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= 042001
(670 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GA1|A Chain A, Crystal Structure Of The Human Nac1 Poz Domain
pdb|3GA1|B Chain B, Crystal Structure Of The Human Nac1 Poz Domain
Length = 129
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 37 GLPVSIRVRVGNRTFNLHKFPLFSKSGYFKKRLNESNE--YELPQHFPGGPETFEMIVLF 94
GL + V V F H+ L + S YF+ N S ELP P++F+ I+ F
Sbjct: 31 GLYCDVSVVVKGHAFKAHRAVLAASSSYFRDLFNNSRSAVVELPAAVQ--PQSFQQILSF 88
Query: 95 IYGSSTLIDPFNVTALRCAAEFLEMTE 121
Y ++ + L A FL++ E
Sbjct: 89 CYTGRLSMNVGDQDLLMYTAGFLQIQE 115
>pdb|2VPK|A Chain A, Crystal Structure Of The Btb Domain Of Human Myoneurin
Length = 116
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 34 QETGLPVSIRVRVGNRTFNLHKFPLFSKSGYFKK--RLNESNEYELPQHFPGGPETFEMI 91
+E G + +G F H+ L S S YF R N L Q + F+ +
Sbjct: 17 REAGFLCDCTIVIGEFQFKAHRNVLASFSEYFGAIYRSTSENNVFLDQS-QVKADGFQKL 75
Query: 92 VLFIYGSSTLIDPFNVTALRCAAEFLEMTE 121
+ FIY + +D +NV + AA++L++ E
Sbjct: 76 LEFIYTGTLNLDSWNVKEIHQAADYLKVEE 105
>pdb|2IEM|A Chain A, Solution Structure Of An Oxidized Form (Cys51-Cys198) Of
E. Coli Methionine Sulfoxide Reductase A (Msra)
Length = 211
Score = 33.5 bits (75), Expect = 0.37, Method: Composition-based stats.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 252 VFYANKWLLYKKTRQ-FWENSDDKSGDKDTNSKCSEILQGILDLLPLQEKASRVIPVGFY 310
+ Y + Y++ Q FWEN D G + N ++ I L P Q+ A+R
Sbjct: 98 IVYDPSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYRSAIYPLTPEQDAAAR------- 150
Query: 311 FALLSRSLEVGLRSDSRAKLQEQIASLLHFAQVED 345
A L R L +D + +IA+ F ED
Sbjct: 151 -ASLERFQAAMLAADDDRHITTEIANATPFYYAED 184
>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 = 33.5 bits (75), Expect = 0.37, Method: Composition-based stats.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 252 VFYANKWLLYKKTRQ-FWENSDDKSGDKDTNSKCSEILQGILDLLPLQEKASRVIPVGFY 310
+ Y + Y++ Q FWEN D G + N ++ I L P Q+ A+R
Sbjct: 99 IVYDPSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYRSAIYPLTPEQDAAAR------- 151
Query: 311 FALLSRSLEVGLRSDSRAKLQEQIASLLHFAQVED 345
A L R L +D + +IA+ F ED
Sbjct: 152 -ASLERFQAAMLAADDDRHITTEIANATPFYYAED 185
>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 = 33.5 bits (75), Expect = 0.37, Method: Composition-based stats.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 252 VFYANKWLLYKKTRQ-FWENSDDKSGDKDTNSKCSEILQGILDLLPLQEKASRVIPVGFY 310
+ Y + Y++ Q FWEN D G + N ++ I L P Q+ A+R
Sbjct: 98 IVYDPSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYRSAIYPLTPEQDAAAR------- 150
Query: 311 FALLSRSLEVGLRSDSRAKLQEQIASLLHFAQVED 345
A L R L +D + +IA+ F ED
Sbjct: 151 -ASLERFQAAMLAADDDRHITTEIANATPFYYAED 184
>pdb|2Z8H|A Chain A, Structure Of Mouse Bach1 Btb Domain
Length = 138
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 42 IRVRVGNRTFNLHKFPLFSKSGYFKKRLNESNEYELPQHFPG--GPETFEMIVLFIYGSS 99
+ V V + F H+ L + S YF R+ + EL P + FE ++ F Y +
Sbjct: 39 VTVLVEGQRFRAHRSVLAACSSYFHSRIVGQTDAELTVTLPEEVTVKGFEPLIQFAYTAK 98
Query: 100 TLIDPFNVTALRCAAEFLEM--TEEYC 124
++ NV + EFL + EE C
Sbjct: 99 LILSKDNVDEVCRCVEFLSVHNIEESC 125
>pdb|3M5B|A Chain A, Crystal Structure Of The Btb Domain From FazfZBTB32
pdb|3M5B|B Chain B, Crystal Structure Of The Btb Domain From FazfZBTB32
Length = 119
Score = 28.9 bits (63), Expect = 9.2, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 8/83 (9%)
Query: 44 VRVGNRTFNLHKFPLFSKSGYFKKRLNESNEYELPQHFPGGPETFEMIVLFIYGSSTLID 103
+ VG++ F H L S ++L ++ L + P TF ++ F+YG S +
Sbjct: 35 ITVGSQEFPAHSLVLAGVS----QQLGRRGQWALGEGI--SPSTFAQLLNFVYGESVELQ 88
Query: 104 PFNVTALRCAAEFL--EMTEEYC 124
P + L+ AA L + EE C
Sbjct: 89 PGELRPLQEAARALGVQSLEEAC 111
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 0.133 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,034,990
Number of Sequences: 62578
Number of extensions: 643762
Number of successful extensions: 1235
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1230
Number of HSP's gapped (non-prelim): 12
length of query: 670
length of database: 14,973,337
effective HSP length: 105
effective length of query: 565
effective length of database: 8,402,647
effective search space: 4747495555
effective search space used: 4747495555
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)