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= psy14608
(199 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 = 166 bits (419), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 94/189 (49%), Positives = 104/189 (55%), Gaps = 78/189 (41%)
Query: 57 NKSSADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCKGRIQRQLEISKKFVEVMTEY 116
N+SSADLRIRKTQHSTLSRKFVEVM+EYN TQ+DYRERCKGRIQR
Sbjct: 119 NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERCKGRIQR--------------- 163
Query: 117 NRTQTDYRERCKGRIQRQLEITGRTTTNEELEAMLDTGNPAVFTQG-------------- 162
QLEITGRTTT+EELE ML++GNPA+F G
Sbjct: 164 -----------------QLEITGRTTTSEELEDMLESGNPAIFASGIIMDSSISKQALSE 206
Query: 163 --------------------------------GEMIDRIEYHVEHAVDYVQTATQDTKKA 190
GEMIDRIEY+VEHAVDYV+ A DTKKA
Sbjct: 207 IETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKA 266
Query: 191 LKYQSKARR 199
+KYQSKARR
Sbjct: 267 VKYQSKARR 275
>pdb|1S94|A Chain A, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
pdb|1S94|B Chain B, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
Length = 180
Score = 98.6 bits (244), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 53/98 (54%), Positives = 62/98 (63%), Gaps = 32/98 (32%)
Query: 57 NKSSADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCKGRIQRQLEISKKFVEVMTEY 116
NKSSADLRIRKTQ+ST+SRK FVEVM++Y
Sbjct: 115 NKSSADLRIRKTQYSTISRK--------------------------------FVEVMSDY 142
Query: 117 NRTQTDYRERCKGRIQRQLEITGRTTTNEELEAMLDTG 154
N TQ DYR+RCK RI+RQ+EITGRTTTNEELE ML++G
Sbjct: 143 NTTQIDYRDRCKARIKRQMEITGRTTTNEELEDMLESG 180
>pdb|1EZ3|A Chain A, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|B Chain B, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|C Chain C, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
Length = 127
Score = 88.2 bits (217), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/44 (90%), Positives = 43/44 (97%)
Query: 57 NKSSADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCKGRIQ 100
N+SSADLRIRKTQHSTLSRKFVEVM+EYN TQ+DYRERCKGRIQ
Sbjct: 84 NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERCKGRIQ 127
>pdb|1BR0|A Chain A, Three Dimensional Structure Of The N-Terminal Domain Of
Syntaxin 1a
Length = 120
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 35/40 (87%), Positives = 38/40 (95%)
Query: 57 NKSSADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCK 96
N+SSADLRIRKTQHSTLSRKFVEVM+EYN TQ+DYRER K
Sbjct: 81 NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERSK 120
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 75.9 bits (185), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 54/150 (36%), Positives = 80/150 (53%), Gaps = 11/150 (7%)
Query: 60 SADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCKGRIQRQL-----EISKKFVEVMT 114
S DLRIR++QHS+LSRKFV+VMT YN Q + + R + RQ +S ++ +
Sbjct: 130 STDLRIRQSQHSSLSRKFVKVMTRYNDVQAENKRRYGENVARQCRVVEPSLSDDAIQKVI 189
Query: 115 EYNRTQTDYRERCKGRIQRQLEITGRTTTNEELE-AMLD-----TGNPAVFTQGGEMIDR 168
E+ R +G + EI R ++LE ++L+ T + GEMIDR
Sbjct: 190 EHGTEGIFSGMRLEGAEAKLNEIRDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDR 249
Query: 169 IEYHVEHAVDYVQTATQDTKKALKYQSKAR 198
IE+ VE + +YV+ AT+ +A YQ AR
Sbjct: 250 IEFSVEQSHNYVKKATEQVVQARHYQESAR 279
>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 = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/67 (58%), Positives = 44/67 (65%), Gaps = 1/67 (1%)
Query: 133 RQLEITGRTTTNEELEAMLDTGNPAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
R EI + EL M V +QG EMIDRIEY+VEHAVDYV+ A DTKKA+K
Sbjct: 8 RHSEIIKLENSIRELHDMFMDMAMLVESQG-EMIDRIEYNVEHAVDYVERAVSDTKKAVK 66
Query: 193 YQSKARR 199
YQSKARR
Sbjct: 67 YQSKARR 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 = 68.2 bits (165), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 39/67 (58%), Positives = 44/67 (65%), Gaps = 1/67 (1%)
Query: 133 RQLEITGRTTTNEELEAMLDTGNPAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
R EI + EL M V +QG EMIDRIEY+VEHAVDYV+ A DTKKA+K
Sbjct: 9 RHSEIIKLENSIRELHDMFMDMAMLVESQG-EMIDRIEYNVEHAVDYVERAVSDTKKAVK 67
Query: 193 YQSKARR 199
YQSKARR
Sbjct: 68 YQSKARR 74
>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 = 68.2 bits (165), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 31/37 (83%), Positives = 34/37 (91%)
Query: 163 GEMIDRIEYHVEHAVDYVQTATQDTKKALKYQSKARR 199
GEMIDRIEY+VEHAVDYV+ A DTKKA+KYQSKARR
Sbjct: 48 GEMIDRIEYNVEHAVDYVERAVSDTKKAVKYQSKARR 84
>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 = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 38/66 (57%), Positives = 43/66 (65%), Gaps = 1/66 (1%)
Query: 133 RQLEITGRTTTNEELEAMLDTGNPAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
R EI + EL M V +QG EMIDRIEY+VEHAVDYV+ A DTKKA+K
Sbjct: 19 RHSEIIKLENSIRELHDMFMDMAMLVESQG-EMIDRIEYNVEHAVDYVERAVSDTKKAVK 77
Query: 193 YQSKAR 198
YQSKAR
Sbjct: 78 YQSKAR 83
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 63.2 bits (152), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 37/66 (56%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 133 RQLEITGRTTTNEELEAMLDTGNPAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
R +I T+ EL M V +QG EMIDRIEY+VE AVDY++TA DTKKA+K
Sbjct: 24 RHADIMKLETSIRELHDMFMDMAMLVESQG-EMIDRIEYNVEAAVDYIETAKVDTKKAVK 82
Query: 193 YQSKAR 198
YQSKAR
Sbjct: 83 YQSKAR 88
>pdb|3LG7|A Chain A, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
pdb|3LG7|B Chain B, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
pdb|3LG7|C Chain C, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
Length = 133
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/42 (69%), Positives = 32/42 (76%)
Query: 57 NKSSADLRIRKTQHSTLSRKFVEVMTEYNRTQTDYRERCKGR 98
NKSSADL+IRK QH L RKF EVM EYN TQ DYR+R + R
Sbjct: 83 NKSSADLKIRKRQHEELERKFREVMKEYNATQQDYRKRARKR 124
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 35/63 (55%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 133 RQLEITGRTTTNEELEAMLDTGNPAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
R EI + EL M V +QG EMIDRIEY+VEHAVDYV+ A DTKKA+K
Sbjct: 14 RHSEIIKLENSIRELHDMFMDMAMLVESQG-EMIDRIEYNVEHAVDYVERAVSDTKKAVK 72
Query: 193 YQS 195
YQS
Sbjct: 73 YQS 75
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/30 (80%), Positives = 27/30 (90%)
Query: 163 GEMIDRIEYHVEHAVDYVQTATQDTKKALK 192
GEMIDRIEY+VEHAVDYV+ A DTKKA+K
Sbjct: 39 GEMIDRIEYNVEHAVDYVERAVSDTKKAVK 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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/27 (81%), Positives = 24/27 (88%)
Query: 163 GEMIDRIEYHVEHAVDYVQTATQDTKK 189
GEMIDRIEY+VEHAVDYV+ A DTKK
Sbjct: 39 GEMIDRIEYNVEHAVDYVERAVSDTKK 65
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/24 (79%), Positives = 21/24 (87%)
Query: 163 GEMIDRIEYHVEHAVDYVQTATQD 186
GEMIDRIEY+VEHAVDYV+ A D
Sbjct: 39 GEMIDRIEYNVEHAVDYVERAVSD 62
>pdb|1FIO|A Chain A, Crystal Structure Of Yeast T-Snare Protein Sso1
Length = 196
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 107 KKFVEVMTEYNRTQTDYRERCKGRIQRQLEITGRTTTNEELEAML-DTGNPAVFTQG 162
++F++++ +Y ++Y+E K + +RQ I T +E+EA + D G +F+Q
Sbjct: 91 QRFLKLIQDYRIVDSNYKEENKEQAKRQYMIIQPEATEDEVEAAISDVGGQQIFSQA 147
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 6/66 (9%)
Query: 140 RTTTNEELEA-MLDTGN-----PAVFTQGGEMIDRIEYHVEHAVDYVQTATQDTKKALKY 193
R T ++LEA +LD + G++ID IE +VE + +V+ A+ ++A Y
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
Query: 194 QSKARR 199
Q K+R+
Sbjct: 64 QKKSRK 69
>pdb|1OC0|B Chain B, Plasminogen Activator Inhibitor-1 Complex With Somatomedin
B Domain Of Vitronectin
pdb|1S4G|A Chain A, Somatomedin-b Domain Of Human Plasma Vitronectin.
pdb|1SSU|A Chain A, Structural And Biochemical Evidence For Disulfide Bond
Heterogeneity In Active Forms Of The Somatomedin B
Domain Of Human Vitronectin
Length = 51
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 92 RERCKGRIQRQLEISKKFV--EVMTEYNRTQTDYRERCKGRIQR 133
+E CKGR + KK E+ + Y TDY CK ++ R
Sbjct: 2 QESCKGRCTEGFNVDKKCQCDELCSYYQSCCTDYTAECKPQVTR 45
>pdb|2JQ8|A Chain A, Solution Structure Of The Somatomedin B Domain From
Vitronectin Produced In Pichia Pastoris
Length = 53
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 92 RERCKGRIQRQLEISKKFV--EVMTEYNRTQTDYRERCKGRIQR 133
+E CKGR + KK E+ + Y TDY CK ++ R
Sbjct: 2 QESCKGRCTEGFNVDKKCQCDELCSYYQSCCTDYTAECKPQVTR 45
>pdb|3NUT|A Chain A, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|B Chain B, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|C Chain C, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|D Chain D, Crystal Structure Of The Methyltransferase Cobj
Length = 251
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 150 MLDTGNPAVFTQGGEMIDRIEYHVEHA 176
++ +G+P VF + + +E H EHA
Sbjct: 83 VVSSGDPGVFAMASALFEALEAHPEHA 109
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
0.315 0.128 0.345
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,321,097
Number of Sequences: 62578
Number of extensions: 142766
Number of successful extensions: 457
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 420
Number of HSP's gapped (non-prelim): 44
length of query: 199
length of database: 14,973,337
effective HSP length: 94
effective length of query: 105
effective length of database: 9,091,005
effective search space: 954555525
effective search space used: 954555525
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: 49 (23.5 bits)