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= 008548
(562 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2X8X|X Chain X, Structure Of The N-Terminal Domain Of Omp85 From The
Thermophilic Cyanobacterium Thermosynechococcus
Elongatus
Length = 235
Score = 85.1 bits (209), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 60/161 (37%), Positives = 89/161 (55%), Gaps = 11/161 (6%)
Query: 176 VLKACH--ANSALTVREVQEDVNRIIDG--GKIINIRRLDEVITSINGWYMEHG-LFGLV 230
VL+A N LT QE VN I G+ +N+R L I IN +Y ++G + G V
Sbjct: 78 VLRAVQVAGNQVLT----QEKVNEIFAPQIGRTLNLRELQAGIEKINTFYRDNGYILGQV 133
Query: 231 SGV-EILSGGVIRLQVAEAEVNNISIRFLDRKTGEPTKGKTRPETILRQLTTKKGQVYSM 289
G ++ GV+ LQVAE V ++ RFL+ K GEPTK +TR I R++ T+ G V +
Sbjct: 134 VGTPQVDPDGVVTLQVAEGVVEQVTYRFLN-KEGEPTKQRTRDFVISREMDTQPGVVLNQ 192
Query: 290 LQGKRDVETVLTMGIMEDVSIIPQPAGDTSMVDLILNVVER 330
+ D+ + +G+ EDV + +P + V+LILN+ ER
Sbjct: 193 KTVQADLRRLFELGLFEDVQVALEPGQNPRRVNLILNIKER 233
>pdb|3MC8|A Chain A, Potra1-3 Of The Periplasmic Domain Of Omp85 From Anabaena
pdb|3MC9|A Chain A, Potra1-2 Of The Periplasmic Domain Of Omp85 From Anabaena
pdb|3MC9|B Chain B, Potra1-2 Of The Periplasmic Domain Of Omp85 From Anabaena
Length = 316
Score = 83.6 bits (205), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 80/297 (26%), Positives = 131/297 (44%), Gaps = 65/297 (21%)
Query: 98 LVNLPLLCSAWMSLSQSTTSESAALPEVSSTXXXXXXXXXPHSVSRSDEERVLISEVLVR 157
LV P + ++ TT + A P T P++ + E RVL+SEVLVR
Sbjct: 12 LVQAPEQPAPQPEVAPPTTEQPAPAP-APGTTPGTENFNTPNATPETTEPRVLVSEVLVR 70
Query: 158 NKDGE---ELERKY------------------------LGTEALTVLKACHANSALTVR- 189
+ G+ ELE + GT + ++A ++ L VR
Sbjct: 71 PQSGQLTPELETQVYNVIRTQPGRTTTRSQLQEDINAIFGTGFFSNVQASPEDTPLGVRV 130
Query: 190 -------------EVQEDVNRIIDG---------------GKIINIRRLDEVITSINGWY 221
E+Q + + GKI+N+R L E I + Y
Sbjct: 131 SFIVQPNPVLSKVEIQANPGTNVPSVLPQATADEIFRAQYGKILNLRDLQEGIKELTKRY 190
Query: 222 MEHG--LFGLVSGVEILSGGVIRLQVAEAEVNNISIRFLDRK------TGEPTKGKTRPE 273
+ G L +V ++ GV+ LQVAE V NIS+RF +++ G+P +G+T+
Sbjct: 191 QDQGYVLANVVGAPQVSENGVVTLQVAEGVVENISVRFRNKEGQDVNEQGQPIRGRTQDY 250
Query: 274 TILRQLTTKKGQVYSMLQGKRDVETVLTMGIMEDVSIIPQPAGDTSMVDLILNVVER 330
I R++ K GQV++ ++D++ V G+ EDV++ P D + V++++NVVER
Sbjct: 251 IITREVELKPGQVFNRNTVQKDLQRVFGTGLFEDVNVSLDPGTDPTKVNVVVNVVER 307
>pdb|1YP2|A Chain A, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase
pdb|1YP2|B Chain B, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase
pdb|1YP2|C Chain C, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase
pdb|1YP2|D Chain D, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase
pdb|1YP3|A Chain A, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase In Complex With Atp
pdb|1YP3|B Chain B, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase In Complex With Atp
pdb|1YP3|C Chain C, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase In Complex With Atp
pdb|1YP3|D Chain D, Crystal Structure Of Potato Tuber Adp-Glucose
Pyrophosphorylase In Complex With Atp
pdb|1YP4|A Chain A, Crystal Structure Of Potato Tuber Adp-glucose
Pyrophosphorylase In Complex With Adp-glucose
pdb|1YP4|B Chain B, Crystal Structure Of Potato Tuber Adp-glucose
Pyrophosphorylase In Complex With Adp-glucose
pdb|1YP4|C Chain C, Crystal Structure Of Potato Tuber Adp-glucose
Pyrophosphorylase In Complex With Adp-glucose
pdb|1YP4|D Chain D, Crystal Structure Of Potato Tuber Adp-glucose
Pyrophosphorylase In Complex With Adp-glucose
Length = 451
Score = 32.3 bits (72), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 10/100 (10%)
Query: 147 ERVLISEVLVRNKDGEE--LERKYL---GTEALTVLKACHANSALTVREVQEDVNRIIDG 201
E +I + L+ D E +RK L G+ + + K CH A+ + RI D
Sbjct: 357 EGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNA-----RIGDN 411
Query: 202 GKIINIRRLDEVITSINGWYMEHGLFGLVSGVEILSGGVI 241
KIIN + E +G++++ G+ ++ I SG +I
Sbjct: 412 VKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 451
>pdb|3D31|A Chain A, Modbc From Methanosarcina Acetivorans
pdb|3D31|B Chain B, Modbc From Methanosarcina Acetivorans
Length = 348
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 41/179 (22%), Positives = 77/179 (43%), Gaps = 32/179 (17%)
Query: 138 PHSVSRSDEERVLISEVLVRNKDGEELERKYLGTEALT------VLKACHANSALTVREV 191
P ++S +++RV ++ LV N L+ + T +L H + LTV +
Sbjct: 125 PLTLSGGEQQRVALARALVTNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHI 184
Query: 192 QED-------VNRI--IDGGKIINIRRLDEV--------ITSINGWYMEHGLFGLVSGVE 234
D +RI + GK+I + + +E+ + S G+ E+ L G V E
Sbjct: 185 THDQTEARIMADRIAVVMDGKLIQVGKPEEIFEKPVEGRVASFVGF--ENVLKGRVISAE 242
Query: 235 ILSGGVIRLQVAEAEVNNISIRFLDRKTGEPTKGKTRPETILRQLTTKKGQVYSMLQGK 293
G++R++V E ++ D + G+ RPE I ++ + + + LQG+
Sbjct: 243 ---QGLLRIRVGEVVIDAAG----DMEVGDQVYAFLRPENIALSKSSTQSSIRNSLQGR 294
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
0.316 0.133 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,288,048
Number of Sequences: 62578
Number of extensions: 541043
Number of successful extensions: 1014
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: 1006
Number of HSP's gapped (non-prelim): 6
length of query: 562
length of database: 14,973,337
effective HSP length: 104
effective length of query: 458
effective length of database: 8,465,225
effective search space: 3877073050
effective search space used: 3877073050
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)