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= 046348
(358 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen
Length = 529
Score = 220 bits (560), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 124/356 (34%), Positives = 192/356 (53%), Gaps = 9/356 (2%)
Query: 5 IYGIADIIQCVAAVARVLMGHINLKKGFGLANTXXXXXXXXXXXXGESDLPYIINSTREG 64
++G + I + AR G ++ G G+AN E DLPY + +G
Sbjct: 143 LHGHSGIARLALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDG 202
Query: 65 DVETVGRWDFDEALFASMTAHPKTDMTTKETFAFKFSPVFSPHLTFFRFDANGIKQKDVP 124
D+ETVGR+DFD L +M AHPK D T E A + + P+L +F F +G K DV
Sbjct: 203 DLETVGRYDFDGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVE 262
Query: 125 ILSINRPTFIHDFAITKRFAIFSETQLAVSAANVMLGKGMPTVFVPEKIPRIGIILKYAT 184
I + +PT IHDFAIT+ + + Q+ V ML G P V K R G++ K+A
Sbjct: 263 I-PLEQPTMIHDFAITENLVVVPDHQV-VFKLQEMLRGGSPVVLDAAKTSRFGVLPKHAA 320
Query: 185 SDAEMKWFNVPGFNAMHVFNAWEN-GDDEIVLMATTATSIENLFHKID-MVHFSLEKVRI 242
+EM W +VP H++NAWE+ E+V++ + T +++F++ D + L ++R+
Sbjct: 321 DASEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRL 380
Query: 243 NLRTGHVFRNIL----STRNLELGSINSSYIGKKNRYVFMGVGKEIPKMEGVVKIDLEKE 298
+ RTG R + NLE+G +N + +G++ RY ++ V + PK+ G K+DL
Sbjct: 381 DARTGRSTRRAVLPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDLSTG 440
Query: 299 IEVSRRFYGPSCFGGEPLFVPRNEDHLEAADEDDGFVVTYIHDEIHEESKFLVMDA 354
E+++ YG FGGEP FVP + EDDG+V+T++HDE S+ LV++A
Sbjct: 441 -ELTKFEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNA 495
>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 = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 64/237 (27%), Positives = 107/237 (45%), Gaps = 21/237 (8%)
Query: 132 TFIHDFAITKRFAIFSETQLAVSAANVML---GKGMPTVFVPEKIPRIGIILKYATSDAE 188
FIHDFAIT +AIF + + ++ + G G F P+K +I ++ + E
Sbjct: 235 AFIHDFAITPHYAIFLQNNVTLNGLPYLFGLRGAGECVQFHPDKPAQIILVPR---DGGE 291
Query: 189 MKWFNVPGFNAMHVFNAW-ENGD---DEIVLMATTATSIENLFHKIDMVHF---SLEKVR 241
+K V H NA+ ENG D I + + F + + L +
Sbjct: 292 IKRIPVQAGFVFHHANAFEENGKIILDSICYNSLPQVDTDGDFRSTNFDNLDPGQLWRFT 351
Query: 242 INLRTGHVFRNILSTRNLELGSINSSYIGKKNRYVFMGVGKEI---PKMEGVVKIDLEKE 298
I+ V + ++ +R E ++ +G+ RYV+MG ++ ++K+DLE
Sbjct: 352 IDPAAATVEKQLMVSRCCEFPVVHPQQVGRPYRYVYMGAAHHSTGNAPLQAILKVDLESG 411
Query: 299 IEVSRRFYGPSCFGGEPLFVPRNEDHLEAADEDDGFVVTYIHDEIHEESKFLVMDAK 355
E R F P F GEP+FVPR EDDG+++ I+ S+ +++DA+
Sbjct: 412 TETLRSF-APHGFAGEPIFVPRP----GGVAEDDGWLLCLIYKADLHRSELVILDAQ 463
>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 = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 57/268 (21%), Positives = 108/268 (40%), Gaps = 71/268 (26%)
Query: 130 RPTFIHDFAITKRFAIFSETQLAVS-----AANVMLGKGMPTVFVPEKIPRIGIILKYAT 184
+P+++H F +T + +F ET + ++ ++ + G F E +G+ L A
Sbjct: 236 KPSYVHSFGLTPNYIVFVETPVKINLFKFLSSWSLWGANYMDCF--ESNETMGVWLHIAD 293
Query: 185 SDAEMKWFN----VPGFNAMHVFNAWENGDDEIVLMATTATSIENLFHKIDMVHF--SLE 238
+ K+ N FN H N +E+ + IV + E +++ + + + + E
Sbjct: 294 KKRK-KYINNKYRTSPFNLFHHINTYEDHEFLIVDLCCWK-GFEFVYNYLYLANLRENWE 351
Query: 239 KVRINLRTG---HVFRNIL--------STRNL---------------------------- 259
+V+ N R V R +L + +NL
Sbjct: 352 EVKKNARKAPQPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSG 411
Query: 260 -----ELGSIN-SSYIGKKNRYVF-MGVGKEIPKMEGVVKIDLE-KEIEVSRRFYGPSCF 311
E IN Y GK Y + +G+ +P + + K++++ KE V + P +
Sbjct: 412 PRQAFEFPQINYQKYGGKPYTYAYGLGLNHFVP--DRLCKLNVKTKETWVWQE---PDSY 466
Query: 312 GGEPLFVPRNEDHLEAADEDDGFVVTYI 339
EP+FV H +A +EDDG V++ +
Sbjct: 467 PSEPIFV----SHPDALEEDDGVVLSVV 490
>pdb|2ZXC|A Chain A, Seramidase Complexed With C2
pdb|2ZXC|B Chain B, Seramidase Complexed With C2
pdb|2ZWS|A Chain A, Crystal Structure Analysis Of Neutral Ceramidase From
Pseudomonas Aeruginosa
Length = 646
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 52 SDLPYIINSTREGDVETVGRWDF---DEALFASMTAHPKTDMTTKETF 96
+D PYI S GDV R + D+ A +T HPK D+ T++TF
Sbjct: 514 ADDPYIGKSF--GDVLQQPRESYRIGDKVTVAFVTGHPKNDLRTEKTF 559
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
0.322 0.139 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,056,354
Number of Sequences: 62578
Number of extensions: 413317
Number of successful extensions: 650
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 641
Number of HSP's gapped (non-prelim): 7
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)