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= 045802
(301 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 63/244 (25%), Positives = 131/244 (53%), Gaps = 16/244 (6%)
Query: 33 FFDDVENVKEDMKVVEKLYKRLQESNEETKVAHNAKTMKQIRARMDSDVEQVLKRVKVIK 92
FF+ V+ ++++++ +E+ +++ + + E+ VA K+ R R++ ++ + R+ +
Sbjct: 46 FFNRVKRIRDNIEDIEQAIEQVAQLHTESLVA----VSKEDRDRLNEKLQDTMARISALG 101
Query: 93 GKLEA----LEKSNAANRKVPGCGPGS-SVD-RTRTSVVAGLGKKLKDTMDDFQHLRAKM 146
K+ A +EK N ++ G+ S D R R S + L +K M + ++A+
Sbjct: 102 NKIRADLKQIEKENKRAQQEGTFEDGTVSTDLRIRQSQHSSLSRKFVKVMTRYNDVQAEN 161
Query: 147 TAEYKETIERRYFTVTGQQADEQMIENLISSGESENFLQKAIQEQGRGQIMDTISEIQER 206
Y E + R+ V +D+ I+ +I G +E E ++ +EI++R
Sbjct: 162 KRRYGENVARQCRVVEPSLSDD-AIQKVIEHG-TEGIFSGMRLEGAEAKL----NEIRDR 215
Query: 207 HDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQLEFAKESQ 266
H ++++E++LLELH++F DM LV +QG ++ IE V ++++V++ TEQ+ A+ Q
Sbjct: 216 HKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQVVQARHYQ 275
Query: 267 KDSR 270
+ +R
Sbjct: 276 ESAR 279
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 66/258 (25%), Positives = 121/258 (46%), Gaps = 40/258 (15%)
Query: 30 LDKFFDDVENVKEDMKVVEKLYKRLQESNEETKVAHNAKTMKQIRARMDSD--------- 80
+D+FF+ VE ++ ++ E+ EE K H+A I A + D
Sbjct: 42 MDEFFEQVEEIR-------GFIDKIAENVEEVKRKHSA-----ILASPNPDEKTKEELEE 89
Query: 81 -VEQVLKRVKVIKGKLEALEKSNAANRKVPGCGPGSSVDRTRTSVVAGLGKKLKDTMDDF 139
+ + K ++ KL+++E+S G S+ R R + + L +K + M ++
Sbjct: 90 LMSDIKKTANKVRSKLKSIEQSIEQE---EGLNRSSADLRIRKTQHSTLSRKFVEVMSEY 146
Query: 140 QHLRAKMTAEYKETIERRYFTVTGQQADEQMIENLISSGESENFLQKAIQEQGRGQIMDT 199
++ K I+R+ +TG+ + +E+++ SG F G IMD+
Sbjct: 147 NATQSDYRERCKGRIQRQ-LEITGRTTTSEELEDMLESGNPAIF--------ASGIIMDS 197
Query: 200 ------ISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVR 253
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V
Sbjct: 198 SISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVE 257
Query: 254 RGTEQLEFAKESQKDSRK 271
R + A + Q +R+
Sbjct: 258 RAVSDTKKAVKYQSKARR 275
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 49/83 (59%), Gaps = 6/83 (7%)
Query: 194 GQIMDT------ISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAH 247
G IMD+ +SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V H
Sbjct: 1 GIIMDSSISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEH 60
Query: 248 ANSFVRRGTEQLEFAKESQKDSR 270
A +V R + A + Q +R
Sbjct: 61 AVDYVERAVSDTKKAVKYQSKAR 83
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQ 258
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 12 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 71
Query: 259 LEFAKESQKDSRK 271
+ A + Q +R+
Sbjct: 72 TKKAVKYQSKARR 84
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQ 258
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 1 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 60
Query: 259 LEFAKESQKDSRK 271
+ A + Q +R+
Sbjct: 61 TKKAVKYQSKARR 73
>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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQ 258
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 2 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 61
Query: 259 LEFAKESQKDSRK 271
+ A + Q +R+
Sbjct: 62 TKKAVKYQSKARR 74
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGT 256
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 3 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAV 60
>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 = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGT 256
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 3 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAV 60
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGT 256
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 7 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAV 64
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGT 256
+SEI+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V HA +V R
Sbjct: 3 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAV 60
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 37/54 (68%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFV 252
T+++I+ RH + ++E ++ ELH +F+DM LVE+QG ++ IE +V A ++
Sbjct: 17 TLADIEARHADIMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYI 70
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 43/66 (65%)
Query: 206 RHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQLEFAKES 265
R A++++E ++L+++Q+F D+ ++ QG ++ IE++V + V R ++QL+ A
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
Query: 266 QKDSRK 271
QK SRK
Sbjct: 64 QKKSRK 69
>pdb|1FIO|A Chain A, Crystal Structure Of Yeast T-Snare Protein Sso1
Length = 196
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 136 MDDFQHLRAKMTAEYKETIERRYFTVTGQQADEQMIENLISS-GESENFLQKAIQEQGRG 194
+ D++ + + E KE +R+Y + + A E +E IS G + F Q + RG
Sbjct: 97 IQDYRIVDSNYKEENKEQAKRQYMIIQPE-ATEDEVEAAISDVGGQQIFSQALLNANRRG 155
Query: 195 QIMDTISEIQERHDAVKEIEKNLLELHQVFLDMFALV 231
+ ++E+Q RH + ++EK++ EL Q+F DM LV
Sbjct: 156 EAKTALAEVQARHQELLKLEKSMAELTQLFNDMEELV 192
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 40/62 (64%)
Query: 201 SEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGTEQLE 260
S + ER +++++E ++++++++F D+ ++ QG ++ IE++V A V++ +QL
Sbjct: 2 SHMHERESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLS 61
Query: 261 FA 262
A
Sbjct: 62 RA 63
>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 = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 34/58 (58%)
Query: 199 TISEIQERHDAVKEIEKNLLELHQVFLDMFALVEAQGHQLNDIESHVAHANSFVRRGT 256
++E+Q RH + ++EK++ EL Q+F DM LV Q ++ I+ +V A V +G
Sbjct: 1 ALAEVQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGV 58
>pdb|2O5V|A Chain A, Recombination Mediator Recf
Length = 359
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 154 IERRYFTVTGQQADEQMIENLISSGESENFLQKAIQEQG 192
+E Y +TGQ D IE LI +GE+E +++ +Q+ G
Sbjct: 43 LEAAYLALTGQ-TDAPRIEQLIQAGETEAYVRADLQQGG 80
>pdb|1NFO|A Chain A, Apolipoprotein E2 (Apoe2, D154a Mutation)
Length = 191
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 27 TENLDKFFDDVENVKEDMKVVEKLYKRLQESNEETKVAHNAKTMKQIRARMDSDVEQVLK 86
T+ L D E +KE +L ++L EET+ A +K ++ +AR+ +D+E V
Sbjct: 57 TQELRALMD--ETMKELKAYKSELEEQLTPVAEETR-ARLSKELQAAQARLGADMEDVCG 113
Query: 87 RVKVIKGKLEAL 98
R+ +G+++A+
Sbjct: 114 RLVQYRGEVQAM 125
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 0.345
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,504,988
Number of Sequences: 62578
Number of extensions: 284165
Number of successful extensions: 941
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 923
Number of HSP's gapped (non-prelim): 51
length of query: 301
length of database: 14,973,337
effective HSP length: 98
effective length of query: 203
effective length of database: 8,840,693
effective search space: 1794660679
effective search space used: 1794660679
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: 51 (24.3 bits)