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= psy9124
(213 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GT3|A Chain A, Solution Structure And Dynamics Of The Reduced Form Of
Methionine Sulfoxide Reductase A From Escherichia Coli,
A 23 Kda Protein
Length = 212
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 31/52 (59%)
Query: 6 SQTNGQNNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
S TN + + A+ AMGCFW + LF GV T GY+GG T NPTYR +
Sbjct: 35 SMTNVPDGMEIAIFAMGCFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREV 86
>pdb|2IEM|A Chain A, Solution Structure Of An Oxidized Form (Cys51-Cys198) Of
E. Coli Methionine Sulfoxide Reductase A (Msra)
Length = 211
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 31/52 (59%)
Query: 6 SQTNGQNNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
S TN + + A+ AMGCFW + LF GV T GY+GG T NPTYR +
Sbjct: 34 SMTNVPDGMEIAIFAMGCFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREV 85
>pdb|1FVA|A Chain A, Crystal Structure Of Bovine Methionine Sulfoxide
Reductase
pdb|1FVA|B Chain B, Crystal Structure Of Bovine Methionine Sulfoxide
Reductase
Length = 217
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 12 NNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
T+ AV MGCFW + F T KGV T+VG++GG T NPTY+ +
Sbjct: 49 EGTQMAVFGMGCFWGAERKFWTLKGVYSTQVGFAGGYTPNPTYKEV 94
>pdb|2L90|A Chain A, Solution Structure Of Murine Myristoylated Msra
Length = 212
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 29/46 (63%)
Query: 12 NNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
T+ AV MGCFW + F KGV T+VG++GG T NPTY+ +
Sbjct: 40 EGTQMAVFGMGCFWGAERKFWVLKGVYSTQVGFAGGHTRNPTYKEV 85
>pdb|4GWB|A Chain A, Crystal Structure Of Putative Peptide Methionine
Sulfoxide Reductase From Sinorhizobium Meliloti 1021
Length = 168
Score = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 27/43 (62%)
Query: 14 TKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRN 56
TK AVLA GCFW L GV+ T+VGY+GG N TYRN
Sbjct: 2 TKRAVLAGGCFWGXQDLIRKLPGVIETRVGYTGGDVPNATYRN 44
>pdb|1FF3|A Chain A, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
pdb|1FF3|B Chain B, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
pdb|1FF3|C Chain C, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
Length = 211
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 30/52 (57%)
Query: 6 SQTNGQNNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
S TN + + A+ AMG FW + LF GV T GY+GG T NPTYR +
Sbjct: 34 SMTNVPDGMEIAIFAMGXFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREV 85
>pdb|1FVG|A Chain A, Crystal Structure Of Bovine Peptide Methionine Sulfoxide
Reductase
Length = 199
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 29/46 (63%)
Query: 12 NNTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
T+ AV GCFW + F T KGV T+VG++GG T NPTY+ +
Sbjct: 41 EGTQXAVFGXGCFWGAERKFWTLKGVYSTQVGFAGGYTPNPTYKEV 86
>pdb|1NWA|A Chain A, Structure Of Mycobacterium Tuberculosis Methionine
Sulfoxide Reductase A In Complex With Protein-Bound
Methionine
Length = 203
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/42 (52%), Positives = 26/42 (61%)
Query: 15 KTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRN 56
+ A+LA GCFW L GV+ T+VGYSGG N TYRN
Sbjct: 26 QKAILAGGCFWGLQDLIRNQPGVVSTRVGYSGGNIPNATYRN 67
>pdb|3BQE|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Reduced Form)
Length = 194
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 13 NTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
NT+T LA GCFW + F GV+ GY+ G T+NP+Y ++
Sbjct: 2 NTRTIYLAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDV 46
>pdb|3BQH|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Oxidized Form)
Length = 193
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 13 NTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
NT+T LA GCFW + F GV+ GY+ G T+NP+Y ++
Sbjct: 1 NTRTIYLAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDV 45
>pdb|2J89|A Chain A, Functional And Structural Aspects Of Poplar Cytosolic And
Plastidial Type A Methionine Sulfoxide Reductases
Length = 261
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 17 AVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNIPAFT--EQEVVVVEY 70
A GCFW + F GV +T+VGY+ G NPTY ++ T EVV V+Y
Sbjct: 97 AQFGAGCFWGVELAFQRVPGVTKTEVGYTQGLLHNPTYEDVXTGTTNHNEVVRVQY 152
>pdb|3BQF|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Complex With A Substrate)
Length = 194
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 13 NTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
NT+T LA G FW + F GV+ GY+ G T+NP+Y ++
Sbjct: 2 NTRTIYLAGGSFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDV 46
>pdb|3BQG|A Chain A, Structure Of The Central Domain (msra) Of Neisseria
Meningitidis Pilb (sulfenic Acid Form)
Length = 194
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 13 NTKTAVLAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNI 57
NT+T LA G FW + F GV+ GY+ G T+NP+Y ++
Sbjct: 2 NTRTIYLAGGXFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDV 46
>pdb|3E0M|A Chain A, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|B Chain B, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|C Chain C, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|D Chain D, Crystal Structure Of Fusion Protein Of Msra And Msrb
Length = 313
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 25/52 (48%)
Query: 19 LAMGCFWAPDGLFGTTKGVLRTKVGYSGGTTENPTYRNIPAFTEQEVVVVEY 70
LA GCFW + F GVL T VGY+ G E Y+ + E V V Y
Sbjct: 7 LAGGCFWGLEEYFSRISGVLETSVGYANGQVETTNYQLLKETDHAETVQVIY 58
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
0.317 0.129 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,156,018
Number of Sequences: 62578
Number of extensions: 163975
Number of successful extensions: 216
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 202
Number of HSP's gapped (non-prelim): 14
length of query: 213
length of database: 14,973,337
effective HSP length: 95
effective length of query: 118
effective length of database: 9,028,427
effective search space: 1065354386
effective search space used: 1065354386
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: 49 (23.5 bits)