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= psy8838
(319 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LR0|A Chain A, Solution Nmr Structure Of De Novo Designed Protein, P-Loop
Ntpase Fold, Northeast Structural Genomics Consortium
Target Or136
Length = 134
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 4 LRHRPHASNVAVVSIKVGAEIIKSEQLTINFPLGSPVWALIADNDSTAIEEHFGQKFNSQ 63
++ N + IK + + E L + LG V+ L+AD D +EE F +K SQ
Sbjct: 42 MKKLAEEKNFEKILIKSNDKQLLKEMLELISKLGYKVFLLLADQDENELEE-FKRKIESQ 100
>pdb|3IBG|A Chain A, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
pdb|3IBG|B Chain B, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
pdb|3IBG|C Chain C, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
pdb|3IBG|D Chain D, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
pdb|3IBG|E Chain E, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
pdb|3IBG|F Chain F, Crystal Structure Of Aspergillus Fumigatus Get3 With
Bound Adp
Length = 348
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 43 LIADNDSTAIEEHFGQKFNSQRGLMDGFSQCQLMAV 78
LI+ + + + + FGQKF + L+DG+S M +
Sbjct: 59 LISTDPAHNLSDAFGQKFGKEARLVDGYSNLSAMEI 94
>pdb|2WN4|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN5|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN7|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN8|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
Length = 463
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 29/49 (59%), Gaps = 9/49 (18%)
Query: 275 PESFIK------EWTERKERHRNEKQAKESRKKALHSIYVKDWGVDFSK 317
PE F+K EW ERKE R E++ + S K+AL S Y KD V+ SK
Sbjct: 56 PEDFLKDKEKAKEW-ERKEAERIEQKLERSEKEALES-YKKD-SVEISK 101
>pdb|2WN6|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
Length = 463
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 29/49 (59%), Gaps = 9/49 (18%)
Query: 275 PESFIK------EWTERKERHRNEKQAKESRKKALHSIYVKDWGVDFSK 317
PE F+K EW ERKE R E++ + S K+AL S Y KD V+ SK
Sbjct: 56 PEDFLKDKEKAKEW-ERKEAERIEQKLERSEKEALES-YKKD-SVEISK 101
>pdb|3NXD|C Chain C, Jc Polyomavirus Vp1 In Complex With Lstc
pdb|3NXD|B Chain B, Jc Polyomavirus Vp1 In Complex With Lstc
pdb|3NXD|A Chain A, Jc Polyomavirus Vp1 In Complex With Lstc
pdb|3NXD|D Chain D, Jc Polyomavirus Vp1 In Complex With Lstc
pdb|3NXD|E Chain E, Jc Polyomavirus Vp1 In Complex With Lstc
pdb|3NXG|A Chain A, Jc Polyomavirus Vp1
pdb|3NXG|B Chain B, Jc Polyomavirus Vp1
pdb|3NXG|C Chain C, Jc Polyomavirus Vp1
pdb|3NXG|D Chain D, Jc Polyomavirus Vp1
pdb|3NXG|E Chain E, Jc Polyomavirus Vp1
Length = 272
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 47/103 (45%), Gaps = 8/103 (7%)
Query: 9 HASNVAVVSIKVGAEIIKSEQLTINFPLGSPVWALIADNDSTAIEEHFGQKFNSQRGLMD 68
H V V+ +K G + I + + +G P L + S +I + F + + R ++
Sbjct: 3 HMGGVEVLEVKTGVDSITEVECFLTPEMGDPDEHLRGFSKSISISDTF-ESDSPNRDMLP 61
Query: 69 GFSQCQLMAVSL-----CGHSLIMELVFLTISQSALGLTVLKN 106
+S ++ +L CG+ L+ E V T+ +G+T L N
Sbjct: 62 CYSVARIPLPNLNEDLTCGNILMWEAV--TLKTEVIGVTSLMN 102
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
0.316 0.130 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,424,074
Number of Sequences: 62578
Number of extensions: 299807
Number of successful extensions: 704
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 703
Number of HSP's gapped (non-prelim): 10
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)