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= 015386
(408 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 = 261 bits (668), Expect = 4e-70, Method: Compositional matrix adjust.
Identities = 148/410 (36%), Positives = 228/410 (55%), Gaps = 29/410 (7%)
Query: 5 IGDVKGLFGLLMVNMTLLRESFKVLDFSYGNGAGNTALIYHHGKLLVLSEIDKPYVLKVL 64
IG++ G G+ + + R + ++D S G G N L+Y +G+LL +SE D PY ++V
Sbjct: 140 IGELHGHSGIARLALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVA 199
Query: 65 KDGDLQTLGMLDYDKRLNHPFTAHPKIDPYTDEMFTFGYTQTP-PYVTYRVISKDGFMHD 123
DGDL+T+G D+D +L AHPK+DP T E+ Y PY+ Y DG D
Sbjct: 200 DDGDLETVGRYDFDGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSD 259
Query: 124 PVPITMSAPIMMHDFAITENYAIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRY 183
V I + P M+HDFAITEN + D + F+ +EM++ + D +RFGVLP++
Sbjct: 260 DVEIPLEQPTMIHDFAITENLVVVPDHQVVFKLQEMLRGGSPV-VLDAAKTSRFGVLPKH 318
Query: 184 ARDDLQIRWFELPNCYIFHNANAWEEEEDEVVLITCRVRNPDLDMFNGPLKETLEDQTTE 243
A D ++ W ++P+C+ FH NAWE+E V++ P +FN E+ E +
Sbjct: 319 AADASEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCMTPADSIFN----ESDERLESV 374
Query: 244 LYEMRFNMKTGLASQKKLSPAC----VDFPRINEHYMGRKQRYVYGSILENIAKVTGMIK 299
L E+R + +TG ++++ + P ++ +N + +GR+ RY Y ++ E KV+G K
Sbjct: 375 LTEIRLDARTGRSTRRAVLPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAK 434
Query: 300 FDLRAEPETGK-TKLEVGGNVKGIFDLGPGRFGSEAVFVPREPSSTSE--EDDGYLIFHV 356
DL TG+ TK F+ G GRFG E FVP +P++ EDDGY++ V
Sbjct: 435 VDL----STGELTK----------FEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFV 480
Query: 357 HDENTGKSAVYVIDAKTMSADPVAVIELPHRVPYGFHGIFLSEEQLEELA 406
HDE G S + V++A M + A ++LP RVP+GFHG F++ ++LE A
Sbjct: 481 HDERAGTSELLVVNAADMRLE--ATVQLPSRVPFGFHGTFITGQELEAQA 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 = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 107/384 (27%), Positives = 175/384 (45%), Gaps = 57/384 (14%)
Query: 39 NTALIYHHGKLLVLSEIDKPYVLKVLKDGDLQTLGMLDYDKRL--NHPFTAHPKIDPYTD 96
NT + Y +LL L E +P+ L+ +L T+G+ D L P +AHP+IDP +
Sbjct: 135 NTNITYWGDRLLALWEGGQPHRLE---PSNLATIGLDDLGGILAEGQPLSAHPRIDPAS- 190
Query: 97 EMFTFGYTQTPPYVTYRV------------ISKDGFMHDPVPITMSAPIMMHDFAITENY 144
TF Q P YVT+ + + G + T +HDFAIT +Y
Sbjct: 191 ---TFDGGQ-PCYVTFSIKSSLSSTLTLLELDPQGKLLRQKTETFPGFAFIHDFAITPHY 246
Query: 145 AIFLD-------LPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRYARDDLQIRWFELPN 197
AIFL LP F ++ F P A+ ++PR D +I+ +
Sbjct: 247 AIFLQNNVTLNGLPYLFG----LRGAGECVQFHPDKPAQIILVPR---DGGEIKRIPVQA 299
Query: 198 CYIFHNANAWEEEEDEVVLITCRVRNPDLDMFNGPLKETLEDQTTELYEMRFNMKTGLAS 257
++FH+ANA+EE ++ C P +D +G + T D RF + A+
Sbjct: 300 GFVFHHANAFEENGKIILDSICYNSLPQVDT-DGDFRSTNFDNLDPGQLWRFTIDPAAAT 358
Query: 258 QKK--LSPACVDFPRINEHYMGRKQRYVYGSILENI---AKVTGMIKFDLRAEPETGKTK 312
+K + C +FP ++ +GR RYVY + A + ++K DL + ET ++
Sbjct: 359 VEKQLMVSRCCEFPVVHPQQVGRPYRYVYMGAAHHSTGNAPLQAILKVDLESGTETLRS- 417
Query: 313 LEVGGNVKGIFDLGPGRFGSEAVFVPREPSSTSEEDDGYLIFHVHDENTGKSAVYVIDAK 372
P F E +FVPR P +E DDG+L+ ++ + +S + ++DA+
Sbjct: 418 ------------FAPHGFAGEPIFVPR-PGGVAE-DDGWLLCLIYKADLHRSELVILDAQ 463
Query: 373 TMSADPVAVIELPHRVPYGFHGIF 396
++A +A ++L H +PY HG +
Sbjct: 464 DITAPAIATLKLKHHIPYPLHGSW 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 = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 64/314 (20%), Positives = 119/314 (37%), Gaps = 69/314 (21%)
Query: 132 PIMMHDFAITENYAIFLDLPMCFRQKEMVKENKL-------IYAFDPTIKARFGVLPRYA 184
P +H F +T NY +F++ P+ + + L + + T+ + +
Sbjct: 237 PSYVHSFGLTPNYIVFVETPVKINLFKFLSSWSLWGANYMDCFESNETMGVWLHIADKKR 296
Query: 185 RDDLQIRWFELPNCYIFHNANAWEEEEDEVVLITC------------------------- 219
+ + ++ P +FH+ N +E+ E +V + C
Sbjct: 297 KKYINNKYRTSP-FNLFHHINTYEDHEFLIVDLCCWKGFEFVYNYLYLANLRENWEEVKK 355
Query: 220 ---RVRNPDLDMFNGPLKETLEDQTTELYEMRFNMKTGLASQKK---LSPACV------- 266
+ P++ + PL D L + T + + L P +
Sbjct: 356 NARKAPQPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQA 415
Query: 267 -DFPRIN-EHYMGRKQRYVYGSILENIAKVTGMIKFDLRAEPETGKTKLEVGGNVKGIFD 324
+FP+IN + Y G+ Y YG L + + K +++ + ET +
Sbjct: 416 FEFPQINYQKYGGKPYTYAYGLGLNHFVP-DRLCKLNVKTK-ETWVWQ------------ 461
Query: 325 LGPGRFGSEAVFVPREPSSTSEEDDGYLIFHVHDENTGKSAVY--VIDAKTMSADPVAVI 382
P + SE +FV P + EEDDG ++ V G+ Y +++AK +S VA
Sbjct: 462 -EPDSYPSEPIFV-SHPDAL-EEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSE--VARA 516
Query: 383 ELPHRVPYGFHGIF 396
E+ +P FHG+F
Sbjct: 517 EVEINIPVTFHGLF 530
>pdb|3P4G|A Chain A, X-Ray Crystal Structure Of A Hyperactive, Ca2+-Dependent,
Beta-Helical Antifreeze Protein From An Antarctic
Bacterium
pdb|3P4G|B Chain B, X-Ray Crystal Structure Of A Hyperactive, Ca2+-Dependent,
Beta-Helical Antifreeze Protein From An Antarctic
Bacterium
pdb|3P4G|C Chain C, X-Ray Crystal Structure Of A Hyperactive, Ca2+-Dependent,
Beta-Helical Antifreeze Protein From An Antarctic
Bacterium
pdb|3P4G|D Chain D, X-Ray Crystal Structure Of A Hyperactive, Ca2+-Dependent,
Beta-Helical Antifreeze Protein From An Antarctic
Bacterium
Length = 323
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 277 GRKQRYVYGSILENIAKVTGM----IKFDLRA--EPETGKTKLEVGGNVKGIFDLGP 327
G Q YV G +L I TG IK D+ A + TG ++ +GGN+ G D G
Sbjct: 82 GNDQLYVAGDVLGKIDAGTGNDEIYIKGDVSAAVDAGTGNDEVYIGGNLSGDLDAGT 138
>pdb|1QYR|A Chain A, 2.1 Angstrom Crystal Structure Of Ksga: A Universally
Conserved Adenosine Dimethyltransferase
pdb|1QYR|B Chain B, 2.1 Angstrom Crystal Structure Of Ksga: A Universally
Conserved Adenosine Dimethyltransferase
pdb|4ADV|V Chain V, Structure Of The E. Coli Methyltransferase Ksga Bound To
The E. Coli 30s Ribosomal Subunit
Length = 252
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 53/122 (43%), Gaps = 21/122 (17%)
Query: 69 LQTLGMLDYDKRL-----NHPFTAHPKIDPYTDEMFTFGYTQTPPYV--TYRVISKDGFM 121
L L +++ D+ L HPF PK+ Y + TF + + + RV
Sbjct: 43 LDQLTVIELDRDLAARLQTHPFLG-PKLTIYQQDAMTFNFGELAEKMGQPLRVFGN---- 97
Query: 122 HDPVPITMSAPIMMHDFAITENYAIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLP 181
+P +S P+M H F+ T+ A D+ QKE+V N+L+ + R V+
Sbjct: 98 ---LPYNISTPLMFHLFSYTDAIA---DMHFML-QKEVV--NRLVAGPNSKAYGRLSVMA 148
Query: 182 RY 183
+Y
Sbjct: 149 QY 150
>pdb|3TPZ|A Chain A, 2.1 Angstrom Crystal Structure Of The L114p Mutant Of E.
Coli Ksga
pdb|3TPZ|B Chain B, 2.1 Angstrom Crystal Structure Of The L114p Mutant Of E.
Coli Ksga
Length = 273
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 54/120 (45%), Gaps = 17/120 (14%)
Query: 69 LQTLGMLDYDKRL-----NHPFTAHPKIDPYTDEMFTFGYTQTPPYVTYRVISKDGFMHD 123
L L +++ D+ L HPF PK+ Y + TF + + + ++ +
Sbjct: 59 LDQLTVIELDRDLAARLQTHPFLG-PKLTIYQQDAMTFNFGE----LAEKMGQPLRVFGN 113
Query: 124 PVPITMSAPIMMHDFAITENYAIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRY 183
P P +S P+M H F+ T+ A D+ QKE+V N+L+ + R V+ +Y
Sbjct: 114 P-PYNISTPLMFHLFSYTDAIA---DMHFML-QKEVV--NRLVAGPNSKAYGRLSVMAQY 166
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 0.140 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,146,755
Number of Sequences: 62578
Number of extensions: 586595
Number of successful extensions: 1095
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1078
Number of HSP's gapped (non-prelim): 10
length of query: 408
length of database: 14,973,337
effective HSP length: 101
effective length of query: 307
effective length of database: 8,652,959
effective search space: 2656458413
effective search space used: 2656458413
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: 53 (25.0 bits)