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= 039976
(438 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
Structures
Length = 70
Score = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 42/60 (70%), Positives = 48/60 (80%), Gaps = 1/60 (1%)
Query: 190 KLYRGVRQRHWGKWVAEIRLP-RNRTRLWLGTFDRAEDAALAYDREAFKLRGENARLNFP 248
K YRGVRQR WGK+ AEIR P +N R+WLGTF+ AEDAALAYDR AF++RG A LNFP
Sbjct: 4 KHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 63
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 42/60 (70%), Positives = 48/60 (80%), Gaps = 1/60 (1%)
Query: 190 KLYRGVRQRHWGKWVAEIRLP-RNRTRLWLGTFDRAEDAALAYDREAFKLRGENARLNFP 248
K YRGVRQR WGK+ AEIR P +N R+WLGTF+ AEDAALAYDR AF++RG A LNFP
Sbjct: 1 KHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60
>pdb|1TIQ|A Chain A, Crystal Structure Of An Acetyltransferase (Paia) In
Complex With Coa And Dtt From Bacillus Subtilis,
Northeast Structural Genomics Target Sr64.
pdb|1TIQ|B Chain B, Crystal Structure Of An Acetyltransferase (Paia) In
Complex With Coa And Dtt From Bacillus Subtilis,
Northeast Structural Genomics Target Sr64
Length = 180
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 183 AQPLNTTKLY-RGVRQRH-WGKWV----AEIRLPRNRTRLWLGTFDRAEDAALAYDREAF 236
A+ L ++Y + Q+H GK + EI L RN+ +WLG +++ E+A Y + F
Sbjct: 88 AESLEIERIYIKNSFQKHGLGKHLLNKAIEIALERNKKNIWLGVWEKNENAIAFYKKXGF 147
Query: 237 KLRG 240
G
Sbjct: 148 VQTG 151
>pdb|3IKO|B Chain B, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|E Chain E, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|H Chain H, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
Length = 442
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 37/89 (41%), Gaps = 8/89 (8%)
Query: 178 LFRPQAQPLNTTKLYRGVRQRHWG-----KWVAEIRLPRNRTRLWLGTFDRAEDAALAYD 232
+F+ A NT KLY+ VRQR W L N TR++ A A
Sbjct: 311 IFQLYAANENTEKLYKEVRQRTNALDVQFCWYLIQTLRFNGTRVFSKETSDEATFAFAAQ 370
Query: 233 REAFKLRGENARLNFPELFLNKDKAAVST 261
E +L G + F FLN DKAA T
Sbjct: 371 LEFAQLHGHSL---FVSCFLNDDKAAEDT 396
>pdb|3BG0|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
Length = 442
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 37/89 (41%), Gaps = 8/89 (8%)
Query: 178 LFRPQAQPLNTTKLYRGVRQRHWG-----KWVAEIRLPRNRTRLWLGTFDRAEDAALAYD 232
+F+ A NT KLY+ VRQR W L N TR++ A A
Sbjct: 311 IFQLYAANENTEKLYKEVRQRTNALDVQFCWYLIQTLRFNGTRVFSKETSDEATFAFAAQ 370
Query: 233 REAFKLRGENARLNFPELFLNKDKAAVST 261
E +L G + F FLN DKAA T
Sbjct: 371 LEFAQLHGHSL---FVSCFLNDDKAAEDT 396
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 37/89 (41%), Gaps = 8/89 (8%)
Query: 178 LFRPQAQPLNTTKLYRGVRQRHWG-----KWVAEIRLPRNRTRLWLGTFDRAEDAALAYD 232
+F+ A NT KLY+ VRQR W L N TR++ A A
Sbjct: 620 IFQLYAANENTEKLYKEVRQRTNALDVQFCWYLIQTLRFNGTRVFSKETSDEATFAFAAQ 679
Query: 233 REAFKLRGENARLNFPELFLNKDKAAVST 261
E +L G + F FLN DKAA T
Sbjct: 680 LEFAQLHGHSL---FVSCFLNDDKAAEDT 705
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 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,845,705
Number of Sequences: 62578
Number of extensions: 380624
Number of successful extensions: 743
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 738
Number of HSP's gapped (non-prelim): 7
length of query: 438
length of database: 14,973,337
effective HSP length: 102
effective length of query: 336
effective length of database: 8,590,381
effective search space: 2886368016
effective search space used: 2886368016
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: 53 (25.0 bits)