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= psy12521
(313 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 340 bits (873), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 164/240 (68%), Positives = 187/240 (77%), Gaps = 6/240 (2%)
Query: 74 FFPQLCIKYNMVIVSPILERD-DVTDIIWNTAVVINNHGRVMGKHRKNHIPRVGDFNEST 132
+L YNMVI+ ILERD + + IWNTAVVI+N GR +GKHRKNHIPRVGDFNEST
Sbjct: 151 MLAELAKAYNMVIIHSILERDMEHGETIWNTAVVISNSGRYLGKHRKNHIPRVGDFNEST 210
Query: 133 YYFEGNTGHPVFETEFGRIAINICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLWG 192
YY EGNTGHPVFETEFG++A+NICYGRHHP NW+MFGLNGAEIVFNPSATI LSEPLW
Sbjct: 211 YYMEGNTGHPVFETEFGKLAVNICYGRHHPQNWMMFGLNGAEIVFNPSATIGRLSEPLWS 270
Query: 193 IEARNAAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPG 252
IEARNAAIAN YFT INRVG+E FPN++TSGDG AH +FG FYGSSY+ AP+G+RTP
Sbjct: 271 IEARNAAIANSYFTVPINRVGTEQFPNEYTSGDGNKAHKEFGPFYGSSYVAAPDGSRTPS 330
Query: 253 LSRVRDGLLVAELDLNLNRQVKDVWGFQASIRELVYIQSMSGPTAKLKSVTGFSSSIFPQ 312
LSR +DGLLV ELDLNL RQVKD WGF+ + R +Y +S K S GF I +
Sbjct: 331 LSRDKDGLLVVELDLNLCRQVKDFWGFRMTQRVPLYAESF-----KKASEHGFKPQIIKE 385
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/72 (58%), Positives = 51/72 (70%), Gaps = 1/72 (1%)
Query: 9 AIANGYFTCAINRVGSETFPNQFTSGDGKPAHTEFGHFYGSSYITAPNGTRTP-VSRNSS 67
AIAN YFT INRVG+E FPN++TSGDG AH EFG FYGSSY+ AP+G+RTP +SR+
Sbjct: 277 AIANSYFTVPINRVGTEQFPNEYTSGDGNKAHKEFGPFYGSSYVAAPDGSRTPSLSRDKD 336
Query: 68 IVTFDYFFPQLC 79
+ LC
Sbjct: 337 GLLVVELDLNLC 348
>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 = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 91/199 (45%), Gaps = 34/199 (17%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFN--------ESTYYFEGNTGHPVFETEFGRIA 152
+NT+++++ G+++GK+RK H+P ++ E Y+ G+ G PV++ + ++
Sbjct: 109 FNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMG 168
Query: 153 INICYGRHHPLNWLMFGLNGAEIVFN---------PSATITGLSEPLWGIEARNAAIANG 203
+ IC R P W + GL GAEI+ P L+ + + + NG
Sbjct: 169 MFICNDRRWPETWRVMGLKGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNG 228
Query: 204 YFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVA 263
++ A +VG E + G S I AP G + + D ++ A
Sbjct: 229 AWSAAAGKVGME----------------EGCMLLGHSCIVAPTGEIVALTTTLEDEVITA 272
Query: 264 ELDLNLNRQVKD-VWGFQA 281
LDL+ R++++ ++ F+A
Sbjct: 273 ALDLDRCRELREHIFNFKA 291
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 91/199 (45%), Gaps = 34/199 (17%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFN--------ESTYYFEGNTGHPVFETEFGRIA 152
+NT+++++ G+++GK+RK H+P ++ E Y+ G+ G PV++ + ++
Sbjct: 109 FNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMG 168
Query: 153 INICYGRHHPLNWLMFGLNGAEIVFN---------PSATITGLSEPLWGIEARNAAIANG 203
+ IC R P W + GL GAEI+ P L+ + + + NG
Sbjct: 169 MFICNDRRWPETWRVMGLKGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNG 228
Query: 204 YFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVA 263
++ A +VG E + G S I AP G + + D ++ A
Sbjct: 229 AWSAAAGKVGME----------------EGCMLLGHSCIVAPTGEIVALTTTLEDEVITA 272
Query: 264 ELDLNLNRQVKD-VWGFQA 281
LDL+ R++++ ++ F+A
Sbjct: 273 ALDLDRCRELREHIFNFKA 291
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 91/199 (45%), Gaps = 34/199 (17%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFN--------ESTYYFEGNTGHPVFETEFGRIA 152
+NT+++++ G+++GK+RK H+P ++ E Y+ G+ G PV++ + ++
Sbjct: 109 FNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMG 168
Query: 153 INICYGRHHPLNWLMFGLNGAEIVFN---------PSATITGLSEPLWGIEARNAAIANG 203
+ IC R P W + GL GAEI+ P L+ + + + NG
Sbjct: 169 MFICNDRRWPETWRVMGLKGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQCGSYQNG 228
Query: 204 YFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVA 263
++ A +VG E + G S I AP G + + D ++ A
Sbjct: 229 AWSAAAGKVGME----------------EGCMLLGHSCIVAPTGEIVALTTTLEDEVITA 272
Query: 264 ELDLNLNRQVKD-VWGFQA 281
LDL+ R++++ ++ F+A
Sbjct: 273 ALDLDRCRELREHIFNFKA 291
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/192 (23%), Positives = 86/192 (44%), Gaps = 33/192 (17%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFN--------ESTYYFEGNTGHPVFETEFGRIA 152
+NT+++++ G+++GK+RK H+P ++ E Y+ G+ G PV++ + ++
Sbjct: 108 FNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMG 167
Query: 153 INICYGRHHPLNWLMFGLNGAEIVFN---------PSATITGLSEPLWGIEARNAAIANG 203
+ IC R P W + GL GAEI+ P L+ + + + NG
Sbjct: 168 MFICNDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNG 227
Query: 204 YFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVA 263
++ A +VG E + G S I AP G + + D ++ A
Sbjct: 228 AWSAAAGKVGME----------------ENCMLLGHSCIVAPTGEIVALTTTLEDEVITA 271
Query: 264 ELDLNLNRQVKD 275
+DL+ R++++
Sbjct: 272 AVDLDRCRELRE 283
>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 = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/204 (28%), Positives = 93/204 (45%), Gaps = 33/204 (16%)
Query: 74 FFPQLCIKYNMVIVS-PILERDDVTDIIWNTAVVINNHGRVMGKHRKNH-----IPRVGD 127
F L K+ +++V I E D TD I+NT+++ N G+++ KHRK H IP
Sbjct: 82 FLSNLANKFKIILVGGTIPELDPKTDKIYNTSIIFNEDGKLIDKHRKVHLFDVDIPNGIS 141
Query: 128 FNESTYYFEGNTGHPVFETEFGRIAINICYGRHHPLNWLMFGLNGAEIVFNPSA--TITG 185
F+ES G + +T++G+ + ICY P ++ GA + PSA T+TG
Sbjct: 142 FHESETLSPGEKSTTI-DTKYGKFGVGICYDMRFPELAMLSARKGAFAMIYPSAFNTVTG 200
Query: 186 LSEPL-WGIEARNAAIANGYFT--CAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYI 242
PL W + AR+ A+ N + C+ R ++ H YG S +
Sbjct: 201 ---PLHWHLLARSRAVDNQVYVMLCSPARNLQSSY-----------------HAYGHSIV 240
Query: 243 TAPNGTRTPGLSRVRDGLLVAELD 266
P G + + + ++ AELD
Sbjct: 241 VDPRG-KIVAEAGEGEEIIYAELD 263
>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 = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 51/198 (25%), Positives = 87/198 (43%), Gaps = 27/198 (13%)
Query: 74 FFPQLCIKYNMVIVSPILERDDVTDIIWNTAVVINNHGRVMGKHRKNHIPRVGDFNESTY 133
F +L + + IV+ E+ + ++N+AVV+ G + GK+RK H+ + E +
Sbjct: 71 FLXELARELGLYIVAGTAEKS--GNYLYNSAVVVGPRGYI-GKYRKIHLF----YREKVF 123
Query: 134 YFEGNTGHPVFETEFGRIAINICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLWGI 193
+ G+ G VF+ F ++ + IC+ P + L GAEI+ +P+ + + I
Sbjct: 124 FEPGDLGFKVFDIGFAKVGVXICFDWFFPESARTLALKGAEIIAHPANLVXPYAPRAXPI 183
Query: 194 EARNAAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGL 253
A+ N +T +RVG E + F G S I +P
Sbjct: 184 R----ALENRVYTITADRVGEE----------------RGLKFIGKSLIASPKAEVLSIA 223
Query: 254 SRVRDGLLVAELDLNLNR 271
S + + V E+DLNL R
Sbjct: 224 SETEEEIGVVEIDLNLAR 241
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 94/208 (45%), Gaps = 31/208 (14%)
Query: 86 IVSPILERDDVTDIIWNTAVVINNHGRVMGKHRKNHIPRVGDFNESTYYFE-GNTGHPVF 144
IV+ E+D D+++N+AVV+ G +GK+RK H+ F ++FE G+ G VF
Sbjct: 83 IVAGTAEKD--GDVLYNSAVVVGPRG-FIGKYRKIHL-----FYREKFFFEPGDLGFRVF 134
Query: 145 ETEFGRIAINICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLWGIEARNAAIANGY 204
+ F ++ + I + P + L GA+++ +P+ + + I A+ N
Sbjct: 135 DLGFMKVGVMIXFDWFFPESARTLALKGADVIAHPANLVMPYAPRAMPIR----ALENKV 190
Query: 205 FTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVAE 264
+T +RVG E + F G S I +P S + + VAE
Sbjct: 191 YTVTADRVGEE----------------RGLKFIGKSLIASPKAEVLSMASETEEEVGVAE 234
Query: 265 LDLNL--NRQVKDVWGFQASIRELVYIQ 290
+DL+L N+++ D+ RE Y +
Sbjct: 235 IDLSLVRNKRINDLNDIFKDRREEYYFR 262
>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 = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 43/192 (22%), Positives = 84/192 (43%), Gaps = 33/192 (17%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFN--------ESTYYFEGNTGHPVFETEFGRIA 152
+NT+++++ G+++GK+RK H+P ++ E Y+ G+ G PV++ + ++
Sbjct: 108 FNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMG 167
Query: 153 INICYGRHHPLNWLMFGLNGAEIVFN---------PSATITGLSEPLWGIEARNAAIANG 203
+ I R P W + GL GAEI+ P L+ + + + NG
Sbjct: 168 MFIANDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNG 227
Query: 204 YFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTPGLSRVRDGLLVA 263
++ A + G E + G S I AP G + + D ++ A
Sbjct: 228 AWSAAAGKAGME----------------ENCMLLGHSCIVAPTGEIVALTTTLEDEVITA 271
Query: 264 ELDLNLNRQVKD 275
+DL+ R++++
Sbjct: 272 AVDLDRCRELRE 283
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 63/238 (26%), Positives = 97/238 (40%), Gaps = 30/238 (12%)
Query: 75 FPQLCIKYNMVIVSPILERDDVTDII--WNTAVVINNHGRVMGKHRKNH-----IPRVGD 127
+ +L K+N+ + L D +D WNT ++I++ G ++ K H IP
Sbjct: 81 YRELARKHNIWLSLGGLHHKDPSDAAHPWNTHLIIDSDGVTRAEYNKLHLFDLEIPGKVR 140
Query: 128 FNESTYYFEGNTGHPVFETEFGRIAINICYGRHHPLNWLMFGLNGAEIVFNPSATI--TG 185
ES + G P +T GR+ ++ICY P L GA+++ PSA TG
Sbjct: 141 LMESEFSKAGTEMIPPVDTPIGRLGLSICYDVRFPELSLWNRKRGAQLLSFPSAFTLNTG 200
Query: 186 LSEPLWGIEARNAAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAP 245
L+ W R AI N + A + G AH YG S + P
Sbjct: 201 LAH--WETLLRARAIENQCYVVAAAQTG---------------AHNPKRQSYGHSMVVDP 243
Query: 246 NGTRTPGLSRVRDGLLVAELDL---NLNRQVKDVWGFQASIRELVYIQSMSGPTAKLK 300
G S R + AE+DL + R+++ V+ + S ++I S T LK
Sbjct: 244 WGAVVAQCSE-RVDMCFAEIDLSYVDTLREMQPVFSHRRSDLYTLHINEKSSETGGLK 300
>pdb|2DYU|A Chain A, Helicobacter Pylori Formamidase Amif Contains A Fine-tuned
Cysteine- Glutamate-lysine Catalytic Triad
pdb|2DYU|B Chain B, Helicobacter Pylori Formamidase Amif Contains A Fine-tuned
Cysteine- Glutamate-lysine Catalytic Triad
pdb|2DYV|A Chain A, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2DYV|B Chain B, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
Length = 334
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 48/215 (22%), Positives = 91/215 (42%), Gaps = 24/215 (11%)
Query: 74 FFPQLCIKYNMVIVSPILERD-DVTDIIWNTAVVINNHGRVMGKHRKNHIPRVGDFNEST 132
+ + C + + V I+ER+ D +NTA++I+ G ++ K+RK + +N
Sbjct: 87 LYAKACKEAKVYGVFSIMERNPDSNKNPYNTAIIIDPQGEIILKYRK-----LFPWNPIE 141
Query: 133 YYFEGNTGHPVFETEFG-RIAINICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLW 191
++ G+ G PV E G ++A+ IC+ P G + S T +++ W
Sbjct: 142 PWYPGDLGMPVCEGPGGSKLAVCICHDGMIPELAREAAYKGCNVYIRISGYSTQVNDQ-W 200
Query: 192 GIEARNAAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTP 251
+ R+ A N +T ++N G + F G Q +F G++ + G R P
Sbjct: 201 ILTNRSNAWHNLMYTVSVNLAGYDNVFYYFGEG-------QICNFDGTTLV---QGHRNP 250
Query: 252 GLSRVRDGLLVAELDLNLNRQVKDVWGFQASIREL 286
++ E+ + + WG + +I L
Sbjct: 251 W------EIVTGEIYPKMADNARLSWGLENNIYNL 279
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/141 (21%), Positives = 55/141 (39%), Gaps = 17/141 (12%)
Query: 100 IWNTAVVINNHGRVMGKHRKNH-----IPRVGDFNESTYYFEGNTGHPVFETEFGRIAIN 154
++NT V G ++ KHRK H +P F ES G++ F+T + ++ +
Sbjct: 93 LYNTCSVFGPDGSLLVKHRKIHLFDIDVPGKITFQESKTLSPGDS-FSTFDTPYCKVGLG 151
Query: 155 ICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLWGIEARNAAIANGYFTCAINRVGS 214
ICY ++ G +++ P A W + R A+ N + +
Sbjct: 152 ICYDMRFAELAQIYAQRGCQLLVYPGAFNLTTGPAHWELLQRARAVDNQVYVATAS---- 207
Query: 215 ETFPNQFTSGDGKPAHTQFGH 235
+ D K ++ +GH
Sbjct: 208 -------PARDDKASYVAWGH 221
>pdb|2E2K|A Chain A, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2K|B Chain B, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2K|C Chain C, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2K|D Chain D, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2K|E Chain E, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2K|F Chain F, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|A Chain A, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|B Chain B, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|C Chain C, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|D Chain D, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|E Chain E, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
pdb|2E2L|F Chain F, Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned
Cysteine- Glutamate-Lysine Catalytic Triad
Length = 334
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 47/215 (21%), Positives = 90/215 (41%), Gaps = 24/215 (11%)
Query: 74 FFPQLCIKYNMVIVSPILERD-DVTDIIWNTAVVINNHGRVMGKHRKNHIPRVGDFNEST 132
+ + C + + V I+ER+ D +NTA++I+ G ++ K+RK + +N
Sbjct: 87 LYAKACKEAKVYGVFSIMERNPDSNKNPYNTAIIIDPQGEIILKYRK-----LFPWNPIE 141
Query: 133 YYFEGNTGHPVFETEFG-RIAINICYGRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLW 191
++ G+ G PV E G ++A+ I + P G + S T +++ W
Sbjct: 142 PWYPGDLGMPVCEGPGGSKLAVCISHDGMIPELAREAAYKGCNVYIRISGYSTQVNDQ-W 200
Query: 192 GIEARNAAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTQFGHFYGSSYITAPNGTRTP 251
+ R+ A N +T ++N G + F G Q +F G++ + G R P
Sbjct: 201 ILTNRSNAWHNLMYTVSVNLAGYDNVFYYFGEG-------QICNFDGTTLV---QGHRNP 250
Query: 252 GLSRVRDGLLVAELDLNLNRQVKDVWGFQASIREL 286
++ E+ + + WG + +I L
Sbjct: 251 W------EIVTGEIYPKMADNARLSWGLENNIYNL 279
>pdb|3HKX|A Chain A, Crystal Structure Analysis Of An Amidase From
Nesterenkonia Sp
Length = 283
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 61/165 (36%), Gaps = 26/165 (15%)
Query: 71 FDYFFPQLCIKYNMVIVSPI------LERDDVTDIIWN------------TAVVINNHGR 112
F Y Q+C + + V + RD ++W+ TA + + HG
Sbjct: 65 FGYVPSQICAQVSAEQVDAARSRLRGIARDRGIALVWSLPGPEGPEQRGITAELADEHGE 124
Query: 113 VMGKHRKNHI--PRVGDFNESTYYFEGNTGHPVFETEFGRIAINICYGRHHPLNWLMFGL 170
V+ ++K + P E + G PV ++++ +CY P
Sbjct: 125 VLASYQKVQLYGP-----EEKAAFVPGEQPPPVLSWGGRQLSLLVCYDVEFPEMVRAAAA 179
Query: 171 NGAEIVFNPSATITGLSEPLWGIEARNAAIANGYFTCAINRVGSE 215
GA++V P+A + G + GI A+ NG N G E
Sbjct: 180 RGAQLVLVPTA-LAGDETSVPGILLPARAVENGITLAYANHCGPE 223
>pdb|2PLQ|A Chain A, Crystal Structure Of The Amidase From Geobacillus Pallidus
Rapc8
Length = 348
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 52/116 (44%), Gaps = 12/116 (10%)
Query: 101 WNTAVVINNHGRVMGKHRK--NHIPRVGDF-NESTYYFEGNTGHPVFETEFGRIAINICY 157
+NT V+INN G ++ K+RK P G + ++TY EG G +I++ +C
Sbjct: 116 YNTLVLINNKGEIVQKYRKIIPWCPIEGWYPGDTTYVTEGPKGL--------KISLIVCD 167
Query: 158 GRHHPLNWLMFGLNGAEIVFNPSATITGLSEPLWGIEARNAAIANGYFTCAINRVG 213
++P W + GAE++ + E + A+ A AN + N G
Sbjct: 168 DGNYPEIWRDCAMKGAELIVRCQGYMYPAKEQQI-MMAKAMAWANNTYVAVANATG 222
>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 = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 102 NTAVVINNHGRVMGKHRKNHIPRVGDFNESTYYFEGNTGHPVFETEFGRIAINIC 156
N A V++ GRV K+H+P G F+E Y+ G+T P+ IA+ IC
Sbjct: 111 NAAAVLH-RGRVALTFAKHHLPNYGVFDEFRYFVPGDT-MPIVRLHGVDIALAIC 163
>pdb|1ZN0|B Chain B, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The
50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
Length = 655
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 16/82 (19%)
Query: 149 GRIAINICYGRHHPLNWL---------------MFGLNGAEIVFNPSATITGLSEPLWGI 193
GRIA+ C+ + H +N + M L+GA +VF+ S + SE +W
Sbjct: 32 GRIAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWR- 90
Query: 194 EARNAAIANGYFTCAINRVGSE 215
+A + F +++ G++
Sbjct: 91 QAEKYKVPRIAFANKMDKTGAD 112
>pdb|3PDK|A Chain A, Crystal Structure Of Phosphoglucosamine Mutase From B.
Anthracis
pdb|3PDK|B Chain B, Crystal Structure Of Phosphoglucosamine Mutase From B.
Anthracis
Length = 469
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 45/123 (36%), Gaps = 17/123 (13%)
Query: 5 FHSPAIANGYFTCAINRVGSETFPNQFTSGDGKPAHTEFGHFYGSSYITAPNG------- 57
F+ ANG T VG + G + GH YIT +G
Sbjct: 311 FYKALEANG-ITSDKTAVGDRYVMEEMKRGGYNLGGEQSGHIILLDYITTGDGMLSALQL 369
Query: 58 ------TRTPVSRNSSIVTFDYFFPQLCIKYNMVIVSPILERDDVTDIIWNTAVVINNHG 111
T+ P+S + +T FPQL + + LE + + +II +N G
Sbjct: 370 VNIMKMTKKPLSELAGEMTK---FPQLLVNVRVTDKKLALENEKIKEIIRVVEEEMNGDG 426
Query: 112 RVM 114
R++
Sbjct: 427 RIL 429
>pdb|2JZ4|A Chain A, Putative 32 Kda Myrosinase Binding Protein At3g16450.1
From Arabidopsis Thaliana
Length = 299
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 226 GKPAHTQFGHF---YGSSYITAPNGTRTPGLSRVRDGLLVAELDLNLNRQVKDVWGFQA 281
GKP F F Y S YITA GT DGL++ L N+Q +G +A
Sbjct: 207 GKPTLLGFEEFEIDYPSEYITAVEGTYDKIFGS--DGLIITMLRFKTNKQTSAPFGLEA 263
>pdb|2UXY|A Chain A, Aliphatic Amidase
Length = 341
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 11/79 (13%)
Query: 101 WNTAVVINNHGRVMGKHRK--NHIPRVGDF-NESTYYFEGNTGHPVFETEFGRIAINICY 157
+NT V+I+N+G ++ K+RK P G + TY EG G +I++ I
Sbjct: 116 YNTLVLIDNNGEIVQKYRKIIPWCPIEGWYPGGQTYVSEGPKGM--------KISLIIXD 167
Query: 158 GRHHPLNWLMFGLNGAEIV 176
++P W + GAE++
Sbjct: 168 DGNYPEIWRDCAMKGAELI 186
>pdb|4F4H|A Chain A, Crystal Structure Of A Glutamine Dependent Nad+ Synthetase
From Burkholderia Thailandensis
pdb|4F4H|B Chain B, Crystal Structure Of A Glutamine Dependent Nad+ Synthetase
From Burkholderia Thailandensis
Length = 565
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 101 WNTAVVINNHGRVMGKHRKNHIPRVGDFNESTYYFEGNTGHPVFETEFGRIAINICYGRH 160
+N A +I G V G +RK +P F+E YF + VFE + + IC
Sbjct: 116 YNAASLIVG-GEVAGTYRKQDLPNTEVFDEKR-YFATDAAPYVFELNGVKFGVVICEDVW 173
Query: 161 H 161
H
Sbjct: 174 H 174
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 0.137 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,741,296
Number of Sequences: 62578
Number of extensions: 493584
Number of successful extensions: 823
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 794
Number of HSP's gapped (non-prelim): 23
length of query: 313
length of database: 14,973,337
effective HSP length: 99
effective length of query: 214
effective length of database: 8,778,115
effective search space: 1878516610
effective search space used: 1878516610
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: 51 (24.3 bits)