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= psy3554
(672 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 35/50 (70%)
Query: 306 RADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESA 355
R +Q +E+ I+++ IF+ LA M+ +Q ++++ I+AN+ +E+HVE A
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERA 53
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 37/55 (67%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHR 357
+ R +++ +E+ I+++ IF+ L M+ EQ ++++ I+AN+ E+HV+ A++
Sbjct: 4 MHERESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQ 58
>pdb|3B5N|B Chain B, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|F Chain F, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|J Chain J, Structure Of The Yeast Plasma Membrane Snare Complex
Length = 69
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVES--AHRDQN 360
+Q+R + +E ++ EL +F + +V EQ+E V+ ID N+ D +L VE H D+
Sbjct: 5 VQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGHTDKA 64
Query: 361 I 361
+
Sbjct: 65 V 65
>pdb|3HD7|B Chain B, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|F Chain F, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|B Chain B, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|F Chain F, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 109
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 41/72 (56%)
Query: 298 QSEQFIQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHR 357
Q+ I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A
Sbjct: 11 QALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVS 70
Query: 358 DQNICISTKTQA 369
D + +++A
Sbjct: 71 DTKKAVKYQSKA 82
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 37.7 bits (86), Expect = 0.022, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRD 358
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 62
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 37.4 bits (85), Expect = 0.025, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRD 358
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 62
>pdb|3RK2|B Chain B, Truncated Snare Complex
pdb|3RK2|F Chain F, Truncated Snare Complex
pdb|3RK3|B Chain B, Truncated Snare Complex With Complexin
pdb|3RL0|B Chain B, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|F Chain F, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|J Chain J, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|N Chain N, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|R Chain R, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|V Chain V, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Z Chain Z, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|DD Chain d, Truncated Snare Complex With Complexin (P1)
Length = 65
Score = 37.4 bits (85), Expect = 0.026, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRD 358
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 62
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 40/67 (59%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRDQNIC 362
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ ++E+A D
Sbjct: 21 IEARHADIMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYIETAKVDTKKA 80
Query: 363 ISTKTQA 369
+ +++A
Sbjct: 81 VKYQSKA 87
>pdb|1JTH|B Chain B, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
pdb|1JTH|D Chain D, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
Length = 77
Score = 35.8 bits (81), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 39/67 (58%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRDQNIC 362
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 5 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 64
Query: 363 ISTKTQA 369
+ +++A
Sbjct: 65 VKYQSKA 71
>pdb|1HVV|A Chain A, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|B Chain B, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|C Chain C, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|D Chain D, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
Length = 75
Score = 35.8 bits (81), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 39/67 (58%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRDQNIC 362
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 6 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 65
Query: 363 ISTKTQA 369
+ +++A
Sbjct: 66 VKYQSKA 72
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 35.4 bits (80), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 39/68 (57%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRDQNIC 362
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 207 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 266
Query: 363 ISTKTQAH 370
+ +++A
Sbjct: 267 VKYQSKAR 274
>pdb|1SFC|B Chain B, Neuronal Synaptic Fusion Complex
pdb|1SFC|F Chain F, Neuronal Synaptic Fusion Complex
pdb|1SFC|J Chain J, Neuronal Synaptic Fusion Complex
Length = 83
Score = 35.4 bits (80), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 39/67 (58%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRDQNIC 362
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 16 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 75
Query: 363 ISTKTQA 369
+ +++A
Sbjct: 76 VKYQSKA 82
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAHRD 358
I++R + +E++I EL +F +A +V+ Q EM++RI+ N+ +VE A D
Sbjct: 11 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 66
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 303 IQSRADTMQNIESTIVELGGIFQQLAHMVQEQEEMVERIDANILDTELHVESAH 356
I+ R +Q +E +++EL +F ++ +V Q EM++RI E VE +H
Sbjct: 212 IRDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRI-------EFSVEQSH 258
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 0.132 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,226,028
Number of Sequences: 62578
Number of extensions: 617541
Number of successful extensions: 1332
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1316
Number of HSP's gapped (non-prelim): 16
length of query: 672
length of database: 14,973,337
effective HSP length: 105
effective length of query: 567
effective length of database: 8,402,647
effective search space: 4764300849
effective search space used: 4764300849
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: 55 (25.8 bits)