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= 025392
(253 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 = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 87/211 (41%), Gaps = 30/211 (14%)
Query: 47 LSYVSGALAGCAATVGSYPFDLLRTILASQGEPK---------VYPTMRSAFVDIISTRG 97
+ ++ A C A + ++P D + L QGE + Y + + ++ T G
Sbjct: 3 VKFLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEG 62
Query: 98 FRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLSSFQLFV 157
R LY GL L + +A ++ G YD+ K++ + + G + L +
Sbjct: 63 PRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFY-------TKGSEHAGIGSRL------L 109
Query: 158 CGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIVQAEGWA 217
G G A V P DVVK RFQ + + G R Y++ +A I + EG
Sbjct: 110 AGSTTGALAVAVAQPTDVVKVRFQAQA-----RAGG---GRRYQSTVEAYKTIAREEGIR 161
Query: 218 GLYKGIVPSTVKAAPAGAVTFVAYEYASDWL 248
GL+KG P+ + A V Y+ D L
Sbjct: 162 GLWKGTSPNVARNAIVNCAELVTYDLIKDTL 192
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 49/196 (25%), Positives = 79/196 (40%), Gaps = 27/196 (13%)
Query: 50 VSGALAGCAATVGSYPFDLLRTILASQ---GEPKVYPTMRSAFVDIISTRGFRGLYAGLS 106
++G+ G A + P D+++ +Q G + Y + A+ I G RGL+ G S
Sbjct: 109 LAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTS 168
Query: 107 PTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLSSFQLFVCGLAAGTCA 166
P + + TYD K + N + ++L F AG C
Sbjct: 169 PNVARNAIVNCAELVTYDLIKDTLLKANLM----------TDDLPCH--FTSAFGAGFCT 216
Query: 167 KLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIVQAEGWAGLYKGIVPS 226
++ P+DVVK R+ L ++ G H A +++ EG YKG +PS
Sbjct: 217 TVIASPVDVVKTRYMNSALGQYHSAG----HCAL--------TMLRKEGPRAFYKGFMPS 264
Query: 227 TVKAAPAGAVTFVAYE 242
++ V FV YE
Sbjct: 265 FLRLGSWNVVMFVTYE 280
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 55 AGCAATVGSYPFDLLRTILASQGEPKVYPTMRSAFVDIISTRGFRGLYAGLSPTLVEIIP 114
AG TV + P D+++T + + + A ++ G R Y G P+ + +
Sbjct: 212 AGFCTTVIASPVDVVKTRYMNSALGQYHSAGHCALT-MLRKEGPRAFYKGFMPSFLRLGS 270
Query: 115 YAGLQFGTYDTFKRWTM 131
+ + F TY+ KR M
Sbjct: 271 WNVVMFVTYEQLKRALM 287
>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 = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 76/196 (38%), Gaps = 26/196 (13%)
Query: 51 SGALAGCAATVGSYPFDLLRTILASQ----GEPKVYPTMRSAFVDIISTRGFRGLYAGLS 106
SG AG + YP D RT LA+ + + + + I + G RGLY G +
Sbjct: 118 SGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFN 177
Query: 107 PTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLSSFQLFVCGLAAGTCA 166
++ II Y FG YDT K D N+ ++ A
Sbjct: 178 VSVQGIIIYRAAYFGVYDTAKGMLPD--------------PKNVHIIVSWMIAQTVTAVA 223
Query: 167 KLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIVQAEGWAGLYKGIVPS 226
LV +P D V++R ++ ++ GA + Y D +I + EG +KG S
Sbjct: 224 GLVSYPFDTVRRRMMMQSGRK----GADI---MYTGTVDCWRKIAKDEGPKAFFKG-AWS 275
Query: 227 TVKAAPAGAVTFVAYE 242
V GA V Y+
Sbjct: 276 NVLRGMGGAFVLVLYD 291
>pdb|1ZQ1|A Chain A, Structure Of Gatde Trna-Dependent Amidotransferase From
Pyrococcus Abyssi
pdb|1ZQ1|B Chain B, Structure Of Gatde Trna-Dependent Amidotransferase From
Pyrococcus Abyssi
Length = 438
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 80 KVYPTMRSAFVDIISTRGFRGLY---AGLSPTLVEIIP 114
KVYP + S +D + +G++G+ GL T +IIP
Sbjct: 311 KVYPGISSEIIDFLVDKGYKGIVIEGTGLGHTPNDIIP 348
>pdb|2V6B|A Chain A, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|B Chain B, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|C Chain C, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|D Chain D, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
Length = 304
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 16/86 (18%)
Query: 163 GTCAKLVCHPLDVVKKRFQIEGLQRHP--KYGARVEHRAYRNMSDAL------------- 207
G+C++LV D + + + E + +G RV H + ++DA
Sbjct: 23 GSCSELVLVDRDEDRAQAEAEDIAHAAPVSHGTRVWHGGHSELADAQVVILTAGANQKPG 82
Query: 208 -SRIVQAEGWAGLYKGIVPSTVKAAP 232
SR+ E A +++ +VP +AAP
Sbjct: 83 ESRLDLLEKNADIFRELVPQITRAAP 108
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
0.323 0.135 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,549,563
Number of Sequences: 62578
Number of extensions: 291077
Number of successful extensions: 661
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 7
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)