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= 028407
(209 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OOX|A Chain A, Crystal Structure Of A Putative 2og-Fe(Ii) Oxygenase
Family Protein (Cc_0200) From Caulobacter Crescentus At
1.44 A Resolution
pdb|3OOX|B Chain B, Crystal Structure Of A Putative 2og-Fe(Ii) Oxygenase
Family Protein (Cc_0200) From Caulobacter Crescentus At
1.44 A Resolution
Length = 312
Score = 87.4 bits (215), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 54/146 (36%), Positives = 80/146 (54%), Gaps = 12/146 (8%)
Query: 57 ATLRLLHYEGQISDPSKGMYGAGAHSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAP 116
+ LRLLHY I + G+ AGAH D ITLL E GL++ DRD + W + P
Sbjct: 169 SVLRLLHYP-PIPKDATGVR-AGAHGDINTITLLLGAEEGGLEVL-DRDGQ---WLPINP 222
Query: 117 MKGAFIVNLGDMLERWSNCIFKSTLHRVLG-----TGRERYSIAFFVEPSHDCLVECLPT 171
G ++N+GD LER +N + ST+HRV+ G RYS FF+ + D ++ L
Sbjct: 223 PPGCLVINIGDXLERLTNNVLPSTVHRVVNPPPERRGVPRYSTPFFLHFASDYEIKTLQN 282
Query: 172 CKSDKNPPKFP-PIKCETYLSQRYKD 196
C + +NP ++P I + +L QR ++
Sbjct: 283 CVTAENPDRYPESITADEFLQQRLRE 308
>pdb|3ON7|A Chain A, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|B Chain B, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|C Chain C, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|D Chain D, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
Length = 280
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 62/124 (50%), Gaps = 11/124 (8%)
Query: 49 PEMLGQAIATL-RLLHYEGQISDPSKGMYGAGAHSDYGLITLLATDEVAGLQICKDRDAK 107
PE + + TL R+LHY D G A AH D LIT+L T GLQ+ AK
Sbjct: 141 PEXIANSHKTLLRILHYPPXTGDEEXGAIRAAAHEDINLITVLPTANEPGLQV----KAK 196
Query: 108 PQLWEDVAPMKGAFIVNLGDMLERWSNCIFKSTLHRVL---GTG--RERYSIAFFVEPSH 162
W DV G I+N+GD L+ S+ F ST HRV+ GT + R S+ F+ P H
Sbjct: 197 DGSWLDVPSDFGNIIINIGDXLQEASDGYFPSTSHRVINPEGTDKTKSRISLPLFLHP-H 255
Query: 163 DCLV 166
+V
Sbjct: 256 PSVV 259
>pdb|1W9Y|A Chain A, The Structure Of Acc Oxidase
pdb|1WA6|X Chain X, The Structure Of Acc Oxidase
Length = 319
Score = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 62/120 (51%), Gaps = 10/120 (8%)
Query: 75 MYGAGAHSDYG-LITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWS 133
+ G AH+D G +I L D+V+GLQ+ KD W DV P + + +VNLGD LE +
Sbjct: 171 IKGLRAHTDAGGIILLFQDDKVSGLQLLKDGQ-----WIDVPPXRHSIVVNLGDQLEVIT 225
Query: 134 NCIFKSTLHRVLGTGR-ERYSIAFFVEPSHDCLVECLPTC---KSDKNPPKFPPIKCETY 189
N +KS HRV+ R S+A F P D ++ P ++++N +P + Y
Sbjct: 226 NGKYKSVXHRVIAQKDGARXSLASFYNPGSDAVIYPAPALVEKEAEENKQVYPKFVFDDY 285
>pdb|1GP5|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin
pdb|1GP6|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin (With 30 Min Exposure To O2)
Length = 356
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/134 (30%), Positives = 65/134 (48%), Gaps = 16/134 (11%)
Query: 77 GAGAHSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWSNCI 136
G AH+D +T + + V GLQ+ + W + + ++++GD LE SN
Sbjct: 228 GVEAHTDVSALTFILHNMVPGLQLFYEGK-----WVTAKCVPDSIVMHIGDTLEILSNGK 282
Query: 137 FKSTLHR-VLGTGRERYSIAFFVEPSHDCLV-ECLPTCKSDKNPPKFPPIKCETYLSQRY 194
+KS LHR ++ + R S A F EP D +V + LP S ++P KFPP R
Sbjct: 283 YKSILHRGLVNKEKVRISWAVFCEPPKDKIVLKPLPEMVSVESPAKFPP---------RT 333
Query: 195 KDTHADLNMYNKQQ 208
H + ++ K+Q
Sbjct: 334 FAQHIEHKLFGKEQ 347
>pdb|2BRT|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Naringenin
Length = 355
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/134 (30%), Positives = 65/134 (48%), Gaps = 16/134 (11%)
Query: 77 GAGAHSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWSNCI 136
G AH+D +T + + V GLQ+ + W + + ++++GD LE SN
Sbjct: 227 GVEAHTDVSALTFILHNMVPGLQLFYEGK-----WVTAKCVPDSIVMHIGDTLEILSNGK 281
Query: 137 FKSTLHR-VLGTGRERYSIAFFVEPSHDCLV-ECLPTCKSDKNPPKFPPIKCETYLSQRY 194
+KS LHR ++ + R S A F EP D +V + LP S ++P KFPP R
Sbjct: 282 YKSILHRGLVNKEKVRISWAVFCEPPKDKIVLKPLPEMVSVESPAKFPP---------RT 332
Query: 195 KDTHADLNMYNKQQ 208
H + ++ K+Q
Sbjct: 333 FAQHIEHKLFGKEQ 346
>pdb|1GP4|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana
(Selenomethionine Substituted)
Length = 356
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/134 (30%), Positives = 64/134 (47%), Gaps = 16/134 (11%)
Query: 77 GAGAHSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWSNCI 136
G AH+D +T + + V GLQ+ + W + + + ++GD LE SN
Sbjct: 228 GVEAHTDVSALTFILHNXVPGLQLFYEGK-----WVTAKCVPDSIVXHIGDTLEILSNGK 282
Query: 137 FKSTLHR-VLGTGRERYSIAFFVEPSHDCLV-ECLPTCKSDKNPPKFPPIKCETYLSQRY 194
+KS LHR ++ + R S A F EP D +V + LP S ++P KFPP R
Sbjct: 283 YKSILHRGLVNKEKVRISWAVFCEPPKDKIVLKPLPEXVSVESPAKFPP---------RT 333
Query: 195 KDTHADLNMYNKQQ 208
H + ++ K+Q
Sbjct: 334 FAQHIEHKLFGKEQ 347
>pdb|2BJS|A Chain A, Isopenicillin N Synthase C-Terminal Truncation Mutant
Length = 325
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 9/102 (8%)
Query: 81 HSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWSNCIFKST 140
H D LIT+L V LQ+ ++D+ +++N G + +N +K+
Sbjct: 214 HEDVSLITVLYQSNVQNLQV-----ETAAGYQDIEADDTGYLINCGSYMAHLTNNYYKAP 268
Query: 141 LHRVLGTGRERYSIAFFVEPSHDCLVECL----PTCKSDKNP 178
+HRV ER S+ FFV +D +++ P KSD+ P
Sbjct: 269 IHRVKWVNAERQSLPFFVNLGYDSVIDPFDPREPNGKSDREP 310
>pdb|1IPS|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Manganese Complex)
pdb|1IPS|B Chain B, Isopenicillin N Synthase From Aspergillus Nidulans
(Manganese Complex)
pdb|1QJE|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Ip1 -
Fe Complex)
pdb|1QJF|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Monocyclic Sulfoxide - Fe Complex)
pdb|1QIQ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Acmc
Fe Complex)
pdb|1HB4|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB3|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB2|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB1|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Anaerobic Acov Fe Complex)
pdb|1ODM|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(anaerobic Ac-vinylglycine Fe Complex)
pdb|1ODN|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Oxygen-Exposed Product From Anaerobic Ac-Vinylglycine
Fe Complex)
pdb|1OBN|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-cysteinyl-aminobutyrate-fe-no Complex
pdb|1OC1|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-cysteinyl-aminobutyrate-fe Complex
pdb|1UZW|A Chain A, Isopenicillin N Synthase With
L-D-(A-Aminoadipoyl)-L-Cysteinyl-D-Isodehydrovaline
pdb|1W03|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Glycine-Fe
Complex
pdb|1W04|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-Cysteinyl-Glycine-Fe-No Complex
pdb|1W05|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Alanine-Fe
Complex
pdb|1W06|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Alanine-Fe
No Complex
pdb|2BU9|A Chain A, Isopenicillin N Synthase Complexed With L-Aminoadipoyl-L-
Cysteinyl-L-Hexafluorovaline
pdb|1W3V|A Chain A, Isopenicillin N Synthase
D-(L-A-Aminoadipoyl)-(3r)-Methyl-L- Cysteine
D-A-Hydroxyisovaleryl Ester Complex (Anaerobic)
pdb|1W3X|A Chain A, Isopenicillin N Synthase
D-(L-A-Aminoadipoyl)-(3r)-Methyl-L- Cysteine
D-A-Hydroxyisovaleryl Ester Complex (Oxygen Exposed 5
Minutes 20 Bar)
pdb|2IVI|B Chain B, Isopenicillin N Synthase From Aspergillus Nidulans
(anaerobic Ac-methyl-cyclopropylglycine Fe Complex)
pdb|2IVJ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Anaerobic Ac-Cyclopropylglycine Fe Complex)
pdb|1BK0|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Acv-Fe
Complex)
pdb|1BLZ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Acv-Fe- No Complex)
pdb|2JB4|A Chain A, Isopenicillin N Synthase With A 2-Thiabicycloheptan-6-One
Product Analogue
pdb|2VAU|A Chain A, Isopenicillin N Synthase With Substrate Analogue Acomp (
Unexposed)
pdb|2VBB|A Chain A, Isopenicillin N Synthase With Substrate Analogue Acomp (
35minutes Oxygen Exposure)
pdb|2VBD|A Chain A, Isopenicillin N Synthase With Substrate Analogue L,l,l-
Acomp (unexposed)
pdb|2VBP|A Chain A, Isopenicillin N Synthase With Substrate Analogue
L,L,L-Acab (Unexposed)
pdb|2VCM|A Chain A, Isopenicillin N Synthase With Substrate Analogue Asmcov
pdb|2VE1|A Chain A, Isopenicillin N Synthase With Substrate Analogue Asmcov (
Oxygen Exposed 1min 20bar)
pdb|2WO7|A Chain A, Isopenicillin N Synthase With Substrate Analogue L,L,D-
Acd2ab (Unexposed)
pdb|2Y6F|A Chain A, Isopenicillin N Synthase With
Ac-D-S-Methyl-3r-Methylcysteine
pdb|2Y60|A Chain A, Isopenicillin N Synthase With Ac-D-Methionine
pdb|2Y86|A Chain A, Isopenicillin N Synthase With Ac-O-Methyl-D-Threonine
pdb|3ZKU|A Chain A, Isopenicillin N Synthase With Substrate Analogue Ahcv
Length = 331
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 9/102 (8%)
Query: 81 HSDYGLITLLATDEVAGLQICKDRDAKPQLWEDVAPMKGAFIVNLGDMLERWSNCIFKST 140
H D LIT+L V LQ+ ++D+ +++N G + +N +K+
Sbjct: 214 HEDVSLITVLYQSNVQNLQV-----ETAAGYQDIEADDTGYLINCGSYMAHLTNNYYKAP 268
Query: 141 LHRVLGTGRERYSIAFFVEPSHDCLVECL----PTCKSDKNP 178
+HRV ER S+ FFV +D +++ P KSD+ P
Sbjct: 269 IHRVKWVNAERQSLPFFVNLGYDSVIDPFDPREPNGKSDREP 310
>pdb|1WY7|A Chain A, Crystal Structure Of A Putative Rna Methyltransferase
Ph1948 From Pyrococcus Horikoshii
pdb|1WY7|B Chain B, Crystal Structure Of A Putative Rna Methyltransferase
Ph1948 From Pyrococcus Horikoshii
pdb|1WY7|C Chain C, Crystal Structure Of A Putative Rna Methyltransferase
Ph1948 From Pyrococcus Horikoshii
pdb|1WY7|D Chain D, Crystal Structure Of A Putative Rna Methyltransferase
Ph1948 From Pyrococcus Horikoshii
Length = 207
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 53 GQAIATLRLLHYE-GQISDPSKGMYGAGAHS-DYGLITLLATDEVAGLQICKDRDAKPQL 110
G A + L L Y G I GAG YG + LL EV +++ D++A L
Sbjct: 32 GNAASELLWLAYSLGDIEGKVVADLGAGTGVLSYGAL-LLGAKEVICVEV--DKEAVDVL 88
Query: 111 WEDVAPMKGAFIVNLGDMLE 130
E++ KG F V +GD+ E
Sbjct: 89 IENLGEFKGKFKVFIGDVSE 108
>pdb|4FWE|A Chain A, Native Structure Of Lsd2 /aof1/kdm1b In Spacegroup Of
C2221 At 2.13a
pdb|4FWF|A Chain A, Complex Structure Of Lsd2/aof1/kdm1b With H3k4 Mimic
pdb|4FWJ|A Chain A, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
pdb|4FWJ|B Chain B, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
Length = 796
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 18 IYFVSAPREVAKAVARIIXXXXXXXXXFFDKPEMLGQAIATLRLLHYEGQISDPSK 73
+++ P++ + +I D ++L Q +ATLR L E ++ DP+K
Sbjct: 670 VFYDMDPQKKHSVLMSVIAGEAVASVRTLDDKQVLQQCMATLRELFKEQEVPDPTK 725
>pdb|4AXV|A Chain A, Biochemical And Structural Characterization Of The Mpaa
Amidase As Part Of A Conserved Scavenging Pathway For
Peptidoglycan Derived Peptides In Gamma-Proteobacteria
Length = 243
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 45 FFDKPEMLGQAIATLRLLHYEGQISDPSKGMYGAGAHSDYGLITLLATDEVAGL 98
F P G+++ LL++ Q+ S+G+ AG H D T +AGL
Sbjct: 19 FLITPTSYGKSVLGAPLLYFPAQVESNSRGLILAGTHGD-------ETASIAGL 65
>pdb|4GUR|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group P21
pdb|4GUS|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group
P3221
pdb|4GUT|A Chain A, Crystal Structure Of Lsd2-npac
pdb|4GUU|A Chain A, Crystal Structure Of Lsd2-npac With Tranylcypromine
pdb|4GU0|A Chain A, Crystal Structure Of Lsd2 With H3
pdb|4GU0|B Chain B, Crystal Structure Of Lsd2 With H3
pdb|4GU0|C Chain C, Crystal Structure Of Lsd2 With H3
pdb|4GU0|D Chain D, Crystal Structure Of Lsd2 With H3
pdb|4HSU|A Chain A, Crystal Structure Of Lsd2-npac With H3(1-26)in Space Group
P21
Length = 776
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 18 IYFVSAPREVAKAVARIIXXXXXXXXXFFDKPEMLGQAIATLRLLHYEGQISDPSK 73
+++ P++ + +I D ++L Q +ATLR L E ++ DP+K
Sbjct: 650 VFYDMDPQKKHSVLMSVIAGEAVASVRTLDDKQVLQQCMATLRELFKEQEVPDPTK 705
>pdb|4GU1|A Chain A, Crystal Structure Of Lsd2
pdb|4GU1|B Chain B, Crystal Structure Of Lsd2
Length = 784
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 18 IYFVSAPREVAKAVARIIXXXXXXXXXFFDKPEMLGQAIATLRLLHYEGQISDPSK 73
+++ P++ + +I D ++L Q +ATLR L E ++ DP+K
Sbjct: 658 VFYDMDPQKKHSVLMSVIAGEAVASVRTLDDKQVLQQCMATLRELFKEQEVPDPTK 713
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 0.139 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,153,966
Number of Sequences: 62578
Number of extensions: 240035
Number of successful extensions: 570
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 547
Number of HSP's gapped (non-prelim): 13
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
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: 49 (23.5 bits)