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= psy10185
(196 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 = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 50/202 (24%), Positives = 82/202 (40%), Gaps = 17/202 (8%)
Query: 8 VWINIGDSVHY----SPPRSPILHALLSGSISGTVSTILLQPLDVIKTRLQSNH--SKAF 61
V I + DSV + I LL+GS +G ++ + QP DV+K R Q+
Sbjct: 83 VRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGR 142
Query: 62 HYDSLRQALVHIFRTEGLKGLWSGTVATLVRDAPYSGLHFMFYTQAKS--FKPTGLNETT 119
Y S +A I R EG++GLW GT + R+A + + Y K K + +
Sbjct: 143 RYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDL 202
Query: 120 PGYVLFQLXXXXXXXXXXXLVTQPADIIKTRIQLTCQSPATSSLKYA-----DYGVLGFV 174
P + ++ P D++KTR + S+ A G F
Sbjct: 203 PCH----FTSAFGAGFCTTVIASPVDVVKTRYMNSALGQYHSAGHCALTMLRKEGPRAFY 258
Query: 175 QGFVPRMLKRTLMSAISWTIFE 196
+GF+P L+ + + + +E
Sbjct: 259 KGFMPSFLRLGSWNVVMFVTYE 280
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 40/187 (21%), Positives = 71/187 (37%), Gaps = 24/187 (12%)
Query: 29 LLSGSISGTVSTILLQPLDVIKTRLQ-SNHSKAF-------HYDSLRQALVHIFRTEGLK 80
L + ++ ++ PLD K RLQ S+ Y + ++ + RTEG +
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 81 GLWSGTVATLVRDAPYSGLHFMFYTQAKSFKPTGLNETTPGYVLFQLXXXXXXXXXXXLV 140
L++G VA L R ++ + Y K F G G +L V
Sbjct: 65 SLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGS---RLLAGSTTGALAVAV 121
Query: 141 TQPADIIKTRIQLTCQSPATSSLKYA-----------DYGVLGFVQGFVPRMLKRTLMSA 189
QP D++K R Q Q+ A +Y + G+ G +G P + + +++
Sbjct: 122 AQPTDVVKVRFQ--AQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNC 179
Query: 190 ISWTIFE 196
++
Sbjct: 180 AELVTYD 186
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 55/128 (42%), Gaps = 7/128 (5%)
Query: 29 LLSGSISGTVSTILLQPLDVIKTRLQSNHSKAF---HYDSLRQALVHIFRTEGLKGLWSG 85
L SG +G S + PLD +TRL ++ K + L + IF+++GL+GL+ G
Sbjct: 116 LASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQG 175
Query: 86 TVATLVRDAPYSGLHFMFYTQAKSFKPTGLNETTPGYVLFQLXXXXXXXXXXXLVTQPAD 145
++ Y +F Y AK P N +++ LV+ P D
Sbjct: 176 FNVSVQGIIIYRAAYFGVYDTAKGMLPDPKNV----HIIVSWMIAQTVTAVAGLVSYPFD 231
Query: 146 IIKTRIQL 153
++ R+ +
Sbjct: 232 TVRRRMMM 239
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 30/133 (22%), Positives = 52/133 (39%), Gaps = 7/133 (5%)
Query: 26 LHALLSGSISGTVSTILLQPLDVIKTRLQSNH-----SKAFHYDSLRQALVHIFRTEGLK 80
L L+G ++ +S + P++ +K LQ H S Y + +V I + +G
Sbjct: 8 LKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFL 67
Query: 81 GLWSGTVATLVRDAPYSGLHFMFYTQAKSFKPTGLNETTPGYVLF--QLXXXXXXXXXXX 138
W G +A ++R P L+F F + K G++ + F L
Sbjct: 68 SFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSL 127
Query: 139 LVTQPADIIKTRI 151
P D +TR+
Sbjct: 128 CFVYPLDFARTRL 140
>pdb|3VHL|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex
With Cdc42 (T17n Mutant)
Length = 288
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 15 SVHYSPPRSPILHALLSGSISGTVSTILLQPLDVIKTRLQSNHSKAFHYDSLR 67
+ H PP + +L +L GS+ TV+ L+ V + ++ H++ LR
Sbjct: 184 ATHQEPPDAKMLQMVLQGSVGATVNQGPLEVAQVFLAEIPADPKLYRHHNKLR 236
>pdb|2P2Q|A Chain A, Acetyl-Coa Synthetase, R584e Mutation
pdb|2P2Q|B Chain B, Acetyl-Coa Synthetase, R584e Mutation
Length = 652
Score = 27.3 bits (59), Expect = 6.1, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 101 FMFYTQAKSFKPTGLNETTPGYVLF 125
F+ YT + KP G+ TT GY+++
Sbjct: 260 FILYTSGSTGKPKGVLHTTGGYLVY 284
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
0.322 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,262,088
Number of Sequences: 62578
Number of extensions: 176029
Number of successful extensions: 296
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 278
Number of HSP's gapped (non-prelim): 13
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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: 49 (23.5 bits)