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= 039890
(125 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DAL|A Chain A, Methyltransferase Domain Of Human Pr Domain-Containing
Protein 1
pdb|3DAL|B Chain B, Methyltransferase Domain Of Human Pr Domain-Containing
Protein 1
Length = 196
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 16 DLSKWVNGAEQVPCYFIFGDSLWDNGNNNALSTKAKANYP 55
D++ W + C +I D WD+G + S +A+A+ P
Sbjct: 18 DMTLWTEAEFEEKCTYIVNDHPWDSGADGGTSVQAEASLP 57
>pdb|2F8A|A Chain A, Crystal Structure Of The Selenocysteine To Glycine Mutant
Of Human Glutathione Peroxidase 1
pdb|2F8A|B Chain B, Crystal Structure Of The Selenocysteine To Glycine Mutant
Of Human Glutathione Peroxidase 1
Length = 208
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 91 SFAHASNAKDQEILRGVNYASGGAGI 116
F H NAK++EIL + Y G G
Sbjct: 90 QFGHQENAKNEEILNSLKYVRPGGGF 115
>pdb|1GP1|A Chain A, The Refined Structure Of The Selenoenzyme Glutathione
Peroxidase At 0.2-Nm Resolution
pdb|1GP1|B Chain B, The Refined Structure Of The Selenoenzyme Glutathione
Peroxidase At 0.2-Nm Resolution
Length = 198
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 73 RNMGDILAQLLGFENFIPSFAHASNAKDQEILRGVNYASGGAGI 116
R +G +LGF F H NAK++EIL + Y G G
Sbjct: 60 RRLGPRGLVVLGFP--CNQFGHQENAKNEEILNCLKYVRPGGGF 101
>pdb|1FMD|3 Chain 3, The Structure And Antigenicity Of A Type C
Foot-And-Mouth Disease Virus
pdb|1QGC|3 Chain 3, Structure Of The Complex Of An Fab Fragment Of A
Neutralizing Antibody With Foot And Mouth Disease Virus
Length = 219
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 40 NGNNNALSTKAKANYPPYGIDF--PEGA-TGRFTNGRNMGDILAQLLGFEN 87
+G N ++T K P YG + P A GRFTN ++ + L FEN
Sbjct: 9 DGYGNMVTTDPKTADPAYGKVYNPPRTALPGRFTNYLDVAEACPTFLMFEN 59
>pdb|1CNZ|A Chain A, 3-Isopropylmalate Dehydrogenase (Ipmdh) From Salmonella
Typhimurium
pdb|1CNZ|B Chain B, 3-Isopropylmalate Dehydrogenase (Ipmdh) From Salmonella
Typhimurium
Length = 363
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 3 LKVCHLVLSLILMDLSKWVNGAEQVPCYFIFGDSLWDN----GNNNALSTKAKANYPPYG 58
+++ H+ + M L K + + + C +FGD L D + + A N +G
Sbjct: 219 VELAHMYIDNATMQLIKDPSQFDVLLCSNLFGDILSDECAMITGSMGMLPSASLNEQGFG 278
Query: 59 IDFPEGATGRFTNGRNMGDILAQLLGF 85
+ P G + G+N+ + +AQ+L
Sbjct: 279 LYEPAGGSAPDIAGKNIANPIAQILSL 305
>pdb|1CM7|A Chain A, 3-Isopropylmalate Dehydrogenase From Escherichia Coli
pdb|1CM7|B Chain B, 3-Isopropylmalate Dehydrogenase From Escherichia Coli
Length = 363
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 3 LKVCHLVLSLILMDLSKWVNGAEQVPCYFIFGDSLWDN----GNNNALSTKAKANYPPYG 58
+++ H+ + M L K + + + C +FGD L D + + A N +G
Sbjct: 219 VELAHMYIDNATMQLIKDPSQFDVLLCSNLFGDILSDECAMITGSMGMLPSASLNEQGFG 278
Query: 59 IDFPEGATGRFTNGRNMGDILAQLLGF 85
+ P G + G+N+ + +AQ+L
Sbjct: 279 LYEPAGGSAPDIAGKNIANPIAQILSL 305
>pdb|2YO0|A Chain A, Salmonella Enterica Sada 1049-1304 Fused To Gcn4 Adaptors
(Sadak9-Cfi)
pdb|2YO1|A Chain A, Salmonella Enterica Sada 1049-1304 Fused To Gcn4 Adaptors
(Sadak9-Cfii)
pdb|2YO1|B Chain B, Salmonella Enterica Sada 1049-1304 Fused To Gcn4 Adaptors
(Sadak9-Cfii)
pdb|2YO1|C Chain C, Salmonella Enterica Sada 1049-1304 Fused To Gcn4 Adaptors
(Sadak9-Cfii)
Length = 322
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 41 GNNNALSTKAKANYPPYGIDFPEGATGRFTNGRNMG 76
GN + + A+ +Y Y +D P+ + G F+ G G
Sbjct: 108 GNGSQTTRGAQTDYTAYNMDTPQNSVGEFSVGSEDG 143
>pdb|3SWH|A Chain A, Munc13-1, Mun Domain, C-Terminal Module
pdb|3SWH|B Chain B, Munc13-1, Mun Domain, C-Terminal Module
Length = 341
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 73 RNMGDILAQLLGFENFIPSFAHASNAKD 100
R MGDIL+Q+ G N +P+ A +S A+D
Sbjct: 183 RQMGDILSQVKGTGN-VPASACSSVAQD 209
>pdb|3Q4O|A Chain A, Crystal Structure Of A Deletion Mutant(11-185) Of
Hypothetical Protein Mj0754 Determined To 1.34a
pdb|3Q4Q|A Chain A, Crystal Structure Of A Deletion Mutant(11-185) Of
Hypothetical Protein Mj0754 With Mn2+
pdb|3Q4R|A Chain A, Crystal Structure Of A Deletion Mutant(11-185) Of
Hypothetical Protein Mj0754 With Zn2+
Length = 196
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 2 GLKVCHLVLSLILMDLSKWVNGAEQVPCYFIF 33
LKV + L + DL KW+N + F++
Sbjct: 116 ALKVGATIEDLDIADLEKWINKTDNEDIKFVY 147
>pdb|3Q4N|A Chain A, Crystal Structure Of Hypothetical Protein Mj0754 From
Methanococcus Jannaschii Dsm 2661
pdb|3Q4N|B Chain B, Crystal Structure Of Hypothetical Protein Mj0754 From
Methanococcus Jannaschii Dsm 2661
Length = 193
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 2 GLKVCHLVLSLILMDLSKWVNGAEQVPCYFIF 33
LKV + L + DL KW+N + F++
Sbjct: 105 ALKVGATIEDLDIADLEKWINKTDNEDIKFVY 136
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
0.319 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,213,037
Number of Sequences: 62578
Number of extensions: 180771
Number of successful extensions: 267
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 260
Number of HSP's gapped (non-prelim): 12
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)