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= 015522
(405 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 = 268 bits (685), Expect = 4e-72, Method: Compositional matrix adjust.
Identities = 155/410 (37%), Positives = 228/410 (55%), Gaps = 30/410 (7%)
Query: 3 IGDLKGLFGLLMVNMQMLRAKLKVLDVSYGNGTANTALVYHHGKLLALSEADKPYAVKVL 62
IG+L G G+ + + RA ++D S G G AN LVY +G+LLA+SE D PY V+V
Sbjct: 140 IGELHGHSGIARLALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVA 199
Query: 63 EDGDLQTLGMLDYDKRLQHSFTAHPKVDPYTGEMFTFGY-AHTPPYITYRVISKDGFMHD 121
+DGDL+T+G D+D +L + AHPK+DP TGE+ Y PY+ Y DG D
Sbjct: 200 DDGDLETVGRYDFDGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSD 259
Query: 122 PVPITVSDPIMMHDFAITENYAIFMDLPLYFRPKEMVKENKLIFTFDDTKKARFGILPRY 181
V I + P M+HDFAITEN + D + F+ +EM++ + D K +RFG+LP++
Sbjct: 260 DVEIPLEQPTMIHDFAITENLVVVPDHQVVFKLQEMLRGGSPV-VLDAAKTSRFGVLPKH 318
Query: 182 AKNEAQMKWFELPNCFIFHNANAWEEE--DEVVLITCRLDKPDLDMVNGAVKEKLENFSN 239
A + ++M W ++P+CF FH NAWE+E EVV+I + D E E +
Sbjct: 319 AADASEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCMTPAD-----SIFNESDERLES 373
Query: 240 ELYEMRFNLKTGLASQKRLSASA----VDFPRVNECYTGRKQRYVYGTILDSIAKVTGII 295
L E+R + +TG ++++ + + ++ VN GR+ RY Y + + KV+G
Sbjct: 374 VLTEIRLDARTGRSTRRAVLPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFA 433
Query: 296 KFDLHAEPDEEKTKLEVGGNVRGIFDLGPGRFGSEAVFVPREPGTSSE--EDVGYLIFFS 353
K DL E TK F+ G GRFG E FVP +P + ED GY++ F
Sbjct: 434 KVDLST---GELTK----------FEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFV 480
Query: 354 HDEKTGKSSVNVIDAKTMSADPVAVVELPHRVPYGFHAFFVSEEQLEEQA 403
HDE+ G S + V++A M + A V+LP RVP+GFH F++ ++LE QA
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 = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 109/416 (26%), Positives = 183/416 (43%), Gaps = 63/416 (15%)
Query: 7 KGLFGLLMVNMQMLRAKLK-VLDVSYGNGTANTALVYHHGKLLALSEADKPYAVKVLEDG 65
+G+FG Q LK + D+ N ANT + Y +LLAL E +P+ LE
Sbjct: 110 RGVFG-----SQPAGGWLKTIFDLRLKN-IANTNITYWGDRLLALWEGGQPHR---LEPS 160
Query: 66 DLQTLGMLDYDKRLQ--HSFTAHPKVDPYTGEMFTFGYAHTPPYITYRV----------- 112
+L T+G+ D L +AHP++DP + TF P Y+T+ +
Sbjct: 161 NLATIGLDDLGGILAEGQPLSAHPRIDPAS----TFDGGQ-PCYVTFSIKSSLSSTLTLL 215
Query: 113 -ISKDGFMHDPVPITVSDPIMMHDFAITENYAIFMD-------LPLYFRPKEMVKENKLI 164
+ G + T +HDFAIT +YAIF+ LP F ++
Sbjct: 216 ELDPQGKLLRQKTETFPGFAFIHDFAITPHYAIFLQNNVTLNGLPYLFG----LRGAGEC 271
Query: 165 FTFDDTKKARFGILPRYAKNEAQMKWFELPNCFIFHNANAWEEEDEVVLIT-CRLDKPDL 223
F K A+ ++PR + ++K + F+FH+ANA+EE +++L + C P +
Sbjct: 272 VQFHPDKPAQIILVPR---DGGEIKRIPVQAGFVFHHANAFEENGKIILDSICYNSLPQV 328
Query: 224 DMVNGAVKEKLENFS-NELYEMRFNLKTGLASQKRLSASAVDFPRVNECYTGRKQRYVY- 281
D +N +L+ + ++ + + +FP V+ GR RYVY
Sbjct: 329 DTDGDFRSTNFDNLDPGQLWRFTIDPAAATVEKQLMVSRCCEFPVVHPQQVGRPYRYVYM 388
Query: 282 GTILDSI--AKVTGIIKFDLHAEPDEEKTKLEVGGNVRGIFDLGPGRFGSEAVFVPREPG 339
G S A + I+K DL + + ++ P F E +FVPR PG
Sbjct: 389 GAAHHSTGNAPLQAILKVDLESGTETLRS-------------FAPHGFAGEPIFVPR-PG 434
Query: 340 TSSEEDVGYLIFFSHDEKTGKSSVNVIDAKTMSADPVAVVELPHRVPYGFHAFFVS 395
+E+D G+L+ + +S + ++DA+ ++A +A ++L H +PY H +
Sbjct: 435 GVAEDD-GWLLCLIYKADLHRSELVILDAQDITAPAIATLKLKHHIPYPLHGSWAQ 489
>pdb|3H41|A Chain A, Crystal Structure Of A NlpcP60 FAMILY PROTEIN (BCE_2878)
FROM Bacillus Cereus Atcc 10987 At 1.79 A Resolution
Length = 311
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 11/49 (22%)
Query: 327 FGSEAVFVPREPGTSSEEDV---------GYLIFFSHDEKTGKSSVNVI 366
+ S + +PR+ G S V G LIFF+HD+ GK SV+ +
Sbjct: 224 YKSHGITIPRDSGPQSRNGVAVDKEHLQKGDLIFFAHDQ--GKGSVHHV 270
>pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synthetase Complexed
With Its Cognate Trna
Length = 642
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 285 LDSIAKVTGIIKFDLHAEPDEEKTKLEVGGNVRGIFDLGPGRFGSEAVFVPREPGTSSEE 344
L + +V G + D H EE+ + EV G +R ++D+ FG E + V + T E+
Sbjct: 370 LHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDM-YSTFGFEKIVV--KLSTRPEK 426
Query: 345 DVG 347
+G
Sbjct: 427 RIG 429
>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 = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 64/318 (20%), Positives = 115/318 (36%), Gaps = 78/318 (24%)
Query: 130 PIMMHDFAITENYAIFMDLPLYFRPKEMVKENKL-------IFTFDDTKKARFGIL---- 178
P +H F +T NY +F++ P+ + + L F ++T I
Sbjct: 237 PSYVHSFGLTPNYIVFVETPVKINLFKFLSSWSLWGANYMDCFESNETMGVWLHIADKKR 296
Query: 179 PRYAKNEAQMKWFELPNCFIFHNANAWEEEDEVVLITCRLDKPD-----LDMVNGAVKEK 233
+Y N+ + F L FH+ N +E+ + +++ C + L + N ++E
Sbjct: 297 KKYINNKYRTSPFNL-----FHHINTYEDHEFLIVDLCCWKGFEFVYNYLYLAN--LREN 349
Query: 234 LENFSNEL----------YEMRFNL---KTG--LASQKRLSASAV--------------- 263
E Y + N+ TG L + +A+A+
Sbjct: 350 WEEVKKNARKAPQPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLF 409
Query: 264 -------DFPRVN-ECYTGRKQRYVYGTILDSIAKVTGIIKFDLHAEPDEEKTKLEVGGN 315
+FP++N + Y G+ Y YG L+ H PD KL V
Sbjct: 410 SGPRQAFEFPQINYQKYGGKPYTYAYGLGLN-------------HFVPD-RLCKLNVKTK 455
Query: 316 VRGIFDLGPGRFGSEAVFVPREPGTSSEEDVGYLIFFSHDEKTGKSSVNVIDAKTMSADP 375
++ P + SE +FV ++ V + S + + +++AK +S
Sbjct: 456 ETWVWQ-EPDSYPSEPIFVSHPDALEEDDGVVLSVVVSPGAGQKPAYLLILNAKDLSE-- 512
Query: 376 VAVVELPHRVPYGFHAFF 393
VA E+ +P FH F
Sbjct: 513 VARAEVEINIPVTFHGLF 530
>pdb|1EVK|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVK|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVL|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|C Chain C, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|D Chain D, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1FYF|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1FYF|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1KOG|A Chain A, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|B Chain B, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|C Chain C, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|D Chain D, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|E Chain E, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|F Chain F, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|G Chain G, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|H Chain H, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
Length = 401
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 285 LDSIAKVTGIIKFDLHAEPDEEKTKLEVGGNVRGIFDLGPGRFGSEAVFVPREPGTSSEE 344
L + +V G + D H EE+ + EV G +R ++D+ FG E + V + T E+
Sbjct: 129 LHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDM-YSTFGFEKIVV--KLSTRPEK 185
Query: 345 DVG 347
+G
Sbjct: 186 RIG 188
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 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,566,501
Number of Sequences: 62578
Number of extensions: 545271
Number of successful extensions: 1079
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1066
Number of HSP's gapped (non-prelim): 10
length of query: 405
length of database: 14,973,337
effective HSP length: 101
effective length of query: 304
effective length of database: 8,652,959
effective search space: 2630499536
effective search space used: 2630499536
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)