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= 012707
(458 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile Lyase From Almond
pdb|1JU2|B Chain B, Crystal Structure Of The Hydroxynitrile Lyase From Almond
Length = 536
Score = 278 bits (711), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 160/434 (36%), Positives = 234/434 (53%), Gaps = 48/434 (11%)
Query: 31 VGWDERLVNESYQWVEKVVAFEPPMRQWQSAVRDGLVEVGVLPYNGFTYDHMYGTKIGGT 90
V WD LVN++Y+WVE + ++P + WQS + +E GV P +GF+ DH GT+I G+
Sbjct: 127 VDWDMDLVNQTYEWVEDTIVYKPNSQSWQSVTKTAFLEAGVHPNHGFSLDHEEGTRITGS 186
Query: 91 IFDQNGQRHTAADLLEYANPSGLTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHR 150
FD G RH A +LL N + L + +HASV K++F A GV++RD+ G H+
Sbjct: 187 TFDNKGTRHAADELLNKGNSNNLRVGVHASVEKIIF--SNAPGLTATGVIYRDSNGTPHQ 244
Query: 151 AYLKNGPKNEIIVSAGALGSPQLLMLSG--------AHNITVVLDQPLVGQGMSDNPMNA 202
A++++ K E+IVSAG +G+PQLL+LSG + NI VVL P VGQ + DNP N
Sbjct: 245 AFVRS--KGEVIVSAGTIGTPQLLLLSGVGPESYLSSLNIPVVLSHPYVGQFLHDNPRNF 302
Query: 203 IFVPSPVPVEVSLIQVVGITQFGSYIEAASGENFAGGSPSPRDYGMFSPKIGQLSKVPPK 262
I + P P+E +++ V+GI+ + + + F+ + +G F P
Sbjct: 303 INILPPNPIEPTIVTVLGISN--DFYQCS----FSSLPFTTPPFGFF-----------PS 345
Query: 263 QRTPEAIAEAIENMKALDDPAFRGGFILEKVMGPVSTGHLELR-TRNPNDNPSVTFNYFK 321
P L + F KV GP+S G L L+ + N +P+V FNY+
Sbjct: 346 SSYP------------LPNSTF--AHFASKVAGPLSYGSLTLKSSSNVRVSPNVKFNYYS 391
Query: 322 EPEDLQRCVQGXXXXXXXXXXXXXXXXXYESMSVPILVNMTASAPVNLLPRHSNASTSLE 381
DL CV G E + N+ LP+ + E
Sbjct: 392 NLTDLSHCVSGMKKIGELLSTDALKPYKVEDLPGVEGFNILGIP----LPKDQTDDAAFE 447
Query: 382 QFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGR 441
FCR++V + WHYHGGC VGKV+D D++V G++ALRV+DGSTF Y+P ++PQ +MLGR
Sbjct: 448 TFCRESVASYWHYHGGCLVGKVLDGDFRVTGINALRVVDGSTFPYTPASHPQGFYLMLGR 507
Query: 442 YMGVRILSERLASN 455
Y+G++IL ER AS+
Sbjct: 508 YVGIKILQERSASD 521
>pdb|3GDN|A Chain A, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDN|B Chain B, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDP|A Chain A, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
pdb|3GDP|B Chain B, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
Length = 521
Score = 278 bits (710), Expect = 6e-75, Method: Compositional matrix adjust.
Identities = 160/434 (36%), Positives = 234/434 (53%), Gaps = 48/434 (11%)
Query: 31 VGWDERLVNESYQWVEKVVAFEPPMRQWQSAVRDGLVEVGVLPYNGFTYDHMYGTKIGGT 90
V WD LVN++Y+WVE + ++P + WQS + +E GV P +GF+ DH GT+I G+
Sbjct: 127 VDWDMDLVNQTYEWVEDTIVYKPNSQSWQSVTKTAFLEAGVHPNHGFSLDHEEGTRITGS 186
Query: 91 IFDQNGQRHTAADLLEYANPSGLTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHR 150
FD G RH A +LL N + L + +HASV K++F A GV++RD+ G H+
Sbjct: 187 TFDNKGTRHAADELLNKGNSNNLRVGVHASVEKIIF--SNAPGLTATGVIYRDSNGTPHQ 244
Query: 151 AYLKNGPKNEIIVSAGALGSPQLLMLSG--------AHNITVVLDQPLVGQGMSDNPMNA 202
A++++ K E+IVSAG +G+PQLL+LSG + NI VVL P VGQ + DNP N
Sbjct: 245 AFVRS--KGEVIVSAGTIGTPQLLLLSGVGPESYLSSLNIPVVLSHPYVGQFLHDNPRNF 302
Query: 203 IFVPSPVPVEVSLIQVVGITQFGSYIEAASGENFAGGSPSPRDYGMFSPKIGQLSKVPPK 262
I + P P+E +++ V+GI+ + + + F+ + +G F P
Sbjct: 303 INILPPNPIEPTIVTVLGISN--DFYQCS----FSSLPFTTPPFGFF-----------PS 345
Query: 263 QRTPEAIAEAIENMKALDDPAFRGGFILEKVMGPVSTGHLELR-TRNPNDNPSVTFNYFK 321
P L + F KV GP+S G L L+ + N +P+V FNY+
Sbjct: 346 SSYP------------LPNSTF--AHFASKVAGPLSYGSLTLKSSSNVRVSPNVKFNYYS 391
Query: 322 EPEDLQRCVQGXXXXXXXXXXXXXXXXXYESMSVPILVNMTASAPVNLLPRHSNASTSLE 381
DL CV G E + N+ LP+ + E
Sbjct: 392 NLTDLSHCVSGMKKIGELLSTDALKPYKVEDLPGVEGFNILGIP----LPKDQTDDAAFE 447
Query: 382 QFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGR 441
FCR++V + WHYHGGC VGKV+D D++V G++ALRV+DGSTF Y+P ++PQ +MLGR
Sbjct: 448 TFCRESVASYWHYHGGCLVGKVLDGDFRVTGINALRVVDGSTFPYTPASHPQGFYLMLGR 507
Query: 442 YMGVRILSERLASN 455
Y+G++IL ER AS+
Sbjct: 508 YVGIKILQERSASD 521
>pdb|3RED|A Chain A, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|B Chain B, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|C Chain C, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|D Chain D, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|E Chain E, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|F Chain F, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|G Chain G, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|H Chain H, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|I Chain I, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|J Chain J, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|K Chain K, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|L Chain L, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
Length = 521
Score = 273 bits (698), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 159/433 (36%), Positives = 229/433 (52%), Gaps = 47/433 (10%)
Query: 31 VGWDERLVNESYQWVEKVVAFEPPMRQWQSAVRDGLVEVGVLPYNGFTYDHMYGTKIGGT 90
+ WD LVN++Y WVE + ++P + WQS + +E GVLP NGF+ DH GT++ G+
Sbjct: 127 IEWDMDLVNQTYDWVEDTIVYKPDKQAWQSLTKTAFLEAGVLPDNGFSLDHEAGTRLTGS 186
Query: 91 IFDQNGQRHTAADLLEYANPSGLTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHR 150
FD NG RH + +LL +P+ L + +HASV K++F + A GV+++D+ G H+
Sbjct: 187 TFDNNGTRHASDELLNKGDPNNLRVAVHASVEKIIFS-SNSSGVTAIGVIYKDSNGTPHQ 245
Query: 151 AYLKNGPKNEIIVSAGALGSPQLLMLSG--------AHNITVVLDQPLVGQGMSDNPMNA 202
A+++ + E+IVSAG +GSPQLL+LSG + NI VVL P VGQ + DNP N
Sbjct: 246 AFVRG--EGEVIVSAGPIGSPQLLLLSGVGPESYLSSLNIPVVLSHPYVGQFLHDNPRNF 303
Query: 203 IFVPSPVPVEVSLIQVVGITQFGSYIEAASGENFAGGSPSPRDYGMFSPKIGQLSKVPPK 262
I + P P+E S + V+GIT NF S S + +PP
Sbjct: 304 INILPPNPIEPSTVTVLGITS-----------NFYQCSFSSLPF-----------SIPPF 341
Query: 263 QRTPEAIAEAIENMKALDDPAFRGGFILEKVMGPVSTGHLELRT-RNPNDNPSVTFNYFK 321
P L + F + KV GP+S G + L + + P+V FNY+
Sbjct: 342 AFFPNP-------TYPLPNSTF--AHFVNKVPGPLSYGSITLNSDSDVRVAPNVKFNYYS 392
Query: 322 EPEDLQRCVQGXXXXXXXXXXXXXXXXXYESMSVPILVNMTASAPVNLLPRHSNASTSLE 381
DL CV G E + ++ LP + + E
Sbjct: 393 NSTDLAHCVSGMKKIGELLSSDALKPYKVEDLPGIDGFDILGIP----LPENQTDDAAFE 448
Query: 382 QFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGR 441
FCR+ V + WHYHGGC VG+V+D D++V G++ALRV+DGSTF YSP ++PQ +MLGR
Sbjct: 449 TFCREAVASYWHYHGGCLVGEVLDGDFRVTGINALRVVDGSTFPYSPASHPQGFYLMLGR 508
Query: 442 YMGVRILSERLAS 454
Y+G +IL ER A+
Sbjct: 509 YVGSKILQERSAA 521
>pdb|3NNE|A Chain A, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|B Chain B, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|C Chain C, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|D Chain D, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|E Chain E, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|F Chain F, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|G Chain G, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|H Chain H, Crystal Structure Of Choline Oxidase S101a Mutant
Length = 546
Score = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 93/358 (25%), Positives = 135/358 (37%), Gaps = 70/358 (19%)
Query: 113 LTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHRAYLKNGPKNEIIVSAGALGSPQ 172
TLL +++F + V + A G HR +N E+++S GA+ +P+
Sbjct: 224 FTLLTGLRARQLVFDADRRCTGVD---IVDSAFGHTHRLTARN----EVVLSTGAIDTPK 276
Query: 173 LLMLSG--------AHNITVVLDQPLVGQGMSDNPMNAIFVPSPVPVEVSLIQVVGITQF 224
LLMLSG H I V++D P VG+ + D+P + + P+ Q I F
Sbjct: 277 LLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDHPEGVVQFEAKQPMVAESTQWWEIGIF 336
Query: 225 GSYIEAASGENFAGGSPSPRDYGMFSPKIG-QLSKVPPKQRTPEAIAEAIENMKALDDPA 283
+P + G+ P + VP T EN
Sbjct: 337 -----------------TPTEDGLDRPDLMMHYGSVPFDMNTLRHGYPTTEN-------- 371
Query: 284 FRGGFILE-KVMGPVSTGHLELRTRNPNDNPSVTFNYFKEPE--DLQRCVQGXXXXXXXX 340
GF L V S G + LR+R+ D P V YF +PE D++ V G
Sbjct: 372 ---GFSLTPNVTHARSRGTVRLRSRDFRDKPMVDPRYFTDPEGHDMRVMVAGIRKAR--- 425
Query: 341 XXXXXXXXXYESMSVPILVNMTASAPVNLLPR-HSNASTSLEQFCRDTVMTIWHYHGGCQ 399
E + P + T L P + L+ + R T T++H G +
Sbjct: 426 ----------EIAAQPAMAEWTGR---ELSPGVEAQTDEELQDYIRKTHNTVYHPVGTVR 472
Query: 400 VGKVVDH------DYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILSER 451
+G V D + +V GV LRV D S NP TVMM+G I S R
Sbjct: 473 MGAVEDEMSPLDPELRVKGVTGLRVADASVMPEHVTVNPNITVMMIGERCADLIRSAR 530
>pdb|2JBV|A Chain A, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
pdb|2JBV|B Chain B, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
Length = 546
Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 93/358 (25%), Positives = 135/358 (37%), Gaps = 70/358 (19%)
Query: 113 LTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHRAYLKNGPKNEIIVSAGALGSPQ 172
TLL +++F + V + A G HR +N E+++S GA+ +P+
Sbjct: 224 FTLLTGLRARQLVFDADRRCTGVD---IVDSAFGHTHRLTARN----EVVLSTGAIDTPK 276
Query: 173 LLMLSG--------AHNITVVLDQPLVGQGMSDNPMNAIFVPSPVPVEVSLIQVVGITQF 224
LLMLSG H I V++D P VG+ + D+P + + P+ Q I F
Sbjct: 277 LLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDHPEGVVQFEAKQPMVAESTQWWEIGIF 336
Query: 225 GSYIEAASGENFAGGSPSPRDYGMFSPKIG-QLSKVPPKQRTPEAIAEAIENMKALDDPA 283
+P + G+ P + VP T EN
Sbjct: 337 -----------------TPTEDGLDRPDLMMHYGSVPFDMNTLRHGYPTTEN-------- 371
Query: 284 FRGGFILE-KVMGPVSTGHLELRTRNPNDNPSVTFNYFKEPE--DLQRCVQGXXXXXXXX 340
GF L V S G + LR+R+ D P V YF +PE D++ V G
Sbjct: 372 ---GFSLTPNVTHARSRGTVRLRSRDFRDKPMVDPRYFTDPEGHDMRVMVAGIRKAR--- 425
Query: 341 XXXXXXXXXYESMSVPILVNMTASAPVNLLPR-HSNASTSLEQFCRDTVMTIWHYHGGCQ 399
E + P + T L P + L+ + R T T++H G +
Sbjct: 426 ----------EIAAQPAMAEWTGR---ELSPGVEAQTDEELQDYIRKTHNTVYHPVGTVR 472
Query: 400 VGKVVDH------DYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILSER 451
+G V D + +V GV LRV D S NP TVMM+G I S R
Sbjct: 473 MGAVEDEMSPLDPELRVKGVTGLRVADASVMPEHVTVNPNITVMMIGERCADLIRSAR 530
>pdb|3LJP|A Chain A, Crystal Structure Of Choline Oxidase V464a Mutant
pdb|3LJP|B Chain B, Crystal Structure Of Choline Oxidase V464a Mutant
Length = 546
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 93/358 (25%), Positives = 134/358 (37%), Gaps = 70/358 (19%)
Query: 113 LTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHRAYLKNGPKNEIIVSAGALGSPQ 172
TLL +++F + V + A G HR +N E+++S GA+ +P+
Sbjct: 224 FTLLTGLRARQLVFDADRRCTGVD---IVDSAFGHTHRLTARN----EVVLSTGAIDTPK 276
Query: 173 LLMLSG--------AHNITVVLDQPLVGQGMSDNPMNAIFVPSPVPVEVSLIQVVGITQF 224
LLMLSG H I V++D P VG+ + D+P + + P+ Q I F
Sbjct: 277 LLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDHPEGVVQFEAKQPMVAESTQWWEIGIF 336
Query: 225 GSYIEAASGENFAGGSPSPRDYGMFSPKIG-QLSKVPPKQRTPEAIAEAIENMKALDDPA 283
+P + G+ P + VP T EN
Sbjct: 337 -----------------TPTEDGLDRPDLMMHYGSVPFDMNTLRHGYPTTEN-------- 371
Query: 284 FRGGFILE-KVMGPVSTGHLELRTRNPNDNPSVTFNYFKEPE--DLQRCVQGXXXXXXXX 340
GF L V S G + LR+R+ D P V YF +PE D++ V G
Sbjct: 372 ---GFSLTPNVTHARSRGTVRLRSRDFRDKPMVDPRYFTDPEGHDMRVMVAGIRKAR--- 425
Query: 341 XXXXXXXXXYESMSVPILVNMTASAPVNLLPR-HSNASTSLEQFCRDTVMTIWHYHGGCQ 399
E + P + T L P + L+ + R T T +H G +
Sbjct: 426 ----------EIAAQPAMAEWTGR---ELSPGVEAQTDEELQDYIRKTHNTAYHPVGTVR 472
Query: 400 VGKVVDH------DYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILSER 451
+G V D + +V GV LRV D S NP TVMM+G I S R
Sbjct: 473 MGAVEDEMSPLDPELRVKGVTGLRVADASVMPEHVTVNPNITVMMIGERCADLIRSAR 530
>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
Eryingii
Length = 566
Score = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 62/159 (38%), Gaps = 20/159 (12%)
Query: 289 ILEKVMGPVSTGHLELRTRNPNDNPSVTFNYFKEPEDLQRCVQGXXXXXXXXXXXXXXXX 348
+ ++ PV+ G ++L T NP D P + Y D+ +Q
Sbjct: 412 VTNALISPVARGDIKLATSNPFDKPLINPQYLSTEFDIFTMIQAVKSNLRFLSGQAWADF 471
Query: 349 XYESMSVPILVNMTASAPVNLLPRHSNASTSLEQFCRDTVMTIWHYHGGCQVGK------ 402
P + R ++E + RD TI+H G +
Sbjct: 472 VIR--------------PFDPRLRDPTDDAAIESYIRDNANTIFHPVGTASMSPRGASWG 517
Query: 403 VVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGR 441
VVD D KV GVD LR++DGS ++P + Q + ++G+
Sbjct: 518 VVDPDLKVKGVDGLRIVDGSILPFAPNAHTQGPIYLVGK 556
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 57/115 (49%), Gaps = 17/115 (14%)
Query: 95 NGQRHTAADLLEYANPS----GLTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHR 150
NGQR +++ Y P+ L++L++A V K++ P V + + GA
Sbjct: 203 NGQRSSSS--TAYLRPAQSRPNLSVLINAQVTKLVNSGTTNGLPAFRCVEYAEQEGAPTT 260
Query: 151 AYLKNGPKNEIIVSAGALGSPQLLMLSGAHN--------ITVVLDQPLVGQGMSD 197
K E+++SAG++G+P LL LSG + I +++ P VG+ +SD
Sbjct: 261 TVCA---KKEVVLSAGSVGTPILLQLSGIGDENDLSSVGIDTIVNNPSVGRNLSD 312
>pdb|3Q9T|A Chain A, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|B Chain B, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|C Chain C, Crystal Structure Analysis Of Formate Oxidase
Length = 577
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 73/349 (20%), Positives = 122/349 (34%), Gaps = 95/349 (27%)
Query: 160 EIIVSAGALGSPQLLMLSG--------AHNITVVLDQPLVGQGMSDNP------------ 199
E+I+S G +P+LLMLSG H I ++D VGQ + D+P
Sbjct: 261 EVILSQGVFETPKLLMLSGIGPTRELSRHGINTIVDSRHVGQNLMDHPGVPFVLRVKDGF 320
Query: 200 -MNAIFVP---------------SPVPVEVSLIQVVGITQFGSYIEAASGENFAGGSPSP 243
M+ + + PV L+++VG + Y+E + A +
Sbjct: 321 GMDDVLLRHGPKRDAVVSAYNKNRSGPVGSGLLELVGFPRIDKYLEKDAEYRKAKAANGG 380
Query: 244 RDYGMFSPKIGQ----LSKVP----------PKQRTPEAIAEAIENMKALDDPAFRGGFI 289
+D FSP +GQ L V P +T + + ++ ++ + DP
Sbjct: 381 KD--PFSP-LGQPHFELDFVCMFGTAFQWHFPTPKTGDHLTVVVDLVRPISDP------- 430
Query: 290 LEKVMGPVSTGHLELRTRNPNDNPSVTFNYFKEPEDLQRCVQGXXXXXXXXXXXXXXXXX 349
G + L + +P P++ N+F D+ +G
Sbjct: 431 ----------GEVTLNSADPFQQPNINLNFFANDLDIIAMREGIRFSYDLLFKGEGFKDL 480
Query: 350 YES---MSVPILVNMTASAPVNLLPRHSNASTSLEQFCRDTVMTIWHYHGGCQVGK---- 402
ES +P+ ++ + + D T +H G ++ K
Sbjct: 481 VESEYPWEMPL-----------------DSDKEMHRAVLDRCQTAFHPTGTARLSKNIDQ 523
Query: 403 -VVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILSE 450
VVD KV G+ LRV D S P Q +V +G I +E
Sbjct: 524 GVVDPKLKVHGIKKLRVADASVIPIIPDCRIQNSVYAVGEKCADMIKAE 572
>pdb|1B4V|A Chain A, Cholesterol Oxidase From Streptomyces
pdb|1MXT|A Chain A, Atomic Resolution Structure Of Cholesterol Oxidase
(Streptomyces Sp. Sa-Coo)
pdb|1N1P|A Chain A, Atomic Resolution Structure Of Cholesterol Oxidase @ Ph
7.4 (Streptomyces Sp. Sa-Coo)
pdb|1N4U|A Chain A, Cholesterol Oxidase From Streptomyces @ Ph 4.5
(Streptomyces Sp. Sa- Coo)
pdb|1N4V|A Chain A, Atomic Resolution Structure Of Cholesterol Oxidase @ph 5.8
(Streptomyces Sp. Sa-Coo)
pdb|1N4W|A Chain A, Atomic Resolution Structure Of Cholesterol Oxidase @ Ph
7.3 (Streptomyces Sp. Sa-Coo)
pdb|2GEW|A Chain A, Atomic Resolution Structure Of Cholesterol Oxidase @ Ph
9.0 (Streptomyces Sp. Sa-Coo)
Length = 504
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D +H GGC +GK D +V G L V DGS S G N
Sbjct: 424 RYDLFGTQLKAFADDFC---YHPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|1B8S|A Chain A, Cholesterol Oxidase From Streptomyces Glu361gln Mutant
Length = 504
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D +H GGC +GK D +V G L V DGS S G N
Sbjct: 424 RYDLFGTQLKAFADDFC---YHPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|3CNJ|A Chain A, Cholesterol Oxidase From Streptomyces Sp. F359w Mutant
(0.95a)
Length = 499
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 35/79 (44%), Gaps = 3/79 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D +H GGC +GK D +V G L V DGS S G N
Sbjct: 422 RYDLFGTQLKAFADDFC---YHPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 478
Query: 432 PQATVMMLGRYMGVRILSE 450
P T+ L RI+ +
Sbjct: 479 PFVTITALAERNVERIIKQ 497
>pdb|3GYI|A Chain A, Cholesterol Oxidase From Streptomyces Sp. N485d Mutant
(1.0a)
Length = 504
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D +H GGC +GK D +V G L V DGS S G +
Sbjct: 424 RYDLFGTQLKAFADDFC---YHPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVD 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 55/200 (27%), Positives = 82/200 (41%), Gaps = 11/200 (5%)
Query: 61 AVRDGLVEVGVLPYNGFTYDHMYGTKIGGTIFDQNGQRHTAAD--LLEYANPSGLTLLLH 118
A+ + + +GV F H G + D+N R AA LL S L +L
Sbjct: 192 ALMNTVSALGVPVQQDFLCGHPRGVSMIMNNLDENQVRVDAARAWLLPNYQRSNLEILTG 251
Query: 119 ASVHKVLFRIKGKARPVAHGVVFRDATGAKHRAYLKNGPKNEIIVSAGALGSPQLLMLSG 178
V KVLF+ + + P A GV F G K+E++++AG+ SP +L SG
Sbjct: 252 QMVGKVLFK-QTASGPQAVGVNF----GTNKAVNFDVFAKHEVLLAAGSAISPLILEYSG 306
Query: 179 AHNITVVLDQPLVGQGMSDNPMNAIFVPSPVPVEVSLIQVVGITQFGSYIEAASGENFAG 238
+ VLDQ V Q + D P+ S G Q + A E F
Sbjct: 307 I-GLKSVLDQANVTQ-LLDLPVGINMQDQTTTTVSSRASSAGAGQGQAVFFANFTETFGD 364
Query: 239 GSPSPRDYGMFSPKIGQLSK 258
+P RD + + K+ Q ++
Sbjct: 365 YAPQARD--LLNTKLDQWAE 382
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 9/61 (14%)
Query: 392 WHYHGGC-----QVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVR 446
WH C ++G VVD KV G LRVIDGS P T + VM + M ++
Sbjct: 519 WHAVSSCSMMSRELGGVVDATAKVYGTQGLRVIDGSI----PPTQVSSHVMTIFYGMALK 574
Query: 447 I 447
+
Sbjct: 575 V 575
>pdb|1CBO|A Chain A, Cholesterol Oxidase From Streptomyces His447asn Mutant
Length = 504
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D ++ GGC +GK D +V G L V DGS S G N
Sbjct: 424 RYDLFGTQLKAFADDFC---YNPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|1CC2|A Chain A, Cholesterol Oxidase From Streptomyces His447gln Mutant
Length = 504
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D + GGC +GK D +V G L V DGS S G N
Sbjct: 424 RYDLFGTQLKAFADDFC---YQPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|3B6D|A Chain A, Crystal Structure Of Streptomyces Cholesterol Oxidase
H447qE361Q Mutant (1.2a)
Length = 504
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D + GGC +GK D +V G L V DGS S G N
Sbjct: 424 RYDLFGTQLKAFADDFC---YQPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|3B3R|A Chain A, Crystal Structure Of Streptomyces Cholesterol Oxidase
H447qE361Q Mutant Bound To Glycerol (0.98a)
Length = 506
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D + GGC +GK D +V G L V DGS S G N
Sbjct: 426 RYDLFGTQLKAFADDFC---YQPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVN 482
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 483 PFVTITALAERNVERIIKQDVTAS 506
>pdb|1IJH|A Chain A, Cholesterol Oxidase From Streptomyces Asn485leu Mutant
pdb|3GYJ|A Chain A, Cholesterol Oxidase From Streptomyces Sp. N485l Mutant
(0.92a)
Length = 504
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 372 RHSNASTSLEQFCRDTVMTIWHYHGGCQVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTN 431
R+ T L+ F D +H GGC +GK D +V G L V DGS S G
Sbjct: 424 RYDLFGTQLKAFADDFC---YHPLGGCVLGKATDDYGRVAGYKNLYVTDGSLIPGSVGVL 480
Query: 432 PQATVMMLGRYMGVRILSERLASN 455
P T+ L RI+ + + ++
Sbjct: 481 PFVTITALAERNVERIIKQDVTAS 504
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 368 NLLPRHSNASTSLEQFCRDTVMTIWHYHGGCQVGK----VVDHDYKVLGVDALRVIDGST 423
LLP N++ ++ F +V+T H G C++GK VVD + ++ +D L V+D S
Sbjct: 437 ELLPGTPNSAAEMDDFIARSVITHHHPCGTCRMGKDPDAVVDANLRLKALDNLFVVDASI 496
Query: 424 F 424
Sbjct: 497 M 497
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 159 NEIIVSAGALGSPQLLMLSG--------AHNITVVLDQPLVGQGMSDNPMNA 202
++I++ AGAL SP LLM SG A + ++D P +G+ + D+ + A
Sbjct: 261 DQIVLCAGALESPALLMRSGIGPHDVLDAAGVGCLIDMPDIGRNLQDHLLGA 312
>pdb|1CF3|A Chain A, Glucose Oxidase From Apergillus Niger
pdb|1GAL|A Chain A, Crystal Structure Of Glucose Oxidase From Aspergillus
Niger: Refined At 2.3 Angstroms Resolution
pdb|3QVP|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group C2221
At 1.2 A Resolution
pdb|3QVR|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group P3121
At 1.3 A Resolution
Length = 583
Score = 35.0 bits (79), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 49/177 (27%), Positives = 69/177 (38%), Gaps = 19/177 (10%)
Query: 104 LLEYANPSGLTLLLHASVHKVLFRIKGKARPVAHGVVFRDATGAKHRAYLKNGPKNEIIV 163
L Y P+ L +L V KVL G P A GV F G H Y K+E+++
Sbjct: 234 LPNYQRPN-LQVLTGQYVGKVLLSQNGTT-PRAVGVEFGTHKGNTHNVY----AKHEVLL 287
Query: 164 SAGALGSPQLLMLSGAHNITVVLDQPLVGQGMSDNPMNAIFVPSPVPVEVSLIQVVGITQ 223
+AG+ SP +L SG +++ +PL + D P+ S I G Q
Sbjct: 288 AAGSAVSPTILEYSGIGMKSIL--EPLGIDTVVDLPVGLNLQDQTTATVRSRITSAGAGQ 345
Query: 224 FGSYIEAASGENFAGGSPSPRDYGMFSPKIGQLSKVPPKQRTPEAIAE-AIENMKAL 279
+ A E F G +S K +L +Q EA+A N AL
Sbjct: 346 GQAAWFATFNETF----------GDYSEKAHELLNTKLEQWAEEAVARGGFHNTTAL 392
Score = 32.7 bits (73), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 32/61 (52%), Gaps = 9/61 (14%)
Query: 392 WHYHGGC-----QVGKVVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVR 446
+H G C ++G VVD+ +V GV LRVIDGS P T + VM + M ++
Sbjct: 515 YHGVGTCSMMPKEMGGVVDNAARVYGVQGLRVIDGSI----PPTQMSSHVMTVFYAMALK 570
Query: 447 I 447
I
Sbjct: 571 I 571
>pdb|1NAA|A Chain A, Cellobiose Dehydrogenase Flavoprotein Fragment In Complex
With Cellobionolactam
pdb|1NAA|B Chain B, Cellobiose Dehydrogenase Flavoprotein Fragment In Complex
With Cellobionolactam
Length = 541
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 403 VVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILS 449
VVD + KV G + L ++D + P NPQ T+M +IL+
Sbjct: 490 VVDSNVKVFGTNNLFIVDAGIIPHLPTGNPQGTLMSAAEQAAAKILA 536
>pdb|1KDG|A Chain A, Crystal Structure Of The Flavin Domain Of Cellobiose
Dehydrogenase
pdb|1KDG|B Chain B, Crystal Structure Of The Flavin Domain Of Cellobiose
Dehydrogenase
Length = 546
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 403 VVDHDYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRILS 449
VVD + KV G + L ++D + P NPQ T+M +IL+
Sbjct: 495 VVDSNVKVFGTNNLFIVDAGIIPHLPTGNPQGTLMSAAEQAAAKILA 541
>pdb|3K1Q|A Chain A, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3IYL|W Chain W, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1299
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 363 ASAPVNLLPRHSNASTSLEQ---FCRDTVMT-IWHYHGGCQVGKVVDHDYKVLG 412
AS P+ LLP++ NA+ +++Q DT ++ + HG C G V Y + G
Sbjct: 394 ASRPLRLLPQYRNATITVQQADDAYEDTALSPLITTHGFCVTGGVFTSIYDISG 447
>pdb|2O8S|A Chain A, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120.
pdb|2O8S|B Chain B, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120
Length = 323
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 213 VSLIQVVGITQFGSYIEAASGENFAGGSPSP--RDYGMFSPKIGQ----LSKVPPKQRTP 266
VS Q + + G SG N +GGS + Y + S IG+ +SK P R
Sbjct: 26 VSHKQAATLCRQGRTCALKSGSNESGGSVTSTYTSYRLISQDIGKSLERVSKQPDVARET 85
Query: 267 EAIAEAIENMKALDD 281
E E I ++K++DD
Sbjct: 86 EYYREKIGSVKSIDD 100
>pdb|1IAG|A Chain A, First Structure Of A Snake Venom Metalloproteinase: A
Prototype For Matrix
Metalloproteinases(Slash)collagenases
Length = 202
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/102 (20%), Positives = 49/102 (48%), Gaps = 13/102 (12%)
Query: 350 YESMSVPI-LVNMTASAPVNLLPRHSNASTSLEQF--CRDTVMTIWHYHGGCQVGKVVDH 406
Y S+++ + L ++ + + + S++S +L F R+ V+ IW H Q+ ++
Sbjct: 44 YRSLNIRVSLTDLEIWSGQDFITIQSSSSNTLNSFGEWRERVLLIWKRHDNAQLLTAINF 103
Query: 407 DYKVLGVDALRVIDGSTFYYSPGTNPQATVMMLGRYMGVRIL 448
+ K++G Y S NP+++V ++ + + +L
Sbjct: 104 EGKIIG----------KAYTSSMCNPRSSVGIVKDHSPINLL 135
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 0.135 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,037,046
Number of Sequences: 62578
Number of extensions: 598777
Number of successful extensions: 1358
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1303
Number of HSP's gapped (non-prelim): 43
length of query: 458
length of database: 14,973,337
effective HSP length: 102
effective length of query: 356
effective length of database: 8,590,381
effective search space: 3058175636
effective search space used: 3058175636
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: 53 (25.0 bits)