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= 043705
(614 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 148/531 (27%), Positives = 224/531 (42%), Gaps = 92/531 (17%)
Query: 90 VDGAIPSDFPSGTYYLTGPGLFTDDHGSTVHPLDGHGYLRAFEFDGVTGEVKYMAKYVKT 149
V+G+IP D GT Y GPGL HP DG G + AF+F G G V + +K+V+T
Sbjct: 38 VEGSIPPDL-QGTLYRNGPGLLEIGDRPLKHPFDGDGMVTAFKFPG-DGRVHFQSKFVRT 95
Query: 150 DAQVEEHDPQTDTWRFTHRGPFSVLKGG---KKFGNTKVMKNVANTSVLKWGGKLLCLWE 206
VEE + +RG F G K + + +KN+ANT++ WG +LL LWE
Sbjct: 96 QGYVEEQK----AGKMIYRGVFGSQPAGGWLKTIFDLR-LKNIANTNITYWGDRLLALWE 150
Query: 207 GGDPYEIESGTLDTIGQLQMMDGGDSLGKNSKDLWDVAAEMLKPILYGVFKMPPKRLLSH 266
GG P+ +E L TIG D LG + ++A R+
Sbjct: 151 GGQPHRLEPSNLATIGL-------DDLGGILAEGQPLSAH--------------PRIDPA 189
Query: 267 YKLDAPRNRLLTVSCNAEDMLLPRSNFTFYEFDSNFKLLNKQEFNILDHLMIHDWAFTDT 326
D + +T S + S T E D KLL ++ IHD+A T
Sbjct: 190 STFDGGQPCYVTFSIKSSLS----STLTLLELDPQGKLLRQKTETFPGFAFIHDFAITPH 245
Query: 327 HYILFANRVKLDVLGSMTAVSGLSPMISALSVNPSKPTSPVYLLPRFPNKSVGVRDWRVP 386
+ I N V L+ L + + G + +P KP + L+PR G R+P
Sbjct: 246 YAIFLQNNVTLNGLPYLFGLRGAG---ECVQFHPDKPAQ-IILVPR-----DGGEIKRIP 296
Query: 387 VEAPSQMWLLHVGNAFE------LKDVDGNTEIQIHACSCSYEWFNFQNLFGYNWQSGRL 440
V+A ++ H NAFE L + N+ Q+ + NF N L
Sbjct: 297 VQA---GFVFHHANAFEENGKIILDSICYNSLPQVDT-DGDFRSTNFDN----------L 342
Query: 441 DPSIMNLKESEYQLLPHLVQVSISLDVDGNCQKCTVEPLNQWKKSSDFPIINPTYSGQKT 500
DP + + + P V L V C+ FP+++P G+
Sbjct: 343 DPGQL----WRFTIDPAAATVEKQLMVSRCCE---------------FPVVHPQQVGRPY 383
Query: 501 TCIYAATSLGTRRALPHFPFDTVVKLNVLTKSVQTWSVGTRRFIGEPIFVPK--GVEEDD 558
+Y + + + P ++K+++ + + S F GEPIFVP+ GV EDD
Sbjct: 384 RYVYMGAA---HHSTGNAPLQAILKVDLESGTETLRSFAPHGFAGEPIFVPRPGGVAEDD 440
Query: 559 GYLLVIEYAVSIQRCYLIILNPKKIGEGDALVARLEVPRHLNFPLGFHGFW 609
G+LL + Y + R L+IL+ + I +A L++ H+ +PL HG W
Sbjct: 441 GWLLCLIYKADLHRSELVILDAQDITA--PAIATLKLKHHIPYPL--HGSW 487
>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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 51/132 (38%), Positives = 67/132 (50%), Gaps = 19/132 (14%)
Query: 483 KKSSDFPIIN-PTYSGQKTTCIYAATSLGTRRALPHFPFDTVVKLNVLTKSVQTWSVGTR 541
+++ +FP IN Y G+ T Y LG L HF D + KLNV TK W
Sbjct: 413 RQAFEFPQINYQKYGGKPYTYAYG---LG----LNHFVPDRLCKLNVKTKETWVWQ-EPD 464
Query: 542 RFIGEPIFV--PKGVEEDDGYLL--VIEYAVSIQRCYLIILNPKKIGEGDALVARLEVPR 597
+ EPIFV P +EEDDG +L V+ + YL+ILN K + E VAR EV
Sbjct: 465 SYPSEPIFVSHPDALEEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSE----VARAEV-- 518
Query: 598 HLNFPLGFHGFW 609
+N P+ FHG +
Sbjct: 519 EINIPVTFHGLF 530
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 79 SETTAPITLHLVDGAIPSDFPSGTYYLTGPGLFTDDHGSTVHPLDGHGYLRAFEFDGVTG 138
E ++P+T H V G IP + +G+ GPGLF H DG L F+F G
Sbjct: 20 EELSSPLTAH-VTGRIPL-WLTGSLLRCGPGLFEVGSEPFYHLFDGQALLHKFDFK--EG 75
Query: 139 EVKYMAKYVKTDAQV 153
V Y ++++TDA V
Sbjct: 76 HVTYHRRFIRTDAYV 90
>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen
Length = 529
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 94/433 (21%), Positives = 170/433 (39%), Gaps = 100/433 (23%)
Query: 188 NVANTSVLKWGGKLLCLWEGGDPYEI---ESGTLDTIGQLQMMDGGDSLGKNSKDLWDVA 244
VAN ++ + G+LL + E PY + + G L+T+G+ DG LG
Sbjct: 171 GVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLETVGRYDF-DG--QLGCA-------- 219
Query: 245 AEMLKPILYGVFKMPPKRLLSHYKLDAPRNRLLTVSCNAEDMLLPRSNFTFYEFDSNFKL 304
+++H KLD L +S + ++ R ++ F +
Sbjct: 220 ------------------MIAHPKLDPATGELHALSYD----VIKRPYLKYFYFRPDGTK 257
Query: 305 LNKQEFNILDHLMIHDWAFTDTHYILFANRVKLDVLGSMTAVSGLSPMISALSVNPSKPT 364
+ E + MIHD+A T+ ++ ++V V + G SP++ ++ +K T
Sbjct: 258 SDDVEIPLEQPTMIHDFAITENLVVVPDHQV---VFKLQEMLRGGSPVV----LDAAK-T 309
Query: 365 SPVYLLPRFPNKSVGVRDWRVPVEAPSQMWLLHVGNAFELKDVDGNTEIQIHACSCSYEW 424
S +LP+ H +A E+ VD + C C + W
Sbjct: 310 SRFGVLPK------------------------HAADASEMAWVD------VPDCFCFHLW 339
Query: 425 FNFQN-LFGYNWQSGR-LDPSIMNLKESEYQLLPHLVQVSISLDVDGNCQKCTVEPLNQW 482
+++ G G + P+ ES+ +L L ++ + + ++ + P Q
Sbjct: 340 NAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRLDARTGRSTRRAVLPPSQQV 399
Query: 483 KKSSDFPIINPTYSGQKTTCIYAATSLGTRRALPHFPFDTVVKLNVLTKSVQTWSVGTRR 542
+ + ++N G++T Y A A P K+++ T + + G R
Sbjct: 400 --NLEVGMVNRNLLGRETRYAYLAV------AEPWPKVSGFAKVDLSTGELTKFEYGEGR 451
Query: 543 FIGEPIFV--------PKGVEEDDGYLLVIEYAVSIQRCYLIILNPKKIGEGDALVARLE 594
F GEP FV P+G EDDGY+L + L+++N + L A ++
Sbjct: 452 FGGEPCFVPMDPAAAHPRG--EDDGYVLTFVHDERAGTSELLVVNAADM----RLEATVQ 505
Query: 595 VPRHLNFPLGFHG 607
+P + P GFHG
Sbjct: 506 LPSRV--PFGFHG 516
>pdb|4GLR|I Chain I, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
pdb|4GLR|K Chain K, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
Length = 212
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 49 SISTPTTVQAEIDDS---TAAFWDYQFLFVSQRSETTAPITLHLVDGAIPSDFPS 100
+++ PT+V A + S T + DY + + Q++ +AP+T+ + PSD PS
Sbjct: 3 ALTQPTSVSANLGGSVEITCSGSDYDYGWYQQKAPGSAPVTVIYWNDKRPSDIPS 57
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 0.137 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,122,272
Number of Sequences: 62578
Number of extensions: 900908
Number of successful extensions: 1672
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1660
Number of HSP's gapped (non-prelim): 10
length of query: 614
length of database: 14,973,337
effective HSP length: 105
effective length of query: 509
effective length of database: 8,402,647
effective search space: 4276947323
effective search space used: 4276947323
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)