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= 038503
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 44/62 (70%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
+ ERE I++++ I ++NEIFKDL +++HEQG +ID I +N+ES+ QA QL++A
Sbjct: 4 MHERESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLSRA 63
Query: 77 SK 78
+
Sbjct: 64 AN 65
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 45/62 (72%)
Query: 20 REQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKASKI 79
RE I++++ I +VN+IFKDLA+++H+QG +ID I +N+ESS +A+ QL +A+
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
Query: 80 QK 81
QK
Sbjct: 64 QK 65
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 9 EITFNEAIIEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQ 68
E NE I +R + I++++ + E++E+F D++ LV QG MID I ++E SH +
Sbjct: 206 EAKLNE--IRDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKK 263
Query: 69 ATTQLAKASKIQ 80
AT Q+ +A Q
Sbjct: 264 ATEQVVQARHYQ 275
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 5 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 64
Query: 77 SKIQ 80
K Q
Sbjct: 65 VKYQ 68
>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 = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 6 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 65
Query: 77 SKIQ 80
K Q
Sbjct: 66 VKYQ 69
>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 = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 16 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 75
Query: 77 SKIQ 80
K Q
Sbjct: 76 VKYQ 79
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 11 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 70
Query: 77 SKIQ 80
K Q
Sbjct: 71 VKYQ 74
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 42/68 (61%), Gaps = 4/68 (5%)
Query: 15 AIIEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESS--HASTAQATTQ 72
A IE R I +++ I E++++F D+A+LV QG MID I N+E++ + TA+ T+
Sbjct: 19 ADIEARHADIMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYIETAKVDTK 78
Query: 73 LAKASKIQ 80
KA K Q
Sbjct: 79 --KAVKYQ 84
>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 = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 16 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 75
Query: 77 SKIQ 80
K Q
Sbjct: 76 VKYQ 79
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 47/79 (59%), Gaps = 3/79 (3%)
Query: 4 VLLDNEITFNEAI--IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIES 61
+++D+ I+ +A+ IE R I +++ I E++++F D+A+LV QG MID I N+E
Sbjct: 193 IIMDSSIS-KQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEH 251
Query: 62 SHASTAQATTQLAKASKIQ 80
+ +A + KA K Q
Sbjct: 252 AVDYVERAVSDTKKAVKYQ 270
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLAKA 76
IE R I +++ I E++++F D+A+LV QG MID I N+E + +A + KA
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 66
Query: 77 SK 78
K
Sbjct: 67 VK 68
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIE 60
IE R I +++ I E++++F D+A+LV QG MID I N+E
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVE 50
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE
COMPLEX
Length = 62
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 17 IEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIE 60
IE R I +++ I E++++F D+A+LV QG MID I N+E
Sbjct: 7 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVE 50
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%)
Query: 15 AIIEEREQGIKEIQEQISEVNEIFKDLAVLVHEQGVMIDDISSNIESSHASTAQATTQLA 74
A ++ R Q + ++++ ++E+ ++F D+ LV EQ +D I N+E + Q
Sbjct: 3 AEVQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGHTD 62
Query: 75 KASK 78
KA K
Sbjct: 63 KAVK 66
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
0.307 0.124 0.301
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,709,963
Number of Sequences: 62578
Number of extensions: 49119
Number of successful extensions: 247
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 222
Number of HSP's gapped (non-prelim): 27
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)