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= psy15948
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EAB|G Chain G, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
pdb|3EAB|H Chain H, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
pdb|3EAB|I Chain I, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
pdb|3EAB|J Chain J, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
pdb|3EAB|K Chain K, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
pdb|3EAB|L Chain L, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
Length = 50
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 29/48 (60%), Positives = 35/48 (72%)
Query: 146 VDSLMKQVADEAGLELTMALPSGPDSIAASSQVSQEQDELSQRLARLR 193
VD L++++ADEAGL+L M LP G +S S EQDELSQRLARLR
Sbjct: 2 VDMLLQEMADEAGLDLNMELPQGQTGSVGTSVASAEQDELSQRLARLR 49
>pdb|1YA0|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Smg7
pdb|1YA0|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Smg7
Length = 497
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 79 ALTTRKVTQSMSGVVKAMDAAMK-------SMNLEKISGLMDKFEEQFEDLDVQSSY 128
AL +R ++ GV + A +K S +LEK+S L +K EEQF++L Q ++
Sbjct: 233 ALESRDEVKTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKLEEQFKELLFQKAF 289
>pdb|3N15|A Chain A, Crystal Stricture Of E145q Chitinase In Complex With Nag
From Bacillus Cereus Nctu2
Length = 333
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 83 RKVTQSMSG---VVKAMDAAMKSMNLEKISGLMDKFEEQFEDLDVQSS-YMENTMSQSVT 138
+KV S+ G VV D A K + I L+DK+ D+D+QS Y+ +
Sbjct: 73 KKVVLSIGGQNGVVLLPDNAAKDRFINSIQSLIDKYGFDGIDIDLQSGIYLNGNDTNFKN 132
Query: 139 TSVPQ-NDVDSLMKQVADEAGLELTMAL 165
+ PQ ++ S ++ ++D G + +++
Sbjct: 133 PTTPQIVNLISAIRTISDHYGPDFLLSM 160
>pdb|3N17|A Chain A, Crystal Stricture Of E145qY227F CHITINASE IN COMPLEX WITH
NAG FROM Bacillus Cereus Nctu2
Length = 333
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 83 RKVTQSMSG---VVKAMDAAMKSMNLEKISGLMDKFEEQFEDLDVQSS-YMENTMSQSVT 138
+KV S+ G VV D A K + I L+DK+ D+D+QS Y+ +
Sbjct: 73 KKVVLSIGGQNGVVLLPDNAAKDRFINSIQSLIDKYGFDGIDIDLQSGIYLNGNDTNFKN 132
Query: 139 TSVPQ-NDVDSLMKQVADEAGLELTMAL 165
+ PQ ++ S ++ ++D G + +++
Sbjct: 133 PTTPQIVNLISAIRTISDHYGPDFLLSM 160
>pdb|3N11|A Chain A, Crystal Stricture Of Wild-Type Chitinase From Bacillus
Cereus Nctu2
pdb|3N12|A Chain A, Crystal Stricture Of Chitinase In Complex With Zinc Atoms
From Bacillus Cereus Nctu2
Length = 333
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 83 RKVTQSMSG---VVKAMDAAMKSMNLEKISGLMDKFEEQFEDLDVQSS-YMENTMSQSVT 138
+KV S+ G VV D A K + I L+DK+ D+D++S Y+ +
Sbjct: 73 KKVVLSIGGQNGVVLLPDNAAKDRFINSIQSLIDKYGFDGIDIDLESGIYLNGNDTNFKN 132
Query: 139 TSVPQ-NDVDSLMKQVADEAGLELTMAL 165
+ PQ ++ S ++ ++D G + +++
Sbjct: 133 PTTPQIVNLISAIRTISDHYGPDFLLSM 160
>pdb|3N18|A Chain A, Crystal Stricture Of E145gY227F CHITINASE IN COMPLEX WITH
NAG FROM Bacillus Cereus Nctu2
pdb|3N1A|A Chain A, Crystal Stricture Of E145gY227F CHITINASE IN COMPLEX WITH
CYCLO-(L- His-L-Pro) From Bacillus Cereus Nctu2
Length = 333
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 83 RKVTQSMSG---VVKAMDAAMKSMNLEKISGLMDKFEEQFEDLDVQSS-YMENTMSQSVT 138
+KV S+ G VV D A K + I L+DK+ D+D+ S Y+ +
Sbjct: 73 KKVVLSIGGQNGVVLLPDNAAKDRFINSIQSLIDKYGFDGIDIDLGSGIYLNGNDTNFKN 132
Query: 139 TSVPQ-NDVDSLMKQVADEAGLELTMAL 165
+ PQ ++ S ++ ++D G + +++
Sbjct: 133 PTTPQIVNLISAIRTISDHYGPDFLLSM 160
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
0.310 0.121 0.303
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,737,737
Number of Sequences: 62578
Number of extensions: 109846
Number of successful extensions: 370
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 359
Number of HSP's gapped (non-prelim): 25
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)