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= 025863
(247 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W1V|A Chain A, Crystal Structure Of Mouse Nitrilase-2 At 1.4a Resolution
pdb|2W1V|B Chain B, Crystal Structure Of Mouse Nitrilase-2 At 1.4a Resolution
Length = 276
Score = 124 bits (312), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 67/148 (45%), Positives = 85/148 (57%), Gaps = 5/148 (3%)
Query: 80 VAKFKVGLCQLSVTADKEXXXXXXXXXXXXXXXXXXXXXXXPEIWNSPYSHDSFPVYAED 139
++ F++ L QL V++ K PE +NSPY FP YAE
Sbjct: 1 MSTFRLALIQLQVSSIKSDNLTRACSLVREAAKQGANIVSLPECFNSPYGTTYFPDYAEK 60
Query: 140 IDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDRLYNTCCVFGSDGKLIAKHRKIHL 199
I ST LSEVA+ I ++GGSIPE +LYNTC VFG DG L+ KHRKIHL
Sbjct: 61 I-----PGESTQKLSEVAKESSIYLIGGSIPEEDAGKLYNTCSVFGPDGSLLVKHRKIHL 115
Query: 200 FDIDIPGKITFIESKSLTAGETPTIVDT 227
FDID+PGKITF ESK+L+ G++ + DT
Sbjct: 116 FDIDVPGKITFQESKTLSPGDSFSTFDT 143
>pdb|1F89|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nit3, A
Member Of Branch 10 Of The Nitrilase Superfamily
pdb|1F89|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Nit3, A
Member Of Branch 10 Of The Nitrilase Superfamily
Length = 291
Score = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 56/109 (51%), Positives = 73/109 (66%), Gaps = 3/109 (2%)
Query: 121 PEIWNSPYSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERS--GDRLY 178
PE +NSPYS D F Y+E I+ + S S LS +A KI +VGG+IPE D++Y
Sbjct: 52 PECFNSPYSTDQFRKYSEVINPK-EPSTSVQFLSNLANKFKIILVGGTIPELDPKTDKIY 110
Query: 179 NTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTIVDT 227
NT +F DGKLI KHRK+HLFD+DIP I+F ES++L+ GE T +DT
Sbjct: 111 NTSIIFNEDGKLIDKHRKVHLFDVDIPNGISFHESETLSPGEKSTTIDT 159
>pdb|1J31|A Chain A, Crystal Structure Of Hypothetical Protein Ph0642 From
Pyrococcus Horikoshii
pdb|1J31|B Chain B, Crystal Structure Of Hypothetical Protein Ph0642 From
Pyrococcus Horikoshii
pdb|1J31|C Chain C, Crystal Structure Of Hypothetical Protein Ph0642 From
Pyrococcus Horikoshii
pdb|1J31|D Chain D, Crystal Structure Of Hypothetical Protein Ph0642 From
Pyrococcus Horikoshii
Length = 262
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 35/84 (41%), Positives = 50/84 (59%), Gaps = 11/84 (13%)
Query: 121 PEIWNSPYSHDS----FPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDR 176
PE++++ Y+ +S F V A+ I G +T L E+AR L + IV G+ E+SG+
Sbjct: 41 PELFDTGYNFESREEVFDV-AQQIPEG----ETTTFLXELARELGLYIVAGT-AEKSGNY 94
Query: 177 LYNTCCVFGSDGKLIAKHRKIHLF 200
LYN+ V G G I K+RKIHLF
Sbjct: 95 LYNSAVVVGPRG-YIGKYRKIHLF 117
>pdb|2VHH|A Chain A, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHH|B Chain B, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHH|C Chain C, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHH|D Chain D, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|A Chain A, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|B Chain B, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|C Chain C, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|D Chain D, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|E Chain E, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|F Chain F, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|G Chain G, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
pdb|2VHI|H Chain H, Crystal Structure Of A Pyrimidine Degrading Enzyme From
Drosophila Melanogaster
Length = 405
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 54/108 (50%), Gaps = 18/108 (16%)
Query: 122 EIWNSPY---SHDSFPV--YAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERS--- 173
E W P+ + + FP +AE+ + G P+T ML+E+A+ + I+ SI ER
Sbjct: 120 EAWTMPFAFCTREKFPWCEFAEEAENG----PTTKMLAELAKAYNMVIIH-SILERDMEH 174
Query: 174 GDRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGET 221
G+ ++NT V + G+ + KHRK H IP F ES G T
Sbjct: 175 GETIWNTAVVISNSGRYLGKHRKNH-----IPRVGDFNESTYYMEGNT 217
>pdb|3IVZ|A Chain A, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3IVZ|B Chain B, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3IW3|A Chain A, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3IW3|B Chain B, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3KI8|A Chain A, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3KI8|B Chain B, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3KLC|A Chain A, Crystal Structure Of Hyperthermophilic Nitrilase
pdb|3KLC|B Chain B, Crystal Structure Of Hyperthermophilic Nitrilase
Length = 262
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 48/84 (57%), Gaps = 11/84 (13%)
Query: 121 PEIWNSPYSHDS----FPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDR 176
PE++++ Y+ ++ F + A+ I G +T L +VAR + IV G+ E+ GD
Sbjct: 41 PELFDTGYNFETREEVFEI-AQKIPEG----ETTTFLMDVARDTGVYIVAGT-AEKDGDV 94
Query: 177 LYNTCCVFGSDGKLIAKHRKIHLF 200
LYN+ V G G I K+RKIHLF
Sbjct: 95 LYNSAVVVGPRG-FIGKYRKIHLF 117
>pdb|1EMS|A Chain A, Crystal Structure Of The C. Elegans Nitfhit Protein
pdb|1EMS|B Chain B, Crystal Structure Of The C. Elegans Nitfhit Protein
Length = 440
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 29/42 (69%)
Query: 178 YNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAG 219
+NT + SDG A++ K+HLFD++IPGK+ +ES+ AG
Sbjct: 109 WNTHLIIDSDGVTRAEYNKLHLFDLEIPGKVRLMESEFSKAG 150
>pdb|3P8K|A Chain A, Crystal Structure Of A Putative Carbon-Nitrogen Family
Hydrolase From Staphylococcus Aureus
pdb|3P8K|B Chain B, Crystal Structure Of A Putative Carbon-Nitrogen Family
Hydrolase From Staphylococcus Aureus
Length = 281
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 48/100 (48%), Gaps = 12/100 (12%)
Query: 121 PEIWNSPYSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDRLYNT 180
PE WN+ Y + A++ + S + + +A K+ IV GS+ ++++NT
Sbjct: 60 PEXWNNGYDLEHLNEKADN-----NLGQSFSFIKHLAEKYKVDIVAGSVSNIRNNQIFNT 114
Query: 181 CCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGE 220
G+LI ++ K+HL +P E + LTAGE
Sbjct: 115 AFSVNKSGQLINEYDKVHL----VP---XLREHEFLTAGE 147
>pdb|1UF4|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase
pdb|1UF4|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase
pdb|1UF5|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Methionine
pdb|1UF5|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Methionine
pdb|1UF7|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Valine
pdb|1UF7|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Valine
pdb|1UF8|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Phenylalanine
pdb|1UF8|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Phenylalanine
Length = 303
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHL 199
R +NT + GK++ K+RKIHL
Sbjct: 106 RRFNTSILVDKSGKIVGKYRKIHL 129
>pdb|1FO6|A Chain A, Crystal Structure Analysis Of N-Carbamoyl-D-Amino-Acid
Amidohydrolase
pdb|1FO6|B Chain B, Crystal Structure Analysis Of N-Carbamoyl-D-Amino-Acid
Amidohydrolase
pdb|1FO6|C Chain C, Crystal Structure Analysis Of N-Carbamoyl-D-Amino-Acid
Amidohydrolase
pdb|1FO6|D Chain D, Crystal Structure Analysis Of N-Carbamoyl-D-Amino-Acid
Amidohydrolase
Length = 304
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHL 199
R +NT + GK++ K+RKIHL
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL 130
>pdb|1ERZ|A Chain A, Crystal Structure Of N-Carbamyl-D-Amino Acid
Amidohydrolase With A Novel Catalytic Framework Common
To Amidohydrolases
pdb|1ERZ|B Chain B, Crystal Structure Of N-Carbamyl-D-Amino Acid
Amidohydrolase With A Novel Catalytic Framework Common
To Amidohydrolases
Length = 303
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHL 199
R +NT + GK++ K+RKIHL
Sbjct: 106 RRFNTSILVDKSGKIVGKYRKIHL 129
>pdb|2GGL|A Chain A, The Mutant A222c Of Agrobacterium Radiobacter
N-Carbamoyl-D-Amino Acid Amidohydrolase
pdb|2GGL|B Chain B, The Mutant A222c Of Agrobacterium Radiobacter
N-Carbamoyl-D-Amino Acid Amidohydrolase
pdb|2GGL|C Chain C, The Mutant A222c Of Agrobacterium Radiobacter
N-Carbamoyl-D-Amino Acid Amidohydrolase
pdb|2GGL|D Chain D, The Mutant A222c Of Agrobacterium Radiobacter
N-Carbamoyl-D-Amino Acid Amidohydrolase
Length = 304
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHL 199
R +NT + GK++ K+RKIHL
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL 130
>pdb|2GGK|A Chain A, The Mutant A302c Of Agrobacterium Radiobacter
N-Carbamoyl-D- Amino-Acid Amidohydrolase
pdb|2GGK|B Chain B, The Mutant A302c Of Agrobacterium Radiobacter
N-Carbamoyl-D- Amino-Acid Amidohydrolase
pdb|2GGK|C Chain C, The Mutant A302c Of Agrobacterium Radiobacter
N-Carbamoyl-D- Amino-Acid Amidohydrolase
pdb|2GGK|D Chain D, The Mutant A302c Of Agrobacterium Radiobacter
N-Carbamoyl-D- Amino-Acid Amidohydrolase
Length = 304
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHL 199
R +NT + GK++ K+RKIHL
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL 130
>pdb|3TK2|A Chain A, Crystallographic Structure Of Phenylalanine Hydroxylase
From Chromobacterium Violaceum Cocrystallized With
Phenylalanine In A Site Distal To The Active Site
pdb|3TK4|A Chain A, Crystal Structure Of Phenylalanine Hydroxylase From
Chromobacterium Violaceum Bound To Cobalt
Length = 302
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 13/96 (13%)
Query: 121 PEIWNSPYSHDSF---PVYAEDIDA---GGDASPSTAMLSEVARLLKITIVGGSIPERSG 174
P++++ + H PV+A+ ++A GG + + L +ARL T+ G I +G
Sbjct: 139 PDVFHDLFGHVPLLINPVFADYLEAYGKGGVKAKALGALPMLARLYWYTVEFGLINTPAG 198
Query: 175 DRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF 210
R+Y G L +K I+ D P ++ F
Sbjct: 199 MRIYGA-------GILSSKSESIYCLDSASPNRVGF 227
>pdb|3TCY|A Chain A, Crystallographic Structure Of Phenylalanine Hydroxylase
From Chromobacterium Violaceum (Cpah) Bound To
Phenylalanine In A Site Distal To The Active Site
Length = 302
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 13/96 (13%)
Query: 121 PEIWNSPYSHDSF---PVYAEDIDA---GGDASPSTAMLSEVARLLKITIVGGSIPERSG 174
P++++ + H PV+A+ ++A GG + + L +ARL T+ G I +G
Sbjct: 139 PDVFHDLFGHVPLLINPVFADYLEAYGKGGVKAKALGALPMLARLYWYTVEFGLINTPAG 198
Query: 175 DRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF 210
R+Y G L +K I+ D P ++ F
Sbjct: 199 MRIYGA-------GILSSKSESIYCLDSASPNRVGF 227
>pdb|1LTU|A Chain A, Crystal Structure Of Chromobacterium Violaceum, Apo (No
Iron Bound) Structure
pdb|1LTV|A Chain A, Crystal Structure Of Chromobacterium Violaceum
Phenylalanine Hydroxylase, Structure With Bound Oxidized
Fe(Iii)
pdb|1LTZ|A Chain A, Crystal Structure Of Chromobacterium Violaceum
Phenylalanine Hydroxylase, Structure Has Bound Iron
(iii) And Oxidized Cofactor 7,8-dihydrobiopterin
Length = 297
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 13/96 (13%)
Query: 121 PEIWNSPYSHDSF---PVYAEDIDA---GGDASPSTAMLSEVARLLKITIVGGSIPERSG 174
P++++ + H PV+A+ ++A GG + + L +ARL T+ G I +G
Sbjct: 134 PDVFHDLFGHVPLLINPVFADYLEAYGKGGVKAKALGALPMLARLYWYTVEFGLINTPAG 193
Query: 175 DRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF 210
R+Y G L +K I+ D P ++ F
Sbjct: 194 MRIYGA-------GILSSKSESIYCLDSASPNRVGF 222
>pdb|1Y8N|A Chain A, Crystal Structure Of The Pdk3-L2 Complex
pdb|1Y8O|A Chain A, Crystal Structure Of The Pdk3-L2 Complex
pdb|1Y8P|A Chain A, Crystal Structure Of The Pdk3-L2 Complex
pdb|2Q8I|A Chain A, Pyruvate Dehydrogenase Kinase Isoform 3 In Complex With
Antitumor Drug Radicicol
pdb|2PNR|A Chain A, Crystal Structure Of The Asymmetric Pdk3-L2 Complex
pdb|2PNR|B Chain B, Crystal Structure Of The Asymmetric Pdk3-L2 Complex
pdb|2PNR|E Chain E, Crystal Structure Of The Asymmetric Pdk3-L2 Complex
pdb|2PNR|F Chain F, Crystal Structure Of The Asymmetric Pdk3-L2 Complex
Length = 419
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 138 EDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDRLYN 179
ED G A + L + +KI+ +GG +P R DRL+N
Sbjct: 274 EDRKEGYPAVKTLVTLGKEDLSIKISDLGGGVPLRKIDRLFN 315
>pdb|3C1O|A Chain A, The Multiple Phenylpropene Synthases In Both Clarkia
Breweri And Petunia Hybrida Represent Two Distinct
Lineages
Length = 321
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 128 YSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERS 173
+SH +F +YA + D++PS+ L E R + +TI+ G + E
Sbjct: 27 FSHPTF-IYARPLTP--DSTPSSVQLREEFRSMGVTIIEGEMEEHE 69
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
0.318 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,792,668
Number of Sequences: 62578
Number of extensions: 195999
Number of successful extensions: 307
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 291
Number of HSP's gapped (non-prelim): 17
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)