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= 024397
(268 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SFC|C Chain C, Neuronal Synaptic Fusion Complex
pdb|1SFC|G Chain G, Neuronal Synaptic Fusion Complex
pdb|1SFC|K Chain K, Neuronal Synaptic Fusion Complex
Length = 83
Score = 30.8 bits (68), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 37/61 (60%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIG 208
DE+ ++ +R +VE++ + G +T L Q +Q+ R+ ++ I +K+A + +K++G
Sbjct: 23 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQDMKEAEKNLKDLG 82
Query: 209 R 209
+
Sbjct: 83 K 83
>pdb|1URQ|C Chain C, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
pdb|3HD7|C Chain C, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|G Chain G, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|C Chain C, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|G Chain G, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 80
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 37/61 (60%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIG 208
DE+ ++ +R +VE++ + G +T L Q +Q+ R+ ++ I +K+A + +K++G
Sbjct: 20 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQDMKEAEKNLKDLG 79
Query: 209 R 209
+
Sbjct: 80 K 80
>pdb|1N7S|C Chain C, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 79
Score = 30.8 bits (68), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 37/61 (60%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIG 208
DE+ ++ +R +VE++ + G +T L Q +Q+ R+ ++ I +K+A + +K++G
Sbjct: 19 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQDMKEAEKNLKDLG 78
Query: 209 R 209
+
Sbjct: 79 K 79
>pdb|3RK2|C Chain C, Truncated Snare Complex
pdb|3RK2|G Chain G, Truncated Snare Complex
pdb|3RK3|C Chain C, Truncated Snare Complex With Complexin
pdb|3RL0|C Chain C, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|G Chain G, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|K Chain K, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|O Chain O, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|S Chain S, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|W Chain W, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|AA Chain a, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|EE Chain e, Truncated Snare Complex With Complexin (P1)
Length = 81
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIG 208
DE+ ++ +R +VE++ + G +T L Q +Q+ R+ ++ I +K+A + +K++G
Sbjct: 21 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQDMKEAEKNLKDLG 80
>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 34/62 (54%)
Query: 148 MDETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEI 207
M+ Q+I+RS + +T ++GT+ L Q DQ+ R + L ++ K+ ++++ +
Sbjct: 4 MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLVNTNENLSKSRKILRSM 63
Query: 208 GR 209
R
Sbjct: 64 SR 65
>pdb|1JTH|A Chain A, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
pdb|1JTH|C Chain C, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
Length = 82
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIG 208
DE+ ++ +R +VE++ + G +T L Q +Q+ RI +D I +K+A + + ++G
Sbjct: 23 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLERIEEGMDQINKDMKEAEKNLTDLG 82
>pdb|3HQ8|A Chain A, Ccpa From G. Sulfurreducens S134pV135K VARIANT
pdb|3HQ8|B Chain B, Ccpa From G. Sulfurreducens S134pV135K VARIANT
Length = 345
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 62 MDREIKD--EEARNPPEVNKQLNDEKQSMIKELNS---YVALRK 100
D KD E+A+ P + K++N+ ++K LNS YVAL K
Sbjct: 116 WDGRAKDLAEQAKGPVQAPKEMNNTPDQVVKTLNSIPDYVALFK 159
>pdb|2R6X|A Chain A, Structure Of A D35n Variant Pduo-type Atp:co(i)rrinoid
Adenosyltransferase From Lactobacillus Reuteri Complexed
With Atp
pdb|2R6X|B Chain B, Structure Of A D35n Variant Pduo-type Atp:co(i)rrinoid
Adenosyltransferase From Lactobacillus Reuteri Complexed
With Atp
Length = 194
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 89 IKELNSYVALRKTYMNS----LGNKKVE----LFDMGAGVSEPTADE 127
+ ELNS+V K+ +NS L N+ E LFD G ++ P DE
Sbjct: 40 VNELNSWVGYTKSLINSHTQVLSNELEEIQQLLFDCGHDLATPADDE 86
>pdb|3JU8|A Chain A, Crystal Structure Of Succinylglutamic Semialdehyde
Dehydrogenase From Pseudomonas Aeruginosa.
pdb|3JU8|B Chain B, Crystal Structure Of Succinylglutamic Semialdehyde
Dehydrogenase From Pseudomonas Aeruginosa
Length = 490
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 141 IDAGKKTMDETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNE 189
+DA E A R + EQ IE+ + A TLK + D++ R++ E
Sbjct: 44 VDAAVCAAREAFPAWARRPL--EQRIELLERFAATLKSRADELARVIGE 90
>pdb|2ZKQ|HH Chain h, Structure Of A Mammalian Ribosomal 40s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 130
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 25 LSNGFQKLDKIKDSNRQTKQLEELTGRMRECKRLIKEMDREIKDEE 70
+ +G+ +I D +R K + LTGR+ +C + D ++KD E
Sbjct: 42 MKHGYIGEFEIIDDHRAGKIVVNLTGRLNKCGVISPRFDVQLKDLE 87
>pdb|1KIL|C Chain C, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 74
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 35/59 (59%)
Query: 149 DETDQAIKRSQMVVEQTIEVGTQTATTLKGQTDQMGRIVNELDTIQFSIKKASQLVKEI 207
DE+ ++ +R +VE++ + G +T L Q +Q+ R+ ++ I +K+A + +K++
Sbjct: 15 DESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQDMKEAEKNLKDL 73
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
0.312 0.129 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,084,329
Number of Sequences: 62578
Number of extensions: 214965
Number of successful extensions: 718
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 703
Number of HSP's gapped (non-prelim): 35
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)