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= 034019
(106 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DUN|A Chain A, 1.76a X-Ray Crystal Structure Of A Putative Phenazine
Biosynthesis PhzcPHZF PROTEIN FROM CLOSTRIDIUM
DIFFICILE (STRAIN 630)
Length = 263
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 6/77 (7%)
Query: 6 VQYSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPR 65
++Y +VD+F FKGNPA VC+L+ E +Q +A E N+ +T ++ +
Sbjct: 4 MEYYIVDSFATKLFKGNPAGVCVLDRRIPLELMQKIAEENNLPETAFVVKGKG------N 57
Query: 66 FRLRWFTPVAEVSFSFY 82
+ LRWFTP AE+ +
Sbjct: 58 YELRWFTPKAEIDLCGH 74
>pdb|1S7J|A Chain A, Crystal Structure Of Phenazine Biosynthesis Protein Phzf
Family (Enterococcus Faecalis)
pdb|1S7J|B Chain B, Crystal Structure Of Phenazine Biosynthesis Protein Phzf
Family (Enterococcus Faecalis)
Length = 262
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 41/70 (58%), Gaps = 6/70 (8%)
Query: 8 YSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPRFR 67
Y +VDAF + FKGNPAAV +LE+ E +Q +A E N+S+T + + +
Sbjct: 5 YYIVDAFAEEVFKGNPAAVYVLEKWLPEAVMQNIAIENNLSETAFTVK------EGQSYA 58
Query: 68 LRWFTPVAEV 77
LRWFTP E+
Sbjct: 59 LRWFTPEREI 68
>pdb|1YM5|A Chain A, Crystal Structure Of Yhi9, The Yeast Member Of The
Phenazine Biosynthesis Phzf Enzyme Superfamily
Length = 300
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 50/85 (58%), Gaps = 13/85 (15%)
Query: 5 LVQYSVVDAFTDSAFKGNPAAVC-LLEEDRDE---EWLQAVASEFNISQTCYLTRLTAAD 60
+V + VD FT+ F GNP AV LE D +E E LQA+A+ N+S+T +L +
Sbjct: 4 MVPFKQVDVFTEKPFMGNPVAVINFLEIDENEVSQEELQAIANWTNLSETTFLFK----- 58
Query: 61 SPNPR---FRLRWFTPVAEVSFSFY 82
P+ + ++LR FTP +E+ F+ +
Sbjct: 59 -PSDKKYDYKLRIFTPRSELPFAGH 82
>pdb|1QYA|A Chain A, Crystal Structure Of E. Coli Protein Ydde
pdb|1QYA|B Chain B, Crystal Structure Of E. Coli Protein Ydde
Length = 307
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 11 VDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPRFRLRW 70
VDAFT F+GN A V ++ E +Q +A E S+T +L +D R+R+
Sbjct: 18 VDAFTSQPFRGNSAGVVFPADNLSEAQMQLIARELGHSETAFLLHSDDSD-----VRIRY 72
Query: 71 FTPVAEVSFSFY 82
FTP EV +
Sbjct: 73 FTPTVEVPICGH 84
>pdb|1SDJ|A Chain A, X-Ray Structure Of Ydde_ecoli Northeast Structural
Genomics Consortium Target Et25
Length = 310
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 11 VDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPRFRLRW 70
VDAFT F+GN A V ++ E Q +A E S+T +L +D R+R+
Sbjct: 19 VDAFTSQPFRGNSAGVVFPADNLSEAQXQLIARELGHSETAFLLHSDDSD-----VRIRY 73
Query: 71 FTPVAEVSFSFY 82
FTP EV +
Sbjct: 74 FTPTVEVPICGH 85
>pdb|1QY9|A Chain A, Crystal Structure Of E. Coli Se-met Protein Ydde
pdb|1QY9|B Chain B, Crystal Structure Of E. Coli Se-met Protein Ydde
pdb|1QY9|C Chain C, Crystal Structure Of E. Coli Se-met Protein Ydde
pdb|1QY9|D Chain D, Crystal Structure Of E. Coli Se-met Protein Ydde
Length = 297
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 11 VDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPRFRLRW 70
VDAFT F+GN A V ++ E Q +A E S+T +L +D R+R+
Sbjct: 8 VDAFTSQPFRGNSAGVVFPADNLSEAQXQLIARELGHSETAFLLHSDDSD-----VRIRY 62
Query: 71 FTPVAEVSFSFY 82
FTP EV +
Sbjct: 63 FTPTVEVPICGH 74
>pdb|1U1W|A Chain A, Structure And Function Of Phenazine-biosynthesis Protein
Phzf From Pseudomonas Fluorescens 2-79
pdb|1U1W|B Chain B, Structure And Function Of Phenazine-biosynthesis Protein
Phzf From Pseudomonas Fluorescens 2-79
pdb|1U1X|A Chain A, Structure And Function Of Phenazine-Biosynthesis Protein
Phzf From Pseudomonas Fluorescens 2-79
pdb|1U1X|B Chain B, Structure And Function Of Phenazine-Biosynthesis Protein
Phzf From Pseudomonas Fluorescens 2-79
pdb|1XUA|A Chain A, Structure And Function Of The Phenazine Biosynthetic
Protein Phzf From Pseudomonas Fluorescens
pdb|1XUA|B Chain B, Structure And Function Of The Phenazine Biosynthetic
Protein Phzf From Pseudomonas Fluorescens
Length = 298
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 46/97 (47%), Gaps = 12/97 (12%)
Query: 2 AKKLVQYSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTR-LTAAD 60
+ Y ++DAF +GNP AV +D +Q +A E N+S++ ++ + D
Sbjct: 18 GSHMHNYVIIDAFASVPLEGNPVAVFFDADDLPPAQMQRIAREMNLSESTFVLKPRNGGD 77
Query: 61 SPNPRFRLRWFTPVAEVSFSFYNYKLWMKLFGSVLEL 97
+ +R FTPV E+ F+ + L G+ + L
Sbjct: 78 A-----LIRIFTPVNELPFAGH------PLLGTAIAL 103
>pdb|1T6K|A Chain A, Crystal Structure Of Phzf From Pseudomonas Fluorescens
2-79
Length = 278
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 12/92 (13%)
Query: 7 QYSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTR-LTAADSPNPR 65
Y ++DAF +GNP AV +D +Q +A E N+S++ ++ + D+
Sbjct: 3 NYVIIDAFASVPLEGNPVAVFFDADDLPPAQMQRIAREMNLSESTFVLKPRNGGDA---- 58
Query: 66 FRLRWFTPVAEVSFSFYNYKLWMKLFGSVLEL 97
+R FTPV E+ F+ + L G+ + L
Sbjct: 59 -LIRIFTPVNELPFAGH------PLLGTAIAL 83
>pdb|1XUB|A Chain A, Structure And Function Of The Phenazine Biosynthetic
Protein Phzf From Pseudomonas Fluorescens
Length = 298
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 2 AKKLVQYSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTR-LTAAD 60
+ Y ++DAF +GNP AV +D +Q +A E N+S++ ++ + D
Sbjct: 18 GSHMHNYVIIDAFASVPLEGNPVAVFFDADDLPPAQMQRIAREMNLSESTFVLKPRNGGD 77
Query: 61 SPNPRFRLRWFTPVAEVSFS 80
+ +R FTPV E+ F+
Sbjct: 78 A-----LIRIFTPVNELPFA 92
>pdb|1U1V|A Chain A, Structure And Function Of Phenazine-Biosynthesis Protein
Phzf From Pseudomonas Fluorescens 2-79
Length = 298
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 44/92 (47%), Gaps = 12/92 (13%)
Query: 7 QYSVVDAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTR-LTAADSPNPR 65
Y ++DAF +GNP AV +D Q +A E N+S++ ++ + D+
Sbjct: 23 NYVIIDAFASVPLEGNPVAVFFDADDLPPAQXQRIAREXNLSESTFVLKPRNGGDA---- 78
Query: 66 FRLRWFTPVAEVSFSFYNYKLWMKLFGSVLEL 97
+R FTPV E+ F+ + L G+ + L
Sbjct: 79 -LIRIFTPVNELPFAGH------PLLGTAIAL 103
>pdb|3EDN|A Chain A, Crystal Structure Of The Bacillus Anthracis Phenazine
Biosynthesis Protein, Phzf Family
pdb|3EDN|B Chain B, Crystal Structure Of The Bacillus Anthracis Phenazine
Biosynthesis Protein, Phzf Family
Length = 299
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 5/62 (8%)
Query: 12 DAFTDSAFKGNPAAVCLLEEDRDEEWLQAVASEFNISQTCYLTRLTAADSPNPRFRLRWF 71
DAFT+ GNPA + L + EE Q +A + ++T ++ AD R R+F
Sbjct: 10 DAFTNKPNXGNPAGIVLDADGLTEEEXQRIAEKVGFNETSFVLSSEVAD-----IRXRYF 64
Query: 72 TP 73
TP
Sbjct: 65 TP 66
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
0.325 0.136 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,192,422
Number of Sequences: 62578
Number of extensions: 108432
Number of successful extensions: 305
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 288
Number of HSP's gapped (non-prelim): 11
length of query: 106
length of database: 14,973,337
effective HSP length: 71
effective length of query: 35
effective length of database: 10,530,299
effective search space: 368560465
effective search space used: 368560465
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)