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= 042680
(530 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 389 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 443
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 444 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 498
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 499 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 553
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 554 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 600
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 601 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 630
>pdb|2EIC|A Chain A, Crystal Structure Of Galactose Oxidase Mutant W290f
Length = 639
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 389 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 443
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 444 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 498
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 499 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 553
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 554 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 600
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 601 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 630
>pdb|2EIB|A Chain A, Crystal Structure Of Galactose Oxidase, W290h Mutant
Length = 639
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 389 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 443
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 444 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 498
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 499 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 553
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 554 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 600
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 601 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 630
>pdb|1K3I|A Chain A, Crystal Structure Of The Precursor Of Galactose Oxidase
Length = 656
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 406 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 460
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 461 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 515
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 516 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 570
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 571 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 617
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 618 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 647
>pdb|2EID|A Chain A, Galactose Oxidase W290g Mutant
Length = 639
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 389 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 443
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 444 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 498
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 499 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 553
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 554 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 600
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 601 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 630
>pdb|1T2X|A Chain A, Glactose Oxidase C383s Mutant Identified By Directed
Evolution
Length = 639
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 111/270 (41%), Gaps = 31/270 (11%)
Query: 256 YKPVDAEVLICGGSVREGLYLGEEEKRFVNALDDCARMVVTSPNPEWKIEKMPAPRTMAD 315
Y V ++L GGS ++ NA TSPN + + RT
Sbjct: 389 YDAVKGKILTFGGSPDY-----QDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHT 443
Query: 316 GVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAPEGQRFAELAPTDIPRMYHSV 375
V+LP+G I G G P P +Y PE F + P I R+YHS+
Sbjct: 444 SVVLPDGSTFITGGQRRGIP--FEDSTPVFTPEIY---VPEQDTFYKQNPNSIVRVYHSI 498
Query: 376 ANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYLAPEYA--ALRPAILEDQSDK 433
+ LLPDG+VF GG G + FTP YL A RP I +
Sbjct: 499 SLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQS 553
Query: 434 AATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMNQRMLFLSVIELKNNVAPGVD 493
G R+ S +I+ + S++ TH ++ +QR + L+ L NN G +
Sbjct: 554 VKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTDQRRIPLT---LTNN---GGN 600
Query: 494 EVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
P S +A PGY++L V+N G+PS
Sbjct: 601 SYSFQVPSDSGVALPGYWMLFVMNSAGVPS 630
>pdb|2WQ8|A Chain A, Glycan Labelling Using Engineered Variants Of Galactose
Oxidase Obtained By Directed Evolution
Length = 661
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 70/230 (30%), Positives = 98/230 (42%), Gaps = 26/230 (11%)
Query: 296 TSPNPEWKIEKMPAPRTMADGVLLPNGEVLIINGADLGSGGWHCADKPSLKPMLYRPNAP 355
TSPN + + RT V+LP+G I G G P P +Y P
Sbjct: 446 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGI--IFEDSTPVFTPEIY---VP 500
Query: 356 EGQRFAELAPTDIPRMYHSVANLLPDGKVFVGGSNDNDGYFEFAKFPTELRLEKFTPPYL 415
E F + P I R YHS++ LLPDG+VF GG G + FTP YL
Sbjct: 501 EQDTFYKQNPNSIVRAYHSISLLLPDGRVFNGG-----GGLCGDCTTNHFDAQIFTPNYL 555
Query: 416 APEYA--ALRPAILEDQSDKAATYGKWVYLRVKSSEPLTINYVQVSIVAPPFVTHGISMN 473
A RP I + G R+ S +I+ + S++ TH ++ +
Sbjct: 556 YDSNGNLATRPKITRTSTQSVKVGG-----RITISTDSSIS--KASLIRYGTATHTVNTD 608
Query: 474 QRMLFLSVIELKNNVAPGVDEVVVAAPPTSALAPPGYYLLSVVNQ-GIPS 522
QR + L+ L NN G + P S +A PGY++L V+N G+PS
Sbjct: 609 QRRIPLT---LTNN---GGNSYSFQVPSDSGVALPGYWMLFVMNSAGVPS 652
>pdb|3IZB|F Chain F, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|D Chain D, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|D Chain D, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|F Chain F, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|F Chain F, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 225
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 407 LEKFTPPYLAPEYAALRPAILEDQSDKAATYGKWVYLRVKSSEPLTINYVQVSIVAPPFV 466
+E+FTP LA P ++ + + KW + V+ + ++YVQV P FV
Sbjct: 17 VEEFTPVVLATPI----PEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQVR--QPIFV 70
Query: 467 TH 468
H
Sbjct: 71 AH 72
>pdb|2YWC|A Chain A, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus In Complex With Xmp
pdb|2YWC|B Chain B, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus In Complex With Xmp
pdb|2YWC|C Chain C, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus In Complex With Xmp
pdb|2YWC|D Chain D, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus In Complex With Xmp
Length = 503
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 202 PDGNVYVFANNRSVVHDPKANKIIREFPQLPGGARSY 238
PDG Y + V H PK +I+ F +L G R +
Sbjct: 154 PDGRAYGVQFHPEVAHTPKGXQILENFLELAGVKRDW 190
>pdb|2YWB|A Chain A, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus
pdb|2YWB|B Chain B, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus
pdb|2YWB|C Chain C, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus
pdb|2YWB|D Chain D, Crystal Structure Of Gmp Synthetase From Thermus
Thermophilus
Length = 503
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 202 PDGNVYVFANNRSVVHDPKANKIIREFPQLPGGARSY 238
PDG Y + V H PK +I+ F +L G R +
Sbjct: 154 PDGRAYGVQFHPEVAHTPKGMQILENFLELAGVKRDW 190
>pdb|2IWA|A Chain A, Unbound Glutaminyl Cyclotransferase From Carica Papaya.
pdb|2FAW|A Chain A, Crystal Structure Of Papaya Glutaminyl Cyclase
pdb|2FAW|B Chain B, Crystal Structure Of Papaya Glutaminyl Cyclase
Length = 266
Score = 28.5 bits (62), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 29/56 (51%)
Query: 89 LTNQTAEDCWCHSIFYDYNKNAVKALKVQSDTWCSSGGLSADGRLVMLSDGSFLVY 144
L + + W +I + Y++ + +K + GL+ DG+++ SDG+ ++Y
Sbjct: 74 LNEKLYQVVWLKNIGFIYDRRTLSNIKNFTHQMKDGWGLATDGKILYGSDGTSILY 129
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 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,769,764
Number of Sequences: 62578
Number of extensions: 753458
Number of successful extensions: 1612
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1584
Number of HSP's gapped (non-prelim): 17
length of query: 530
length of database: 14,973,337
effective HSP length: 103
effective length of query: 427
effective length of database: 8,527,803
effective search space: 3641371881
effective search space used: 3641371881
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)