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= 026602
(236 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: 30 LSYVSGALAGCAATVGSYPFDLLRTILASQGEPK---------VYPTMRSAFVDIISTRG 80
+ ++ A C A + ++P D + L QGE + Y + + ++ T G
Sbjct: 3 VKFLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEG 62
Query: 81 FRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLSSFQLFV 140
R LY GL L + +A ++ G YD+ K++ + S + G+ +
Sbjct: 63 PRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFY-----TKGSEHAGIGSR--------LL 109
Query: 141 CGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIVQAEGWA 200
G G A V P DVVK RFQ + + G R Y++ +A I + EG
Sbjct: 110 AGSTTGALAVAVAQPTDVVKVRFQAQA-----RAGG---GRRYQSTVEAYKTIAREEGIR 161
Query: 201 GLYKGIVPSTVKAAPAGAVTFVAYEYASDWL 231
GL+KG P+ + A V Y+ D L
Sbjct: 162 GLWKGTSPNVARNAIVNCAELVTYDLIKDTL 192
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 49/196 (25%), Positives = 79/196 (40%), Gaps = 27/196 (13%)
Query: 33 VSGALAGCAATVGSYPFDLLRTILASQ---GEPKVYPTMRSAFVDIISTRGFRGLYAGLS 89
++G+ G A + P D+++ +Q G + Y + A+ I G RGL+ G S
Sbjct: 109 LAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTS 168
Query: 90 PTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLSSFQLFVCGLAAGTCA 149
P + + TYD K + N + ++L F AG C
Sbjct: 169 PNVARNAIVNCAELVTYDLIKDTLLKANLM----------TDDLPCH--FTSAFGAGFCT 216
Query: 150 KLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIVQAEGWAGLYKGIVPS 209
++ P+DVVK R+ L ++ G H A +++ EG YKG +PS
Sbjct: 217 TVIASPVDVVKTRYMNSALGQYHSAG----HCAL--------TMLRKEGPRAFYKGFMPS 264
Query: 210 TVKAAPAGAVTFVAYE 225
++ V FV YE
Sbjct: 265 FLRLGSWNVVMFVTYE 280
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 38 AGCAATVGSYPFDLLRTILASQGEPKVYPTMRSAFVDIISTRGFRGLYAGLSPTLVEIIP 97
AG TV + P D+++T + + + A ++ G R Y G P+ + +
Sbjct: 212 AGFCTTVIASPVDVVKTRYMNSALGQYHSAGHCALT-MLRKEGPRAFYKGFMPSFLRLGS 270
Query: 98 YAGLQFGTYDTFKRWTM 114
+ + 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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 58/228 (25%), Positives = 86/228 (37%), Gaps = 28/228 (12%)
Query: 4 LLFAFSQVMGSLFCCFAENHINLSAYL--SYVSGALAGCAATVGSYPFDLLRTILASQ-- 59
L FAF +F + H Y + SG AG + YP D RT LA+
Sbjct: 86 LNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAADVG 145
Query: 60 --GEPKVYPTMRSAFVDIISTRGFRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWN 117
+ + + + I + G RGLY G + ++ II Y FG YDT K D
Sbjct: 146 KGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLPD-- 203
Query: 118 RIRSSNTSSTGADNNLSSFQLFVCGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGAR 177
N+ ++ A LV +P D V++R ++ ++ GA
Sbjct: 204 ------------PKNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRK----GAD 247
Query: 178 VEHRAYRNMSDALSRIVQAEGWAGLYKGIVPSTVKAAPAGAVTFVAYE 225
+ Y D +I + EG +KG S V GA V Y+
Sbjct: 248 I---MYTGTVDCWRKIAKDEGPKAFFKG-AWSNVLRGMGGAFVLVLYD 291
>pdb|3DON|A Chain A, Crystal Structure Of Shikimate Dehydrogenase From
Staphylococcus Epidermidis
pdb|3DOO|A Chain A, Crystal Structure Of Shikimate Dehydrogenase From
Staphylococcus Epidermidis Complexed With Shikimate
Length = 277
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 58/135 (42%), Gaps = 25/135 (18%)
Query: 59 QGEPKVYPTMRSAFVDIISTRGFRGLYAGLSPTLVEII-PYAGLQFGTYDTFKRWTMDWN 117
G ++Y + A++ I+ G G G++ L +I+ P + T F W+++ N
Sbjct: 106 NGLKQIYEGIEDAYILIL---GAGGASKGIANELYKIVRPTLTVANRTMSRFNNWSLNIN 162
Query: 118 RIRSSNTSSTGADNNLSSFQLFVCGLAAG---------TCAKLVCHPL--DVV----KKR 162
+I S+ A+++L F + + AG + +L H L D+V K
Sbjct: 163 KINLSH-----AESHLDEFDIIINTTPAGMNGNTDSVISLNRLASHTLVSDIVYNPYKTP 217
Query: 163 FQIEGLQR-HPKYGA 176
IE QR +P Y
Sbjct: 218 ILIEAEQRGNPIYNG 232
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 63 KVYPTMRSAFVDIISTRGFRGLY---AGLSPTLVEIIP 97
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 = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 16/86 (18%)
Query: 146 GTCAKLVCHPLDVVKKRFQIEGLQRHP--KYGARVEHRAYRNMSDAL------------- 190
G+C++LV D + + + E + +G RV H + ++DA
Sbjct: 23 GSCSELVLVDRDEDRAQAEAEDIAHAAPVSHGTRVWHGGHSELADAQVVILTAGANQKPG 82
Query: 191 -SRIVQAEGWAGLYKGIVPSTVKAAP 215
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
0.324 0.136 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,724,713
Number of Sequences: 62578
Number of extensions: 260025
Number of successful extensions: 709
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 697
Number of HSP's gapped (non-prelim): 7
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)