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= 032840
(132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 92.0 bits (227), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 46/94 (48%), Positives = 60/94 (63%), Gaps = 4/94 (4%)
Query: 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL--GD--HAESVQVEYD 98
++ A+FA+G FW E +F L GV T GY GG NP +R + GD HAE+V++ YD
Sbjct: 42 MEIAIFAMGXFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREVCSGDTGHAEAVRIVYD 101
Query: 99 PRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
P VI++ QLL+VFW +HD Q QG D G QYR
Sbjct: 102 PSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYR 135
>pdb|2IEM|A Chain A, Solution Structure Of An Oxidized Form (Cys51-Cys198) Of
E. Coli Methionine Sulfoxide Reductase A (Msra)
Length = 211
Score = 92.0 bits (227), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 46/94 (48%), Positives = 60/94 (63%), Gaps = 4/94 (4%)
Query: 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL--GD--HAESVQVEYD 98
++ A+FA+G FW E +F L GV T GY GG NP +R + GD HAE+V++ YD
Sbjct: 42 MEIAIFAMGCFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREVSSGDTGHAEAVRIVYD 101
Query: 99 PRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
P VI++ QLL+VFW +HD Q QG D G QYR
Sbjct: 102 PSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYR 135
>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 = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 46/94 (48%), Positives = 60/94 (63%), Gaps = 4/94 (4%)
Query: 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL--GD--HAESVQVEYD 98
++ A+FA+G FW E +F L GV T GY GG NP +R + GD HAE+V++ YD
Sbjct: 43 MEIAIFAMGCFWGVERLFWQLPGVYSTAAGYTGGYTPNPTYREVCSGDTGHAEAVRIVYD 102
Query: 99 PRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
P VI++ QLL+VFW +HD Q QG D G QYR
Sbjct: 103 PSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYR 136
>pdb|2L90|A Chain A, Solution Structure Of Murine Myristoylated Msra
Length = 212
Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 43/93 (46%), Positives = 55/93 (59%), Gaps = 4/93 (4%)
Query: 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDP 99
+ AVF +G FW +E F L GV T VG+AGG NP ++ + HAE V+V Y P
Sbjct: 43 QMAVFGMGCFWGAERKFWVLKGVYSTQVGFAGGHTRNPTYKEVCSEKTGHAEVVRVVYRP 102
Query: 100 RVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
I+F +LL+VFW +HD Q QG D G QYR
Sbjct: 103 EHISFEELLKVFWENHDPTQGMRQGNDFGTQYR 135
>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 = 81.6 bits (200), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 42/93 (45%), Positives = 56/93 (60%), Gaps = 4/93 (4%)
Query: 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDP 99
+ AVF +G FW +E F L GV T VG+AGG NP ++ + HAE V+V + P
Sbjct: 52 QMAVFGMGCFWGAERKFWTLKGVYSTQVGFAGGYTPNPTYKEVCSGKTGHAEVVRVVFQP 111
Query: 100 RVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
I+F +LL+VFW +HD Q QG D G+QYR
Sbjct: 112 EHISFEELLKVFWENHDPTQGMRQGNDHGSQYR 144
>pdb|1FVG|A Chain A, Crystal Structure Of Bovine Peptide Methionine Sulfoxide
Reductase
Length = 199
Score = 79.0 bits (193), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 42/93 (45%), Positives = 55/93 (59%), Gaps = 4/93 (4%)
Query: 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDP 99
+ AVF G FW +E F L GV T VG+AGG NP ++ + HAE V+V + P
Sbjct: 44 QXAVFGXGCFWGAERKFWTLKGVYSTQVGFAGGYTPNPTYKEVCSGKTGHAEVVRVVFQP 103
Query: 100 RVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
I+F +LL+VFW +HD Q QG D G+QYR
Sbjct: 104 EHISFEELLKVFWENHDPTQGXRQGNDHGSQYR 136
>pdb|4GWB|A Chain A, Crystal Structure Of Putative Peptide Methionine Sulfoxide
Reductase From Sinorhizobium Meliloti 1021
Length = 168
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 53/89 (59%)
Query: 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN 103
K AV A G FW + + L GV+ T VGY GG N +RN G HAE +++ +DP I+
Sbjct: 3 KRAVLAGGCFWGXQDLIRKLPGVIETRVGYTGGDVPNATYRNHGTHAEGIEIIFDPERIS 62
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+R++LE+F+ HD QG D+G YR
Sbjct: 63 YRRILELFFQIHDPTTKDRQGNDIGTSYR 91
>pdb|1NWA|A Chain A, Structure Of Mycobacterium Tuberculosis Methionine
Sulfoxide Reductase A In Complex With Protein-Bound
Methionine
Length = 203
Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 52/89 (58%)
Query: 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN 103
+ A+ A G FW + + GVV T VGY+GG+ N +RN G HAE+V++ +DP V +
Sbjct: 26 QKAILAGGCFWGLQDLIRNQPGVVSTRVGYSGGNIPNATYRNHGTHAEAVEIIFDPTVTD 85
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+R LLE F+ HD QG D G YR
Sbjct: 86 YRTLLEFFFQIHDPTTKDRQGNDRGTSYR 114
>pdb|2J89|A Chain A, Functional And Structural Aspects Of Poplar Cytosolic And
Plastidial Type A Methionine Sulfoxide Reductases
Length = 261
Score = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 57/107 (53%), Gaps = 5/107 (4%)
Query: 31 VSTSINDELGRPLKA-AVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG-- 87
+ +D+L P + A F G FW E F + GV +T VGY G NP + ++
Sbjct: 81 IPQGPDDDLPAPGQQFAQFGAGCFWGVELAFQRVPGVTKTEVGYTQGLLHNPTYEDVXTG 140
Query: 88 --DHAESVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+H E V+V+YDP+ +F L++V W HD + QG DVG QYR
Sbjct: 141 TTNHNEVVRVQYDPKECSFDTLIDVLWARHDPTTLNRQGNDVGTQYR 187
>pdb|3BQF|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Complex With A Substrate)
Length = 194
Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/89 (38%), Positives = 48/89 (53%), Gaps = 4/89 (4%)
Query: 48 FALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVIN 103
A GSFW EA F ++GVV GYA G+ NP + ++ HAE+V+V YD ++
Sbjct: 8 LAGGSFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLS 67
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+L+ F+ D + QG D G QYR
Sbjct: 68 LDDILQYFFRVVDPTSLNKQGNDTGTQYR 96
>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 = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 49/87 (56%), Gaps = 2/87 (2%)
Query: 48 FALGSFWRSEAVFGCLNGVVRTTVGYAGG--SKTNPEFRNLGDHAESVQVEYDPRVINFR 105
A G FW E F ++GV+ T+VGYA G TN + DHAE+VQV YD + ++ R
Sbjct: 7 LAGGCFWGLEEYFSRISGVLETSVGYANGQVETTNYQLLKETDHAETVQVIYDEKEVSLR 66
Query: 106 QLLEVFWTSHDCRQVFGQGPDVGNQYR 132
++L ++ D + QG D G QYR
Sbjct: 67 EILLYYFRVIDPLSINQQGNDRGRQYR 93
>pdb|3BQG|A Chain A, Structure Of The Central Domain (msra) Of Neisseria
Meningitidis Pilb (sulfenic Acid Form)
Length = 194
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 47/89 (52%), Gaps = 4/89 (4%)
Query: 48 FALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVIN 103
A G FW EA F ++GVV GYA G+ NP + ++ HAE+V+V YD ++
Sbjct: 8 LAGGXFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLS 67
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+L+ F+ D + QG D G QYR
Sbjct: 68 LDDILQYFFRVVDPTSLNKQGNDTGTQYR 96
>pdb|3PIN|B Chain B, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Complex With Trx2
Length = 183
Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/101 (36%), Positives = 54/101 (53%), Gaps = 12/101 (11%)
Query: 44 KAAVFALGSFWRSEAVF-GCLNG-VVRTTVGYAGGSKTNPE------FRNLG----DHAE 91
K A GSFW +E ++ LN +V + VGYA G ++ + ++ + D AE
Sbjct: 16 KLITLASGSFWGTEHMYRKYLNDRIVDSKVGYANGEESKKDSPSSVSYKRVSGGDTDFAE 75
Query: 92 SVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+QV Y+P+VI R+L + F+ HD QGPD G QYR
Sbjct: 76 VLQVSYNPKVITLRELTDFFFRIHDPTTSNSQGPDKGTQYR 116
>pdb|3BQH|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Oxidized Form)
Length = 193
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 47/89 (52%), Gaps = 4/89 (4%)
Query: 48 FALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVIN 103
A G FW EA F ++GVV GYA G+ NP + ++ HAE+V+V YD ++
Sbjct: 7 LAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLS 66
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+L+ F+ D + QG D G QYR
Sbjct: 67 LDDILQYFFRVVDPTSLNKQGNDTGTQYR 95
>pdb|3BQE|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Reduced Form)
Length = 194
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 47/89 (52%), Gaps = 4/89 (4%)
Query: 48 FALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVIN 103
A G FW EA F ++GVV GYA G+ NP + ++ HAE+V+V YD ++
Sbjct: 8 LAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLS 67
Query: 104 FRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+L+ F+ D + QG D G QYR
Sbjct: 68 LDDILQYFFRVVDPTSLNKQGNDTGTQYR 96
>pdb|3PIL|A Chain A, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Reduced Form
pdb|3PIL|B Chain B, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Reduced Form
Length = 184
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/101 (35%), Positives = 52/101 (51%), Gaps = 12/101 (11%)
Query: 44 KAAVFALGSFWRSEAVF-GCLNG-VVRTTVGYAGGSKTNPE------FRNL----GDHAE 91
K A G FW +E ++ LN +V VGYA G ++ + ++ + D AE
Sbjct: 17 KLITLACGCFWGTEHMYRKYLNDRIVDCKVGYANGEESKKDSPSSVSYKRVCGGDTDFAE 76
Query: 92 SVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+QV Y+P+VI R+L + F+ HD QGPD G QYR
Sbjct: 77 VLQVSYNPKVITLRELTDFFFRIHDPTTSNSQGPDKGTQYR 117
>pdb|3PIM|A Chain A, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Unusual Oxidized Form
pdb|3PIM|B Chain B, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Unusual Oxidized Form
pdb|3PIM|C Chain C, Crystal Structure Of Mxr1 From Saccharomyces Cerevisiae In
Unusual Oxidized Form
Length = 187
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/101 (35%), Positives = 52/101 (51%), Gaps = 12/101 (11%)
Query: 44 KAAVFALGSFWRSEAVF-GCLNG-VVRTTVGYAGGSKTNPE------FRNL----GDHAE 91
K A G FW +E ++ LN +V VGYA G ++ + ++ + D AE
Sbjct: 20 KLITLACGCFWGTEHMYRKYLNDRIVDCKVGYANGEESKKDSPSSVSYKRVCGGDTDFAE 79
Query: 92 SVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQYR 132
+QV Y+P+VI R+L + F+ HD QGPD G QYR
Sbjct: 80 VLQVSYNPKVITLRELTDFFFRIHDPTTSNSQGPDKGTQYR 120
>pdb|1FW1|A Chain A, Glutathione Transferase ZetaMALEYLACETOACETATE ISOMERASE
Length = 216
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 39/95 (41%), Gaps = 25/95 (26%)
Query: 54 WRSEAV---FGCLNGVVRTTVG-YAGGSKTN-------PEFRNLGDHAESVQVEYDP--- 99
W A+ F L ++++T G Y G + P+ N AE +V+ P
Sbjct: 130 WAQNAITCGFNALEQILQSTAGIYCVGDEVTMADLCLVPQVAN----AERFKVDLTPYPT 185
Query: 100 -RVINFRQL-LEVFWTSHDCRQVFGQGPDVGNQYR 132
IN R L LE F SH CRQ PD + R
Sbjct: 186 ISSINKRLLVLEAFQVSHPCRQ-----PDTPTELR 215
>pdb|1ZM8|A Chain A, Apo Crystal Structure Of Nuclease A From Anabaena Sp
Length = 259
Score = 26.2 bits (56), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 36 NDELGRPLKAAVFALGSFWRSEAVFGC----LNGVVRTTVGYAGGSKTNPEFRN 85
N LG+PLK V S W+ V L G+ T A +PE N
Sbjct: 168 NGSLGKPLKGKVTVPKSTWKIVVVLDSPGSGLEGITANTRVIAVNIPNDPELNN 221
>pdb|2O3B|A Chain A, Crystal Structure Complex Of Nuclease A (Nuca) With
Intra-Cellular Inhibitor Nuia
Length = 241
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 36 NDELGRPLKAAVFALGSFWRSEAVFGC----LNGVVRTTVGYAGGSKTNPEFRN 85
N LG+PLK V S W+ V L G+ T A +PE N
Sbjct: 150 NGSLGKPLKGKVTVPKSTWKIVVVLDSPGSGLEGITANTRVIAVNIPNDPELNN 203
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
0.323 0.139 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,548,311
Number of Sequences: 62578
Number of extensions: 123726
Number of successful extensions: 267
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 238
Number of HSP's gapped (non-prelim): 20
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)