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= psy11698
(197 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 = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 43/58 (74%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDAPH 180
+A EA+++IAE L S ++ +++DW+YVAMV DRL LY+FF++ + GT I +DA H
Sbjct: 187 EAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDASH 244
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 1 MPPWIRGMFLHYLPIVLLMKRPKKT 25
MP WIR +F+ LP L ++RP T
Sbjct: 98 MPNWIRQIFIETLPPFLWIQRPVTT 122
>pdb|2BG9|B Chain B, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 370
Score = 66.6 bits (161), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 41/58 (70%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDAPH 180
+A EA+++IAE L S ++ +++DW+YVAMV DRL LYIF + + GT I +DA H
Sbjct: 304 EAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASH 361
>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 = 66.6 bits (161), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 41/58 (70%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDAPH 180
+A EA+++IAE L S ++ +++DW+YVAMV DRL LYIF + + GT I +DA H
Sbjct: 427 EAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASH 484
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 1 MPPWIRGMFLHYLPIVLLMKRPKKT 25
MP WIR +F+ LP L ++RP T
Sbjct: 338 MPNWIRQIFIETLPPFLWIQRPVTT 362
>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 = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 36/53 (67%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGIL 175
A E V++IAEH++S+++ E+WKYVAMVID + L +F ++ GT+ +
Sbjct: 164 SAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVF 216
>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 = 53.9 bits (128), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 36/53 (67%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGIL 175
A E V++IAEH++S+++ E+WKYVAMVID + L +F ++ GT+ +
Sbjct: 398 SAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVF 450
>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 = 53.9 bits (128), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 36/53 (67%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGIL 175
A E V++IAEH++S+++ E+WKYVAMVID + L +F ++ GT+ +
Sbjct: 307 SAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVF 359
>pdb|2KSR|A Chain A, Nmr Structures Of Tm Domain Of The N-Acetylcholine
Receptor B2 Subunit
Length = 164
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 21/33 (63%)
Query: 145 REDWKYVAMVIDRLQLYIFFIVTTAGTLGILMD 177
R YVAMVIDRL L+IF V GT+G+ +
Sbjct: 126 RGGGGYVAMVIDRLFLWIFVFVCVFGTIGMFLQ 158
>pdb|1OED|E Chain E, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 260
Score = 35.4 bits (80), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 124 ATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDA 178
EA FIA+ + ++ E+W + VID+ +I ++ + GTL I +
Sbjct: 198 CVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLAIFLTG 252
>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 = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDA 178
EA FIA+ + ++ E+W + VID+ +I ++ + GTL I +
Sbjct: 414 SCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTG 469
>pdb|2BG9|E Chain E, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 370
Score = 34.7 bits (78), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILMDA 178
EA FIA+ + ++ E+W + VID+ +I ++ + GTL I +
Sbjct: 308 SCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTG 363
>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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 27/54 (50%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILM 176
++ +I + ++ ++ Y + +W V IDRL ++I V GT+ I +
Sbjct: 442 SGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFV 495
>pdb|2BG9|C Chain C, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 369
Score = 32.0 bits (71), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 27/54 (50%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILM 176
++ +I + ++ ++ Y + +W V IDRL ++I V GT+ I +
Sbjct: 306 SGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFV 359
>pdb|1OED|C Chain C, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 260
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 27/54 (50%)
Query: 123 KATEAVEFIAEHLRSEDQYIQIREDWKYVAMVIDRLQLYIFFIVTTAGTLGILM 176
++ +I + ++ ++ Y + +W V IDRL ++I V GT+ I +
Sbjct: 197 SGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFV 250
>pdb|3RZF|A Chain A, Crystal Structure Of Inhibitor Of Kappab Kinase Beta
(I4122)
Length = 677
Score = 28.5 bits (62), Expect = 2.4, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 24 KTRLRWMMEMPGMSVPPHPSYGSPAELPRHITPSAPSKSKMEVME 68
K R RW +E+ M HP+ S E+P + AP+ + ME
Sbjct: 55 KNRERWCLEIQIMKKLNHPNVVSAREVPDGLQKLAPNDLPLLAME 99
>pdb|3QA8|A Chain A, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|B Chain B, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|C Chain C, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|D Chain D, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|E Chain E, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|F Chain F, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|G Chain G, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|H Chain H, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
Length = 676
Score = 28.5 bits (62), Expect = 2.4, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 24 KTRLRWMMEMPGMSVPPHPSYGSPAELPRHITPSAPSKSKMEVME 68
K R RW +E+ M HP+ S E+P + AP+ + ME
Sbjct: 54 KNRERWCLEIQIMKKLNHPNVVSAREVPDGLQKLAPNDLPLLAME 98
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 0.139 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,304,325
Number of Sequences: 62578
Number of extensions: 173265
Number of successful extensions: 528
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 509
Number of HSP's gapped (non-prelim): 20
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
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: 49 (23.5 bits)