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= 047920
(556 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FSN|A Chain A, Crystal Structure Of Rpe65 At 2.14 Angstrom Resolution
pdb|3FSN|B Chain B, Crystal Structure Of Rpe65 At 2.14 Angstrom Resolution
pdb|3KVC|A Chain A, Crystal Structure Of Bovine Rpe65 At 1.9 Angstrom
Resolution
pdb|3KVC|B Chain B, Crystal Structure Of Bovine Rpe65 At 1.9 Angstrom
Resolution
pdb|4F2Z|A Chain A, Crystal Structure Of Rpe65 In A Lipid Environment
pdb|4F2Z|E Chain E, Crystal Structure Of Rpe65 In A Lipid Environment
pdb|4F30|A Chain A, Structure Of Rpe65: P6522 Crystal Form Grown In Ammonium
Phosphate Solution
pdb|4F3A|A Chain A, Structure Of Rpe65: P6522 Crystal Form, Iridium Derivative
pdb|4F3D|A Chain A, Structure Of Rpe65: P65 Crystal Form Grown In
Fos-Choline-10
pdb|4F3D|B Chain B, Structure Of Rpe65: P65 Crystal Form Grown In
Fos-Choline-10
Length = 533
Score = 167 bits (424), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 148/512 (28%), Positives = 228/512 (44%), Gaps = 60/512 (11%)
Query: 90 VQGEIPLWLKGTYLRNGPGMWHIGDYNFRHLFDGYATLVKLHIENGRLIAGHRQIESEAY 149
V G IPLWL G+ LR GPG++ +G F HLFDG A L K + G + R I ++AY
Sbjct: 30 VTGRIPLWLTGSLLRCGPGLFEVGSEPFYHLFDGQALLHKFDFKEGHVTYHRRFIRTDAY 89
Query: 150 KAAKENKKLCYREFSEVPKPDNFLSYVGELASLFSGASLTDNANTGVVKLGDGRVVCLTE 209
A K++ EF PD + S F G +TDNA + +G+ C TE
Sbjct: 90 VRAMTEKRIVITEFGTCAFPDPCKNIFSRFFSYFRGVEVTDNALVNIYPVGEDYYAC-TE 148
Query: 210 TQKGSIIIDPDTLDTISRFEYSDTLGGLIHSAHPIV----TESEFLTLLPDLVSPGYWVV 265
T + ++P+TL+TI + + + + +AHP + T S Y +V
Sbjct: 149 TNFIT-KVNPETLETIKQVDLCNYVSVNGATAHPHIENDGTVYNIGNCFGKNFSIAYNIV 207
Query: 266 RM-------EAGSNERKVIGRVNCRGGPAPGWVHSFPVTEHYVVVPEMSLRYCAQNLLRA 318
++ E ++ +++ + C P +VHSF +T +Y+V E ++ L +
Sbjct: 208 KIPPLQADKEDPISKSEIVVQFPCSDRFKPSYVHSFGLTPNYIVFVETPVKINLFKFLSS 267
Query: 319 ----EPTPLYKFEWHPDSKAFLHVMCKASGKIVAS-VEVPLYITFHFINAYEEKDEDGRL 373
+ FE + +LH+ K K + + + FH IN YE+ +
Sbjct: 268 WSLWGANYMDCFESNETMGVWLHIADKKRKKYINNKYRTSPFNLFHHINTYEDHE----- 322
Query: 374 IAIIADCCEHNADTTILDKLRLNNLRSFNGQDVLPDAR------VGRFRIPF--DGSEFG 425
+I D C + + L L NLR N ++V +AR V R+ +P D ++ G
Sbjct: 323 -FLIVDLCCWKGFEFVYNYLYLANLRE-NWEEVKKNARKAPQPEVRRYVLPLNIDKADTG 380
Query: 426 E---------LEAALDPDEH------------GRGMDMCSIN-PAYLGKMYRYAYACGAK 463
+ A L DE + + IN Y GK Y YAY G
Sbjct: 381 KNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQAFEFPQINYQKYGGKPYTYAYGLGLN 440
Query: 464 RPCNFPNTLTKLDLVGKKAKNWYEEGAVPSEPFFVARPGATEEDDGVVIS-IVSERNGE- 521
P+ L KL++ K+ W E + PSEP FV+ P A EEDDGVV+S +VS G+
Sbjct: 441 H--FVPDRLCKLNVKTKETWVWQEPDSYPSEPIFVSHPDALEEDDGVVLSVVVSPGAGQK 498
Query: 522 -GFALLLDGSTFEEIARAKFPYGLPYGLHGCW 552
+ L+L+ E+ARA+ +P HG +
Sbjct: 499 PAYLLILNAKDLSEVARAEVEINIPVTFHGLF 530
>pdb|2BIW|A Chain A, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|B Chain B, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|C Chain C, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|D Chain D, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIX|A Chain A, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Fe-Free Apoenzyme
pdb|2BIX|B Chain B, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Fe-Free Apoenzyme
Length = 490
Score = 110 bits (276), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 133/516 (25%), Positives = 221/516 (42%), Gaps = 61/516 (11%)
Query: 62 PEKEKYSVERNHVAWTSVRQERWEGELV-VQGEIPLWLKGTYLRNGPGMWHIGDYNFRHL 120
P + YS + + S QE W+ + V+G IP L+GT RNGPG+ IGD +H
Sbjct: 10 PSQRSYSPQDWLRGYQSQPQE-WDYWVEDVEGSIPPDLQGTLYRNGPGLLEIGDRPLKHP 68
Query: 121 FDGYATLVKLHIE-NGRLIAGHRQIESEAYKAAKENKKLCYRE-FSEVPKPDNFLSYVGE 178
FDG + +GR+ + + ++ Y ++ K+ YR F P G
Sbjct: 69 FDGDGMVTAFKFPGDGRVHFQSKFVRTQGYVEEQKAGKMIYRGVFGSQPA-------GGW 121
Query: 179 LASLFSGASLTDNANTGVVKLGDGRVVCLTETQKGSIIIDPDTLDTISRFEYSDTLGGLI 238
L ++F L + ANT + GD R++ L E + ++P L TI D LGG++
Sbjct: 122 LKTIFD-LRLKNIANTNITYWGD-RLLALWEGGQPH-RLEPSNLATIGL----DDLGGIL 174
Query: 239 H-----SAHPIVTESEFLTLLPDLVSPGYWVVRMEAGSNERKVIGRVNCRGG-------- 285
SAHP + + D P Y +++ + + ++ +G
Sbjct: 175 AEGQPLSAHPRIDPASTF----DGGQPCYVTFSIKSSLSSTLTLLELDPQGKLLRQKTET 230
Query: 286 -PAPGWVHSFPVTEHYVVVPEMSLRYCAQNLLRAEPTPLYKFEWHPDSKAFLHVMCKASG 344
P ++H F +T HY + + ++ L ++HPD A + ++ + G
Sbjct: 231 FPGFAFIHDFAITPHYAIFLQNNVTLNGLPYLFGLRGAGECVQFHPDKPAQIILVPRDGG 290
Query: 345 KIVASVEVPLYITFHFINAYEEKDEDGRLIAIIADCCEHNADTTILDKLRLNNLRSFNGQ 404
+I + V FH NA+E E+G++ I+ C ++ D + RS N
Sbjct: 291 EI-KRIPVQAGFVFHHANAFE---ENGKI--ILDSICYNSLPQVDTD----GDFRSTNFD 340
Query: 405 DVLPDARVGRFRI-PFDGSEFGELEAALDPDEHGRGMDMCSINPAYLGKMYRYAYACGAK 463
++ P ++ RF I P + +L + R + ++P +G+ YRY Y A
Sbjct: 341 NLDP-GQLWRFTIDPAAATVEKQLMVS-------RCCEFPVVHPQQVGRPYRYVYMGAAH 392
Query: 464 RPC-NFP-NTLTKLDL-VGKKAKNWYEEGAVPSEPFFVARPGATEEDDGVVISIVSERNG 520
N P + K+DL G + + EP FV RPG EDDG ++ ++ + +
Sbjct: 393 HSTGNAPLQAILKVDLESGTETLRSFAPHGFAGEPIFVPRPGGVAEDDGWLLCLIYKADL 452
Query: 521 EGFAL-LLDGS--TFEEIARAKFPYGLPYGLHGCWV 553
L +LD T IA K + +PY LHG W
Sbjct: 453 HRSELVILDAQDITAPAIATLKLKHHIPYPLHGSWA 488
>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen
Length = 529
Score = 98.6 bits (244), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 133/498 (26%), Positives = 211/498 (42%), Gaps = 72/498 (14%)
Query: 87 ELVVQGEIPLWLKGTYLRNG--PGMWHIGDYNFRHLFDGYATLVKLHIENGRLIAGHRQI 144
EL V G IP ++ G Y RNG P + + HLFDG + L I NG
Sbjct: 63 ELPVSGRIPPFIDGVYARNGANPCFDPVAGH---HLFDGDGMVHALRIRNG--------- 110
Query: 145 ESEAYKAAKENKKLCYREFSEVPKPDNFLSYVGEL--------ASLF---SGASLTD-NA 192
+E+Y A + + R+ + +P F +GEL +LF + L D +A
Sbjct: 111 AAESY-ACRFTETARLRQERAIGRP-VFPKAIGELHGHSGIARLALFYARAACGLVDPSA 168
Query: 193 NTGVVKLG----DGRVVCLTETQ--KGSIIIDPDTLDTISRFEYSDTLGGLIHSAHPIV- 245
TGV G +GR++ ++E + D L+T+ R+++ LG + AHP +
Sbjct: 169 GTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLETVGRYDFDGQLGCAM-IAHPKLD 227
Query: 246 -TESEFLTLLPDLVSP---GYWVVRMEAGSNERKVIGRVNCRGGPAPGWVHSFPVTEHYV 301
E L D++ Y+ R + ++ I P +H F +TE+ V
Sbjct: 228 PATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEIPLEQ------PTMIHDFAITENLV 281
Query: 302 VVPEMSLRYCAQNLLRAEPTPLYKFEWHPDSKAFLHVMCKASGKIVASVEVPLYITFHFI 361
VVP+ + + Q +LR +P+ + S+ + A +A V+VP FH
Sbjct: 282 VVPDHQVVFKLQEMLRGG-SPVV-LDAAKTSRFGVLPKHAADASEMAWVDVPDCFCFHLW 339
Query: 362 NAYEEKDEDGRLIAIIADCCEHNADTTILDKLRLNNLRSFNGQDVLPDARVGRFRIPFDG 421
NA+E DE + +I C RL ++ + ++ DAR GR
Sbjct: 340 NAWE--DEATGEVVVIGSCMTPADSIFNESDERLESVLT----EIRLDARTGR------- 386
Query: 422 SEFGELEAALDPDEHGRGMDMCSINPAYLGKMYRYAYACGAKRPCNFPNTLTKLDL-VGK 480
A+ P +++ +N LG+ RYAY A+ P + K+DL G+
Sbjct: 387 ----STRRAVLPPSQQVNLEVGMVNRNLLGRETRYAYLAVAE-PWPKVSGFAKVDLSTGE 441
Query: 481 KAKNWYEEGAVPSEPFFVAR-PGATE---EDDGVVISIV-SERNGEGFALLLDGSTFEEI 535
K Y EG EP FV P A EDDG V++ V ER G L+++ +
Sbjct: 442 LTKFEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNAADMRLE 501
Query: 536 ARAKFPYGLPYGLHGCWV 553
A + P +P+G HG ++
Sbjct: 502 ATVQLPSRVPFGFHGTFI 519
>pdb|3CMG|A Chain A, Crystal Structure Of Putative Beta-Galactosidase From
Bacteroides Fragilis
Length = 667
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 46/215 (21%), Positives = 85/215 (39%), Gaps = 29/215 (13%)
Query: 194 TGVVKLGDGRVVCLTETQKGSIIIDPDTLDTISRFEYSDTLGGLIHSAHPIVTESEFLTL 253
T +VK G+ V L G + D + + F + GG+ H ++T+ ++
Sbjct: 103 TDLVKYGEKNSV-LVRANNGEQL---DIMPLVGDFNF---YGGIYRDVHLLITDETCISP 155
Query: 254 LPDLVSPGYWVVRMEAGSNERKVIGRVNCRGGPAPGWVHSFPVTEHYVVVPEMSLRYCAQ 313
L D SPG ++V+ E KV +VN A G E V+V + + C +
Sbjct: 156 L-DYASPGVYLVQEVVSPQEAKVCAKVNLSNRAADG------TAELQVLVTDGTKVICKE 208
Query: 314 ----------NLLRAEPTPLYKFE-WHPDSKAFLH---VMCKASGKIVASVEVPLYITFH 359
++L P + K W+ F++ + GK + SV PL + ++
Sbjct: 209 SRNVSLKQGADILEQLPLLIQKPRLWNGCEDPFMYQVSISLHKDGKQIDSVTQPLGLRYY 268
Query: 360 FINAYEEKDEDGRLIAIIADCCEHNADTTILDKLR 394
+ + +G+ + + C H + + LR
Sbjct: 269 HTDPDKGFFLNGKHLPLHG-VCRHQDRAEVGNALR 302
>pdb|1JOF|A Chain A, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|B Chain B, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|C Chain C, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|D Chain D, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|E Chain E, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|F Chain F, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|G Chain G, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
pdb|1JOF|H Chain H, Neurospora Crassa 3-Carboxy-Cis,Cis-Mucoante Lactonizing
Enzyme
Length = 365
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 48/126 (38%), Gaps = 14/126 (11%)
Query: 200 GDGRVVCLTETQKGSIIIDPDTLDTISRFEYSDTLGGLIHSAHPIVTESEFLTLLPDLVS 259
G G V ++ET K + +EY + G IH + +E DL +
Sbjct: 119 GYGNVFSVSETGK--------LEKNVQNYEYQENTG--IHGX--VFDPTETYLYSADLTA 166
Query: 260 PGYWVVRMEAGSNERKVIGRVNCRG-GPAPGWVHSFPVTEHYVVVPEMSLRYCAQNLLRA 318
W R A S E +++G V+ G P WV P + + E R C + A
Sbjct: 167 NKLWTHRKLA-SGEVELVGSVDAPDPGDHPRWVAXHPTGNYLYALXEAGNRICEYVIDPA 225
Query: 319 EPTPLY 324
P+Y
Sbjct: 226 THXPVY 231
>pdb|3T5A|A Chain A, Crystal Structure Of N-Terminal Domain Of Faal28 G330w
Mutant From Mycobacterium Tuberculosis
Length = 480
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 462 AKRPCNFPNTLTKLDLVGKKAKNWY--EEGAVPSEPFFVARPGATEEDDGVVIS 513
A+RP P ++ ++DL+ A N Y +E PS + G+T GVV+S
Sbjct: 151 ARRPGESPPSIIEVDLLDLDAPNGYTFKEDEYPSTAYLQYTSGSTRTPAGVVMS 204
>pdb|1YI7|A Chain A, Beta-d-xylosidase (selenomethionine) Xynd From Clostridium
Acetobutylicum
pdb|1YI7|B Chain B, Beta-d-xylosidase (selenomethionine) Xynd From Clostridium
Acetobutylicum
pdb|1YI7|C Chain C, Beta-d-xylosidase (selenomethionine) Xynd From Clostridium
Acetobutylicum
pdb|1YI7|D Chain D, Beta-d-xylosidase (selenomethionine) Xynd From Clostridium
Acetobutylicum
Length = 542
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 72 NHVAWTSVRQERWEGELVVQGEIPLWLKGTYLR--NGPGMWHIGDYNFRHLFDGYATLVK 129
NH + V QE + E + G+ + KGT ++ GP ++HIGDY + +G T
Sbjct: 152 NHNFYGIVLQEYSDKEKKLIGKAKIIYKGTDIKYTEGPHIYHIGDYYYLFTAEGGTTY-- 209
Query: 130 LHIENGRLIAGHRQIE 145
E+ +A + I+
Sbjct: 210 ---EHSETVARSKNID 222
>pdb|1Y7B|A Chain A, Beta-D-Xylosidase, A Family 43 Glycoside Hydrolase
pdb|1Y7B|B Chain B, Beta-D-Xylosidase, A Family 43 Glycoside Hydrolase
pdb|1Y7B|C Chain C, Beta-D-Xylosidase, A Family 43 Glycoside Hydrolase
pdb|1Y7B|D Chain D, Beta-D-Xylosidase, A Family 43 Glycoside Hydrolase
Length = 542
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 72 NHVAWTSVRQERWEGELVVQGEIPLWLKGTYLR--NGPGMWHIGDYNFRHLFDGYATLVK 129
NH + V QE + E + G+ + KGT ++ GP ++HIGDY + +G T
Sbjct: 152 NHNFYGIVLQEYSDKEKKLIGKAKIIYKGTDIKYTEGPHIYHIGDYYYLFTAEGGTTY-- 209
Query: 130 LHIENGRLIAGHRQIE 145
E+ +A + I+
Sbjct: 210 ---EHSETVARSKNID 222
>pdb|3E53|A Chain A, Crystal Structure Of N-Terminal Domain Of A Fatty Acyl Amp
Ligase Faal28 From Mycobacterium Tuberculosis
Length = 480
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 462 AKRPCNFPNTLTKLDLVGKKAKNWY--EEGAVPSEPFFVARPGATEEDDGVVIS 513
A+RP P ++ ++DL+ A N Y +E PS + G+T GVV S
Sbjct: 151 ARRPGESPPSIIEVDLLDLDAPNGYTFKEDEYPSTAYLQYTSGSTRTPAGVVXS 204
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 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,157,650
Number of Sequences: 62578
Number of extensions: 830197
Number of successful extensions: 1564
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1548
Number of HSP's gapped (non-prelim): 12
length of query: 556
length of database: 14,973,337
effective HSP length: 104
effective length of query: 452
effective length of database: 8,465,225
effective search space: 3826281700
effective search space used: 3826281700
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)