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= 019580
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 261 bits (666), Expect = 5e-70, Method: Compositional matrix adjust.
Identities = 126/269 (46%), Positives = 177/269 (65%), Gaps = 5/269 (1%)
Query: 64 VAVAQMTSINDLAANFATSSRLVKEAASAGAKLLCLPENFSYVGDKDGDSLKVAETLDGP 123
+AV QMTS NDL NF + +++ A +++ LPE F ++G + + +A D
Sbjct: 17 IAVCQMTSDNDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFIGLNKNEQIDLAMATDCE 76
Query: 124 IMQGYCSLARESRVWLSLGGFQEKG-SDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIP 182
M+ Y LAR+ +WLSLGG K SD AH NTH+++D G R+ Y K+HLFD++IP
Sbjct: 77 YMEKYRELARKHNIWLSLGGLHHKDPSDAAHPWNTHLIIDSDGVTRAEYNKLHLFDLEIP 136
Query: 183 GGRSYKESSFTEAGKDIVA-VDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQVLLVPSAF 241
G ES F++AG +++ VD+P+GRLG ++CYD+RFPEL R + AQ+L PSAF
Sbjct: 137 GKVRLMESEFSKAGTEMIPPVDTPIGRLGLSICYDVRFPELSLWNR-KRGAQLLSFPSAF 195
Query: 242 TKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIGRLPDRL 301
T TG AHWE LLRARAIE QCYV+AAAQ G HN KR+SYG S+++DPWG V+ + +R+
Sbjct: 196 TLNTGLAHWETLLRARAIENQCYVVAAAQTGAHNPKRQSYGHSMVVDPWGAVVAQCSERV 255
Query: 302 STGIAVADIDFSLIDSVRAKMPIAKHRKS 330
+ A+ID S +D++R P+ HR+S
Sbjct: 256 D--MCFAEIDLSYVDTLREMQPVFSHRRS 282
>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 = 159 bits (402), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 93/277 (33%), Positives = 147/277 (53%), Gaps = 18/277 (6%)
Query: 60 SSVRVAVAQMTSINDLAANFATSSRLVKEAASAGAKLLCLPENF------SYVGDKDGDS 113
S+ R+A+ Q+ + + N + LV+EAA GA ++ LPE F +Y D
Sbjct: 2 STFRLALIQLQVSSIKSDNLTRACSLVREAAKQGANIVSLPECFNSPYGTTYFPD----- 56
Query: 114 LKVAETLDGPIMQGYCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRK 173
AE + G Q +A+ES ++L G E+ D L NT + G++ +RK
Sbjct: 57 --YAEKIPGESTQKLSEVAKESSIYLIGGSIPEE--DAGKLYNTCSVFGPDGSLLVKHRK 112
Query: 174 MHLFDVDIPGGRSYKESSFTEAGKDIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQ 233
+HLFD+D+PG +++ES G D+P ++G +CYD+RF EL Q+ Q Q
Sbjct: 113 IHLFDIDVPGKITFQESKTLSPGDSFSTFDTPYCKVGLGICYDMRFAEL-AQIYAQRGCQ 171
Query: 234 VLLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTV 293
+L+ P AF TG AHWE+L RARA++ Q YV A+ A ++G S ++DPWG V
Sbjct: 172 LLVYPGAFNLTTGPAHWELLQRARAVDNQVYVATASPARDDKASYVAWGHSTVVDPWGQV 231
Query: 294 IGRLPDRLSTGIAVADIDFSLIDSVRAKMPIAKHRKS 330
+ + + I +DID + +R ++PI K +++
Sbjct: 232 LTKAGTEET--ILYSDIDLKKLAEIRQQIPILKQKRA 266
>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 = 143 bits (361), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 86/278 (30%), Positives = 144/278 (51%), Gaps = 11/278 (3%)
Query: 59 ASSVRVAVAQMT-SINDLAANFATSSRLVKEA--ASAGAKLLCLPENFSYVGDKDGDSLK 115
+ ++VA+ Q++ S D AN ++ ++ A KL+ LPE F+ D K
Sbjct: 8 SQKIKVALVQLSGSSPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYSTD-QFRK 66
Query: 116 VAETLD----GPIMQGYCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTY 171
+E ++ +Q +LA + ++ L G E + NT ++ ++ G + +
Sbjct: 67 YSEVINPKEPSTSVQFLSNLANKFKIILVGGTIPELDPKTDKIYNTSIIFNEDGKLIDKH 126
Query: 172 RKMHLFDVDIPGGRSYKESSFTEAGKDIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHE 231
RK+HLFDVDIP G S+ ES G+ +D+ G+ G +CYD+RFPEL L +
Sbjct: 127 RKVHLFDVDIPNGISFHESETLSPGEKSTTIDTKYGKFGVGICYDMRFPEL-AMLSARKG 185
Query: 232 AQVLLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWG 291
A ++ PSAF VTG HW +L R+RA++ Q YV+ + A +YG S+++DP G
Sbjct: 186 AFAMIYPSAFNTVTGPLHWHLLARSRAVDNQVYVMLCSPARNLQSSYHAYGHSIVVDPRG 245
Query: 292 TVIGRLPDRLSTGIAVADIDFSLIDSVRAKMPIAKHRK 329
++ + I A++D +I+S R +P+ K R+
Sbjct: 246 KIVAEAGE--GEEIIYAELDPEVIESFRQAVPLTKQRR 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 = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 75/263 (28%), Positives = 120/263 (45%), Gaps = 25/263 (9%)
Query: 62 VRVAVAQMT-SINDLAANFATSSRLVKEAASAGAKLLCLPENF--SYVGDKDGDSLKVAE 118
V+V Q I +L N++ + +L+KEA+ GAKL+ LPE F Y + + VA+
Sbjct: 2 VKVGYIQXEPKILELDKNYSKAEKLIKEASKEGAKLVVLPELFDTGYNFESREEVFDVAQ 61
Query: 119 TL-DGPIMQGYCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLF 177
+ +G LARE +++ G ++ G+ +L N+ V+V G I YRK+HLF
Sbjct: 62 QIPEGETTTFLXELARELGLYIVAGTAEKSGN---YLYNSAVVVGPRGYI-GKYRKIHLF 117
Query: 178 DVDIPGGRSYKESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQVLL 236
Y+E F E G D ++G +C+D FPE + L + A+++
Sbjct: 118 ---------YREKVFFEPGDLGFKVFDIGFAKVGVXICFDWFFPESARTLALKG-AEIIA 167
Query: 237 VPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIGR 296
P+ I RA+E + Y I A + G+ + G SLI P V+
Sbjct: 168 HPANLVXPYAPRAXPI----RALENRVYTITADRVGEERGLK-FIGKSLIASPKAEVLS- 221
Query: 297 LPDRLSTGIAVADIDFSLIDSVR 319
+ I V +ID +L + R
Sbjct: 222 IASETEEEIGVVEIDLNLARNKR 244
>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 = 74.7 bits (182), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 75/263 (28%), Positives = 122/263 (46%), Gaps = 25/263 (9%)
Query: 62 VRVAVAQMT-SINDLAANFATSSRLVKEAASAGAKLLCLPENF--SYVGDKDGDSLKVAE 118
V+VA QM I + N++ + +L+KEA+ GA+L+ LPE F Y + + ++A+
Sbjct: 2 VKVAYVQMNPQILEPDKNYSKAEKLIKEASKQGAQLVVLPELFDTGYNFETREEVFEIAQ 61
Query: 119 TL-DGPIMQGYCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLF 177
+ +G +AR++ V++ + G EK D L N+ V+V G I YRK+HLF
Sbjct: 62 KIPEGETTTFLMDVARDTGVYI-VAGTAEKDGD--VLYNSAVVVGPRGFI-GKYRKIHLF 117
Query: 178 DVDIPGGRSYKESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQVLL 236
Y+E F E G D ++G + +D FPE + L + A V+
Sbjct: 118 ---------YREKFFFEPGDLGFRVFDLGFMKVGVMIXFDWFFPESARTLALKG-ADVIA 167
Query: 237 VPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIGR 296
P+ I RA+E + Y + A + G+ + G SLI P V+
Sbjct: 168 HPANLVMPYAPRAMPI----RALENKVYTVTADRVGEERGLK-FIGKSLIASPKAEVLS- 221
Query: 297 LPDRLSTGIAVADIDFSLIDSVR 319
+ + VA+ID SL+ + R
Sbjct: 222 MASETEEEVGVAEIDLSLVRNKR 244
>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 = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/289 (26%), Positives = 138/289 (47%), Gaps = 37/289 (12%)
Query: 59 ASSVRVAVAQMTSI-NDLAANFATSSRLVKEAASAGAKLLCLPENFSYVGDKDGDSLK-V 116
S +V + Q+ + D + N ++ ++ +A ++ LPE ++ +G L+ +
Sbjct: 18 GSHXKVQIYQLPIVFGDSSKNETQITQWFEKNXNAEVDVVVLPEXWN-----NGYDLEHL 72
Query: 117 AETLDGPIMQGYC---SLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRK 173
E D + Q + LA + +V + G ++ + NT V+ +G + + Y K
Sbjct: 73 NEKADNNLGQSFSFIKHLAEKYKVDIVAGSVSNIRNN--QIFNTAFSVNKSGQLINEYDK 130
Query: 174 MHLFDVDIPGGRSYKESSFTEAGKDI-----VAVDSPVGRLGPTVCYDLRFPELYQQLRF 228
+HL +P R E F AG+ + ++ + V +L +CYDLRFPEL LR+
Sbjct: 131 VHL----VPXLR---EHEFLTAGEYVAEPFQLSDGTYVTQL---ICYDLRFPEL---LRY 177
Query: 229 --QHEAQVLLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLI 286
+ A++ + + Q HW LL+ARAIE +VI G + E G S++
Sbjct: 178 PARSGAKIAFYVAQWPXSRLQ-HWHSLLKARAIENNXFVIGTNSTG-FDGNTEYAGHSIV 235
Query: 287 IDPWGTVIGRLPDRLSTGIAVADIDFSLIDSVRAKMPIAKHRKSIDFWK 335
I+P G ++G L + S I D++ + ++ R +P+ K K +D +K
Sbjct: 236 INPNGDLVGELNE--SADILTVDLNLNEVEQQRENIPVFKSIK-LDLYK 281
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 69/237 (29%), Positives = 105/237 (44%), Gaps = 29/237 (12%)
Query: 62 VRVAVAQ-MTSINDLAANFATSSRLVKEAASAGAKLLCLPENFSYVGDKDGDSLKVAETL 120
+R+++ Q T +D A N L+ E + + L+ LPE F+ +++ AE +
Sbjct: 4 LRISLVQGSTRWHDPAGNRDYYGALL-EPLAGQSDLVILPETFT--SGFSNEAIDKAEDM 60
Query: 121 DGPIMQGYCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVD 180
DGP + + A +R+ ++ G + ++ H +L Y K HLF
Sbjct: 61 DGPTVAWIRTQA--ARLGAAITGSVQLRTE--HGVFNRLLWATPDGALQYYDKRHLF--- 113
Query: 181 IPGGRSYKESSFTEAGKDIVAVDSPVGRLGPTVCYDLRFP---------ELYQQLRFQHE 231
R E AG++ + V+ R+ P VCYDLRFP E QL F +
Sbjct: 114 ----RFGNEHLRYAAGRERLCVEWKGWRINPQVCYDLRFPVFCRNRFDVERPGQLDFDLQ 169
Query: 232 AQVLLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIID 288
V PSA W+ LLRARAIE C+V A + G ++ GDS +ID
Sbjct: 170 LFVANWPSARAYA-----WKTLLRARAIENLCFVAAVNRVGVDGNQLHYAGDSAVID 221
>pdb|3HKX|A Chain A, Crystal Structure Analysis Of An Amidase From
Nesterenkonia Sp
Length = 283
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 118/264 (44%), Gaps = 37/264 (14%)
Query: 59 ASSVRVAVAQMTSIN-DLAANFATSSRLVKEAASAGAKLLCLPE--NFSYVGDKDGDSLK 115
S +R+A+ Q T+ D N A+ GA+LL PE F YV + +
Sbjct: 18 GSHMRIALMQHTARPLDPQHNLDLIDDAAARASEQGAQLLLTPELFGFGYVPSQICAQVS 77
Query: 116 VAETLDGPI--MQGYCSLARESRVWLSLG--GFQEKGSDDAHLCNTHVLVDDAGNIRSTY 171
AE +D ++G + VW G G +++G T L D+ G + ++Y
Sbjct: 78 -AEQVDAARSRLRGIARDRGIALVWSLPGPEGPEQRGI-------TAELADEHGEVLASY 129
Query: 172 RKMHLFDVDIPGGRSYKESSFTEAGKDIVAVDSPVGR-LGPTVCYDLRFPELYQQLRFQH 230
+K+ L+ + ++++F G+ V S GR L VCYD+ FPE+ + +
Sbjct: 130 QKVQLYGPE-------EKAAFV-PGEQPPPVLSWGGRQLSLLVCYDVEFPEMVRAAAARG 181
Query: 231 EAQVLLVPSAF----TKVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLI 286
AQ++LVP+A T V G ILL ARA+E + A G G S++
Sbjct: 182 -AQLVLVPTALAGDETSVPG-----ILLPARAVENGITLAYANHCGPEGGLVFD-GGSVV 234
Query: 287 IDPWGTVIGRLPDRLSTGIAVADI 310
+ P G +G L + G+ V D+
Sbjct: 235 VGPAGQPLGEL--GVEPGLLVVDL 256
>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 = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 65/285 (22%), Positives = 116/285 (40%), Gaps = 41/285 (14%)
Query: 85 LVKEAASAGAKLLCLPE--------NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESR 136
++ +AAS GA + PE + + + + DS E + GP+++ A E
Sbjct: 30 MLTKAASRGANFIVFPELALTTFFPRWHFTDEAELDSFYETE-MPGPVVRPLFEKAAELG 88
Query: 137 VWLSLGGFQ---EKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYK----- 188
+ +LG + E G NT +LVD +G I YRK+HL PG + Y+
Sbjct: 89 IGFNLGYAELVVEGGVKRRF--NTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPF 141
Query: 189 ---ESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQVLL----VPSA 240
E + E G D ++G +C D R+PE ++ + + A+++ P+
Sbjct: 142 QHLEKRYFEPGDLGFPVYDVDAAKMGMFICNDRRWPEAWRVMGLR-GAEIICGGYNTPTH 200
Query: 241 FTKVTGQAHWE-----ILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIG 295
V H + ++A + + + AA + G + G S I+ P G ++
Sbjct: 201 NPPVPQHDHLTSFHHLLSMQAGSYQNGAWSAAAGKVGMEENCM-LLGHSCIVAPTGEIVA 259
Query: 296 RLPDRLSTGIAVADIDFSLIDSVRAKM-PIAKHRKSIDFWKSASL 339
L L + A +D +R + +HR+ + A L
Sbjct: 260 -LTTTLEDEVITAAVDLDRCRELREHIFNFKQHRQPQHYGLIAEL 303
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 28/162 (17%)
Query: 85 LVKEAASAGAKLLCLPE--------NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESR 136
++ AAS G + PE + + + + DS E + GP+++ A E
Sbjct: 31 MLTNAASRGVNFIVFPELALTTFFPRWHFTDEAELDSFYETE-MPGPVVRPLFETAAELG 89
Query: 137 VWLSLGGFQ---EKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYK----- 188
+ +LG + E G NT +LVD +G I YRK+HL PG + Y+
Sbjct: 90 IGFNLGYAELVVEGGVKRRF--NTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPF 142
Query: 189 ---ESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQL 226
E + E G D ++G +C D R+PE ++ +
Sbjct: 143 QHLEKRYFEPGDLGFPVYDVDAAKMGMFICNDRRWPETWRVM 184
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 28/162 (17%)
Query: 85 LVKEAASAGAKLLCLPE--------NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESR 136
++ AAS G + PE + + + + DS E + GP+++ A E
Sbjct: 31 MLTNAASRGVNFIVFPELALTTFFPRWHFTDEAELDSFYETE-MPGPVVRPLFETAAELG 89
Query: 137 VWLSLGGFQ---EKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYK----- 188
+ +LG + E G NT +LVD +G I YRK+HL PG + Y+
Sbjct: 90 IGFNLGYAELVVEGGVKRRF--NTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPF 142
Query: 189 ---ESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQL 226
E + E G D ++G +C D R+PE ++ +
Sbjct: 143 QHLEKRYFEPGDLGFPVYDVDAAKMGMFICNDRRWPETWRVM 184
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 28/162 (17%)
Query: 85 LVKEAASAGAKLLCLPE--------NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESR 136
++ AAS G + PE + + + + DS E + GP+++ A E
Sbjct: 31 MLTNAASRGVNFIVFPELALTTFFPRWHFTDEAELDSFYETE-MPGPVVRPLFETAAELG 89
Query: 137 VWLSLGGFQ---EKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYK----- 188
+ +LG + E G NT +LVD +G I YRK+HL PG + Y+
Sbjct: 90 IGFNLGYAELVVEGGVKRRF--NTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPF 142
Query: 189 ---ESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQL 226
E + E G D ++G +C D R+PE ++ +
Sbjct: 143 QHLEKRYFEPGDLGFPVYDVDAAKMGMFICNDRRWPETWRVM 184
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 65/285 (22%), Positives = 116/285 (40%), Gaps = 41/285 (14%)
Query: 85 LVKEAASAGAKLLCLPE--------NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESR 136
++ +AAS GA + PE + + + + DS E + GP+++ A E
Sbjct: 30 MLTKAASRGANFIVFPELALTTFFPRWHFTDEAELDSFYETE-MPGPVVRPLFEKAAELG 88
Query: 137 VWLSLGGFQ---EKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYK----- 188
+ +LG + E G NT +LVD +G I YRK+HL PG + Y+
Sbjct: 89 IGFNLGYAELVVEGGVKRR--FNTSILVDKSGKIVGKYRKIHL-----PGHKEYEAYRPF 141
Query: 189 ---ESSFTEAGK-DIVAVDSPVGRLGPTVCYDLRFPELYQQLRFQHEAQVLL----VPSA 240
E + E G D ++G + D R+PE ++ + + A+++ P+
Sbjct: 142 QHLEKRYFEPGDLGFPVYDVDAAKMGMFIANDRRWPEAWRVMGLR-GAEIICGGYNTPTH 200
Query: 241 FTKVTGQAHWE-----ILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIG 295
V H + ++A + + + AA +AG + G S I+ P G ++
Sbjct: 201 NPPVPQHDHLTSFHHLLSMQAGSYQNGAWSAAAGKAGMEENCM-LLGHSCIVAPTGEIVA 259
Query: 296 RLPDRLSTGIAVADIDFSLIDSVRAKM-PIAKHRKSIDFWKSASL 339
L L + A +D +R + +HR+ + A L
Sbjct: 260 -LTTTLEDEVITAAVDLDRCRELREHIFNFKQHRQPQHYGLIAEL 303
>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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 46/221 (20%), Positives = 89/221 (40%), Gaps = 17/221 (7%)
Query: 60 SSVRVAVAQMTSINDLAANFATSSRLV--KEAASAGAKLLCLPENFSYVGDKDGDSLKVA 117
++++ V + S D+ N + R + +A G +L+ PE +S G L
Sbjct: 17 AAIQFPVPIVNSRKDIDHNIESIIRTLHATKAGYPGVELIIFPE-YSTQGLNTAKWLSEE 75
Query: 118 ETLDGPIMQG--YCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMH 175
LD P + Y +E++V+ + + + NT +++D G I YRK+
Sbjct: 76 FLLDVPGKETELYAKACKEAKVYGVFSIMERNPDSNKNPYNTAIIIDPQGEIILKYRKLF 135
Query: 176 LFDVDIPGGRSYKESSFTEAGKDIVAVDSPVG-RLGPTVCYDLRFPELYQQLRFQHEAQV 234
++ P + + + P G +L +C+D PEL ++ ++
Sbjct: 136 PWNPIEP---------WYPGDLGMPVCEGPGGSKLAVCICHDGMIPELAREAAYKGCNVY 186
Query: 235 LLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHN 275
+ + T+V Q W + R+ A Y ++ AG N
Sbjct: 187 IRISGYSTQVNDQ--WILTNRSNAWHNLMYTVSVNLAGYDN 225
>pdb|2UXY|A Chain A, Aliphatic Amidase
Length = 341
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 54/235 (22%), Positives = 94/235 (40%), Gaps = 22/235 (9%)
Query: 93 GAKLLCLPE-NFSYVGDKDGDSLKVAETLDGPIMQGYCSLARESRVW--LSLGGFQEKGS 149
G L+ PE + + + ++ A + G + + R++ VW SL G + +
Sbjct: 51 GMDLVVFPEYSLQGIMYDPAEMMETAVAIPGEETEIFSRACRKANVWGVFSLTGERHEEH 110
Query: 150 DDAHLCNTHVLVDDAGNIRSTYRKMHLF---DVDIPGGRSYKESSFTEAGKDIVAVDSPV 206
NT VL+D+ G I YRK+ + + PGG++Y +E K +
Sbjct: 111 PRKAPYNTLVLIDNNGEIVQKYRKIIPWCPIEGWYPGGQTY----VSEGPKGM------- 159
Query: 207 GRLGPTVCYDLRFPELYQQLRFQHEAQVLLVPSAFTKVTGQAHWEILLRARAIETQCYVI 266
++ + D +PE+++ + L+V + ++ +A A CYV
Sbjct: 160 -KISLIIXDDGNYPEIWRDCAMK--GAELIVRCQGYMYPAKDQQVMMAKAMAWANNCYV- 215
Query: 267 AAAQAGKHNDKRESYGDSLIIDPWGTVIGRLPDRLSTGIAVADIDFSLIDSVRAK 321
A A A + +G S II G +G + GI A + S I RA
Sbjct: 216 AVANAAGFDGVYSYFGHSAIIGFDGRTLGECGEE-EMGIQYAQLSLSQIRDARAN 269
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 45/221 (20%), Positives = 88/221 (39%), Gaps = 17/221 (7%)
Query: 60 SSVRVAVAQMTSINDLAANFATSSRLV--KEAASAGAKLLCLPENFSYVGDKDGDSLKVA 117
++++ V + S D+ N + R + +A G +L+ PE +S G L
Sbjct: 17 AAIQFPVPIVNSRKDIDHNIESIIRTLHATKAGYPGVELIIFPE-YSTQGLNTAKWLSEE 75
Query: 118 ETLDGPIMQG--YCSLARESRVWLSLGGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMH 175
LD P + Y +E++V+ + + + NT +++D G I YRK+
Sbjct: 76 FLLDVPGKETELYAKACKEAKVYGVFSIMERNPDSNKNPYNTAIIIDPQGEIILKYRKLF 135
Query: 176 LFDVDIPGGRSYKESSFTEAGKDIVAVDSPVG-RLGPTVCYDLRFPELYQQLRFQHEAQV 234
++ P + + + P G +L + +D PEL ++ ++
Sbjct: 136 PWNPIEP---------WYPGDLGMPVCEGPGGSKLAVCISHDGMIPELAREAAYKGCNVY 186
Query: 235 LLVPSAFTKVTGQAHWEILLRARAIETQCYVIAAAQAGKHN 275
+ + T+V Q W + R+ A Y ++ AG N
Sbjct: 187 IRISGYSTQVNDQ--WILTNRSNAWHNLMYTVSVNLAGYDN 225
>pdb|2PLQ|A Chain A, Crystal Structure Of The Amidase From Geobacillus Pallidus
Rapc8
Length = 348
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 55/240 (22%), Positives = 93/240 (38%), Gaps = 20/240 (8%)
Query: 93 GAKLLCLPENFSYVG---DKDGDSLKVAETLDGPIMQGYCSLARESRVW--LSLGGFQEK 147
G L+ PE +S +G D+D + A ++ G + +++ W SL G + +
Sbjct: 51 GMDLVVFPE-YSTMGIMYDQD-EMFATAASIPGEETAIFAEACKKADTWGVFSLTGEKHE 108
Query: 148 GSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGRSYKESSFTEAGKDIVAVDSPVG 207
+ NT VL+++ G I YRK+ + I G + TE K +
Sbjct: 109 DHPNKAPYNTLVLINNKGEIVQKYRKIIPW-CPIEGWYPGDTTYVTEGPKGL-------- 159
Query: 208 RLGPTVCYDLRFPELYQQLRFQHEAQVLLVPSAFTKVTGQAHWEILLRARAIETQCYVIA 267
++ VC D +PE+++ + L+V + ++ +A A YV A
Sbjct: 160 KISLIVCDDGNYPEIWRDCAMK--GAELIVRCQGYMYPAKEQQIMMAKAMAWANNTYV-A 216
Query: 268 AAQAGKHNDKRESYGDSLIIDPWGTVIGRLPDRLSTGIAVADIDFSLIDSVRAKMPIAKH 327
A A + +G S II G +G GI A++ S I R H
Sbjct: 217 VANATGFDGVYSYFGHSAIIGFDGRTLGECGTE-ENGIQYAEVSISQIRDFRKNAQSQNH 275
>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 = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 253 LLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIGRLPDRLSTGIAVADIDF 312
L+R RA E C A G D+ GDS+++D G V+ R P + S G V D+D
Sbjct: 203 LVRKRAQEAGCTTAYLAMIGGQ-DELVFDGDSIVVDRDGEVVARAP-QFSEGCVVLDLDL 260
>pdb|3IZ6|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 146
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 142 GGFQEKGSDDAHLCNTHVLVDDAGNIRSTYRKMHLFDVDIPGGR 185
GG Q GS H C + + + NI +KM + DVD GGR
Sbjct: 83 GGRQRNGSRPPHFCKSSGAI--SRNILQQLQKMGIIDVDPKGGR 124
>pdb|3L7N|A Chain A, Crystal Structure Of Smu.1228c
Length = 236
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 28/58 (48%)
Query: 243 KVTGQAHWEILLRARAIETQCYVIAAAQAGKHNDKRESYGDSLIIDPWGTVIGRLPDR 300
++ G A+ L + E Y+I+ +AGK + + D L++ W + LPD+
Sbjct: 95 QLMGVAYGADYLHSPKKEIGNYLISLTEAGKMDSYLSDFSDDLLVGHWHGDMPGLPDK 152
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 0.133 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,340,535
Number of Sequences: 62578
Number of extensions: 362126
Number of successful extensions: 812
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 780
Number of HSP's gapped (non-prelim): 27
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
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: 52 (24.6 bits)