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= 013529
(441 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 = 291 bits (744), Expect = 6e-79, Method: Compositional matrix adjust.
Identities = 165/449 (36%), Positives = 253/449 (56%), Gaps = 31/449 (6%)
Query: 1 MLHGLRIKDGKA-AYVSRYVKTSRLKQEEFFGGAKFTK-IGDVKGLFGLLMVNMTLLRES 58
M+H LRI++G A +Y R+ +T+RL+QE G F K IG++ G G+ + + R +
Sbjct: 101 MVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELHGHSGIARLALFYARAA 160
Query: 59 FKVLDFSYGNGAGNTALIYHHGKLLVLSEIDKPYVLKVLKDGDLQTLGMLDYDKRLNHPF 118
++D S G G N L+Y +G+LL +SE D PY ++V DGDL+T+G D+D +L
Sbjct: 161 CGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLETVGRYDFDGQLGCAM 220
Query: 119 TAHPKIDPYTDEMFTFGYTQTP-PYVTYRVISKDGFMHDPVPITMSAPIMMHDFAITENY 177
AHPK+DP T E+ Y PY+ Y DG D V I + P M+HDFAITEN
Sbjct: 221 IAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIHDFAITENL 280
Query: 178 AIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRYARDDLQIRWFELPNCYIFHNA 237
+ D + F+ +EM++ + D +RFGVLP++A D ++ W ++P+C+ FH
Sbjct: 281 VVVPDHQVVFKLQEMLRGGSPV-VLDAAKTSRFGVLPKHAADASEMAWVDVPDCFCFHLW 339
Query: 238 NAWEEEEDEVVLITCRVRNPDLDMFNGPLKETLEDQTTELYEMRFNMKTGLASQKKLSPA 297
NAWE+E V++ P +FN E+ E + L E+R + +TG ++++ + P
Sbjct: 340 NAWEDEATGEVVVIGSCMTPADSIFN----ESDERLESVLTEIRLDARTGRSTRRAVLPP 395
Query: 298 C----VDFPRINEHYMGRKQRYVYGSILENIAKVTGMIKFDLRAEPETGK-TKLEVGGNV 352
++ +N + +GR+ RY Y ++ E KV+G K DL TG+ TK
Sbjct: 396 SQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDL----STGELTK------- 444
Query: 353 KGIFDLGPGRFGSEAVFVPREPSSTSE--EDDGYLIFHVHDENTGKSAVYVIDAKTMSAD 410
F+ G GRFG E FVP +P++ EDDGY++ VHDE G S + V++A M +
Sbjct: 445 ---FEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNAADMRLE 501
Query: 411 PVAVIELPHRVPYGFHGIFLSEEQLEELA 439
A ++LP RVP+GFHG F++ ++LE A
Sbjct: 502 --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 = 127 bits (318), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 121/447 (27%), Positives = 200/447 (44%), Gaps = 68/447 (15%)
Query: 9 DGKAAYVSRYVKTSRLKQEEFFGGAKFTKIGDVKGLFGLLMVNMTLLRESFKVLDFSYGN 68
DG+ + S++V+T +E+ G + +G+FG L + D N
Sbjct: 83 DGRVHFQSKFVRTQGYVEEQKAGKMIY------RGVFGSQPAGGWLK----TIFDLRLKN 132
Query: 69 GAGNTALIYHHGKLLVLSEIDKPYVLKVLKDGDLQTLGMLDYDKRL--NHPFTAHPKIDP 126
A NT + Y +LL L E +P+ L+ +L T+G+ D L P +AHP+IDP
Sbjct: 133 IA-NTNITYWGDRLLALWEGGQPHRLE---PSNLATIGLDDLGGILAEGQPLSAHPRIDP 188
Query: 127 YTDEMFTFGYTQTPPYVTYRV------------ISKDGFMHDPVPITMSAPIMMHDFAIT 174
+ TF Q P YVT+ + + G + T +HDFAIT
Sbjct: 189 AS----TFDGGQ-PCYVTFSIKSSLSSTLTLLELDPQGKLLRQKTETFPGFAFIHDFAIT 243
Query: 175 ENYAIFLD-------LPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRYARDDLQIRWFE 227
+YAIFL LP F ++ F P A+ ++PR D +I+
Sbjct: 244 PHYAIFLQNNVTLNGLPYLFG----LRGAGECVQFHPDKPAQIILVPR---DGGEIKRIP 296
Query: 228 LPNCYIFHNANAWEEEEDEVVLITCRVRNPDLDMFNGPLKETLEDQTTELYEMRFNMKTG 287
+ ++FH+ANA+EE ++ C P +D +G + T D RF +
Sbjct: 297 VQAGFVFHHANAFEENGKIILDSICYNSLPQVDT-DGDFRSTNFDNLDPGQLWRFTIDPA 355
Query: 288 LASQKK--LSPACVDFPRINEHYMGRKQRYVYGSILENI---AKVTGMIKFDLRAEPETG 342
A+ +K + C +FP ++ +GR RYVY + A + ++K DL + ET
Sbjct: 356 AATVEKQLMVSRCCEFPVVHPQQVGRPYRYVYMGAAHHSTGNAPLQAILKVDLESGTETL 415
Query: 343 KTKLEVGGNVKGIFDLGPGRFGSEAVFVPREPSSTSEEDDGYLIFHVHDENTGKSAVYVI 402
++ P F E +FVPR P +E DDG+L+ ++ + +S + ++
Sbjct: 416 RS-------------FAPHGFAGEPIFVPR-PGGVAE-DDGWLLCLIYKADLHRSELVIL 460
Query: 403 DAKTMSADPVAVIELPHRVPYGFHGIF 429
DA+ ++A +A ++L H +PY HG +
Sbjct: 461 DAQDITAPAIATLKLKHHIPYPLHGSW 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 = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 64/314 (20%), Positives = 119/314 (37%), Gaps = 69/314 (21%)
Query: 165 PIMMHDFAITENYAIFLDLPMCFRQKEMVKENKL-------IYAFDPTIKARFGVLPRYA 217
P +H F +T NY +F++ P+ + + L + + T+ + +
Sbjct: 237 PSYVHSFGLTPNYIVFVETPVKINLFKFLSSWSLWGANYMDCFESNETMGVWLHIADKKR 296
Query: 218 RDDLQIRWFELPNCYIFHNANAWEEEEDEVVLITC------------------------- 252
+ + ++ P +FH+ N +E+ E +V + C
Sbjct: 297 KKYINNKYRTSP-FNLFHHINTYEDHEFLIVDLCCWKGFEFVYNYLYLANLRENWEEVKK 355
Query: 253 ---RVRNPDLDMFNGPLKETLEDQTTELYEMRFNMKTGLASQKK---LSPACV------- 299
+ P++ + PL D L + T + + L P +
Sbjct: 356 NARKAPQPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQA 415
Query: 300 -DFPRIN-EHYMGRKQRYVYGSILENIAKVTGMIKFDLRAEPETGKTKLEVGGNVKGIFD 357
+FP+IN + Y G+ Y YG L + + K +++ + ET +
Sbjct: 416 FEFPQINYQKYGGKPYTYAYGLGLNHFVP-DRLCKLNVKTK-ETWVWQ------------ 461
Query: 358 LGPGRFGSEAVFVPREPSSTSEEDDGYLIFHVHDENTGKSAVY--VIDAKTMSADPVAVI 415
P + SE +FV P + EEDDG ++ V G+ Y +++AK +S VA
Sbjct: 462 -EPDSYPSEPIFV-SHPDAL-EEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSE--VARA 516
Query: 416 ELPHRVPYGFHGIF 429
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 = 0.61, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 310 GRKQRYVYGSILENIAKVTGM----IKFDLRA--EPETGKTKLEVGGNVKGIFDLGP 360
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 = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 53/122 (43%), Gaps = 21/122 (17%)
Query: 102 LQTLGMLDYDKRL-----NHPFTAHPKIDPYTDEMFTFGYTQTPPYV--TYRVISKDGFM 154
L L +++ D+ L HPF PK+ Y + TF + + + RV
Sbjct: 43 LDQLTVIELDRDLAARLQTHPFLG-PKLTIYQQDAMTFNFGELAEKMGQPLRVFGN---- 97
Query: 155 HDPVPITMSAPIMMHDFAITENYAIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLP 214
+P +S P+M H F+ T+ A D+ QKE+V N+L+ + R V+
Sbjct: 98 ---LPYNISTPLMFHLFSYTDAIA---DMHFML-QKEVV--NRLVAGPNSKAYGRLSVMA 148
Query: 215 RY 216
+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 = 9.6, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 54/120 (45%), Gaps = 17/120 (14%)
Query: 102 LQTLGMLDYDKRL-----NHPFTAHPKIDPYTDEMFTFGYTQTPPYVTYRVISKDGFMHD 156
L L +++ D+ L HPF PK+ Y + TF + + + ++ +
Sbjct: 59 LDQLTVIELDRDLAARLQTHPFLG-PKLTIYQQDAMTFNFGE----LAEKMGQPLRVFGN 113
Query: 157 PVPITMSAPIMMHDFAITENYAIFLDLPMCFRQKEMVKENKLIYAFDPTIKARFGVLPRY 216
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
0.321 0.140 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,152,908
Number of Sequences: 62578
Number of extensions: 630741
Number of successful extensions: 1195
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1176
Number of HSP's gapped (non-prelim): 10
length of query: 441
length of database: 14,973,337
effective HSP length: 102
effective length of query: 339
effective length of database: 8,590,381
effective search space: 2912139159
effective search space used: 2912139159
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: 53 (25.0 bits)