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= 042303
(519 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EIC|A Chain A, Crystal Structure Of Galactose Oxidase Mutant W290f
Length = 639
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 99/417 (23%), Positives = 160/417 (38%), Gaps = 57/417 (13%)
Query: 68 DTWCSSGGLTVDGHLVGTGGYQGGANTVRYLWTCDTCDWIEYPTALAEPRWYSTQVTLPD 127
D +C + +G +V TGG + L+ + WI P + R Y + T+ D
Sbjct: 225 DMFCPGISMDGNGQIVVTGGNDAKKTS---LYDSSSDSWIPGPD-MQVARGYQSSATMSD 280
Query: 128 GGFIVVGGRGAFSYEYIPPQGQ----SNKQSIYLPLLRETHDQLAGHFGTENFYRIENNL 183
G +GG +FS G+ S+K LP + A G YR +N+
Sbjct: 281 GRVFTIGG--SFSGGVFEKNGEVYSPSSKTWTSLPNAKVNPMLTADKQG---LYRSDNHA 335
Query: 184 YPFVNLVTDGNLFIFSNNRSILFDPKANRVIREYPVLTGGSRNYPASGMSV----LLPIK 239
+ +F + +F + + Y T GS + ++G + P
Sbjct: 336 W------------LFGWKKGSVFQAGPSTAMNWY--YTSGSGDVKSAGKRQSNRGVAPDA 381
Query: 240 L--HAGHQKIIHSDILVCGGAAWDAFYYAEDKKQFWPALQDCGRIRITEPNPVWKKEMMP 297
+ +A + IL GG+ Y + + G T PN V+ +
Sbjct: 382 MCGNAVMYDAVKGKILTFGGSP----DYQDSDATTNAHIITLGEPG-TSPNTVFASNGLY 436
Query: 298 TRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEKRHHRFQELAPTTI 357
R +LP G + G + G + P P +Y ++ F + P +I
Sbjct: 437 FARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQDT---FYKQNPNSI 491
Query: 358 PRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYLDPALAHL--RPEI 415
R+YHS+S+LLPDG+V G +H + F+P YL + +L RP+I
Sbjct: 492 VRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYLYNSNGNLATRPKI 546
Query: 416 VLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMNQRLVILGLVE 472
+ V G RI+I ++ K S IR Y A TH + +QR + L L
Sbjct: 547 TRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTDQRRIPLTLTN 596
>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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 82/190 (43%), Gaps = 19/190 (10%)
Query: 285 TEPNPVWKKEMMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEK 344
T PN V+ + R +LP G + G + G + P P +Y ++
Sbjct: 424 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQD 481
Query: 345 RHHRFQELAPTTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYL 404
F + P +I R+YHS+S+LLPDG+V G +H + F+P YL
Sbjct: 482 T---FYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYL 533
Query: 405 DPALAHL--RPEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMN 462
+ +L RP+I + V G RI+I ++ K S IR Y A TH + +
Sbjct: 534 YNSNGNLATRPKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTD 586
Query: 463 QRLVILGLVE 472
QR + L L
Sbjct: 587 QRRIPLTLTN 596
>pdb|2EIB|A Chain A, Crystal Structure Of Galactose Oxidase, W290h Mutant
Length = 639
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 82/190 (43%), Gaps = 19/190 (10%)
Query: 285 TEPNPVWKKEMMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEK 344
T PN V+ + R +LP G + G + G + P P +Y ++
Sbjct: 424 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQD 481
Query: 345 RHHRFQELAPTTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYL 404
F + P +I R+YHS+S+LLPDG+V G +H + F+P YL
Sbjct: 482 T---FYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYL 533
Query: 405 DPALAHL--RPEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMN 462
+ +L RP+I + V G RI+I ++ K S IR Y A TH + +
Sbjct: 534 YNSNGNLATRPKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTD 586
Query: 463 QRLVILGLVE 472
QR + L L
Sbjct: 587 QRRIPLTLTN 596
>pdb|2EID|A Chain A, Galactose Oxidase W290g Mutant
Length = 639
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 82/190 (43%), Gaps = 19/190 (10%)
Query: 285 TEPNPVWKKEMMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEK 344
T PN V+ + R +LP G + G + G + P P +Y ++
Sbjct: 424 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQD 481
Query: 345 RHHRFQELAPTTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYL 404
F + P +I R+YHS+S+LLPDG+V G +H + F+P YL
Sbjct: 482 T---FYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYL 533
Query: 405 DPALAHL--RPEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMN 462
+ +L RP+I + V G RI+I ++ K S IR Y A TH + +
Sbjct: 534 YNSNGNLATRPKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTD 586
Query: 463 QRLVILGLVE 472
QR + L L
Sbjct: 587 QRRIPLTLTN 596
>pdb|1K3I|A Chain A, Crystal Structure Of The Precursor Of Galactose Oxidase
Length = 656
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 82/190 (43%), Gaps = 19/190 (10%)
Query: 285 TEPNPVWKKEMMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEK 344
T PN V+ + R +LP G + G + G + P P +Y ++
Sbjct: 441 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQD 498
Query: 345 RHHRFQELAPTTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYL 404
F + P +I R+YHS+S+LLPDG+V G +H + F+P YL
Sbjct: 499 T---FYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYL 550
Query: 405 DPALAHL--RPEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMN 462
+ +L RP+I + V G RI+I ++ K S IR Y A TH + +
Sbjct: 551 YNSNGNLATRPKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTD 603
Query: 463 QRLVILGLVE 472
QR + L L
Sbjct: 604 QRRIPLTLTN 613
>pdb|1T2X|A Chain A, Glactose Oxidase C383s Mutant Identified By Directed
Evolution
Length = 639
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 82/190 (43%), Gaps = 19/190 (10%)
Query: 285 TEPNPVWKKEMMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEK 344
T PN V+ + R +LP G + G + G + P P +Y ++
Sbjct: 424 TSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPF--EDSTPVFTPEIYVPEQD 481
Query: 345 RHHRFQELAPTTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYL 404
F + P +I R+YHS+S+LLPDG+V G +H + F+P YL
Sbjct: 482 T---FYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYL 533
Query: 405 DPALAHL--RPEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMN 462
+ +L RP+I + V G RI+I ++ K S IR Y A TH + +
Sbjct: 534 YNSNGNLATRPKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTD 586
Query: 463 QRLVILGLVE 472
QR + L L
Sbjct: 587 QRRIPLTLTN 596
>pdb|2WQ8|A Chain A, Glycan Labelling Using Engineered Variants Of Galactose
Oxidase Obtained By Directed Evolution
Length = 661
Score = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 100/420 (23%), Positives = 159/420 (37%), Gaps = 63/420 (15%)
Query: 68 DTWCSSGGLTVDGHLVGTGGYQGGANTVRYLWTCDTCDWIEYPTALAEPRWYSTQVTLPD 127
D +C + +G +V TGG + L+ + WI P + R Y + T+ D
Sbjct: 247 DMFCPGISMDGNGQIVVTGGNDAKKTS---LYDSSSDSWIPGPD-MQVARGYQSSATMSD 302
Query: 128 GGFIVVGGRGAFSYEYIPPQGQSNKQSIYLPLLRETHDQLAGHFGTENFYRIEN-NLYPF 186
G +GG +FS G+ +Y P ++ + + N + P
Sbjct: 303 GRVFTIGG--SFSGGVFEKNGE-----VYSP-------------SSKTWTSLPNAKVNPM 342
Query: 187 VNLVTDGNLFIFSNNRSILFDPKANRVIREYPVL------TGGSRNYPASGMSV----LL 236
L D S+N + LF K V + P T GS + ++G +
Sbjct: 343 --LTADKQGLYKSDNHAWLFGWKKGSVFQAGPSTAMNWYYTSGSGDVKSAGKRQSNRGVA 400
Query: 237 PIKL--HAGHQKIIHSDILVCGGAAWDAFYYAEDKKQFWPALQDCGRIRITEPNPVWKKE 294
P + +A + IL GG+ Y + + G T PN V+
Sbjct: 401 PDAMCGNAVMYDAVKGKILTFGGSP----DYTDSDATTNAHIITLGEPG-TSPNTVFASN 455
Query: 295 MMPTRRVMGDMTILPTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTKEKRHHRFQELAP 354
+ R +LP G + G + G + P P +Y ++ F + P
Sbjct: 456 GLYFARTFHTSVVLPDGSTFITGGQRRGIIF--EDSTPVFTPEIYVPEQDT---FYKQNP 510
Query: 355 TTIPRMYHSVSVLLPDGKVLIAGSNTHDGYKFDHKYPTELRVEKFSPPYLDPALAHL--R 412
+I R YHS+S+LLPDG+V G +H + F+P YL + +L R
Sbjct: 511 NSIVRAYHSISLLLPDGRVFNGGGGLCGDCTTNH-----FDAQIFTPNYLYDSNGNLATR 565
Query: 413 PEIVLDKSDCMVGYGQRISIQVKTTEGIKQSDIRITMYAPAFTTHGTSMNQRLVILGLVE 472
P+I + V G RI+I ++ K S IR Y A TH + +QR + L L
Sbjct: 566 PKITRTSTQS-VKVGGRITISTDSSIS-KASLIR---YGTA--THTVNTDQRRIPLTLTN 618
>pdb|1B6I|A Chain A, T4 Lysozyme Mutant With Cys 54 Replaced By Thr, Cys 97
Replaced By Ala, Thr 21 Replaced By Cys And Lys 124
Replaced By Cys (C54t,C97a,T21c,K124c)
Length = 164
Score = 32.0 bits (71), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 7/78 (8%)
Query: 43 EVDCWAHSVLFDIETAKLKPLKIQTDTWCSSGGLTVDGHLVGTGGYQGGANTVRYLWTCD 102
+VD +L AKLKP+ D L +G G G N++R L
Sbjct: 70 DVDAAVRGIL---RNAKLKPVYDSLDA-VRRAALINMVFQMGETGVAGFTNSLRML---Q 122
Query: 103 TCDWIEYPTALAEPRWYS 120
C W E LA+ RWY+
Sbjct: 123 QCRWDEAAVNLAKSRWYN 140
>pdb|1QUM|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv In
Complex With Damaged Dna
pdb|1QTW|A Chain A, High-resolution Crystal Structure Of The Escherichia Coli
Dna Repair Enzyme Endonuclease Iv
Length = 285
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 31/138 (22%)
Query: 322 GTSAWNDAEEPALAPALYKTKEKRHHRFQELAPTTIPRM------YHSVSV-LLPDGKVL 374
+A AE A A AL+ TK +R R L TI YH S +LP
Sbjct: 15 ANAAIRAAEIDATAFALF-TKNQRQWRAAPLTTQTIDEFKAACEKYHYTSAQILP----- 68
Query: 375 IAGSNTHDGYKFDHKYPTELRVEKFSPPYLDP---------ALAHLRPE---IVLDKSDC 422
HD Y + +P +EK ++D +L + P + + + DC
Sbjct: 69 ------HDSYLINLGHPVTEALEKSRDAFIDEMQRCEQLGLSLLNFHPGSHLMQISEEDC 122
Query: 423 MVGYGQRISIQVKTTEGI 440
+ + I+I + T+G+
Sbjct: 123 LARIAESINIALDKTQGV 140
>pdb|2NQH|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
Endonuclease Iv (Endo Iv) E261q Mutant
pdb|2NQJ|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv
(Endo Iv) E261q Mutant Bound To Damaged Dna
pdb|2NQJ|B Chain B, Crystal Structure Of Escherichia Coli Endonuclease Iv
(Endo Iv) E261q Mutant Bound To Damaged Dna
Length = 285
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 31/138 (22%)
Query: 322 GTSAWNDAEEPALAPALYKTKEKRHHRFQELAPTTIPRM------YHSVSV-LLPDGKVL 374
+A AE A A AL+ TK +R R L TI YH S +LP
Sbjct: 15 ANAAIRAAEIDATAFALF-TKNQRQWRAAPLTTQTIDEFKAACEKYHYTSAQILP----- 68
Query: 375 IAGSNTHDGYKFDHKYPTELRVEKFSPPYLDP---------ALAHLRPE---IVLDKSDC 422
HD Y + +P +EK ++D +L + P + + + DC
Sbjct: 69 ------HDSYLINLGHPVTEALEKSRDAFIDEMQRCEQLGLSLLNFHPGSHLMQISEEDC 122
Query: 423 MVGYGQRISIQVKTTEGI 440
+ + I+I + T+G+
Sbjct: 123 LARIAESINIALDKTQGV 140
>pdb|1GNC|A Chain A, Structure And Dynamics Of The Human Granulocyte Colony-
Stimulating Factor Determined By Nmr Spectroscopy. Loop
Mobility In A Four-Helix-Bundle Protein
Length = 178
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 309 PTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTK 342
PT D L ++ A T+ W EE +APAL T+
Sbjct: 105 PTLDTLQLDVADFATTIWQQMEELGMAPALQPTQ 138
>pdb|1CD9|A Chain A, 2:2 Complex Of G-Csf With Its Receptor
pdb|1CD9|C Chain C, 2:2 Complex Of G-Csf With Its Receptor
pdb|1PGR|A Chain A, 2:2 Complex Of G-Csf With Its Receptor
pdb|1PGR|C Chain C, 2:2 Complex Of G-Csf With Its Receptor
pdb|1PGR|E Chain E, 2:2 Complex Of G-Csf With Its Receptor
pdb|1PGR|G Chain G, 2:2 Complex Of G-Csf With Its Receptor
Length = 175
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 309 PTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTK 342
PT D L ++ A T+ W EE +APAL T+
Sbjct: 102 PTLDTLQLDVADFATTIWQQMEELGMAPALQPTQ 135
>pdb|1RHG|A Chain A, The Structure Of Granulocyte-Colony-Stimulating Factor And
Its Relationship To Those Of Other Growth Factors
pdb|1RHG|B Chain B, The Structure Of Granulocyte-Colony-Stimulating Factor And
Its Relationship To Those Of Other Growth Factors
pdb|1RHG|C Chain C, The Structure Of Granulocyte-Colony-Stimulating Factor And
Its Relationship To Those Of Other Growth Factors
pdb|2D9Q|A Chain A, Crystal Structure Of The Human Gcsf-Receptor Signaling
Complex
Length = 174
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 309 PTGDVLLVNGAQNGTSAWNDAEEPALAPALYKTK 342
PT D L ++ A T+ W EE +APAL T+
Sbjct: 101 PTLDTLQLDVADFATTIWQQMEELGMAPALQPTQ 134
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 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,335,953
Number of Sequences: 62578
Number of extensions: 783024
Number of successful extensions: 1339
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: 1300
Number of HSP's gapped (non-prelim): 29
length of query: 519
length of database: 14,973,337
effective HSP length: 103
effective length of query: 416
effective length of database: 8,527,803
effective search space: 3547566048
effective search space used: 3547566048
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: 54 (25.4 bits)