RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018229
(359 letters)
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 600 bits (1549), Expect = 0.0
Identities = 266/363 (73%), Positives = 318/363 (87%), Gaps = 5/363 (1%)
Query: 1 MADNELP-VDQVATMDLNDDA--VQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVK 57
M D +P +Q+A + L +D VQ+ QFSDRVLI+SIL RPDGGAGLAG++VR+GGWVK
Sbjct: 1 MGDEIVPPANQLAAVSLENDGSTVQKAQFSDRVLIRSILDRPDGGAGLAGQKVRIGGWVK 60
Query: 58 TGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE--GT 115
TGREQGKG+FAFLEVNDGSCPANLQV+VD + DL LV TGTCV V+G+LK PPE GT
Sbjct: 61 TGREQGKGTFAFLEVNDGSCPANLQVMVDSSLYDLSTLVATGTCVTVDGVLKVPPEGKGT 120
Query: 116 KQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYA 175
KQKIEL V+KV+DVG VDP KYP+PKTKLTLEFLRD + R RTN+I+AVARIRNALA+A
Sbjct: 121 KQKIELSVEKVIDVGTVDPTKYPLPKTKLTLEFLRDVLHLRSRTNSISAVARIRNALAFA 180
Query: 176 THTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAA 235
TH+F Q+ FLYIHTPIITTSDCEGAGEMFQVTTLI+ ++LE++LI NPPP+EAD+EAA
Sbjct: 181 THSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPPPTEADVEAA 240
Query: 236 KLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDY 295
+L++KE+GE VA+LK+ KA +E I+A+V EL AKE+LA +EERSKLKPG+P+KDGKIDY
Sbjct: 241 RLIVKERGEVVAQLKAAKASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDY 300
Query: 296 TQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355
++DFF RQAFLTVSGQLQVETYACA+S+VYTFGPTFRAE+SHTSRHLAEFWMVEPE+AF+
Sbjct: 301 SKDFFGRQAFLTVSGQLQVETYACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFA 360
Query: 356 DLK 358
DL+
Sbjct: 361 DLE 363
>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 320 bits (822), Expect = e-105
Identities = 153/297 (51%), Positives = 204/297 (68%), Gaps = 10/297 (3%)
Query: 66 SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNP-PEGTKQKIELRVQ 124
S A+L ++DGSC A+LQV+VD +A L QL+ TGTC+ EG+LK P P K IEL V+
Sbjct: 134 SVAYLLISDGSCVASLQVVVDSALAPLTQLMATGTCILAEGVLKLPLPAQGKHVIELEVE 193
Query: 125 KVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQG 184
K++ +G VDP KYP+ K +L L+ LRD FRPRT T+A+V R+R+AL +ATHTF Q G
Sbjct: 194 KILHIGTVDPEKYPLSKKRLPLDMLRDFSHFRPRTTTVASVTRVRSALTHATHTFFQDHG 253
Query: 185 FLYIHTPIITTSDCEGAGEMFQVTTLIS-DADKLEKELIKNPPPSEAD---IEAAKLVIK 240
FLY+ PIITT+D G GEMF+VTTL+ DK EK P E + +EA K IK
Sbjct: 254 FLYVQVPIITTTDATGFGEMFRVTTLLGKSDDKEEK-----KPVHETEGISLEAVKAAIK 308
Query: 241 EKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFF 300
EK V +LK ++ REA+ A+ +L K + ++LE + KLK G K K+ +++DFF
Sbjct: 309 EKTNLVEELKRSESNREALVAAEQDLRKTNQLASQLEAKEKLKTGTSVKADKLSFSKDFF 368
Query: 301 ARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL 357
+R +LTVSG+L +E+YACA+ NVYTFGP FRA+ ++RHLAE WMVE EMAFS+L
Sbjct: 369 SRPTYLTVSGRLHLESYACALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSEL 425
Score = 55.3 bits (133), Expect = 3e-08
Identities = 23/40 (57%), Positives = 33/40 (82%)
Query: 25 QFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGK 64
++S+RV++K+IL R DGGAGL G++V VGGWVK+ +E K
Sbjct: 25 KYSNRVVLKTILGRSDGGAGLVGKRVVVGGWVKSAKEVKK 64
>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 255 bits (652), Expect = 5e-80
Identities = 138/326 (42%), Positives = 178/326 (54%), Gaps = 42/326 (12%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGT--CVYV 104
+ + V GW K R+QG G F F+ +NDGSC NLQ+IVD+ + + +L+ G C
Sbjct: 81 DQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQSIENYEKLLKCGVGCCFRF 140
Query: 105 EGMLKNPP---EGTKQKIELRVQKVVDVGMV----------DPAKYPIPKTKLTLEFLRD 151
G L P E K ++ V+ + + DP KYP+ K EFLR+
Sbjct: 141 TGKLIISPVQNENKKGLLKENVELALKDNSIHNFEIYGENLDPQKYPLSKKNHGKEFLRE 200
Query: 152 RIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLI 211
RPR+ I++V RIRNALA ATH F Q +GFLYIHTP+ITTSDCEG GEMF VTTL+
Sbjct: 201 VAHLRPRSYFISSVIRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLL 260
Query: 212 SDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKE 271
+ +AD A V K RE I + A
Sbjct: 261 GE---------------DADYRAIP--------RVNKKNKKGEKREDILNTCN----ANN 293
Query: 272 NLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTF 331
N + + IDY +DFF++QAFLTVSGQL +E ++ +VYTFGPTF
Sbjct: 294 NNGNSSSSNAVSSPAYPDQYLIDYKKDFFSKQAFLTVSGQLSLENLCSSMGDVYTFGPTF 353
Query: 332 RAEHSHTSRHLAEFWMVEPEMAFSDL 357
RAE+SHTSRHLAEFWM+EPE+AF+DL
Sbjct: 354 RAENSHTSRHLAEFWMIEPEIAFADL 379
>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 218 bits (559), Expect = 2e-67
Identities = 86/190 (45%), Positives = 112/190 (58%), Gaps = 11/190 (5%)
Query: 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDK- 87
RV IK IL G++V V GWV+T R+ GK AFL++ DGSC LQV+ D
Sbjct: 3 RVSIKDILKGK-----YVGQEVTVRGWVRTKRDSGK--IAFLQLRDGSCFKQLQVVKDNG 55
Query: 88 -DVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTL 146
+ + + + TG+ V V G + P Q EL+ K+ +G DP YPI K + ++
Sbjct: 56 EEYFEEIKKLTTGSSVIVTGTVVESP-RAGQGYELQATKIEVIGE-DPEDYPIQKKRHSI 113
Query: 147 EFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQ 206
EFLR+ RPRTN AV RIRN LA A H F + GF+++ TPIIT SDCEGAGE+F+
Sbjct: 114 EFLREIAHLRPRTNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFR 173
Query: 207 VTTLISDADK 216
VTTL D K
Sbjct: 174 VTTLDLDFSK 183
Score = 152 bits (386), Expect = 3e-42
Identities = 45/65 (69%), Positives = 57/65 (87%)
Query: 294 DYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMA 353
D+++DFF ++A+LTVSGQL E YA A+ VYTFGPTFRAE+S+T RHLAEFWM+EPEMA
Sbjct: 180 DFSKDFFGKEAYLTVSGQLYAEAYAMALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMA 239
Query: 354 FSDLK 358
F+DL+
Sbjct: 240 FADLE 244
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 195 bits (498), Expect = 1e-57
Identities = 95/209 (45%), Positives = 133/209 (63%), Gaps = 8/209 (3%)
Query: 25 QFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVI 84
+F ++ I + D G G+ + V GWV+T R Q S F+EVNDGSC +N+Q +
Sbjct: 85 EFRKKLRIADVKGGEDEGLARVGKTLNVMGWVRTLRAQS--SVTFIEVNDGSCLSNMQCV 142
Query: 85 VDKDVADLGQ----LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIP 140
+ D Q L+ TG V V+G + + +G KQK+EL+V K+V VG DP+ YPI
Sbjct: 143 MTPDAEGYDQVESGLITTGASVLVQGTVVSS-QGGKQKVELKVSKIVVVGKSDPS-YPIQ 200
Query: 141 KTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEG 200
K +++ EFLR + RPRTNT AVAR+RNALAYATH F Q+ GF+++ +PIIT SDCEG
Sbjct: 201 KKRVSREFLRTKAHLRPRTNTFGAVARVRNALAYATHKFFQENGFVWVSSPIITASDCEG 260
Query: 201 AGEMFQVTTLISDADKLEKELIKNPPPSE 229
AGE F VTTLI ++ + L+ + P ++
Sbjct: 261 AGEQFCVTTLIPNSAENGGSLVDDIPKTK 289
Score = 128 bits (324), Expect = 4e-33
Identities = 55/74 (74%), Positives = 66/74 (89%), Gaps = 1/74 (1%)
Query: 285 GIPQ-KDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLA 343
IP+ KDG ID++QDFF + AFLTVSGQL ETYA A+S+VYTFGPTFRAE+S+TSRHLA
Sbjct: 284 DIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGETYATALSDVYTFGPTFRAENSNTSRHLA 343
Query: 344 EFWMVEPEMAFSDL 357
EFWM+EPE+AF+DL
Sbjct: 344 EFWMIEPELAFADL 357
>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 = 180 bits (459), Expect = 9e-53
Identities = 73/187 (39%), Positives = 108/187 (57%), Gaps = 7/187 (3%)
Query: 34 SILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-- 91
+I G +V V GWV+T R K FLE+NDGS +Q +++ +
Sbjct: 3 AIKDLLQQVYKFVGDEVTVSGWVRTKRSSKK--IIFLELNDGSSLGPIQAVINGEDNPYL 60
Query: 92 --LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFL 149
L + + TG+ V V G + G Q +EL+V+K+ VG +P YP+ K + +LEFL
Sbjct: 61 FQLLKSLTTGSSVSVTGKVV-ESPGKGQPVELQVKKIEVVGEAEPDDYPLQKKEHSLEFL 119
Query: 150 RDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTT 209
RD R RTNT+ AV R+RNAL+ A H + Q+ GF ++ PI+T++DCEGAGE+F+V+T
Sbjct: 120 RDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELFRVST 179
Query: 210 LISDADK 216
D +
Sbjct: 180 GNIDFSQ 186
Score = 131 bits (332), Expect = 1e-34
Identities = 49/70 (70%), Positives = 61/70 (87%)
Query: 289 KDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMV 348
G ID++QDFF ++A+LTVSGQL +ETYA A+S VYTFGPTFRAE S+TSRHL+EFWM+
Sbjct: 178 STGNIDFSQDFFGKEAYLTVSGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEFWMI 237
Query: 349 EPEMAFSDLK 358
EPEMAF++L
Sbjct: 238 EPEMAFANLN 247
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 154 bits (392), Expect = 3e-43
Identities = 67/195 (34%), Positives = 94/195 (48%), Gaps = 19/195 (9%)
Query: 26 FSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIV 85
R IK I G ++V V GWV R+ GK FL + DGS +Q +V
Sbjct: 1 MMKRTYIKDIKPHVGG------QEVTVRGWVHNKRDLGK--IIFLVLRDGSGF--IQAVV 50
Query: 86 DK-----DVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIP 140
K ++ +L + V V G++K Q EL+V+K+ +G DP YPI
Sbjct: 51 PKNKVYEELFKAKKL-TLESSVVVTGIVK-ASPKAPQGFELQVEKIEVLGEADP-PYPID 107
Query: 141 KTKLT-LEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCE 199
K + + LE L D RT I AV +IR+++ A F + GF +HTPIIT S E
Sbjct: 108 KKEHSELETLLDNRHLDLRTPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATE 167
Query: 200 GAGEMFQVTTLISDA 214
G GE+F+V +A
Sbjct: 168 GGGELFKVDYFDKEA 182
Score = 112 bits (282), Expect = 1e-27
Identities = 36/61 (59%), Positives = 47/61 (77%)
Query: 298 DFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL 357
D+F ++A+LT S QL E A A+ V+T GPTFRAE S+T RHL+EFWM++PEMAF+DL
Sbjct: 176 DYFDKEAYLTQSPQLYKEALAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFADL 235
Query: 358 K 358
Sbjct: 236 N 236
>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 = 117 bits (296), Expect = 2e-30
Identities = 31/64 (48%), Positives = 39/64 (60%)
Query: 291 GKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEP 350
G + +F + A+L S QL E A+ VY GP FRAE S+T RHL+EFWM+E
Sbjct: 59 GAELFKVSYFGKPAYLAQSPQLYKEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEA 118
Query: 351 EMAF 354
EMAF
Sbjct: 119 EMAF 122
Score = 79.9 bits (198), Expect = 8e-17
Identities = 26/66 (39%), Positives = 38/66 (57%)
Query: 143 KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAG 202
LE L D RT + A+ RIR+ + A FL++ GF +HTP IT++D EG
Sbjct: 1 DANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGA 60
Query: 203 EMFQVT 208
E+F+V+
Sbjct: 61 ELFKVS 66
>gnl|CDD|239813 cd04318, EcAsnRS_like_N, EcAsnRS_like_N: N-terminal, anticodon
recognition domain of the type found in Escherichia coli
asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis
thaliana and Saccharomyces cerevisiae mitochondrial (mt)
AsnRS. 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. S.
cerevisiae mtAsnRS can charge E.coli tRNA with
asparagines. Mutations in the gene for S. cerevisiae
mtAsnRS has been found to induce a "petite" phenotype
typical for a mutation in a nuclear gene that results in
a non-functioning mitochondrial protein synthesis
system.
Length = 82
Score = 100 bits (251), Expect = 2e-26
Identities = 35/84 (41%), Positives = 53/84 (63%), Gaps = 5/84 (5%)
Query: 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DLGQLVPTGTCVYVEG 106
+V V GWV++ R+ K +F+E+NDGSC NLQV+VDK++ + TG+ + VEG
Sbjct: 1 EVTVNGWVRSVRDSKK--ISFIELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEG 58
Query: 107 MLKNPPEGTKQKIELRVQKVVDVG 130
+L P G KQ EL+ +K+ +G
Sbjct: 59 VLVKSP-GAKQPFELQAEKIEVLG 81
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 73.0 bits (180), Expect = 2e-14
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 299 FFARQAFLTVSGQLQVETYACA-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL 357
F+A++A+L S QL + A V+ P FR E T RH EF ++ EM+F D
Sbjct: 67 FYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDY 126
Query: 358 K 358
+
Sbjct: 127 E 127
Score = 54.2 bits (131), Expect = 4e-08
Identities = 18/50 (36%), Positives = 27/50 (54%)
Query: 158 RTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQV 207
R + A ++R+ + A FL ++GFL + TPI+T S EG F V
Sbjct: 14 RRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGARDFLV 63
>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 64.1 bits (157), Expect = 2e-11
Identities = 50/192 (26%), Positives = 82/192 (42%), Gaps = 29/192 (15%)
Query: 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDK- 87
R L + L G +V + GWV R+ G AFL + D S +QV+V K
Sbjct: 4 RHLTSEL------TPELDGEEVTLAGWVHEIRDLGG--IAFLILRDRS--GIIQVVVKKK 53
Query: 88 ---DVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIP---- 140
++ + + + + V V G +K +E+ +++ +++ A+ P+P
Sbjct: 54 VDEELFETIKKLKRESVVSVTGTVK-ANPKAPGGVEVIPEEIE---VLNKAEEPLPLDIS 109
Query: 141 -KTKLTLEFLRDRIPF---RPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196
K L+ D RPR A+ +IR+ + A FL + GF I TP I S
Sbjct: 110 GKVLAELDTRLDNRFLDLRRPRVR---AIFKIRSEVLRAFREFLYENGFTEIFTPKIVAS 166
Query: 197 DCEGAGEMFQVT 208
EG E+F +
Sbjct: 167 GTEGGAELFPID 178
Score = 61.0 bits (149), Expect = 3e-10
Identities = 27/70 (38%), Positives = 35/70 (50%), Gaps = 13/70 (18%)
Query: 292 KIDYTQDFFARQAFLTVSGQLQVETY-----ACAVSNVYTFGPTFRAEHSHTSRHLAEFW 346
IDY F ++A+L S QL Y V+ GP FRAE +TSRHL E+
Sbjct: 176 PIDY----FEKEAYLAQSPQL----YKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYT 227
Query: 347 MVEPEMAFSD 356
++ EM F D
Sbjct: 228 SIDVEMGFID 237
>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 = 58.3 bits (142), Expect = 4e-11
Identities = 24/84 (28%), Positives = 45/84 (53%), Gaps = 10/84 (11%)
Query: 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----DLGQLVPTGTCVYV 104
+V + GWV + R+ G F+++ DGS +QV+V+K+ + + + T + V V
Sbjct: 1 EVTLAGWVHSRRDHGG--LIFIDLRDGS--GIVQVVVNKEELGEFFEEAEKLRTESVVGV 56
Query: 105 EGMLKNPPEGT--KQKIELRVQKV 126
G + PEG +IEL+ +++
Sbjct: 57 TGTVVKRPEGNLATGEIELQAEEL 80
>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 = 51.1 bits (123), Expect = 1e-08
Identities = 26/81 (32%), Positives = 44/81 (54%), Gaps = 7/81 (8%)
Query: 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGML 108
V V G V T + G AFL + DG+ ++QV++ K+ A+ L + + G V V G +
Sbjct: 1 VTVAGRV-TSVRRSGGKVAFLTLRDGT--GSIQVVLFKEEAEKLAKKLKEGDVVLVTGKV 57
Query: 109 KNPPEGTKQKIELRVQKVVDV 129
K P G ++EL V+++ +
Sbjct: 58 KKRPGG---ELELVVEEIEVL 75
>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 = 52.9 bits (127), Expect = 1e-07
Identities = 46/169 (27%), Positives = 77/169 (45%), Gaps = 12/169 (7%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDG----SCPANLQVIVDKDVADLGQLVPTGTCV 102
G++V GWV R+ G F L +G + PA V K++ + + + V
Sbjct: 12 GQEVTFMGWVHEIRDLGGLIFVLLRDREGLIQITAPAKK---VSKNLFKWAKKLNLESVV 68
Query: 103 YVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFR---PRT 159
V G++K E E+ K+ +V P+ T+ L R+ +R R
Sbjct: 69 AVRGIVKIK-EKAPGGFEIIPTKI-EVINEAKEPLPLDPTEKVPAELDTRLDYRFLDLRR 126
Query: 160 NTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVT 208
T+ A+ RIR+ + + FL ++GF+ +HTP + S EG E+F +T
Sbjct: 127 PTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPIT 175
Score = 52.1 bits (125), Expect = 2e-07
Identities = 27/59 (45%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 299 FFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSD 356
+F R+AFL S QL + A VY GP FRAE +T RHL E ++ EMAF D
Sbjct: 176 YFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFED 234
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 48.5 bits (116), Expect = 3e-06
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 295 YTQDFFARQAFLTVSGQLQVETYACA-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMA 353
+ D+ + A L S QL + C V+ GP FRAE S T RHL EF ++ EM
Sbjct: 264 FRLDYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEME 323
Score = 44.7 bits (106), Expect = 4e-05
Identities = 51/198 (25%), Positives = 78/198 (39%), Gaps = 49/198 (24%)
Query: 45 LAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQL-----VPTG 99
LAG +V + G V T R GKG AFL + V V + G + +
Sbjct: 79 LAGSEVLIRGRVHTIR--GKGKSAFLVLRQSGFTVQCVVFVSEVTVSKGMVKYAKQLSRE 136
Query: 100 TCVYVEGMLKNPP---EGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRD----- 151
+ V VEG++ P +GT Q++E++V+K+ Y + K TL F +
Sbjct: 137 SVVDVEGVVSVPKKPVKGTTQQVEIQVRKI----------YCVSKALATLPFNVEDAARS 186
Query: 152 ---------------------RIPFRP---RTNTIAAVARIRNALAYATHTFLQKQGFLY 187
R+ R RT A+ RI++ + FL +GF+
Sbjct: 187 ESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFRIQSQVCNLFREFLLSKGFVE 246
Query: 188 IHTPIITTSDCEGAGEMF 205
IHTP + EG +F
Sbjct: 247 IHTPKLIAGASEGGSAVF 264
>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 = 43.0 bits (102), Expect = 1e-05
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 9/80 (11%)
Query: 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEG 106
V+V GWV R Q K FL + DG+ LQ ++ K + + + + V V G
Sbjct: 2 VKVFGWVHRLRSQKK--LMFLVLRDGT--GFLQCVLSKKLVTEFYDAKSLTQESSVEVTG 57
Query: 107 MLKNPPEGTKQKI--ELRVQ 124
+K P + EL+V
Sbjct: 58 EVKEDPRAKQAPGGYELQVD 77
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 46.4 bits (111), Expect = 1e-05
Identities = 43/173 (24%), Positives = 73/173 (42%), Gaps = 29/173 (16%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVD----KDVADLGQLVPTGTCV 102
G+ V + GWV R+ G F+++ D +QV+ D + ++ + +
Sbjct: 15 GQTVTLSGWVHRRRDHGG--LIFIDLRDRE--GIVQVVFDPEDSPEAFEVASRLRNEFVI 70
Query: 103 YVEGMLKNPPEGTKQ------KIELRVQKVVDVGMVDPAKYPIPK-------TKLTLEFL 149
V G ++ PEGT +IE+ +++ + + I +L +L
Sbjct: 71 QVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDETNASEEIRLKYRYL 130
Query: 150 RDRIPFRPR-TNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGA 201
R RP + ++R+ + A FL QGFL I TPI+T S EGA
Sbjct: 131 DLR---RPEMQKNL----KLRSKVTKAIRNFLDDQGFLEIETPILTKSTPEGA 176
>gnl|CDD|214960 smart00991, WHEP-TRS, A conserved domain of 46 amino acids, called
WHEP-TRS has been shown.to exist in a number of higher
eukaryote aminoacyl-transfer RNA synthetases. This
domain is present one to six times in the several
enzymes. There are three copies in mammalian
multifunctional aminoacyl-tRNA synthetase in a region
that separates the N-terminal glutamyl-tRNA synthetase
domain from the C-terminal prolyl-tRNA synthetase
domain, and six copies in the intercatalytic region of
the Drosophila enzyme. The domain is found at the
N-terminal extremity of the mammalian tryptophanyl- tRNA
synthetase and histidyl-tRNA synthetase, and the
mammalian, insect, nematode and plant glycyl- tRNA
synthetases. This domain could contain a central
alpha-helical region and may play a role in the
association of tRNA-synthetases into multienzyme
complexes.
Length = 56
Score = 41.6 bits (98), Expect = 2e-05
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGK 292
+ +GE V KLK++KA ++ I A+V +L K L + + KPG P D
Sbjct: 4 VAAQGELVRKLKAEKASKDEIDAAVAKLLALKAQLKEATGQD-YKPGAPPGDTP 56
>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 45.4 bits (109), Expect = 3e-05
Identities = 46/173 (26%), Positives = 69/173 (39%), Gaps = 27/173 (15%)
Query: 45 LAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTG--TCV 102
G+ V + GWV R+ G F+++ D +QV+ D D +
Sbjct: 15 HVGQTVTLCGWVHRRRDHGG--LIFIDLRDRE--GIVQVVFDPDAEAFEVAESLRSEYVI 70
Query: 103 YVEGMLKNPPEGTKQK------IELRVQKVVDVGMVDPAKYPIPKTKLTLEFLR------ 150
V G ++ PEGT IE+ ++ + +PI + E LR
Sbjct: 71 QVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEEDVSEELRLKYRYL 130
Query: 151 D-RIPFRPR-TNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGA 201
D R RP + ++R+ + A FL GFL I TPI+T S EGA
Sbjct: 131 DLR---RPEMQKNL----KLRSKVTSAIRNFLDDNGFLEIETPILTKSTPEGA 176
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 43.8 bits (103), Expect = 1e-04
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 287 PQKDGKIDYTQDFFARQAFLTVSGQLQVE-TYACAVSNVYTFGPTFRAEHSHTSRHLAEF 345
P + G + ++F R A+L S QL + V V+ GP FR+E+S+T RHL EF
Sbjct: 244 PSEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEF 303
Query: 346 WMVEPEM 352
++ EM
Sbjct: 304 VGLDVEM 310
Score = 43.1 bits (101), Expect = 2e-04
Identities = 52/203 (25%), Positives = 86/203 (42%), Gaps = 32/203 (15%)
Query: 34 SILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-- 91
++L++P+ L + V + V T R++GK AF+ + DGS V+ DV
Sbjct: 69 AVLSKPE----LVDKTVLIRARVSTTRKKGK--MAFMVLRDGSDSVQAMAAVEGDVPKEM 122
Query: 92 ---LGQLVPTGTCVYVEGML---KNPPEGTKQK-IELRVQKVVDVGMVDPAKYPIPKT-- 142
+GQ+ PT + V VE + + P T IEL+V+K+ V + +P T
Sbjct: 123 IDFIGQI-PTESIVDVEATVCKVEQPITSTSHSDIELKVKKI---HTVTESLRTLPFTLE 178
Query: 143 ----KLTLEFLRDRIPFRP-------RTNTIAAVARIRNALAYATHTFLQKQGFLYIHTP 191
K + E + R RT A+ R+++ + FL F IH+P
Sbjct: 179 DASRKESDEGAKVNFDTRLNSRWMDLRTPASGAIFRLQSRVCQYFRQFLIDSDFCEIHSP 238
Query: 192 IITTSDCEGAGEMFQVTTLISDA 214
I + EG +F++ A
Sbjct: 239 KIINAPSEGGANVFKLEYFNRFA 261
>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 = 42.5 bits (100), Expect = 2e-04
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 304 AFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358
+L +S QL + + V+ FR E +RH EF M++ EMAF+D +
Sbjct: 51 YYLRISPQLFKKRLMVGGLDRVFEINRNFRNEDL-RARHQPEFTMMDLEMAFADYE 105
Score = 32.4 bits (74), Expect = 0.29
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQV 207
++R+ + A F+ +GFL + TP++ F V
Sbjct: 2 KVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLV 42
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 42.3 bits (100), Expect = 2e-04
Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 4/79 (5%)
Query: 284 PGIPQKDGKI--DYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAE--HSHTS 339
P + + DF+ + +L S L + + ++ P FR E T
Sbjct: 63 PLMGLGSDLPVKQISIDFYGVEYYLADSMILHKQLALRMLGKIFYLSPNFRLEPVDKDTG 122
Query: 340 RHLAEFWMVEPEMAFSDLK 358
RHL EF ++ E+ +DL
Sbjct: 123 RHLYEFTQLDIEIEGADLD 141
Score = 28.1 bits (63), Expect = 8.8
Identities = 10/39 (25%), Positives = 21/39 (53%)
Query: 158 RTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196
+ V ++++++ T FL +GF+ + PII+ S
Sbjct: 22 SSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPS 60
>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 = 42.0 bits (99), Expect = 4e-04
Identities = 45/169 (26%), Positives = 71/169 (42%), Gaps = 24/169 (14%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQL--VPTGTCVYV 104
G+ V + GWV R+ G F L G +QV+ D D L + V V
Sbjct: 15 GQTVTLAGWVNRRRDLGGLIFIDLRDRSGI----VQVVCDPDADALKLAKGLRNEDVVQV 70
Query: 105 EGMLKNPPEGTKQ------KIELRVQ--KVVDVGMVDPAKYPIPKTKLTLEFLRDRIPF- 155
+G + PEG +IE+ + +++ P I + E +R + +
Sbjct: 71 KGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPP---LIIEKTDAEEEVRLKYRYL 127
Query: 156 ---RPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGA 201
RP + ++R+ + A FL +QGFL I TP++T S EGA
Sbjct: 128 DLRRPE---MQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEGA 173
>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 41.7 bits (98), Expect = 5e-04
Identities = 44/175 (25%), Positives = 75/175 (42%), Gaps = 27/175 (15%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVD----KDVADLGQLVPTGTCV 102
G +V + GWV R+ G FL+V D + +QV+ + + V
Sbjct: 72 GSRVTLCGWVDLHRDMG--GLTFLDVRDHT--GIVQVVTLPDEFPEAHRTANRLRNEYVV 127
Query: 103 YVEGMLKNPPEGTKQK------IELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRD----- 151
VEG +++ P+ + K +E+ + V D+ V P T T + +D
Sbjct: 128 AVEGTVRSRPQESPNKKMKTGSVEVVAESV-DILNVVTKSLPFLVT--TADEQKDSIKEE 184
Query: 152 -RIPFR---PRTNTIAAVARIRNALAYATHTFLQ-KQGFLYIHTPIITTSDCEGA 201
R+ +R R + A R+R+ + +L+ GF+ I TPI++ S EGA
Sbjct: 185 VRLRYRVLDLRRPQMNANLRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEGA 239
>gnl|CDD|239814 cd04319, PhAsnRS_like_N, PhAsnRS_like_N: N-terminal, anticodon
recognition domain of the type found in Pyrococcus
horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS).
This domain is a beta-barrel domain (OB fold) involved
in binding the tRNA anticodon stem-loop. The archeal
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.
Length = 103
Score = 37.5 bits (87), Expect = 0.001
Identities = 30/107 (28%), Positives = 49/107 (45%), Gaps = 12/107 (11%)
Query: 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD--LGQLVPTG--TCVYV 104
+V + GWV RE GK +F L + G +Q + KD+ + + G + V V
Sbjct: 1 KVTLAGWVYRKREVGKKAFIVLRDSTGI----VQAVFSKDLNEEAYREAKKVGIESSVIV 56
Query: 105 EGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRD 151
EG +K P E+ +K+ + V+ +PI + + EFL D
Sbjct: 57 EGAVKADPRAPGGA-EVHGEKLEIIQNVEF--FPITEDA-SDEFLLD 99
>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 = 39.5 bits (93), Expect = 0.001
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGA 201
R+R+ + A FL +QGF+ I TPI+T S EGA
Sbjct: 2 RLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEGA 36
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 39.6 bits (92), Expect = 0.002
Identities = 46/181 (25%), Positives = 74/181 (40%), Gaps = 33/181 (18%)
Query: 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVI-----VDKDVADLGQLVPTGTC 101
GR+V + GWV R+ G+ F L +G +Q + DV +L + C
Sbjct: 18 GREVCLAGWVDAFRDHGELLFIHLRDRNGF----IQAVFSPEAAPADVYELAASLRAEFC 73
Query: 102 VYVEGMLKNPPEGTKQ------KIELRVQKVVDVGMVDPAKYPIPKTKLTL--------- 146
V ++G ++ E T+ IE+ V+++ + + + I +T
Sbjct: 74 VALQGEVQKRLEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAGAGSAGADA 133
Query: 147 --EFLRDRIPF----RPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEG 200
E LR + + RP A R+ + FL +GFL I TPI+T S EG
Sbjct: 134 VNEDLRLQYRYLDIRRPAMQDHLA---KRHRIIKCARDFLDSRGFLEIETPILTKSTPEG 190
Query: 201 A 201
A
Sbjct: 191 A 191
>gnl|CDD|238605 cd01200, WHEPGMRS_RNA, EPRS-like_RNA binding domain. This short
RNA-binding domain is found in several higher eukaryote
aminoacyl-tRNA synthetases (aaRSs). It is found in three
copies in the mammalian bifunctional EPRS in a region
that separates the N-terminal GluRS from the C-terminal
ProRS. In the Drosophila EPRS, this domain is repeated
six times. It is found at the N-terminus of TrpRS, HisRS
and GlyR and at the C-terminus of MetRS. This domain
consists of a helix- turn- helix structure, which is
similar to other RNA-binding proteins. It is involved in
both protein-RNA interactions by binding tRNA and
protein-protein interactions, which are important for
the formation of aaRSs into multienzyme complexes.
Length = 42
Score = 34.8 bits (81), Expect = 0.003
Identities = 15/39 (38%), Positives = 23/39 (58%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLE 277
I E+G+ V KLK++KA +E I A+V +L K +
Sbjct: 4 IAEQGDLVRKLKAEKAPKEEIDAAVKKLLALKAQYKEAT 42
>gnl|CDD|215929 pfam00458, WHEP-TRS, WHEP-TRS domain.
Length = 56
Score = 35.0 bits (81), Expect = 0.004
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQK 289
I +G+ V KLK+ KA +E + A+V +L K+ + + KPG P
Sbjct: 5 IAAQGDLVRKLKAKKAPKEDVDAAVKKLLALKKQYKEKTGKD-YKPGCPAD 54
>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 = 36.7 bits (85), Expect = 0.008
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 324 VYTFGPTFRAEHSHTS-RHLAEFWMVEPEMAFSD 356
+ GP FR E R + EF +E E+ D
Sbjct: 78 LAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGED 111
>gnl|CDD|238474 cd00938, HisRS_RNA, HisRS_RNA binding domain. This short
RNA-binding domain is found at the N-terminus of HisRS
in several higher eukaryote aminoacyl-tRNA synthetases
(aaRSs). This domain consists of a helix- turn- helix
structure, which is similar to other RNA-binding
proteins. It is involved in both protein-RNA
interactions by binding tRNA and protein-protein
interactions, which are important for the formation of
aaRSs into multienzyme complexes.
Length = 45
Score = 32.8 bits (75), Expect = 0.016
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENL 273
+K +GE V KLK++KA +E I+ V +L + K L
Sbjct: 7 VKLQGELVRKLKAEKASKEQIAEEVAKLLELKAQL 41
>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 34.5 bits (80), Expect = 0.074
Identities = 44/178 (24%), Positives = 64/178 (35%), Gaps = 62/178 (34%)
Query: 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV------ADLGQLVPTG 99
+V V G + T R GK SFA L+ G +Q+ V+KD L + + G
Sbjct: 60 LNIEVSVAGRIMTIRNMGKASFADLQDGSG----KIQLYVNKDEVGEEVFEALFKKLDLG 115
Query: 100 TCVYVEGMLKNPPEG------------TK------------QKIELRV-QKVVDVGMVDP 134
+ VEG L G +K E+R Q+ +D+ +V+P
Sbjct: 116 DIIGVEGPLFKTKTGELSVSVEELRLLSKSLRPLPEKFHGLTDKEIRYRQRYLDL-IVNP 174
Query: 135 AKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPI 192
R F R+ I A IR FL +GFL + TP+
Sbjct: 175 E---------------SRQTFIKRSKIIRA---IRE--------FLDDRGFLEVETPM 206
Score = 27.9 bits (63), Expect = 8.2
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 324 VYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358
V+ G FR E T H EF M+E A++D +
Sbjct: 251 VFEIGRNFRNEGIDT-THNPEFTMLEFYQAYADYE 284
>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 34.7 bits (81), Expect = 0.079
Identities = 50/179 (27%), Positives = 68/179 (37%), Gaps = 65/179 (36%)
Query: 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----------ADL-- 92
+V V G V R GK SFA L+ DGS +Q+ V KD DL
Sbjct: 53 LEIEVSVAGRVMLKRVMGKASFATLQ--DGS--GRIQLYVSKDDVGEEALEAFKKLDLGD 108
Query: 93 -----GQLVPTGT---CVYVEGM------LKNPPEGTK----QKIELRV-QKVVDVGMVD 133
G L T T V + L+ P+ K +E R Q+ VD+ +V+
Sbjct: 109 IIGVEGTLFKTKTGELSVKATELTLLTKSLRPLPD--KFHGLTDVETRYRQRYVDL-IVN 165
Query: 134 PAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPI 192
P R+ FR R+ I+A IR FL +GFL + TP+
Sbjct: 166 PE-------------SRET--FRKRSKIISA---IRR--------FLDNRGFLEVETPM 198
>gnl|CDD|235095 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
Length = 1094
Score = 33.8 bits (78), Expect = 0.16
Identities = 46/169 (27%), Positives = 64/169 (37%), Gaps = 20/169 (11%)
Query: 37 TRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKD------VA 90
T + G +V V G V R+ G FA L D S LQV++D +A
Sbjct: 641 TVAEALDAPTGEEVSVSGRVLRIRDYGGVLFADLR--DWS--GELQVLLDASRLEQGSLA 696
Query: 91 DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLR 150
D V G V V G + GT + L + V + P+P L
Sbjct: 697 DFRAAVDLGDLVEVTGTM-----GTSRNGTLSLL-VTSWRLAGKCLRPLPDKWKGLTDPE 750
Query: 151 DRIPFR---PRTNTIA-AVARIRNALAYATHTFLQKQGFLYIHTPIITT 195
R+ R N A + R R+A+ A L +GFL + TPI+
Sbjct: 751 ARVRQRYLDLAVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQ 799
>gnl|CDD|238473 cd00936, WEPRS_RNA, WEPRS_RNA binding domain. This short
RNA-binding domain is found in several higher eukaryote
aminoacyl-tRNA synthetases (aaRSs). It is found in
multiple copies in eukaryotic bifunctional
glutamyl-prolyl-tRNA synthetases (EPRS) in a region that
separates the N-terminal glutamyl-tRNA synthetase
(GluRS) from the C-terminal prolyl-tRNA synthetase
(ProRS). It is also found at the N-terminus of
vertebrate tryptophanyl-tRNA synthetases (TrpRS). This
domain consists of a helix-turn-helix structure, which
is similar to other RNA-binding proteins. It is involved
in both protein-RNA interactions by binding tRNA and
protein-protein interactions, which are important for
the formation of aaRSs into multienzyme complexes.
Length = 50
Score = 29.1 bits (66), Expect = 0.36
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTEL 266
I +G+ V +LK+ KA +E I A+V +L
Sbjct: 5 IAAQGDLVRELKAKKAPKEEIDAAVKKL 32
>gnl|CDD|238472 cd00935, GlyRS_RNA, GlyRS_RNA binding domain. This short
RNA-binding domain is found at the N-terminus of GlyRS
in several higher eukaryote aminoacyl-tRNA synthetases
(aaRSs). This domain consists of a helix-turn-helix
structure , which is similar to other RNA-binding
proteins. It is involved in both protein-RNA
interactions by binding tRNA and protein-protein
interactions, which are important for the formation of
aaRSs into multienzyme complexes.
Length = 51
Score = 29.0 bits (65), Expect = 0.47
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 232 IEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLE 277
+ + +KE+G+ V KLK + A I +V EL K+ L E
Sbjct: 1 LAPLRAAVKEQGDLVRKLKEEGAPDVDIKKAVAELKARKKLLEDKE 46
>gnl|CDD|238475 cd00939, MetRS_RNA, MetRS_RNA binding domain. This short
RNA-binding domain is found at the C-terminus of MetRS
in several higher eukaryote aminoacyl-tRNA synthetases
(aaRSs). It is repeated in Drosophila MetRS. This domain
consists of a helix-turn-helix structure, which is
similar to other RNA-binding proteins. It is involved in
both protein-RNA interactions by binding tRNA and
protein-protein interactions, which are important for
the formation of aaRSs into multienzyme complexes.
Length = 45
Score = 27.4 bits (61), Expect = 1.3
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLE 277
+ E+G V KLK+ KA + V +L K+ LA E
Sbjct: 5 VAEQGNKVRKLKASKADKSVWQPEVNKLLDLKKQLALAE 43
>gnl|CDD|145182 pfam01880, Desulfoferrodox, Desulfoferrodoxin. Desulfoferrodoxins
contains two types of iron: an Fe-S4 site very similar
to that found in desulforedoxin from Desulfovibrio gigas
and an octahedral coordinated high-spin ferrous site
most probably with nitrogen/oxygen-containing ligands.
Due to this rather unusual combination of active
centres, this novel protein is named desulfoferrodoxin.
Length = 96
Score = 28.8 bits (65), Expect = 1.4
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 189 HTPIITTSDCEGAGEMFQVT 208
H P+I D AGE F+V
Sbjct: 9 HVPVIECPDKVKAGEPFEVK 28
>gnl|CDD|178335 PLN02734, PLN02734, glycyl-tRNA synthetase.
Length = 684
Score = 29.7 bits (67), Expect = 2.5
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 232 IEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEER 279
+ + + +G AV LK+ KA + I A++ +L K + LE+
Sbjct: 9 LAEKQAAVTAQGNAVRALKASKADKAEIDAAIEKLKALKLEKSALEKE 56
>gnl|CDD|106409 PRK13452, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 145
Score = 28.6 bits (63), Expect = 3.2
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 14/63 (22%)
Query: 206 QVTTLISDADKLE--------------KELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251
+VT ++ D ++ E KE++KNP S+ DIEAA +KE + L S
Sbjct: 76 RVTIMVDDMERAENLNQAEAEKARARAKEVLKNPDASKLDIEAANKRLKEADARLKALNS 135
Query: 252 DKA 254
Sbjct: 136 SNG 138
>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 = 29.3 bits (66), Expect = 3.2
Identities = 35/156 (22%), Positives = 59/156 (37%), Gaps = 22/156 (14%)
Query: 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPT--------GT 100
+V + G + R GK +F L+ D S +Q+ V+KD DL + G
Sbjct: 55 EVSIAGRIMARRSMGKATFITLQ--DES--GQIQLYVNKD--DLPEDFYEFDEYLLDLGD 108
Query: 101 CVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKY---PIPKTKLTLEFLRDRIPFRP 157
+ V G G +Q + P K+ +T+ +L D I
Sbjct: 109 IIGVTGYPFKTKTGELSVHVTELQILTKALRPLPDKFHGLTDQETRYRQRYL-DLIVNPD 167
Query: 158 RTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPII 193
T ++I A+ FL +GF+ + TP++
Sbjct: 168 SRQTFLVRSKIIKAI----RRFLDDRGFIEVETPML 199
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 29.1 bits (65), Expect = 3.6
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 229 EADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAK 275
EA +A K+K EA AK ++KA EA + + E K
Sbjct: 182 EAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEK 228
>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 29.3 bits (66), Expect = 4.2
Identities = 23/105 (21%), Positives = 36/105 (34%), Gaps = 7/105 (6%)
Query: 204 MFQVTTLISDADKLEK-ELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISAS 262
+ Q IS + K E K S D AK E EA L S++ S
Sbjct: 274 ITQSFLFISKQVAISKLEFQKRRAKSSGD---AKSQAAELDEARDLLGSNRVSFGYHHLS 330
Query: 263 VTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLT 307
+ ++ L+E+ + I G + + AFL+
Sbjct: 331 ILVF---AKDKEALDEKLAMVLNILTNKGFVAVRETINIEPAFLS 372
>gnl|CDD|236988 PRK11805, PRK11805, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 307
Score = 28.6 bits (65), Expect = 4.6
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 16/50 (32%)
Query: 8 VDQVATMDLNDDA-------VQRHQFSDRV-LIKSILTRPDGGAGLAGRQ 49
VD V D++ DA ++RH DRV LI+S D A L GR+
Sbjct: 160 VDAV---DISPDALAVAEINIERHGLEDRVTLIES-----DLFAALPGRR 201
>gnl|CDD|239422 cd03172, SORL_classII, Superoxide reductase-like (SORL) domain,
class II; SORL-domains are present in a family of
mononuclear non-heme iron proteins that includes
superoxide reductase and desulfoferrodoxin. Superoxide
reductase-like proteins scavenge superoxide anion
radicals as a defense mechanism against reactive oxygen
species and are found in anaerobic bacteria and archeae,
and microaerophilic Treponema pallidum. The SORL domain
contains an active iron site, Fe[His4Cys(Glu)], which in
the reduced state loses the glutamate ligand. Superoxide
reductase (class II) forms a homotetramer with four
Fe[His4Cys(Glu)] centers.
Length = 104
Score = 27.3 bits (61), Expect = 5.0
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 189 HTPIITTSDCEGAGEMFQVT 208
H P+I + AGE F+VT
Sbjct: 8 HVPVIECPEAVKAGEPFEVT 27
>gnl|CDD|197854 smart00745, MIT, Microtubule Interacting and Trafficking molecule
domain.
Length = 77
Score = 26.5 bits (59), Expect = 6.2
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 248 KLKSDKAGREAISASVTE-LTKAKENLAKLEERSK 281
K++SD REA+ A E L +A+E L ER
Sbjct: 43 KVESDSKRREALKAKAAEYLDRAEEIKKSLLERLA 77
>gnl|CDD|225211 COG2332, CcmE, Cytochrome c-type biogenesis protein CcmE
[Posttranslational modification, protein turnover,
chaperones].
Length = 153
Score = 27.7 bits (62), Expect = 6.8
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 18/85 (21%)
Query: 34 SILTRPDGGAGLAGRQVRVGGWVKTG---REQGKGSFAFLEVNDGSCPANLQVIVDKDVA 90
S L G +++R+GG V+ G R+ G +F V DG+ ++ V + +
Sbjct: 41 SELLEGKVETG---QRLRLGGLVEAGSVQRDPGSLKVSF-VVTDGN--KSVTVSYEGILP 94
Query: 91 DL---GQLVPTGTCVYVEGMLKNPP 112
DL GQ V EG L+
Sbjct: 95 DLFREGQ------GVVAEGQLQGGG 113
>gnl|CDD|223240 COG0162, TyrS, Tyrosyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 401
Score = 28.3 bits (64), Expect = 7.2
Identities = 30/138 (21%), Positives = 48/138 (34%), Gaps = 41/138 (29%)
Query: 188 IHTPIITTSDCEGAG-----------------EMFQVTTLISDAD--------------- 215
+ TP++T D + G + +Q I DAD
Sbjct: 212 LTTPLLTGLDGKKMGKSEGGAVWLDSEKTSPYDFYQYWMNIEDADVKRFLKLLTFLSLEE 271
Query: 216 --KLEKELIKNPPPSEADIEAAKLVIKEK-GEAVAK-----LKSDKAGREAISASVTEL- 266
++EK ++K P P EA AK V K GE A+ + + + +L
Sbjct: 272 IEEIEKYVLKGPEPREAKKLLAKEVTKLVHGEEAAEAAEEEFEKLFSEGLPENLPPADLK 331
Query: 267 TKAKENLAKLEERSKLKP 284
K ++ L L + L P
Sbjct: 332 QKLEDGLVDLLVDAGLAP 349
>gnl|CDD|225595 COG3053, CitC, Citrate lyase synthetase [Energy production and
conversion].
Length = 352
Score = 28.1 bits (63), Expect = 7.4
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 82 QVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQ 117
Q++ D+ + LVP T Y++ L
Sbjct: 311 QLLAKNDLEAIANLVPATTLNYLQQHLAEHIIDIAA 346
>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 = 27.9 bits (63), Expect = 8.0
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 324 VYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358
VY G FR E H EF M+E A++D
Sbjct: 79 VYEIGRNFRNE-GIDLTHNPEFTMIEFYEAYADYN 112
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 28.1 bits (63), Expect = 8.1
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 4/67 (5%)
Query: 213 DADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKEN 272
++++ EL K+ PSE K K KG V + +EAI+ AK
Sbjct: 347 GNEEIKIELDKSKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEAIA----YYESAKTA 402
Query: 273 LAKLEER 279
L K E +
Sbjct: 403 LEKAEGK 409
>gnl|CDD|198290 cd03181, GST_C_EF1Bgamma_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of the Gamma
subunit of Elongation Factor 1B and similar proteins.
Glutathione S-transferase (GST) C-terminal domain
family, Gamma subunit of Elongation Factor 1B
(EF1Bgamma) subfamily; EF1Bgamma is part of the
eukaryotic translation elongation factor-1 (EF1) complex
which plays a central role in the elongation cycle
during protein biosynthesis. EF1 consists of two
functionally distinct units, EF1A and EF1B. EF1A
catalyzes the GTP-dependent binding of aminoacyl-tRNA to
the ribosomal A site concomitant with the hydrolysis of
GTP. The resulting inactive EF1A:GDP complex is recycled
to the active GTP form by the guanine-nucleotide
exchange factor EF1B, a complex composed of at least two
subunits, alpha and gamma. Metazoan EFB1 contain a third
subunit, beta. The EF1B gamma subunit contains a GST
fold consisting of an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain. The GST-like
domain of EF1Bgamma is believed to mediate the
dimerization of the EF1 complex, which in yeast is a
dimer of the heterotrimer EF1A:EF1Balpha:EF1Bgamma. In
addition to its role in protein biosynthesis, EF1Bgamma
may also display other functions. The recombinant rice
protein has been shown to possess GSH conjugating
activity. The yeast EF1Bgamma binds to membranes in a
calcium dependent manner and is also part of a complex
that binds to the msrA (methionine sulfoxide reductase)
promoter suggesting a function in the regulation of its
gene expression. Also included in this subfamily is the
GST_C-like domain at the N-terminus of human valyl-tRNA
synthetase (ValRS) and its homologs. Metazoan ValRS
forms a stable complex with Elongation Factor-1H
(EF-1H), and together, they catalyze consecutive steps
in protein biosynthesis, tRNA aminoacylation and its
transfer to EF.
Length = 123
Score = 26.8 bits (60), Expect = 9.0
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 318 ACAVSNVYT--FGPTFRAEHSHTSRHLAEFWMV 348
A A+ + P FR ++ + +R F V
Sbjct: 75 ASALLRGFETVLDPEFRKKYPNVTRW---FNTV 104
>gnl|CDD|145707 pfam02697, DUF217, Uncharacterized ACR, COG1753. Structural
modelling suggests this domain may bind nucleic acids.
Length = 71
Score = 25.8 bits (57), Expect = 9.1
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 244 EAVAKLKSDKAGREAISASVTELTKAKENLAKLEE 278
+ KL K G ++ S + EL + K N KL +
Sbjct: 9 DVYEKLLKLKRGGKSFSEVIRELIEKKGNRRKLMD 43
>gnl|CDD|217334 pfam03041, Baculo_LEF-2, lef-2. The lef-2 gene (for late
expression factor 2) from baculovirus is required for
expression of late genes. This gene has been shown to be
specifically required for expression from the vp39 and
polh promoters. LEF-1 is a DNA primase and there is some
evidence to suggest that LEF-2 may bind to both DNA and
LEF-1.
Length = 164
Score = 27.3 bits (61), Expect = 9.4
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 5/40 (12%)
Query: 84 IVDKDVADLGQLVPTGTCVYVEG-----MLKNPPEGTKQK 118
++ P G V V G +LKNPP +
Sbjct: 27 FDWLVLSPYTVFEPGGLYVRVSGLRLYNLLKNPPTFEESP 66
>gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase
II, GyrB, ParE.
Length = 594
Score = 27.9 bits (63), Expect = 9.5
Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 9/71 (12%)
Query: 204 MFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASV 263
F V ++S+ L L +NP +EA+K+V K A A+ + KA RE
Sbjct: 311 RFGVEKIVSE--CLLSFLEENP------VEASKIVEKVLLAAKARAAAKKA-RELTRKKK 361
Query: 264 TELTKAKENLA 274
LA
Sbjct: 362 LSSISLPGKLA 372
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
0.317 0.134 0.382
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,222,248
Number of extensions: 1773153
Number of successful extensions: 1828
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1790
Number of HSP's successfully gapped: 94
Length of query: 359
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 261
Effective length of database: 6,590,910
Effective search space: 1720227510
Effective search space used: 1720227510
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.9 bits)