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= 038121
(354 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 130 bits (328), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/325 (28%), Positives = 147/325 (45%), Gaps = 48/325 (14%)
Query: 38 LSICKSLVAGGVAGAVSRTAVAPLERLKILLQVQNPHSI-----KYNGTIQGLKYIWRTE 92
LS K +AGGVA A+S+TAVAP+ER+K+LLQVQ+ +Y G I + I + +
Sbjct: 5 LSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQ 64
Query: 93 GFRGLFKGNGTNCARIVPNSAVKFFSYEQASKGILY--------LYQHHTGNEDAELTPL 144
GF ++GN N R P A+ F+++ K I +++ GN
Sbjct: 65 GFLSFWRGNLANVIRYFPTQALN-FAFKDKYKQIFLGGVDRHKQFWRYFAGN-------- 115
Query: 145 LRLGAGACAGIIAMSATYPMDMVRGRLTVQTEKSPYR--YRGIFHALSTVLREEGPRALY 202
L +G AG ++ YP+D R RL K + + G+ + ++ + + +G R LY
Sbjct: 116 --LASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLY 173
Query: 203 RGWFPSVIGVVPYVGLNFAVYESLKVWLIKTKPLGLAED-SELSVTTRLXXXXXXXXXXX 261
+G+ SV G++ Y F VY++ K G+ D + +
Sbjct: 174 QGFNVSVQGIIIYRAAYFGVYDTAK---------GMLPDPKNVHIIVSWMIAQTVTAVAG 224
Query: 262 XXXYPLDVIRRRMQMVGWKEASSVVIGDGRNRAPLEYNGMIDAFRKTVRHEGFGALYKGL 321
YP D +RRRM M GR A + Y G +D +RK + EG A +KG
Sbjct: 225 LVSYPFDTVRRRMMMQ-----------SGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGA 273
Query: 322 VPNSVKVVPSISLAFVTYEVVKDIL 346
N ++ + + V Y+ +K +
Sbjct: 274 WSNVLRGMGG-AFVLVLYDEIKKFV 297
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 58/194 (29%), Positives = 91/194 (46%), Gaps = 12/194 (6%)
Query: 40 ICKSLVAGGVAGAVSRTAVAPLERLKILLQVQNPHS--IKYNGTIQGLKYIWRTEGFRGL 97
I L+AG GA++ P + +K+ Q Q +Y T++ K I R EG RGL
Sbjct: 104 IGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGL 163
Query: 98 FKGNGTNCARIVPNSAVKFFSYEQASKGILYLYQHHTGNEDAELTPLLRLGAGACAGIIA 157
+KG N AR + + +Y+ +L + + +D GAG C +IA
Sbjct: 164 WKGTSPNVARNAIVNCAELVTYDLIKDTLL---KANLMTDDLPCHFTSAFGAGFCTTVIA 220
Query: 158 MSATYPMDMVRGRLTVQTEKSPYRYRGIFHALSTVLREEGPRALYRGWFPSVIGVVPYVG 217
P+D+V+ R + +Y H T+LR+EGPRA Y+G+ PS + + +
Sbjct: 221 S----PVDVVKTRYM---NSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNV 273
Query: 218 LNFAVYESLKVWLI 231
+ F YE LK L+
Sbjct: 274 VMFVTYEQLKRALM 287
Score = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 56/207 (27%), Positives = 89/207 (42%), Gaps = 27/207 (13%)
Query: 147 LGAGACAGIIAMSATYPMDMVRGRLTVQTEK-------SPYRYRGIFHALSTVLREEGPR 199
LGAG A IA T+P+D + RL +Q E + +YRG+ + T++R EGPR
Sbjct: 6 LGAGT-AACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 200 ALYRGWFPSVIGVVPYVGLNFAVYESLKVWLIKTKPLGLAEDSELSVTTRLXXXXXXXXX 259
+LY G + + + + +Y+S+K + K + +RL
Sbjct: 65 SLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTK-------GSEHAGIGSRLLAGSTTGAL 117
Query: 260 XXXXXYPLDVIRRRMQMVGWKEASSVVIGDGRNRAPLEYNGMIDAFRKTVRHEGFGALYK 319
P DV++ R Q + G GR Y ++A++ R EG L+K
Sbjct: 118 AVAVAQPTDVVKVRFQ-------AQARAGGGR-----RYQSTVEAYKTIAREEGIRGLWK 165
Query: 320 GLVPNSVKVVPSISLAFVTYEVVKDIL 346
G PN + VTY+++KD L
Sbjct: 166 GTSPNVARNAIVNCAELVTYDLIKDTL 192
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/313 (24%), Positives = 127/313 (40%), Gaps = 41/313 (13%)
Query: 44 LVAGGVAGAVSRTAVAPLERLKILLQVQ--------NPHSIKYNGTIQGLKYIWRTEGFR 95
+ G A ++ PL+ K+ LQ+Q S +Y G + + + RTEG R
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 96 GLFKGNGTNCARIVPNSAVKFFSYEQASKGILYLYQHHT-GNEDAELTPLLRLGAGACAG 154
L+ G R + ++V+ Y+ Q +T G+E A + RL AG+ G
Sbjct: 65 SLYNGLVAGLQRQMSFASVRIGLYDSVK-------QFYTKGSEHAGIGS--RLLAGSTTG 115
Query: 155 IIAMSATYPMDMVRGRLTVQTEKSP-YRYRGIFHALSTVLREEGPRALYRGWFPSVIGVV 213
+A++ P D+V+ R Q RY+ A T+ REEG R L++G P+V
Sbjct: 116 ALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNA 175
Query: 214 PYVGLNFAVYESLKVWLIKTKPLGLAEDSELSVTTRLXXXXXXXXXXXXXXYPLDVIRRR 273
Y+ +K L+K + +D T+ P+DV++ R
Sbjct: 176 IVNCAELVTYDLIKDTLLKANLM--TDDLPCHFTSAFGAGFCTTVIAS----PVDVVKTR 229
Query: 274 MQMVGWKEASSVVIGDGRNRAPLEYNGMIDAFRKTVRHEGFGALYKGLVPNSVKVVPSIS 333
N A +Y+ +R EG A YKG +P+ +++
Sbjct: 230 YM----------------NSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNV 273
Query: 334 LAFVTYEVVKDIL 346
+ FVTYE +K L
Sbjct: 274 VMFVTYEQLKRAL 286
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 88 IWRTEGFRGLFKGNGTNCARIVPNSAVKFFSYEQASKGILYLYQ 131
+ R EG R +KG + R+ + V F +YEQ + ++ YQ
Sbjct: 248 MLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRALMAAYQ 291
>pdb|1FVF|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVF|B Chain B, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVH|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
Length = 591
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 280 KEASSVVIGDGRNRAPLEYNGMIDAFRKTVRHEGFGALYKGLVPNSVKVVPSISLAFVTY 339
+E+ ++ D +N +Y G F + E F L K +K + I++AF+ Y
Sbjct: 78 EESVKCLMADFQNPDNPQYRGAHIFFTEACPEELFKELCKSTTARFIKTLKEINIAFLPY 137
Query: 340 E 340
E
Sbjct: 138 E 138
>pdb|1EPU|A Chain A, X-Ray Crystal Structure Of Neuronal Sec1 From Squid
Length = 591
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 32/75 (42%)
Query: 266 PLDVIRRRMQMVGWKEASSVVIGDGRNRAPLEYNGMIDAFRKTVRHEGFGALYKGLVPNS 325
PL ++ + +E+ + D +N +Y G F + E F L K
Sbjct: 64 PLPLLEAVYLITPTEESVKCLXADFQNPDNPQYRGAHIFFTEACPEELFKELCKSTTARF 123
Query: 326 VKVVPSISLAFVTYE 340
+K + I++AF+ YE
Sbjct: 124 IKTLKEINIAFLPYE 138
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
0.319 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,778,564
Number of Sequences: 62578
Number of extensions: 389442
Number of successful extensions: 820
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 795
Number of HSP's gapped (non-prelim): 8
length of query: 354
length of database: 14,973,337
effective HSP length: 100
effective length of query: 254
effective length of database: 8,715,537
effective search space: 2213746398
effective search space used: 2213746398
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: 52 (24.6 bits)