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= 017888
(364 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 = 277 bits (708), Expect = 8e-75, Method: Compositional matrix adjust.
Identities = 143/281 (50%), Positives = 178/281 (63%), Gaps = 19/281 (6%)
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 FDIDIPGKITFIESKSLTAGETPTIVDTDVGRIGIGICYDIRFQELAMIYGARGAHLICY 259
FDID+PGKITF ESK+L+ G++ + DT ++G+GICYD+RF ELA IY RG L+ Y
Sbjct: 116 FDIDVPGKITFQESKTLSPGDSFSTFDTPYCKVGLGICYDMRFAELAQIYAQRGCQLLVY 175
Query: 260 PGAFNMTTGPLHWELLQRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVL--A 317
PGAFN+TTGP HWELLQRARA DNQ+YVAT SPARD+ A YVAWGHST+V P+G+VL A
Sbjct: 176 PGAFNLTTGPAHWELLQRARAVDNQVYVATASPARDDKASYVAWGHSTVVDPWGQVLTKA 235
Query: 318 TTEHXXXXXXXXXXYSILELR-----RTSLPLSKQRRGDLY 353
TE YS ++L+ R +P+ KQ+R DLY
Sbjct: 236 GTEE-------TILYSDIDLKKLAEIRQQIPILKQKRADLY 269
>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 = 242 bits (617), Expect = 3e-64, Method: Compositional matrix adjust.
Identities = 117/239 (48%), Positives = 156/239 (65%), Gaps = 3/239 (1%)
Query: 121 PEIWNSPYSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPER--SGDRLY 178
PE +NSPYS D F Y+E I+ + S S LS +A KI +VGG+IPE D++Y
Sbjct: 52 PECFNSPYSTDQFRKYSEVINPK-EPSTSVQFLSNLANKFKIILVGGTIPELDPKTDKIY 110
Query: 179 NTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTIVDTDVGRIGIGICY 238
NT +F DGKLI KHRK+HLFD+DIP I+F ES++L+ GE T +DT G+ G+GICY
Sbjct: 111 NTSIIFNEDGKLIDKHRKVHLFDVDIPNGISFHESETLSPGEKSTTIDTKYGKFGVGICY 170
Query: 239 DIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSPARDEGA 298
D+RF ELAM+ +GA + YP AFN TGPLHW LL R+RA DNQ+YV CSPAR+ +
Sbjct: 171 DMRFPELAMLSARKGAFAMIYPSAFNTVTGPLHWHLLARSRAVDNQVYVMLCSPARNLQS 230
Query: 299 GYVAWGHSTLVGPFGEVLATTEHXXXXXXXXXXYSILELRRTSLPLSKQRRGDLYQLVD 357
Y A+GHS +V P G+++A ++E R ++PL+KQRR D+Y V+
Sbjct: 231 SYHAYGHSIVVDPRGKIVAEAGEGEEIIYAELDPEVIESFRQAVPLTKQRRFDVYSDVN 289
>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 = 140 bits (352), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 72/179 (40%), Positives = 101/179 (56%), Gaps = 1/179 (0%)
Query: 178 YNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAG-ETPTIVDTDVGRIGIGI 236
+NT + SDG A++ K+HLFD++IPGK+ +ES+ AG E VDT +GR+G+ I
Sbjct: 109 WNTHLIIDSDGVTRAEYNKLHLFDLEIPGKVRLMESEFSKAGTEMIPPVDTPIGRLGLSI 168
Query: 237 CYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSPARDE 296
CYD+RF EL++ RGA L+ +P AF + TG HWE L RARA +NQ YV +
Sbjct: 169 CYDVRFPELSLWNRKRGAQLLSFPSAFTLNTGLAHWETLLRARAIENQCYVVAAAQTGAH 228
Query: 297 GAGYVAWGHSTLVGPFGEVLATTEHXXXXXXXXXXYSILELRRTSLPLSKQRRGDLYQL 355
++GHS +V P+G V+A S ++ R P+ RR DLY L
Sbjct: 229 NPKRQSYGHSMVVDPWGAVVAQCSERVDMCFAEIDLSYVDTLREMQPVFSHRRSDLYTL 287
>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 = 84.3 bits (207), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 66/237 (27%), Positives = 108/237 (45%), Gaps = 18/237 (7%)
Query: 121 PEIWNSPYSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDRLYNT 180
PE WN+ Y + A++ + S + + +A K+ IV GS+ ++++NT
Sbjct: 60 PEXWNNGYDLEHLNEKADN-----NLGQSFSFIKHLAEKYKVDIVAGSVSNIRNNQIFNT 114
Query: 181 CCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGE--TPTIVDTDVGRIGIGICY 238
G+LI ++ K+HL +P E + LTAGE +D + ICY
Sbjct: 115 AFSVNKSGQLINEYDKVHL----VP---XLREHEFLTAGEYVAEPFQLSDGTYVTQLICY 167
Query: 239 DIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYV-ATCSPARDEG 297
D+RF EL + Y AR I + A + HW L +ARA +N +V T S D
Sbjct: 168 DLRFPEL-LRYPARSGAKIAFYVAQWPXSRLQHWHSLLKARAIENNXFVIGTNSTGFDGN 226
Query: 298 AGYVAWGHSTLVGPFGEVLATTEHXXXXXXXXXXYSILELRRTSLPLSKQRRGDLYQ 354
Y GHS ++ P G+++ + +E +R ++P+ K + DLY+
Sbjct: 227 TEYA--GHSIVINPNGDLVGELNESADILTVDLNLNEVEQQRENIPVFKSIKLDLYK 281
>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 = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 64/205 (31%), Positives = 96/205 (46%), Gaps = 32/205 (15%)
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 LYNTCCVFGSDGKLIAKHRKIHLFDIDI----PGKITFIESKSLTAGETPTIVDTDVGRI 232
LYN+ V G G I K+RKIHLF + PG + F + D ++
Sbjct: 95 LYNSAVVVGPRG-YIGKYRKIHLFYREKVFFEPGDLGF------------KVFDIGFAKV 141
Query: 233 GIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSP 292
G+ IC+D F E A +GA +I +P P + RA +N++Y T
Sbjct: 142 GVXICFDWFFPESARTLALKGAEIIAHPANLVXPYAPRAXPI----RALENRVYTITADR 197
Query: 293 ARDEGAGYVAWGHSTLVGPFGEVLA 317
+E G G S + P EVL+
Sbjct: 198 VGEE-RGLKFIGKSLIASPKAEVLS 221
>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 = 71.6 bits (174), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 21/176 (11%)
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 GDRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPT-IVDTDVGRI 232
G+ ++NT V + G+ + KHRK H IP F ES G T + +T+ G++
Sbjct: 175 GETIWNTAVVISNSGRYLGKHRKNH-----IPRVGDFNESTYYMEGNTGHPVFETEFGKL 229
Query: 233 GIGICYDIRFQELAMIYGARGAHLICYPGA-FNMTTGPLHWELLQRARATDNQLYV 287
+ ICY + M++G GA ++ P A + PL W + R A N +
Sbjct: 230 AVNICYGRHHPQNWMMFGLNGAEIVFNPSATIGRLSEPL-WSIEARNAAIANSYFT 284
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/205 (29%), Positives = 94/205 (45%), Gaps = 32/205 (15%)
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 LYNTCCVFGSDGKLIAKHRKIHLFDIDI----PGKITFIESKSLTAGETPTIVDTDVGRI 232
LYN+ V G G I K+RKIHLF + PG + F + D ++
Sbjct: 95 LYNSAVVVGPRG-FIGKYRKIHLFYREKFFFEPGDLGF------------RVFDLGFMKV 141
Query: 233 GIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSP 292
G+ I +D F E A +GA +I +P M P + RA +N++Y T
Sbjct: 142 GVMIXFDWFFPESARTLALKGADVIAHPANLVMPYAPRAMPI----RALENKVYTVTADR 197
Query: 293 ARDEGAGYVAWGHSTLVGPFGEVLA 317
+E G G S + P EVL+
Sbjct: 198 VGEE-RGLKFIGKSLIASPKAEVLS 221
>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 = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 72/164 (43%), Gaps = 28/164 (17%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF--------IESKSLTAGETPT-IVD 226
R +NT + GK++ K+RKIHL PG + +E + G+ + D
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPFQHLEKRYFEPGDLGFPVYD 161
Query: 227 TDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTG-----------PLHWELL 275
D ++G+ IC D R+ E + G +GA +IC G +N T H L
Sbjct: 162 VDAAKMGMFICNDRRWPETWRVMGLKGAEIIC--GGYNTPTHNPPVPQHDHLTSFHHLLS 219
Query: 276 QRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVLATT 319
+A + N + A E G + GHS +V P GE++A T
Sbjct: 220 MQAGSYQNGAWSAAAGKVGME-EGCMLLGHSCIVAPTGEIVALT 262
>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 = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 72/164 (43%), Gaps = 28/164 (17%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF--------IESKSLTAGETPT-IVD 226
R +NT + GK++ K+RKIHL PG + +E + G+ + D
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPFQHLEKRYFEPGDLGFPVYD 161
Query: 227 TDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTG-----------PLHWELL 275
D ++G+ IC D R+ E + G +GA +IC G +N T H L
Sbjct: 162 VDAAKMGMFICNDRRWPETWRVMGLKGAEIIC--GGYNTPTHNPPVPQHDHLTSFHHLLS 219
Query: 276 QRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVLATT 319
+A + N + A E G + GHS +V P GE++A T
Sbjct: 220 MQAGSYQNGAWSAAAGKVGME-EGCMLLGHSCIVAPTGEIVALT 262
>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 = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 71/164 (43%), Gaps = 28/164 (17%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF--------IESKSLTAGETPT-IVD 226
R +NT + GK++ K+RKIHL PG + +E + G+ + D
Sbjct: 106 RRFNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPFQHLEKRYFEPGDLGFPVYD 160
Query: 227 TDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTG-----------PLHWELL 275
D ++G+ IC D R+ E + G RGA +IC G +N T H L
Sbjct: 161 VDAAKMGMFICNDRRWPEAWRVMGLRGAEIIC--GGYNTPTHNPPVPQHDHLTSFHHLLS 218
Query: 276 QRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVLATT 319
+A + N + A E + GHS +V P GE++A T
Sbjct: 219 MQAGSYQNGAWSAAAGKVGME-ENCMLLGHSCIVAPTGEIVALT 261
>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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 71/164 (43%), Gaps = 28/164 (17%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF--------IESKSLTAGETPT-IVD 226
R +NT + GK++ K+RKIHL PG + +E + G+ + D
Sbjct: 107 RRFNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPFQHLEKRYFEPGDLGFPVYD 161
Query: 227 TDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTG-----------PLHWELL 275
D ++G+ IC D R+ E + G +GA +IC G +N T H L
Sbjct: 162 VDAAKMGMFICNDRRWPETWRVMGLKGAEIIC--GGYNTPTHNPPVPQHDHLTSFHHLLS 219
Query: 276 QRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVLATT 319
+ + N + A E G + GHS +V P GE++A T
Sbjct: 220 MQCGSYQNGAWSAAAGKVGME-EGCMLLGHSCIVAPTGEIVALT 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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 71/164 (43%), Gaps = 28/164 (17%)
Query: 176 RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITF--------IESKSLTAGETPT-IVD 226
R +NT + GK++ K+RKIHL PG + +E + G+ + D
Sbjct: 106 RRFNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPFQHLEKRYFEPGDLGFPVYD 160
Query: 227 TDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTG-----------PLHWELL 275
D ++G+ I D R+ E + G RGA +IC G +N T H L
Sbjct: 161 VDAAKMGMFIANDRRWPEAWRVMGLRGAEIIC--GGYNTPTHNPPVPQHDHLTSFHHLLS 218
Query: 276 QRARATDNQLYVATCSPARDEGAGYVAWGHSTLVGPFGEVLATT 319
+A + N + A A E + GHS +V P GE++A T
Sbjct: 219 MQAGSYQNGAWSAAAGKAGME-ENCMLLGHSCIVAPTGEIVALT 261
>pdb|3HKX|A Chain A, Crystal Structure Analysis Of An Amidase From
Nesterenkonia Sp
Length = 283
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 61/206 (29%), Positives = 95/206 (46%), Gaps = 31/206 (15%)
Query: 121 PEIWNSPY--SHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIV----GGSIPERSG 174
PE++ Y S V AE +DA + + L +AR I +V G PE+ G
Sbjct: 60 PELFGFGYVPSQICAQVSAEQVDA------ARSRLRGIARDRGIALVWSLPGPEGPEQRG 113
Query: 175 DRLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTIVDTDVGR-IG 233
T + G+++A ++K+ L+ + E + GE P V + GR +
Sbjct: 114 ----ITAELADEHGEVLASYQKVQLYGPE--------EKAAFVPGEQPPPVLSWGGRQLS 161
Query: 234 IGICYDIRFQELAMIYGARGAHLICYPGAF--NMTTGPLHWELLQRARATDNQLYVATCS 291
+ +CYD+ F E+ ARGA L+ P A + T+ P +L ARA +N + +A +
Sbjct: 162 LLVCYDVEFPEMVRAAAARGAQLVLVPTALAGDETSVP---GILLPARAVENGITLAYAN 218
Query: 292 PARDEGAGYVAWGHSTLVGPFGEVLA 317
EG G V G S +VGP G+ L
Sbjct: 219 HCGPEG-GLVFDGGSVVVGPAGQPLG 243
>pdb|2PLQ|A Chain A, Crystal Structure Of The Amidase From Geobacillus Pallidus
Rapc8
Length = 348
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/182 (23%), Positives = 75/182 (41%), Gaps = 20/182 (10%)
Query: 178 YNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTIVDTDVG-RIGIGI 236
YNT + + G+++ K+RKI I + + G+T + + G +I + +
Sbjct: 116 YNTLVLINNKGEIVQKYRKI----------IPWCPIEGWYPGDTTYVTEGPKGLKISLIV 165
Query: 237 CYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSPARDE 296
C D + E+ +GA LI + M ++ +A A N YVA + +
Sbjct: 166 CDDGNYPEIWRDCAMKGAELIVRCQGY-MYPAKEQQIMMAKAMAWANNTYVAVANATGFD 224
Query: 297 GAGYVAWGHSTLVGPFGEVLAT--TEHXXXXXXXXXXYSILELRRTSLPLSKQRRGDLYQ 354
G Y +GHS ++G G L TE I + R+ + Q + L++
Sbjct: 225 GV-YSYFGHSAIIGFDGRTLGECGTEENGIQYAEVSISQIRDFRKNA-----QSQNHLFK 278
Query: 355 LV 356
L+
Sbjct: 279 LL 280
>pdb|2E11|A Chain A, The Crystal Structure Of Xc1258 From Xanthomonas
Campestris: A Cn- Hydrolase Superfamily Protein With An
Arsenic Adduct In The Active Site
pdb|2E11|B Chain B, The Crystal Structure Of Xc1258 From Xanthomonas
Campestris: A Cn- Hydrolase Superfamily Protein With An
Arsenic Adduct In The Active Site
pdb|2E11|C Chain C, The Crystal Structure Of Xc1258 From Xanthomonas
Campestris: A Cn- Hydrolase Superfamily Protein With An
Arsenic Adduct In The Active Site
pdb|2E11|D Chain D, The Crystal Structure Of Xc1258 From Xanthomonas
Campestris: A Cn- Hydrolase Superfamily Protein With An
Arsenic Adduct In The Active Site
Length = 266
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 51/204 (25%), Positives = 78/204 (38%), Gaps = 30/204 (14%)
Query: 121 PEIWNSPYSHDSFPVYAEDIDAGGDASPSTAMLSEVARLLKITIVGGSIPERSGDRLYNT 180
PE + S +S+++ AED+D P+ A + A L I G S+ R+ ++N
Sbjct: 42 PETFTSGFSNEAID-KAEDMDG-----PTVAWIRTQAARLGAAITG-SVQLRTEHGVFNR 94
Query: 181 CCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTIVDTDVGRIGIGICYDI 240
DG L + K HLF E AG V+ RI +CYD+
Sbjct: 95 LLWATPDGAL-QYYDKRHLFRFGN-------EHLRYAAGRERLCVEWKGWRINPQVCYDL 146
Query: 241 RFQELAMIYGARGAHLICYPGAFNM----------TTGPLHWELLQRARATDNQLYVATC 290
RF R + PG + + W+ L RARA +N +VA
Sbjct: 147 RFPVFC-----RNRFDVERPGQLDFDLQLFVANWPSARAYAWKTLLRARAIENLCFVAAV 201
Query: 291 SPARDEGAGYVAWGHSTLVGPFGE 314
+ +G G S ++ G+
Sbjct: 202 NRVGVDGNQLHYAGDSAVIDFLGQ 225
>pdb|2UXY|A Chain A, Aliphatic Amidase
Length = 341
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 37/143 (25%), Positives = 63/143 (44%), Gaps = 17/143 (11%)
Query: 178 YNTCCVFGSDGKLIAKHRKIHLF---DIDIPGKITFIESKSLTAGETPTIVDTDVGRIGI 234
YNT + ++G+++ K+RKI + + PG T++ E P + +I +
Sbjct: 116 YNTLVLIDNNGEIVQKYRKIIPWCPIEGWYPGGQTYVS-------EGPKGM-----KISL 163
Query: 235 GICYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQLYVATCSPAR 294
I D + E+ +GA LI + M ++ +A A N YVA + A
Sbjct: 164 IIXDDGNYPEIWRDCAMKGAELIVRCQGY-MYPAKDQQVMMAKAMAWANNCYVAVANAAG 222
Query: 295 DEGAGYVAWGHSTLVGPFGEVLA 317
+G Y +GHS ++G G L
Sbjct: 223 FDGV-YSYFGHSAIIGFDGRTLG 244
>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 = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 30/129 (23%), Positives = 54/129 (41%), Gaps = 12/129 (9%)
Query: 168 SIPERSGD---RLYNTCCVFGSDGKLIAKHRKIHLFDIDIPGKITFIESKSLTAGETPTI 224
SI ER+ D YNT + G++I K+RK+ ++ P + + + E P
Sbjct: 102 SIMERNPDSNKNPYNTAIIIDPQGEIILKYRKLFPWN---PIEPWYPGDLGMPVCEGP-- 156
Query: 225 VDTDVGRIGIGICYDIRFQELAMIYGARGAHLICYPGAFNMTTGPLHWELLQRARATDNQ 284
++ + IC+D ELA +G ++ ++ W L R+ A N
Sbjct: 157 ---GGSKLAVCICHDGMIPELAREAAYKGCNVYIRISGYSTQVND-QWILTNRSNAWHNL 212
Query: 285 LYVATCSPA 293
+Y + + A
Sbjct: 213 MYTVSVNLA 221
>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 = 28.9 bits (63), 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|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 = 28.9 bits (63), Expect = 4.3, 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|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 = 28.9 bits (63), Expect = 4.5, 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|1CLY|H Chain H, Igg Fab (Human Igg1, Kappa) Chimeric Fragment (Cbr96)
Complexed With Lewis Y Nonoate Methyl Ester
pdb|1UCB|H Chain H, Structure Of Uncomplexed Fab Compared To Complex (1cly,
1clz)
Length = 219
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 275 LQRARATDNQLYVATCSPARDEGAGYVAWGHSTLV 309
+ R ++ D +Y C+ D+GA + WG TLV
Sbjct: 83 MSRLKSEDTAMYY--CARGLDDGAWFAYWGQGTLV 115
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
0.319 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,136,188
Number of Sequences: 62578
Number of extensions: 335991
Number of successful extensions: 604
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 567
Number of HSP's gapped (non-prelim): 23
length of query: 364
length of database: 14,973,337
effective HSP length: 100
effective length of query: 264
effective length of database: 8,715,537
effective search space: 2300901768
effective search space used: 2300901768
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)