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= 038373
(475 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IJD|1 Chain 1, Crystal Structure Of The Poliovirus Precursor Protein 3cd
pdb|2IJD|2 Chain 2, Crystal Structure Of The Poliovirus Precursor Protein 3cd
Length = 644
Score = 35.0 bits (79), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N +C E + D S SAGY + MGK+ +
Sbjct: 266 GQLMSLDINTEQMCLEDAMYGTDGLEALDLSTSAGYPY-------------VAMGKKKRD 312
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 313 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 349
>pdb|1RDR|A Chain A, Poliovirus 3d Polymerase
Length = 461
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N +C E + D S SAGY + MGK+ +
Sbjct: 83 GQLMSLDINTEQMCLEDAMYGTDGLEALDLSTSAGYPY-------------VAMGKKKRD 129
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 130 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 166
>pdb|3OL6|A Chain A, Poliovirus Polymerase Elongation Complex
pdb|3OL6|E Chain E, Poliovirus Polymerase Elongation Complex
pdb|3OL6|I Chain I, Poliovirus Polymerase Elongation Complex
pdb|3OL6|M Chain M, Poliovirus Polymerase Elongation Complex
pdb|3OL7|A Chain A, Poliovirus Polymerase Elongation Complex With Ctp
pdb|3OL7|E Chain E, Poliovirus Polymerase Elongation Complex With Ctp
pdb|3OL7|I Chain I, Poliovirus Polymerase Elongation Complex With Ctp
pdb|3OL7|M Chain M, Poliovirus Polymerase Elongation Complex With Ctp
pdb|3OL8|A Chain A, Poliovirus Polymerase Elongation Complex With Ctp-Mn
pdb|3OL8|E Chain E, Poliovirus Polymerase Elongation Complex With Ctp-Mn
pdb|3OL8|I Chain I, Poliovirus Polymerase Elongation Complex With Ctp-Mn
pdb|3OL8|M Chain M, Poliovirus Polymerase Elongation Complex With Ctp-Mn
pdb|3OL9|A Chain A, Poliovirus Polymerase Elongation Complex With 3'-Deoxy-Ctp
pdb|3OL9|E Chain E, Poliovirus Polymerase Elongation Complex With 3'-Deoxy-Ctp
pdb|3OL9|I Chain I, Poliovirus Polymerase Elongation Complex With 3'-Deoxy-Ctp
pdb|3OL9|M Chain M, Poliovirus Polymerase Elongation Complex With 3'-Deoxy-Ctp
pdb|3OLA|A Chain A, Poliovirus Polymerase Elongation Complex With 2'-Deoxy-Ctp
pdb|3OLA|E Chain E, Poliovirus Polymerase Elongation Complex With 2'-Deoxy-Ctp
pdb|3OLA|I Chain I, Poliovirus Polymerase Elongation Complex With 2'-Deoxy-Ctp
pdb|3OLA|M Chain M, Poliovirus Polymerase Elongation Complex With 2'-Deoxy-Ctp
pdb|3OLB|A Chain A, Poliovirus Polymerase Elongation Complex With
2',3'-Dideoxy-Ctp
pdb|3OLB|E Chain E, Poliovirus Polymerase Elongation Complex With
2',3'-Dideoxy-Ctp
pdb|3OLB|I Chain I, Poliovirus Polymerase Elongation Complex With
2',3'-Dideoxy-Ctp
pdb|3OLB|M Chain M, Poliovirus Polymerase Elongation Complex With
2',3'-Dideoxy-Ctp
Length = 471
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N +C E + D S SAGY + MGK+ +
Sbjct: 83 GQLMSLDINTEQMCLEDAMYGTDGLEALDLSTSAGY-------------PYVAMGKKKRD 129
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 130 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 166
>pdb|2IJF|A Chain A, Crystal Structure Of The Poliovirus Rna-Dependent Rna
Polymerase Fidelity Mutant 3dpol G64s
Length = 461
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N +C E + D S SAGY + MGK+ +
Sbjct: 83 GQLMSLDINTEQMCLEDAMYGTDGLEALDLSTSAGY-------------PYVAMGKKKRD 129
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 130 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 166
>pdb|1RAJ|A Chain A, Poliovirus Polymerase With A 68 Residue N-terminal
Truncation
Length = 393
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N +C E + D S SAGY + MGK+ +
Sbjct: 15 GQLMSLDINTEQMCLEDAMYGTDGLEALDLSTSAGY-------------PYVAMGKKKRD 61
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 62 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 98
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group P21212
pdb|1ZU5|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
pdb|1ZU5|B Chain B, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
Length = 320
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 11/84 (13%)
Query: 165 LNNKLIEMYGKCCNTRLARKVFDQLRKRNLSSWHLMISGYAANGQGADGLM--------L 216
LNNK+ + N A VFD ++K ++ L++ A Q LM +
Sbjct: 160 LNNKVDLVKANKLNADPASVVFDAIKKAKEQNYDLLLIDTAGRLQNKTNLMAELEKMNKI 219
Query: 217 FEQMRKTGPHPDKETFLVVFAACA 240
+Q+ K+ PH E LV+ A
Sbjct: 220 IQQVEKSAPH---EVLLVIDATTG 240
>pdb|1RA6|A Chain A, Poliovirus Polymerase Full Length Apo Structure
pdb|1RA7|A Chain A, Poliovirus Polymerase With Gtp
pdb|2ILY|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Atp And Mg2+
pdb|2ILZ|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Gtp And Mn2+
pdb|2IM0|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Ctp And Mg2+
pdb|2IM1|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Ctp And Mn2+
pdb|2IM2|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Utp And Mg2+
pdb|2IM3|A Chain A, Crystal Structure Of Poliovirus Polymerase Complexed With
Utp And Mn2+
Length = 461
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 41/101 (40%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N + E + D S SAGY + MGK+ +
Sbjct: 83 GQLMSLDINTEQMXLEDAMYGTDGLEALDLSTSAGY-------------PYVAMGKKKRD 129
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 130 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 166
>pdb|1TQL|A Chain A, Poliovirus Polymerase G1a Mutant
Length = 461
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 41/101 (40%), Gaps = 17/101 (16%)
Query: 93 AQLESLDVNLLSLCKEGKVREAIEYMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHE 152
QL SLD+N + E + D S SAGY + MGK+ +
Sbjct: 83 GQLMSLDINTEQMXLEDAMYGTDGLEALDLSTSAGY-------------PYVAMGKKKRD 129
Query: 153 LLRTSAFVKDVELNNKLIEMYGKCCNTRLARKVFDQLRKRN 193
+L +D + KL++ YG N L V D+LR +
Sbjct: 130 ILNKQ--TRDTKEMQKLLDTYG--INLPLVTYVKDELRSKT 166
>pdb|1R4V|A Chain A, 1.9a Crystal Structure Of Protein Aq328 From Aquifex
Aeolicus
Length = 171
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%)
Query: 117 YMGQDASASAGYDVFSSLLDSCGNLKSIEMGKRVHELLRTSAFVKDVELN 166
+ G+D A A ++ +L + N + IE V ELL AF+ VE N
Sbjct: 73 WNGRDFIALADLNITKALEEHIKNFQKIEQDXGVDELLEYIAFIPPVEXN 122
>pdb|3QDR|A Chain A, Structural Characterization Of The Interaction Of Colicin
A, Colicin N, And Tolb With The Tolaiii Translocon
Length = 127
Score = 28.5 bits (62), Expect = 7.5, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 69 SSNEQEPKTGTGHSQNTNDPL-RGNAQ---LESLDVNLLSLCKEGKVREAIEYMGQDASA 124
SS + PKTG G N P GN + D+N + G+++ AIE DAS+
Sbjct: 8 SSGKNAPKTGGGAKGNNASPAGSGNTKNNGASGADINNYA----GQIKSAIESXFYDASS 63
Query: 125 SAG 127
AG
Sbjct: 64 YAG 66
>pdb|2X9A|B Chain B, Crystal Structure Of G3p From Phage If1 In Complex With
Its Coreceptor, The C-Terminal Domain Of Tola
pdb|2X9A|D Chain D, Crystal Structure Of G3p From Phage If1 In Complex With
Its Coreceptor, The C-Terminal Domain Of Tola
Length = 136
Score = 28.5 bits (62), Expect = 7.6, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 69 SSNEQEPKTGTGHSQNTNDPL-RGNAQ---LESLDVNLLSLCKEGKVREAIEYMGQDASA 124
SS + PKTG G N P GN + D+N + G+++ AIE DAS+
Sbjct: 8 SSGKNAPKTGGGAKGNNASPAGSGNTKNNGASGADINNYA----GQIKSAIESKFYDASS 63
Query: 125 SAG 127
AG
Sbjct: 64 YAG 66
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
0.318 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,130,272
Number of Sequences: 62578
Number of extensions: 580633
Number of successful extensions: 1419
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1418
Number of HSP's gapped (non-prelim): 17
length of query: 475
length of database: 14,973,337
effective HSP length: 102
effective length of query: 373
effective length of database: 8,590,381
effective search space: 3204212113
effective search space used: 3204212113
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: 53 (25.0 bits)