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= 048445
(138 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 = 33.1 bits (74), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 28 EPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSR-YHDNSSSSNRLLQF 85
+P+ G PG R R++ LP I +A +E+ L +R Y + S SN+LL +
Sbjct: 445 KPIPLGRRDVPGRRTRIIFILPYEYFIAQHAVVEKMLIYAKHTREYAEFYSQSNQLLSY 503
>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 = 33.1 bits (74), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 28 EPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSR-YHDNSSSSNRLLQF 85
+P+ G PG R R++ LP I +A +E+ L +R Y + S SN+LL +
Sbjct: 445 KPIPLGRRDVPGRRTRIIFILPYEYFIAQHAVVEKMLIYAKHTREYAEFYSQSNQLLSY 503
>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 = 33.1 bits (74), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 28 EPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSR-YHDNSSSSNRLLQF 85
+P+ G PG R R++ LP I +A +E+ L +R Y + S SN+LL +
Sbjct: 451 KPIPLGRRDVPGRRTRIIFILPYEYFIAQHAVVEKMLIYAKHTREYAEFYSQSNQLLSY 509
>pdb|3OU2|A Chain A, Dhpi-Sah Complex Structure
pdb|3OU6|A Chain A, Dhpi-Sam Complex
pdb|3OU6|B Chain B, Dhpi-Sam Complex
pdb|3OU6|C Chain C, Dhpi-Sam Complex
pdb|3OU6|D Chain D, Dhpi-Sam Complex
pdb|3OU7|A Chain A, Dhpi-Sam-Hep Complex
pdb|3OU7|B Chain B, Dhpi-Sam-Hep Complex
pdb|3OU7|C Chain C, Dhpi-Sam-Hep Complex
pdb|3OU7|D Chain D, Dhpi-Sam-Hep Complex
Length = 218
Score = 28.9 bits (63), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 52 QVIRSYAELEQRLTELGWS 70
+V RS AEL +RLT LGWS
Sbjct: 180 KVFRSPAELTERLTALGWS 198
>pdb|1HDH|A Chain A, Arylsulfatase From Pseudomonas Aeruginosa
pdb|1HDH|B Chain B, Arylsulfatase From Pseudomonas Aeruginosa
Length = 536
Score = 25.8 bits (55), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 13/83 (15%)
Query: 17 QNPTKESFERKEPVQPGTATAPG-------ARPRVLVFLPTNQVIRSYAELEQRLTELGW 69
Q P FER + PG A G + PR+L P Y E E+ L L
Sbjct: 122 QTPHARGFERSFSLLPGAANHYGFEPPYDESTPRILKGTPA-----LYVEDERYLDTLP- 175
Query: 70 SRYHDNSSSSNRLLQFHKSEDSA 92
++ + + ++LLQ+ K D +
Sbjct: 176 EGFYSSDAFGDKLLQYLKERDQS 198
>pdb|1EVK|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVK|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVL|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|C Chain C, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|D Chain D, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1FYF|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1FYF|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1KOG|A Chain A, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|B Chain B, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|C Chain C, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|D Chain D, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|E Chain E, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|F Chain F, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|G Chain G, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|H Chain H, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
Length = 401
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 51 NQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHK-SEDSAHLIS 96
NQ ++SY +L R+ E G ++ S S + L++ ++D AH+
Sbjct: 101 NQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFC 147
>pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synthetase Complexed
With Its Cognate Trna
Length = 642
Score = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 9/78 (11%)
Query: 20 TKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSS 79
T S R+ ++P PG V +F NQ ++SY +L R+ E G ++ S S
Sbjct: 319 TTSSENREYCIKP--MNCPG---HVQIF---NQGLKSYRDLPLRMAEFGSCHRNEPSGSL 370
Query: 80 NRLLQFHK-SEDSAHLIS 96
+ L++ ++D AH+
Sbjct: 371 HGLMRVRGFTQDDAHIFC 388
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 0.132 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,153,831
Number of Sequences: 62578
Number of extensions: 146660
Number of successful extensions: 283
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 274
Number of HSP's gapped (non-prelim): 12
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
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: 46 (22.3 bits)