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= psy2301
(350 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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 43/67 (64%)
Query: 209 IRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAER 268
+R + + I+D+N +FKDL+ M+ QG ++D I+ NVE +E+ V++ QL +A
Sbjct: 3 MRETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAY 62
Query: 269 YHRKNRK 275
Y +K+RK
Sbjct: 63 YQKKSRK 69
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 39/61 (63%), Gaps = 5/61 (8%)
Query: 206 QARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAK 265
++ IR E D I+D+N +FKDL M+ QG ++D I+ NVE E+ V+Q QQL++
Sbjct: 8 ESSIRQLEAD-----IMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLSR 62
Query: 266 A 266
A
Sbjct: 63 A 63
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 44/67 (65%)
Query: 208 RIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAE 267
R R +++ + +S+++L+ +F D+S +V QG ++DRI+++VE++ VK+ +Q+ +A
Sbjct: 213 RDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQVVQAR 272
Query: 268 RYHRKNR 274
Y R
Sbjct: 273 HYQESAR 279
>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 = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 40/71 (56%)
Query: 205 AQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLA 264
++ R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++
Sbjct: 14 SEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTK 73
Query: 265 KAERYHRKNRK 275
KA +Y K R+
Sbjct: 74 KAVKYQSKARR 84
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 39/67 (58%)
Query: 205 AQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLA 264
A+ + R QE+ + KS+ +L LF D+ +V+ Q +D ID NVE +++V+QG
Sbjct: 3 AEVQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGHTD 62
Query: 265 KAERYHR 271
KA + R
Sbjct: 63 KAVKSAR 69
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 54/105 (51%), Gaps = 7/105 (6%)
Query: 175 NEMIDRQFESSRPGVSKTQQQLLLMEEDNAAQA----RIRSQEVDHIVKSIVDLNHLFKD 230
+E ++ ES P + + ++M+ + QA R E+ + SI +L+ +F D
Sbjct: 174 SEELEDMLESGNPAIFASG---IIMDSSISKQALSEIETRHSEIIKLENSIRELHDMFMD 230
Query: 231 LSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERYHRKNRK 275
++ +V QG ++DRI+YNVE V++ KA +Y K R+
Sbjct: 231 MAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKYQSKARR 275
>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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +Y
Sbjct: 9 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 68
Query: 270 HRKNRK 275
K R+
Sbjct: 69 QSKARR 74
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +Y
Sbjct: 8 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 67
Query: 270 HRKNRK 275
K R+
Sbjct: 68 QSKARR 73
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 37/65 (56%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +Y
Sbjct: 19 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 78
Query: 270 HRKNR 274
K R
Sbjct: 79 QSKAR 83
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 46/83 (55%), Gaps = 6/83 (7%)
Query: 197 LLMEEDNAAQ--ARIRSQEVDHIVK---SIVDLNHLFKDLSHMVVHQGTILDRIDYNVER 251
++ME A Q A I ++ D I+K SI +L+ +F D++ +V QG ++DRI+YNVE
Sbjct: 7 IIMETQQAKQTLADIEARHAD-IMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVEA 65
Query: 252 TEIEVKQGYQQLAKAERYHRKNR 274
++ KA +Y K R
Sbjct: 66 AVDYIETAKVDTKKAVKYQSKAR 88
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 35/60 (58%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +Y
Sbjct: 14 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 73
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKA 266
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA
Sbjct: 10 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 66
>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 = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 28/41 (68%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVE 250
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE
Sbjct: 10 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVE 50
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 28/43 (65%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERT 252
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE
Sbjct: 10 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHA 52
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
0.317 0.131 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,322,701
Number of Sequences: 62578
Number of extensions: 284616
Number of successful extensions: 621
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 598
Number of HSP's gapped (non-prelim): 31
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)