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= 025047
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 100/197 (50%), Gaps = 18/197 (9%)
Query: 38 VDEVGKISRFIKSKIEELDRENLTSRQKPGCGKGTGVDRSRTATTLGLKKKFKDKMGEFQ 97
+ ++ K + ++SK++ +++ + Q+ G + + R R L +KF + M E+
Sbjct: 91 MSDIKKTANKVRSKLKSIEQ---SIEQEEGLNRSSADLRIRKTQHSTLSRKFVEVMSEYN 147
Query: 98 VLRENIHQXXXXXXXXXXXXXXGKRADEETIDQLIETGDSEQIFQKAIQEQGRGQIMDT- 156
+ + ++ G+ E ++ ++E+G+ IF G IMD+
Sbjct: 148 ATQSD-YRERCKGRIQRQLEITGRTTTSEELEDMLESGNP-AIF-------ASGIIMDSS 198
Query: 157 -----LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQS 211
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+
Sbjct: 199 ISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVER 258
Query: 212 GNTALQKAKKLQKNSRK 228
+ +KA K Q +R+
Sbjct: 259 AVSDTKKAVKYQSKARR 275
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 67.4 bits (163), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 31/72 (43%), Positives = 49/72 (68%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
TLA+I+ RH + LE + EL +F+DMA+LV++QG+M+D IE V +AVD++++
Sbjct: 17 TLADIEARHADIMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYIETAKVD 76
Query: 216 LQKAKKLQKNSR 227
+KA K Q +R
Sbjct: 77 TKKAVKYQSKAR 88
>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 = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/83 (42%), Positives = 52/83 (62%), Gaps = 6/83 (7%)
Query: 151 GQIMDT------LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSS 204
G IMD+ L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V
Sbjct: 1 GIIMDSSISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEH 60
Query: 205 AVDHVQSGNTALQKAKKLQKNSR 227
AVD+V+ + +KA K Q +R
Sbjct: 61 AVDYVERAVSDTKKAVKYQSKAR 83
>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 = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 48/73 (65%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+ +
Sbjct: 1 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 60
Query: 216 LQKAKKLQKNSRK 228
+KA K Q +R+
Sbjct: 61 TKKAVKYQSKARR 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 = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 48/73 (65%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+ +
Sbjct: 12 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 71
Query: 216 LQKAKKLQKNSRK 228
+KA K Q +R+
Sbjct: 72 TKKAVKYQSKARR 84
>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 = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 48/73 (65%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+ +
Sbjct: 2 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 61
Query: 216 LQKAKKLQKNSRK 228
+KA K Q +R+
Sbjct: 62 TKKAVKYQSKARR 74
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/68 (44%), Positives = 45/68 (66%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+ +
Sbjct: 7 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 66
Query: 216 LQKAKKLQ 223
+KA K Q
Sbjct: 67 TKKAVKYQ 74
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 44/65 (67%)
Query: 157 LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTAL 216
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+ +
Sbjct: 4 LSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDT 63
Query: 217 QKAKK 221
+KA K
Sbjct: 64 KKAVK 68
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 48/71 (67%)
Query: 157 LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTAL 216
L EI++RH ++ LER LLEL ++F DM+ LV +QG+M+D IE V + ++V+ +
Sbjct: 209 LNEIRDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQV 268
Query: 217 QKAKKLQKNSR 227
+A+ Q+++R
Sbjct: 269 VQARHYQESAR 279
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 46/68 (67%)
Query: 163 RHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTALQKAKKL 222
R A++ LE +L++ QIF D+A+++ QGD++D+IE+ V S+ HV+ + LQ+A
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
Query: 223 QKNSRKWM 230
QK SRK M
Sbjct: 64 QKKSRKKM 71
>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 = 57.4 bits (137), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 26/54 (48%), Positives = 39/54 (72%)
Query: 157 LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQ 210
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+
Sbjct: 4 LSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVE 57
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 53.9 bits (128), Expect = 8e-08, Method: Composition-based stats.
Identities = 26/54 (48%), Positives = 39/54 (72%)
Query: 157 LAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQ 210
L+EI+ RH + LE + EL +F+DMA+LV++QG+M+D IE V AVD+V+
Sbjct: 4 LSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVE 57
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 41/62 (66%)
Query: 158 AEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTALQ 217
+ + ER ++R LE ++++ +IF D+ +++ QGD++D+IE+ V SA HVQ N L
Sbjct: 2 SHMHERESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLS 61
Query: 218 KA 219
+A
Sbjct: 62 RA 63
>pdb|1FIO|A Chain A, Crystal Structure Of Yeast T-Snare Protein Sso1
Length = 196
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 123 ADEETIDQLIETGDSEQIFQKAIQEQGR-GQIMDTLAEIQERHDAVRDLERKLLELQQIF 181
A E+ ++ I +QIF +A+ R G+ LAE+Q RH + LE+ + EL Q+F
Sbjct: 126 ATEDEVEAAISDVGGQQIFSQALLNANRRGEAKTALAEVQARHQELLKLEKSMAELTQLF 185
Query: 182 LDMAVLV 188
DM LV
Sbjct: 186 NDMEELV 192
>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 = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 35/66 (53%)
Query: 156 TLAEIQERHDAVRDLERKLLELQQIFLDMAVLVDAQGDMLDNIESQVSSAVDHVQSGNTA 215
LAE+Q RH + LE+ + EL Q+F DM LV Q + +D I+ V A V+ G
Sbjct: 1 ALAEVQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGH 60
Query: 216 LQKAKK 221
KA K
Sbjct: 61 TDKAVK 66
>pdb|3GFM|A Chain A, Crystal Structure Of The St1710 Mutant (K91a) Protein
Length = 146
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 148 QGRGQIMDTLAEIQERHDAVRDLERKLLELQQIFLDMAVL 187
+ R QIM T+A+I R+L R+L EL +LD VL
Sbjct: 6 ENRIQIMSTIAKIYRAMS--RELNRRLGELNLSYLDFLVL 43
>pdb|2GXG|A Chain A, Crystal Structure Of Emrr Homolog From Hyperthermophilic
Archaea Sulfolobus Tokodaii Strain7
pdb|2YR2|A Chain A, Crystal Structure Of The Hypothetical Regulator From
Sulfolobus Tokodaii
pdb|2YR2|B Chain B, Crystal Structure Of The Hypothetical Regulator From
Sulfolobus Tokodaii
pdb|2EB7|A Chain A, Crystal Structure Of The Hypothetical Regulator From
Sulfolobus Tokodaii 7
pdb|3GEZ|A Chain A, Crystal Structure Of The Hypothetical Egulator From
Sulfolobus Tokodaii 7
pdb|3GF2|A Chain A, Crystal Structure Of The Hypothetical Regulator St1710
Complexed With Sodium Salicylate
pdb|3GFI|A Chain A, Crystal Structure Of St1710 Complexed With Its Promoter
Dna
pdb|3GFI|C Chain C, Crystal Structure Of St1710 Complexed With Its Promoter
Dna
Length = 146
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 148 QGRGQIMDTLAEIQERHDAVRDLERKLLELQQIFLDMAVL 187
+ R QIM T+A+I R+L R+L EL +LD VL
Sbjct: 6 ENRIQIMSTIAKIYRAMS--RELNRRLGELNLSYLDFLVL 43
>pdb|3GFL|A Chain A, Crystal Structure Of The St1710 Mutant (R90a) Protein
Length = 146
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 148 QGRGQIMDTLAEIQERHDAVRDLERKLLELQQIFLDMAVL 187
+ R QIM T+A+I R+L R+L EL +LD VL
Sbjct: 6 ENRIQIMSTIAKIYRAMS--RELNRRLGELNLSYLDFLVL 43
>pdb|3GFJ|A Chain A, Crystal Structure Of The St1710 Mutant (R89a) Protein
Length = 146
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 148 QGRGQIMDTLAEIQERHDAVRDLERKLLELQQIFLDMAVL 187
+ R QIM T+A+I R+L R+L EL +LD VL
Sbjct: 6 ENRIQIMSTIAKIYRAMS--RELNRRLGELNLSYLDFLVL 43
>pdb|3KMI|A Chain A, Crystal Structure Of Putative Membrane Protein From
Clostridium Difficile 630
pdb|3KMI|B Chain B, Crystal Structure Of Putative Membrane Protein From
Clostridium Difficile 630
Length = 177
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 11/88 (12%)
Query: 121 KRADEETIDQLIETGDSEQIFQKAIQEQGRGQIMDTL-----AEIQERHDAVRDLERKLL 175
K+ EE LI+ D I +E G + + TL + I E +D + + LL
Sbjct: 15 KKLQEEVSIVLIDIAD---IIVNPKKENGYSRDLYTLNSLIDSSISETYDNINN---TLL 68
Query: 176 ELQQIFLDMAVLVDAQGDMLDNIESQVS 203
+ FL+ ++ +Q D+L+N+ S VS
Sbjct: 69 SDTRFFLEHXDIIKSQRDILENLYSYVS 96
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
0.314 0.130 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,985,156
Number of Sequences: 62578
Number of extensions: 206560
Number of successful extensions: 452
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 431
Number of HSP's gapped (non-prelim): 28
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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)