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= 040151
(251 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FVF|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVF|B Chain B, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVH|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
Length = 591
Score = 33.9 bits (76), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 212 KIGQCIFEFVVGGATSSELRICYKL--TTELNGEVVLGSS 249
K G + FVVGG + SE+R Y++ T + N EV+LGS+
Sbjct: 534 KSGPRLIIFVVGGISYSEMRSAYEVTQTAKNNWEVILGST 573
>pdb|1EPU|A Chain A, X-Ray Crystal Structure Of Neuronal Sec1 From Squid
Length = 591
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 212 KIGQCIFEFVVGGATSSELRICYKL--TTELNGEVVLGSS 249
K G + FVVGG + SE R Y++ T + N EV+LGS+
Sbjct: 534 KSGPRLIIFVVGGISYSEXRSAYEVTQTAKNNWEVILGST 573
>pdb|3C98|A Chain A, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 606
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 47/227 (20%), Positives = 95/227 (41%), Gaps = 30/227 (13%)
Query: 33 ELGQLEQDLVF-CDAE---FKDVIKVLTA---KEDVTLDNKLRLLMIAASIYPEKFEGEK 85
+L ++EQDL DAE KD ++ + +V+ +K+R++++ I+ + E+
Sbjct: 376 KLCRVEQDLAMGTDAEGEKIKDPMRAIVPILLDANVSTYDKIRIILLY--IFLKNGITEE 433
Query: 86 GLN-LMKLAKLTADDMTAVNNMRLFXXXXXXXXXXXXXXXTARKDRSGGEEICKYPRSLK 144
LN L++ A++ +D + NM RK+R I + L
Sbjct: 434 NLNKLIQHAQIPPEDSEIITNMAHLGVPIVTDSTLRRRSKPERKER-----ISEQTYQLS 488
Query: 145 IWHKLVEKLGKNELSKDDYPSHFAVINEAPVAHXXXXXXXXXXXXXXXXDDGCSSDSVLK 204
W +++ + ++ + H+ I+ A K
Sbjct: 489 RWTPIIKDIMEDTIEDKLDTKHYPYISTRSSASFSTTAVSARYGHWH------------K 536
Query: 205 HALSGFEKIGQCIFEFVVGGATSSELRICYKLTTELNG--EVVLGSS 249
+ G + G + F++GG + +E+R Y++ T+ NG EV++GS+
Sbjct: 537 NKAPGEYRSGPRLIIFILGGVSLNEMRCAYEV-TQANGKWEVLIGST 582
>pdb|3PUJ|A Chain A, Crystal Structure Of The Munc18-1 And Syntaxin4 N-Peptide
Complex
pdb|3PUJ|B Chain B, Crystal Structure Of The Munc18-1 And Syntaxin4 N-Peptide
Complex
Length = 594
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 47/227 (20%), Positives = 95/227 (41%), Gaps = 30/227 (13%)
Query: 33 ELGQLEQDLVF-CDAE---FKDVIKVLTA---KEDVTLDNKLRLLMIAASIYPEKFEGEK 85
+L ++EQDL DAE KD ++ + +V+ +K+R++++ I+ + E+
Sbjct: 364 KLCRVEQDLAMGTDAEGEKIKDPMRAIVPILLDANVSTYDKIRIILLY--IFLKNGITEE 421
Query: 86 GLN-LMKLAKLTADDMTAVNNMRLFXXXXXXXXXXXXXXXTARKDRSGGEEICKYPRSLK 144
LN L++ A++ +D + NM RK+R I + L
Sbjct: 422 NLNKLIQHAQIPPEDSEIITNMAHLGVPIVTDSTLRRRSKPERKER-----ISEQTYQLS 476
Query: 145 IWHKLVEKLGKNELSKDDYPSHFAVINEAPVAHXXXXXXXXXXXXXXXXDDGCSSDSVLK 204
W +++ + ++ + H+ I+ A K
Sbjct: 477 RWTPIIKDIMEDTIEDKLDTKHYPYISTRSSASFSTTAVSARYGHWH------------K 524
Query: 205 HALSGFEKIGQCIFEFVVGGATSSELRICYKLTTELNG--EVVLGSS 249
+ G + G + F++GG + +E+R Y++ T+ NG EV++GS+
Sbjct: 525 NKAPGEYRSGPRLIIFILGGVSLNEMRCAYEV-TQANGKWEVLIGST 570
>pdb|2PJX|A Chain A, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|2PJX|B Chain B, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|3PUK|A Chain A, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
pdb|3PUK|B Chain B, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
Length = 592
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 212 KIGQCIFEFVVGGATSSELRICYKLT-TELNGEVVLGSS 249
K G + FV+GG T SE+R Y+++ + EV++GS+
Sbjct: 527 KNGSRLIIFVIGGITYSEMRCAYEVSQAHKSCEVIIGST 565
>pdb|3OPB|A Chain A, Crystal Structure Of She4p
pdb|3OPB|B Chain B, Crystal Structure Of She4p
Length = 778
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 126 ARKDRSGGEEICKYPRSLKIWHKLVEKLGKNE 157
A + S GEE+CK+ S K++ +E L +E
Sbjct: 587 ASSETSDGEEVCKHIVSTKVYWSTIENLMLDE 618
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
0.319 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,125,488
Number of Sequences: 62578
Number of extensions: 200288
Number of successful extensions: 342
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 341
Number of HSP's gapped (non-prelim): 6
length of query: 251
length of database: 14,973,337
effective HSP length: 96
effective length of query: 155
effective length of database: 8,965,849
effective search space: 1389706595
effective search space used: 1389706595
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)