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= 026774
(233 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GL2|D Chain D, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%)
Query: 140 MREQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRLRRVQKNLAIL 199
M+EQD GL+ L + K + + ELD +IDDL V+ TD +LR + + ++
Sbjct: 4 MQEQDAGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARRVTLV 63
Query: 200 NK 201
++
Sbjct: 64 DR 65
>pdb|3ZUR|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
pdb|3ZUR|B Chain B, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
Length = 960
Score = 33.9 bits (76), Expect = 0.071, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 451 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 498
>pdb|1SFC|D Chain D, Neuronal Synaptic Fusion Complex
pdb|1SFC|H Chain H, Neuronal Synaptic Fusion Complex
pdb|1SFC|L Chain L, Neuronal Synaptic Fusion Complex
Length = 87
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 134 GFQRQIMR-----EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSR 188
GF R++ E DE LE++ + + +H+AL + E+D R ID + + D +R
Sbjct: 13 GFIRRVTNDARENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTR 72
Query: 189 L 189
+
Sbjct: 73 I 73
>pdb|2NPS|D Chain D, Crystal Structure Of The Early Endosomal Snare Complex
Length = 82
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 9/83 (10%)
Query: 121 MNRATGLDNQGLVGFQRQIMREQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQ 180
M TG +N G R QDE LE + ++ K+++ + EL+ +++D
Sbjct: 4 MASMTGGNNMG---------RMQDEQLELVSGSIGVLKNMSQRIGGELEEQAVMLEDFSH 54
Query: 181 HVDVTDSRLRRVQKNLAILNKRT 203
++ T SRL V K LA ++ T
Sbjct: 55 ELESTQSRLDNVMKKLAKVSHMT 77
>pdb|1N7S|D Chain D, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 66
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 7 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 54
>pdb|1KIL|D Chain D, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 66
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 7 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 54
>pdb|3RK2|D Chain D, Truncated Snare Complex
pdb|3RK2|H Chain H, Truncated Snare Complex
pdb|3RK3|D Chain D, Truncated Snare Complex With Complexin
pdb|3RL0|D Chain D, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|H Chain H, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|L Chain L, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|P Chain P, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|T Chain T, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|X Chain X, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|BB Chain b, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|FF Chain f, Truncated Snare Complex With Complexin (P1)
Length = 65
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 7 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 54
>pdb|1URQ|D Chain D, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 69
Score = 30.8 bits (68), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 10 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 57
>pdb|3HD7|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 68
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 142 EQDEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
E DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 9 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 56
>pdb|4GNS|B Chain B, Crystal Structure Of The Chs5-Chs6 Exomer Cargo Adaptor
Complex
Length = 754
Score = 30.4 bits (67), Expect = 0.89, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 21/36 (58%)
Query: 50 ITILGTRLDSLQSLLSKLPGKQPISEKEMNRRKDML 85
ITIL LD L SLL+ LP + S + MN D+L
Sbjct: 305 ITILNETLDPLLSLLNDLPPRDADSARLMNCMSDLL 340
>pdb|2NRT|A Chain A, Crystal Structure Of The C-Terminal Half Of Uvrc
pdb|2NRV|A Chain A, Crystal Structure Of The C-Terminal Half Of Uvrc
pdb|2NRV|B Chain B, Crystal Structure Of The C-Terminal Half Of Uvrc
pdb|2NRW|A Chain A, Crystal Structure Of The C Terminal Half Of Uvrc
pdb|2NRX|A Chain A, Crystal Structure Of The C-Terminal Half Of Uvrc, In The
Presence Of Sulfate Molecules
pdb|2NRX|B Chain B, Crystal Structure Of The C-Terminal Half Of Uvrc, In The
Presence Of Sulfate Molecules
pdb|2NRZ|A Chain A, Crystal Structure Of The C-terminal Half Of Uvrc Bound To
Its Catalytic Divalent Cation
pdb|2NRZ|B Chain B, Crystal Structure Of The C-terminal Half Of Uvrc Bound To
Its Catalytic Divalent Cation
Length = 220
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 38 ESQRHASAIRRKITILGTRLDSLQSLLSKLPGKQPISEKEMNRRKDMLANLRS-KVNQMA 96
E+ R A + RK +SL+S+L +PG PI +K++ L N+RS + ++A
Sbjct: 148 ETHRFAVSYHRK----RREKESLRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIA 203
Query: 97 STLNMSNFANR 107
+ + A R
Sbjct: 204 RVIGSTEIARR 214
>pdb|1XTG|B Chain B, Crystal Structure Of Neurotoxin BontA COMPLEXED WITH
Synaptosomal-Associated Protein 25
Length = 59
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 144 DEGLEKLEETVVSTKHIALAVNEELDLHTRLIDDLDQHVDVTDSRL 189
DE LE++ + + +H+AL + E+D R ID + + D +R+
Sbjct: 2 DENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRI 47
>pdb|3U1D|A Chain A, The Structure Of A Protein With A Gntr Superfamily
Winged-Helix-Turn- Helix Domain From Halomicrobium
Mukohataei.
pdb|3U1D|B Chain B, The Structure Of A Protein With A Gntr Superfamily
Winged-Helix-Turn- Helix Domain From Halomicrobium
Mukohataei
Length = 151
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 47 RRKITILGTRLDSLQSLLSKLPGKQPISEKEMNRRKDMLANLRSKVNQM 95
RR+ + TRLD L +L++ G + E + ANLR V+++
Sbjct: 22 RRRFVLHETRLDVLHQILAQPDGVLSVEELLYRNPDETEANLRYHVDEL 70
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 0.129 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,318,831
Number of Sequences: 62578
Number of extensions: 179970
Number of successful extensions: 591
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 571
Number of HSP's gapped (non-prelim): 25
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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)