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= 032398
(141 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 109 LSRIPAHMDPVKLRQILSQYGEIQRI 134
++ IP +D V+LRQ+ +YG I+ +
Sbjct: 47 VNYIPTTVDEVQLRQLFERYGPIESV 72
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJV|B Chain B, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJY|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2 Orthorhombic Form
Length = 800
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 102 DRCGICYLSRIPAHMDPVKLRQILSQ 127
DRC + +L +IP+ + ++ RQI +Q
Sbjct: 121 DRCFLSWLVKIPSEQEQLRARQITAQ 146
>pdb|2IWF|A Chain A, Resting Form Of Pink Nitrous Oxide Reductase From
Achromobacter Cycloclastes
pdb|2IWF|B Chain B, Resting Form Of Pink Nitrous Oxide Reductase From
Achromobacter Cycloclastes
pdb|2IWK|A Chain A, Inhibitor-Bound Form Of Nitrous Oxide Reductase From
Achromobacter Cycloclastes At 1.7 Angstrom Resolution
pdb|2IWK|B Chain B, Inhibitor-Bound Form Of Nitrous Oxide Reductase From
Achromobacter Cycloclastes At 1.7 Angstrom Resolution
Length = 642
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 5 GNPKSCDRSERKQRKKKENFLVEITGKTDEEDEASRVENNLKSNVAEIGEADVIGKEKEL 64
GN +CD + ++ E+ G T EE S +++ + N+AEI +A G+ +E+
Sbjct: 242 GNLDNCDADYEGKWAFSTSYNSEM-GMTLEEMTKSEMDHVVVFNIAEIEKAIKAGQYEEI 300
Query: 65 NLME--EGKQEELNLKKR 80
N ++ +G++E +L R
Sbjct: 301 NGVKVVDGRKEAKSLFTR 318
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 107 CYLSRIPAHMDPVKLRQILSQYGEI 131
Y+S +P M +L Q+ SQYG I
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRI 115
>pdb|1QGW|C Chain C, Crystal Structure Of Phycoerythrin 545 From The Marine
Cryptophyte Rhodomonas Cs24
pdb|1QGW|D Chain D, Crystal Structure Of Phycoerythrin 545 From The Marine
Cryptophyte Rhodomonas Cs24
pdb|1XF6|C Chain C, High Resolution Crystal Structure Of Phycoerythrin 545
From The Marine Cryptophyte Rhodomonas Cs24
pdb|1XF6|D Chain D, High Resolution Crystal Structure Of Phycoerythrin 545
From The Marine Cryptophyte Rhodomonas Cs24
pdb|1XG0|C Chain C, High Resolution Crystal Structure Of Phycoerythrin 545
From The Marine Cryptophyte Rhodomonas Cs24
pdb|1XG0|D Chain D, High Resolution Crystal Structure Of Phycoerythrin 545
From The Marine Cryptophyte Rhodomonas Cs24
Length = 177
Score = 26.2 bits (56), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 36 DEASRVENNLKSNVAEIGEADVIGKEKELNLMEEGKQ--EELNLKKRRSQSIVKSKKKQR 93
D SRV N S A +G AD+ +K + EG + + +N + IV
Sbjct: 3 DAFSRVVTNADSKAAYVGGADLQALKK---FISEGNKRLDSVNSIVSNASCIVSDAVSGM 59
Query: 94 LLEEAAKADRCGICYLSR 111
+ E + G CY +R
Sbjct: 60 ICENPSLISPSGXCYTNR 77
>pdb|2OLM|A Chain A, Arfgap Domain Of Hiv-1 Rev Binding Protein
Length = 140
Score = 25.8 bits (55), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 110 SRIPAHMDPVKLRQILSQYGEIQRIYLAPE 139
S IP DP K+++ L + E +R Y+ PE
Sbjct: 101 SAIPDFRDPQKVKEFLQEKYEKKRWYVPPE 130
>pdb|1W9R|A Chain A, Solution Structure Of Choline Binding Protein A, Domain
R2, The Major Adhesin Of Streptococcus Pneumoniae
Length = 119
Score = 25.4 bits (54), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 34 EEDEASRVENNLKSNVAEIGEADVIGKEKELNLMEEGKQEELNLKK-RRSQSIVKSKKKQ 92
EED + N K+ EI E+DV K+ EL L++E +E N +K +++++ V+SKK +
Sbjct: 28 EEDRRNYPTNTYKTLELEIAESDVEVKKAELELVKEEAKEPRNEEKVKQAKAEVESKKAE 87
Query: 93 RLLEEAAKADR 103
E K DR
Sbjct: 88 ATRLEKIKTDR 98
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
0.309 0.129 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,809,871
Number of Sequences: 62578
Number of extensions: 133932
Number of successful extensions: 376
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 364
Number of HSP's gapped (non-prelim): 23
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 46 (22.3 bits)