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= 026674
(235 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P22|C Chain C, Structure Of The Yeast Escrt-i Heterotetramer Core
Length = 192
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 165 KLYSPASLLKRIQEAMNKTEEESENLHRQL--LDRELDIGAFVQKYKKLRTTYHRR 218
K Y +L K++++ K +EES L +D D+ F++ Y +RT YH R
Sbjct: 122 KKYGDIALKKKLEQNTKKLDEESSQLETTTRSIDSADDLDQFIKNYLDIRTQYHLR 177
>pdb|2F66|C Chain C, Structure Of The Escrt-I Endosomal Trafficking Complex
pdb|2F66|F Chain F, Structure Of The Escrt-I Endosomal Trafficking Complex
Length = 82
Score = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 165 KLYSPASLLKRIQEAMNKTEEESENLHRQL--LDRELDIGAFVQKYKKLRTTYHRR 218
K Y +L K++++ K +EES L +D D+ F++ Y +RT YH R
Sbjct: 12 KKYGDIALKKKLEQNTKKLDEESSQLETTTRSIDSADDLDQFIKNYLDIRTQYHLR 67
>pdb|2CAZ|C Chain C, Escrt-I Core
pdb|2CAZ|F Chain F, Escrt-I Core
Length = 85
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 167 YSPASLLKRIQEAMNKTEEESENLHRQL--LDRELDIGAFVQKYKKLRTTYHRR 218
Y +L K++++ K +EES L +D D+ F++ Y +RT YH R
Sbjct: 17 YGDIALKKKLEQNTKKLDEESSQLETTTRSIDSADDLDQFIKNYLDIRTQYHLR 70
>pdb|1J6X|A Chain A, Crystal Structure Of Helicobacter Pylori Luxs
pdb|1J6X|B Chain B, Crystal Structure Of Helicobacter Pylori Luxs
Length = 160
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 6/59 (10%)
Query: 151 EKLHDLERQKEQLLKLYS-PASLLKRIQEAMNKTEEESENLHRQLLDR-----ELDIGA 203
E L LE+ + +LK PAS K+ A N T E ++NL R LD+ E+ +G+
Sbjct: 96 EILEVLEKTXQDVLKAKEVPASNEKQCGWAANHTLEGAQNLARAFLDKRAEWSEVGVGS 154
>pdb|4F5X|W Chain W, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
Length = 1089
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 34/54 (62%), Gaps = 7/54 (12%)
Query: 99 SIDQVKIQ--NNIRDELHRETLQIARDNLDKELRMIE--LRNQSKIIRTTELAA 148
++DQ+K + N+ DE++RE + RD + ++M+E +++ ++R +ELA
Sbjct: 343 ALDQLKTEYTENVDDEMYREYTMLIRDEV---VKMLEEPVKHDDHLLRDSELAG 393
>pdb|2R7Q|A Chain A, Crystal Structure Of Vp1 Apoenzyme Of Rotavirus Sa11 (C-
Terminal Hexahistidine-Tagged)
pdb|2R7R|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (UGUGACC)
Complex
pdb|2R7S|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1 RNA (UGUGCC)
Complex
pdb|2R7T|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (UGUGAACC)
Complex
pdb|2R7U|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (AAAAGCC)
Complex
pdb|2R7V|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (GGCUUU)
COMPLEX
pdb|2R7W|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (UGUGACC)MRNA
5'-Cap (M7gpppg) Complex
pdb|2R7X|A Chain A, Crystal Structure Of Rotavirus Sa11 Vp1RNA (UGUGACC)GTP
Complex
pdb|2R7X|B Chain B, Crystal Structure Of Rotavirus Sa11 Vp1RNA (UGUGACC)GTP
Complex
Length = 1095
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 34/54 (62%), Gaps = 7/54 (12%)
Query: 99 SIDQVKIQ--NNIRDELHRETLQIARDNLDKELRMIE--LRNQSKIIRTTELAA 148
++DQ+K + N+ DE++RE + RD + ++M+E +++ ++R +ELA
Sbjct: 343 ALDQLKTEYTENVDDEMYREYTMLIRDEV---VKMLEEPVKHDDHLLRDSELAG 393
>pdb|2R7O|A Chain A, Crystal Structure Of Vp1 Apoenzyme Of Rotavirus Sa11 (N-
Terminal Hexahistidine-Tagged)
pdb|4AU6|A Chain A, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
pdb|4AU6|B Chain B, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
pdb|4AU6|C Chain C, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
pdb|4AU6|D Chain D, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
pdb|4AU6|E Chain E, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
Length = 1095
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 34/54 (62%), Gaps = 7/54 (12%)
Query: 99 SIDQVKIQ--NNIRDELHRETLQIARDNLDKELRMIE--LRNQSKIIRTTELAA 148
++DQ+K + N+ DE++RE + RD + ++M+E +++ ++R +ELA
Sbjct: 349 ALDQLKTEYTENVDDEMYREYTMLIRDEV---VKMLEEPVKHDDHLLRDSELAG 399
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
0.314 0.128 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,760,056
Number of Sequences: 62578
Number of extensions: 198655
Number of successful extensions: 857
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 846
Number of HSP's gapped (non-prelim): 44
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
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: 50 (23.9 bits)