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= 007291
(609 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 = 721 bits (1862), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 341/496 (68%), Positives = 401/496 (80%), Gaps = 3/496 (0%)
Query: 117 ERQHPLPKTADPRVQIGGNFAPVPERPVRHGLPVTGSIPECINGVYLRNGANPLFEPVAG 176
ER H LP TADP VQI GNFAPV ERP H LPV+G IP I+GVY RNGANP F+PVAG
Sbjct: 33 ERPHGLPSTADPAVQIAGNFAPVGERPPVHELPVSGRIPPFIDGVYARNGANPCFDPVAG 92
Query: 177 HHFFDGDGMVHAVTIGNGSA-SYACRFTETQRLMQERELGRPVFPKAIGELHGHNGIGRL 235
HH FDGDGMVHA+ I NG+A SYACRFTET RL QER +GRPVFPKAIGELHGH+GI RL
Sbjct: 93 HHLFDGDGMVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELHGHSGIARL 152
Query: 236 LLFYARGLFGLVDHKQGTGVANAGLVYFNNRILAMSEDDLPYQVRITPSGDLETVGRYNF 295
LFYAR GLVD GTGVANAGLVYFN R+LAMSEDDLPY VR+ GDLETVGRY+F
Sbjct: 153 ALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLETVGRYDF 212
Query: 296 NHQLKSTMIAHPKVDPVSKELFALSYDVVQKPYLKYFRFSADGDKSPDVEIHLPVPTMMH 355
+ QL MIAHPK+DP + EL ALSYDV+++PYLKYF F DG KS DVEI L PTM+H
Sbjct: 213 DGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIH 272
Query: 356 DFAITENFVVIPDQQVVFKLQEMITGGSPVIYDKNKKSRFGILAKNAKDSNDIIWIESPD 415
DFAITEN VV+PD QVVFKLQEM+ GGSPV+ D K SRFG+L K+A D++++ W++ PD
Sbjct: 273 DFAITENLVVVPDHQVVFKLQEMLRGGSPVVLDAAKTSRFGVLPKHAADASEMAWVDVPD 332
Query: 416 TFCFHLWNAWEEPETDEIVVIGSCMTPADSIFNECDESLKSVLSEIRLNLKTGESTRRQI 475
FCFHLWNAWE+ T E+VVIGSCMTPADSIFNE DE L+SVL+EIRL+ +TG STRR +
Sbjct: 333 CFCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRLDARTGRSTRRAV 392
Query: 476 LSESDQVNLEAGMVNRNSLGRKTQFAYLAIAEPWPKVSGFAKVDLSSGEVKKYFYGDNKY 535
L S QVNLE GMVNRN LGR+T++AYLA+AEPWPKVSGFAKVDLS+GE+ K+ YG+ ++
Sbjct: 393 LPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDLSTGELTKFEYGEGRF 452
Query: 536 GGEPFFLPRD--ANNSENEDDGYILAFVHDEKTWKSELQIVNAMNLQLEASIKLPSRVPY 593
GGEP F+P D A + EDDGY+L FVHDE+ SEL +VNA +++LEA+++LPSRVP+
Sbjct: 453 GGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNAADMRLEATVQLPSRVPF 512
Query: 594 GFHGTFVDSKDLVNQA 609
GFHGTF+ ++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 = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 123/488 (25%), Positives = 208/488 (42%), Gaps = 70/488 (14%)
Query: 150 VTGSIPECINGVYLRNGANPLF---EPVAGHHFFDGDGMVHAVTI-GNGSASYACRFTET 205
V GSIP + G RNG L P+ H FDGDGMV A G+G + +F T
Sbjct: 38 VEGSIPPDLQGTLYRNGPGLLEIGDRPLK--HPFDGDGMVTAFKFPGDGRVHFQSKFVRT 95
Query: 206 QRLMQERELGRPVFPKAIGELHGHNGIGRLLLFYARGLFGLVDHKQGTGVANAGLVYFNN 265
Q ++E++ G+ ++ G A G + + +AN + Y+ +
Sbjct: 96 QGYVEEQKAGKMIYRGVFGSQP------------AGGWLKTIFDLRLKNIANTNITYWGD 143
Query: 266 RILAMSEDDLPYQVRITPSGDLETVGRYNFNHQLKST--MIAHPKVDPVSKELFALSYDV 323
R+LA+ E P+ R+ PS +L T+G + L + AHP++DP S ++D
Sbjct: 144 RLLALWEGGQPH--RLEPS-NLATIGLDDLGGILAEGQPLSAHPRIDPAS------TFDG 194
Query: 324 VQKPYLKYFRFSADGDKSPDVEIH------------LPVPTMMHDFAITENFVVIPDQQV 371
Q Y+ + S+ +E+ P +HDFAIT ++ + V
Sbjct: 195 GQPCYVTFSIKSSLSSTLTLLELDPQGKLLRQKTETFPGFAFIHDFAITPHYAIFLQNNV 254
Query: 372 VFKLQEMITG----GSPVIYDKNKKSRFGILAKNAKDSNDIIWIESPDTFCFHLWNAWEE 427
+ G G V + +K ++ ++ + D +I I F FH NA+EE
Sbjct: 255 TLNGLPYLFGLRGAGECVQFHPDKPAQIILVPR---DGGEIKRIPVQAGFVFHHANAFEE 311
Query: 428 PETDEIVVIGSCMTPADSIFNECDESLKSVLSEIRLNLKTGESTRRQILSESDQVN---- 483
+I++ C + + D +S + NL G+ R I + V
Sbjct: 312 --NGKIILDSICYNSLPQV--DTDGDFRSTNFD---NLDPGQLWRFTIDPAAATVEKQLM 364
Query: 484 ----LEAGMVNRNSLGRKTQFAYLAIAEPW---PKVSGFAKVDLSSGEVKKYFYGDNKYG 536
E +V+ +GR ++ Y+ A + KVDL SG + + +
Sbjct: 365 VSRCCEFPVVHPQQVGRPYRYVYMGAAHHSTGNAPLQAILKVDLESGTETLRSFAPHGFA 424
Query: 537 GEPFFLPRDANNSENEDDGYILAFVHDEKTWKSELQIVNAMNLQLE--ASIKLPSRVPYG 594
GEP F+PR + EDDG++L ++ +SEL I++A ++ A++KL +PY
Sbjct: 425 GEPIFVPRPGGVA--EDDGWLLCLIYKADLHRSELVILDAQDITAPAIATLKLKHHIPYP 482
Query: 595 FHGTFVDS 602
HG++ +
Sbjct: 483 LHGSWAQT 490
>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 = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 120/539 (22%), Positives = 203/539 (37%), Gaps = 121/539 (22%)
Query: 150 VTGSIPECINGVYLRNGANPLFEPVAG--HHFFDGDGMVHAVTIGNGSASYACRFTETQ- 206
VTG IP + G LR G LFE + +H FDG ++H G +Y RF T
Sbjct: 30 VTGRIPLWLTGSLLRCGPG-LFEVGSEPFYHLFDGQALLHKFDFKEGHVTYHRRFIRTDA 88
Query: 207 --RLMQER-----ELGRPVFPKAIGELHGHNGIGRLLLFYARGLFGLVDHKQGTGVANAG 259
R M E+ E G FP N R ++ +G V +
Sbjct: 89 YVRAMTEKRIVITEFGTCAFPDPC-----KNIFSRFFSYF-----------RGVEVTDNA 132
Query: 260 LVYFNNRILAMSED-----DLPYQVRITPSGDLETVGRYNF-NHQLKSTMIAHPKVD--- 310
LV I + ED + + ++ P LET+ + + N+ + AHP ++
Sbjct: 133 LV----NIYPVGEDYYACTETNFITKVNPE-TLETIKQVDLCNYVSVNGATAHPHIENDG 187
Query: 311 ------PVSKELFALSYDVVQKPYLKYFRFSADGDKSPDVEIHLPV-----PTMMHDFAI 359
+ F+++Y++V+ P L+ + D ++ + P P+ +H F +
Sbjct: 188 TVYNIGNCFGKNFSIAYNIVKIPPLQADK--EDPISKSEIVVQFPCSDRFKPSYVHSFGL 245
Query: 360 TENFVVIPDQQVVFKLQEMITGGSPVIYDKNKKSRF----------GILAKNAKDSNDII 409
T N++V + V L + ++ S ++ N F I K K +
Sbjct: 246 TPNYIVFVETPVKINLFKFLSSWS--LWGANYMDCFESNETMGVWLHIADKKRKKYINNK 303
Query: 410 WIESPDTFCFHLWNAWEEPETDEIVVIGSCMTPADSIFNECD-ESLKSVLSEIRLNLKTG 468
+ SP FH N +E+ E ++V C + ++N +L+ E++ N +
Sbjct: 304 YRTSPFNL-FHHINTYEDHEF--LIVDLCCWKGFEFVYNYLYLANLRENWEEVKKNARKA 360
Query: 469 --ESTRRQILSESDQVNLEAGMVNRN--SLGRKTQFAYLA-----IAEPWPKVSG----- 514
RR +L +N++ +N +L T A L EP SG
Sbjct: 361 PQPEVRRYVLP----LNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQAF 416
Query: 515 -FAKVDLSS--GEVKKYFYG--------------------------DNKYGGEPFFLPRD 545
F +++ G+ Y YG + Y EP F+
Sbjct: 417 EFPQINYQKYGGKPYTYAYGLGLNHFVPDRLCKLNVKTKETWVWQEPDSYPSEPIFVSHP 476
Query: 546 ANNSENEDDGYILAFVHDEKTWK--SELQIVNAMNLQLEASIKLPSRVPYGFHGTFVDS 602
++ EDDG +L+ V + + L I+NA +L A ++ +P FHG F S
Sbjct: 477 --DALEEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSEVARAEVEINIPVTFHGLFKKS 533
>pdb|1MQS|A Chain A, Crystal Structure Of Sly1p In Complex With An N-Terminal
Peptide Of Sed5p
Length = 671
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 411 IESPDTFCFHLWNAW---EEPETDEIVVIGSCMTPADSIFN 448
+ P+ F + NA+ +P+T E + G C AD +FN
Sbjct: 170 VTEPELFSLEISNAYLTLNDPKTTEEEITGLCANIADGLFN 210
>pdb|2LC0|A Chain A, Rv0020c_nter Structure
Length = 132
Score = 28.9 bits (63), Expect = 8.9, Method: Composition-based stats.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 12/87 (13%)
Query: 265 NRILAMSEDDLPYQVRITPSGDLETVGRYNFNHQLKSTMIAHPKVDPVSKELFALSYDVV 324
NR+LA +E + V D E +G + +LKST A D + ++ + DVV
Sbjct: 54 NRLLAPNEYIITLGVH-----DFEKLGA---DPELKSTGFARDLADYIQEQGWQTYGDVV 105
Query: 325 ----QKPYLKYFRFSADGDKSPDVEIH 347
Q L +F A G +PDVE H
Sbjct: 106 VRFEQSSNLHTGQFRARGTVNPDVETH 132
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
0.317 0.135 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,410,894
Number of Sequences: 62578
Number of extensions: 862127
Number of successful extensions: 1570
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: 1554
Number of HSP's gapped (non-prelim): 10
length of query: 609
length of database: 14,973,337
effective HSP length: 105
effective length of query: 504
effective length of database: 8,402,647
effective search space: 4234934088
effective search space used: 4234934088
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)