RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9576
(338 letters)
>gnl|CDD|234780 PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Validated.
Length = 339
Score = 517 bits (1335), Expect = 0.0
Identities = 179/345 (51%), Positives = 234/345 (67%), Gaps = 15/345 (4%)
Query: 1 MNELKKLLIQAKIDFSTAVSISSLENAKSYYLGKNGKLTQYIKNIKNISINERKRYGEII 60
M +L++L+ +A + A + +LE + YLGK G+LT+ +K + + ERK G +I
Sbjct: 2 MEDLEELVEEALAAIAAASDLEALEALRVKYLGKKGELTELLKGLGKLPPEERKEAGALI 61
Query: 61 NSIKINIKKELNIHRDILKKKQLKVSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEKIF 120
N +K I+ L ++ L+ L L ID+TLPGR G LHPI +T+E IE IF
Sbjct: 62 NELKQAIEAALEERKEELEAAALNARLAAETIDVTLPGRRIELGSLHPITQTIEEIEDIF 121
Query: 121 YSIGFDITDGPEIETDFNNFTALNSPKNHPARSMHDTFYIKNRYVSNNKPLLRTHTSPMQ 180
+GF++ +GPEIETD+ NF ALN PK+HPAR M DTFYI + LLRTHTSP+Q
Sbjct: 122 VGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQDTFYIDDGL------LLRTHTSPVQ 175
Query: 181 IRYSKINKPPIKVITSGRVYRIDS-DSTHSPMFHQIEGLWIDKNISFSDLKGVYLNFIRV 239
IR + KPPI++I GRVYR DS D+THSPMFHQ+EGL +DKNISF+DLKG +F++
Sbjct: 176 IRTMEKQKPPIRIIAPGRVYRNDSDDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKA 235
Query: 240 FFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKGN-------WLEISGAGQVNPKVLC 292
FF D ++IRFRPSYFPFTEPSAE+D+ KG WLEI G G V+P VL
Sbjct: 236 FFGED-VKIRFRPSYFPFTEPSAEVDVSCFKCGGKGCRVCKGTGWLEILGCGMVHPNVLR 294
Query: 293 NMNLDPEKYIGFAFGSGLERLTMLRYGIDDLRLFYKGNINFLKQF 337
N+ +DPE+Y GFAFG G+ERL ML+YGIDD+RLFY+ ++ FLKQF
Sbjct: 295 NVGIDPEEYSGFAFGMGIERLAMLKYGIDDIRLFYENDLRFLKQF 339
>gnl|CDD|223095 COG0016, PheS, Phenylalanyl-tRNA synthetase alpha subunit
[Translation, ribosomal structure and biogenesis].
Length = 335
Score = 410 bits (1055), Expect = e-144
Identities = 170/340 (50%), Positives = 217/340 (63%), Gaps = 11/340 (3%)
Query: 1 MNELKKLLIQAKIDFSTAVS-ISSLENAKSYYLGKNGKLTQYIKNIKNIS-INERKRYGE 58
M L +L + A + +LE K YLGK G LT +K + +S + ERK G
Sbjct: 3 MIALGRLAKKGIAAIELASDLLKALEELKVKYLGKKGVLTDLLKKLGKLSPLEERKEVGA 62
Query: 59 IINSIKINIKKELNIHRDILKKKQLKVSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEK 118
+IN +K ++ + L+ L L KID+TLPGR G LHP+ +T+E IE
Sbjct: 63 LINELKKEVEDAITELTPELEAAGLWERLAFEKIDVTLPGRRIYPGSLHPLTQTIEEIED 122
Query: 119 IFYSIGFDITDGPEIETDFNNFTALNSPKNHPARSMHDTFYIKNRYVSNNKPLLRTHTSP 178
IF +GF +GPEIETDF NF ALN P++HPAR M DTFY+K+ K LLRTHTSP
Sbjct: 123 IFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQDTFYLKD---DREKLLLRTHTSP 179
Query: 179 MQIRY-SKINKPPIKVITSGRVYRID-SDSTHSPMFHQIEGLWIDKNISFSDLKGVYLNF 236
+Q R ++ K PIK+ + GRVYR D D+THSP FHQIEGL +DKNISF+DLKG F
Sbjct: 180 VQARTLAENAKIPIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFADLKGTLEEF 239
Query: 237 IRVFFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWLEISGAGQVNPKVLCNMNL 296
+ FF D ++RFRPSYFPFTEPSAE+D+ P G WLEI G G V+P VL + +
Sbjct: 240 AKKFFGEDV-KVRFRPSYFPFTEPSAEVDV---YCPGCGGWLEILGCGMVHPNVLEAVGI 295
Query: 297 DPEKYIGFAFGSGLERLTMLRYGIDDLRLFYKGNINFLKQ 336
DPE+Y GFAFG GLERL ML+YGI D+R Y+ ++ FL+Q
Sbjct: 296 DPEEYSGFAFGLGLERLAMLKYGIPDIRDLYENDLRFLRQ 335
>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 = 347 bits (893), Expect = e-121
Identities = 138/250 (55%), Positives = 180/250 (72%), Gaps = 8/250 (3%)
Query: 91 KIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFDITDGPEIETDFNNFTALNSPKNHP 150
D+TLPGR GGLHP+ R LE I IF S+GF+ +GPE+E+DF NF ALN P++HP
Sbjct: 1 PYDVTLPGRRIEPGGLHPLTRVLEEIRDIFLSMGFEEVEGPEVESDFYNFDALNIPQDHP 60
Query: 151 ARSMHDTFYIKNRYVSNNKP-LLRTHTSPMQIRY-SKINKPPIKVITSGRVYRIDS-DST 207
AR M DTFY+K ++ LLRTHT+P+Q R +K NKPPIK+ + GRV+R D D+T
Sbjct: 61 ARDMQDTFYLKKPLKEEDRRLLLRTHTTPVQARTLAKKNKPPIKIFSIGRVFRRDQVDAT 120
Query: 208 HSPMFHQIEGLWIDKNISFSDLKGVYLNFIRVFFESDNIQIRFRPSYFPFTEPSAEIDIV 267
H P FHQ+EGL +D+N+SF+DLKGV F+R FF +++RFRPSYFPFTEPSAE+D+
Sbjct: 121 HLPEFHQVEGLVVDENVSFADLKGVLEEFLRKFFG-FEVKVRFRPSYFPFTEPSAEVDVY 179
Query: 268 FQDGPLKGNWLEISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLRLFY 327
G W+EI GAG V+P VL + +D E+Y GFAFG G+ERL ML+YGIDD+R Y
Sbjct: 180 CCKL---GGWIEIGGAGMVHPNVLEAVGID-EEYPGFAFGLGVERLAMLKYGIDDIRDLY 235
Query: 328 KGNINFLKQF 337
+ ++ FL+QF
Sbjct: 236 ENDLRFLRQF 245
>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 = 329 bits (846), Expect = e-113
Identities = 146/305 (47%), Positives = 194/305 (63%), Gaps = 15/305 (4%)
Query: 37 KLTQYIKNIKNISINERKR-YGEIINSIKINIKKELNIHRDILKKKQLKVSLKTNKIDIT 95
KL +K + ++ E K G +IN +KI ++ EL + L+ L LK D++
Sbjct: 1 KLKDLLKQLGKLTKEETKPALGALINEVKIELQDELTKLKPELESAGLWSKLKFETYDVS 60
Query: 96 LPGRGKNKGGLHPIMRTLERIEKIFYSIGFDITDGPEIETDFNNFTALNSPKNHPARSMH 155
LPG G LHP+ R ++ I IF +GF GPE+ETDF NF ALN P++HPAR M
Sbjct: 61 LPGTKIYPGSLHPLTRVIDEIRDIFLGLGFTEETGPEVETDFWNFDALNIPQDHPARDMQ 120
Query: 156 DTFYIKNRYVSNNKPLLRTHTSPMQIRY-SKINKPPIKVITSGRVYRIDS-DSTHSPMFH 213
DTFYIK+R LLRTHT+ +Q+R + KPPI++ + GRV+R D+ D+TH P FH
Sbjct: 121 DTFYIKDRL------LLRTHTTAVQLRTMEEQEKPPIRIFSPGRVFRNDTVDATHLPEFH 174
Query: 214 QIEGLWIDKNISFSDLKGVYLNFIRVFFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPL 273
Q+EGL IDKNISF++LKG F++ F +IRFRPSYFPFTEPSAEID+ P
Sbjct: 175 QVEGLVIDKNISFTNLKGFLEEFLKKMFGE--TEIRFRPSYFPFTEPSAEIDVY---CPE 229
Query: 274 KGNWLEISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLRLFYKGNINF 333
WLE+ GAG P+VL M +DP Y GFA+G G+ERL ML+YGI D+R Y+ ++ F
Sbjct: 230 GKGWLEVLGAGMFRPEVLEPMGIDPT-YPGFAWGIGIERLAMLKYGITDIRDLYENDLRF 288
Query: 334 LKQFT 338
L+QF
Sbjct: 289 LRQFK 293
>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 = 322 bits (829), Expect = e-111
Identities = 121/227 (53%), Positives = 152/227 (66%), Gaps = 10/227 (4%)
Query: 107 HPIMRTLERIEKIFYSIGFDITDGPEIETDFNNFTALNSPKNHPARSMHDTFYIKNRYVS 166
HP+ + +E IE IF S+GF +GPE+ETDF NF ALN P++HPAR M DTFYI +
Sbjct: 1 HPLNKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYIND---- 56
Query: 167 NNKPLLRTHTSPMQIRYSKINKPPIKVITSGRVYRIDS-DSTHSPMFHQIEGLWIDKNIS 225
+ LLRTHTS +Q R KPPI++ + GRVYR D D+TH P FHQIEGL +DK ++
Sbjct: 57 PARLLLRTHTSAVQARALAKLKPPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKGLT 116
Query: 226 FSDLKGVYLNFIRVFFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWLEISGAGQ 285
F+DLKG F + F ++RFRPSYFPFTEPS E+D+ WLEI G G
Sbjct: 117 FADLKGTLEEFAKELFGPI-TKVRFRPSYFPFTEPSFEVDVYCPG---CLGWLEILGCGM 172
Query: 286 VNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLRLFYKGNIN 332
V P+VL N +D E+Y GFAFG GLERL ML+YGI D+RLFY ++
Sbjct: 173 VRPEVLENAGID-EEYSGFAFGIGLERLAMLKYGIPDIRLFYSNDLR 218
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 203 bits (520), Expect = 1e-61
Identities = 111/359 (30%), Positives = 175/359 (48%), Gaps = 62/359 (17%)
Query: 24 LENAKSYYLGKNGKLTQYIKNIKNISINERKRY-------GEIINSIKINIKKEL-NIHR 75
E K ++ K+ + +K K + ER G + I +K+E+ +
Sbjct: 143 AEGDKEELSEEDLKVLKELKKRKLVEEKERTERSVELTDAGLELLKEGIELKEEITQLTP 202
Query: 76 DILKKKQLK-VSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFDITDGPEIE 134
++LK + K + ++ P G HP ++ + I +GF+ GP +E
Sbjct: 203 ELLKSGEWKEKEFR--PYNVKAPPPKIYPGKKHPYREFIDEVRDILVEMGFEEMKGPLVE 260
Query: 135 TDFNNFTALNSPKNHPARSMHDTFYIKNR--------YVSNNK----------------- 169
T+F NF AL P++HPAR M DTFY+K V K
Sbjct: 261 TEFWNFDALFQPQDHPAREMQDTFYLKYPGIGDLPEELVERVKEVHEHGGDTGSRGWGYK 320
Query: 170 --------PLLRTHTSPMQIRY-SKINKPPIKVITSGRVYRIDS-DSTHSPMFHQIEGLW 219
+LRTHT+ + RY + +PP K + GRV+R D+ D+TH P F+Q+EG+
Sbjct: 321 WDEDIAKRLVLRTHTTALSARYLASRPEPPQKYFSIGRVFRPDTIDATHLPEFYQLEGIV 380
Query: 220 IDKNISFSDLKGVYLNFIRVF-FESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWL 278
+ +++SF DL G+ F + FE +++FRP+YFPFTEPS E+++ + W+
Sbjct: 381 MGEDVSFRDLLGILKEFYKRLGFE----EVKFRPAYFPFTEPSVEVEVYHE----GLGWV 432
Query: 279 EISGAGQVNPKVLCNMNLDP--EKYIGFAFGSGLERLTMLRYGIDDLRLFYKGNINFLK 335
E+ GAG P+VL +P A+G G+ERL MLR G+DD+R Y +I +L+
Sbjct: 433 ELGGAGIFRPEVL-----EPLGIDVPVLAWGLGIERLAMLRLGLDDIRDLYSSDIEWLR 486
>gnl|CDD|215458 PLN02853, PLN02853, Probable phenylalanyl-tRNA synthetase alpha
chain.
Length = 492
Score = 150 bits (380), Expect = 3e-41
Identities = 94/268 (35%), Positives = 133/268 (49%), Gaps = 53/268 (19%)
Query: 102 NKGGLHPIMRTLERIEKIFYSIGFDITDGPE---IETDFNNFTALNSPKNHPARSMHDTF 158
G LHP+++ ++ KIF +GF + P +E+ F NF AL P+ HPAR HDTF
Sbjct: 216 EGGHLHPLLKVRQQFRKIFLQMGF--EEMPTNNFVESSFWNFDALFQPQQHPARDSHDTF 273
Query: 159 YIK---------NRYVSN------------------------NKPLLRTHTSPMQIR--Y 183
++K YV NK LLRTHT+ + R Y
Sbjct: 274 FLKAPATTRQLPEDYVERVKTVHESGGYGSIGYGYDWKREEANKNLLRTHTTAVSSRMLY 333
Query: 184 SKINKP--PIKVITSGRVYRIDS-DSTHSPMFHQIEGLWIDKNISFSDLKGVYLNFIRVF 240
K P + + RV+R ++ D TH FHQ+EGL D+ ++ DL GV + F
Sbjct: 334 KLAQKGFKPKRYFSIDRVFRNEAVDRTHLAEFHQVEGLVCDRGLTLGDLIGV----LEDF 389
Query: 241 FESDNI-QIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWLEISGAGQVNPKVLCNMNLDPE 299
F + ++RF+P+Y P+TEPS EI F W+E+ +G P++L M L PE
Sbjct: 390 FSRLGMTKLRFKPAYNPYTEPSMEI---FSYHEGLKKWVEVGNSGMFRPEMLLPMGL-PE 445
Query: 300 KYIGFAFGSGLERLTMLRYGIDDLR-LF 326
A+G LER TM+ YGID++R LF
Sbjct: 446 DVNVIAWGLSLERPTMILYGIDNIRDLF 473
>gnl|CDD|240361 PTZ00326, PTZ00326, phenylalanyl-tRNA synthetase alpha chain;
Provisional.
Length = 494
Score = 148 bits (377), Expect = 6e-41
Identities = 93/307 (30%), Positives = 139/307 (45%), Gaps = 73/307 (23%)
Query: 79 KKKQLKVSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFDITDGPEIETD-- 136
K + K + + G+ G LHP+++ +I +GF+ E+ T+
Sbjct: 207 KNAEFK------EYNFNALGKKIGGGNLHPLLKVRREFREILLEMGFE-----EMPTNRY 255
Query: 137 ----FNNFTALNSPKNHPARSMHDTFYIKNRYVSNN------------------------ 168
F NF AL P+ HPAR DTF++ S
Sbjct: 256 VESSFWNFDALFQPQQHPARDAQDTFFLSKPETSKVNDLDDDYVERVKKVHEVGGYGSIG 315
Query: 169 -----------KPLLRTHTSPMQIRY-------SKINKP--PIKVITSGRVYRIDS-DST 207
K +LRTHT+ + R K P P K + RV+R ++ D+T
Sbjct: 316 WRYDWKLEEARKNILRTHTTAVSARMLYKLAQEYKKTGPFKPKKYFSIDRVFRNETLDAT 375
Query: 208 HSPMFHQIEGLWIDKNISFSDLKGVYLNFIRVFFESDNI-QIRFRPSYFPFTEPSAEIDI 266
H FHQ+EG ID+N++ DL G IR FF I ++RF+P++ P+TEPS EI
Sbjct: 376 HLAEFHQVEGFVIDRNLTLGDLIGT----IREFFRRIGITKLRFKPAFNPYTEPSMEI-- 429
Query: 267 VFQDGPLKGNWLEISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLR-L 325
F P W+E+ +G P++L M PE A+G LER TM++YGI ++R L
Sbjct: 430 -FGYHPGLKKWVEVGNSGIFRPEMLRPMGF-PEDVTVIAWGLSLERPTMIKYGIKNIRDL 487
Query: 326 F-YKGNI 331
F +K ++
Sbjct: 488 FGHKVDL 494
>gnl|CDD|215422 PLN02788, PLN02788, phenylalanine-tRNA synthetase.
Length = 402
Score = 144 bits (364), Expect = 9e-40
Identities = 83/258 (32%), Positives = 122/258 (47%), Gaps = 36/258 (13%)
Query: 98 GRGKNKGGLHPIMRTLERIEKIF---YSIGFDITDG--PEIETDFNNFTALNSPKNHPAR 152
G ++ HP+ I F YS F D P I + NF + P +H +R
Sbjct: 59 GMQLHRRPDHPLGILKNAIYDYFDENYSNKFKKFDDLSP-IVSTKQNFDDVLVPPDHVSR 117
Query: 153 SMHDTFYIKNRYVSNNKPLLRTHTSPMQIRYSKINKPPIKVITSGRVYRIDS-DSTHSPM 211
S +DT+Y+ + + +LR HTS Q + + +G VYR DS D+TH P+
Sbjct: 118 SYNDTYYV------DAQTVLRCHTSAHQAELLRAGHT--HFLVTGDVYRRDSIDATHYPV 169
Query: 212 FHQIEGL-------WIDKNIS-----FSDLKGVYLNFIRVFFESDNIQIRFRPSYFPFTE 259
FHQ+EG+ W + DLK R F ++++R+ +YFPFT
Sbjct: 170 FHQMEGVRVFSPEEWEASGLDGTDLAAEDLKKTLEGLARHLF--GDVEMRWVDAYFPFTN 227
Query: 260 PSAEIDIVFQDGPLKGNWLEISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYG 319
PS E++I F+ G WLE+ G G ++L N +AFG GLERL M+ +
Sbjct: 228 PSFELEIFFK-----GEWLEVLGCGVTEQEILKNNGRSDNV--AWAFGLGLERLAMVLFD 280
Query: 320 IDDLRLFYKGNINFLKQF 337
I D+RLF+ + F QF
Sbjct: 281 IPDIRLFWSDDERFTSQF 298
>gnl|CDD|129561 TIGR00469, pheS_mito, phenylalanyl-tRNA synthetase, mitochondrial.
Unlike all other known phenylalanyl-tRNA synthetases,
the mitochondrial form demonstrated from yeast is
monomeric. It is similar to but longer than the alpha
subunit (PheS) of the alpha 2 beta 2 form found in
Bacteria, Archaea, and eukaryotes, and shares the
characteristic motifs of class II aminoacyl-tRNA
ligases. This model models the experimental example from
Saccharomyces cerevisiae (designated MSF1) and its
orthologs from other eukaryotic species [Protein
synthesis, tRNA aminoacylation].
Length = 460
Score = 83.6 bits (206), Expect = 8e-18
Identities = 39/93 (41%), Positives = 60/93 (64%), Gaps = 5/93 (5%)
Query: 246 IQIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWLEISGAGQVNPKVLCNMNLDPEKYIGFA 305
+++R+ +YFPFT PS EI+I F+D WLE+ G G + +L + P + IG+A
Sbjct: 263 LKVRWIDAYFPFTAPSWEIEIWFKD-----EWLELCGCGIIRHDILLRAGVHPSETIGWA 317
Query: 306 FGSGLERLTMLRYGIDDLRLFYKGNINFLKQFT 338
FG GL+R+ ML + I D+RLF+ + FL+QF+
Sbjct: 318 FGLGLDRIAMLLFDIPDIRLFWSNDEGFLRQFS 350
Score = 72.8 bits (178), Expect = 3e-14
Identities = 49/149 (32%), Positives = 66/149 (44%), Gaps = 22/149 (14%)
Query: 89 TNKIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFDITDGP--EIETDFN-------N 139
T+KI I L K+ HP+ + IEK F + P +I +F N
Sbjct: 25 TDKI-IKLTDANKHLKEDHPLGIIRDLIEKKFNGADNNQRGNPLFKIFDNFKPVVTTMEN 83
Query: 140 FTALNSPKNHPARSMHDTFYIKNRYVSNNKPLLRTHTSPMQIR-YSKI--NKPPIKV--I 194
F L P +HP R D +YI N + LLR HTS ++ + + IK +
Sbjct: 84 FDNLGFPADHPGRQKSDCYYI------NEQHLLRAHTSAHELECFQGGLDDSDNIKSGFL 137
Query: 195 TSGRVYRIDS-DSTHSPMFHQIEGLWIDK 222
S VYR D D TH P+FHQ +G I K
Sbjct: 138 ISADVYRRDEIDKTHYPVFHQADGAAIRK 166
>gnl|CDD|111764 pfam02912, Phe_tRNA-synt_N, Aminoacyl tRNA synthetase class II,
N-terminal domain.
Length = 73
Score = 58.3 bits (142), Expect = 3e-11
Identities = 22/73 (30%), Positives = 39/73 (53%)
Query: 16 STAVSISSLENAKSYYLGKNGKLTQYIKNIKNISINERKRYGEIINSIKINIKKELNIHR 75
+ A + +LE + YLGK G LT+ +K + +S ER + G +IN K +++ L +
Sbjct: 1 AAASDLKALEAIRVKYLGKKGPLTELLKGLGKLSPEERPKVGALINEAKEAVEEALEERK 60
Query: 76 DILKKKQLKVSLK 88
L++ +L L
Sbjct: 61 AALEEAELNARLA 73
>gnl|CDD|129562 TIGR00470, sepS, O-phosphoserine--tRNA ligase. This family of
archaeal proteins resembles known phenylalanyl-tRNA
synthetase alpha chains. Recently, it was shown to act
in a proposed pathway of tRNA(Cys) indirect
aminoacylation, resulting in Cys biosynthesis from
O-phosphoserine, in certain archaea. It charges
tRNA(Cys) with O-phosphoserine. The pscS gene product
converts the phosphoserine to Cys [Amino acid
biosynthesis, Serine family, Protein synthesis, tRNA
aminoacylation].
Length = 533
Score = 55.7 bits (134), Expect = 1e-08
Identities = 49/166 (29%), Positives = 74/166 (44%), Gaps = 25/166 (15%)
Query: 172 LRTH-TSPMQIRYSKINKP---PIKVITSGRVYRIDS--DSTHSPMFHQIEGLWIDKNIS 225
LR+H TS I S I P+K+ + R +R + D +H +H + +D+ +S
Sbjct: 185 LRSHMTSGWFITLSSIIDKRKLPLKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVS 244
Query: 226 FSDLKGVYLNFIRVF-FESDNIQIRFRPS------YFPFTEPSAEIDIVFQDGPLKGNWL 278
D K V + F F + RFRP Y P T+ V+ P G W+
Sbjct: 245 VDDGKAVAEGLLAQFGFT----KFRFRPDEKKSKYYIPETQTE-----VYAYHPKLGEWI 295
Query: 279 EISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLR 324
E++ G +P L N+D G G+ERL M+ YG +D+R
Sbjct: 296 EVATFGVYSPIALAKYNIDVPV---MNLGLGVERLAMILYGYEDVR 338
Score = 31.0 bits (70), Expect = 1.0
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 81 KQLKVSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFD 126
++ + LK ID P G HP+M T+ER+ + + +GF
Sbjct: 21 RETRALLKDKHIDNKYPRLKFVYGKPHPLMETIERLREAYLRMGFS 66
>gnl|CDD|224935 COG2024, COG2024, Phenylalanyl-tRNA synthetase alpha subunit
(archaeal type) [Translation, ribosomal structure and
biogenesis].
Length = 536
Score = 53.3 bits (128), Expect = 9e-08
Identities = 52/171 (30%), Positives = 81/171 (47%), Gaps = 27/171 (15%)
Query: 172 LRTH-TSPMQIRYSKINK---PPIKVITSGRVYRIDS--DSTHSPMFHQIEGLWIDKNIS 225
LR+H TS I S+I K PP+K+ + R +R + D++H +H + +D++++
Sbjct: 185 LRSHMTSGWFITLSEILKREDPPLKLFSIDRCFRREQREDASHLMTYHSASCVVVDEDVT 244
Query: 226 FSDLKGVYLNFIRVF-FESDNIQIRFRPS------YFPFTEPSAEI-----DIVFQDGPL 273
D K V +R F FE + RFRP Y P T+ E+ +V
Sbjct: 245 VDDGKAVAEGLLRQFGFE----KFRFRPDEKKSKYYVPGTQ--TEVYAYHPKLVGSIEKY 298
Query: 274 KGNWLEISGAGQVNPKVLCNMNLDPEKYIGFAFGSGLERLTMLRYGIDDLR 324
W+EI+ G +P L +D Y G G+ERL M+ +G DD+R
Sbjct: 299 SDGWIEIATFGLYSPIALAEYGID---YPVMNLGLGVERLAMILHGADDVR 346
Score = 27.8 bits (62), Expect = 8.4
Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 6/63 (9%)
Query: 81 KQLKVSLKTNKIDITLPGRGKNKGGLHPIMRTLERIEKIFYSIGFD------ITDGPEIE 134
K+ K ++ +D P G HP+ T++R+ + + +GF I D E+
Sbjct: 21 KEGKKLVREPHLDERYPRLKFETGKPHPLYETIQRLREAYLRMGFSEMVNPLIVDEEEVY 80
Query: 135 TDF 137
F
Sbjct: 81 KQF 83
>gnl|CDD|235754 PRK06253, PRK06253, O-phosphoseryl-tRNA synthetase; Reviewed.
Length = 529
Score = 43.8 bits (104), Expect = 1e-04
Identities = 46/173 (26%), Positives = 74/173 (42%), Gaps = 39/173 (22%)
Query: 172 LRTH-TSPMQIRYSKINK---PPIKVITSGRVYRIDS--DSTHSPMFHQIEGLWIDKNIS 225
LR+H TS I S + + PIK+ + R +R + D++ +H + D++++
Sbjct: 186 LRSHMTSGWFITLSSLLEKRPLPIKLFSIDRCFRREQREDASRLMTYHSASCVIADEDVT 245
Query: 226 FSDLKGVYLNFIRVF-FESDNIQIRFRPS------YFPFTEPSAEIDIVFQDGPLKGNWL 278
D K V + F F + +FRP Y P T+ V+ P W+
Sbjct: 246 VDDGKAVAEGLLSQFGFT----KFKFRPDEKRSKYYTPDTQTE-----VYAYHPKLDGWV 296
Query: 279 EISGAGQVNPKVLCN-------MNLDPEKYIGFAFGSGLERLTMLRYGIDDLR 324
E++ G +P L MNL G G+ERL M+ YG +D+R
Sbjct: 297 EVATFGIYSPVALAEYGIDVPVMNL----------GLGVERLAMILYGAEDVR 339
>gnl|CDD|232989 TIGR00471, pheT_arch, phenylalanyl-tRNA synthetase, beta subunit.
Every known example of the phenylalanyl-tRNA synthetase,
except the monomeric form of mitochondrial, is an alpha
2 beta 2 heterotetramer. The beta subunits break into
two subfamilies that are considerably different in
sequence, length, and pattern of gaps. This model
represents the subfamily that includes the beta subunit
from eukaryotic cytosol, the Archaea, and spirochetes
[Protein synthesis, tRNA aminoacylation].
Length = 551
Score = 34.0 bits (78), Expect = 0.11
Identities = 30/135 (22%), Positives = 50/135 (37%), Gaps = 15/135 (11%)
Query: 166 SNNKPLLRTHTSPMQIRYSKINKP---PIKVITSGRVYRIDSDS-THSPMFHQIEGLWID 221
+ ++RT P + NK P K+ G V D S T S + ++
Sbjct: 413 TLEYTIVRTSLLPGLLETLSENKHHELPQKIFEIGDVVVKDDKSETRSRVVTKLAVGITH 472
Query: 222 KNISFSDLKGVYLNFIRVFFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKGNWLEIS 281
+F+++K + + I+ S P P IVF +G I
Sbjct: 473 SEANFNEIK----SIVAALARELGIEYEIEESEHPSFIPGRGAKIVF-EGK------AIG 521
Query: 282 GAGQVNPKVLCNMNL 296
G+++P+VL N L
Sbjct: 522 HFGEIHPEVLTNFEL 536
>gnl|CDD|222421 pfam13859, BNR_3, BNR repeat-like domain. This family of proteins
contains BNR-like repeats suggesting these proteins may
act as sialidases.
Length = 302
Score = 30.6 bits (70), Expect = 1.0
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 79 KKKQLKVSLKTNKID------ITLPGRGKNKGGLH 107
K ++ T ID +TLP GK KG LH
Sbjct: 223 NSKGVQGGFITATIDGRKVMLVTLPEYGKEKGELH 257
>gnl|CDD|224590 COG1676, SEN2, tRNA splicing endonuclease [Translation, ribosomal
structure and biogenesis].
Length = 181
Score = 29.7 bits (67), Expect = 1.5
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 9/70 (12%)
Query: 188 KPPIKVITSGRVYRIDSDSTHSPMFHQIEGLWIDKNISFSDL-------KGVYLNFIRVF 240
K +K + RVYR D HS + L ++ IS D+ V +
Sbjct: 106 KTGLKFGSDFRVYRGGPDREHSEY--LVLVLDENEEISLGDIVRKVRLAHSVRKELVLAI 163
Query: 241 FESDNIQIRF 250
+ + + +
Sbjct: 164 VDRETGDVTY 173
>gnl|CDD|179040 PRK00468, PRK00468, hypothetical protein; Provisional.
Length = 75
Score = 27.8 bits (62), Expect = 2.0
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 14/69 (20%)
Query: 1 MNELKKLLIQAKIDFSTAVSISSLENAKSYYL-------------GKNGKLTQYIKN-IK 46
M EL + + +A +D AV ++ +E +S L GK G++ + I+ +K
Sbjct: 1 MKELVETIAKALVDNPDAVQVNEIEGEQSVILELKVAPEDMGKVIGKQGRIAKAIRTVVK 60
Query: 47 NISINERKR 55
+I E KR
Sbjct: 61 AAAIKENKR 69
>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 = 29.5 bits (67), Expect = 2.7
Identities = 29/118 (24%), Positives = 41/118 (34%), Gaps = 35/118 (29%)
Query: 240 FFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKG---------NWLEISGAG------ 284
FE D + R ++ PFT P E + + P N +E+ G
Sbjct: 155 LFEWDEEEGRLVSAHHPFTAPKEEDLDLLEKDPEDARAQAYDLVLNGVELGGGSIRIHDP 214
Query: 285 QVNPKVLCNMNLDPE-------------KY-----IGFAFGSGLERLTMLRYGIDDLR 324
+ KV + L E KY G A GL+RL ML G + +R
Sbjct: 215 DIQEKVFEILGLSEEEAEEKFGFLLEAFKYGAPPHGGIAL--GLDRLVMLLTGSESIR 270
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 29.5 bits (67), Expect = 2.7
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 18/65 (27%)
Query: 278 LEISGAGQV--NPKVLCN----MNLDPEKYIGF------------AFGSGLERLTMLRYG 319
EI G Q + +L LDPE Y + FG GLERL M G
Sbjct: 357 GEIIGGSQREHDYDLLVERIKEKGLDPESYEWYLDLRKYGMPPHAGFGLGLERLVMYILG 416
Query: 320 IDDLR 324
+D++R
Sbjct: 417 LDNIR 421
>gnl|CDD|130673 TIGR01612, 235kDa-fam, reticulocyte binding/rhoptry protein. This
model represents a group of paralogous families in
plasmodium species alternately annotated as reticulocyte
binding protein, 235-kDa family protein and rhoptry
protein. Rhoptry protein is localized on the cell surface
and is extremely large (although apparently lacking in
repeat structure) and is important for the process of
invasion of the RBCs by the parasite. These proteins are
found in P. falciparum, P. vivax and P. yoelii.
Length = 2757
Score = 29.6 bits (66), Expect = 3.2
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 31 YLGKNGKLTQYIK--NIKNISINERKRYGEIINSIKINIKKELNIHRDILKKKQLKVSLK 88
YL + + +K IK I I+E K Y + I NIK EL+ ++KK + ++L+
Sbjct: 1344 YLNEIANIYNILKLNKIKKI-IDEVKEYTKEIEENNKNIKDELDKSEKLIKKIKDDINLE 1402
Query: 89 T--NKIDITLPGRGKN 102
+KI+ TL + +
Sbjct: 1403 ECKSKIESTLDDKDID 1418
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 29.1 bits (66), Expect = 3.5
Identities = 30/118 (25%), Positives = 44/118 (37%), Gaps = 35/118 (29%)
Query: 240 FFESDNIQIRFRPSYFPFTEPSAEIDIVFQDGPLKG---------NWLEISGAG------ 284
FE D + R+ ++ PFT P E + + P N E+ G
Sbjct: 433 LFEWDEEEGRYVAAHHPFTMPKPEDLELLEADPESVRARAYDLVLNGYELGGGSIRIHDP 492
Query: 285 QVNPKVLCNMNLDPE-------------KY-----IGFAFGSGLERLTMLRYGIDDLR 324
++ KV + + PE KY G AF GL+RL ML G + +R
Sbjct: 493 EIQEKVFEILGISPEEAEEKFGFLLEAFKYGAPPHGGIAF--GLDRLVMLLTGAESIR 548
>gnl|CDD|217415 pfam03192, DUF257, Pyrococcus protein of unknown function, DUF257.
Length = 208
Score = 28.4 bits (64), Expect = 4.3
Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 10/74 (13%)
Query: 42 IKNIKNISINERKRYGEIINSIKINIKKELNIHRDILKKKQLKVSLKTNKIDITLPGRGK 101
I ++K I I R G ++ +I + +++ + ++ K+ K N I+I L
Sbjct: 67 IDDVKVIKIGGRINIGNVV--ERIPFTYDPSVYIKLYEEILEKLLKKENVINIVL----- 119
Query: 102 NKGGLHPIMRTLER 115
GL ++ LE
Sbjct: 120 ---GLEKLLYLLED 130
>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 = 28.3 bits (64), Expect = 5.6
Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 18/65 (27%)
Query: 278 LEISGAGQV--NPKVLCN----MNLDPEKYIGF------------AFGSGLERLTMLRYG 319
EI G Q + L LDPE + + FG GLERL M G
Sbjct: 248 GEIVGGSQRIHDYDELEERIKEHGLDPESFEWYLDLRKYGMPPHGGFGLGLERLVMWLLG 307
Query: 320 IDDLR 324
+D++R
Sbjct: 308 LDNIR 312
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 28.3 bits (64), Expect = 5.8
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 303 GFAFGSGLERLTMLRYG---IDDLRLFYK 328
G G L+RL ML G I ++ F K
Sbjct: 316 GIGLG--LDRLVMLLTGLESIREVIAFPK 342
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 28.4 bits (64), Expect = 6.0
Identities = 17/89 (19%), Positives = 34/89 (38%), Gaps = 2/89 (2%)
Query: 9 IQAKIDFSTAVSISSLENAKSYYLGKNGKLTQYIKNIKNISI--NERKRYGEIINSIKIN 66
++A D I LE Y K + +++I + +E K E + ++
Sbjct: 272 LEAHFDEEYQELIEQLEELIDKYESHIEKALEELESILDTEKENSEFKLDVEELKALLEA 331
Query: 67 IKKELNIHRDILKKKQLKVSLKTNKIDIT 95
+++ L + L++K S IT
Sbjct: 332 LEEILEKNLQKLEEKLKDPSTSIELESIT 360
>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase. This model describes reverse
gyrase, found in both archaeal and bacterial
thermophiles. This enzyme, a fusion of a type I
topoisomerase domain and a helicase domain, introduces
positive supercoiling to increase the melting
temperature of DNA double strands. Generally, these
gyrases are encoded as a single polypeptide. An
exception was found in Methanopyrus kandleri, where
enzyme is split within the topoisomerase domain,
yielding a heterodimer of gene products designated RgyB
and RgyA [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1171
Score = 28.3 bits (63), Expect = 7.8
Identities = 22/127 (17%), Positives = 44/127 (34%), Gaps = 17/127 (13%)
Query: 17 TAVSISSLENAKSYYLGKNGKLTQYIKNIKNISINERKRYGEIINSIKINIKKELNIHRD 76
T V ++ A S +L K GK I + I ++ + + H
Sbjct: 102 TGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSR 161
Query: 77 IL--KKKQLKVSLKTNKIDITLPGRG---KNKGGLHP------------IMRTLERIEKI 119
+ +KK+ ++ DI + KN L P +++ + ++K+
Sbjct: 162 LPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPKFDFIFVDDVDALLKASKNVDKL 221
Query: 120 FYSIGFD 126
+GF
Sbjct: 222 LKLLGFS 228
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
0.320 0.139 0.405
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,728,214
Number of extensions: 1767185
Number of successful extensions: 1760
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1696
Number of HSP's successfully gapped: 72
Length of query: 338
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 240
Effective length of database: 6,590,910
Effective search space: 1581818400
Effective search space used: 1581818400
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 (21.8 bits)
S2: 59 (26.3 bits)