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= 020120
(331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 74/290 (25%), Positives = 124/290 (42%), Gaps = 24/290 (8%)
Query: 40 QFMIAGSIAGSVEHMAMFPVDTVKTHMQAIG--------SCPIKSVGVRQALKSILKTEG 91
+F+ AG+ A + + FP+DT K +Q G + + GV + ++++TEG
Sbjct: 4 KFLGAGT-AACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEG 62
Query: 92 PSGLYRGIGAMGLGAGPAHA-VYFSIYEVSKKFLSAGNPNNAV-AHAISGVFATVASDAV 149
P LY G+ A GL + A V +Y+ K+F + G+ + + + ++G + AV
Sbjct: 63 PRSLYNGLVA-GLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAV 121
Query: 150 FTPMDMVKQRLQL----GENSTYKGVWDCVKRVLREEGLGAFYASYRTTVLMNAPFTAVH 205
P D+VK R Q G Y+ + K + REEG+ + V NA
Sbjct: 122 AQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAE 181
Query: 206 FATYEATKRGLMEISPESASDERXXXXXXXXXXXXXXXXXXXXPLDVVKTQLQCQGVCGC 265
TY+ K L++ + + + P+DVVKT+ +
Sbjct: 182 LVTYDLIKDTLLKANLMT---DDLPCHFTSAFGAGFCTTVIASPVDVVKTRYMNSALG-- 236
Query: 266 DRFQSSSIGHVIQTIIKKDGYRGLIRGWMPRMLFHAPAAAICWSTYEACK 315
Q S GH T+++K+G R +G+MP L + + TYE K
Sbjct: 237 ---QYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLK 283
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 51/184 (27%), Positives = 77/184 (41%), Gaps = 12/184 (6%)
Query: 42 MIAGSIAGSVEHMAMFPVDTVKTHMQAIGSCPIKSVGVR------QALKSILKTEGPSGL 95
++AGS G++ P D VK QA ++ G R +A K+I + EG GL
Sbjct: 108 LLAGSTTGALAVAVAQPTDVVKVRFQA----QARAGGGRRYQSTVEAYKTIAREEGIRGL 163
Query: 96 YRGIGAMGLGAGPAHAVYFSIYEVSKKFLSAGN--PNNAVAHAISGVFATVASDAVFTPM 153
++G + Y++ K L N ++ H S A + + +P+
Sbjct: 164 WKGTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVIASPV 223
Query: 154 DMVKQRLQLGENSTYKGVWDCVKRVLREEGLGAFYASYRTTVLMNAPFTAVHFATYEATK 213
D+VK R Y C +LR+EG AFY + + L + V F TYE K
Sbjct: 224 DVVKTRYMNSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLK 283
Query: 214 RGLM 217
R LM
Sbjct: 284 RALM 287
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 51/211 (24%), Positives = 81/211 (38%), Gaps = 28/211 (13%)
Query: 122 KFLSAGNPNNAVAHAISGVFATVASDAVFTPMDMVKQRLQL-GEN---------STYKGV 171
KFL AG A +D + P+D K RLQ+ GE+ + Y+GV
Sbjct: 4 KFLGAGT-------------AACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGV 50
Query: 172 WDCVKRVLREEGLGAFYASYRTTVLMNAPFTAVHFATYEATKRGLMEISPESASDERXXX 231
+ ++R EG + Y + F +V Y++ K+ + S + R
Sbjct: 51 LGTILTMVRTEGPRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLA 110
Query: 232 XXXXXXXXXXXXXXXXXPLDVVKTQLQCQGVCGCDRFQSSSIGHVIQTIIKKDGYRGLIR 291
P DVVK + Q Q G R S++ +TI +++G RGL +
Sbjct: 111 GSTTGALAVAVAQ----PTDVVKVRFQAQARAGGGRRYQSTV-EAYKTIAREEGIRGLWK 165
Query: 292 GWMPRMLFHAPAAAICWSTYEACKSFFEEVN 322
G P + +A TY+ K + N
Sbjct: 166 GTSPNVARNAIVNCAELVTYDLIKDTLLKAN 196
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 29/69 (42%), Gaps = 2/69 (2%)
Query: 58 PVDTVKTHMQAIGSCPIKSVGVRQALKSILKTEGPSGLYRGIGAMGLGAGPAHAVYFSIY 117
PVD VKT S G ++L+ EGP Y+G L G + V F Y
Sbjct: 222 PVDVVKTRYMNSALGQYHSAG--HCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTY 279
Query: 118 EVSKKFLSA 126
E K+ L A
Sbjct: 280 EQLKRALMA 288
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 49/187 (26%), Positives = 87/187 (46%), Gaps = 20/187 (10%)
Query: 37 RYWQF----MIAGSIAGSVEHMAMFPVDTVKTHMQA---IGSCPIKSVGVRQALKSILKT 89
++W++ + +G AG+ ++P+D +T + A G+ + G+ + I K+
Sbjct: 107 QFWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKS 166
Query: 90 EGPSGLYRGIGAMGLGAGPAHAVYFSIYEVSKKFLSAGNPNNA---VAHAISGVFATVAS 146
+G GLY+G G A YF +Y+ +K L +P N V+ I+ VA
Sbjct: 167 DGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLP--DPKNVHIIVSWMIAQTVTAVAG 224
Query: 147 DAVFTPMDMVKQRLQL-----GENSTYKGVWDCVKRVLREEGLGAFYASYRTTVL--MNA 199
V P D V++R+ + G + Y G DC +++ ++EG AF+ + VL M
Sbjct: 225 -LVSYPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGG 283
Query: 200 PFTAVHF 206
F V +
Sbjct: 284 AFVLVLY 290
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 59/301 (19%), Positives = 117/301 (38%), Gaps = 28/301 (9%)
Query: 36 LRYWQFMIAGSIAGSVEHMAMFPVDTVKTHMQAIGSCPIKSVGVRQALKSIL-------K 88
L + + +AG +A ++ A+ P++ VK +Q + K + + K I+ K
Sbjct: 5 LSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHAS--KQISAEKQYKGIIDCVVRIPK 62
Query: 89 TEGPSGLYRGIGAMGLGAGPAHAVYFSIYEVSKKFLSAGNPNNA------VAHAISGVFA 142
+G +RG A + P A+ F+ + K+ G + + SG A
Sbjct: 63 EQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAA 122
Query: 143 TVASDAVFTPMDMVKQRL--QLGENST---YKGVWDCVKRVLREEGLGAFYASYRTTVLM 197
S P+D + RL +G+ + + G+ +C+ ++ + +GL Y + +V
Sbjct: 123 GATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQG 182
Query: 198 NAPFTAVHFATYEATKRGLMEISPESASDERXXXXXXXXXXXXXXXXXXXXPLDVVKTQL 257
+ A +F Y+ T +G++ P++ P D V+ ++
Sbjct: 183 IIIYRAAYFGVYD-TAKGMLP-DPKNV---HIIVSWMIAQTVTAVAGLVSYPFDTVRRRM 237
Query: 258 QCQ-GVCGCDRFQSSSIGHVIQTIIKKDGYRGLIRGWMPRMLFHAPAAAICWSTYEACKS 316
Q G G D + ++ + I K +G + +G +L A Y+ K
Sbjct: 238 MMQSGRKGADIMYTGTV-DCWRKIAKDEGPKAFFKGAWSNVL-RGMGGAFVLVLYDEIKK 295
Query: 317 F 317
F
Sbjct: 296 F 296
>pdb|1YQQ|A Chain A, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YQQ|B Chain B, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YQQ|C Chain C, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YQU|A Chain A, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YQU|B Chain B, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YQU|C Chain C, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|A Chain A, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|B Chain B, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|C Chain C, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|D Chain D, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|E Chain E, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
pdb|1YR3|F Chain F, Escherichia Coli Purine Nucleoside Phosphorylase Ii, The
Product Of The Xapa Gene
Length = 277
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%)
Query: 22 PDFHPEIAVTAHDGLRYWQFMIAGSIAGSVEHMAMFPVDTVKTH 65
PDF P +A GL I ++A S E + FPV TV H
Sbjct: 22 PDFTPRVAFILGSGLGALADQIENAVAISYEKLPGFPVSTVHGH 65
>pdb|2B9S|A Chain A, Crystal Structure Of Heterodimeric L. Donovani
Topoisomerase I-Vanadate-Dna Complex
Length = 432
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 18 VPQPPDFHPEIAVTAHDGLRYWQFMIAGSIAGSVEHMAMFPVDTVK 63
VP PP H AV HD W M S+AG+++++ + P +VK
Sbjct: 194 VPVPPAGHKWAAVQ-HDHTVTWLAMWRDSVAGNMKYVMLAPSSSVK 238
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 0.133 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,890,183
Number of Sequences: 62578
Number of extensions: 329212
Number of successful extensions: 660
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: 644
Number of HSP's gapped (non-prelim): 10
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
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: 52 (24.6 bits)