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= psy11418
(553 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DPG|A Chain A, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|B Chain B, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|C Chain C, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|D Chain D, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|E Chain E, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|F Chain F, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|G Chain G, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
pdb|4DPG|H Chain H, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I
Length = 513
Score = 439 bits (1129), Expect = e-123, Method: Compositional matrix adjust.
Identities = 201/287 (70%), Positives = 248/287 (86%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVH 100
++++++RS A+ Q+K G PYPHKF V SL DFI+KYS L L ++TL VAGR+H
Sbjct: 6 NQYYKIRSQAIHQLKVNGEDPYPHKFHVDISLTDFIQKYSHLQPGDHLTDITLKVAGRIH 65
Query: 101 AIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKK 160
A R SG KL+FYDLRGEG+K+QVMAN+R Y+SEEEF K++RGDIIGV G+PGKTKK
Sbjct: 66 AKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLRRGDIIGVQGNPGKTKK 125
Query: 161 GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAY 220
GELSIIP ++TLLSPCLHMLPH+HFG+KDKETR+RQRYLDL++N+ +R KFI+R++II Y
Sbjct: 126 GELSIIPYEITLLSPCLHMLPHLHFGLKDKETRYRQRYLDLILNDFVRQKFIIRSKIITY 185
Query: 221 VRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLD 280
+R +LD LGFLE+ETPMMN+I GGA AKPF+T+HN+L+M+LYMRIAPELY KMLVVGG+D
Sbjct: 186 IRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHKMLVVGGID 245
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLISG 327
RVYE+GRQFRNEGIDLTHNPEFTTCEFYMAYADY+DLM +TE ++SG
Sbjct: 246 RVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEITEKMVSG 292
Score = 238 bits (607), Expect = 7e-63, Method: Compositional matrix adjust.
Identities = 108/150 (72%), Positives = 134/150 (89%)
Query: 337 VMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPH 396
VMAN+R Y+SEEEF K++RGDIIGV G+PGKTKKGELSIIP ++TLLSPCLHMLPH
Sbjct: 88 VMANSRNYKSEEEFIHINNKLRRGDIIGVQGNPGKTKKGELSIIPYEITLLSPCLHMLPH 147
Query: 397 MHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIA 456
+HFG+KDKETR+RQRYLDL++N+ +R KFI+R++II Y+R +LD LGFLE+ETPMMN+I
Sbjct: 148 LHFGLKDKETRYRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIP 207
Query: 457 GGATAKPFVTHHNDLNMDLYMRIAPELYLK 486
GGA AKPF+T+HN+L+M+LYMRIAPELY K
Sbjct: 208 GGAVAKPFITYHNELDMNLYMRIAPELYHK 237
Score = 79.0 bits (193), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 38/65 (58%), Positives = 45/65 (69%), Gaps = 1/65 (1%)
Query: 485 LKSTHGSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPALEAALGVKLPNPTEFDTPEAN 544
+K GSYKVTYHPDGPE G ++DFTPPFRR++M LE ALG+KLP F+T E
Sbjct: 294 VKHITGSYKVTYHPDGPE-GQAYDVDFTPPFRRINMVEELEKALGMKLPETNLFETEETR 352
Query: 545 KFLSD 549
K L D
Sbjct: 353 KILDD 357
>pdb|3BJU|A Chain A, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna
Synthetase
pdb|3BJU|B Chain B, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna
Synthetase
pdb|3BJU|C Chain C, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna
Synthetase
pdb|3BJU|D Chain D, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna
Synthetase
Length = 521
Score = 439 bits (1128), Expect = e-123, Method: Compositional matrix adjust.
Identities = 201/287 (70%), Positives = 248/287 (86%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVH 100
++++++RS A+ Q+K G PYPHKF V SL DFI+KYS L L ++TL VAGR+H
Sbjct: 6 NQYYKIRSQAIHQLKVNGEDPYPHKFHVDISLTDFIQKYSHLQPGDHLTDITLKVAGRIH 65
Query: 101 AIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKK 160
A R SG KL+FYDLRGEG+K+QVMAN+R Y+SEEEF K++RGDIIGV G+PGKTKK
Sbjct: 66 AKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLRRGDIIGVQGNPGKTKK 125
Query: 161 GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAY 220
GELSIIP ++TLLSPCLHMLPH+HFG+KDKETR+RQRYLDL++N+ +R KFI+R++II Y
Sbjct: 126 GELSIIPYEITLLSPCLHMLPHLHFGLKDKETRYRQRYLDLILNDFVRQKFIIRSKIITY 185
Query: 221 VRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLD 280
+R +LD LGFLE+ETPMMN+I GGA AKPF+T+HN+L+M+LYMRIAPELY KMLVVGG+D
Sbjct: 186 IRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHKMLVVGGID 245
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLISG 327
RVYE+GRQFRNEGIDLTHNPEFTTCEFYMAYADY+DLM +TE ++SG
Sbjct: 246 RVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEITEKMVSG 292
Score = 238 bits (607), Expect = 7e-63, Method: Compositional matrix adjust.
Identities = 108/150 (72%), Positives = 134/150 (89%)
Query: 337 VMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPH 396
VMAN+R Y+SEEEF K++RGDIIGV G+PGKTKKGELSIIP ++TLLSPCLHMLPH
Sbjct: 88 VMANSRNYKSEEEFIHINNKLRRGDIIGVQGNPGKTKKGELSIIPYEITLLSPCLHMLPH 147
Query: 397 MHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIA 456
+HFG+KDKETR+RQRYLDL++N+ +R KFI+R++II Y+R +LD LGFLE+ETPMMN+I
Sbjct: 148 LHFGLKDKETRYRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIP 207
Query: 457 GGATAKPFVTHHNDLNMDLYMRIAPELYLK 486
GGA AKPF+T+HN+L+M+LYMRIAPELY K
Sbjct: 208 GGAVAKPFITYHNELDMNLYMRIAPELYHK 237
Score = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 38/65 (58%), Positives = 45/65 (69%), Gaps = 1/65 (1%)
Query: 485 LKSTHGSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPALEAALGVKLPNPTEFDTPEAN 544
+K GSYKVTYHPDGPE G ++DFTPPFRR++M LE ALG+KLP F+T E
Sbjct: 294 VKHITGSYKVTYHPDGPE-GQAYDVDFTPPFRRINMVEELEKALGMKLPETNLFETEETR 352
Query: 545 KFLSD 549
K L D
Sbjct: 353 KILDD 357
>pdb|1LYL|A Chain A, Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexed With
Lysine
pdb|1LYL|B Chain B, Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexed With
Lysine
pdb|1LYL|C Chain C, Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexed With
Lysine
pdb|1E1O|A Chain A, Lysyl-Trna Synthetase (Lysu) Hexagonal For, Complexed With
Lysine
pdb|1E1T|A Chain A, Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed With
The Lysyl_adenylate Intermediate
pdb|1E22|A Chain A, Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed With
Lysine And The Non-Hydrolysable Atp Analogue Amp-Pcp
pdb|1E24|A Chain A, Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed With
Lysine And Atp And Mn2+
Length = 504
Score = 249 bits (635), Expect = 3e-66, Method: Compositional matrix adjust.
Identities = 135/284 (47%), Positives = 187/284 (65%), Gaps = 6/284 (2%)
Query: 44 FRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLE--NVTLSVAGRVHA 101
R R + +++QG +P+ F + + E++ D D Q LE N+ +SVAGR+
Sbjct: 18 LRNRREKLAALRQQGV-AFPNDFRRDHTSDQLHEEF-DAKDNQELESLNIEVSVAGRMMT 75
Query: 102 IRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKG 161
R G K F L+ G +IQ+ AR E + K GDIIG G+ KT+ G
Sbjct: 76 RRIMG-KASFVTLQDVGGRIQLYV-ARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQTG 133
Query: 162 ELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYV 221
ELSI +L LL+ L LP G++D+E R+RQRYLDL+ N++ R F+VR++I+A +
Sbjct: 134 ELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAI 193
Query: 222 RRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDR 281
R+++ + GF+EVETPMM +I GGA+A+PF+THHN L++D+Y+RIAPELYLK LVVGG +R
Sbjct: 194 RQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFER 253
Query: 282 VYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLI 325
V+E+ R FRNEGI + HNPEFT E YMAYADY+DL+ LTE L
Sbjct: 254 VFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLF 297
Score = 155 bits (393), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 75/169 (44%), Positives = 113/169 (66%), Gaps = 1/169 (0%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDL 415
K GDIIG G+ KT+ GELSI +L LL+ L LP G++D+E R+RQRYLDL
Sbjct: 114 KWDLGDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDL 173
Query: 416 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 475
+ N++ R F+VR++I+A +R+++ + GF+EVETPMM +I GGA+A+PF+THHN L++D+
Sbjct: 174 IANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDM 233
Query: 476 YMRIAPELYLKS-THGSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPA 523
Y+RIAPELYLK G ++ + + + + P F + ++ A
Sbjct: 234 YLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMA 282
>pdb|3E9H|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysylsulfamoyl Adenosine
pdb|3E9H|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysylsulfamoyl Adenosine
pdb|3E9H|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysylsulfamoyl Adenosine
pdb|3E9H|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysylsulfamoyl Adenosine
pdb|3E9I|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysine Hydroxamate-Amp
pdb|3E9I|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysine Hydroxamate-Amp
pdb|3E9I|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysine Hydroxamate-Amp
pdb|3E9I|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With L-Lysine Hydroxamate-Amp
pdb|3A74|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With Diadenosine Tetraphosphate (Ap4a)
pdb|3A74|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With Diadenosine Tetraphosphate (Ap4a)
pdb|3A74|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With Diadenosine Tetraphosphate (Ap4a)
pdb|3A74|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
Complexed With Diadenosine Tetraphosphate (Ap4a)
Length = 493
Score = 247 bits (631), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 138/287 (48%), Positives = 185/287 (64%), Gaps = 10/287 (3%)
Query: 44 FRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLEN-VTLSVAGRVHAI 102
R+R +++++E G P+ +F T E+ E Y DL ++ E + ++VAGR+
Sbjct: 9 LRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTK 68
Query: 103 RESGTKLMFY--DLRGEGLKIQVMANARMYQSEEEFA-SDLVKIKRGDIIGVTGSPGKTK 159
R G + D+ G+ ++I V + Q E F SDL GDI+GV G+ KTK
Sbjct: 69 RGMGKAGFAHIQDVTGQ-IQIYVRQDDVGEQQYELFKISDL-----GDIVGVRGTMFKTK 122
Query: 160 KGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIA 219
GELSI L+ L LP + G+KD E R+RQRYLDL++N + FI R+ II
Sbjct: 123 VGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNPESKKTFITRSLIIQ 182
Query: 220 YVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGL 279
+RRYLDS G+LEVETPMM+ +AGGA A+PF+THHN L+M LYMRIA EL+LK L+VGGL
Sbjct: 183 SMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGL 242
Query: 280 DRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
++VYE+GR FRNEGI HNPEFT E Y AYAD+ D+M LTE+LI+
Sbjct: 243 EKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIA 289
Score = 149 bits (375), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 74/127 (58%), Positives = 92/127 (72%)
Query: 360 GDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINE 419
GDI+GV G+ KTK GELSI L+ L LP + G+KD E R+RQRYLDL++N
Sbjct: 109 GDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNP 168
Query: 420 RIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRI 479
+ FI R+ II +RRYLDS G+LEVETPMM+ +AGGA A+PF+THHN L+M LYMRI
Sbjct: 169 ESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRI 228
Query: 480 APELYLK 486
A EL+LK
Sbjct: 229 AIELHLK 235
>pdb|1BBU|A Chain A, Lysyl-Trna Synthetase (Lyss) Complexed With Lysine
pdb|1BBW|A Chain A, Lysyl-Trna Synthetase (Lyss)
Length = 504
Score = 239 bits (609), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 139/317 (43%), Positives = 192/317 (60%), Gaps = 17/317 (5%)
Query: 18 SQQHTT-AQTVTHLNTNYTQQCLTSEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFI 76
S+QH A V LN + R + ++EQG +P+ F + +
Sbjct: 1 SEQHAQGADAVVDLNNE----------LKTRREKLANLREQGI-AFPNDFRRDHTSDQLH 49
Query: 77 EKYSDLPDAQVLE--NVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEE 134
++ D + + LE N+ ++VAGR+ R G K F L+ G +IQ+ AR E
Sbjct: 50 AEF-DGKENEELEALNIEVAVAGRMMTRRIMG-KASFVTLQDVGGRIQLYV-ARDDLPEG 106
Query: 135 EFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 194
+ K GDI+G G KTK GELSI +L LL+ L LP G++D+E R+
Sbjct: 107 VYNEQFKKWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKALRPLPDKFHGLQDQEARY 166
Query: 195 RQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHH 254
RQRYLDL+ N+ R+ F VR+QI++ +R+++ + GF+EVETPMM +I GGA A+PF+THH
Sbjct: 167 RQRYLDLISNDESRNTFKVRSQILSGIRQFMVNRGFMEVETPMMQVIPGGAAARPFITHH 226
Query: 255 NDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADY 314
N L++D+Y+RIAPELYLK LVVGG +RV+E+ R FRNEGI + HNPEFT E YMAYADY
Sbjct: 227 NALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADY 286
Query: 315 NDLMHLTEDLISGRKED 331
DL+ LTE L +D
Sbjct: 287 KDLIELTESLFRTLAQD 303
Score = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 75/169 (44%), Positives = 110/169 (65%), Gaps = 1/169 (0%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDL 415
K GDI+G G KTK GELSI +L LL+ L LP G++D+E R+RQRYLDL
Sbjct: 114 KWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKALRPLPDKFHGLQDQEARYRQRYLDL 173
Query: 416 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 475
+ N+ R+ F VR+QI++ +R+++ + GF+EVETPMM +I GGA A+PF+THHN L++D+
Sbjct: 174 ISNDESRNTFKVRSQILSGIRQFMVNRGFMEVETPMMQVIPGGAAARPFITHHNALDLDM 233
Query: 476 YMRIAPELYLKS-THGSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPA 523
Y+RIAPELYLK G ++ + + + + P F + ++ A
Sbjct: 234 YLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMA 282
>pdb|4EX5|A Chain A, Crystal Structure Of Lysyl-Trna Synthetase Lysrs From
Burkholderia Thailandensis Bound To Lysine
pdb|4EX5|B Chain B, Crystal Structure Of Lysyl-Trna Synthetase Lysrs From
Burkholderia Thailandensis Bound To Lysine
Length = 529
Score = 216 bits (550), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 122/281 (43%), Positives = 166/281 (59%), Gaps = 7/281 (2%)
Query: 47 RSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTL--SVAGRVHAIRE 104
R + +++QG YP+ F T D Y+D D + LE +L ++AGR+ R
Sbjct: 43 RRDKLRALRDQG-IAYPNDFQPTHHAADLQTAYAD-ADKEALEAKSLEVAIAGRMMLKRV 100
Query: 105 SGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELS 164
G K F ++ +IQ +E A K GDI+ G +T KGELS
Sbjct: 101 MG-KASFATVQDGSGQIQFFVTPADVGAETYDA--FKKWDLGDIVAARGVLFRTNKGELS 157
Query: 165 IIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRY 224
+ +L LL+ L LP G+ D+ETR+RQRY+DL++ R F R + IA +R++
Sbjct: 158 VKCTQLRLLAKALRPLPDKFHGLADQETRYRQRYVDLIVTPETRTTFRARTKAIASIRKF 217
Query: 225 LDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYE 284
+ F+EVETPM++ I GGA AKPFVTHHN L+M++++RIAPELYLK L+VGG +RV+E
Sbjct: 218 MGDADFMEVETPMLHPIPGGAAAKPFVTHHNALDMEMFLRIAPELYLKRLIVGGFERVFE 277
Query: 285 VGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLI 325
+ R FRNEG+ HNPEFT EFY AY DY LM TE LI
Sbjct: 278 INRNFRNEGVSPRHNPEFTMMEFYAAYTDYRWLMDFTERLI 318
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 65/131 (49%), Positives = 89/131 (67%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDL 415
K GDI+ G +T KGELS+ +L LL+ L LP G+ D+ETR+RQRY+DL
Sbjct: 135 KWDLGDIVAARGVLFRTNKGELSVKCTQLRLLAKALRPLPDKFHGLADQETRYRQRYVDL 194
Query: 416 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 475
++ R F R + IA +R+++ F+EVETPM++ I GGA AKPFVTHHN L+M++
Sbjct: 195 IVTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPIPGGAAAKPFVTHHNALDMEM 254
Query: 476 YMRIAPELYLK 486
++RIAPELYLK
Sbjct: 255 FLRIAPELYLK 265
>pdb|4AH6|A Chain A, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|B Chain B, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|C Chain C, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|D Chain D, Human Mitochondrial Aspartyl-Trna Synthetase
Length = 617
Score = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 59/194 (30%), Positives = 100/194 (51%), Gaps = 6/194 (3%)
Query: 157 KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKET-RFRQRYLDLMINERIRHKFIVRA 215
K GE+ I K LL+ C + + VK E R + RYLDL + ++++ +R+
Sbjct: 94 KMPTGEIEIKVKTAELLNACKKLPFEIKNFVKKTEALRLQYRYLDLR-SFQMQYNLRLRS 152
Query: 216 QIIAYVRRYLDSL-GFLEVETP-MMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKM 273
Q++ +R YL +L GF+++ETP + GGA K F+ + + +P+ + ++
Sbjct: 153 QMVMKMREYLCNLHGFVDIETPTLFKRTPGGA--KEFLVPSREPGKFYSLPQSPQQFKQL 210
Query: 274 LVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLISGRKEDRN 333
L+VGGLDR ++V R +R+EG PEFT + M++ D + L E L+ +
Sbjct: 211 LMVGGLDRYFQVARCYRDEGSRPDRQPEFTQIDIEMSFVDQTGIQSLIEGLLQYSWPNDK 270
Query: 334 RPCVMANARMYQSE 347
P V+ M +E
Sbjct: 271 DPVVVPFPTMTFAE 284
>pdb|1WYD|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From
Sulfolobus Tokodaii
pdb|1WYD|B Chain B, Crystal Structure Of Aspartyl-Trna Synthetase From
Sulfolobus Tokodaii
Length = 429
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 74/239 (30%), Positives = 121/239 (50%), Gaps = 23/239 (9%)
Query: 96 AGRVHAIRESGTK--LMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTG 153
AG VH +R+ G K ++ D G G ++ V N+ + +E + V RG +
Sbjct: 22 AGWVHLLRDLGGKKFIILRDKTGLG-QVVVDKNSSAFGISQELTQESVIQVRG----IVK 76
Query: 154 SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFG-VK-DKETRFRQRYLDLMINERIRHKF 211
+ + +G + + +++TLLS LP G VK D +TR R+R LDL R +
Sbjct: 77 ADKRAPRG-IELHAEEITLLSKAKAPLPLDVSGKVKADIDTRLRERVLDL---RRQEMQA 132
Query: 212 IVRAQIIAY--VRRYLDSLGFLEVETP--MMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 267
+++ Q +A R L GF+E+ TP + + GGA P + + ++ +P
Sbjct: 133 VIKIQSLALKAFRETLYKEGFIEIFTPKIIASATEGGAQLFPVIY----FGKEAFLAQSP 188
Query: 268 ELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAYADYNDLMHLTEDLI 325
+LY K L+ G ++RV+EV +R E D H EF + + MA+ADYND+M L E ++
Sbjct: 189 QLY-KELMAGVVERVFEVAPAWRAEESDTPFHLAEFISMDVEMAFADYNDVMQLLEKIL 246
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 36/127 (28%), Positives = 62/127 (48%), Gaps = 14/127 (11%)
Query: 364 GVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFG-VK-DKETRFRQRYLDLMINERI 421
G+ + + +G + + +++TLLS LP G VK D +TR R+R LDL R
Sbjct: 73 GIVKADKRAPRG-IELHAEEITLLSKAKAPLPLDVSGKVKADIDTRLRERVLDL---RRQ 128
Query: 422 RHKFIVRAQIIAY--VRRYLDSLGFLEVETP--MMNMIAGGATAKPFVTHHNDLNMDLYM 477
+ +++ Q +A R L GF+E+ TP + + GGA P + + ++
Sbjct: 129 EMQAVIKIQSLALKAFRETLYKEGFIEIFTPKIIASATEGGAQLFPVIY----FGKEAFL 184
Query: 478 RIAPELY 484
+P+LY
Sbjct: 185 AQSPQLY 191
>pdb|1C0A|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna Synthetase
: Trnaasp : Aspartyl-Adenylate Complex
Length = 585
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 70/252 (27%), Positives = 124/252 (49%), Gaps = 22/252 (8%)
Query: 85 AQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIK 144
+ V + VTL G V+ R+ G+ L+F D+R +QV + + A L
Sbjct: 12 SHVGQQVTL--CGWVNRRRDLGS-LIFIDMRDREGIVQVF-----FDPDRADALKLASEL 63
Query: 145 RGDI-IGVTGSP-GKTKK--------GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 194
R + I VTG+ + +K GE+ ++ LT+++ +LP V +E R
Sbjct: 64 RNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRA-DVLPLDSNHVNTEEARL 122
Query: 195 RQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHH 254
+ RYLDL E + + RA+I + VRR++D GFL++ETPM+ A A+ ++
Sbjct: 123 KYRYLDLRRPE-MAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTK-ATPEGARDYLVPS 180
Query: 255 NDLNMDLY-MRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYAD 313
Y + +P+L+ ++L++ G DR Y++ + FR+E + PEFT + ++
Sbjct: 181 RVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQPEFTQIDVETSFMT 240
Query: 314 YNDLMHLTEDLI 325
+ + E L+
Sbjct: 241 APQVREVMEALV 252
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 375 GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAY 434
GE+ ++ LT+++ +LP V +E R + RYLDL E + + RA+I +
Sbjct: 90 GEIEVLASSLTIINRA-DVLPLDSNHVNTEEARLKYRYLDLRRPE-MAQRLKTRAKITSL 147
Query: 435 VRRYLDSLGFLEVETPMM 452
VRR++D GFL++ETPM+
Sbjct: 148 VRRFMDDHGFLDIETPML 165
>pdb|3A5Y|A Chain A, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|B Chain B, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|C Chain C, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|D Chain D, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
Length = 345
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 46/124 (37%), Positives = 68/124 (54%), Gaps = 13/124 (10%)
Query: 211 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVTHH----NDLNMDL 261
+ RA I+A +RR+ G LEVETP M+ AT PF T + M+L
Sbjct: 36 LLKRAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLVPFETRFVGPGHSQGMNL 91
Query: 262 YMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLT 321
++ +PE ++K L+V G V+++ R FRNE + HNPEFT E+Y + D LM+
Sbjct: 92 WLMTSPEYHMKRLLVAGCGPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEV 151
Query: 322 EDLI 325
+DL+
Sbjct: 152 DDLL 155
Score = 35.4 bits (80), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 13/71 (18%)
Query: 425 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVTHH----NDLNMDL 475
+ RA I+A +RR+ G LEVETP M+ AT PF T + M+L
Sbjct: 36 LLKRAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLVPFETRFVGPGHSQGMNL 91
Query: 476 YMRIAPELYLK 486
++ +PE ++K
Sbjct: 92 WLMTSPEYHMK 102
>pdb|1EQR|A Chain A, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1EQR|B Chain B, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1EQR|C Chain C, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1IL2|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna
Synthetase:yeast Trnaasp:aspartyl-Adenylate Complex
pdb|1IL2|B Chain B, Crystal Structure Of The E. Coli Aspartyl-Trna
Synthetase:yeast Trnaasp:aspartyl-Adenylate Complex
Length = 590
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 70/252 (27%), Positives = 124/252 (49%), Gaps = 22/252 (8%)
Query: 85 AQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIK 144
+ V + VTL G V+ R+ G+ L+F D+R +QV + + A L
Sbjct: 12 SHVGQQVTL--CGWVNRRRDLGS-LIFIDMRDREGIVQVF-----FDPDRADALKLASEL 63
Query: 145 RGDI-IGVTGSP-GKTKK--------GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 194
R + I VTG+ + +K GE+ ++ LT+++ +LP V +E R
Sbjct: 64 RNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRA-DVLPLDSNHVNTEEARL 122
Query: 195 RQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHH 254
+ RYLDL E + + RA+I + VRR++D GFL++ETPM+ A A+ ++
Sbjct: 123 KYRYLDLRRPE-MAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTK-ATPEGARDYLVPS 180
Query: 255 NDLNMDLY-MRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYAD 313
Y + +P+L+ ++L++ G DR Y++ + FR+E + PEFT + ++
Sbjct: 181 RVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQPEFTQIDVETSFMT 240
Query: 314 YNDLMHLTEDLI 325
+ + E L+
Sbjct: 241 APQVREVMEALV 252
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 375 GELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAY 434
GE+ ++ LT+++ +LP V +E R + RYLDL E + + RA+I +
Sbjct: 90 GEIEVLASSLTIINRA-DVLPLDSNHVNTEEARLKYRYLDLRRPE-MAQRLKTRAKITSL 147
Query: 435 VRRYLDSLGFLEVETPMM 452
VRR++D GFL++ETPM+
Sbjct: 148 VRRFMDDHGFLDIETPML 165
>pdb|3A5Z|A Chain A, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|C Chain C, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|E Chain E, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|G Chain G, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
Length = 328
Score = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 46/121 (38%), Positives = 67/121 (55%), Gaps = 13/121 (10%)
Query: 214 RAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVTHH----NDLNMDLYMR 264
RA I+A +RR+ G LEVETP M+ AT PF T + M+L++
Sbjct: 22 RAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLVPFETRFVGPGHSQGMNLWLM 77
Query: 265 IAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDL 324
+PE ++K L+V G V+++ R FRNE + HNPEFT E+Y + D LM+ +DL
Sbjct: 78 TSPEYHMKRLLVAGCGPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVDDL 137
Query: 325 I 325
+
Sbjct: 138 L 138
Score = 35.4 bits (80), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 13/68 (19%)
Query: 428 RAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVTHH----NDLNMDLYMR 478
RA I+A +RR+ G LEVETP M+ AT PF T + M+L++
Sbjct: 22 RAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLVPFETRFVGPGHSQGMNLWLM 77
Query: 479 IAPELYLK 486
+PE ++K
Sbjct: 78 TSPEYHMK 85
>pdb|3G1Z|A Chain A, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
pdb|3G1Z|B Chain B, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
Length = 326
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/126 (37%), Positives = 67/126 (53%), Gaps = 17/126 (13%)
Query: 211 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVT------HHNDLNM 259
+ RA I+A +RR+ G LEVETP M+ AT PF T H +N
Sbjct: 17 LLKRAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLFPFETRFVGPGHSQGIN- 71
Query: 260 DLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMH 319
LY+ +PE ++K L+ G V+++ R FRNE + HNPEFT E+Y + D LM+
Sbjct: 72 -LYLMTSPEYHMKRLLAAGCGPVFQLCRSFRNEEMGRHHNPEFTMLEWYRPHYDMYRLMN 130
Query: 320 LTEDLI 325
+DL+
Sbjct: 131 EVDDLL 136
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 36/73 (49%), Gaps = 17/73 (23%)
Query: 425 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK-----PFVT------HHNDLNM 473
+ RA I+A +RR+ G LEVETP M+ AT PF T H +N
Sbjct: 17 LLKRAAIMAEIRRFFADRGVLEVETPCMSQ----ATVTDIHLFPFETRFVGPGHSQGIN- 71
Query: 474 DLYMRIAPELYLK 486
LY+ +PE ++K
Sbjct: 72 -LYLMTSPEYHMK 83
>pdb|1B8A|A Chain A, Aspartyl-trna Synthetase
pdb|1B8A|B Chain B, Aspartyl-trna Synthetase
Length = 438
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 66/245 (26%), Positives = 117/245 (47%), Gaps = 12/245 (4%)
Query: 88 LENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGD 147
L + VAG V +++ G + F +R +Q+ A + + + E + K++ D
Sbjct: 14 LNGQKVKVAGWVWEVKDLGG-IKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSED 70
Query: 148 IIGVTGSPGKTKKGELS--IIPKKLTLLSPCLHMLPHMHFGVKDKE--TRFRQRYLDLMI 203
++ V G T K +L I+P+K+ +L+ LP G E TR R++DL
Sbjct: 71 VVAVEGVVNFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVKAELDTRLNNRFMDLRR 130
Query: 204 NERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYM 263
E + F +R+ + VR + GF+E+ TP + A + F + D ++
Sbjct: 131 PE-VMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKY--FEEDAFL 187
Query: 264 RIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAY-ADYNDLMHLT 321
+P+LY ++++ GLDRVYE+ FR E + T H E + + MA+ D ++M
Sbjct: 188 AESPQLYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFL 247
Query: 322 EDLIS 326
E L++
Sbjct: 248 ERLVA 252
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 62/133 (46%), Gaps = 7/133 (5%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELS--IIPKKLTLLSPCLHMLPHMHFGVKDKE--TRFRQR 411
K++ D++ V G T K +L I+P+K+ +L+ LP G E TR R
Sbjct: 65 KLRSEDVVAVEGVVNFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVKAELDTRLNNR 124
Query: 412 YLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDL 471
++DL E + F +R+ + VR + GF+E+ TP + A + F +
Sbjct: 125 FMDLRRPE-VMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKY--F 181
Query: 472 NMDLYMRIAPELY 484
D ++ +P+LY
Sbjct: 182 EEDAFLAESPQLY 194
>pdb|3NEL|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartic Acid
pdb|3NEL|B Chain B, Aspartyl-Trna Synthetase Complexed With Aspartic Acid
pdb|3NEM|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartyl Adenylate
pdb|3NEM|B Chain B, Aspartyl-Trna Synthetase Complexed With Aspartyl Adenylate
pdb|3NEN|A Chain A, Unliganded Aspartyl-Trna Synthetase From Thermococcus
Kodakarensis
pdb|3NEN|B Chain B, Unliganded Aspartyl-Trna Synthetase From Thermococcus
Kodakarensis
Length = 438
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 66/245 (26%), Positives = 117/245 (47%), Gaps = 12/245 (4%)
Query: 88 LENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGD 147
L + VAG V +++ G + F +R +Q+ A + + + E + K++ D
Sbjct: 14 LNGQKVKVAGWVWEVKDLGG-IKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSED 70
Query: 148 IIGVTGSPGKTKKGELS--IIPKKLTLLSPCLHMLPHMHFGVKDKE--TRFRQRYLDLMI 203
++ V G T K +L I+P+K+ +L+ LP G E TR R++DL
Sbjct: 71 VVAVEGVVNFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVKAELDTRLDNRFMDLRR 130
Query: 204 NERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYM 263
E + F +R+ + VR + GF+E+ TP + A + F + D ++
Sbjct: 131 PE-VMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKY--FEEDAFL 187
Query: 264 RIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAY-ADYNDLMHLT 321
+P+LY ++++ GLDRVYE+ FR E + T H E + + MA+ D ++M
Sbjct: 188 AQSPQLYKQIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFL 247
Query: 322 EDLIS 326
E L++
Sbjct: 248 ERLVA 252
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 62/133 (46%), Gaps = 7/133 (5%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELS--IIPKKLTLLSPCLHMLPHMHFGVKDKE--TRFRQR 411
K++ D++ V G T K +L I+P+K+ +L+ LP G E TR R
Sbjct: 65 KLRSEDVVAVEGVVNFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVKAELDTRLDNR 124
Query: 412 YLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDL 471
++DL E + F +R+ + VR + GF+E+ TP + A + F +
Sbjct: 125 FMDLRRPE-VMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKY--F 181
Query: 472 NMDLYMRIAPELY 484
D ++ +P+LY
Sbjct: 182 EEDAFLAQSPQLY 194
>pdb|1EFW|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1EFW|B Chain B, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1G51|A Chain A, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1G51|B Chain B, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1L0W|A Chain A, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
pdb|1L0W|B Chain B, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
Length = 580
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 35/123 (28%), Positives = 67/123 (54%), Gaps = 6/123 (4%)
Query: 204 NERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYM 263
N R+RH+ +I + +LD GF++VETP + V + ++ + +
Sbjct: 143 NLRLRHR------VIKAIWDFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYAL 196
Query: 264 RIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTED 323
+P+L+ +ML+V GLDR +++ R FR+E + P+FT + M++ + D++ L E
Sbjct: 197 PQSPQLFKQMLMVAGLDRYFQIARCFRDEDLRADRQPDFTQLDLEMSFVEVEDVLELNER 256
Query: 324 LIS 326
L++
Sbjct: 257 LMA 259
>pdb|1N9W|A Chain A, Crystal Structure Of The Non-Discriminating And Archaeal-
Type Aspartyl-Trna Synthetase From Thermus Thermophilus
pdb|1N9W|B Chain B, Crystal Structure Of The Non-Discriminating And Archaeal-
Type Aspartyl-Trna Synthetase From Thermus Thermophilus
pdb|3KFU|A Chain A, Crystal Structure Of The Transamidosome
pdb|3KFU|B Chain B, Crystal Structure Of The Transamidosome
pdb|3KFU|C Chain C, Crystal Structure Of The Transamidosome
pdb|3KFU|D Chain D, Crystal Structure Of The Transamidosome
Length = 422
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 55/187 (29%), Positives = 88/187 (47%), Gaps = 14/187 (7%)
Query: 145 RGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLP---HMHFGVKDKETRFRQRYLDL 201
RG ++ +PG L + K++ +LSP L P + +T RY+ L
Sbjct: 62 RGLVVENAKAPGG-----LEVQAKEVEVLSPALEPTPVEIPKEEWRANPDTLLEYRYVTL 116
Query: 202 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 261
E+ R V+A ++ RRYLD F E+ TP ++ GA + +
Sbjct: 117 R-GEKARAPLKVQAALVRGFRRYLDRQDFTEIFTP--KVVRAGAEGGSGLFGVDYFEKRA 173
Query: 262 YMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAY-ADYNDLMH 319
Y+ +P+LY K ++VG +RVYEV +R E + H E+ + + M + AD DLM
Sbjct: 174 YLAQSPQLY-KQIMVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMR 232
Query: 320 LTEDLIS 326
L E L++
Sbjct: 233 LEEALLA 239
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 61/142 (42%), Gaps = 11/142 (7%)
Query: 359 RGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLP---HMHFGVKDKETRFRQRYLDL 415
RG ++ +PG L + K++ +LSP L P + +T RY+ L
Sbjct: 62 RGLVVENAKAPGG-----LEVQAKEVEVLSPALEPTPVEIPKEEWRANPDTLLEYRYVTL 116
Query: 416 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 475
E+ R V+A ++ RRYLD F E+ TP ++ GA + +
Sbjct: 117 R-GEKARAPLKVQAALVRGFRRYLDRQDFTEIFTP--KVVRAGAEGGSGLFGVDYFEKRA 173
Query: 476 YMRIAPELYLKSTHGSYKVTYH 497
Y+ +P+LY + G ++ Y
Sbjct: 174 YLAQSPQLYKQIMVGVFERVYE 195
>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From
Yeast
Length = 487
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 73/279 (26%), Positives = 121/279 (43%), Gaps = 42/279 (15%)
Query: 78 KYSDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFA 137
K+ DL +A+ + L A RVH R+ G L F LR + IQ + A E +
Sbjct: 25 KFVDLDEAKDSDKEVLFRA-RVHNTRQQGATLAFLTLRQQASLIQGLVKA---NKEGTIS 80
Query: 138 SDLVK-----------IKRGDIIGVTGSPGKTKKGE-LSIIPKKLTLLSPCLHMLPHM-- 183
++VK + RG I+ P K+ + L I K+ +S LP +
Sbjct: 81 KNMVKWAGSLNLESIVLVRG-IVKKVDEPIKSATVQNLEIHITKIYTISETPEALPILLE 139
Query: 184 ------------HFGVKDKETRFRQRYLDL--MINERIRHKFIVRAQIIAYVRRYLDSLG 229
V + +TR R +DL + N+ I F ++A + R YL +
Sbjct: 140 DASRSEAEAEAAGLPVVNLDTRLDYRVIDLRTVTNQAI---FRIQAGVCELFREYLATKK 196
Query: 230 FLEVETP-MMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQ 288
F EV TP ++ + G ++ VT+ Y+ +P+ + L+V +RVYE+G
Sbjct: 197 FTEVHTPKLLGAPSEGGSSVFEVTY---FKGKAYLAQSPQFNKQQLIVADFERVYEIGPV 253
Query: 289 FRNEGIDL-THNPEFTTCEFYMAYAD-YNDLMHLTEDLI 325
FR E + H EFT + MA+ + Y++++ +L
Sbjct: 254 FRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELF 292
>pdb|1ASY|A Chain A, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASY|B Chain B, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASZ|A Chain A, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
pdb|1ASZ|B Chain B, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
Length = 490
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 73/279 (26%), Positives = 121/279 (43%), Gaps = 42/279 (15%)
Query: 78 KYSDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFA 137
K+ DL +A+ + L A RVH R+ G L F LR + IQ + A E +
Sbjct: 28 KFVDLDEAKDSDKEVLFRA-RVHNTRQQGATLAFLTLRQQASLIQGLVKA---NKEGTIS 83
Query: 138 SDLVK-----------IKRGDIIGVTGSPGKTKKGE-LSIIPKKLTLLSPCLHMLPHM-- 183
++VK + RG I+ P K+ + L I K+ +S LP +
Sbjct: 84 KNMVKWAGSLNLESIVLVRG-IVKKVDEPIKSATVQNLEIHITKIYTISETPEALPILLE 142
Query: 184 ------------HFGVKDKETRFRQRYLDL--MINERIRHKFIVRAQIIAYVRRYLDSLG 229
V + +TR R +DL + N+ I F ++A + R YL +
Sbjct: 143 DASRSEAEAEAAGLPVVNLDTRLDYRVIDLRTVTNQAI---FRIQAGVCELFREYLATKK 199
Query: 230 FLEVETP-MMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQ 288
F EV TP ++ + G ++ VT+ Y+ +P+ + L+V +RVYE+G
Sbjct: 200 FTEVHTPKLLGAPSEGGSSVFEVTY---FKGKAYLAQSPQFNKQQLIVADFERVYEIGPV 256
Query: 289 FRNEGIDL-THNPEFTTCEFYMAYAD-YNDLMHLTEDLI 325
FR E + H EFT + MA+ + Y++++ +L
Sbjct: 257 FRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELF 295
>pdb|3I7F|A Chain A, Aspartyl Trna Synthetase From Entamoeba Histolytica
pdb|3I7F|B Chain B, Aspartyl Trna Synthetase From Entamoeba Histolytica
Length = 548
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 190 KETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKP 249
++TR R LDL I F +++ R +L S F+E+ TP + + +
Sbjct: 224 QDTRLDNRMLDLRTVTNI-AIFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNI 282
Query: 250 FVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDL-THNPEFTTCEFY 308
F + D Y+ +P+LY +M ++G +V+EVG FR E + H EF +
Sbjct: 283 FEVKYFDRKA--YLAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIE 340
Query: 309 MAYAD-YNDLMHLTEDLIS 326
M + Y++ + + E L +
Sbjct: 341 MEIVENYHECIDVMEKLFT 359
>pdb|1X54|A Chain A, Crystal Structure Of Asparaginyl-trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-adenylate
pdb|1X55|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-Adenylate Analogue
pdb|1X56|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii
Length = 434
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 57/117 (48%), Gaps = 8/117 (6%)
Query: 213 VRAQIIAYVRRYLDSLGFLEVETPMM--NMIAGGATAKPFVTHHNDLNMDLYMRIAPELY 270
V+ +I R +L G+ EV P++ + GGAT F + D Y+ + +LY
Sbjct: 137 VKETLIMAAREWLLKDGWHEVFPPILVTGAVEGGATL--FKLKYFDKYA--YLSQSAQLY 192
Query: 271 LKMLVVGGLDRVYEVGRQFRNE-GIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
L+ + G L++V+ + FR E H EF E A+ D D+M + E+L+S
Sbjct: 193 LEAAIFG-LEKVWSLTPSFRAEKSRTRRHLTEFWHLELEAAWMDLWDIMKVEEELVS 248
>pdb|1KRS|A Chain A, Solution Structure Of The Anticodon Binding Domain Of
Escherichia Coli Lysyl-Trna Synthetase And Studies Of
Its Interactions With Trna-Lys
pdb|1KRT|A Chain A, Solution Structure Of The Anticodon Binding Domain Of
Escherichia Coli Lysyl-Trna Synthetase And Studies Of
Its Interactions With Trna-Lys
Length = 120
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 44/87 (50%), Gaps = 2/87 (2%)
Query: 90 NVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDII 149
N+ ++VAGR+ R G K F L+ G +IQ+ AR E + K GDI+
Sbjct: 36 NIEVAVAGRMMTRRIMG-KASFVTLQDVGGRIQLYV-ARDDLPEGVYNEQFKKWDLGDIL 93
Query: 150 GVTGSPGKTKKGELSIIPKKLTLLSPC 176
G G KTK GELSI +L LL+
Sbjct: 94 GAKGKLFKTKTGELSIHCTELRLLTKA 120
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 20/35 (57%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPC 390
K GDI+G G KTK GELSI +L LL+
Sbjct: 86 KWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKA 120
>pdb|3P8T|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
pdb|3P8T|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
pdb|3P8V|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Aspartic Acid
pdb|3P8V|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Aspartic Acid
pdb|3P8Y|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Asparagine
pdb|3P8Y|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Asparagine
pdb|3REU|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Aspartic Acid And Adenosine
Triphosphate
pdb|3REU|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Aspartic Acid And Adenosine
Triphosphate
pdb|3REX|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With Adenosine Monophosphate
pdb|3REX|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With Adenosine Monophosphate
pdb|3RL6|A Chain A, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Asparagine And Adenosine Monophosphate
pdb|3RL6|B Chain B, Crystal Structure Of The Archaeal Asparagine Synthetase A
Complexed With L-Asparagine And Adenosine Monophosphate
Length = 294
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 73/168 (43%), Gaps = 16/168 (9%)
Query: 202 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 261
+I+ I ++ +I+ Y+ ++ GF + M++ I P +D+
Sbjct: 6 IISRDIYKAIDIQTKILDYMTKFFTDRGFKWLLPIMLSPITDPLWPDPAGEGIRPAEVDV 65
Query: 262 Y---MRIAPELYL--KMLVVGGLDRVYEVGRQFRNEG---IDLTHNPEFTTCEFYMAYAD 313
Y MR+ + L ++ + GL++++ + R E D H+ EFT +F + A
Sbjct: 66 YGVRMRLTHSMILHKQLAIAMGLEKIFVLSPNIRLESRRKDDGRHSYEFTQLDFEIEGAK 125
Query: 314 YNDLMHLTEDLISG--RKEDRNRPCVMANARMYQSE------EEFASD 353
D+M L E+LI G RK + AR ++ EEF SD
Sbjct: 126 MKDVMRLIEELIYGLFRKAEEWTGREFPRARHFKVYDYKDILEEFGSD 173
>pdb|3H0G|B Chain B, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|N Chain N, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 1210
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 39/173 (22%), Positives = 68/173 (39%), Gaps = 22/173 (12%)
Query: 1 MINERIRHLPNLSGAENSQQHTTAQTVTHLNTNYTQQCLTSEFFRLRSAAVEQMKEQGPH 60
M + RI + + + + Q+ T T H + ++ Q + + PH
Sbjct: 957 MRSTRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDII------------INPH 1004
Query: 61 PYPHKFTVTSSLEDFIEKYSDLP----DAQVLENVTLSVAG---RVHAIRESGTKLMFYD 113
P + TV +E + K S L DA +VT+ R H + G ++M++
Sbjct: 1005 AIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRGFEVMYHG 1064
Query: 114 LRGEGLKIQVMANARMYQSEEEFASDLVKIK-RGDIIGVTGSP--GKTKKGEL 163
G L QV YQ + D + + RG + +T P G+++ G L
Sbjct: 1065 HTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGL 1117
>pdb|3M4P|A Chain A, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
In Complex With Asparaginyl-Adenylate
pdb|3M4P|B Chain B, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
In Complex With Asparaginyl-Adenylate
pdb|3M4P|C Chain C, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
In Complex With Asparaginyl-Adenylate
pdb|3M4P|D Chain D, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
In Complex With Asparaginyl-Adenylate
pdb|3M4Q|A Chain A, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
pdb|3M4Q|B Chain B, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs)
Length = 456
Score = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 58/257 (22%), Positives = 111/257 (43%), Gaps = 17/257 (6%)
Query: 80 SDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLR-GEGLKIQVMANARMYQSEEEFAS 138
++ DA LE ++ G + IR++ L+F +LR G G V+ + E E
Sbjct: 20 CNIRDAAGLEGKLVTFKGWAYHIRKARKTLIFVELRDGSGYCQCVIFGKEL--CEPEKVK 77
Query: 139 DLVKIKRGDIIG-VTGSPGKTKKGELS-IIPKKLTLLS-PCLHMLPHMHFGVKDKETRFR 195
L + +I G + GK E++ I+ ++ + + P + +K++
Sbjct: 78 LLTRECSLEITGRLNAYAGKNHPPEIADILNLEMQVTEWKVIGESPIDLENIINKDSSIP 137
Query: 196 QRYLDLMINERIRHK---FIVRAQIIAYVRRYLDSLGFLEVETPMM--NMIAGGATAKPF 250
Q+ + I R H +R++I Y R+Y F E++ P + GG+T F
Sbjct: 138 QKMQNRHIVIRSEHTQQVLQLRSEIQWYFRKYYHDNHFTEIQPPTIVKTQCEGGSTL--F 195
Query: 251 VTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNE-GIDLTHNPEFTTCEFYM 309
+ N Y+ + +LYL+ V+ L + + + +R E + H E+ E +
Sbjct: 196 KLQY--FNEPAYLTQSSQLYLES-VIASLGKSFCMLSSYRAEQSRTVRHLAEYLHLEAEL 252
Query: 310 AYADYNDLMHLTEDLIS 326
+ + DL++ EDL+
Sbjct: 253 PFISFEDLLNHLEDLVC 269
>pdb|2XGT|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With The Sulphamoyl Analogue Of Asparaginyl-Adenylate
pdb|2XGT|B Chain B, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With The Sulphamoyl Analogue Of Asparaginyl-Adenylate
Length = 435
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 49/256 (19%), Positives = 104/256 (40%), Gaps = 40/256 (15%)
Query: 90 NVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDII 149
N + + G +H +R G LMF+ LR +QV+ ++ Q+ D + + +
Sbjct: 11 NERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQVLLMDKLCQT-----YDALTVNTECTV 65
Query: 150 GVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRH 209
+ G+ + +G+ + P L++ ++ + G D + +D M++ R
Sbjct: 66 EIYGAIKEVPEGKEA--PNGHELIADFWKIIGNAPPGGIDNVLN-EEASVDKMLDNR--- 119
Query: 210 KFIVRAQ-----------IIAYVRRYLDSLGFLEVETPMM--NMIAGGATAKPFVTHHND 256
++R + +R + + G++EV P + + GG+T
Sbjct: 120 HLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEGGSTL--------- 170
Query: 257 LNMDL-----YMRIAPELYLKMLVVGGLDRVYEVGRQFRNE-GIDLTHNPEFTTCEFYMA 310
N+D ++ + +LYL+ + L V+ + + +R E H E+ E
Sbjct: 171 FNLDYFGEQSFLTQSSQLYLET-CIPTLGDVFCIAQSYRAEKSRTRRHLAEYAHVEAECP 229
Query: 311 YADYNDLMHLTEDLIS 326
+ +DLM E+L+
Sbjct: 230 FITLDDLMEKIEELVC 245
>pdb|2XTI|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With Atp:mg And L-Asp-Beta-Noh Adenylate:ppi:mg
pdb|2XTI|B Chain B, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With Atp:mg And L-Asp-Beta-Noh Adenylate:ppi:mg
Length = 437
Score = 32.3 bits (72), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 49/256 (19%), Positives = 104/256 (40%), Gaps = 40/256 (15%)
Query: 90 NVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDII 149
N + + G +H +R G LMF+ LR +QV+ ++ Q+ D + + +
Sbjct: 13 NERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQVLLMDKLCQT-----YDALTVNTECTV 67
Query: 150 GVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRH 209
+ G+ + +G+ + P L++ ++ + G D + +D M++ R
Sbjct: 68 EIYGAIKEVPEGKEA--PNGHELIADFWKIIGNAPPGGIDNVLN-EEASVDKMLDNR--- 121
Query: 210 KFIVRAQ-----------IIAYVRRYLDSLGFLEVETPMM--NMIAGGATAKPFVTHHND 256
++R + +R + + G++EV P + + GG+T
Sbjct: 122 HLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEGGSTL--------- 172
Query: 257 LNMDL-----YMRIAPELYLKMLVVGGLDRVYEVGRQFRNE-GIDLTHNPEFTTCEFYMA 310
N+D ++ + +LYL+ + L V+ + + +R E H E+ E
Sbjct: 173 FNLDYFGEQSFLTQSSQLYLET-CIPTLGDVFCIAQSYRAEKSRTRRHLAEYAHVEAECP 231
Query: 311 YADYNDLMHLTEDLIS 326
+ +DLM E+L+
Sbjct: 232 FITLDDLMEKIEELVC 247
>pdb|1I3Q|B Chain B, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1I50|B Chain B, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex
pdb|1K83|B Chain B, Crystal Structure Of Yeast Rna Polymerase Ii Complexed With
The Inhibitor Alpha Amanitin
pdb|1NIK|B Chain B, Wild Type Rna Polymerase Ii
pdb|1NT9|B Chain B, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|B Chain B, Rna Polymerase Ii-Tfiis Complex
pdb|1R5U|B Chain B, Rna Polymerase Ii Tfiib Complex
pdb|1SFO|B Chain B, Rna Polymerase Ii Strand Separated Elongation Complex
pdb|1R9S|B Chain B, Rna Polymerase Ii Strand Separated Elongation Complex,
Matched Nucleotide
pdb|1R9T|B Chain B, Rna Polymerase Ii Strand Separated Elongation Complex,
Mismatched Nucleotide
pdb|1TWA|B Chain B, Rna Polymerase Ii Complexed With Atp
pdb|1TWC|B Chain B, Rna Polymerase Ii Complexed With Gtp
pdb|1TWF|B Chain B, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
pdb|1TWG|B Chain B, Rna Polymerase Ii Complexed With Ctp
pdb|1TWH|B Chain B, Rna Polymerase Ii Complexed With 2'datp
pdb|1WCM|B Chain B, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|B Chain B, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|B Chain B, Complete Rna Polymerase Ii Elongation Complex With Substrate
Analogue Gmpcpp
pdb|1Y1V|B Chain B, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|B Chain B, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|2B63|B Chain B, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2B8K|B Chain B, 12-Subunit Rna Polymerase Ii
pdb|2E2H|B Chain B, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
pdb|2E2I|B Chain B, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dgtp
pdb|2E2J|B Chain B, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
Gmpcpp
pdb|2NVQ|B Chain B, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
2'dutp
pdb|2NVT|B Chain B, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Gmpcpp
pdb|2NVX|B Chain B, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dutp
pdb|2NVY|B Chain B, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
pdb|2NVZ|B Chain B, Rna Polymerase Ii Elongation Complex With Utp, Updated
112006
pdb|2JA5|B Chain B, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex A
pdb|2JA6|B Chain B, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex B
pdb|2JA7|B Chain B, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex C
pdb|2JA7|N Chain N, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex C
pdb|2JA8|B Chain B, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex D
pdb|2YU9|B Chain B, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With Utp
pdb|2R7Z|B Chain B, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|B Chain B, Elongation Complex Of Rna Polymerase Ii With Artificial Rdrp
Scaffold
pdb|2R93|B Chain B, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|B Chain B, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3CQZ|B Chain B, Crystal Structure Of 10 Subunit Rna Polymerase Ii In Complex
With The Inhibitor Alpha-Amanitin
pdb|3FKI|B Chain B, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3GTG|B Chain B, Backtracked Rna Polymerase Ii Complex With 12mer Rna
pdb|3GTJ|B Chain B, Backtracked Rna Polymerase Ii Complex With 13mer Rna
pdb|3GTK|B Chain B, Backtracked Rna Polymerase Ii Complex With 18mer Rna
pdb|3GTL|B Chain B, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
Mismatch
pdb|3GTM|B Chain B, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
pdb|3GTO|B Chain B, Backtracked Rna Polymerase Ii Complex With 15mer Rna
pdb|3GTP|B Chain B, Backtracked Rna Polymerase Ii Complex With 24mer Rna
pdb|3GTQ|B Chain B, Backtracked Rna Polymerase Ii Complex Induced By Damage
pdb|3H3V|C Chain C, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|B Chain B, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|N Chain N, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|B Chain B, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3HOW|B Chain B, Complete Rna Polymerase Ii Elongation Complex Iii With A T-U
Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|B Chain B, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|B Chain B, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|B Chain B, Complete Rna Polymerase Ii Elongation Complex Iv With A T-U
Mismatch And A Frayed Rna 3'-Guanine
pdb|3I4M|B Chain B, 8-oxoguanine Containing Rna Polymerase Ii Elongation Complex
D
pdb|3I4N|B Chain B, 8-oxoguanine Containing Rna Polymerase Ii Elongation Complex
E
pdb|3K1F|B Chain B, Crystal Structure Of Rna Polymerase Ii In Complex With Tfiib
pdb|3K7A|B Chain B, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|3M3Y|B Chain B, Rna Polymerase Ii Elongation Complex C
pdb|3M4O|B Chain B, Rna Polymerase Ii Elongation Complex B
pdb|3PO2|B Chain B, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|B Chain B, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3QT1|B Chain B, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
pdb|3RZD|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
pdb|3RZO|B Chain B, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
pdb|3S14|B Chain B, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
pdb|3S15|B Chain B, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
pdb|3S16|B Chain B, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
pdb|3S17|B Chain B, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
pdb|3S1M|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 1)
pdb|3S1N|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 2)
pdb|3S1Q|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Atp
pdb|3S1R|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Gtp
pdb|3S2D|B Chain B, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
Containing A 5br- U
pdb|3S2H|B Chain B, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
Containing A 2[prime]-Iodo Atp
pdb|3J0K|B Chain B, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
pdb|4A3C|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|B Chain B, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|B Chain B, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|B Chain B, Rna Polymerase Ii Elongation Complex Containing A Cpd Lesion
pdb|4BBR|B Chain B, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|B Chain B, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 1224
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 10/115 (8%)
Query: 59 PHPYPHKFTVTSSLEDFIEKYSDLP----DAQVLENVT---LSVAGRVHAIRESGTKLMF 111
PH P + TV +E + K + L DA ++T +S R H + G ++M+
Sbjct: 1014 PHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMY 1073
Query: 112 YDLRGEGLKIQVMANARMYQSEEEFASDLVKIK-RGDIIGVTGSP--GKTKKGEL 163
G+ L Q+ YQ D + + RG + +T P G+++ G L
Sbjct: 1074 NGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGL 1128
>pdb|1NNH|A Chain A, Hypothetical Protein From Pyrococcus Furiosus Pfu-1801964
Length = 294
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 29/134 (21%), Positives = 57/134 (42%), Gaps = 8/134 (5%)
Query: 202 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDL 261
+I+ I ++ +I+ Y+ + GF + +++ I P +++
Sbjct: 6 IISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEVEI 65
Query: 262 Y---MRIAPELYL--KMLVVGGLDRVYEVGRQFRNEG---IDLTHNPEFTTCEFYMAYAD 313
Y MR+ + L ++ + GL +++ + R E D H EFT +F + A
Sbjct: 66 YGVKMRLTHSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAK 125
Query: 314 YNDLMHLTEDLISG 327
D+M L E L+ G
Sbjct: 126 MEDIMRLIERLVYG 139
>pdb|2W57|A Chain A, Crystal Structure Of The Vibrio Cholerae Ferric Uptake
Regulator (Fur) Reveals Structural Rearrangement Of The
Dna-Binding Domains
pdb|2W57|B Chain B, Crystal Structure Of The Vibrio Cholerae Ferric Uptake
Regulator (Fur) Reveals Structural Rearrangement Of The
Dna-Binding Domains
Length = 150
Score = 29.6 bits (65), Expect = 4.8, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 12/78 (15%)
Query: 266 APELYLKMLVVG---GLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYND------ 316
A ELY K++ +G GL VY V QF + GI H+ E F ++ ++D
Sbjct: 36 AEELYKKLIDLGEEIGLATVYRVLNQFDDAGIVTRHHFEGGKSVFELSTQHHHDHLVCLD 95
Query: 317 ---LMHLTEDLISGRKED 331
++ ++D+I R+++
Sbjct: 96 CGEVIEFSDDVIEQRQKE 113
>pdb|2A7O|A Chain A, Solution Structure Of The Hset2HYPB SRI DOMAIN
Length = 112
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 178 HMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLG 229
H+ + GV +KE ++ + DL NE ++HK Y+++Y+ G
Sbjct: 55 HLARKLTHGVMNKELKYCKNPEDLECNENVKHK------TKEYIKKYMQKFG 100
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 392 HMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLG 443
H+ + GV +KE ++ + DL NE ++HK Y+++Y+ G
Sbjct: 55 HLARKLTHGVMNKELKYCKNPEDLECNENVKHK------TKEYIKKYMQKFG 100
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
0.321 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,028,861
Number of Sequences: 62578
Number of extensions: 725790
Number of successful extensions: 1681
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1614
Number of HSP's gapped (non-prelim): 62
length of query: 553
length of database: 14,973,337
effective HSP length: 104
effective length of query: 449
effective length of database: 8,465,225
effective search space: 3800886025
effective search space used: 3800886025
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)