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= 022336
(299 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F5X|W Chain W, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
Length = 1089
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 2/85 (2%)
Query: 197 PYSLTLWGPLSSSIEQCKSVFGHDIAVFSNSAGLYEYDNDASKARKLEGKIGIKVIRHRV 256
PY L W +SSIE SVF HD + + + Y N ++ A+ + + I V +
Sbjct: 200 PYYLVTWA--NSSIEMLMSVFSHDDYLIAKELIVLSYSNRSTLAKLVSSPMSILVALVDI 257
Query: 257 KKPAGTAEEIEKHFGCQSSQLIMVD 281
T EE+E F + + I+ D
Sbjct: 258 NGTFITNEELELEFSNKYVRAIVPD 282
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 2/85 (2%)
Query: 197 PYSLTLWGPLSSSIEQCKSVFGHDIAVFSNSAGLYEYDNDASKARKLEGKIGIKVIRHRV 256
PY L W +SSIE SVF HD + + + Y N ++ A+ + + I V +
Sbjct: 200 PYYLVTWA--NSSIEMLMSVFSHDDYLIAKELIVLSYSNRSTLAKLVSSPMSILVALVDI 257
Query: 257 KKPAGTAEEIEKHFGCQSSQLIMVD 281
T EE+E F + + I+ D
Sbjct: 258 NGTFITNEELELEFSNKYVRAIVPD 282
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 2/85 (2%)
Query: 197 PYSLTLWGPLSSSIEQCKSVFGHDIAVFSNSAGLYEYDNDASKARKLEGKIGIKVIRHRV 256
PY L W +SSIE SVF HD + + + Y N ++ A+ + + I V +
Sbjct: 206 PYYLVTWA--NSSIEMLMSVFSHDDYLIAKELIVLSYSNRSTLAKLVSSPMSILVALVDI 263
Query: 257 KKPAGTAEEIEKHFGCQSSQLIMVD 281
T EE+E F + + I+ D
Sbjct: 264 NGTFITNEELELEFSNKYVRAIVPD 288
>pdb|1E44|B Chain B, Ribonuclease Domain Of Colicin E3 In Complex With Its
Immunity Protein
Length = 96
Score = 30.8 bits (68), Expect = 0.86, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 58 PTANSFSKEQEENLRKDNKLHP-DQNHTFLDQFYSSADTNKLGNQDPESQNQEQDEEPRY 116
P N K + K K++ D H L+ Y ++D LG+ DP++ NQ + +P+
Sbjct: 32 PKQNGGGKRKRWTGDKGRKIYEWDSQHGELEG-YRASDGQHLGSFDPKTGNQLKGPDPKR 90
Query: 117 NKDKY 121
N KY
Sbjct: 91 NIKKY 95
>pdb|2PEE|A Chain A, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Native State
pdb|2PEE|B Chain B, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Native State
Length = 387
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 176 AELQRRGFKGVVFDKDNTLTAPYS------LTLWGPLSSSIEQCKSVFGHDIAVFSNSAG 229
A+ FK + DK+N+L +P S +T G + ++ Q + G DI++ +
Sbjct: 29 ADFSIELFKNSIDDKENSLISPLSAMLALAMTANGADNETLAQMEKALGKDISIEDLNKY 88
Query: 230 LYEY 233
LY Y
Sbjct: 89 LYTY 92
>pdb|2VH4|A Chain A, Structure Of A Loop C-sheet Serpin Polymer
pdb|2VH4|B Chain B, Structure Of A Loop C-sheet Serpin Polymer
Length = 381
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 176 AELQRRGFKGVVFDKDNTLTAPYS------LTLWGPLSSSIEQCKSVFGHDIAVFSNSAG 229
A+ FK + DK+N+L +P S +T G + ++ Q + G DI++ +
Sbjct: 22 ADFSIELFKNSIDDKENSLISPLSAMLALAMTANGADNETLAQMEKALGKDISIEDLNKY 81
Query: 230 LYEY 233
LY Y
Sbjct: 82 LYTY 85
>pdb|2PEF|A Chain A, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Latent State
Length = 373
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 176 AELQRRGFKGVVFDKDNTLTAPYS------LTLWGPLSSSIEQCKSVFGHDIAVFSNSAG 229
A+ FK + DK+N+L +P S +T G + ++ Q + G DI++ +
Sbjct: 14 ADFSIELFKNSIDDKENSLISPLSAMLALAMTANGADNETLAQMEKALGKDISIEDLNKY 73
Query: 230 LYEY 233
LY Y
Sbjct: 74 LYTY 77
>pdb|2XFZ|Y Chain Y, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 1 Of 4)
pdb|2XG1|Y Chain Y, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 3 Of 4)
Length = 97
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 30/64 (46%)
Query: 58 PTANSFSKEQEENLRKDNKLHPDQNHTFLDQFYSSADTNKLGNQDPESQNQEQDEEPRYN 117
P N K + K K++ + + Y ++D LG+ DP++ NQ + +P+ N
Sbjct: 33 PKQNGGGKRKRWTGDKGRKIYEWDSQAGELEGYRASDGQHLGSFDPKTGNQLKGPDPKRN 92
Query: 118 KDKY 121
KY
Sbjct: 93 IKKY 96
>pdb|3KE2|A Chain A, Crystal Structure Of A Duf2131 Family Protein (Sama_2911)
From Shewanella Amazonensis Sb2b At 2.50 A Resolution
pdb|3KE2|B Chain B, Crystal Structure Of A Duf2131 Family Protein (Sama_2911)
From Shewanella Amazonensis Sb2b At 2.50 A Resolution
pdb|3KE2|C Chain C, Crystal Structure Of A Duf2131 Family Protein (Sama_2911)
From Shewanella Amazonensis Sb2b At 2.50 A Resolution
Length = 117
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 5/37 (13%)
Query: 198 YSLTLWGPLSSS-----IEQCKSVFGHDIAVFSNSAG 229
Y + WGP+SS+ +++ KS+ G D AV +AG
Sbjct: 78 YRIRTWGPISSAWXDTHVDEVKSLLGVDDAVGQATAG 114
>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
Length = 551
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 58 PTANSFSKEQEENLRKDNKLHP-DQNHTFLDQFYSSADTNKLGNQDPESQNQEQDEEPRY 116
P N K + K K++ D H L + Y ++D LG+ DP++ NQ + +P+
Sbjct: 487 PKQNGGGKRKRWTGDKGRKIYEWDSQHGEL-EGYRASDGQHLGSFDPKTGNQLKGPDPKR 545
Query: 117 NKDKY 121
N KY
Sbjct: 546 NIKKY 550
>pdb|2B5U|A Chain A, Crystal Structure Of Colicin E3 V206c Mutant In Complex
With Its Immunity Protein
pdb|2B5U|C Chain C, Crystal Structure Of Colicin E3 V206c Mutant In Complex
With Its Immunity Protein
Length = 551
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 58 PTANSFSKEQEENLRKDNKLHP-DQNHTFLDQFYSSADTNKLGNQDPESQNQEQDEEPRY 116
P N K + K K++ D H L + Y ++D LG+ DP++ NQ + +P+
Sbjct: 487 PKQNGGGKRKRWTGDKGRKIYEWDSQHGEL-EGYRASDGQHLGSFDPKTGNQLKGPDPKR 545
Query: 117 NKDKY 121
N KY
Sbjct: 546 NIKKY 550
>pdb|3HJR|A Chain A, Crystal Structure Of Serine Protease Of Aeromonas Sobria
Length = 600
Score = 27.3 bits (59), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 17/60 (28%)
Query: 128 NMWWSQLKAALGQRINVEGIVSSTVVFAKDRHLALPHVTVPDIRYIDWAELQRRGFKGVV 187
N+WW+ LGQ +NV + D LA+ H PD+ A+ R G K VV
Sbjct: 58 NLWWAHRTGVLGQGVNVAVV---------DDGLAIAH---PDL-----ADNVRPGSKNVV 100
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
0.320 0.135 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,262,084
Number of Sequences: 62578
Number of extensions: 335845
Number of successful extensions: 670
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 663
Number of HSP's gapped (non-prelim): 14
length of query: 299
length of database: 14,973,337
effective HSP length: 98
effective length of query: 201
effective length of database: 8,840,693
effective search space: 1776979293
effective search space used: 1776979293
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)