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= psy840
(178 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VR3|A Chain A, Crystal Structure Of Acireductone Dioxygenase (13543033)
From Mus Musculus At 2.06 A Resolution
Length = 191
Score = 189 bits (479), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 97/179 (54%), Positives = 118/179 (65%), Gaps = 8/179 (4%)
Query: 2 VRVWYMDTDVKSDQRLEHHRTPKEYLDLQTLNKLTGVEYFNV------QDEVLTKLRKDR 55
V+ WY D +D R H P + L+ L L GV Y+ + D L K+RK R
Sbjct: 14 VQAWYXDEST-ADPRKPHRAQPDRPVSLEQLRTL-GVLYWKLDADKYENDPELEKIRKXR 71
Query: 56 NYNYEDEITCSKDCLPNYEEKLKSFYTEHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEV 115
NY++ D IT KD LPNYEEK+K F+ EHLH DEEIR +L+GSGYFDVRDK D WIRI
Sbjct: 72 NYSWXDIITICKDTLPNYEEKIKXFFEEHLHLDEEIRYILEGSGYFDVRDKEDKWIRISX 131
Query: 116 TKGDLIIIPAGIYHRFTLDINNYVKAKRYFIGEPVWTPHNRPADDMECRLEYLKKIQNA 174
KGD I +PAGIYHRFTLD NYVKA R F+GEPVWTP+NRPAD + R++Y ++
Sbjct: 132 EKGDXITLPAGIYHRFTLDEKNYVKAXRLFVGEPVWTPYNRPADHFDARVQYXSFLEGT 190
>pdb|1ZRR|A Chain A, Residual Dipolar Coupling Refinement Of Acireductone
Dioxygenase From Klebsiella
pdb|2HJI|A Chain A, Structural Model For The Fe-Containing Isoform Of
Acireductone Dioxygenase
Length = 179
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 2/105 (1%)
Query: 47 VLTKLRKDRNYNYEDEITCSKDCLPNYEEKLKSFYTEHLHTDEEIRLVLDGSGYFDVRDK 106
+ KL ++ Y D I+ D P E + F EH H ++E+R ++G+G F +
Sbjct: 60 AIDKLVAEKGYQSWDVISLRADN-PQKEALREKFLNEHTHGEDEVRFFVEGAGLFCLHIG 118
Query: 107 FDDWIRIEVTKGDLIIIPAGIYHRFTLDINNYVKAKRYFIGEPVW 151
D+ ++ K DLI +PA H F + A R F W
Sbjct: 119 -DEVFQVLCEKNDLISVPAHTPHWFDMGSEPNFTAIRIFDNPEGW 162
>pdb|3BU7|A Chain A, Crystal Structure And Biochemical Characterization Of
Gdosp, A Gentisate 1,2-Dioxygenase From Silicibacter
Pomeroyi
pdb|3BU7|B Chain B, Crystal Structure And Biochemical Characterization Of
Gdosp, A Gentisate 1,2-Dioxygenase From Silicibacter
Pomeroyi
Length = 394
Score = 33.1 bits (74), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 84 HLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
H H +R +++GSG + + D ++E+ D ++ P G +H
Sbjct: 139 HRHAASALRFIMEGSGAYTIVDGH----KVELGANDFVLTPNGTWH 180
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 84 HLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
H HT I V G GY V K DW ++ D+ +PA +H
Sbjct: 310 HRHTGNVIYNVAKGQGYSIVGGKRFDW-----SEHDIFCVPAWTWH 350
>pdb|3NST|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase G106a
Mutant From Pseudoaminobacter Salicylatoxidans
pdb|3NVC|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase G106a
Mutant From Pseudoaminobacter Salicylatoxidans In
Complex With Salicylate
pdb|3NW4|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase G106a
Mutant From Pseudoaminobacter Salicylatoxidans In
Complex With Gentisate
Length = 368
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 83 EHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
EH H+ R V++G G + V + D +R+ ++GDL++ P +H
Sbjct: 118 EHRHSQNAFRFVVEGEGVWTVVN--GDPVRM--SRGDLLLTPGWCFH 160
>pdb|2PHD|A Chain A, Crystal Structure Determination Of A Salicylate 1,2-
Dioxygenase From Pseudaminobacter Salicylatoxidans
pdb|2PHD|B Chain B, Crystal Structure Determination Of A Salicylate 1,2-
Dioxygenase From Pseudaminobacter Salicylatoxidans
pdb|2PHD|C Chain C, Crystal Structure Determination Of A Salicylate 1,2-
Dioxygenase From Pseudaminobacter Salicylatoxidans
pdb|2PHD|D Chain D, Crystal Structure Determination Of A Salicylate 1,2-
Dioxygenase From Pseudaminobacter Salicylatoxidans
pdb|3NJZ|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans Adducts With
Salicylate
pdb|3NKT|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans Adducts With
Naphthoate
pdb|3NL1|A Chain A, Crystal Structure Of Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans Adducts With
Gentisate
Length = 368
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 83 EHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
EH H+ R V++G G + V + D +R+ ++GDL++ P +H
Sbjct: 118 EHRHSQNAFRFVVEGEGVWTVVN--GDPVRM--SRGDLLLTPGWCFH 160
>pdb|4FAG|A Chain A, Crystal Structure Of The Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans W104y Mutant In
Complex With Gentisate
pdb|4FBF|A Chain A, Crystal Structure Of The Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans W104y Mutant
Length = 367
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 83 EHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
EH H+ R V++G G + V + D +R+ ++GDL++ P +H
Sbjct: 118 EHRHSQNAFRFVVEGEGVWTVVN--GDPVRM--SRGDLLLTPGWCFH 160
>pdb|4FAH|A Chain A, Crystal Structure Of The Salicylate 1,2-Dioxygenase From
Pseudoaminobacter Salicylatoxidans A85h Mutant
Length = 367
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 83 EHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
EH H+ R V++G G + V + D +R+ ++GDL++ P +H
Sbjct: 118 EHRHSQNAFRFVVEGEGVWTVVN--GDPVRM--SRGDLLLTPGWCFH 160
>pdb|4I4A|A Chain A, Crystal Structure Of Plu4264 Protein From Photorhabdus
Luminescens
pdb|4I4A|B Chain B, Crystal Structure Of Plu4264 Protein From Photorhabdus
Luminescens
Length = 128
Score = 30.4 bits (67), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 7/47 (14%)
Query: 78 KSFYTEHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIP 124
KSF H H + E+ +V+ G+ + D+ VTKGDLIIIP
Sbjct: 46 KSF--RHSHNEYELFIVIQGNAIIRINDE-----DFPVTKGDLIIIP 85
>pdb|3MPB|A Chain A, Z5688 From E. Coli O157:h7 Bound To Fructose
pdb|3MPB|B Chain B, Z5688 From E. Coli O157:h7 Bound To Fructose
Length = 246
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 87 TDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYHRF 131
D +I +V+DG R K ++ ++ G+ I +P G+YH F
Sbjct: 153 ADSDITVVIDG-----CRQKHTAGSQLRLSPGESICLPPGLYHSF 192
>pdb|3KMH|A Chain A, Crystal Structure Of A Novel Sugar Isomerase From E. Coli
O157:h7
pdb|3KMH|B Chain B, Crystal Structure Of A Novel Sugar Isomerase From E. Coli
O157:h7
Length = 246
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 87 TDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYHRF 131
D +I +V+DG R K ++ ++ G+ I +P G+YH F
Sbjct: 153 ADSDITVVIDG-----CRQKHTAGSQLRLSPGESICLPPGLYHSF 192
>pdb|3N05|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Streptomyces Avermitilis
pdb|3N05|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Streptomyces Avermitilis
Length = 590
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 61 DEITCSKDCLPNYEEKLKSFYTEHLHTDEEI 91
D + S++ LP YE +L Y + L DEE+
Sbjct: 279 DRLVISEEPLPAYEAELAGGYADRLDADEEV 309
>pdb|3RNS|A Chain A, Cupin 2 Conserved Barrel Domain Protein From Leptotrichia
Buccalis
Length = 227
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 48/116 (41%), Gaps = 22/116 (18%)
Query: 30 QTLNKLTGVEYFNVQDEVLTKLRKDRNYNYEDEITCSKDCL--PNYEEKLKSFYT----- 82
+TL L FN+ + V Y++ SK+ + PN + SF+
Sbjct: 118 KTLKXLESASAFNLAEVV----------EYQEGKIVSKNLVAKPNLVXTIXSFWKGESLD 167
Query: 83 EHLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYHRFTLDINNY 138
H + + VLDG G + V K +I V KG+ ++PA I H + N+
Sbjct: 168 PHKAPGDALVTVLDGEGKYYVDGK--PFI---VKKGESAVLPANIPHAVEAETENF 218
>pdb|2APN|A Chain A, Hi1723 Solution Structure
Length = 114
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 76 KLKSFYTEHLHTDEEIRLVLDGSGY------FDVRDKFDDW-IRIEVTKGDLIIIPAGIY 128
K+KS +E +TD ++R+ + G G F +K +D + IE + L+I P +
Sbjct: 18 KVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQLVIDPMSLQ 77
Query: 129 HRF--TLDINNYVKAKRYFIGEPVWT 152
+ T+D ++ R+ + P T
Sbjct: 78 YLIGGTVDYTEGLEGSRFTVNNPNAT 103
>pdb|2F4P|A Chain A, Crystal Structure Of A Cupin-Like Protein (Tm1010) From
Thermotoga Maritima Msb8 At 1.90 A Resolution
pdb|2F4P|B Chain B, Crystal Structure Of A Cupin-Like Protein (Tm1010) From
Thermotoga Maritima Msb8 At 1.90 A Resolution
pdb|2F4P|C Chain C, Crystal Structure Of A Cupin-Like Protein (Tm1010) From
Thermotoga Maritima Msb8 At 1.90 A Resolution
pdb|2F4P|D Chain D, Crystal Structure Of A Cupin-Like Protein (Tm1010) From
Thermotoga Maritima Msb8 At 1.90 A Resolution
Length = 147
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 84 HLHTDEEIRLVLDGSGYFDVRDKFDDWIRIEVTKGDLIIIPAGIYH 129
H H +I +V G G++ R K RI + KGD++ IP + H
Sbjct: 64 HSHPGGQILIVTRGKGFYQERGKP---ARI-LKKGDVVEIPPNVVH 105
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 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,044,228
Number of Sequences: 62578
Number of extensions: 264106
Number of successful extensions: 805
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 800
Number of HSP's gapped (non-prelim): 24
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)