RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013441
(443 letters)
>gnl|CDD|178234 PLN02627, PLN02627, glutamyl-tRNA synthetase.
Length = 535
Score = 852 bits (2202), Expect = 0.0
Identities = 344/442 (77%), Positives = 379/442 (85%), Gaps = 10/442 (2%)
Query: 1 MASIVAATPWSRIRTITKLELAPPIFLQSSVYYCKRRRFSVAASLSTNTNKVDGQVRVRF 60
S+V TP IR + ELAPP +S RRRFSV A+ + + G VRVRF
Sbjct: 1 AMSLVGGTP---IRLLP--ELAPPFLRRSRSS---RRRFSVRAAAAGESK--GGPVRVRF 50
Query: 61 APSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLSWLGLD 120
APSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDL RSTKESEEAVL+DL WLGLD
Sbjct: 51 APSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLARSTKESEEAVLRDLKWLGLD 110
Query: 121 WDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKLKQLPP 180
WDEGP VGG+YGPYRQSERN++YKQYA+KLLESGHVY CFC++EELE MKE A+LK+LPP
Sbjct: 111 WDEGPDVGGEYGPYRQSERNAIYKQYAEKLLESGHVYPCFCTDEELEAMKEEAELKKLPP 170
Query: 181 VYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDTLGDFVIMR 240
YTGKWATA+D EVQ EL +GTPYTYRFRVPK GS+KI DLIRGEVSWN DTLGDFV++R
Sbjct: 171 RYTGKWATASDEEVQAELAKGTPYTYRFRVPKEGSVKIDDLIRGEVSWNTDTLGDFVLLR 230
Query: 241 SNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLILAPD 300
SNGQPVYNFCV VDDATM I+HVIRAEEHLPNTLRQALIYKALGF MP FAHVSLILAPD
Sbjct: 231 SNGQPVYNFCVAVDDATMGITHVIRAEEHLPNTLRQALIYKALGFPMPRFAHVSLILAPD 290
Query: 301 RSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTIERVNK 360
RSKLSKRHGATSVGQFREMGYLP AMVNYLALLGW DGTENE FTL++LVEKF+I+R+NK
Sbjct: 291 RSKLSKRHGATSVGQFREMGYLPDAMVNYLALLGWNDGTENEIFTLEELVEKFSIDRINK 350
Query: 361 SGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPFVDEAIQLLKDGID 420
SGA+FDSTKL+WMNGQHLR +P EL KL+GERWKS GIL ES G FV EA++LLKDGI+
Sbjct: 351 SGAVFDSTKLKWMNGQHLRLLPEEELVKLVGERWKSAGILKESDGSFVKEAVELLKDGIE 410
Query: 421 LVPDSDKALSNLLSYPLRDTLT 442
LV D+DK L NLLSYPL TL+
Sbjct: 411 LVTDADKELLNLLSYPLAATLS 432
>gnl|CDD|234953 PRK01406, gltX, glutamyl-tRNA synthetase; Reviewed.
Length = 476
Score = 614 bits (1586), Expect = 0.0
Identities = 202/369 (54%), Positives = 259/369 (70%), Gaps = 2/369 (0%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
VR RFAPSPTG LH+GGARTALFN+LFAR GGKF+LRIEDTD ERST+E+EEA+L+ L
Sbjct: 5 VRTRFAPSPTGYLHIGGARTALFNWLFARHHGGKFILRIEDTDQERSTEEAEEAILEGLK 64
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKL 175
WLGLDWDEGP G YGPYRQSER +YK+YA++LLE G Y C+C+ EELE M+E +
Sbjct: 65 WLGLDWDEGPDGG-PYGPYRQSERLDIYKEYAEQLLEEGKAYYCYCTPEELEAMREEQRA 123
Query: 176 KQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDTLGD 235
PP Y G+ T EV L G P RF+VP G + DL+RGE+ + L D
Sbjct: 124 AGEPPRYDGRCRDLTKEEVAARLAAGEPPVIRFKVPDEGEVVFDDLVRGEIEFPNSELDD 183
Query: 236 FVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSL 295
FVI+RS+G P YNF V VDD M I+HVIR E+HL NT +Q L+Y+ALG+ +P FAH+ L
Sbjct: 184 FVILRSDGTPTYNFAVVVDDHLMGITHVIRGEDHLSNTPKQILLYEALGWEVPVFAHLPL 243
Query: 296 ILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTI 355
IL PD KLSKRHGATSV Q+R+MGYLP+A++NYLALLGW G + E F+L++L+E F +
Sbjct: 244 ILGPDGKKLSKRHGATSVEQYRDMGYLPEALLNYLALLGWSHGDQ-EIFSLEELIELFDL 302
Query: 356 ERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPFVDEAIQLL 415
ERV+KS A FD KL W+NG ++R + EL +L+ L GP++++ + LL
Sbjct: 303 ERVSKSPARFDIKKLDWLNGHYIRELDPEELAELLLPWHLEQEGLDTEDGPYLEKVVPLL 362
Query: 416 KDGIDLVPD 424
K+ + +
Sbjct: 363 KERAKTLKE 371
>gnl|CDD|232986 TIGR00464, gltX_bact, glutamyl-tRNA synthetase, bacterial family.
The glutamyl-tRNA synthetases of the eukaryotic cytosol
and of the Archaea are more similar to glutaminyl-tRNA
synthetases than to bacterial glutamyl-tRNA synthetases.
This model models just the bacterial and mitochondrial
forms of the enzyme. In many species, the charging of
tRNA(gln) proceeds first through misacylation with Glu
and then transamidation. For this reason, glutamyl-tRNA
synthetases may act on both tRNA(gln) and tRNA(glu).
This model is highly specific. Proteins with positive
scores below the trusted cutoff may be fragments rather
than full-length sequences [Protein synthesis, tRNA
aminoacylation].
Length = 470
Score = 483 bits (1245), Expect = e-169
Identities = 178/361 (49%), Positives = 246/361 (68%), Gaps = 8/361 (2%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
VR RFAPSPTG LH+GGARTALFNYLFA+ GG+F+LRIEDTDLER+ +E+EEA+L+ L
Sbjct: 2 VRTRFAPSPTGYLHIGGARTALFNYLFAKHTGGEFLLRIEDTDLERNIEEAEEAILEGLK 61
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKL 175
WLG+ WDEGP Y QS+R +YK+YA +LLE G YRC+CS E LE+++E K
Sbjct: 62 WLGISWDEGP--------YYQSQRLDIYKKYAKELLEEGLAYRCYCSKERLERLREEQKA 113
Query: 176 KQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDTLGD 235
+ P Y + E++ L +G P RF++P+ G + +D +RGE+++ L D
Sbjct: 114 NKETPRYDRHCRNLHNEEIENALAKGIPPVVRFKIPQEGVVSFNDQVRGEITFQNSELDD 173
Query: 236 FVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSL 295
FVI++S+G P YNF V VDD M I+HVIR E+H+ NT +Q LIYKALG+ +P FAH+ +
Sbjct: 174 FVILKSDGSPTYNFAVVVDDYLMKITHVIRGEDHISNTPKQILIYKALGWKIPVFAHLPM 233
Query: 296 ILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTI 355
IL D KLSKR GATS+ QF+E GYLP+A++NYLALLGW + EFF+L++L+E F++
Sbjct: 234 ILGEDGKKLSKRDGATSIMQFKEQGYLPEALINYLALLGWSPPDDQEFFSLEELIEIFSL 293
Query: 356 ERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPFVDEAIQLL 415
RV+KS A FD KL+W+N +++ +P EL +L+ + + + E + L
Sbjct: 294 NRVSKSPAKFDWKKLQWLNAHYIKELPDEELFELLDPHLQKKVKTSTLNEEQLKELLLLF 353
Query: 416 K 416
K
Sbjct: 354 K 354
>gnl|CDD|223087 COG0008, GlnS, Glutamyl- and glutaminyl-tRNA synthetases
[Translation, ribosomal structure and biogenesis].
Length = 472
Score = 441 bits (1137), Expect = e-153
Identities = 167/375 (44%), Positives = 226/375 (60%), Gaps = 12/375 (3%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
VR RFAPSPTG LH+G ARTAL NYL+AR GGKF+LRIEDTD ER T E+E+A+L+DL
Sbjct: 10 VRTRFAPSPTGYLHIGHARTALLNYLYARKYGGKFILRIEDTDPERETPEAEDAILEDLE 69
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIA-K 174
WLGLDWDEGP Y QSER +Y +YA+KL+E G Y C+C+ EELE+M+E+
Sbjct: 70 WLGLDWDEGP--------YYQSERFDIYYEYAEKLIEKGKAYVCYCTPEELEEMRELRGA 121
Query: 175 LKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKG-GSLKISDLIRGEVSWNLDTL 233
L + PP Y T E +L G P R ++P DL+RG + +
Sbjct: 122 LGEPPPSYDRDERNLTLFEKMADLGEGGPAVVRLKIPMAHPGPVFRDLVRGRIVFAPK-H 180
Query: 234 GDFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHV 293
DFVI+R +G P YNF V VDD M I+HV+R E+HL NT RQ +Y+ALG+ P +AH+
Sbjct: 181 PDFVILRYDGYPTYNFAVVVDDHLMGITHVLRGEDHLDNTPRQIWLYEALGWPPPVYAHL 240
Query: 294 SLILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTEN-EFFTLKQLVEK 352
L+L D KLSKR GA S+G++R G+LP A+ N LALLG G E E F+L++ ++
Sbjct: 241 PLLLNEDGKKLSKRKGAVSIGEYRVEGWLPPALPNLLALLGRGYPPEAIEIFSLEEGIKW 300
Query: 353 FTIERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPFVDEAI 412
F + V+KS A FD KL W+N +++R P + + + + G + +
Sbjct: 301 FDLTIVSKSPAAFDRKKLDWLNPRYMRVDPVEVVIENLKPHLEEEGATLPLNPEMGERVV 360
Query: 413 QLLKDGIDLVPDSDK 427
L K+ + + D
Sbjct: 361 PLTKETLIEIERLDF 375
>gnl|CDD|216096 pfam00749, tRNA-synt_1c, tRNA synthetases class I (E and Q),
catalytic domain. Other tRNA synthetase sub-families
are too dissimilar to be included. This family includes
only glutamyl and glutaminyl tRNA synthetases. In some
organisms, a single glutamyl-tRNA synthetase
aminoacylates both tRNA(Glu) and tRNA(Gln).
Length = 314
Score = 370 bits (953), Expect = e-127
Identities = 143/322 (44%), Positives = 196/322 (60%), Gaps = 12/322 (3%)
Query: 55 QVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDL 114
+VR RFAPSPTG LH+G ARTALFNYLFA++ GKF+LR +DTD ER E EE++L+DL
Sbjct: 1 KVRTRFAPSPTGYLHIGHARTALFNYLFAKNYNGKFILRFDDTDPEREKPEYEESILEDL 60
Query: 115 SWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKE--I 172
WLG+ WDE P Y QS+R +Y +YA++L+E G Y CFC+ EELE+ +E
Sbjct: 61 KWLGIKWDEKP--------YYQSDRFDIYYKYAEELIEKGLAYVCFCTPEELEEEREEQE 112
Query: 173 AKLKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDT 232
A P Y + + E++K G T RF++P + DL+RG + +
Sbjct: 113 ALGSPERPRYDEECLRLFEEEMRKGEAEGGKATLRFKIPMESPYVMRDLVRGRIKFEPSA 172
Query: 233 LGDFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAH 292
L D ++ +G P Y+F V +DDA M I+HV+R EEHL NT +Q IY+ALG+ +P F H
Sbjct: 173 LHDRTGLKWDGYPTYDFAVVIDDAIMGITHVLRGEEHLDNTPKQIWIYQALGWEVPPFIH 232
Query: 293 VSLILAPDRSKLSKRHGATSV--GQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLV 350
L L D +KLSKR + SV Q + G P+A++N+L GW EFFT ++L+
Sbjct: 233 EYLRLNLDGTKLSKRKLSLSVFISQVKGWGDPPEALLNFLRRRGWTPEGIREFFTREELI 292
Query: 351 EKFTIERVNKSGAIFDSTKLRW 372
+ F + RV+KS FD KL W
Sbjct: 293 KSFDLNRVSKSLEAFDRKKLDW 314
>gnl|CDD|183594 PRK12558, PRK12558, glutamyl-tRNA synthetase; Provisional.
Length = 445
Score = 313 bits (804), Expect = e-103
Identities = 146/367 (39%), Positives = 209/367 (56%), Gaps = 22/367 (5%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
V RFAPSPTG LHVG ARTAL N+L+AR GGKF+LRI+DTDLERS +E +A+ +DL
Sbjct: 3 VITRFAPSPTGYLHVGNARTALLNWLYARKHGGKFILRIDDTDLERSKQEYADAIAEDLK 62
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKL 175
WLG++WD +RQS+R Y + A+KL +G +Y C+ + EELE +K +L
Sbjct: 63 WLGINWDR---------TFRQSDRFDRYDEAAEKLKAAGRLYPCYETPEELE-LKRKIQL 112
Query: 176 KQ-LPPVYTGKWATATDAEVQK-ELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDTL 233
+ LPP+Y T+ E E E P+ +RF++ + DLIRGE S + +L
Sbjct: 113 SRGLPPIYDRAALKLTEEEKAALEAEGRKPH-WRFKL-DDEPISWDDLIRGEQSIDAASL 170
Query: 234 GDFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHV 293
D V++R++G +Y VDD M I+H+IR E+H+ NT Q I++ALG P FAH+
Sbjct: 171 SDPVLIRADGSYLYTLPSVVDDIDMGITHIIRGEDHVTNTAVQIQIFEALGAKPPVFAHL 230
Query: 294 SLILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKF 353
SL+ D LSKR G S+ RE G P A+ + LA LG D E + ++++L E F
Sbjct: 231 SLLTGADGKGLSKRLGGLSIRSLREDGIEPMAIASLLARLGTSDPVE-PYTSMEELAESF 289
Query: 354 TIERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPF---VDE 410
+ +++ A FD L +N + L A+P + +R + GI E+ F V
Sbjct: 290 DLSSFSRAPAKFDPEDLERLNARLLHALPFEA----VKDRLAALGIPGEAAEAFWLAVRG 345
Query: 411 AIQLLKD 417
+ L D
Sbjct: 346 NLDKLSD 352
>gnl|CDD|237094 PRK12410, PRK12410, glutamylglutaminyl-tRNA synthetase;
Provisional.
Length = 433
Score = 298 bits (764), Expect = 3e-97
Identities = 148/367 (40%), Positives = 219/367 (59%), Gaps = 21/367 (5%)
Query: 59 RFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLSWLG 118
RFAPSPTG++H+G R A+FNY+ A+ + F++RIEDTD ER+ + ++ +L+ L+ G
Sbjct: 3 RFAPSPTGDMHIGNLRAAIFNYIVAKQQNEDFLIRIEDTDKERNIEGKDKEILEILNLFG 62
Query: 119 LDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKLKQL 178
+ WD+ QSE ++Q A+KLL + CFCS EELE KE AK ++
Sbjct: 63 ISWDK---------LVYQSENLKFHRQMAEKLLSEKKAFACFCSEEELEAKKEKAKNEKK 113
Query: 179 PPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDTLGDFVI 238
P Y G D EV L P+ R + P ++ +D I+GEVS+ D + FVI
Sbjct: 114 PYRYDGTCENLEDDEV---LNCNKPFVVRLKKPN-HTMSFTDAIKGEVSFEPDEIDSFVI 169
Query: 239 MRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPY-FAHVSLIL 297
+R++ P YNF VDD IS +IR E+H+ NT +Q LI +ALG++ +AH+ +IL
Sbjct: 170 LRADKTPTYNFACAVDDMLYDISLIIRGEDHVSNTPKQILIREALGYNKEITYAHLPIIL 229
Query: 298 APDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTIER 357
+ K+SKR A+SV E G+LP A+ NYL LL G+ T E FTL++ +E F IE+
Sbjct: 230 NEEGKKMSKRDNASSVKWLLEQGFLPSAIANYLILL--GNKTPKEIFTLEEAIEWFDIEK 287
Query: 358 VNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGERWKSTGILTESKGPFVDEA--IQLL 415
++KS A FD KLR++N +HL+ + L+KL+G + K G L + ++ EA + L
Sbjct: 288 ISKSPAKFDLKKLRFINREHLKMLDDERLSKLLGFKDKDLGGLAKL---YLQEASTLNEL 344
Query: 416 KDGIDLV 422
K+ IDL+
Sbjct: 345 KEKIDLI 351
>gnl|CDD|184889 PRK14895, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 513
Score = 278 bits (711), Expect = 2e-88
Identities = 139/336 (41%), Positives = 207/336 (61%), Gaps = 13/336 (3%)
Query: 52 VDGQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVL 111
++ V RFAPSPTG LH+G ARTALFNYLFAR GKF+LRIEDTD ERSTKE+ EA+
Sbjct: 1 MNNNVITRFAPSPTGFLHIGSARTALFNYLFARHHNGKFLLRIEDTDKERSTKEAVEAIF 60
Query: 112 QDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKE 171
L WLGLDW+ G+ QS+RN+LYK+ A KLL++G Y CF EE+E+ ++
Sbjct: 61 SGLKWLGLDWN------GEV--IFQSKRNNLYKEAALKLLQNGKAYYCFTRQEEIERQRQ 112
Query: 172 IAKLKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLD 231
A + ++ +W + +++ R + P+ GS+ I D ++GEV
Sbjct: 113 QALENKQHFIFNSEWRDKDPSIYPTDIKP----VIRLKTPREGSITIHDTLQGEVVIENS 168
Query: 232 TLGDFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFA 291
+ D V++R++G Y V VDD M I+H+IR ++HL N RQ IY+A G+++P
Sbjct: 169 HIDDMVLLRADGTATYMLAVVVDDHDMGITHIIRGDDHLTNAARQLAIYQAFGYAVPSMT 228
Query: 292 HVSLILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVE 351
H+ LI D +KLSKRHGA + +++MGYLP+++ NYL LGW G ++E ++ Q ++
Sbjct: 229 HIPLIHGADGAKLSKRHGALGIEAYKDMGYLPESLCNYLLRLGWSHG-DDEIISMTQAID 287
Query: 352 KFTIERVNKSGAIFDSTKLRWMNGQHLRAIPSNELT 387
F ++ + KS + D K+ +N +LR + ++ LT
Sbjct: 288 WFNLDSLGKSPSKLDFAKMNSLNAHYLRMLDNDSLT 323
>gnl|CDD|235573 PRK05710, PRK05710, glutamyl-Q tRNA(Asp) synthetase; Reviewed.
Length = 299
Score = 251 bits (643), Expect = 9e-81
Identities = 107/318 (33%), Positives = 153/318 (48%), Gaps = 35/318 (11%)
Query: 59 RFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLSWLG 118
RFAPSP+G LH G AL ++L AR+ GG+++LRIED D R + +A+L DL WLG
Sbjct: 9 RFAPSPSGPLHFGSLVAALGSWLDARAHGGRWLLRIEDIDPPREVPGAADAILADLEWLG 68
Query: 119 LDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKLKQL 178
L WD GP QS+R+ Y+ D+L G VY CFCS KEIA
Sbjct: 69 LHWD-GP-------VLYQSQRHDAYRAALDRLRAQGLVYPCFCSR------KEIAAAAPA 114
Query: 179 P----PVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLD-TL 233
P +Y G T P +R RVP + D ++G +L +
Sbjct: 115 PPDGGGIYPG-----TCR--DLLHGPRNPPAWRLRVPD-AVIAFDDRLQGRQHQDLALAV 166
Query: 234 GDFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHV 293
GDFV+ R++G Y V VDDA ++HV+R + L +T RQ + + LG P + H+
Sbjct: 167 GDFVLRRADGLFAYQLAVVVDDALQGVTHVVRGADLLDSTPRQIYLQQLLGLPTPRYLHL 226
Query: 294 SLILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNY-LALLGWGDGTEN--EFFTLKQLV 350
L+L D KLSK++GA ++ G P ++ L LG + L Q V
Sbjct: 227 PLVLNADGQKLSKQNGAPAL---DAAG--PLPVLAAALRFLGQPPPAADASVEELLAQAV 281
Query: 351 EKFTIERVNKSGAIFDST 368
+ + R+ + I +
Sbjct: 282 AHWDLTRLPRQAEINPAF 299
>gnl|CDD|173905 cd00808, GluRS_core, catalytic core domain of discriminating
glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA
synthetase (GluRS) catalytic core domain . The
discriminating form of GluRS is only found in bacteria
and cellular organelles. GluRS is a monomer that
attaches Glu to the appropriate tRNA. Like other class
I tRNA synthetases, GluRS aminoacylates the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 239
Score = 242 bits (619), Expect = 5e-78
Identities = 79/138 (57%), Positives = 101/138 (73%)
Query: 242 NGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLILAPDR 301
+G P Y+ VDD M I+HVIR EEHL +T +Q L+Y+ALG+ P FAH+ LIL PD
Sbjct: 101 DGFPTYHLANVVDDHLMGITHVIRGEEHLSSTPKQILLYEALGWEPPKFAHLPLILNPDG 160
Query: 302 SKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTIERVNKS 361
KLSKR G TS+ +RE GYLP+A++NYLALLGW EFFTL++L+E F +ERV+KS
Sbjct: 161 KKLSKRKGDTSISDYREEGYLPEALLNYLALLGWSPPDGEEFFTLEELIELFDLERVSKS 220
Query: 362 GAIFDSTKLRWMNGQHLR 379
AIFD KL W+NGQ++R
Sbjct: 221 PAIFDPEKLDWLNGQYIR 238
Score = 206 bits (526), Expect = 3e-64
Identities = 76/99 (76%), Positives = 85/99 (85%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
VR RFAPSPTG LH+GGARTALFNYLFAR GGKF+LRIEDTD ERS E+EEA+L+ L
Sbjct: 2 VRTRFAPSPTGFLHIGGARTALFNYLFARKHGGKFILRIEDTDQERSVPEAEEAILEALK 61
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESG 154
WLGLDWDEGP VGG YGPYRQSER +Y++YA+KLLE G
Sbjct: 62 WLGLDWDEGPDVGGPYGPYRQSERLEIYRKYAEKLLEKG 100
>gnl|CDD|234370 TIGR03838, queuosine_YadB, glutamyl-queuosine tRNA(Asp) synthetase.
This protein resembles a shortened glutamyl-tRNA
ligase, but its purpose is to modify tRNA(Asp) at a
queuosine position in the anticodon rather than to
charge a tRNA with its cognate amino acid [Protein
synthesis, tRNA and rRNA base modification].
Length = 271
Score = 232 bits (594), Expect = 8e-74
Identities = 98/281 (34%), Positives = 141/281 (50%), Gaps = 26/281 (9%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
R RFAPSP+G LH G AL +YL AR+ GG++++RIED D R + + +L+ L
Sbjct: 1 YRGRFAPSPSGPLHFGSLVAALGSYLDARAHGGRWLVRIEDLDPPREVPGAADDILRTLE 60
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKL 175
GL WD QS+R++LY+ D+LL +G Y C C+ KEIA
Sbjct: 61 AYGLHWDG--------EVVYQSQRHALYQAALDRLLAAGLAYPCQCTR------KEIAAA 106
Query: 176 KQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVSWNLDT-LG 234
+Y G T G P +R RVP G + D ++G +L +G
Sbjct: 107 HDGGGIYPG-----TCRNGLPGRP-GRPAAWRLRVPD-GVIAFDDRLQGPQQQDLAAAVG 159
Query: 235 DFVIMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVS 294
DFV+ R++G Y V VDDA I+HV+R + L +T RQ + + LG P + H+
Sbjct: 160 DFVLRRADGLFAYQLAVVVDDAAQGITHVVRGADLLDSTPRQIYLQRLLGLPPPRYLHLP 219
Query: 295 LILAPDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGW 335
L++ D KLSK++GA ++ R + L A L LG
Sbjct: 220 LVVNADGEKLSKQNGAPALDDSRPLPALLAA----LRFLGL 256
>gnl|CDD|185672 cd00418, GlxRS_core, catalytic core domain of glutamyl-tRNA and
glutaminyl-tRNA synthetase. Glutamyl-tRNA
synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS)
cataytic core domain. These enzymes attach Glu or Gln,
respectively, to the appropriate tRNA. Like other class
I tRNA synthetases, they aminoacylate the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. These enzymes function as monomers. Archaea,
cellular organelles, and some bacteria lack GlnRS. In
these cases, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme. The discriminating form of GluRS
differs from GlnRS and the non-discriminating form of
GluRS in their C-terminal anti-codon binding domains.
Length = 230
Score = 168 bits (426), Expect = 2e-49
Identities = 65/142 (45%), Positives = 94/142 (66%)
Query: 238 IMRSNGQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLIL 297
+++ G P+YNF VDDA M I+HV+R E+HL NT Q +Y+ALG+ P F H +L
Sbjct: 88 LIKKGGYPLYNFVHPVDDALMGITHVLRGEDHLDNTPIQDWLYEALGWEPPRFYHFPRLL 147
Query: 298 APDRSKLSKRHGATSVGQFREMGYLPQAMVNYLALLGWGDGTENEFFTLKQLVEKFTIER 357
D +KLSKR T++ R GYLP+A+ NYLAL+GW +E FTL++++ F++ER
Sbjct: 148 LEDGTKLSKRKLNTTLRALRRRGYLPEALRNYLALIGWSKPDGHELFTLEEMIAAFSVER 207
Query: 358 VNKSGAIFDSTKLRWMNGQHLR 379
VN + A FD KL W+N +++R
Sbjct: 208 VNSADATFDWAKLEWLNREYIR 229
Score = 147 bits (373), Expect = 9e-42
Identities = 62/99 (62%), Positives = 74/99 (74%), Gaps = 8/99 (8%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
V RFAPSPTG LH+G ARTALFN+ FAR GGKF+LRIEDTD ERS E E++L+DL
Sbjct: 2 VVTRFAPSPTGYLHIGHARTALFNFAFARKYGGKFILRIEDTDPERSRPEYVESILEDLK 61
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESG 154
WLGLDWDE GPYRQS+R LY+ YA++L++ G
Sbjct: 62 WLGLDWDE--------GPYRQSDRFDLYRAYAEELIKKG 92
>gnl|CDD|235229 PRK04156, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 567
Score = 170 bits (434), Expect = 2e-47
Identities = 87/265 (32%), Positives = 125/265 (47%), Gaps = 54/265 (20%)
Query: 50 NKVDGQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLE--RSTKESE 107
N G+V +RFAP+P+G LH+G AR A+ N +A+ GGKF+LR EDTD R E+
Sbjct: 96 NAEKGKVVMRFAPNPSGPLHLGHARAAILNDEYAKMYGGKFILRFEDTDPRTKRPDPEAY 155
Query: 108 EAVLQDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELE 167
+ +L+DL WLG+ WDE QS+R +Y +YA KL+E G Y C C EE +
Sbjct: 156 DMILEDLKWLGVKWDE---------VVIQSDRLEIYYEYARKLIEMGGAYVCTCDPEEFK 206
Query: 168 KMKEIAKLKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVS 227
++++ K P D ++ LE + G K GE
Sbjct: 207 ELRD--AGKPCPH---------RDKSPEENLE-------LWEKMLDGEYK-----EGEAV 243
Query: 228 WNLDT--------LGDFVIMR-------SNGQ-----PVYNFCVTVDDATMAISHVIRAE 267
+ T + D+V R G P YNF V VDD + ++HV+R +
Sbjct: 244 VRVKTDLEHPNPSVRDWVAFRIVKTPHPRVGDKYRVWPTYNFAVAVDDHLLGVTHVLRGK 303
Query: 268 EHLPNTLRQALIYKALGFSMPYFAH 292
+H+ NT +Q IY G+ P H
Sbjct: 304 DHIDNTEKQRYIYDYFGWEYPETIH 328
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic family. The glutamyl-tRNA synthetases of the
eukaryotic cytosol and of the Archaea are more similar
to glutaminyl-tRNA synthetases than to bacterial
glutamyl-tRNA synthetases. This model models just the
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 152 bits (385), Expect = 1e-40
Identities = 80/267 (29%), Positives = 125/267 (46%), Gaps = 42/267 (15%)
Query: 54 GQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQD 113
G+V +RFAP+P+G LH+G AR A+ N+ +A+ GK ++R +DTD R E+ + +L+D
Sbjct: 92 GEVVMRFAPNPSGPLHIGHARAAILNHEYAKKYDGKLIIRFDDTDPRRVDPEAYDMILED 151
Query: 114 LSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIA 173
L WLG+ WDE QS+R Y Y KL+E G Y C C EE +++
Sbjct: 152 LEWLGVKWDE---------VVYQSDRIETYYDYTRKLIEMGKAYVCDCRPEEFRELRN-- 200
Query: 174 KLKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLK-ISDLIRGEVSWNL-- 230
G+ D V++ LE R+ G + S ++R +
Sbjct: 201 ---------RGEACHCRDRSVEENLE-------RWEEMLEGKEEGGSVVVRVKTDLKHKN 244
Query: 231 DTLGDFVIMRSNGQ------------PVYNFCVTVDDATMAISHVIRAEEHLPNTLRQAL 278
+ D+VI R P +F V +DD + ++HV+R ++H+ N +Q
Sbjct: 245 PAIRDWVIFRIVKTPHPRTGDKYRVYPTMDFSVAIDDHLLGVTHVLRGKDHIDNRRKQEY 304
Query: 279 IYKALGFSMPYFAHVSLILAPDRSKLS 305
IY+ G+ P F H + D LS
Sbjct: 305 IYRYFGWEPPEFIHWGRLKIDDVRALS 331
>gnl|CDD|185682 cd09287, GluRS_non_core, catalytic core domain of
non-discriminating glutamyl-tRNA synthetase.
Non-discriminating Glutamyl-tRNA synthetase (GluRS)
cataytic core domain. These enzymes attach Glu to the
appropriate tRNA. Like other class I tRNA synthetases,
they aminoacylate the 2'-OH of the nucleotide at the 3'
end of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. It contains the
characteristic class I HIGH and KMSKS motifs, which are
involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 240
Score = 104 bits (261), Expect = 1e-25
Identities = 44/105 (41%), Positives = 61/105 (58%), Gaps = 11/105 (10%)
Query: 55 QVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESE--EAVLQ 112
+V +RFAP+P G LH+G AR A+ N +A+ GGKF+LR +DTD + E + + +
Sbjct: 1 KVVMRFAPNPNGPLHLGHARAAILNGEYAKMYGGKFILRFDDTDPRTKRPDPEAYDMIPE 60
Query: 113 DLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVY 157
DL WLG+ WDE S+R LY +YA KL+E G Y
Sbjct: 61 DLEWLGVKWDE---------VVIASDRIELYYEYARKLIEMGGAY 96
Score = 62.4 bits (152), Expect = 4e-11
Identities = 31/106 (29%), Positives = 49/106 (46%), Gaps = 17/106 (16%)
Query: 245 PVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLILAPDRSKL 304
P NF V VDD + ++HV+R ++H+ NT +Q IY+ G+ P H L + KL
Sbjct: 109 PTLNFAVAVDDHLLGVTHVLRGKDHIDNTEKQRYIYEYFGWEYPETIHWG-RLKIEGGKL 167
Query: 305 SK---RHGATS-------------VGQFREMGYLPQAMVNYLALLG 334
S R G S + R G P+A+ +++ +G
Sbjct: 168 STSKIRKGIESGEYEGWDDPRLPTLRALRRRGIRPEAIRDFIIEVG 213
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 85.8 bits (212), Expect = 6e-18
Identities = 81/305 (26%), Positives = 130/305 (42%), Gaps = 49/305 (16%)
Query: 24 PIFLQSSVYYCKRRRFSVAASLSTN-----TNKVDGQVRVRFAPSPTGNLHVGGARTALF 78
I L++ + F+ A + N TN +G+V RF P +G LH+G A+ AL
Sbjct: 16 NILLKALTSFLSNTYFTAANANEENDKLQLTNAEEGKVVTRFPPEASGFLHIGHAKAALI 75
Query: 79 NYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLSWLGLDWDEGPGVGGDYGPYRQSE 138
N + A GK V R +DT+ + + E+A+L DL+ LG+ WD GP DY
Sbjct: 76 NSMLADKYKGKLVFRFDDTNPSKEKEHFEQAILDDLATLGVSWDVGPTYSSDY------- 128
Query: 139 RNSLYKQYADKLLESGHVYRCFCSNEELEKMKEIAKLKQLPPVYTGKWATATDAEVQKEL 198
L + A++L++ G Y C E+M++ + +P Y D V++
Sbjct: 129 -MDLMYEKAEELIKKGLAY---CDKTPREEMQK-CRFDGVPTKY-------RDISVEE-- 174
Query: 199 ERGTPYTYRF--RVPKGGSLKISDLIRGEVSWNLD--TLGDFVIMRSN------------ 242
T R + KG + +R ++S + + + D VI R N
Sbjct: 175 ------TKRLWNEMKKGSAEGQETCLRAKISVDNENKAMRDPVIYRVNLTPHARQGTKYK 228
Query: 243 GQPVYNFCVTVDDATMAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLILAPDRS 302
P Y+FC + D+ ++H +R E+ + ALG P S L + S
Sbjct: 229 AYPTYDFCCPIIDSVEGVTHALRTNEYHDRNDQYYWFCDALGIRKPIVEDFSR-LNMEYS 287
Query: 303 KLSKR 307
+SKR
Sbjct: 288 VMSKR 292
>gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA
synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic
core domain. These enzymes attach Gln to the appropriate
tRNA. Like other class I tRNA synthetases, they
aminoacylate the 2'-OH of the nucleotide at the 3' end
of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. GlnRS contains
the characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 238
Score = 75.4 bits (186), Expect = 1e-15
Identities = 31/103 (30%), Positives = 55/103 (53%), Gaps = 9/103 (8%)
Query: 55 QVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDL 114
+V RF P P G LH+G A+ L N+ +A+ GG+ LR +DT+ E+ +E +++ +D+
Sbjct: 1 KVVTRFPPEPNGYLHIGHAKAILLNFGYAKKYGGRCNLRFDDTNPEKEEEEYVDSIKEDV 60
Query: 115 SWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVY 157
WLG+ + S+ +YA++L++ G Y
Sbjct: 61 KWLGIKPYK---------VTYASDYFDQLYEYAEQLIKKGKAY 94
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 74.8 bits (184), Expect = 3e-14
Identities = 41/113 (36%), Positives = 57/113 (50%), Gaps = 8/113 (7%)
Query: 54 GQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQD 113
+V RF P P G LH+G A++ L N+ AR GG+ LR++DT+ E E EA+ D
Sbjct: 30 PRVVTRFPPEPNGYLHIGHAKSILLNFGIARDYGGRCHLRMDDTNPETEDTEYVEAIKDD 89
Query: 114 LSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEEL 166
+ WLG DW E DY YA++L++ G Y S EE+
Sbjct: 90 VRWLGFDWGEHLYYASDYFE--------RMYAYAEQLIKMGLAYVDSVSEEEI 134
>gnl|CDD|232977 TIGR00440, glnS, glutaminyl-tRNA synthetase. This protein is a
relatively rare aminoacyl-tRNA synthetase, found in the
cytosolic compartment of eukaryotes, in E. coli and a
number of other Gram-negative Bacteria, and in
Deinococcus radiodurans. In contrast, the pathway to
Gln-tRNA in mitochondria, Archaea, Gram-positive
Bacteria, and a number of other lineages is by
misacylation with Glu followed by transamidation to
correct the aminoacylation to Gln. This enzyme is a
class I tRNA synthetase (hit by the pfam model
tRNA-synt_1c) and is quite closely related to
glutamyl-tRNA synthetases [Protein synthesis, tRNA
aminoacylation].
Length = 522
Score = 72.3 bits (177), Expect = 1e-13
Identities = 35/117 (29%), Positives = 59/117 (50%), Gaps = 8/117 (6%)
Query: 56 VRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQDLS 115
V RF P P G LH+G A++ N+ +A+ G LR +DT+ + E E++ +D+
Sbjct: 1 VHTRFPPEPNGYLHIGHAKSICLNFGYAKYYNGTCNLRFDDTNPVKEDPEYVESIKRDVE 60
Query: 116 WLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMKEI 172
WLG W+ DY + LY+ YA++L++ G Y + EE+ + +
Sbjct: 61 WLGFKWEGKIRYSSDY-------FDELYR-YAEELIKKGLAYVDELTPEEIREYRGT 109
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 70.9 bits (174), Expect = 5e-13
Identities = 29/70 (41%), Positives = 44/70 (62%)
Query: 54 GQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQD 113
G+V RF P P+G LH+G A+ AL N FAR GK ++R +DT+ + + E E +L+D
Sbjct: 212 GKVCTRFPPEPSGYLHIGHAKAALLNQYFARRYKGKLIVRFDDTNPSKESDEFVENILKD 271
Query: 114 LSWLGLDWDE 123
+ LG+ +D
Sbjct: 272 IETLGIKYDA 281
>gnl|CDD|178772 PLN03233, PLN03233, putative glutamate-tRNA ligase; Provisional.
Length = 523
Score = 69.7 bits (170), Expect = 8e-13
Identities = 70/275 (25%), Positives = 113/275 (41%), Gaps = 51/275 (18%)
Query: 52 VDGQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVL 111
+ GQ+ RF P P+G LH+G A+ AL N +AR G+ +LR +DT+ + E EE+++
Sbjct: 8 IAGQIVTRFPPEPSGYLHIGHAKAALLNDYYARRYKGRLILRFDDTNPSKEKAEFEESII 67
Query: 112 QDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEELEKMK- 170
+DL + + D + P R YA L+E G Y EE++K +
Sbjct: 68 EDLGKIEIKPDSVSFTSDYFEPIRC---------YAIILIEEGLAYMDDTPQEEMKKERA 118
Query: 171 ---EIAKLKQLPPVYTGKWATATDAEVQKELERGTPYTYRFRVPKGGSLKISDLIRGEVS 227
E Q P + A E+ E G + R ++ ++
Sbjct: 119 DRAESKHRNQSP-----EEALEMFKEMCSGKEEGGAWCLRAKI--------------DMQ 159
Query: 228 WNLDTLGDFVIMRSN------------GQPVYNFCVTVDDATMAISHVIRAEEHLPNTLR 275
+ TL D V+ R N P Y+ + D+ ++H +R E+ +
Sbjct: 160 SDNGTLRDPVLFRQNTTPHHRSGTAYKAYPTYDLACPIVDSIEGVTHALRTTEYDDRDAQ 219
Query: 276 QALIYKALGFSMP---YFAHVSLILAPDRSKLSKR 307
I KALG P FA ++ + + LSKR
Sbjct: 220 FFWIQKALGLRRPRIHAFARMNFM----NTVLSKR 250
>gnl|CDD|235424 PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional.
Length = 554
Score = 65.9 bits (162), Expect = 1e-11
Identities = 41/115 (35%), Positives = 59/115 (51%), Gaps = 14/115 (12%)
Query: 54 GQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEE---AV 110
+V RF P P G LH+G A++ N+ A+ GGK LR +DT+ KE +E ++
Sbjct: 28 TRVHTRFPPEPNGYLHIGHAKSICLNFGLAQDYGGKCNLRFDDTN---PEKEDQEYVDSI 84
Query: 111 LQDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNEE 165
+D+ WLG DW DY + Q LY +YA +L++ G Y S EE
Sbjct: 85 KEDVRWLGFDWSGELRYASDY--FDQ-----LY-EYAVELIKKGKAYVDDLSAEE 131
>gnl|CDD|240418 PTZ00437, PTZ00437, glutaminyl-tRNA synthetase; Provisional.
Length = 574
Score = 55.8 bits (134), Expect = 3e-08
Identities = 35/127 (27%), Positives = 65/127 (51%), Gaps = 9/127 (7%)
Query: 45 LSTNTNKVDGQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTK 104
L + G+ RF P P G LH+G A++ N+ AR+ GGK LR +DT+ E +
Sbjct: 41 LEKHEAVTGGKPYFRFPPEPNGFLHIGHAKSMNLNFGSARAHGGKCYLRYDDTNPETEEQ 100
Query: 105 ESEEAVLQDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHVYRCFCSNE 164
+A+++ + W+G W D+ + + L+ ++A +L++ G Y + +
Sbjct: 101 VYIDAIMEMVKWMG--WKP------DWVTFSSDYFDQLH-EFAVQLIKDGKAYVDHSTPD 151
Query: 165 ELEKMKE 171
EL++ +E
Sbjct: 152 ELKQQRE 158
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 54.0 bits (130), Expect = 1e-07
Identities = 32/121 (26%), Positives = 61/121 (50%), Gaps = 15/121 (12%)
Query: 54 GQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLERSTKESEEAVLQD 113
G+V RF P P G LH+G A+ ++ A+ +GG LR +DT+ E KE + + +
Sbjct: 263 GKVYTRFPPEPNGYLHIGHAKAMFVDFGLAKERGGCCYLRFDDTNPEAEKKEYIDHIEEI 322
Query: 114 LSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADK---LLESGHVYRCFCSNEELEKMK 170
+ W+G W+ P++ + + +++ + L+ GH Y + EE+++ +
Sbjct: 323 VEWMG--WE----------PFKITYTSDYFQELYELAVELIRRGHAYVDHQTPEEIKEYR 370
Query: 171 E 171
E
Sbjct: 371 E 371
>gnl|CDD|238610 cd01283, cytidine_deaminase, Cytidine deaminase zinc-binding
domain. These enzymes are Zn dependent. The zinc ion in
the active site plays a central role in the proposed
catalytic mechanism, activating a water molecule to
form a hydroxide ion that performs a nucleophilic
attack on the substrate. Cytidine deaminases catalyze
the deamination of cytidine to uridine and are
important in the pyrimadine salvage pathway in many
cell types, from bacteria to humans. This family also
includes the apoBec proteins, which are a mammal
specific expansion of RNA editing enzymes, and the
closely related phorbolins, and the AID
(activation-induced) enzymes.
Length = 112
Score = 31.9 bits (73), Expect = 0.20
Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 32 YYCKRRRFSVAASLSTNTNKVDGQVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFV 91
Y F+V A+L T ++ V V A S L RTA+ A S+G +
Sbjct: 11 AYAPYSNFTVGAALLTKDGRIFTGVNVENA-SYGLTLCA--ERTAIGK---AVSEGLRRY 64
Query: 92 LRI 94
L
Sbjct: 65 LVT 67
>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III
members of the HMG-box superfamily of DNA-binding
proteins. These proteins bind the minor groove of DNA in
a non-sequence specific fashion and contain two or more
tandem HMG boxes. Class II members include non-histone
chromosomal proteins, HMG1 and HMG2, which bind to bent
or distorted DNA such as four-way DNA junctions,
synthetic DNA cruciforms, kinked cisplatin-modified DNA,
DNA bulges, cross-overs in supercoiled DNA, and can
cause looping of linear DNA. Class III members include
nucleolar and mitochondrial transcription factors, UBF
and mtTF1, which bind four-way DNA junctions.
Length = 66
Score = 30.3 bits (69), Expect = 0.27
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 381 IPSNELTKLIGERWKSTGILTES-KGPFVDEAIQLLKD 417
E+TK++GE+WK L+E K + ++A + +
Sbjct: 26 ASVTEVTKILGEKWKE---LSEEEKKKYEEKAEKDKER 60
>gnl|CDD|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I
amino acyl-tRNA synthetase. Class I amino acyl-tRNA
synthetase (aaRS) catalytic core domain. These enzymes
are mostly monomers which aminoacylate the 2'-OH of the
nucleotide at the 3' of the appropriate tRNA. The core
domain is based on the Rossman fold and is responsible
for the ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in
ATP binding.
Length = 143
Score = 31.3 bits (71), Expect = 0.41
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 58 VRFAPSPTGNLHVGGARTALFNYLFAR-----SKGGKFVLRIEDTD 98
+P G LH+G RT + A+ + + I+D
Sbjct: 2 TFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAG 47
>gnl|CDD|189580 pfam00505, HMG_box, HMG (high mobility group) box.
Length = 69
Score = 29.5 bits (67), Expect = 0.48
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 10/49 (20%)
Query: 370 LRWMNGQH--LRA----IPSNELTKLIGERWKSTGILTES-KGPFVDEA 411
+ Q L+A + + E++K++GE+WK+ L+E K P+ ++A
Sbjct: 9 FLFSQEQRAKLKAENPGLKNAEISKILGEKWKN---LSEEEKKPYEEKA 54
>gnl|CDD|133428 cd05292, LDH_2, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed
predominantly of bacterial LDHs and a few fungal LDHs.
Bacterial LDHs may be non-allosteric or may be activated
by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 308
Score = 31.7 bits (73), Expect = 0.67
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 356 ERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGE 392
RV SG + D+ + R++ G+HL P + +IGE
Sbjct: 135 NRVIGSGTVLDTARFRYLLGEHLGVDPRSVHAYIIGE 171
>gnl|CDD|238171 cd00273, Chemokine_CXC, Chemokine_CXC: 1 of 4 subgroup
designations based on the arrangement of the two
N-terminal cysteine residues; includes a number of
secreted growth factors and interferons involved in
mitogenic, chemotactic, and inflammatory activity; many
members contain an RCxC motif which may be a general
requirement for binding to CXC chemokine receptors;
those with the ELR motif are chemotatic for neutrophils
and have been shown to be angiogenic, while those
without the motif act on T and B cells, and are
typically angiostatic; exist as monomers and dimers, but
are believed to be functional as monomers; found only in
vertebrates and a few viruses. See CDs: Chemokine
(cd00169) for the general alignment of chemokines, or
Chemokine_CC (cd00272), Chemokine_C (cd00271), and
Chemokine_CX3C (cd00274) for the additional chemokine
subgroups.
Length = 64
Score = 28.8 bits (65), Expect = 0.91
Identities = 9/27 (33%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 156 VYRCFCSNEELE--KMKEIAKLKQLPP 180
RC C K I KL+ +PP
Sbjct: 1 ELRCRCIKTTSGFVHPKSIKKLEVIPP 27
>gnl|CDD|235380 PRK05265, PRK05265, pyridoxine 5'-phosphate synthase; Provisional.
Length = 239
Score = 30.8 bits (71), Expect = 0.99
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 182 YTGKWATATDAEVQKELER 200
+TG +A A ELER
Sbjct: 154 HTGPYADAKTEAEAAELER 172
>gnl|CDD|178836 PRK00066, ldh, L-lactate dehydrogenase; Reviewed.
Length = 315
Score = 31.0 bits (71), Expect = 1.0
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 356 ERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGE 392
ERV SG DS + R+M + L P + +IGE
Sbjct: 141 ERVIGSGTSLDSARFRYMLSEKLDVDPRSVHAYIIGE 177
>gnl|CDD|233566 TIGR01771, L-LDH-NAD, L-lactate dehydrogenase. This model
represents the NAD-dependent L-lactate dehydrogenases
from bacteria and eukaryotes. This enzyme function as as
the final step in anaerobic glycolysis. Although lactate
dehydrogenases have in some cases been mistaken for
malate dehydrogenases due to the similarity of these two
substrates and the apparent ease with which evolution
can toggle these activities, critical residues have been
identified which can discriminate between the two
activities. At the time of the creation of this model no
hits above the trusted cutoff contained critical
residues typical of malate dehydrogenases [Energy
metabolism, Anaerobic, Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 299
Score = 31.0 bits (71), Expect = 1.1
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 353 FTIERVNKSGAIFDSTKLRWMNGQHLRAIPSNELTKLIGER-------WKSTGI 399
F RV SG + D+ +LR++ + L P + +IGE W S I
Sbjct: 129 FPKNRVIGSGTVLDTARLRYLLAEKLGVDPQSVHAYIIGEHGDSEVPVWSSATI 182
>gnl|CDD|151744 pfam11303, DUF3105, Protein of unknown function (DUF3105). Some
members in this family of proteins are annotated as
membrane proteins however this cannot be confirmed.
Currently no function is known.
Length = 130
Score = 29.6 bits (67), Expect = 1.3
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 8/63 (12%)
Query: 120 DWDEGPGVGGDYGPYRQSERNSLY-----KQYADKLLESGHV---YRCFCSNEELEKMKE 171
+ + P GG + P + +Y + A LE G V Y +E+EK+K
Sbjct: 11 AYKQSPPTGGPHNPVWANCGGYVYDAPVPPERAVHNLEHGAVWITYDPDLPPDEVEKLKA 70
Query: 172 IAK 174
+A
Sbjct: 71 LAA 73
>gnl|CDD|238037 cd00084, HMG-box, High Mobility Group (HMG)-box is found in a
variety of eukaryotic chromosomal proteins and
transcription factors. HMGs bind to the minor groove of
DNA and have been classified by DNA binding preferences.
Two phylogenically distinct groups of Class I proteins
bind DNA in a sequence specific fashion and contain a
single HMG box. One group (SOX-TCF) includes
transcription factors, TCF-1, -3, -4; and also SRY and
LEF-1, which bind four-way DNA junctions and duplex DNA
targets. The second group (MATA) includes fungal mating
type gene products MC, MATA1 and Ste11. Class II and III
proteins (HMGB-UBF) bind DNA in a non-sequence specific
fashion and contain two or more tandem HMG boxes. Class
II members include non-histone chromosomal proteins,
HMG1 and HMG2, which bind to bent or distorted DNA such
as four-way DNA junctions, synthetic DNA cruciforms,
kinked cisplatin-modified DNA, DNA bulges, cross-overs
in supercoiled DNA, and can cause looping of linear DNA.
Class III members include nucleolar and mitochondrial
transcription factors, UBF and mtTF1, which bind
four-way DNA junctions.
Length = 66
Score = 28.4 bits (64), Expect = 1.4
Identities = 11/37 (29%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 381 IPSNELTKLIGERWKSTGILTES-KGPFVDEAIQLLK 416
+ E++K++GE WKS L+E K + ++A + +
Sbjct: 26 LSVGEISKILGEMWKS---LSEEEKKKYEEKAEKDKE 59
>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed.
Length = 507
Score = 30.5 bits (70), Expect = 2.1
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 19/90 (21%)
Query: 234 GDFVIMRSNGQPVYNFCVTVDDATMA-----ISHVIR---AEEHLP-NTLRQALIYKALG 284
D V+++S+G Y T D A VI A+ H L+ AL KALG
Sbjct: 244 KDRVLIKSDGTYTY---FTRDIAYHLYKFERFDRVIYVVGADHHGHFKRLKAAL--KALG 298
Query: 285 F---SMPYFAH--VSLILAPDRSKLSKRHG 309
+ ++ H V L+ + K+S R G
Sbjct: 299 YDPDALEVLLHQMVGLVRGGEGVKMSTRAG 328
>gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA
synthetases. Arginyl tRNA synthetase (ArgRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. There
are at least three subgroups of ArgRS. One type contains
both characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. The second subtype lacks
the KMSKS motif; however, it has a lysine N-terminal to
the HIGH motif, which serves as the functional
counterpart to the second lysine of the KMSKS motif. A
third group, which is found primarily in archaea and a
few bacteria, lacks both the KMSKS motif and the HIGH
loop lysine.
Length = 212
Score = 29.5 bits (67), Expect = 2.5
Identities = 22/88 (25%), Positives = 32/88 (36%), Gaps = 18/88 (20%)
Query: 235 DFVIMRSNGQPVYNFCVTVDDATMAISH---------VIRAEEHLP-NTLRQALIYKALG 284
D V++RS+G Y T D A V+ A+ H L AL + LG
Sbjct: 130 DRVLVRSDGTYTY---FTRDIAYHLDKFERGADKIIYVVGADHHGHFKRLFAAL--ELLG 184
Query: 285 FSMPYFAHV---SLILAPDRSKLSKRHG 309
+ ++ P K+S R G
Sbjct: 185 YDEAKKLEHLLYGMVNLPKEGKMSTRAG 212
>gnl|CDD|185073 PRK15118, PRK15118, universal stress global response regulator
UspA; Provisional.
Length = 144
Score = 28.7 bits (64), Expect = 3.1
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 258 MAISHVIRAEEHLPNTLRQALIYKALGFSMPYFAHVSLI 296
MA H++ A + P + + L+ KA+ + PY A VSLI
Sbjct: 1 MAYKHILIAVDLSPES--KVLVEKAVSMARPYNAKVSLI 37
>gnl|CDD|238684 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I member of the
HMG-box superfamily of DNA-binding proteins. These
proteins contain a single HMG box, and bind the minor
groove of DNA in a highly sequence-specific manner.
Members include SRY and its homologs in insects and
vertebrates, and transcription factor-like proteins,
TCF-1, -3, -4, and LEF-1. They appear to bind the minor
groove of the A/T C A A A G/C-motif.
Length = 72
Score = 27.3 bits (61), Expect = 3.2
Identities = 14/42 (33%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 383 SNELTKLIGERWKSTGILTESKGPFVDEAIQLLKDGIDLVPD 424
+ ++K++G+RWK+ E K P+ +EA +L + + L PD
Sbjct: 29 NRAISKILGDRWKALS--NEEKQPYYEEAKKLKELHMKLYPD 68
>gnl|CDD|100066 cd02637, R3H_PARN, R3H domain of Poly(A)-specific ribonuclease
(PARN). PARN is a poly(A)-specific 3' exonuclease from
the RNase D family that, in Xenopus, deadenylates a
specific class of maternal mRNAs which results in their
translational repression. The name of the R3H domain
comes from the characteristic spacing of the most
conserved arginine and histidine residues. The function
of the domain is predicted to bind ssDNA or ssRNA.
Length = 65
Score = 26.9 bits (60), Expect = 4.0
Identities = 9/53 (16%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 341 NEFFTLKQLVEKFTIERVN--KSGAIFDSTKLRWMNGQHLRAIPSNELTKLIG 391
F L+ + +E N + I+ + + ++ G H+ + + + +LI
Sbjct: 9 EAF--LESEEDDLELEPCNGFQRKLIYQTLEQKYPKGIHVETLETEKKERLIV 59
>gnl|CDD|218709 pfam05707, Zot, Zonular occludens toxin (Zot). This family
consists of bacterial and viral proteins which are very
similar to the Zonular occludens toxin (Zot). Zot is
elaborated by bacteriophages present in toxigenic
strains of Vibrio cholerae. Zot is a single polypeptide
chain of 44.8 kDa, with the ability to reversibly alter
intestinal epithelial tight junctions, allowing the
passage of macromolecules through mucosal barriers.
Length = 183
Score = 28.9 bits (65), Expect = 4.0
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 11/61 (18%)
Query: 83 ARSKGGKFVLRIEDTDLERSTKESEEAVLQDLSWLGLDWDEGPGVGGDYGPYRQSERNSL 142
A KG K + I+ +LER K G D E G P+R + +L
Sbjct: 25 ALKKGRKVITNIDGLNLERFPK-----------VFGEDVRERLEDIGYMDPWRTYPKGAL 73
Query: 143 Y 143
Sbjct: 74 L 74
>gnl|CDD|216084 pfam00725, 3HCDH, 3-hydroxyacyl-CoA dehydrogenase, C-terminal
domain. This family also includes lambda crystallin.
Some proteins include two copies of this domain.
Length = 97
Score = 27.6 bits (62), Expect = 4.1
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 405 GPFVDEAIQLLKDGIDLVPDSDKALSNLLSYP 436
P ++EAI+L+++G+ D D A+ L P
Sbjct: 9 APLLNEAIRLVEEGVATPEDIDAAMRLGLGLP 40
>gnl|CDD|132797 cd06887, PX_p47phox, The phosphoinositide binding Phox Homology
domain of the p47phox subunit of NADPH oxidase. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions such as cell
signaling, vesicular trafficking, protein sorting, and
lipid modification, among others. p47phox is a cytosolic
subunit of the phagocytic NADPH oxidase complex (also
called Nox2 or gp91phox), which plays a key role in the
ability of phagocytes to defend against bacterial
infections. NADPH oxidase catalyzes the transfer of
electrons from NADPH to oxygen during phagocytosis
forming superoxide and reactive oxygen species. p47phox
is required for activation of NADH oxidase and plays a
role in translocation. It contains an N-terminal PX
domain, two Src Homology 3 (SH3) domains, and a
C-terminal domain that contains PxxP motifs for binding
SH3 domains. The PX domain of p47phox is unique in that
it contains two distinct basic pockets on the
membrane-binding surface: one preferentially binds
phosphatidylinositol-3,4-bisphosphate [PI(3,4)P2] and is
analogous to the PI3P-binding pocket of p40phox, while
the other binds anionic phospholipids such as
phosphatidic acid or phosphatidylserine. Simultaneous
binding in the two pockets results in increased membrane
affinity. The PX domain of p47phox is also involved in
protein-protein interaction.
Length = 118
Score = 27.9 bits (62), Expect = 4.6
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 11/70 (15%)
Query: 318 EMGYLPQAMVNYLALLGWGDGTE-------NEFFTL-KQLVEKFTIER--VNKSGAIFDS 367
E ++P Y+ L+ W D +E E + K L E F IE +NK I
Sbjct: 10 EKRFVPSQHYVYMFLVKWQDLSEKLVYRRFTEIYEFHKTLKEMFPIEAGDINKENRIIPH 69
Query: 368 -TKLRWMNGQ 376
+W +GQ
Sbjct: 70 LPAPKWFDGQ 79
>gnl|CDD|193269 pfam12793, SgrR_N, Sugar transport-related sRNA regulator N-term.
Small, non-coding RNA molecules play important
regulatory roles in a variety of physiological processes
in bacteria. SgrR_N is the N-terminus of a family of
proteins which regulate the transcription of these
sRNAs, in particular SgrS. SgrR_N contains a
helix-turn-helix motif characteristic of winged-helix
DNA-binding transcriptional regulators. SgrS is a small
RNA required for recovery from glucose-phosphate stress
in bacteria. In examining the regulation of sgrR
expression it was found that SgrR negatively
auto-regulates its own transcription in the presence and
absence of stress, and thus SgrR coordinates the
response to glucose-phosphate stress by binding
specifically to sgrS promoter DNA.
Length = 115
Score = 27.5 bits (62), Expect = 6.4
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 111 LQDLSWLGLDWDEGPGVGGDYGPYRQSERNSLYKQYADKLLESGHV 156
+Q+ WL W G G L +Q A++LLE G
Sbjct: 43 MQEEGWL--SWQPQVGRGKRSQLIFLISPEELQEQLAEELLEQGKY 86
>gnl|CDD|202370 pfam02745, MCR_alpha_N, Methyl-coenzyme M reductase alpha subunit,
N-terminal domain. Methyl-coenzyme M reductase (MCR) is
the enzyme responsible for microbial formation of
methane. It is a hexamer composed of 2 alpha (this
family), 2 beta (pfam02241), and 2 gamma (pfam02240)
subunits with two identical nickel porphinoid active
sites. The N-terminal domain has a ferredoxin-like fold.
Length = 267
Score = 28.3 bits (63), Expect = 8.4
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 131 YGPYRQSERNSLYKQYADKLLE 152
+G ++QSER + + A K+ E
Sbjct: 27 FGGWKQSERKKEFVEAAKKIAE 48
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
0.318 0.135 0.402
Gapped
Lambda K H
0.267 0.0813 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,884,264
Number of extensions: 2236145
Number of successful extensions: 2135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2096
Number of HSP's successfully gapped: 58
Length of query: 443
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 343
Effective length of database: 6,502,202
Effective search space: 2230255286
Effective search space used: 2230255286
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 (21.7 bits)
S2: 61 (27.1 bits)