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= psy11695
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OED|B Chain B, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 250
Score = 63.5 bits (153), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 43/202 (21%), Positives = 90/202 (44%), Gaps = 45/202 (22%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSR----PSEEDKTSL 56
M +VA SV+ ++++LN HHR+ +TH M WIR +F++ +P L + R PS + K ++
Sbjct: 72 MILVAFSVILSVVVLNLHHRSPNTHTMPNWIRQIFIETLPPFLWIQRPVTTPSPDSKPTI 131
Query: 57 TEATXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTI--- 113
+D++ ++ + F+ D+ +
Sbjct: 132 ISRA--------------------------NDEY---FIRKPAGDFVCPVDNARVAVQPE 162
Query: 114 ---------LHATTSCIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRM 164
L+ T + ++L ++ ++ I ++++ E ++ DW++ AMV DR+
Sbjct: 163 RLFSEMKWHLNGLTQPVTLPQDLKEAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRL 222
Query: 165 CLIIFTLFTILATVAVLCSAPH 186
L +F + + T ++ A H
Sbjct: 223 FLYVFFVICSIGTFSIFLDASH 244
>pdb|4AQ5|B Chain B, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|B Chain B, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 493
Score = 63.5 bits (153), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 44/202 (21%), Positives = 89/202 (44%), Gaps = 45/202 (22%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSR----PSEEDKTSL 56
M +VA SV+ ++++LN HHR+ +TH M WIR +F++ +P L + R PS + K ++
Sbjct: 312 MILVAFSVILSVVVLNLHHRSPNTHTMPNWIRQIFIETLPPFLWIQRPVTTPSPDSKPTI 371
Query: 57 TEATXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTI--- 113
+D++ ++ + F+ D+ +
Sbjct: 372 ISRA--------------------------NDEY---FIRKPAGDFVCPVDNARVAVQPE 402
Query: 114 ---------LHATTSCIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRM 164
L+ T + ++L ++ ++ I ++++ E ++ DW++ AMV DR+
Sbjct: 403 RLFSEMKWHLNGLTQPVTLPQDLKEAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRL 462
Query: 165 CLIIFTLFTILATVAVLCSAPH 186
L IF + T ++ A H
Sbjct: 463 FLYIFITMCSIGTFSIFLDASH 484
>pdb|4AQ5|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ5|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
pdb|4AQ9|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 461
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/186 (22%), Positives = 82/186 (44%), Gaps = 42/186 (22%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCIL---RMSRPSEEDKTSLT 57
M V SS++ T++++N HHR+ TH M W+R +F+ +P ++ M R S+E + +
Sbjct: 306 MIFVISSIIVTVVVINTHHRSPSTHTMPQWVRKIFINTIPNVMFFSTMKRASKEKQENKI 365
Query: 58 EATXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHAT 117
A DD + + T G ++ T
Sbjct: 366 FA----------------------------DDIDISDISGKQVT---------GEVIFQT 388
Query: 118 TSCIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILAT 177
P ++ ++ ++ I + ++ ++E++ +WK+ AMV+D + L +F L I+ T
Sbjct: 389 PLIKNP--DVKSAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGT 446
Query: 178 VAVLCS 183
V+V
Sbjct: 447 VSVFAG 452
>pdb|1OED|A Chain A, Structure Of Acetylcholine Receptor Pore From Electron
Images
pdb|1OED|D Chain D, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 227
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/186 (22%), Positives = 82/186 (44%), Gaps = 42/186 (22%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCIL---RMSRPSEEDKTSLT 57
M V SS++ T++++N HHR+ TH M W+R +F+ +P ++ M R S+E + +
Sbjct: 72 MIFVISSIIITVVVINTHHRSPSTHTMPQWVRKIFIDTIPNVMFFSTMKRASKEKQENKI 131
Query: 58 EATXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHAT 117
A DD + + T G ++ T
Sbjct: 132 FA----------------------------DDIDISDISGKQVT---------GEVIFQT 154
Query: 118 TSCIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILAT 177
P ++ ++ ++ I + ++ ++E++ +WK+ AMV+D + L +F L I+ T
Sbjct: 155 PLIKNP--DVKSAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGT 212
Query: 178 VAVLCS 183
V+V
Sbjct: 213 VSVFAG 218
>pdb|1OED|C Chain C, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 260
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 39/195 (20%), Positives = 72/195 (36%), Gaps = 29/195 (14%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSRPSEEDKTSLTEAT 60
M +V +V+ ++LN+H R TH +S ++ +FL+ +P IL MSR E ++
Sbjct: 72 MSLVTGVIVNCGIVLNFHFRTPSTHVLSTRVKQIFLEKLPRILHMSRADESEQPDWQN-- 129
Query: 61 XXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTSC 120
+V I + ++S S G + T
Sbjct: 130 -------------DLKLRRSSSVGYISKAQEYFNIKSRSELMFEKQSERHGLVPRVTPR- 175
Query: 121 IG-------------PHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLI 167
IG H E+ + I +I++++ E +W +DR+ +
Sbjct: 176 IGFGNNNENIAASDQLHDEIKSGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMF 235
Query: 168 IFTLFTILATVAVLC 182
I T +L T+ +
Sbjct: 236 IITPVMVLGTIFIFV 250
>pdb|4AQ5|C Chain C, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|C Chain C, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 522
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 40/194 (20%), Positives = 72/194 (37%), Gaps = 29/194 (14%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSRPSEEDKTSLTEAT 60
M +V VV+ ++LN+H R TH +S ++ +FL+ +P IL MSR E ++
Sbjct: 317 MSLVTGVVVNCGIVLNFHFRTPSTHVLSTRVKQIFLEKLPRILHMSRVDEIEQPDWQN-- 374
Query: 61 XXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTSC 120
+V I + ++S S G + T
Sbjct: 375 -------------DLKLRRSSSVGYISKAQEYFNIKSRSELMFEKQSERHGLVPRVTPR- 420
Query: 121 IG-------------PHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLI 167
IG H E+ + I +I++++ E +W +DR+ +
Sbjct: 421 IGFGNNNENIAASDQLHDEIKSGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMF 480
Query: 168 IFTLFTILATVAVL 181
I T +L T+ +
Sbjct: 481 IITPVMVLGTIFIF 494
>pdb|2BG9|A Chain A, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution.
pdb|2BG9|D Chain D, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 370
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 33/53 (62%)
Query: 131 LKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATVAVLCS 183
++ ++ I + ++ ++E++ +WK+ AMV+D + L +F L I+ TV+V
Sbjct: 309 IEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAG 361
Score = 30.0 bits (66), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 1 MFMVASSVVSTILILNYHHRNADTH 25
M V SS++ T++++N HHR+ TH
Sbjct: 282 MIFVISSIIVTVVVINTHHRSPSTH 306
>pdb|2BG9|B Chain B, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 370
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 31/56 (55%)
Query: 131 LKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATVAVLCSAPH 186
++ ++ I ++++ E ++ DW++ AMV DR+ L IF + T ++ A H
Sbjct: 306 VEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASH 361
Score = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 21/26 (80%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHE 26
M +VA SV+ ++++LN HHR+ +THE
Sbjct: 279 MILVAFSVILSVVVLNLHHRSPNTHE 304
>pdb|4AQ5|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 488
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/185 (20%), Positives = 71/185 (38%), Gaps = 6/185 (3%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMS-RPSEEDKTSLTEA 59
MF+ V + +++LN R +TH +S I+ +FL+++P L M PSEE
Sbjct: 290 MFVSLVIVTNCVIVLNVSLRTPNTHSLSEKIKHLFLEFLPKYLGMHLEPSEETPEKPQPR 349
Query: 60 TXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTS 119
+ + D RH + + T D G L+ +
Sbjct: 350 RRSSFGIMIKAEEYILKKPRSELMFEEQKD-RHGLKRVNKMT--SDIDIGTTVDLYKDLA 406
Query: 120 CIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATVA 179
P E+ ++ I ++++++ +W V+D+ C I L L T+A
Sbjct: 407 NFAP--EIKSCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLA 464
Query: 180 VLCSA 184
+ +
Sbjct: 465 IFLTG 469
>pdb|1OED|E Chain E, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 260
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/185 (20%), Positives = 71/185 (38%), Gaps = 6/185 (3%)
Query: 1 MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMS-RPSEEDKTSLTEA 59
MF+ V++ +++LN R +TH +S I+ +FL ++P L M PSEE
Sbjct: 73 MFVSMLIVMNCVIVLNVSLRTPNTHSLSEKIKHLFLGFLPKYLGMQLEPSEETPEKPQPR 132
Query: 60 TXXXXXXXXXXXXXXXXXXXXXNVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTS 119
+ + D RH + + T D G L+ +
Sbjct: 133 RRSSFGIMIKAEEYILKKPRSELMFEEQKD-RHGLKRVNKMT--SDIDIGTTVDLYKDLA 189
Query: 120 CIGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATVA 179
P E+ ++ I ++++++ +W V+D+ C I L + T+A
Sbjct: 190 NFAP--EIKSCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLA 247
Query: 180 VLCSA 184
+ +
Sbjct: 248 IFLTG 252
>pdb|2LLY|A Chain A, Nmr Structures Of The Transmembrane Domains Of The Nachr
A4 Subunit
Length = 137
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 1 MFMVASSVVSTILILNYHHRNADTH 25
M V S+V T+ +LN HHR+ +TH
Sbjct: 78 MIFVTLSIVITVFVLNVHHRSPETH 102
>pdb|2LM2|A Chain A, Nmr Structures Of The Transmembrane Domains Of The Achr B2
Subunit
Length = 137
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 1 MFMVASSVVSTILILNYHHRNADTH 25
M +V S+V+++ +LN HHR+ +TH
Sbjct: 78 MVLVTFSIVTSVCVLNVHHRSPETH 102
>pdb|2KSR|A Chain A, Nmr Structures Of Tm Domain Of The N-Acetylcholine
Receptor B2 Subunit
Length = 164
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 1 MFMVASSVVSTILILNYHHRNADTH 25
M +V S+V+++ +LN HHR+ TH
Sbjct: 99 MVLVTFSIVTSVCVLNVHHRSPTTH 123
>pdb|2BG9|C Chain C, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 369
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 10/45 (22%), Positives = 22/45 (48%)
Query: 137 ITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATVAVL 181
I +I++++ E +W +DR+ + I T +L T+ +
Sbjct: 314 IVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIF 358
>pdb|3R4V|A Chain A, Structure Of The Phage Tubulin Phuz-gdp
Length = 315
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 4 VASSVVSTILILNYHHRNADTHEMSPWIRL 33
+A + +L++N +H D H+++ W+R
Sbjct: 168 IAEKIRKVVLLVNQNHGRLDVHDVANWVRF 197
>pdb|3RB8|A Chain A, Structure Of The Phage Tubulin Phuz(semet)-gdp
Length = 315
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 4 VASSVVSTILILNYHHRNADTHEMSPWIRL 33
+A + +L++N +H D H+++ W+R
Sbjct: 168 IAEKIRKVVLLVNQNHGRLDVHDVANWVRF 197
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
0.325 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,559,659
Number of Sequences: 62578
Number of extensions: 137875
Number of successful extensions: 397
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 368
Number of HSP's gapped (non-prelim): 31
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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: 48 (23.1 bits)