalysis
pdb|2Y24|A Chain A, Structural Basis For Substrate Recognition By Erwinia
Chrysanthemi Gh5 Glucuronoxylanase
Length = 383
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%)
Query: 32 SAMHIILFPNTNKAIMLDAVSLGPSNVRLPVGIYRLNPGAWQKYVDYRALAVEYDAES 89
S +H+ + NT+ +++ AV+ S+ L + I N ++KY +L VEY S
Sbjct: 303 SNVHLTAYKNTDGKMVIVAVNTNDSDQMLSLNISNANVTKFEKYSTSASLNVEYGGSS 360
>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 = 2.5, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 50/121 (41%), Gaps = 23/121 (19%)
Query: 398 PHSRYNLTSGSKYPTELRIEKFYPPYFDESFASYRPSIVSKFKGKMLKYGQNFVIQFKLD 457
P S +L K ELR P+ D + ++P+++SK KG + G FV + D
Sbjct: 606 PESALSLEDVRKMGAELR------PHEDGTLHLWKPAVMSKSKGNGVMVGP-FVKEQGAD 658
Query: 458 ELEVSLNDLKVTMYAPP-----FTTHGVSMGQRLL------VPATKELIDVGSGIFQVSV 506
+ + + APP +T GV R L V +E + SG+FQ
Sbjct: 659 -----IARITILFAAPPENEMVWTEEGVQGAWRFLNRIYRRVAEDREALLETSGVFQAEA 713
Query: 507 M 507
+
Sbjct: 714 L 714
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 50/121 (41%), Gaps = 23/121 (19%)
Query: 398 PHSRYNLTSGSKYPTELRIEKFYPPYFDESFASYRPSIVSKFKGKMLKYGQNFVIQFKLD 457
P S +L K ELR P+ D + ++P+++SK KG + G FV + D
Sbjct: 606 PESALSLEDVRKMGAELR------PHEDGTLHLWKPAVMSKSKGNGVMVGP-FVKEQGAD 658
Query: 458 ELEVSLNDLKVTMYAPP-----FTTHGVSMGQRLL------VPATKELIDVGSGIFQVSV 506
+ + + APP +T GV R L V +E + SG+FQ
Sbjct: 659 -----IARITILFAAPPENEMVWTEEGVQGAWRFLNRIYRRVAEDREALLETSGVFQAEA 713
Query: 507 M 507
+
Sbjct: 714 L 714
>pdb|2R9Y|A Chain A, Structure Of Antiplasmin
Length = 430
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 3 SYPKSLVLLPLTLYEFKGKWELASENSGISAMHIILFPNTNKAI--MLDAV--SLGPSNV 58
S +LVL PL++ L ++N + ++H +L NT + +L +LGP +
Sbjct: 40 STSSNLVLSPLSVALALSHLALGAQNQTLHSLHRVLHMNTGSCLPHLLSHFYQNLGPGTI 99
Query: 59 RLPVGIY 65
RL IY
Sbjct: 100 RLAARIY 106
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
0.319 0.137 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,052,486
Number of Sequences: 62578
Number of extensions: 724929
Number of successful extensions: 1619
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1594
Number of HSP's gapped (non-prelim): 22
length of query: 539
length of database: 14,973,337
effective HSP length: 104
effective length of query: 435
effective length of database: 8,465,225
effective search space: 3682372875
effective search space used: 3682372875
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)