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= 024426
(268 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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 31/43 (72%)
Query: 196 NEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKAS 238
NEIFKDL +++HEQG VID I +N+ES+ A QL++A+
Sbjct: 22 NEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLSRAA 64
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 31/43 (72%)
Query: 196 NEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKAS 238
N+IFKDLA+++H+QG +ID I +N+ESS A QL +A+
Sbjct: 19 NQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAA 61
>pdb|2DNX|A Chain A, Solution Structure Of Rsgi Ruh-063, An N-Terminal Domain
Of Syntaxin 12 From Human Cdna
Length = 130
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 2/102 (1%)
Query: 23 QAVAAGIFQINTAVAAFRRLVDAIGTSKDTLDHRQKLHNTRQRILQLVKDTSAKLKSVS- 81
Q + I +I+ A A + L+ +GT +D+ ++ L + QL K+T+ LK +
Sbjct: 17 QTCSGNIQRISQATAQIKNLMSQLGTKQDSSKLQENLQQLQHSTNQLAKETNELLKELGS 76
Query: 82 -ESDRDTDVNQNKKVEDAKLARDFQTVLQEFQKIQQLASERE 122
T + ++++ +L DF L FQ +Q+ SE+E
Sbjct: 77 LPLPLSTSEQRQQRLQKERLMNDFSAALNNFQAVQRRVSEKE 118
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E++ A+V KA K
Sbjct: 35 IRELHDMFMDMAMLVESQGEMIDRIEYNVEAAVDYIETAKVDTKKAVK 82
>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 = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 20 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 67
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 221 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 268
>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 = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 19 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 66
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 25 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 72
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 30 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 77
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 29.3 bits (64), Expect = 2.6, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 21 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 68
>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 = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKASK 239
I + +++F D+A+LV QG +ID I N+E + A KA K
Sbjct: 30 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 77
>pdb|1W36|C Chain C, Recbcd:dna Complex
pdb|1W36|F Chain F, Recbcd:dna Complex
pdb|3K70|C Chain C, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
pdb|3K70|F Chain F, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
Length = 1122
Score = 28.9 bits (63), Expect = 3.5, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 56 RQKLHNTRQRILQLVKDTSAKLKSVSESDRDTDVNQNKKVEDAKLARDFQTVLQEFQKIQ 115
RQ+ H+ R L L +D S + SD + DV KL RD+ +L + + Q
Sbjct: 263 RQRRHSFEDRELPLFRD-SENAGQLFNSDGEQDVGNPLLASWGKLGRDYIYLLSDLESSQ 321
Query: 116 QL 117
+L
Sbjct: 322 EL 323
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 196 NEIFKDLAVLVHEQGVVIDDISSNIESSAATTTHARVQLAKA 237
+E+F D++ LV QG +ID I ++E S A Q+ +A
Sbjct: 230 HEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQVVQA 271
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 28.1 bits (61), Expect = 5.8, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESS 223
I + +++F D+A+LV QG +ID I N+E +
Sbjct: 21 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHA 52
>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 = 27.7 bits (60), Expect = 7.1, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 192 IGQANEIFKDLAVLVHEQGVVIDDISSNIESS 223
I + +++F D+A+LV QG +ID I N+E +
Sbjct: 21 IRELHDMFMDMAMLVESQGEMIDRIEYNVEHA 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
0.316 0.127 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,317,673
Number of Sequences: 62578
Number of extensions: 107879
Number of successful extensions: 400
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 384
Number of HSP's gapped (non-prelim): 20
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)