RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11418
(553 letters)
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 481 bits (1241), Expect = e-166
Identities = 172/288 (59%), Positives = 216/288 (75%), Gaps = 2/288 (0%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVH 100
+++ R VE ++ +G PYP+KF VT + + EKY L + + LE+V++SVAGR+
Sbjct: 59 TQYRANRLKKVEALRAKGVEPYPYKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIM 118
Query: 101 AIRESGTKLMFYDLRGEGLKIQVMANARMY-QSEEEFASDLVKIKRGDIIGVTGSPGKTK 159
A R G KL FYDLR +G KIQ+ A+ + EEEF + RGDI+GVTG+PGKTK
Sbjct: 119 AKRAFG-KLAFYDLRDDGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK 177
Query: 160 KGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIA 219
KGELSI P +L+ CL MLP + G+ D+ETR+RQRYLDL+ N +R F RA+II+
Sbjct: 178 KGELSIFPTSFEVLTKCLLMLPDKYHGLTDQETRYRQRYLDLIANPEVRDIFRTRAKIIS 237
Query: 220 YVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGL 279
Y+RR+LD GFLEVETPM+NMIAGGA A+PFVTHHNDLNMDLY+RIA EL+LK LVVGG
Sbjct: 238 YIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGGF 297
Query: 280 DRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLISG 327
+RVYE+GRQFRNEGI HNPEFTTCEFY AYADYND+M LTE+++SG
Sbjct: 298 ERVYEIGRQFRNEGISTRHNPEFTTCEFYQAYADYNDMMELTEEMVSG 345
Score = 254 bits (651), Expect = 1e-77
Identities = 93/151 (61%), Positives = 115/151 (76%), Gaps = 1/151 (0%)
Query: 337 VMANARMY-QSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLP 395
+ A+ + EEEF + RGDI+GVTG+PGKTKKGELSI P +L+ CL MLP
Sbjct: 140 LYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTKKGELSIFPTSFEVLTKCLLMLP 199
Query: 396 HMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMI 455
+ G+ D+ETR+RQRYLDL+ N +R F RA+II+Y+RR+LD GFLEVETPM+NMI
Sbjct: 200 DKYHGLTDQETRYRQRYLDLIANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMI 259
Query: 456 AGGATAKPFVTHHNDLNMDLYMRIAPELYLK 486
AGGA A+PFVTHHNDLNMDLY+RIA EL+LK
Sbjct: 260 AGGAAARPFVTHHNDLNMDLYLRIATELHLK 290
>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 402 bits (1036), Expect = e-135
Identities = 146/287 (50%), Positives = 190/287 (66%), Gaps = 4/287 (1%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLE-NVTLSVAGRV 99
+E +R + +++EQG PYP+KF T + + KY D ++ E + +SVAGRV
Sbjct: 4 NEQIAVRREKLAELREQGIDPYPNKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRV 63
Query: 100 HAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTK 159
R G K F L+ +IQ+ + EE K+ GDIIGV G+ KTK
Sbjct: 64 MLKRVMG-KASFATLQDGSGRIQLYVSKD--DVGEEALEAFKKLDLGDIIGVEGTLFKTK 120
Query: 160 KGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIA 219
GELS+ +LTLL+ L LP G+ D ETR+RQRY+DL++N R F R++II+
Sbjct: 121 TGELSVKATELTLLTKSLRPLPDKFHGLTDVETRYRQRYVDLIVNPESRETFRKRSKIIS 180
Query: 220 YVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGL 279
+RR+LD+ GFLEVETPM+ IAGGA A+PF+THHN L++DLY+RIAPELYLK L+VGG
Sbjct: 181 AIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLKRLIVGGF 240
Query: 280 DRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
+RVYE+GR FRNEGID HNPEFT EFY AYADYND+M LTE+LI
Sbjct: 241 ERVYEIGRNFRNEGIDTRHNPEFTMLEFYQAYADYNDMMDLTEELIR 287
Score = 242 bits (620), Expect = 1e-73
Identities = 101/258 (39%), Positives = 129/258 (50%), Gaps = 69/258 (26%)
Query: 348 EEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETR 407
EE K+ GDIIGV G+ KTK GELS+ +LTLL+ L LP G+ D ETR
Sbjct: 95 EEALEAFKKLDLGDIIGVEGTLFKTKTGELSVKATELTLLTKSLRPLPDKFHGLTDVETR 154
Query: 408 FRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTH 467
+RQRY+DL++N R F R++II+ +RR+LD+ GFLEVETPM+ IAGGA A+PF+TH
Sbjct: 155 YRQRYVDLIVNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITH 214
Query: 468 HNDLNMDLYMRIAPELYLK-----------------------STH--------------- 489
HN L++DLY+RIAPELYLK + H
Sbjct: 215 HNALDIDLYLRIAPELYLKRLIVGGFERVYEIGRNFRNEGIDTRHNPEFTMLEFYQAYAD 274
Query: 490 --------------------GSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPALEAALG 529
G+ KVTY G EIDF PPF+RL M A++ G
Sbjct: 275 YNDMMDLTEELIRHLAQAVLGTTKVTY--QG------TEIDFGPPFKRLTMVDAIKEYTG 326
Query: 530 VKLPNPTEFDTPEANKFL 547
V + EA
Sbjct: 327 VDF---DDMTDEEARALA 341
>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 401 bits (1032), Expect = e-135
Identities = 151/287 (52%), Positives = 191/287 (66%), Gaps = 3/287 (1%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLE-NVTLSVAGRV 99
++ +R + ++EQG PYP+ F T + D EKY+D ++ N+ +SVAGR+
Sbjct: 11 NDQIAVRREKLAALREQGIDPYPNDFERTHTSADLREKYADKTKEELEALNIEVSVAGRI 70
Query: 100 HAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTK 159
IR G K F DL+ KIQ+ N + EE F + K+ GDIIGV G KTK
Sbjct: 71 MTIRNMG-KASFADLQDGSGKIQLYVN-KDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK 128
Query: 160 KGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIA 219
GELS+ ++L LLS L LP G+ DKE R+RQRYLDL++N R FI R++II
Sbjct: 129 TGELSVSVEELRLLSKSLRPLPEKFHGLTDKEIRYRQRYLDLIVNPESRQTFIKRSKIIR 188
Query: 220 YVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGL 279
+R +LD GFLEVETPM+ I GGA A+PF+THHN L+MDLY+RIAPELYLK L+VGG
Sbjct: 189 AIREFLDDRGFLEVETPMLQPIPGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGF 248
Query: 280 DRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
+RV+E+GR FRNEGID THNPEFT EFY AYADY DLM LTE+LI
Sbjct: 249 ERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIK 295
Score = 241 bits (618), Expect = 2e-73
Identities = 105/259 (40%), Positives = 130/259 (50%), Gaps = 68/259 (26%)
Query: 347 EEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKET 406
EE F + K+ GDIIGV G KTK GELS+ ++L LLS L LP G+ DKE
Sbjct: 102 EEVFEALFKKLDLGDIIGVEGPLFKTKTGELSVSVEELRLLSKSLRPLPEKFHGLTDKEI 161
Query: 407 RFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVT 466
R+RQRYLDL++N R FI R++II +R +LD GFLEVETPM+ I GGA A+PF+T
Sbjct: 162 RYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFIT 221
Query: 467 HHNDLNMDLYMRIAPELYLK-----------------------STH-------------- 489
HHN L+MDLY+RIAPELYLK +TH
Sbjct: 222 HHNALDMDLYLRIAPELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYA 281
Query: 490 ---------------------GSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPALEAAL 528
G+ KVTY EIDF+ PF+R+ M AL+ L
Sbjct: 282 DYEDLMDLTEELIKELAKEVNGTTKVTYGGQ--------EIDFSKPFKRITMVDALKEYL 333
Query: 529 GVKLPNPTEFDTPEANKFL 547
GV FD EA +
Sbjct: 334 GVDF--DDLFDDEEAKELA 350
>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms [Protein synthesis, tRNA
aminoacylation].
Length = 496
Score = 369 bits (949), Expect = e-122
Identities = 144/288 (50%), Positives = 197/288 (68%), Gaps = 5/288 (1%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLE-NVTLSVAGRV 99
++ + R + ++++ G PY +KF T S ++F E+Y+DL + ++ + N+ +S+AGR+
Sbjct: 3 NDQLQTRREKLARLRQTGNDPYLNKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGRI 62
Query: 100 HAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKI-KRGDIIGVTGSPGKT 158
A R S K F L+ E +IQ+ N E+F + GDIIGVTG P KT
Sbjct: 63 MARR-SMGKATFITLQDESGQIQLYVNKDDLP--EDFYEFDEYLLDLGDIIGVTGYPFKT 119
Query: 159 KKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQII 218
K GELS+ +L +L+ L LP G+ D+ETR+RQRYLDL++N R F+VR++II
Sbjct: 120 KTGELSVHVTELQILTKALRPLPDKFHGLTDQETRYRQRYLDLIVNPDSRQTFLVRSKII 179
Query: 219 AYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGG 278
+RR+LD GF+EVETPM+ +I GGA A+PF+THHN L+MDLY+RIAPELYLK L+VGG
Sbjct: 180 KAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYLKRLIVGG 239
Query: 279 LDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
++VYE+GR FRNEG+D THNPEFT EFY AYADY DLM LTE+L
Sbjct: 240 FEKVYEIGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTENLFK 287
Score = 209 bits (533), Expect = 4e-61
Identities = 79/140 (56%), Positives = 102/140 (72%), Gaps = 1/140 (0%)
Query: 348 EEFASDLVKI-KRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKET 406
E+F + GDIIGVTG P KTK GELS+ +L +L+ L LP G+ D+ET
Sbjct: 94 EDFYEFDEYLLDLGDIIGVTGYPFKTKTGELSVHVTELQILTKALRPLPDKFHGLTDQET 153
Query: 407 RFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVT 466
R+RQRYLDL++N R F+VR++II +RR+LD GF+EVETPM+ +I GGA A+PF+T
Sbjct: 154 RYRQRYLDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFIT 213
Query: 467 HHNDLNMDLYMRIAPELYLK 486
HHN L+MDLY+RIAPELYLK
Sbjct: 214 HHNALDMDLYLRIAPELYLK 233
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 367 bits (942), Expect = e-120
Identities = 164/285 (57%), Positives = 215/285 (75%), Gaps = 2/285 (0%)
Query: 43 FFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVHAI 102
++ RS +++ K +G +PYPHKF T ++ +F+EKY DL + LE+ L+V GR+ +
Sbjct: 85 YYENRSKFIQEQKAKGINPYPHKFERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRV 144
Query: 103 RESGTKLMFYDLRGEGLKIQVMANARMYQSEE-EFASDLVKIKRGDIIGVTGSPGKTKKG 161
SG KL F+DL G+G KIQV+AN + + FA KI+RGDI+G+ G PGK+KKG
Sbjct: 145 SASGQKLRFFDLVGDGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSKKG 204
Query: 162 ELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYV 221
ELSI PK+ +LSPCLHMLP M +G+KD E R+RQRYLDLMINE R FI R +II Y+
Sbjct: 205 ELSIFPKETIILSPCLHMLP-MKYGLKDTEIRYRQRYLDLMINESTRSTFITRTKIINYL 263
Query: 222 RRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDR 281
R +L+ GF+EVETP MN++AGGA A+PF+THHNDL++DLY+RIA EL LKML+VGG+D+
Sbjct: 264 RNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVGGIDK 323
Query: 282 VYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
VYE+G+ FRNEGID THNPEFT+CEFY AYAD+ DL+ +ED S
Sbjct: 324 VYEIGKVFRNEGIDNTHNPEFTSCEFYWAYADFYDLIKWSEDFFS 368
Score = 202 bits (516), Expect = 7e-58
Identities = 92/151 (60%), Positives = 116/151 (76%), Gaps = 2/151 (1%)
Query: 337 VMANARMYQSEE-EFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLP 395
V+AN + + FA KI+RGDI+G+ G PGK+KKGELSI PK+ +LSPCLHMLP
Sbjct: 165 VLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSKKGELSIFPKETIILSPCLHMLP 224
Query: 396 HMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMI 455
M +G+KD E R+RQRYLDLMINE R FI R +II Y+R +L+ GF+EVETP MN++
Sbjct: 225 -MKYGLKDTEIRYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLV 283
Query: 456 AGGATAKPFVTHHNDLNMDLYMRIAPELYLK 486
AGGA A+PF+THHNDL++DLY+RIA EL LK
Sbjct: 284 AGGANARPFITHHNDLDLDLYLRIATELPLK 314
>gnl|CDD|235095 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
Length = 1094
Score = 294 bits (754), Expect = 3e-88
Identities = 122/287 (42%), Positives = 172/287 (59%), Gaps = 15/287 (5%)
Query: 41 SEFFRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVH 100
E R+R A +E ++ G PYP T ++ + + D P + +SV+GRV
Sbjct: 611 PEQVRVRLAKLEALRAAGVDPYPVGVPPTHTVAEAL----DAPTGE-----EVSVSGRVL 661
Query: 101 AIRESGTKLMFYDLRGEGLKIQVMANARMYQSE--EEFASDLVKIKRGDIIGVTGSPGKT 158
IR+ G ++F DLR ++QV+ +A + +F + + GD++ VTG+ G +
Sbjct: 662 RIRDYG-GVLFADLRDWSGELQVLLDASRLEQGSLADFRAA---VDLGDLVEVTGTMGTS 717
Query: 159 KKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQII 218
+ G LS++ L CL LP G+ D E R RQRYLDL +N R R+ ++
Sbjct: 718 RNGTLSLLVTSWRLAGKCLRPLPDKWKGLTDPEARVRQRYLDLAVNPEARDLLRARSAVV 777
Query: 219 AYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGG 278
VR L + GFLEVETP++ + GGA A+PFVTH N +MDLY+RIAPELYLK L VGG
Sbjct: 778 RAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDLYLRIAPELYLKRLCVGG 837
Query: 279 LDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLI 325
++RV+E+GR FRNEG+D THNPEFT E Y A+ADY+ + LT +LI
Sbjct: 838 VERVFELGRNFRNEGVDATHNPEFTLLEAYQAHADYDTMRDLTRELI 884
Score = 168 bits (428), Expect = 2e-44
Identities = 62/130 (47%), Positives = 82/130 (63%)
Query: 357 IKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLM 416
+ GD++ VTG+ G ++ G LS++ L CL LP G+ D E R RQRYLDL
Sbjct: 702 VDLGDLVEVTGTMGTSRNGTLSLLVTSWRLAGKCLRPLPDKWKGLTDPEARVRQRYLDLA 761
Query: 417 INERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLY 476
+N R R+ ++ VR L + GFLEVETP++ + GGA A+PFVTH N +MDLY
Sbjct: 762 VNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDLY 821
Query: 477 MRIAPELYLK 486
+RIAPELYLK
Sbjct: 822 LRIAPELYLK 831
>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core
domain. Class II LysRS is a dimer which attaches a
lysine to the 3' OH group of ribose of the appropriate
tRNA. Its assignment to class II aaRS is based upon its
structure and the presence of three characteristic
sequence motifs in the core domain. It is found in
eukaryotes as well as some prokaryotes and archaea.
However, LysRS belongs to class I aaRS's in some
prokaryotes and archaea. The catalytic core domain is
primarily responsible for the ATP-dependent formation of
the enzyme bound aminoacyl-adenylate.
Length = 329
Score = 270 bits (694), Expect = 1e-86
Identities = 91/124 (73%), Positives = 107/124 (86%)
Query: 204 NERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYM 263
NE +R FIVR++II+Y+R++LD GFLEVETPM+ IAGGA A+PF+THHN L+MDLY+
Sbjct: 1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYL 60
Query: 264 RIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTED 323
RIAPELYLK L+VGG +RVYE+GR FRNEGIDLTHNPEFT EFY AYADYND+M LTED
Sbjct: 61 RIAPELYLKRLIVGGFERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTED 120
Query: 324 LISG 327
L SG
Sbjct: 121 LFSG 124
Score = 177 bits (452), Expect = 4e-51
Identities = 70/194 (36%), Positives = 89/194 (45%), Gaps = 66/194 (34%)
Query: 418 NERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYM 477
NE +R FIVR++II+Y+R++LD GFLEVETPM+ IAGGA A+PF+THHN L+MDLY+
Sbjct: 1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYL 60
Query: 478 RIAPELYLK-----------------------STH------------------------- 489
RIAPELYLK TH
Sbjct: 61 RIAPELYLKRLIVGGFERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTED 120
Query: 490 ----------GSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPALEAALGVKLPNPTEFD 539
G K+ Y E+DFTPPF+R+ M AL+ G+ P
Sbjct: 121 LFSGLVKKINGKTKIEY--------GGKELDFTPPFKRVTMVDALKEKTGIDFPELDLEQ 172
Query: 540 TPEANKFLSDPNGE 553
E K L+ E
Sbjct: 173 PEELAKLLAKLIKE 186
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 247 bits (632), Expect = 2e-75
Identities = 135/283 (47%), Positives = 187/283 (66%), Gaps = 6/283 (2%)
Query: 44 FRLRSAAVEQMKEQGPHPYPHKFTVTSSLEDFIEKYSDLPDAQVLE--NVTLSVAGRVHA 101
R R + +++QG +P+ F + + E++ D D Q LE N+ +SVAGR+
Sbjct: 19 LRNRREKLAALRQQGV-AFPNDFRRDHTSDQLHEEF-DAKDNQELESLNIEVSVAGRMMT 76
Query: 102 IRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKG 161
R G K F L+ G +IQ+ AR E + K GDIIG G+ KT+ G
Sbjct: 77 RRIMG-KASFVTLQDVGGRIQLYV-ARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQTG 134
Query: 162 ELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYV 221
ELSI +L LL+ L LP G++D+E R+RQRYLDL+ N++ R F+VR++I+A +
Sbjct: 135 ELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAI 194
Query: 222 RRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDR 281
R+++ + GF+EVETPMM +I GGA+A+PF+THHN L++D+Y+RIAPELYLK LVVGG +R
Sbjct: 195 RQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFER 254
Query: 282 VYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDL 324
V+E+ R FRNEGI + HNPEFT E YMAYADY+DL+ LTE L
Sbjct: 255 VFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESL 297
Score = 154 bits (391), Expect = 4e-41
Identities = 74/165 (44%), Positives = 112/165 (67%), Gaps = 1/165 (0%)
Query: 360 GDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINE 419
GDIIG G+ KT+ GELSI +L LL+ L LP G++D+E R+RQRYLDL+ N+
Sbjct: 119 GDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIAND 178
Query: 420 RIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRI 479
+ R F+VR++I+A +R+++ + GF+EVETPMM +I GGA+A+PF+THHN L++D+Y+RI
Sbjct: 179 KSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRI 238
Query: 480 APELYLKS-THGSYKVTYHPDGPESGSPVEIDFTPPFRRLHMFPA 523
APELYLK G ++ + + + + P F + ++ A
Sbjct: 239 APELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMA 283
>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
Length = 659
Score = 221 bits (563), Expect = 4e-64
Identities = 105/265 (39%), Positives = 164/265 (61%), Gaps = 7/265 (2%)
Query: 66 FTVTSSLEDFIEKYSDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMA 125
F + + + E+Y L T+ VAGRV ++R+ G K++F +R G ++QV+
Sbjct: 83 FRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIG-KIIFVTIRSNGNELQVVG 141
Query: 126 NARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSP--CLHML--P 181
+ + E+ V ++ GDIIG G P + ++GELS+ ++ +LSP C + P
Sbjct: 142 QVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQRGELSVAASRMLILSPYVCTDQVVCP 201
Query: 182 HMH-FGV-KDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMN 239
++ F V +D + ++R R+ D+M N + R ++ +R Y + F+EVETP+++
Sbjct: 202 NLRGFTVLQDNDVKYRYRFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLH 261
Query: 240 MIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHN 299
+A GA AK FVTHHN MDL++R+APEL+LK +VGG++R+YE+G+ FRNE D +HN
Sbjct: 262 TVASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIVGGMERIYEIGKVFRNEDADRSHN 321
Query: 300 PEFTTCEFYMAYADYNDLMHLTEDL 324
PEFT+CEFY AY Y DLM +TED+
Sbjct: 322 PEFTSCEFYAAYHTYEDLMPMTEDI 346
Score = 114 bits (286), Expect = 1e-26
Identities = 58/153 (37%), Positives = 92/153 (60%), Gaps = 11/153 (7%)
Query: 345 QSEEEFASDLVK-----IKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSP--CLHML--P 395
Q E F + +K ++ GDIIG G P + ++GELS+ ++ +LSP C + P
Sbjct: 142 QVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQRGELSVAASRMLILSPYVCTDQVVCP 201
Query: 396 HMH-FGV-KDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMN 453
++ F V +D + ++R R+ D+M N + R ++ +R Y + F+EVETP+++
Sbjct: 202 NLRGFTVLQDNDVKYRYRFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLH 261
Query: 454 MIAGGATAKPFVTHHNDLNMDLYMRIAPELYLK 486
+A GA AK FVTHHN MDL++R+APEL+LK
Sbjct: 262 TVASGANAKSFVTHHNANAMDLFLRVAPELHLK 294
Score = 45.8 bits (108), Expect = 5e-05
Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 10/89 (11%)
Query: 460 TAKPFVTHHNDLNMDLYMRIAPELYLKSTHGSYKVTYHPDGPESGSPVEIDFTPPFRRLH 519
T + + D+ L MR+ +G+ V +P+ G+PV +D PFRR+
Sbjct: 335 TYEDLMPMTEDIFRQLAMRV---------NGTTVVQIYPENAH-GNPVTVDLGKPFRRVS 384
Query: 520 MFPALEAALGVKLPNPTEFDTPEANKFLS 548
++ ++ GV+ P P E +TP+ ++S
Sbjct: 385 VYDEIQRMSGVEFPPPNELNTPKGIAYMS 413
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 188 bits (481), Expect = 5e-55
Identities = 53/139 (38%), Positives = 83/139 (59%), Gaps = 2/139 (1%)
Query: 189 DKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK 248
+ETR + RYLDL +++ +R++II +R +LD GFLEVETP++ A+
Sbjct: 1 SEETRLKYRYLDL-RRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGAR 59
Query: 249 PFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGI-DLTHNPEFTTCEF 307
F+ + Y+ +P+LY ++L+V G DRV+++ FR+E + H PEFT +
Sbjct: 60 DFLVPSKFYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDL 119
Query: 308 YMAYADYNDLMHLTEDLIS 326
M++ DY D+M LTEDLI
Sbjct: 120 EMSFVDYEDVMDLTEDLIK 138
Score = 101 bits (255), Expect = 1e-23
Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 403 DKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAK 462
+ETR + RYLDL +++ +R++II +R +LD GFLEVETP++ A+
Sbjct: 1 SEETRLKYRYLDL-RRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGAR 59
Query: 463 PFVTHHNDLNMDLYMRIAPELYLK 486
F+ + Y+ +P+LY +
Sbjct: 60 DFLVPSKFYAKEAYLPQSPQLYKQ 83
>gnl|CDD|239817 cd04322, LysRS_N, LysRS_N: N-terminal, anticodon recognition domain
of lysyl-tRNA synthetases (LysRS). These enzymes are
homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs).
This domain is a beta-barrel domain (OB fold) involved
in binding the tRNA anticodon stem-loop. aaRSs catalyze
the specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Included in this group are E. coli LysS and LysU. These
two isoforms of LysRS are encoded by distinct genes
which are differently regulated. Eukaryotes contain 2
sets of aaRSs, both of which encoded by the nuclear
genome. One set concerns with cytoplasmic protein
synthesis, whereas the other exclusively with
mitochondrial protein synthesis. Saccharomyces
cerevisiae cytoplasmic and mitochondrial LysRSs have
been shown to participate in the mitochondrial import of
the only nuclear-encoded tRNA of S. cerevisiae
(tRNAlysCUU). The gene for human LysRS encodes both the
cytoplasmic and the mitochondrial isoforms of LysRS. In
addition to their housekeeping role, human lysRS may
function as a signaling molecule that activates immune
cells and tomato LysRS may participate in a
root-specific process possibly connected to conditions
of oxidative-stress conditions or heavy metal uptake. It
is known that human tRNAlys and LysRS are specifically
packaged into HIV-1 suggesting a role for LysRS in tRNA
packaging.
Length = 108
Score = 161 bits (410), Expect = 9e-48
Identities = 60/110 (54%), Positives = 69/110 (62%), Gaps = 2/110 (1%)
Query: 92 TLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGV 151
+SVAGR+ + R SG KL F DL+ E KIQV N EEEF + GDIIGV
Sbjct: 1 EVSVAGRIMSKRGSG-KLSFADLQDESGKIQVYVNKDDL-GEEEFEDFKKLLDLGDIIGV 58
Query: 152 TGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDL 201
TG+P KTK GELSI K+ TLLS L LP G+ D ETR+RQRYLDL
Sbjct: 59 TGTPFKTKTGELSIFVKEFTLLSKSLRPLPEKFHGLTDVETRYRQRYLDL 108
Score = 118 bits (298), Expect = 7e-32
Identities = 43/79 (54%), Positives = 48/79 (60%), Gaps = 1/79 (1%)
Query: 337 VMANARMYQSEEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPH 396
V N EEEF + GDIIGVTG+P KTK GELSI K+ TLLS L LP
Sbjct: 31 VYVNKDDL-GEEEFEDFKKLLDLGDIIGVTGTPFKTKTGELSIFVKEFTLLSKSLRPLPE 89
Query: 397 MHFGVKDKETRFRQRYLDL 415
G+ D ETR+RQRYLDL
Sbjct: 90 KFHGLTDVETRYRQRYLDL 108
>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II
core domain. This domain is the core catalytic domain of
class II aminoacyl-tRNA synthetases of the subgroup
containing aspartyl, lysyl, and asparaginyl tRNA
synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. Nearly all class II tRNA synthetases
are dimers and enzymes in this subgroup are homodimers.
These enzymes attach a specific amino acid to the 3' OH
group of ribose of the appropriate tRNA.
Length = 269
Score = 158 bits (402), Expect = 1e-44
Identities = 61/116 (52%), Positives = 84/116 (72%)
Query: 211 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELY 270
F VR++II +R ++D GFLEVETPM+ I GGA A+PF+ +N L +D Y+RI+P+L+
Sbjct: 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLF 60
Query: 271 LKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLIS 326
K L+VGGLDRV+E+ R FRNE + H PEFT + MA+ADY D++ LTE L+
Sbjct: 61 KKRLMVGGLDRVFEINRNFRNEDLRARHQPEFTMMDLEMAFADYEDVIELTERLVR 116
Score = 84.8 bits (210), Expect = 3e-18
Identities = 32/62 (51%), Positives = 46/62 (74%)
Query: 425 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAPELY 484
F VR++II +R ++D GFLEVETPM+ I GGA A+PF+ +N L +D Y+RI+P+L+
Sbjct: 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLF 60
Query: 485 LK 486
K
Sbjct: 61 KK 62
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 111 bits (279), Expect = 2e-26
Identities = 73/253 (28%), Positives = 110/253 (43%), Gaps = 19/253 (7%)
Query: 80 SDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLR-GEGLKIQVMANARMYQSEEEFAS 138
D+ + VT V G VH R+ G K++F LR G G IQ + E
Sbjct: 8 KDIKPHVGGQEVT--VRGWVHNKRDLG-KIIFLVLRDGSGF-IQAVVPK---NKVYEELF 60
Query: 139 DLVKIKRGDIIGVTG----SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 194
K+ + VTG SP + +K+ +L P + ET
Sbjct: 61 KAKKLTLESSVVVTGIVKASPKA--PQGFELQVEKIEVLGEADPPYPIDKKEHSELETLL 118
Query: 195 RQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHH 254
R+LDL +I+ F +R+ I+ +R + GF EV TP++ A + F +
Sbjct: 119 DNRHLDLR-TPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGGGELFKVDY 177
Query: 255 NDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAYAD 313
D Y+ +P+LY + L L+RV+ +G FR E + H EF + MA+AD
Sbjct: 178 FDKEA--YLTQSPQLYKEAL-AAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD 234
Query: 314 YNDLMHLTEDLIS 326
ND+M L E+LI
Sbjct: 235 LNDVMDLAEELIK 247
Score = 53.7 bits (130), Expect = 1e-07
Identities = 36/145 (24%), Positives = 58/145 (40%), Gaps = 11/145 (7%)
Query: 345 QSEEEFASDLVKIKRGDIIGVTG----SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFG 400
EE F K+ + VTG SP + +K+ +L P
Sbjct: 55 VYEELF--KAKKLTLESSVVVTGIVKASPKA--PQGFELQVEKIEVLGEADPPYPIDKKE 110
Query: 401 VKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT 460
+ ET R+LDL +I+ F +R+ I+ +R + GF EV TP++ A
Sbjct: 111 HSELETLLDNRHLDLR-TPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGG 169
Query: 461 AKPFVTHHNDLNMDLYMRIAPELYL 485
+ F + D Y+ +P+LY
Sbjct: 170 GELFKVDYFDKEA--YLTQSPQLYK 192
>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 106 bits (267), Expect = 1e-24
Identities = 81/260 (31%), Positives = 135/260 (51%), Gaps = 31/260 (11%)
Query: 80 SDLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRG-EGLKIQVMANARMYQSEEEFAS 138
S+L E VT +AG VH IR+ G + F LR G+ IQV+ + +EE
Sbjct: 8 SELTPELDGEEVT--LAGWVHEIRDLG-GIAFLILRDRSGI-IQVVVKK---KVDEELFE 60
Query: 139 DLVKIKRGDIIGVTGSPGKTKK--GELSIIPKKLTLLSPCLHMLPHMHFGVKDK-----E 191
+ K+KR ++ VTG+ K G + +IP+++ +L+ LP + K +
Sbjct: 61 TIKKLKRESVVSVTGTVKANPKAPGGVEVIPEEIEVLNKAEEPLP---LDISGKVLAELD 117
Query: 192 TRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIA----GGATA 247
TR R+LDL R+R F +R++++ R +L GF E+ TP ++A GGA
Sbjct: 118 TRLDNRFLDLR-RPRVRAIFKIRSEVLRAFREFLYENGFTEIFTP--KIVASGTEGGAEL 174
Query: 248 KPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCE 306
P + + + Y+ +P+LY +M+V G +RV+E+G FR E + + H E+T+ +
Sbjct: 175 FP-IDY---FEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSID 230
Query: 307 FYMAYAD-YNDLMHLTEDLI 325
M + D + D+M L E+L+
Sbjct: 231 VEMGFIDDHEDVMDLLENLL 250
Score = 56.0 bits (136), Expect = 2e-08
Identities = 33/113 (29%), Positives = 58/113 (51%), Gaps = 11/113 (9%)
Query: 345 QSEEEFASDLVKIKRGDIIGVTGSPGKTKK--GELSIIPKKLTLLSPCLHMLPHMHFGVK 402
+ +EE + K+KR ++ VTG+ K G + +IP+++ +L+ LP +
Sbjct: 53 KVDEELFETIKKLKRESVVSVTGTVKANPKAPGGVEVIPEEIEVLNKAEEPLP---LDIS 109
Query: 403 DK-----ETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETP 450
K +TR R+LDL R+R F +R++++ R +L GF E+ TP
Sbjct: 110 GKVLAELDTRLDNRFLDLR-RPRVRAIFKIRSEVLRAFREFLYENGFTEIFTP 161
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 104 bits (261), Expect = 2e-23
Identities = 79/261 (30%), Positives = 131/261 (50%), Gaps = 41/261 (15%)
Query: 89 ENVTLSVAGRVHAIRESGTKLMFYDLRG-EGLKIQVMANARMYQSEEEFASDLVKIKRGD 147
+ VTLS G VH R+ G L+F DLR EG+ +QV+ + E AS +++
Sbjct: 16 QTVTLS--GWVHRRRDHG-GLIFIDLRDREGI-VQVVFDPEDSPEAFEVAS---RLRNEF 68
Query: 148 IIGVTG-----SPG----KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKD--KETRFRQ 196
+I VTG G GE+ ++ +++ +L+ LP + +E R +
Sbjct: 69 VIQVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNAS-KTLPFQIEDETNASEEIRLKY 127
Query: 197 RYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT---AKPFV-- 251
RYLDL ++ +R+++ +R +LD GFLE+ETP++ +T A+ F+
Sbjct: 128 RYLDLR-RPEMQKNLKLRSKVTKAIRNFLDDQGFLEIETPIL----TKSTPEGARDFLVP 182
Query: 252 --THHNDLNMDLY-MRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHN--PEFTTCE 306
H Y + +P+L+ ++L+V G DR Y++ R FR+E DL + PEFT +
Sbjct: 183 SRVHPG----KFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDE--DLRADRQPEFTQID 236
Query: 307 FYMAYADYNDLMHLTEDLISG 327
M++ D D+M L E L+
Sbjct: 237 LEMSFVDEEDVMELIEKLLRY 257
Score = 63.7 bits (156), Expect = 1e-10
Identities = 28/107 (26%), Positives = 53/107 (49%), Gaps = 13/107 (12%)
Query: 356 KIKRGDIIGVTG-----SPG----KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKD--K 404
+++ +I VTG G GE+ ++ +++ +L+ LP + +
Sbjct: 63 RLRNEFVIQVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNAS-KTLPFQIEDETNASE 121
Query: 405 ETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPM 451
E R + RYLDL ++ +R+++ +R +LD GFLE+ETP+
Sbjct: 122 EIRLKYRYLDLR-RPEMQKNLKLRSKVTKAIRNFLDDQGFLEIETPI 167
>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA
synthetase. In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_arch, represents
aspartyl-tRNA synthetases from the eukaryotic cytosol
and from the Archaea. In some species, this enzyme
aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn)
is subsequently transamidated to Asn-tRNA(asn) [Protein
synthesis, tRNA aminoacylation].
Length = 428
Score = 99.9 bits (249), Expect = 2e-22
Identities = 74/252 (29%), Positives = 121/252 (48%), Gaps = 21/252 (8%)
Query: 95 VAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTGS 154
G VH IR+ G L+F LR IQ+ A A+ + + K+ ++ V G
Sbjct: 17 FMGWVHEIRDLG-GLIFVLLRDREGLIQITAPAK--KVSKNLFKWAKKLNLESVVAVRGI 73
Query: 155 PGKTKK--GELSIIPKKLTLLSPCLHMLPHMHFGVKDK-----ETRFRQRYLDLMINERI 207
+K G IIP K+ +++ LP +K +TR R+LDL +
Sbjct: 74 VKIKEKAPGGFEIIPTKIEVINEAKEPLP---LDPTEKVPAELDTRLDYRFLDLR-RPTV 129
Query: 208 RHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIA--GGATAKPFVTHHNDLNMDLYMRI 265
+ F +R+ ++ VR +L GF+EV TP + A GG P +T+ + ++
Sbjct: 130 QAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFP-ITY---FEREAFLGQ 185
Query: 266 APELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEFYMAYADYNDLMHLTEDL 324
+P+LY + L+ G +RVYE+G FR E + H E T+ + MA+ D++D+M + E+L
Sbjct: 186 SPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDILEEL 245
Query: 325 ISGRKEDRNRPC 336
+ ED C
Sbjct: 246 VVRVFEDVPERC 257
Score = 46.0 bits (109), Expect = 3e-05
Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 11/102 (10%)
Query: 356 KIKRGDIIGVTGSPGKTKK--GELSIIPKKLTLLSPCLHMLPHMHFGVKDK-----ETRF 408
K+ ++ V G +K G IIP K+ +++ LP +K +TR
Sbjct: 61 KLNLESVVAVRGIVKIKEKAPGGFEIIPTKIEVINEAKEPLP---LDPTEKVPAELDTRL 117
Query: 409 RQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETP 450
R+LDL ++ F +R+ ++ VR +L GF+EV TP
Sbjct: 118 DYRFLDLR-RPTVQAIFRIRSGVLESVREFLAEEGFIEVHTP 158
>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 97.4 bits (244), Expect = 3e-21
Identities = 82/274 (29%), Positives = 134/274 (48%), Gaps = 53/274 (19%)
Query: 81 DLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRG-EGLKIQVMANARMYQSEEEFASD 139
+L ++ V + VTL G VH R+ G L+F DLR EG+ +QV+ + + E
Sbjct: 10 ELRESHVGQTVTLC--GWVHRRRDHG-GLIFIDLRDREGI-VQVVFD-----PDAEAFEV 60
Query: 140 LVKIKRGDIIGVTGS----PGKT-----KKGELSIIPKKLTLLSPCLHMLPHMHFGVKD- 189
++ +I VTG+ P T GE+ ++ +L +L+ LP +D
Sbjct: 61 AESLRSEYVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKS-KTLPFPIDDEEDV 119
Query: 190 -KETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT-- 246
+E R + RYLDL ++ +R+++ + +R +LD GFLE+ETP++ +T
Sbjct: 120 SEELRLKYRYLDLR-RPEMQKNLKLRSKVTSAIRNFLDDNGFLEIETPIL----TKSTPE 174
Query: 247 -AKPFV----THHNDLNMDLYMRIA----PELYLKMLVVGGLDRVYEVGRQFRNEGIDLT 297
A+ ++ H Y A P+L+ ++L+V G DR Y++ R FR+E DL
Sbjct: 175 GARDYLVPSRVHPG----KFY---ALPQSPQLFKQLLMVAGFDRYYQIARCFRDE--DLR 225
Query: 298 HN--PEFTT--CEFYMAYADYNDLMHLTEDLISG 327
+ PEFT E M++ D+M L E LI
Sbjct: 226 ADRQPEFTQIDIE--MSFVTQEDVMALMEGLIRH 257
Score = 71.6 bits (177), Expect = 4e-13
Identities = 25/80 (31%), Positives = 46/80 (57%), Gaps = 4/80 (5%)
Query: 375 GELSIIPKKLTLLSPCLHMLPHMHFGVKD--KETRFRQRYLDLMINERIRHKFIVRAQII 432
GE+ ++ +L +L+ LP +D +E R + RYLDL ++ +R+++
Sbjct: 91 GEIEVLASELEVLNKS-KTLPFPIDDEEDVSEELRLKYRYLDLR-RPEMQKNLKLRSKVT 148
Query: 433 AYVRRYLDSLGFLEVETPMM 452
+ +R +LD GFLE+ETP++
Sbjct: 149 SAIRNFLDDNGFLEIETPIL 168
>gnl|CDD|211576 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type.
Asparate--tRNA ligases in this family may be
discriminating (6.1.1.12) or nondiscriminating
(6.1.1.23). In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_bact, represents
aspartyl-tRNA synthetases from the Bacteria and from
mitochondria. In some species, this enzyme aminoacylates
tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently
transamidated to Asn-tRNA(asn). This model generates
very low scores for the archaeal type of aspS and for
asnS; scores between the trusted and noise cutoffs
represent fragmentary sequences [Protein synthesis, tRNA
aminoacylation].
Length = 583
Score = 96.7 bits (241), Expect = 4e-21
Identities = 74/260 (28%), Positives = 126/260 (48%), Gaps = 26/260 (10%)
Query: 81 DLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDL 140
L + + VTL AG V+ R+ G L+F DLR +QV+ + + A L
Sbjct: 8 QLRTEHLGQTVTL--AGWVNRRRDLG-GLIFIDLRDRSGIVQVVCDPD--ADALKLAKGL 62
Query: 141 VKIKRGDIIGVTG----SPGKTKK-----GELSIIPKKLTLLSPCLHMLPHMHFGVKDKE 191
+ D++ V G P GE+ I+ + +TLL+ + ++E
Sbjct: 63 ---RNEDVVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKTDAEEE 119
Query: 192 TRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT---AK 248
R + RYLDL ++ + +R ++ VR +LD GFLE+ETPM+ +T A+
Sbjct: 120 VRLKYRYLDLR-RPEMQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLT----KSTPEGAR 174
Query: 249 PFVTHHNDLNMDLY-MRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEF 307
++ + Y + +P+L+ ++L+V G+DR Y++ R FR+E + PEFT +
Sbjct: 175 DYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRDEDLRADRQPEFTQIDM 234
Query: 308 YMAYADYNDLMHLTEDLISG 327
M++ D+M L E L+S
Sbjct: 235 EMSFMTQEDVMELIEKLVSH 254
Score = 50.5 bits (121), Expect = 1e-06
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 371 KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQ 430
GE+ I+ + +TLL+ + ++E R + RYLDL ++ + +R +
Sbjct: 85 NLDTGEIEILAESITLLNKSKTPPLIIEKTDAEEEVRLKYRYLDLR-RPEMQQRLKLRHK 143
Query: 431 IIAYVRRYLDSLGFLEVETPMM 452
+ VR +LD GFLE+ETPM+
Sbjct: 144 VTKAVRNFLDQQGFLEIETPML 165
>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 91.0 bits (226), Expect = 3e-19
Identities = 77/278 (27%), Positives = 119/278 (42%), Gaps = 57/278 (20%)
Query: 81 DLPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDL 140
L V VTL G V R+ G L F D+R +QV+ + A+ L
Sbjct: 65 ALSVNDVGSRVTLC--GWVDLHRDMGG-LTFLDVRDHTGIVQVVTLPDEFPEAHRTANRL 121
Query: 141 ----VKIKRGDIIG-VTGSPG-KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKD----- 189
V G + SP K K G + ++ + + +L+ LP + +
Sbjct: 122 RNEYVVAVEGTVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQKDSI 181
Query: 190 -KETRFRQRYLDL-----MINERIRHKFIVRAQIIAYVRRYL-DSLGFLEVETPMMN--- 239
+E R R R LDL N R+RH+ +V+ +RRYL D GF+E+ETP+++
Sbjct: 182 KEEVRLRYRVLDLRRPQMNANLRLRHR-VVKL-----IRRYLEDVHGFVEIETPILSRST 235
Query: 240 ------------MIAGGATAKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGR 287
+ G A P +P+L+ +ML+V G DR Y++ R
Sbjct: 236 PEGARDYLVPSRVQPGTFYALP---------------QSPQLFKQMLMVSGFDRYYQIAR 280
Query: 288 QFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLI 325
FR+E + PEFT + +A+ D++ L EDLI
Sbjct: 281 CFRDEDLRADRQPEFTQLDMELAFTPLEDMLKLNEDLI 318
Score = 49.8 bits (119), Expect = 3e-06
Identities = 29/95 (30%), Positives = 49/95 (51%), Gaps = 18/95 (18%)
Query: 371 KTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKD------KETRFRQRYLDL-----MINE 419
K K G + ++ + + +L+ LP + + +E R R R LDL N
Sbjct: 144 KMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQKDSIKEEVRLRYRVLDLRRPQMNANL 203
Query: 420 RIRHKFIVRAQIIAYVRRYL-DSLGFLEVETPMMN 453
R+RH+ +V+ +RRYL D GF+E+ETP+++
Sbjct: 204 RLRHR-VVKL-----IRRYLEDVHGFVEIETPILS 232
>gnl|CDD|225178 COG2269, COG2269, Truncated, possibly inactive, lysyl-tRNA
synthetase (class II) [Translation, ribosomal structure
and biogenesis].
Length = 322
Score = 87.8 bits (218), Expect = 5e-19
Identities = 41/118 (34%), Positives = 63/118 (53%), Gaps = 7/118 (5%)
Query: 214 RAQIIAYVRRYLDSLGFLEVETPMMNMIAGG------ATAKPFVTHHNDLNMDLYMRIAP 267
RA IIA +RR+ G LEVETP ++ +A F+ L++ +P
Sbjct: 19 RAAIIAAIRRFFAERGVLEVETPALS-VAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSP 77
Query: 268 ELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLI 325
E ++K L+ G ++++G+ FRNE + HNPEFT E+Y DY LM+ +DL+
Sbjct: 78 EYHMKRLLAAGSGPIFQLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYRLMNEVDDLL 135
Score = 42.3 bits (100), Expect = 4e-04
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 428 RAQIIAYVRRYLDSLGFLEVETPMMNMIAGG------ATAKPFVTHHNDLNMDLYMRIAP 481
RA IIA +RR+ G LEVETP ++ +A F+ L++ +P
Sbjct: 19 RAAIIAAIRRFFAERGVLEVETPALS-VAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSP 77
Query: 482 ELYLK 486
E ++K
Sbjct: 78 EYHMK 82
>gnl|CDD|232984 TIGR00462, genX, EF-P lysine aminoacylase GenX. Many Gram-negative
bacteria have a protein closely homologous to the
C-terminal region of lysyl-tRNA synthetase (LysS).
Multiple sequence alignment of these proteins with the
homologous regions of collected LysS proteins shows that
these proteins form a distinct set rather than just
similar truncations of LysS. The protein is termed GenX
after its designation in E. coli. Interestingly, genX
often is located near a homolog of
lysine-2,3-aminomutase. Its function is unknown [Unknown
function, General].
Length = 290
Score = 81.8 bits (203), Expect = 3e-17
Identities = 37/113 (32%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 229 GFLEVETPMMNMIAGGATA---KPFVTH---HNDLNMDLYMRIAPELYLKMLVVGGLDRV 282
G LEVETP++ T F T + LY++ +PE +K L+ G +
Sbjct: 6 GVLEVETPLL--SPAPVTDPHLDAFATEFVGPDGQGRPLYLQTSPEYAMKRLLAAGSGPI 63
Query: 283 YEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDLISGRKEDRNRP 335
+++ + FRN HNPEFT E+Y DY+DLM E L+ D P
Sbjct: 64 FQICKVFRNGERGRRHNPEFTMLEWYRPGFDYHDLMDEVEALLQELLGDPFAP 116
Score = 30.2 bits (69), Expect = 2.4
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 8/50 (16%)
Query: 443 GFLEVETPMMNMIAGGATA---KPFVTH---HNDLNMDLYMRIAPELYLK 486
G LEVETP+ + T F T + LY++ +PE +K
Sbjct: 6 GVLEVETPL--LSPAPVTDPHLDAFATEFVGPDGQGRPLYLQTSPEYAMK 53
>gnl|CDD|239766 cd04100, Asp_Lys_Asn_RS_N, Asp_Lys_Asn_RS_N: N-terminal, anticodon
recognition domain of class 2b aminoacyl-tRNA
synthetases (aaRSs). This domain is a beta-barrel domain
(OB fold) involved in binding the tRNA anticodon
stem-loop. Class 2b aaRSs include the homodimeric
aspartyl-, asparaginyl-, and lysyl-tRNA synthetases
(AspRS, AsnRS, and LysRS). aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation of the AA by ATP in the
presence of magnesium ions, followed by ii) the transfer
of the activated AA to the terminal ribose of tRNA. In
the case of the class2b aaRSs, the activated AA is
attached to the 3'OH of the terminal ribose. Eukaryotes
contain 2 sets of aaRSs, both of which are encoded by
the nuclear genome. One set concerns with cytoplasmic
protein synthesis, whereas the other exclusively with
mitochondrial protein synthesis. Included in this group
are archeal and archeal-like AspRSs which are
non-discriminating and can charge both tRNAAsp and
tRNAAsn. E. coli cells have two isoforms of LysRSs (LysS
and LysU) encoded by two distinct genes, which are
differentially regulated. The cytoplasmic and the
mitochondrial isoforms of human LysRS are encoded by a
single gene. Yeast cytoplasmic and mitochondrial LysRSs
participate in mitochondrial import of cytoplasmic
tRNAlysCUU. In addition to their housekeeping role,
human LysRS may function as a signaling molecule that
activates immune cells. Tomato LysRS may participate in
a process possibly connected to conditions of
oxidative-stress conditions or heavy metal uptake. It is
known that human tRNAlys and LysRS are specifically
packaged into HIV-1 suggesting a role for LysRS in tRNA
packaging. AsnRS is immunodominant antigen of the
filarial nematode Brugia malayai and is of interest as a
target for anti-parasitic drug design. Human AsnRS has
been shown to be a pro-inflammatory chemokine which
interacts with CCR3 chemokine receptors on T cells,
immature dendritic cells and macrophages.
Length = 85
Score = 75.7 bits (187), Expect = 4e-17
Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 9/89 (10%)
Query: 92 TLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGV 151
+++AG VH+ R+ G L+F DLR +QV+ N + EF + K++ ++GV
Sbjct: 1 EVTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVVNK---EELGEFFEEAEKLRTESVVGV 56
Query: 152 TGSPGKT-----KKGELSIIPKKLTLLSP 175
TG+ K GE+ + ++L +LS
Sbjct: 57 TGTVVKRPEGNLATGEIELQAEELEVLSK 85
Score = 41.4 bits (98), Expect = 6e-05
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 345 QSEEEFASDLVKIKRGDIIGVTGSPGKT-----KKGELSIIPKKLTLLSP 389
+ EF + K++ ++GVTG+ K GE+ + ++L +LS
Sbjct: 36 EELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLATGEIELQAEELEVLSK 85
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 80.8 bits (199), Expect = 6e-16
Identities = 64/256 (25%), Positives = 122/256 (47%), Gaps = 33/256 (12%)
Query: 95 VAGRVHAIRESGTKLMFYDLRGEGLKIQVM-----ANARMYQSEEEFASDLVKIKRGDI- 148
+AG V A R+ G +L+F LR IQ + A A +Y+ ++ +G++
Sbjct: 23 LAGWVDAFRDHG-ELLFIHLRDRNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQ 81
Query: 149 --IGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDK---------------- 190
+ T +P + G++ + ++L++L+ LP F + DK
Sbjct: 82 KRLEETENP-HIETGDIEVFVRELSILAASE-ALP---FAISDKAMTAGAGSAGADAVNE 136
Query: 191 ETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPF 250
+ R + RYLD+ ++ R +II R +LDS GFLE+ETP++ + A+ +
Sbjct: 137 DLRLQYRYLDIR-RPAMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTK-STPEGARDY 194
Query: 251 VTHHNDLNMDLY-MRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYM 309
+ + Y + +P+L+ ++L++ G +R +++ R FR+E + PEFT +
Sbjct: 195 LVPSRIHPKEFYALPQSPQLFKQLLMIAGFERYFQLARCFRDEDLRPNRQPEFTQLDIEA 254
Query: 310 AYADYNDLMHLTEDLI 325
++ D + L E+L
Sbjct: 255 SFIDEEFIFELIEELT 270
Score = 43.8 bits (103), Expect = 2e-04
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 403 DKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNM 454
+++ R + RYLD+ ++ R +II R +LDS GFLE+ETP++
Sbjct: 135 NEDLRLQYRYLDIR-RPAMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTK 185
>gnl|CDD|236474 PRK09350, PRK09350, poxB regulator PoxA; Provisional.
Length = 306
Score = 78.0 bits (193), Expect = 9e-16
Identities = 42/120 (35%), Positives = 63/120 (52%), Gaps = 13/120 (10%)
Query: 214 RAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATA-----KPFVTH----HNDLNMDLYMR 264
RA+IIA +RR+ G LEVETP+++ AT PF T L++
Sbjct: 8 RAKIIAEIRRFFADRGVLEVETPILSQ----ATVTDIHLVPFETRFVGPGASQGKTLWLM 63
Query: 265 IAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDL 324
+PE ++K L+ G ++++ + FRNE HNPEFT E+Y + D LM+ +DL
Sbjct: 64 TSPEYHMKRLLAAGSGPIFQICKSFRNEEAGRYHNPEFTMLEWYRPHYDMYRLMNEVDDL 123
Score = 37.2 bits (87), Expect = 0.018
Identities = 14/25 (56%), Positives = 19/25 (76%)
Query: 428 RAQIIAYVRRYLDSLGFLEVETPMM 452
RA+IIA +RR+ G LEVETP++
Sbjct: 8 RAKIIAEIRRFFADRGVLEVETPIL 32
>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core
domain. Class II assignment is based upon its structure
and the presence of three characteristic sequence
motifs. AspRS is a homodimer, which attaches a specific
amino acid to the 3' OH group of ribose of the
appropriate tRNA. The catalytic core domain is primarily
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. AspRS in this family
differ from those found in the AsxRS family by a GAD
insert in the core domain.
Length = 280
Score = 72.2 bits (178), Expect = 6e-14
Identities = 38/123 (30%), Positives = 67/123 (54%), Gaps = 12/123 (9%)
Query: 211 FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT---AKPFVT---HHNDLNMDLYMR 264
+R+++I +R +LD GF+E+ETP++ +T A+ F+ H L
Sbjct: 1 LRLRSRVIKAIRNFLDEQGFVEIETPIL----TKSTPEGARDFLVPSRLHPGKFYALPQ- 55
Query: 265 IAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHLTEDL 324
+P+L+ ++L+V G DR +++ R FR+E + PEFT + M++ D D+M L E L
Sbjct: 56 -SPQLFKQLLMVSGFDRYFQIARCFRDEDLRADRQPEFTQIDIEMSFVDQEDIMSLIEGL 114
Query: 325 ISG 327
+
Sbjct: 115 LKY 117
Score = 42.9 bits (102), Expect = 2e-04
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 425 FIVRAQIIAYVRRYLDSLGFLEVETPM 451
+R+++I +R +LD GF+E+ETP+
Sbjct: 1 LRLRSRVIKAIRNFLDEQGFVEIETPI 27
>gnl|CDD|238391 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl
synthetase-like catalytic core domain. Class II amino
acyl-tRNA synthetases (aaRS) share a common fold and
generally attach an amino acid to the 3' OH of ribose of
the appropriate tRNA. PheRS is an exception in that it
attaches the amino acid at the 2'-OH group, like class I
aaRSs. These enzymes are usually homodimers. This domain
is primarily responsible for ATP-dependent formation of
the enzyme bound aminoacyl-adenylate. The substrate
specificity of this reaction is further determined by
additional domains. Intererestingly, this domain is also
found is asparagine synthase A (AsnA), in the accessory
subunit of mitochondrial polymerase gamma and in the
bacterial ATP phosphoribosyltransferase regulatory
subunit HisZ.
Length = 211
Score = 69.8 bits (171), Expect = 1e-13
Identities = 40/130 (30%), Positives = 59/130 (45%), Gaps = 16/130 (12%)
Query: 213 VRAQIIAYVRRYLDSLGFLEVETP-MMNMIAGGAT---AKPFVTHHNDLNMDLYMRIAPE 268
+R++I +RR++ LGF EVETP + K + + DLY+R E
Sbjct: 1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLE 60
Query: 269 LYLKMLVVGGL----DRVYEVGRQFRNEGI--DLTHNPEFTTCEFYMAYAD------YND 316
L L V + R+ E+G FRNEG L EFT E + D + +
Sbjct: 61 PGLVRLFVSHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEE 120
Query: 317 LMHLTEDLIS 326
L+ LTE+L+
Sbjct: 121 LIELTEELLR 130
Score = 41.3 bits (97), Expect = 5e-04
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 427 VRAQIIAYVRRYLDSLGFLEVETP-MMNMIAGGAT---AKPFVTHHNDLNMDLYMRIAPE 482
+R++I +RR++ LGF EVETP + K + + DLY+R E
Sbjct: 1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLE 60
Query: 483 LYLKSTHGS 491
L S
Sbjct: 61 PGLVRLFVS 69
>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II
core domain. Assignment to class II aminoacyl-tRNA
synthetases (aaRS) based upon its structure and the
presence of three characteristic sequence motifs in the
core domain. This family includes AsnRS as well as a
subgroup of AspRS. AsnRS and AspRS are homodimers,
which attach either asparagine or aspartate to the 3'OH
group of ribose of the appropriate tRNA. While archaea
lack asnRS, they possess a non-discriminating aspRS,
which can mischarge Asp-tRNA with Asn. Subsequently, a
tRNA-dependent aspartate amidotransferase converts the
bound aspartate to asparagine. The catalytic core domain
is primarily responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate.
Length = 322
Score = 71.4 bits (176), Expect = 1e-13
Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 10/140 (7%)
Query: 191 ETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMM--NMIAGGATAK 248
ET R+LDL +++ F +R++++ R +L GF EV TP + GGA
Sbjct: 5 ETLLDNRHLDLR-TPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELF 63
Query: 249 PFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEFTTCEF 307
+ Y+ +P+LY +ML + L+RVYE+G FR E + H EF E
Sbjct: 64 KV----SYFGKPAYLAQSPQLYKEML-IAALERVYEIGPVFRAEKSNTRRHLSEFWMLEA 118
Query: 308 YMAYA-DYNDLMHLTEDLIS 326
MA+ DYN++M L E+LI
Sbjct: 119 EMAFIEDYNEVMDLIEELIK 138
Score = 37.9 bits (89), Expect = 0.011
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 405 ETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMM 452
ET R+LDL +++ F +R++++ R +L GF EV TP +
Sbjct: 5 ETLLDNRHLDLR-TPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKI 51
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 70.5 bits (173), Expect = 9e-13
Identities = 76/276 (27%), Positives = 121/276 (43%), Gaps = 55/276 (19%)
Query: 88 LENVTLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRG- 146
L + + GRVH IR G K F LR G +Q + + SE + +VK +
Sbjct: 79 LAGSEVLIRGRVHTIRGKG-KSAFLVLRQSGFTVQCVV----FVSEVTVSKGMVKYAKQL 133
Query: 147 ------DIIGVTGSPGKTKKG---ELSIIPKKLTLLSPCLHMLPHMHFGVKD-------- 189
D+ GV P K KG ++ I +K+ +S L LP F V+D
Sbjct: 134 SRESVVDVEGVVSVPKKPVKGTTQQVEIQVRKIYCVSKALATLP---FNVEDAARSESEI 190
Query: 190 --------------KETRFRQRYLDLMI--NERIRHKFIVRAQIIAYVRRYLDSLGFLEV 233
++TR R LDL N+ I F +++Q+ R +L S GF+E+
Sbjct: 191 EKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAI---FRIQSQVCNLFREFLLSKGFVEI 247
Query: 234 ETPMMNMIAGGAT--AKPFVTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRN 291
TP +IAG + + F + L +P+L+ +M + G RV+E+G FR
Sbjct: 248 HTP--KLIAGASEGGSAVFRLDYKGQPACLAQ--SPQLHKQMAICGDFRRVFEIGPVFRA 303
Query: 292 EGIDLTHNP--EFTTCEFYMAYAD-YNDLMHLTEDL 324
E TH EFT + M + Y++++ + ++L
Sbjct: 304 ED-SFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDEL 338
Score = 34.3 bits (79), Expect = 0.16
Identities = 41/149 (27%), Positives = 64/149 (42%), Gaps = 42/149 (28%)
Query: 343 MYQSEEEFASDLVKIKRG-------DIIGVTGSPGKTKKG---ELSIIPKKLTLLSPCLH 392
++ SE + +VK + D+ GV P K KG ++ I +K+ +S L
Sbjct: 115 VFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKPVKGTTQQVEIQVRKIYCVSKALA 174
Query: 393 MLPHMHFGVKD----------------------KETRFRQRYLDLMI--NERIRHKFIVR 428
LP F V+D ++TR R LDL N+ I F ++
Sbjct: 175 TLP---FNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAI---FRIQ 228
Query: 429 AQIIAYVRRYLDSLGFLEVETPMMNMIAG 457
+Q+ R +L S GF+E+ TP +IAG
Sbjct: 229 SQVCNLFREFLLSKGFVEIHTP--KLIAG 255
>gnl|CDD|216440 pfam01336, tRNA_anti, OB-fold nucleic acid binding domain. This
family contains OB-fold domains that bind to nucleic
acids. The family includes the anti-codon binding domain
of lysyl, aspartyl, and asparaginyl -tRNA synthetases
(See pfam00152). Aminoacyl-tRNA synthetases catalyze the
addition of an amino acid to the appropriate tRNA
molecule EC:6.1.1.-. This family also includes part of
RecG helicase involved in DNA repair. Replication factor
A is a heterotrimeric complex, that contains a subunit
in this family. This domain is also found at the
C-terminus of bacterial DNA polymerase III alpha chain.
Length = 75
Score = 61.5 bits (150), Expect = 4e-12
Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 6/80 (7%)
Query: 94 SVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGVTG 153
+VAGRV ++R SG K+ F LR IQV+ +EE K+K GD++ VTG
Sbjct: 2 TVAGRVTSVRRSGGKVAFLTLRDGTGSIQVVLF------KEEAEKLAKKLKEGDVVLVTG 55
Query: 154 SPGKTKKGELSIIPKKLTLL 173
K GEL ++ +++ +L
Sbjct: 56 KVKKRPGGELELVVEEIEVL 75
Score = 36.9 bits (86), Expect = 0.002
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 347 EEEFASDLVKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLL 387
+EE K+K GD++ VTG K GEL ++ +++ +L
Sbjct: 35 KEEAEKLAKKLKEGDVVLVTGKVKKRPGGELELVVEEIEVL 75
>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase. In a multiple
sequence alignment of representative asparaginyl-tRNA
synthetases (asnS), archaeal/eukaryotic type
aspartyl-tRNA synthetases (aspS_arch), and bacterial
type aspartyl-tRNA synthetases (aspS_bact), there is a
striking similarity between asnS and aspS_arch in gap
pattern and in sequence, and a striking divergence of
aspS_bact. Consequently, a separate model was built for
each of the three groups. This model, asnS, represents
asparaginyl-tRNA synthetases from the three domains of
life. Some species lack this enzyme and charge tRNA(asn)
by misacylation with Asp, followed by transamidation of
Asp to Asn [Protein synthesis, tRNA aminoacylation].
Length = 453
Score = 63.9 bits (156), Expect = 7e-11
Identities = 68/264 (25%), Positives = 107/264 (40%), Gaps = 42/264 (15%)
Query: 86 QVLENVTLSVAGRVHAIRESGTKLMFYDLR-GEGLK-IQVMANARMYQSEEEFASDLVKI 143
V + VT+S G V R S K++F +L G L IQ + N + L
Sbjct: 14 FVGDEVTVS--GWVRTKRSSK-KIIFLELNDGSSLGPIQAVINGEDNPYLFQLLKSL--- 67
Query: 144 KRGDIIGVTG----SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFR---- 195
G + VTG SPGK + EL + KK+ ++ + ++ KE
Sbjct: 68 TTGSSVSVTGKVVESPGKGQPVELQV--KKIEVVGE----AEPDDYPLQKKEHSLEFLRD 121
Query: 196 QRYLDLMINERIRHKFI-----VRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPF 250
+L R+R + VR + + RY GF V P++ + F
Sbjct: 122 IAHL------RLRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELF 175
Query: 251 VTHHNDL-------NMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-HNPEF 302
++ + Y+ ++ +LYL+ + L +VY G FR E + + H EF
Sbjct: 176 RVSTGNIDFSQDFFGKEAYLTVSGQLYLETYALA-LSKVYTFGPTFRAEKSNTSRHLSEF 234
Query: 303 TTCEFYMAYADYNDLMHLTEDLIS 326
E MA+A+ NDL+ L E LI
Sbjct: 235 WMIEPEMAFANLNDLLQLAETLIK 258
Score = 33.9 bits (78), Expect = 0.21
Identities = 26/119 (21%), Positives = 43/119 (36%), Gaps = 25/119 (21%)
Query: 347 EEEFASDLVKIKRGDIIGVTG----SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVK 402
L + G + VTG SPGK + EL + KK+ ++ + ++
Sbjct: 57 NPYLFQLLKSLTTGSSVSVTGKVVESPGKGQPVELQV--KKIEVVGE----AEPDDYPLQ 110
Query: 403 DKETRFR----QRYLDLMINERIRHKFI-----VRAQIIAYVRRYLDSLGFLEVETPMM 452
KE +L R+R + VR + + RY GF V P++
Sbjct: 111 KKEHSLEFLRDIAHL------RLRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPIL 163
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 59.2 bits (143), Expect = 3e-09
Identities = 62/256 (24%), Positives = 108/256 (42%), Gaps = 32/256 (12%)
Query: 92 TLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLV----KIKRGD 147
T+ + RV R+ G K+ F LR +Q MA E + +++ +I
Sbjct: 80 TVLIRARVSTTRKKG-KMAFMVLRDGSDSVQAMAAV-----EGDVPKEMIDFIGQIPTES 133
Query: 148 IIGVTGSPGK-------TKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKE--------- 191
I+ V + K T ++ + KK+ ++ L LP KE
Sbjct: 134 IVDVEATVCKVEQPITSTSHSDIELKVKKIHTVTESLRTLPFTLEDASRKESDEGAKVNF 193
Query: 192 -TRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPF 250
TR R++DL F +++++ Y R++L F E+ +P + A F
Sbjct: 194 DTRLNSRWMDLRTPAS-GAIFRLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVF 252
Query: 251 VTHHNDLNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDL-THNPEFTTCEFYM 309
+ N Y+ +P+LY +M++ G + RV+EVG FR+E + H EF + M
Sbjct: 253 KLEY--FNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEM 310
Query: 310 AYAD-YNDLMHLTEDL 324
+ Y +++ L E L
Sbjct: 311 RINEHYYEVLDLAESL 326
Score = 31.1 bits (70), Expect = 1.6
Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 13/135 (9%)
Query: 360 GDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKE----------TRFR 409
+ V T ++ + KK+ ++ L LP KE TR
Sbjct: 139 ATVCKVEQPITSTSHSDIELKVKKIHTVTESLRTLPFTLEDASRKESDEGAKVNFDTRLN 198
Query: 410 QRYLDLMINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGATAKPFVTHHN 469
R++DL F +++++ Y R++L F E+ +P + A F +
Sbjct: 199 SRWMDLRTPAS-GAIFRLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEY- 256
Query: 470 DLNMDLYMRIAPELY 484
N Y+ +P+LY
Sbjct: 257 -FNRFAYLAQSPQLY 270
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 57.7 bits (140), Expect = 5e-09
Identities = 33/134 (24%), Positives = 64/134 (47%), Gaps = 9/134 (6%)
Query: 202 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPMMNMIA-----GGATAKPFVTHHND 256
+ +E+ R V++ I+ Y R +LD GF+EV P+++ G+ +
Sbjct: 21 ISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDF 80
Query: 257 LNMDLYMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGID---LTHNPEFTTCEFYMAYAD 313
++ Y+ + L+ ++ + L +++ + FR E +D H EFT + + AD
Sbjct: 81 YGVEYYLADSMILHKQLALR-MLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD 139
Query: 314 YNDLMHLTEDLISG 327
+++M L EDLI
Sbjct: 140 LDEVMDLIEDLIKY 153
Score = 35.8 bits (83), Expect = 0.054
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 416 MINERIRHKFIVRAQIIAYVRRYLDSLGFLEVETPM 451
+ +E+ R V++ I+ Y R +LD GF+EV P+
Sbjct: 21 ISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPI 56
>gnl|CDD|239812 cd04317, EcAspRS_like_N, EcAspRS_like_N: N-terminal, anticodon
recognition domain of the type found in Escherichia coli
aspartyl-tRNA synthetase (AspRS), the human
mitochondrial (mt) AspRS-2, the discriminating (D)
Thermus thermophilus AspRS-1, and the nondiscriminating
(ND) Helicobacter pylori AspRS. These homodimeric
enzymes are class2b aminoacyl-tRNA synthetases (aaRSs).
This domain is a beta-barrel domain (OB fold) involved
in binding the tRNA anticodon stem-loop. aaRSs catalyze
the specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Eukaryotes contain 2 sets of aaRSs, both of which are
encoded by the nuclear genome. One set concerns with
cytoplasmic synthesis, whereas the other exclusively
with mitochondrial protein synthesis. Human mtAspRS
participates in mitochondrial biosynthesis; this enzyme
been shown to charge E.coli native tRNAsp in addition to
in vitro transcribed human mitochondrial tRNAsp. T.
thermophilus is rare among bacteria in having both a
D_AspRS and a ND_AspRS. H.pylori ND-AspRS can charge
both tRNAASp and tRNAAsn, it is fractionally more
efficient at aminoacylating tRNAAsp over tRNAAsn. The
H.pylori genome does not contain AsnRS.
Length = 135
Score = 49.8 bits (120), Expect = 2e-07
Identities = 38/129 (29%), Positives = 58/129 (44%), Gaps = 21/129 (16%)
Query: 85 AQVLENVTLSVAGRVHAIRESGTKLMFYDLR-GEGLKIQVMANARMYQSEEEFASDLVKI 143
+ V + VTL G V R+ G L+F DLR G+ +QV+ + + EF K+
Sbjct: 11 SHVGQEVTL--CGWVQRRRDHG-GLIFIDLRDRYGI-VQVVFDP---EEAPEFEL-AEKL 62
Query: 144 KRGDIIGVTG-----SPG----KTKKGELSIIPKKLTLLSPC--LHMLPHMHFGVKDKET 192
+ +I VTG G K GE+ ++ +L +L+ L V +E
Sbjct: 63 RNESVIQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKAKTLPFEIDDDVNV-SEEL 121
Query: 193 RFRQRYLDL 201
R + RYLDL
Sbjct: 122 RLKYRYLDL 130
Score = 33.3 bits (77), Expect = 0.10
Identities = 22/82 (26%), Positives = 34/82 (41%), Gaps = 13/82 (15%)
Query: 345 QSEEEFASDLVKIKRGDIIGVTG-----SPG----KTKKGELSIIPKKLTLLSPC--LHM 393
+ EF K++ +I VTG G K GE+ ++ +L +L+ L
Sbjct: 51 EEAPEFEL-AEKLRNESVIQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKAKTLPF 109
Query: 394 LPHMHFGVKDKETRFRQRYLDL 415
V +E R + RYLDL
Sbjct: 110 EIDDDVNV-SEELRLKYRYLDL 130
>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 42.8 bits (102), Expect = 4e-04
Identities = 66/268 (24%), Positives = 107/268 (39%), Gaps = 45/268 (16%)
Query: 82 LPDAQVLENVTLSVAGRVHAIRESGTKLMFYDLR-GEGLK-IQVMANARMYQSEEEFASD 139
L V + VT V G V R+SG K+ F LR G K +QV+ + EE+ +
Sbjct: 10 LKGKYVGQEVT--VRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDN-----GEEYFEE 61
Query: 140 LVKIKRGDIIGVTG----SPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRFR 195
+ K+ G + VTG SP + EL K+ ++ P ++ K
Sbjct: 62 IKKLTTGSSVIVTGTVVESPRAGQGYELQA--TKIEVIGEDPEDYP-----IQKKRHSIE 114
Query: 196 ----QRYLDLMINERIRHK-----FIVRAQIIAYVRRYLDSLGFLEVETPMMNMIAGGAT 246
+L R R +R + + + + GF+ V+TP++
Sbjct: 115 FLREIAHL------RPRTNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGA 168
Query: 247 AKPFVTHHNDLNMDL-------YMRIAPELYLKMLVVGGLDRVYEVGRQFRNEGIDLT-H 298
+ F DL+ Y+ ++ +LY + + L +VY G FR E + H
Sbjct: 169 GELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAYAMA-LGKVYTFGPTFRAENSNTRRH 227
Query: 299 NPEFTTCEFYMAYADYNDLMHLTEDLIS 326
EF E MA+AD D M L E+++
Sbjct: 228 LAEFWMIEPEMAFADLEDNMDLAEEMLK 255
>gnl|CDD|239811 cd04316, ND_PkAspRS_like_N, ND_PkAspRS_like_N: N-terminal,
anticodon recognition domain of the type found in the
homodimeric non-discriminating (ND) Pyrococcus
kodakaraensis aspartyl-tRNA synthetase (AspRS). This
domain is a beta-barrel domain (OB fold) involved in
binding the tRNA anticodon stem-loop. P. kodakaraensis
AspRS is a class 2b aaRS. aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation the AA by ATP in the presence
of magnesium ions, followed by ii) the transfer of the
activated AA to the terminal ribose of tRNA. In the
case of the class2b aaRSs, the activated AA is attached
to the 3'OH of the terminal ribose. P. kodakaraensis
ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of
the enzymes in this group may be discriminating, based
on the presence of homologs of asparaginyl-tRNA
synthetase (AsnRS) in their completed genomes.
Length = 108
Score = 38.8 bits (91), Expect = 8e-04
Identities = 27/85 (31%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 92 TLSVAGRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVKIKRGDIIGV 151
++VAG VH IR+ G + F LR +QV A + + ++E + K+ R +I V
Sbjct: 14 EVTVAGWVHEIRDLG-GIKFVILRDREGIVQVTAPKK--KVDKELFKTVRKLSRESVISV 70
Query: 152 TGSPGKTKK--GELSIIPKKLTLLS 174
TG+ K + IIP+++ +LS
Sbjct: 71 TGTVKAEPKAPNGVEIIPEEIEVLS 95
>gnl|CDD|232988 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit. Most
phenylalanyl-tRNA synthetases are heterodimeric, with 2
alpha (pheS) and 2 beta (pheT) subunits. This model
describes the alpha subunit, which shows some similarity
to class II aminoacyl-tRNA ligases. Mitochondrial
phenylalanyl-tRNA synthetase is a single polypeptide
chain, active as a monomer, and similar to this chain
rather than to the beta chain, but excluded from this
model. An interesting feature of the alignment of all
sequences captured by this model is a deep split between
non-spirochete bacterial examples and all other
examples; supporting this split is a relative deletion
of about 50 residues in the former set between two
motifs well conserved throughout the alignment [Protein
synthesis, tRNA aminoacylation].
Length = 293
Score = 39.6 bits (93), Expect = 0.003
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 9/62 (14%)
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYN----DLMHLTEDLIS---GRKEDRN 333
R++ GR FRN+ +D TH PEF E D N +L E+ + G E R
Sbjct: 152 RIFSPGRVFRNDTVDATHLPEFHQVEG--LVIDKNISFTNLKGFLEEFLKKMFGETEIRF 209
Query: 334 RP 335
RP
Sbjct: 210 RP 211
>gnl|CDD|238277 cd00496, PheRS_alpha_core, Phenylalanyl-tRNA synthetase (PheRS)
alpha chain catalytic core domain. PheRS belongs to
class II aminoacyl-tRNA synthetases (aaRS) based upon
its structure and the presence of three characteristic
sequence motifs. This domain is primarily responsible
for ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. While class II aaRSs generally
aminoacylate the 3'-OH ribose of the appropriate tRNA,
PheRS is an exception in that it attaches the amino acid
at the 2'-OH group, like class I aaRSs. PheRS is an
alpha-2/ beta-2 tetramer.
Length = 218
Score = 37.5 bits (88), Expect = 0.009
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 278 GLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYN----DLMHLTEDLIS 326
R++ +GR +RN+ ID TH PEF E D DL E+
Sbjct: 79 PPIRIFSIGRVYRNDEIDATHLPEFHQIEG--LVVDKGLTFADLKGTLEEFAK 129
>gnl|CDD|239815 cd04320, AspRS_cyto_N, AspRS_cyto_N: N-terminal, anticodon
recognition domain of the type found in Saccharomyces
cerevisiae and human cytoplasmic aspartyl-tRNA
synthetase (AspRS). This domain is a beta-barrel domain
(OB fold) involved in binding the tRNA anticodon
stem-loop. The enzymes in this group are homodimeric
class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs
catalyze the specific attachment of amino acids (AAs) to
their cognate tRNAs during protein biosynthesis. This
2-step reaction involves i) the activation of the AA by
ATP in the presence of magnesium ions, followed by ii)
the transfer of the activated AA to the terminal ribose
of tRNA. In the case of the class2b aaRSs, the
activated AA is attached to the 3'OH of the terminal
ribose. Eukaryotes contain 2 sets of aaRSs, both of
which are encoded by the nuclear genome. One set
concerns with cytoplasmic protein synthesis, whereas the
other exclusively with mitochondrial protein synthesis.
Length = 102
Score = 35.2 bits (82), Expect = 0.014
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 8/61 (13%)
Query: 97 GRVHAIRESGTKLMFYDLRGEGLKIQVMANARMYQSEEEFASDLVK----IKRGDIIGVT 152
RVH R G KL F LR +G IQ + A S E + +VK + + I+ V
Sbjct: 6 ARVHTSRAQGAKLAFLVLRQQGYTIQGVLAA----SAEGVSKQMVKWAGSLSKESIVDVE 61
Query: 153 G 153
G
Sbjct: 62 G 62
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 34.8 bits (81), Expect = 0.12
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCE 306
+ + +GR FR + ID TH PEF E
Sbjct: 352 KYFSIGRVFRPDTIDATHLPEFYQLE 377
>gnl|CDD|216483 pfam01409, tRNA-synt_2d, tRNA synthetases class II core domain (F).
Other tRNA synthetase sub-families are too dissimilar
to be included. This family includes only
phenylalanyl-tRNA synthetases. This is the core
catalytic domain.
Length = 245
Score = 32.9 bits (76), Expect = 0.36
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCEF 307
+++ +GR FR + +D TH PEF E
Sbjct: 104 KIFSIGRVFRRDQVDATHLPEFHQVEG 130
>gnl|CDD|223095 COG0016, PheS, Phenylalanyl-tRNA synthetase alpha subunit
[Translation, ribosomal structure and biogenesis].
Length = 335
Score = 32.2 bits (74), Expect = 0.69
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 281 RVYEVGRQFRNEGIDLTHNPEFTTCEF 307
+++ GR +RN+ +D TH+PEF E
Sbjct: 194 KIFSPGRVYRNDTVDATHSPEFHQIEG 220
>gnl|CDD|238394 cd00771, ThrRS_core, Threonyl-tRNA synthetase (ThrRS) class II core
catalytic domain. ThrRS is a homodimer. It is
responsible for the attachment of threonine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain.
Length = 298
Score = 31.8 bits (73), Expect = 0.77
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 212 IVRAQIIAYVRRYLDSLGFLEVETPMM 238
I+R ++ ++R G+ EVETP++
Sbjct: 31 IIRNELEDFLRELQRKRGYQEVETPII 57
Score = 31.8 bits (73), Expect = 0.77
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 426 IVRAQIIAYVRRYLDSLGFLEVETPMM 452
I+R ++ ++R G+ EVETP++
Sbjct: 31 IIRNELEDFLRELQRKRGYQEVETPII 57
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 31.8 bits (73), Expect = 1.0
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 212 IVRAQIIAYVRRYLDSLGFLEVETPMM 238
+R + YVR L S G+ EV+TP++
Sbjct: 221 TIRNLLEDYVRTKLRSYGYQEVKTPVL 247
Score = 31.8 bits (73), Expect = 1.0
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 426 IVRAQIIAYVRRYLDSLGFLEVETPMM 452
+R + YVR L S G+ EV+TP++
Sbjct: 221 TIRNLLEDYVRTKLRSYGYQEVKTPVL 247
>gnl|CDD|216009 pfam00587, tRNA-synt_2b, tRNA synthetase class II core domain (G,
H, P, S and T). Other tRNA synthetase sub-families are
too dissimilar to be included. This domain is the core
catalytic domain of tRNA synthetases and includes
glycyl, histidyl, prolyl, seryl and threonyl tRNA
synthetases.
Length = 171
Score = 30.7 bits (70), Expect = 1.2
Identities = 20/100 (20%), Positives = 39/100 (39%), Gaps = 25/100 (25%)
Query: 213 VRAQIIAYVRRYLDSLGFLEVETPMMN-----MIAGGATAK------PFVTHHNDLNMDL 261
+R + ++R L G+ EV+TP++ +G F + +L
Sbjct: 1 LRNALENFIRELLKRYGYQEVDTPILEPKELWEGSGHWDDYFEEEMYKFKDRGGE---EL 57
Query: 262 YMRIAPE------LYLKMLVVGGLD---RVYEVGRQFRNE 292
Y+R P K ++ + ++Y++G FR E
Sbjct: 58 YLR--PTAEVGITRLFKNEILSYRELPLKLYQIGPCFRYE 95
Score = 30.3 bits (69), Expect = 1.9
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 427 VRAQIIAYVRRYLDSLGFLEVETPMM 452
+R + ++R L G+ EV+TP++
Sbjct: 1 LRNALENFIRELLKRYGYQEVDTPIL 26
>gnl|CDD|217752 pfam03833, PolC_DP2, DNA polymerase II large subunit DP2.
Length = 852
Score = 30.9 bits (70), Expect = 2.5
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 268 ELYLKMLVVGGLDRVYEVGRQFRNEGIDLTHNPE 301
E Y + L +DR YE+ R G+D T E
Sbjct: 1 ESYFEKLEDE-VDRAYEIAEAARERGLDPTDKVE 33
>gnl|CDD|236527 PRK09462, fur, ferric uptake regulator; Provisional.
Length = 148
Score = 29.3 bits (66), Expect = 2.7
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 16/80 (20%)
Query: 266 APELYLKMLVVG---GLDRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMHL-- 320
A +LY +++ +G GL VY V QF + GI HN E F + ++D HL
Sbjct: 36 AEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVFELTQQHHHD--HLIC 93
Query: 321 ---------TEDLISGRKED 331
++D I R+ +
Sbjct: 94 LDCGKVIEFSDDSIEARQRE 113
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 30.4 bits (70), Expect = 3.1
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 212 IVRAQIIAYVRRYLDSLGFLEVETPMM 238
+R ++ Y+RR L G+ EV+TP +
Sbjct: 271 TIRRELERYIRRKLRKAGYQEVKTPQI 297
Score = 30.4 bits (70), Expect = 3.1
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 426 IVRAQIIAYVRRYLDSLGFLEVETPMM 452
+R ++ Y+RR L G+ EV+TP +
Sbjct: 271 TIRRELERYIRRKLRKAGYQEVKTPQI 297
>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 30.2 bits (68), Expect = 3.2
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 279 LDRVYEVGRQFRNEGID-LTHNPEFTTCEFYMAYADYNDLMHLTED 323
L VY G +FR + ID H E E MA+++ D M+ ED
Sbjct: 389 LGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSELEDAMNCAED 434
>gnl|CDD|239818 cd04323, AsnRS_cyto_like_N, AsnRS_cyto_like_N: N-terminal,
anticodon recognition domain of the type found in human
and Saccharomyces cerevisiae cytoplasmic
asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai
AsnRs and, in various putative bacterial AsnRSs. This
domain is a beta-barrel domain (OB fold) involved in
binding the tRNA anticodon stem-loop. The enzymes in
this group are homodimeric class2b aminoacyl-tRNA
synthetases (aaRSs). aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation of the AA by ATP in the
presence of magnesium ions, followed by ii) the transfer
of the activated AA to the terminal ribose of tRNA. In
the case of the class2b aaRSs, the activated AA is
attached to the 3'OH of the terminal ribose. Eukaryotes
contain 2 sets of aaRSs, both of which are encoded by
the nuclear genome. One set concerns with cytoplasmic
synthesis, whereas the other exclusively with
mitochondrial protein synthesis. AsnRS is
immunodominant antigen of the filarial nematode B.
malayai and of interest as a target for anti-parasitic
drug design. Human AsnRS has been shown to be a
pro-inflammatory chemokine which interacts with CCR3
chemokine receptors on T cells, immature dendritic cells
and macrophages.
Length = 84
Score = 28.0 bits (63), Expect = 3.5
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 94 SVAGRVHAIRESGTKLMFYDLR-GEGLKIQV 123
V G VH +R KLMF LR G G +Q
Sbjct: 3 KVFGWVHRLRSQK-KLMFLVLRDGTGF-LQC 31
>gnl|CDD|223810 COG0739, NlpD, Membrane proteins related to metalloendopeptidases
[Cell envelope biogenesis, outer membrane].
Length = 277
Score = 29.8 bits (66), Expect = 3.9
Identities = 15/75 (20%), Positives = 24/75 (32%), Gaps = 21/75 (28%)
Query: 141 VKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGV-KDKETRFRQRYL 199
K+K G +IG GS G++ PH+HF V K+ +
Sbjct: 222 QKVKAGQVIGYVGSTGRSTG--------------------PHLHFEVRKNGKLVPPVNPA 261
Query: 200 DLMINERIRHKFIVR 214
+ + K
Sbjct: 262 RYLPKGGLLGKLESA 276
Score = 29.8 bits (66), Expect = 3.9
Identities = 15/75 (20%), Positives = 24/75 (32%), Gaps = 21/75 (28%)
Query: 355 VKIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGV-KDKETRFRQRYL 413
K+K G +IG GS G++ PH+HF V K+ +
Sbjct: 222 QKVKAGQVIGYVGSTGRSTG--------------------PHLHFEVRKNGKLVPPVNPA 261
Query: 414 DLMINERIRHKFIVR 428
+ + K
Sbjct: 262 RYLPKGGLLGKLESA 276
>gnl|CDD|213580 TIGR01060, eno, phosphopyruvate hydratase. Alternate name: enolase
[Energy metabolism, Glycolysis/gluconeogenesis].
Length = 425
Score = 29.6 bits (67), Expect = 4.1
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 223 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 267
RYL + PMMN+I GGA A N+L+ +M I P
Sbjct: 129 RYLGGFNAYVLPVPMMNIINGGAHAD------NNLDFQEFM-IMP 166
Score = 29.6 bits (67), Expect = 4.1
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 437 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 481
RYL + PMMN+I GGA A N+L+ +M I P
Sbjct: 129 RYLGGFNAYVLPVPMMNIINGGAHAD------NNLDFQEFM-IMP 166
>gnl|CDD|215458 PLN02853, PLN02853, Probable phenylalanyl-tRNA synthetase alpha
chain.
Length = 492
Score = 30.0 bits (68), Expect = 4.1
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 281 RVYEVGRQFRNEGIDLTHNPEF 302
R + + R FRNE +D TH EF
Sbjct: 344 RYFSIDRVFRNEAVDRTHLAEF 365
>gnl|CDD|188213 TIGR02367, PylS_Cterm, pyrrolysyl-tRNA synthetase, C-terminal
region. PylS is the enzyme responsible for charging the
pyrrolysine tRNA, PylT, by ligating a free molecule of
pyrrolysine. Pyrrolysine is encoded at an in-frame UAG
(amber) at least in several corrinoid-dependent
methyltransferases of the archaeal genera Methanosarcina
and Methanococcoides, such as trimethylamine
methyltransferase. This protein occurs as a fusion
protein in Methanosarcina but as split genes in
Desulfitobacterium hafniense and other bacteria [Protein
synthesis, tRNA aminoacylation].
Length = 242
Score = 29.4 bits (66), Expect = 4.1
Identities = 26/98 (26%), Positives = 40/98 (40%), Gaps = 15/98 (15%)
Query: 223 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDL---------NMDLYMRIAPELY--L 271
+ L GF++V+TP++ I K + + L N L +AP LY L
Sbjct: 37 KALVDRGFVQVKTPII--IPKEYLEKMTIDEDHPLFSQVFWVDENKCLRPMLAPNLYNYL 94
Query: 272 KMLVVGGLD--RVYEVGRQFRNEGIDLTHNPEFTTCEF 307
+ L R++E+G +R E H EFT
Sbjct: 95 RKLDRLWPKPIRIFEIGPCYRKESQGSQHLNEFTMLNL 132
>gnl|CDD|151668 pfam11226, DUF3022, Protein of unknown function (DUF3022). This
family of proteins with unknown function appears to be
restricted to Proteobacteria.
Length = 111
Score = 28.2 bits (63), Expect = 4.8
Identities = 13/32 (40%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 197 RYLDLMINERIRHKFIVRAQIIAYVRRYLDSL 228
RY L R+R V A + YV LDSL
Sbjct: 63 RYAALDAAARLR----VHAVLHDYVEATLDSL 90
Score = 28.2 bits (63), Expect = 4.8
Identities = 13/32 (40%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 411 RYLDLMINERIRHKFIVRAQIIAYVRRYLDSL 442
RY L R+R V A + YV LDSL
Sbjct: 63 RYAALDAAARLR----VHAVLHDYVEATLDSL 90
>gnl|CDD|239429 cd03313, enolase, Enolase: Enolases are homodimeric enzymes that
catalyse the reversible dehydration of
2-phospho-D-glycerate to phosphoenolpyruvate as part of
the glycolytic and gluconeogenesis pathways. The
reaction is facilitated by the presence of metal ions.
Length = 408
Score = 29.4 bits (67), Expect = 5.8
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 7/45 (15%)
Query: 223 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 267
RYL L + PM N+I GGA A N L+ +M I P
Sbjct: 127 RYLGGLAAYVLPVPMFNVINGGAHAG------NKLDFQEFM-IVP 164
Score = 29.4 bits (67), Expect = 5.8
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 7/45 (15%)
Query: 437 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 481
RYL L + PM N+I GGA A N L+ +M I P
Sbjct: 127 RYLGGLAAYVLPVPMFNVINGGAHAG------NKLDFQEFM-IVP 164
>gnl|CDD|147106 pfam04781, DUF627, Protein of unknown function (DUF627). This
family represents the N-terminal region of several plant
proteins of unknown function.
Length = 112
Score = 27.6 bits (62), Expect = 6.5
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 308 YMAYADYNDLMHLTEDLISGRKEDRNRPCV 337
A DY + + ED IS +D + +
Sbjct: 6 LFAKGDYIKALEIIEDSISDHGKDESAWLL 35
>gnl|CDD|198294 cd03185, GST_C_Tau, C-terminal, alpha helical domain of Class Tau
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Tau subfamily;
GSTs are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. The plant-specific class Tau GST
subfamily has undergone extensive gene duplication. The
Arabidopsis and Oryza genomes contain 28 and 40 Tau
GSTs, respectively. They are primarily responsible for
herbicide detoxification together with class Phi GSTs,
showing class specificity in substrate preference. Tau
enzymes are highly efficient in detoxifying
diphenylether and aryloxyphenoxypropionate herbicides.
In addition, Tau GSTs play important roles in
intracellular signalling, biosynthesis of anthocyanin,
responses to soil stresses and responses to auxin and
cytokinin hormones.
Length = 127
Score = 27.9 bits (63), Expect = 6.5
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 6/37 (16%)
Query: 518 LHMFPALEAALGVKLPNPTEFDTPE----ANKFLSDP 550
L F A+E GVKL + +F P A +FL
Sbjct: 74 LGWFKAIEEVGGVKLLDEEKF--PLLAAWAERFLERE 108
>gnl|CDD|240361 PTZ00326, PTZ00326, phenylalanyl-tRNA synthetase alpha chain;
Provisional.
Length = 494
Score = 29.2 bits (66), Expect = 6.9
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 12/44 (27%)
Query: 280 DRVYEVGRQFRNEGIDLTHNPEFTTCEFYMAYADYN----DLMH 319
DRV FRNE +D TH EF E ++ D N DL+
Sbjct: 364 DRV------FRNETLDATHLAEFHQVEGFV--IDRNLTLGDLIG 399
>gnl|CDD|185123 PRK15201, PRK15201, fimbriae regulatory protein FimW; Provisional.
Length = 198
Score = 28.5 bits (63), Expect = 7.2
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 168 KKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDS 227
K+ + PCL+MLPH+ + D E R+ L I HK +R + + + Y +
Sbjct: 80 KEKLMFRPCLYMLPHI-YREDDVEEITRKMIL-------ILHKRALRHSVPSGICHYCTT 131
Query: 228 LGFLEVETPMMNMIAGG 244
F E ++ +IA G
Sbjct: 132 RHFSVTERHLLKLIASG 148
Score = 28.5 bits (63), Expect = 7.2
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 382 KKLTLLSPCLHMLPHMHFGVKDKETRFRQRYLDLMINERIRHKFIVRAQIIAYVRRYLDS 441
K+ + PCL+MLPH+ + D E R+ L I HK +R + + + Y +
Sbjct: 80 KEKLMFRPCLYMLPHI-YREDDVEEITRKMIL-------ILHKRALRHSVPSGICHYCTT 131
Query: 442 LGFLEVETPMMNMIAGG 458
F E ++ +IA G
Sbjct: 132 RHFSVTERHLLKLIASG 148
>gnl|CDD|234780 PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Validated.
Length = 339
Score = 28.9 bits (66), Expect = 7.4
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 286 GRQFRNEGIDLTHNPEFTTCEF 307
GR +RN+ D TH+P F E
Sbjct: 192 GRVYRNDSDDATHSPMFHQVEG 213
>gnl|CDD|227342 COG5009, MrcA, Membrane carboxypeptidase/penicillin-binding protein
[Cell envelope biogenesis, outer membrane].
Length = 797
Score = 29.2 bits (66), Expect = 7.4
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 76 IEKYSDLPDAQVLENVTLSVAGRVHAIR 103
+ DLPD + L++V V RV++
Sbjct: 28 LYISPDLPDVETLKDVEPPVPTRVYSAD 55
>gnl|CDD|216566 pfam01551, Peptidase_M23, Peptidase family M23. Members of this
family are zinc metallopeptidases with a range of
specificities. The peptidase family M23 is included in
this family, these are Gly-Gly endopeptidases. Peptidase
family M23 are also endopeptidases. This family also
includes some bacterial lipoproteins such as Escherichia
coli murein hydrolase activator NlpD, for which no
proteolytic activity has been demonstrated. This family
also includes leukocyte cell-derived chemotaxin 2
(LECT2) proteins. LECT2 is a liver-specific protein
which is thought to be linked to hepatocyte growth
although the exact function of this protein is unknown.
Length = 96
Score = 27.2 bits (61), Expect = 8.0
Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 20/53 (37%)
Query: 142 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 194
++K G +IG GS G++ PH+HF ++
Sbjct: 62 RVKAGQVIGTVGSTGRSTG--------------------PHLHFEIRKNGKPV 94
Score = 27.2 bits (61), Expect = 8.0
Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 20/53 (37%)
Query: 356 KIKRGDIIGVTGSPGKTKKGELSIIPKKLTLLSPCLHMLPHMHFGVKDKETRF 408
++K G +IG GS G++ PH+HF ++
Sbjct: 62 RVKAGQVIGTVGSTGRSTG--------------------PHLHFEIRKNGKPV 94
>gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 458
Score = 28.9 bits (65), Expect = 8.1
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 132 SE-EEFASDLVKIKRGDIIGVTGSPGKT 158
SE EEF +K + GVTGS GKT
Sbjct: 106 SEMEEF----IKYCPAKVFGVTGSDGKT 129
Score = 28.9 bits (65), Expect = 8.1
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 346 SE-EEFASDLVKIKRGDIIGVTGSPGKT 372
SE EEF +K + GVTGS GKT
Sbjct: 106 SEMEEF----IKYCPAKVFGVTGSDGKT 129
>gnl|CDD|223226 COG0148, Eno, Enolase [Carbohydrate transport and metabolism].
Length = 423
Score = 28.7 bits (65), Expect = 9.1
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 223 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 267
RYL L L + PMMN+I GGA A N+L++ +M I P
Sbjct: 131 RYLGGLNALVLPVPMMNVINGGAHAD------NNLDIQEFM-IMP 168
Score = 28.7 bits (65), Expect = 9.1
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 437 RYLDSLGFLEVETPMMNMIAGGATAKPFVTHHNDLNMDLYMRIAP 481
RYL L L + PMMN+I GGA A N+L++ +M I P
Sbjct: 131 RYLGGLNALVLPVPMMNVINGGAHAD------NNLDIQEFM-IMP 168
>gnl|CDD|223202 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 28.7 bits (65), Expect = 9.6
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 211 FIVRAQIIAYVRRYLDSLGFLEVETPMM 238
+R I + +R+ +S GF E+ TP+
Sbjct: 18 MALREYIESTIRKVFESYGFSEIRTPIF 45
Score = 28.7 bits (65), Expect = 9.6
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 425 FIVRAQIIAYVRRYLDSLGFLEVETPMM 452
+R I + +R+ +S GF E+ TP+
Sbjct: 18 MALREYIESTIRKVFESYGFSEIRTPIF 45
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.137 0.403
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,067,396
Number of extensions: 2931723
Number of successful extensions: 2943
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2870
Number of HSP's successfully gapped: 147
Length of query: 553
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 451
Effective length of database: 6,413,494
Effective search space: 2892485794
Effective search space used: 2892485794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 62 (27.8 bits)