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= 007379
(606 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 = 743 bits (1918), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 350/496 (70%), Positives = 405/496 (81%), Gaps = 4/496 (0%)
Query: 115 ERQHPLPKTADPTVQIAGNFSPVPEKPVCQNLPTTGKVPDCIQGVYVRNGANPLHEPVAG 174
ER H LP TADP VQIAGNF+PV E+P LP +G++P I GVY RNGANP +PVAG
Sbjct: 33 ERPHGLPSTADPAVQIAGNFAPVGERPPVHELPVSGRIPPFIDGVYARNGANPCFDPVAG 92
Query: 175 HHFFDGDGMVHAVKFNKGSV-SYSCRFTETNRFVQERSLGRPVFPKAIGELHGHTGIARL 233
HH FDGDGMVHA++ G+ SY+CRFTET R QER++GRPVFPKAIGELHGH+GIARL
Sbjct: 93 HHLFDGDGMVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELHGHSGIARL 152
Query: 234 LLFYSRALFGLVDPSHGTGVANAGLVYFNNRLLAMSEDDLPYHVRVTPSGELKTVGRFDF 293
LFY+RA GLVDPS GTGVANAGLVYFN RLLAMSEDDLPYHVRV G+L+TVGR+DF
Sbjct: 153 ALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLETVGRYDF 212
Query: 294 SGQLKSTMIAHPKVDPVTGDLFALSYDVVKKPYLKYFRFSPQGIKSPDVEIPLEEPTMMH 353
GQL MIAHPK+DP TG+L ALSYDV+K+PYLKYF F P G KS DVEIPLE+PTM+H
Sbjct: 213 DGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIH 272
Query: 354 DFAITENFVVVPDQQVVFKLKEMIRGGSPVIYDKNKVSRFGILDKNATDASKMKWIDAPD 413
DFAITEN VVVPD QVVFKL+EM+RGGSPV+ D K SRFG+L K+A DAS+M W+D PD
Sbjct: 273 DFAITENLVVVPDHQVVFKLQEMLRGGSPVVLDAAKTSRFGVLPKHAADASEMAWVDVPD 332
Query: 414 CFCFHLWNAWEEPERDEVVVIGSCMTPADSIFNECDESLKSVLSEIRLNLKTGESTRRPI 473
CFCFHLWNAWE+ EVVVIGSCMTPADSIFNE DE L+SVL+EIRL+ +TG STRR +
Sbjct: 333 CFCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRLDARTGRSTRRAV 392
Query: 474 ISEDEQVNLEAGMVNRNLLGRKTRFAYLALAEPWPKVSGFAKVDLLTGQVNKFIYGDQRY 533
+ +QVNLE GMVNRNLLGR+TR+AYLA+AEPWPKVSGFAKVDL TG++ KF YG+ R+
Sbjct: 393 LPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDLSTGELTKFEYGEGRF 452
Query: 534 GGEPLFFPRDPNSEN---EDDGYILAFVHDEKEWKSELQIVNAMTLELEATVKLPSRVPY 590
GGEP F P DP + + EDDGY+L FVHDE+ SEL +VNA + LEATV+LPSRVP+
Sbjct: 453 GGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNAADMRLEATVQLPSRVPF 512
Query: 591 GFHGTFIGAKDLAKQA 606
GFHGTFI ++L QA
Sbjct: 513 GFHGTFITGQELEAQA 528
>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 = 122 bits (305), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 127/482 (26%), Positives = 205/482 (42%), Gaps = 69/482 (14%)
Query: 150 GKVPDCIQGVYVRNGANPLH---EPVAGHHFFDGDGMVHAVKF-NKGSVSYSCRFTETNR 205
G +P +QG RNG L P+ H FDGDGMV A KF G V + +F T
Sbjct: 40 GSIPPDLQGTLYRNGPGLLEIGDRPLK--HPFDGDGMVTAFKFPGDGRVHFQSKFVRTQG 97
Query: 206 FVQERSLGRPVFPKAIGELHGHTGIARLLLFYSRALFGLVDPSHGTGVANAGLVYFNNRL 265
+V+E+ G+ ++ G ++ + + +F L +AN + Y+ +RL
Sbjct: 98 YVEEQKAGKMIYRGVFG--------SQPAGGWLKTIFDL----RLKNIANTNITYWGDRL 145
Query: 266 LAMSEDDLPYHVRVTPSGELKTVGRFDFSGQLKST--MIAHPKVDPVTGDLFALSYDVVK 323
LA+ E P+ R+ PS L T+G D G L + AHP++DP A ++D +
Sbjct: 146 LALWEGGQPH--RLEPS-NLATIGLDDLGGILAEGQPLSAHPRIDP------ASTFDGGQ 196
Query: 324 KPYLKY------------FRFSPQGIKSPDVEIPLEEPTMMHDFAITENFVVVPDQQVVF 371
Y+ + PQG +HDFAIT ++ + V
Sbjct: 197 PCYVTFSIKSSLSSTLTLLELDPQGKLLRQKTETFPGFAFIHDFAITPHYAIFLQNNVTL 256
Query: 372 KLKEMIRG----GSPVIYDKNKVSRFGILDKNATDASKMKWIDAPDCFCFHLWNAWEEPE 427
+ G G V + +K ++ ++ + D ++K I F FH NA+EE
Sbjct: 257 NGLPYLFGLRGAGECVQFHPDKPAQIILVPR---DGGEIKRIPVQAGFVFHHANAFEE-- 311
Query: 428 RDEVVVIGSCMTPADSIFNECDESLKSVLSEIRLNLKTGESTRRPIISEDEQVN------ 481
++++ C + + D +S + NL G+ R I V
Sbjct: 312 NGKIILDSICYNSLPQV--DTDGDFRSTNFD---NLDPGQLWRFTIDPAAATVEKQLMVS 366
Query: 482 --LEAGMVNRNLLGRKTRFAYLALAEPW---PKVSGFAKVDLLTGQVNKFIYGDQRYGGE 536
E +V+ +GR R+ Y+ A + KVDL +G + + GE
Sbjct: 367 RCCEFPVVHPQQVGRPYRYVYMGAAHHSTGNAPLQAILKVDLESGTETLRSFAPHGFAGE 426
Query: 537 PLFFPRDPNSENEDDGYILAFVHDEKEWKSELQIVNA--MTLELEATVKLPSRVPYGFHG 594
P+F PR P EDDG++L ++ +SEL I++A +T AT+KL +PY HG
Sbjct: 427 PIFVPR-PGGVAEDDGWLLCLIYKADLHRSELVILDAQDITAPAIATLKLKHHIPYPLHG 485
Query: 595 TF 596
++
Sbjct: 486 SW 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 = 62.4 bits (150), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 115/533 (21%), Positives = 204/533 (38%), Gaps = 116/533 (21%)
Query: 148 TTGKVPDCIQGVYVRNGANPLH---EPVAGHHFFDGDGMVHAVKFNKGSVSYSCRFTETN 204
TG++P + G +R G EP +H FDG ++H F +G V+Y RF T+
Sbjct: 30 VTGRIPLWLTGSLLRCGPGLFEVGSEPF--YHLFDGQALLHKFDFKEGHVTYHRRFIRTD 87
Query: 205 RFVQERS--------LGRPVFPKAIGELHGHTGIARLLLFYSRALFGLVDPSHGTGVANA 256
+V+ + G FP + +R ++ G V +
Sbjct: 88 AYVRAMTEKRIVITEFGTCAFPDPCKNI-----FSRFFSYF-----------RGVEVTDN 131
Query: 257 GLVYFNNRLLAMSED-----DLPYHVRVTPSGELKTVGRFDFSGQLK-STMIAHPKVD-- 308
LV + + ED + + +V P L+T+ + D + + AHP ++
Sbjct: 132 ALV----NIYPVGEDYYACTETNFITKVNPE-TLETIKQVDLCNYVSVNGATAHPHIEND 186
Query: 309 -------PVTGDLFALSYDVVKKPYLKYFRFSPQGIKSPDVEIPLEE---PTMMHDFAIT 358
G F+++Y++VK P L+ + P V+ P + P+ +H F +T
Sbjct: 187 GTVYNIGNCFGKNFSIAYNIVKIPPLQADKEDPISKSEIVVQFPCSDRFKPSYVHSFGLT 246
Query: 359 ENFVVVPDQQVVFKLKEMIRGGSPVIYDKNKVSRF----------GILDKNATDASKMKW 408
N++V + V L + + S ++ N + F I DK K+
Sbjct: 247 PNYIVFVETPVKINLFKFLSSWS--LWGANYMDCFESNETMGVWLHIADKKRKKYINNKY 304
Query: 409 IDAPDCFCFHLWNAWEEPERDEVVVIGSCMTPADSIFNECD-ESLKSVLSEIRLNLK--- 464
+P FH N +E+ E ++V C + ++N +L+ E++ N +
Sbjct: 305 RTSPFNL-FHHINTYEDHEF--LIVDLCCWKGFEFVYNYLYLANLRENWEEVKKNARKAP 361
Query: 465 -----------------TGE-------STRRPIISEDEQVNLEAGMV------------- 487
TG+ +T I+ DE + LE ++
Sbjct: 362 QPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQAFEFPQI 421
Query: 488 -NRNLLGRKTRFAY-LALAEPWPKVSGFAKVDLLTGQVNKFIYGDQRYGGEPLFFPRDPN 545
+ G+ +AY L L P K+++ T + + D Y EP+F P+
Sbjct: 422 NYQKYGGKPYTYAYGLGLNHFVP--DRLCKLNVKTKETWVWQEPDS-YPSEPIFVSH-PD 477
Query: 546 SENEDDGYILAFVHD--EKEWKSELQIVNAMTLELEATVKLPSRVPYGFHGTF 596
+ EDDG +L+ V + + L I+NA L A ++ +P FHG F
Sbjct: 478 ALEEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSEVARAEVEINIPVTFHGLF 530
>pdb|3AYF|A Chain A, Crystal Structure Of Nitric Oxide Reductase
pdb|3AYG|A Chain A, Crystal Structure Of Nitric Oxide Reductase Complex With
Hqno
Length = 800
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 206 FVQERSLGRPVFPKAIGELHGHTGIARLLLFYSRALFGLVDPSHGTG 252
F+Q+ + + +A+ + G+ LL+F +ALF L P+HG G
Sbjct: 729 FLQQDVVQNLLLVRAVPDTIFLIGVVALLVFAIKALFHLRKPTHGEG 775
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 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,586,684
Number of Sequences: 62578
Number of extensions: 767230
Number of successful extensions: 1189
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1176
Number of HSP's gapped (non-prelim): 6
length of query: 606
length of database: 14,973,337
effective HSP length: 104
effective length of query: 502
effective length of database: 8,465,225
effective search space: 4249542950
effective search space used: 4249542950
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)