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= psy15784
(231 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DNX|A Chain A, Solution Structure Of Rsgi Ruh-063, An N-Terminal Domain
Of Syntaxin 12 From Human Cdna
Length = 130
Score = 100 bits (248), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 54/104 (51%), Positives = 71/104 (68%), Gaps = 4/104 (3%)
Query: 4 NILRISS----MKRMVNLLGTAQDSSDTKSQLYQIQHYTQQLAKDTNHILKQLNDTPLPS 59
NI RIS +K +++ LGT QDSS + L Q+QH T QLAK+TN +LK+L PLP
Sbjct: 22 NIQRISQATAQIKNLMSQLGTKQDSSKLQENLQQLQHSTNQLAKETNELLKELGSLPLPL 81
Query: 60 SPSEQRQCKMQKERLADDFSTALNAFQDVQKLAHKKESDQIKKT 103
S SEQRQ ++QKERL +DFS ALN FQ VQ+ +KE + I ++
Sbjct: 82 STSEQRQQRLQKERLMNDFSAALNNFQAVQRRVSEKEKESIARS 125
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/51 (60%), Positives = 40/51 (78%)
Query: 168 SDIRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
+DI DVNQIFK+L M+HDQG+LIDSIEA+VE +E +V + QL+ AA Y
Sbjct: 13 ADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/49 (57%), Positives = 38/49 (77%)
Query: 168 SDIRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAA 216
+DI D+N+IFK+LG M+H+QG++IDSIEA+VE E +V N QL AA
Sbjct: 16 ADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLSRAA 64
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 221 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 269
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 19 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 67
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 20 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 68
>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 = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 30 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 78
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 168 SDIRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
+ IR+++ +F ++ +V QGE+ID IE +VE Y+ K A Y
Sbjct: 33 TSIRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYIETAKVDTKKAVKY 83
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 25 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 73
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMY 218
IR+++ +F ++ +V QGE+ID IE +VE YV + K A Y
Sbjct: 30 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 78
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%)
Query: 172 DVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAAMYTVS 221
+++++F ++ +V QGE+ID IE VE++ YV Q+ A Y S
Sbjct: 228 ELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQVVQARHYQES 277
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYVSDGNTQLKDAA 216
IR+++ +F ++ +V QGE+ID IE +VE YV + K A
Sbjct: 21 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAV 67
>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 = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 170 IRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYV 205
IR+++ +F ++ +V QGE+ID IE +VE YV
Sbjct: 21 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYV 56
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 32.7 bits (73), Expect = 0.17, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 25/38 (65%)
Query: 168 SDIRDVNQIFKELGAMVHDQGELIDSIEAHVERTEAYV 205
+ IR+++ +F ++ +V QGE+ID IE +VE YV
Sbjct: 19 NSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYV 56
>pdb|1WWJ|A Chain A, Crystal Structure Of Kaib From Synechocystis Sp.
pdb|1WWJ|B Chain B, Crystal Structure Of Kaib From Synechocystis Sp.
pdb|1WWJ|C Chain C, Crystal Structure Of Kaib From Synechocystis Sp.
pdb|1WWJ|D Chain D, Crystal Structure Of Kaib From Synechocystis Sp
Length = 105
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 59 SSPSEQRQCKMQKERLADDFS--TALNAFQDVQKLAHKKESDQIKKTKVISKLPPPPGRQ 116
++P+ R KM K L +F AL DV K E D+I T ++K+ PPP R+
Sbjct: 17 NTPNSVRALKMLKNILEQEFQGVYALKVI-DVLKNPQLAEEDKILATPTLAKILPPPVRK 75
Query: 117 AVSGEEFGDR 126
+ + DR
Sbjct: 76 IIG--DLSDR 83
>pdb|1R5P|A Chain A, Crystal Structure Analysis Of Kaib From Pcc7120
pdb|1R5P|B Chain B, Crystal Structure Analysis Of Kaib From Pcc7120
Length = 108
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 59 SSPSEQRQCKMQKERLADDFS--TALNAFQDVQKLAHKKESDQIKKTKVISKLPPPPGRQ 116
++P+ R K K L +F AL DV K E D+I T +SK+ PPP R+
Sbjct: 17 NTPNSVRALKTLKNILEQEFQGIYALKVI-DVLKNPQLAEEDKILATPTLSKILPPPVRK 75
Query: 117 AVSGEEFGDR 126
+ + DR
Sbjct: 76 IIG--DLSDR 83
>pdb|2QKE|A Chain A, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|B Chain B, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|C Chain C, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|D Chain D, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|E Chain E, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|F Chain F, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
Length = 108
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 18/90 (20%)
Query: 59 SSPSEQRQCKMQKERLADDFST--ALNAFQDVQKLAHKKESDQIKKTKVISKLPPPPGRQ 116
++P+ R K L +F AL DV K E D+I T ++K+ PPP R+
Sbjct: 17 NTPNSVRALKTLNNILEKEFKGVYALKVI-DVLKNPQLAEEDKILATPTLAKVLPPPVRR 75
Query: 117 AVSG---------------EEFGDRTQDQL 131
+ EE GD+ +D L
Sbjct: 76 IIGDLSNREKVLIGLDLLYEEIGDQAEDDL 105
>pdb|1VGL|A Chain A, Crystal Structure Of Tetrameric Kaib From T.Elongatus Bp-1
pdb|1VGL|B Chain B, Crystal Structure Of Tetrameric Kaib From T.Elongatus Bp-1
pdb|1VGL|C Chain C, Crystal Structure Of Tetrameric Kaib From T.Elongatus Bp-1
pdb|1VGL|D Chain D, Crystal Structure Of Tetrameric Kaib From T.Elongatus Bp-1
Length = 108
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 18/90 (20%)
Query: 59 SSPSEQRQCKMQKERLADDFST--ALNAFQDVQKLAHKKESDQIKKTKVISKLPPPPGRQ 116
++P+ R K L +F AL DV K E D+I T ++K+ PPP R+
Sbjct: 17 NTPNSVRALKTLNNILEKEFKGVYALKVI-DVLKNPQLAEEDKILATPCLAKVLPPPVRR 75
Query: 117 AVSG---------------EEFGDRTQDQL 131
+ EE GD+ +D L
Sbjct: 76 IIGDLSNREKVLIGLDLLYEEIGDQAEDDL 105
>pdb|2L5Q|A Chain A, Solution Nmr Structure Of Bvu_3817 From Bacteroides
Vulgatus, Northeast Structural Genomics Consortium
Target Bvr159
Length = 142
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 190 LIDSIEAHVERTEAYVSDGNTQLKDAAMYTVSRILPL 226
++++++A +R AY D L D AMYT + +PL
Sbjct: 26 IVETVDAAKKRVPAYAHDKVISLADIAMYTDAEEVPL 62
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
0.313 0.129 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,583,028
Number of Sequences: 62578
Number of extensions: 197562
Number of successful extensions: 405
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 388
Number of HSP's gapped (non-prelim): 20
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)