RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781004|ref|YP_003065417.1| threonyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(652 letters)
>gnl|CDD|30790 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 701 bits (1811), Expect = 0.0
Identities = 301/610 (49%), Positives = 411/610 (67%), Gaps = 33/610 (5%)
Query: 37 KAVAVAINGKVCDLSDPVREGSIEIITPEDPRSLAVIRHSCAHIMAEAVQSIWPEVQVAI 96
KA+A+ ++G++ DL D EIIT ED L +IRHSCAH++A+AV+ ++P+V I
Sbjct: 1 KALAIHVDGEL-DLKD-------EIITAEDEEGLEIIRHSCAHVLAQAVKRLYPDV--TI 50
Query: 97 GPIIEDGFYYDFDKEQPFSSDELAQIEKKMQEIIARDSPFLKQYLSHEKARELFESKKEA 156
GP+IE+GFYYDFD ++P + ++L +IEK+M+EI + P ++ +S E+AR F
Sbjct: 51 GPVIEEGFYYDFDVKEPITPEDLLKIEKEMKEIAKENLPIEREVVSREEARAPFGP---- 106
Query: 157 YKVEILESIPAKENVTLYRQGEWFDLCRGPHVRSTGQVKKFFKLMKVAGAYWRGDSNRPM 216
YK E+++ ++ Y QGE+ DLCRGPHV STG++ FKL+K+AGAYWRGD N M
Sbjct: 107 YKAELIDCKG--HPLSEYSQGEFVDLCRGPHVPSTGKI--AFKLLKLAGAYWRGDENNEM 162
Query: 217 LSRIYGTAWNTQQELTQYLYFLEESEKRDHRKLAREMDLFHI-AEDGSGVIFWHRKGWKI 275
L RIYGTA+ ++EL YL LEE++KRDHRKL +E+DLF E+G G+ FWH KG I
Sbjct: 163 LQRIYGTAFADKKELEAYLKRLEEAKKRDHRKLGKELDLFSFSPEEGPGLPFWHPKGATI 222
Query: 276 FQTLISYMRRK-IKDDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTF 334
L Y+R K Y+E+ TP + D LW+ SGHWD+Y+ +MF T D R +
Sbjct: 223 RNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGHWDNYKEDMFL------TESDDREY 276
Query: 335 ALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVF 394
ALKPMNCPGH+ +F GL+SYRELP+RLAEFG VYR E SG+LHGLMRVRGFTQDDAH+F
Sbjct: 277 ALKPMNCPGHILIFKSGLRSYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHIF 336
Query: 395 CTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDT 454
CT +Q+ +E I LI+ +YKDFGF VKLSTRP K +GSD +WD AE ++ L
Sbjct: 337 CTPDQIKDEFKGILELILEVYKDFGFTDYEVKLSTRP-KFIGSDEMWDKAEAALREALKE 395
Query: 455 IKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQVDFNLPSRFNAFYVNSH 514
I + GEGAFYGPK ++ +KDA+GR+WQ GTIQ+DFNLP RF+ YV+
Sbjct: 396 I------GVEYVEEPGEGAFYGPKIDFQVKDALGREWQLGTIQLDFNLPERFDLEYVDED 449
Query: 515 SEKCHPVMIHRAVFGSIERFIGIMIENFKGNLPLWLSPIQAIVTTITSSAVEYAQEIANL 574
EK PV+IHRA+ GSIERFIGI++E++ G LP WL+P+Q V + ++YA+E+A
Sbjct: 450 GEKKRPVIIHRAILGSIERFIGILLEHYAGALPTWLAPVQVRVIPVADEHLDYAKEVAEK 509
Query: 575 LKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSIGIRRFGSTTTQKVSL 634
L+ + ++ D RNE + KIRE +KIP +I+ GDKE ++ +RR G + ++L
Sbjct: 510 LRKAGIRVDIDDRNEKLGKKIREAGTQKIPYVIVVGDKEVETGTVVVRRRGGKQQKSMTL 569
Query: 635 LDAIPILTKE 644
+ + L KE
Sbjct: 570 EELVEELKKE 579
>gnl|CDD|29816 cd00771, ThrRS_core, Threonyl-tRNA synthetase (ThrRS) class II core
catalytic domain. ThrRS is a homodimer. It is
responsible for the attachment of threonine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain..
Length = 298
Score = 414 bits (1067), Expect = e-116
Identities = 153/310 (49%), Positives = 199/310 (64%), Gaps = 13/310 (4%)
Query: 244 RDHRKLAREMDLFHIAEDGSGVIFWHRKGWKIFQTLISYMRRK-IKDDYEEINTPQVLDQ 302
R F E G G+ FW KG I L ++R K Y+E+ TP + ++
Sbjct: 1 DHRRLGGELELFFFFDEAGPGLPFWLPKGAIIRNELEDFLRELQRKRGYQEVETPIIYNK 60
Query: 303 HLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRL 362
LW+ SGHWD YR NMF + D + LKPMNCPGH +F +SYR+LP+RL
Sbjct: 61 ELWETSGHWDHYRENMFPFEEED------EEYGLKPMNCPGHCLIFKSKPRSYRDLPLRL 114
Query: 363 AEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTKEQMFNECLKIHNLIISIYKDFGFEK 422
AEFG+V+R E SG+LHGL RVRGFTQDDAH+FCT +Q+ E + +LI +Y DFGF
Sbjct: 115 AEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFFD 174
Query: 423 IMVKLSTRPEKRVGSDALWDDAENIMKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYI 482
V+LSTRPEK +GSD +W+ AE ++ L+ I + + GEGAFYGPK ++
Sbjct: 175 YKVELSTRPEKFIGSDEVWEKAEAALREALEEI------GLPYEINEGEGAFYGPKIDFH 228
Query: 483 LKDAIGRDWQCGTIQVDFNLPSRFNAFYVNSHSEKCHPVMIHRAVFGSIERFIGIMIENF 542
+KDA+GR+WQC TIQ+DFNLP RF+ Y+ EK PVMIHRA+ GSIERFIGI+IE++
Sbjct: 229 VKDALGREWQCSTIQLDFNLPERFDLTYIGEDGEKKRPVMIHRAILGSIERFIGILIEHY 288
Query: 543 KGNLPLWLSP 552
G PLWL+P
Sbjct: 289 AGKFPLWLAP 298
>gnl|CDD|36850 KOG1637, KOG1637, KOG1637, Threonyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 560
Score = 378 bits (973), Expect = e-105
Identities = 192/526 (36%), Positives = 285/526 (54%), Gaps = 41/526 (7%)
Query: 102 DGFYYDFDKEQPFSSDELAQIEKKMQEIIARDSPFLKQYLSHEKARELFESKKEAYKVEI 161
+G +D D+ P D L E++ D K H A L E+ ++ Y +
Sbjct: 40 NGVLWDLDR--PLEGDCL--------ELLKFDDDEGKDVFWHSSAHVLGEALEQEYGAHL 89
Query: 162 LESIPAKENV--TLYRQ--GEWFDLCRGPHVRSTGQVKKFFKLMKVAGAYWRGDSNRPML 217
P +E + + F PH+R TG++K F K++K + AYW GDS
Sbjct: 90 CIGPPIEEGFYYDMLDEISSNDFPSIEAPHIRHTGKIKAF-KILKNSSAYWEGDS----- 143
Query: 218 SRIYGTAWNTQQELTQYLYFLEESEKRDHRKLAREMDLFHIAEDGSGVIFWHRKGWKIFQ 277
+ ++L ++ F EE++KRDHRK+ +E +LF E G F+ G +I+
Sbjct: 144 -------FPDPKQLKEWEKFQEEAKKRDHRKIGKEQELFFFHELSPGSCFFLPHGTRIYN 196
Query: 278 TLISYMRRKI-KDDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFAL 336
TL+ ++R + K + E+ TP + ++ LW+ SGHW +Y NMF + + FAL
Sbjct: 197 TLVDFIRAEYRKRGFTEVITPNIYNKKLWETSGHWQNYSENMFKFEVEKEE------FAL 250
Query: 337 KPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCT 396
KPMNCPGH +F H +SYRELP+R A+FG ++RNE SG+L GL RVR F QDDAH+FCT
Sbjct: 251 KPMNCPGHCLMFAHRDRSYRELPLRFADFGVLHRNEASGALSGLTRVRRFQQDDAHIFCT 310
Query: 397 KEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDTIK 456
+Q+ E + + +Y FGF + LSTRPEK +G WD+AE ++ L+ +
Sbjct: 311 PDQVKEEIKGCLDFLDYVYGVFGF-TFKLNLSTRPEKFLGDLETWDEAEFKLEEALN--E 367
Query: 457 NSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQVDFNLPSRFNAFYVNSHSE 516
+ +N G +GAFYGPK + L DA+GR QC TIQ+DF LP RF+ Y +
Sbjct: 368 SGEPWVLNPG----DGAFYGPKIDITLDDALGRKHQCATIQLDFQLPIRFDLEYETEDGD 423
Query: 517 KCHPVMIHRAVFGSIERFIGIMIENFKGNLPLWLSPIQAIVTTITSSAVEYAQEIANLLK 576
PVMIHRA+ GS+ER I I++E++ G P WLSP QA+V ++ ++YA + L+
Sbjct: 424 LERPVMIHRAILGSVERMIAILLESYGGKWPFWLSPRQAVVIPVSEGPLDYATSVQKQLE 483
Query: 577 SHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSIGIR 622
++ D + T+ KIR + I + GDKE + +R
Sbjct: 484 EAGFYVDLDPTDSTLRKKIRNAQLAHYNFIFVVGDKEVETGRVNVR 529
Score = 75.4 bits (185), Expect = 5e-14
Identities = 52/201 (25%), Positives = 86/201 (42%), Gaps = 18/201 (8%)
Query: 5 IKLTFPDGSIKNFPV-HATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVREGSIEIIT 63
I + PDG + T D+A S+ LA AV +NG + DL P+ +E++
Sbjct: 1 IIIVLPDGKVVEGVSWETTPYDIACQ-SKGLADDAVIAKVNGVLWDLDRPLEGDCLELLK 59
Query: 64 PEDPRSLAVIRHSCAHIMAEAVQSIWPEVQVAIGPIIEDGFYYDFDKEQPFSSDELAQIE 123
+D V HS AH++ EA++ + + IGP IE+GFYYD E SS++ IE
Sbjct: 60 FDDDEGKDVFWHSSAHVLGEALEQEYG-AHLCIGPPIEEGFYYDMLDE--ISSNDFPSIE 116
Query: 124 ----------KKMQEIIARDSPFLKQYLSHEKARELFESKKEAYKVEILESIPAKENVTL 173
K + + + + K + +E +E K I ++ +
Sbjct: 117 APHIRHTGKIKAFKILKNSSAYWEGDSFPDPKQLKEWEKFQEEAKKRDHRKIGKEQELFF 176
Query: 174 YRQ---GEWFDLCRGPHVRST 191
+ + G F L G + +T
Sbjct: 177 FHELSPGSCFFLPHGTRIYNT 197
>gnl|CDD|144252 pfam00587, tRNA-synt_2b, tRNA synthetase class II core domain (G,
H, P, S and T). Other tRNA synthetase sub-families are
too dissimilar to be included. This domain is the core
catalytic domain of tRNA synthetases and includes
glycyl, histidyl, prolyl, seryl and threonyl tRNA
synthetases.
Length = 170
Score = 152 bits (386), Expect = 3e-37
Identities = 53/170 (31%), Positives = 83/170 (48%), Gaps = 8/170 (4%)
Query: 275 IFQTLISYMRRK-IKDDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRT 333
+ L +++R + Y+E++TP + + LW+ SGHWD Y M+ + D +
Sbjct: 1 LRNALENFIRDLFKRYGYQEVDTPILEPKELWEGSGHWDDYFDEMY--RFKD---RGGEE 55
Query: 334 FALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHV 393
L+P G +F + + SYR+LP++L + G +R E GL RVR FTQ DA +
Sbjct: 56 LYLRPTAEVGITRLFKNEILSYRDLPLKLYQIGPCFRYEA-RPRRGLGRVREFTQVDAEI 114
Query: 394 FCTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRVGSDALWDD 443
F T EQ E ++ L I +D G V L+TR + + D
Sbjct: 115 FGTPEQSEEEDEELLKLAEEILQDLGL-PYRVVLNTRGDLGGYASKTGDL 163
>gnl|CDD|29810 cd00670, Gly_His_Pro_Ser_Thr_tRS_core, Gly_His_Pro_Ser_Thr_tRNA
synthetase class II core domain. This domain is the core
catalytic domain of tRNA synthetases of the subgroup
containing glycyl, histidyl, prolyl, seryl and threonyl
tRNA synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. These enzymes belong to class II
aminoacyl-tRNA synthetases (aaRS) based upon their
structure and the presence of three characteristic
sequence motifs in the core domain. This domain is also
found at the C-terminus of eukaryotic GCN2 protein
kinase and at the N-terminus of the ATP
phosphoribosyltransferase accessory subunit, HisZ and
the accessory subunit of mitochondrial polymerase gamma
(Pol gamma b) . Most class II tRNA synthetases are
dimers, with this subgroup consisting of mostly
homodimers. These enzymes attach a specific amino acid
to the 3' OH group of ribose of the appropriate tRNA..
Length = 235
Score = 136 bits (344), Expect = 2e-32
Identities = 56/273 (20%), Positives = 101/273 (36%), Gaps = 43/273 (15%)
Query: 272 GWKIFQTLISYMRRKIKDD-YEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKD 330
G +++ L ++ ++ + Y+EI P + L+ + GH D YR M+ + ++D
Sbjct: 1 GTALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRD 60
Query: 331 LRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDD 390
L+P C +F+ + SYR LP+RL + G +R+EPSG GLMRVR F Q +
Sbjct: 61 -TDLVLRPAACEPIYQIFSGEILSYRALPLRLDQIGPCFRHEPSGR-RGLMRVREFRQVE 118
Query: 391 AHVFCTKEQMFNECLKIHNLIISIYKDFG---FEKIMVKLSTRPEKRVGSDALWDDAENI 447
VF E+ + + + ++ + V ++ P G
Sbjct: 119 YVVFGEPEEA----EEERREWLELAEEIARELGLPVRVVVADDPFFGRGGK--------- 165
Query: 448 MKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAI-GRDWQCGTIQVDFNLPSRF 506
G A E+ L + GR + + +L
Sbjct: 166 ---------------------RGLDAGRETVVEFELLLPLPGRAKETAVGSANVHLDHFG 204
Query: 507 NAFYVNSHSEKCHPVMIHRAVFGSIERFIGIMI 539
+F ++ G ER + ++
Sbjct: 205 ASFKIDEDGGGRAHTGCGG--AGGEERLVLALL 235
>gnl|CDD|29800 cd00860, ThrRS_anticodon, ThrRS Threonyl-anticodon binding domain.
ThrRS belongs to class II aminoacyl-tRNA synthetases
(aaRS). This alignment contains the anticodon binding
domain, which is responsible for specificity in
tRNA-binding, so that the activated amino acid is
transferred to a ribose 3' OH group of the appropriate
tRNA only..
Length = 91
Score = 94.4 bits (235), Expect = 9e-20
Identities = 30/87 (34%), Positives = 49/87 (56%)
Query: 552 PIQAIVTTITSSAVEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGD 611
P+Q +V +T ++YA+E+A L + +E D RNE + KIRE ++KIP I++ GD
Sbjct: 1 PVQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVDLRNEKLGKKIREAQLQKIPYILVVGD 60
Query: 612 KEASERSIGIRRFGSTTTQKVSLLDAI 638
KE ++ +R +SL + I
Sbjct: 61 KEVETGTVSVRTRDGGDLGSMSLDEFI 87
>gnl|CDD|30791 COG0442, ProS, Prolyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 500
Score = 85.7 bits (212), Expect = 3e-17
Identities = 77/383 (20%), Positives = 144/383 (37%), Gaps = 67/383 (17%)
Query: 258 IAEDGSGVIFWHRKGWKIFQTLISYMRRKI-KDDYEEINTPQVLDQHLWQQSGHWDSYRA 316
I + G+ W G ++ + + + +R ++ K +E+ P ++ LW++SG W+ +
Sbjct: 32 IRKPVKGLYVWLPLGLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGP 91
Query: 317 NMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGS 376
+F VK D R AL+P + +F ++SY++LP++L + S +R+E
Sbjct: 92 ELFRVKDRGD-----RPLALRPTSEEVITDMFRKWIRSYKDLPLKLYQIQSKFRDEKRPR 146
Query: 377 LHGLMRVRGFTQDDAHVF-CTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRV 435
GL+R R F DA+ F +E K+ + I+ V
Sbjct: 147 -FGLLRGREFLMKDAYSFHADEEDAEETYEKMLDAYSRIFLRLPLIFGPV---------- 195
Query: 436 GSDALWDDAENIMKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGT 495
D I G Y +FE ++ D G + Q T
Sbjct: 196 -----PADEGFI------------------------GGSYSHEFEALMPD--GGEDQIAT 224
Query: 496 IQVDFNLPSRFNAFYVNSHSEKCHP---VMIHRAVFGSIERFIGIMI----ENFKGNLPL 548
+ + F +++ E +H +G R IG I +N LP
Sbjct: 225 SH---HYGANFEKAFIDIKFEDEEEGELEYVHTTSYGISTRIIGAAILIHGDNEGLVLPP 281
Query: 549 WLSPIQAIVTTITSSA-------VEYAQEIANLLKSHHLSIETDFR-NETINYKIREHSI 600
++ IQ ++ I V Y +++A L+ + +E D R + +K+
Sbjct: 282 IVADIQVVIVPIFIKGANEHYKVVNYGRDVAEPLEKLGIRVEGDDRSPDGPGFKLNIWEG 341
Query: 601 KKIPIIIICGDKEASERSIGIRR 623
++ I G K + + +
Sbjct: 342 IEVGHIFELGTKYSEAMNATVLD 364
>gnl|CDD|133437 cd01667, TGS_ThrRS_N, TGS _ThrRS_N: ThrRS (threonyl-tRNA
Synthetase) is a class II tRNA synthetase that couples
threonine to its cognate tRNA. In addition to its
catalytic and anticodon-binding domains, ThrRS has an
N-terminal TGS domain, named after the ThrRS, GTPase,
and SpoT proteins where it occurs. The TGS domain is
thought to interact with the tRNA acceptor arm along
with an adjacent N-terminal domain. The specific
function of TGS is not well understood.
Length = 61
Score = 80.6 bits (200), Expect = 1e-15
Identities = 34/60 (56%), Positives = 43/60 (71%), Gaps = 1/60 (1%)
Query: 5 IKLTFPDGSIKNFPVHATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVRE-GSIEIIT 63
IK+T PDGS+K FP T D+A+SIS LAKKAVA +NG++ DLS P+ E +EIIT
Sbjct: 1 IKITLPDGSVKEFPKGTTPLDIAKSISPGLAKKAVAAKVNGELVDLSRPLEEDCELEIIT 60
>gnl|CDD|29813 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 = 77.0 bits (189), Expect = 1e-14
Identities = 58/267 (21%), Positives = 94/267 (35%), Gaps = 63/267 (23%)
Query: 275 IFQTLISYMRRKIKD-DYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRT 333
I + +RR + + ++E+ TP V + L +++GH + A D
Sbjct: 1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEED-------- 52
Query: 334 FALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHV 393
L+P PG V +F + R+LP+RLAE G +RNE GL RVR FTQ + V
Sbjct: 53 LYLRPTLEPGLVRLFVSHI---RKLPLRLAEIGPAFRNEGGRR--GLRRVREFTQLEGEV 107
Query: 394 FCTKEQMFNECLKIHNLIISIYKD-----FGFEKIMVKLSTRPEKRVGSDALWDDAENIM 448
F E +I + ++ I+ T E G
Sbjct: 108 FGEDG----EEASEFEELIELTEELLRALGIKLDIVFVEKTPGEFSPG------------ 151
Query: 449 KGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQVDFNLPSR-FN 507
GP FE + GR + G+ + +R +
Sbjct: 152 -------------------------GAGPGFEIEVDHPEGRGLEIGSGGYRQDEQARAAD 186
Query: 508 AFYVNSHSEKCHPVMIHRAVFGSIERF 534
++++ E +P I +ER
Sbjct: 187 LYFLDEALEYRYPPTIGFG--LGLERL 211
>gnl|CDD|73229 cd00779, ProRS_core_prok, Prolyl-tRNA synthetase (ProRS) class II
core catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain. This
subfamily contains the core domain of ProRS from
prokaryotes and from the mitochondria of eukaryotes..
Length = 255
Score = 69.0 bits (169), Expect = 4e-12
Identities = 48/189 (25%), Positives = 88/189 (46%), Gaps = 11/189 (5%)
Query: 240 ESEKRDHRKLAREMDLFHIAEDGSGVIFWHRKGWKIFQTLISYMRRKI-KDDYEEINTPQ 298
++E H+ L R I + SG+ W G ++ + + + +R ++ K +EI P
Sbjct: 1 DAEIISHKLLLR---AGFIRQTSSGLYSWLPLGLRVLKKIENIIREEMNKIGAQEILMPI 57
Query: 299 VLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYREL 358
+ LW++SG WD+Y + +K + F L P + + + +KSY++L
Sbjct: 58 LQPAELWKESGRWDAYGPELLRLKDRHG-----KEFLLGPTHEEVITDLVANEIKSYKQL 112
Query: 359 PVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCT-KEQMFNECLKIHNLIISIYKD 417
P+ L + + +R+E GLMR R F DA+ F +E + K++ I+K
Sbjct: 113 PLNLYQIQTKFRDEIR-PRFGLMRGREFLMKDAYSFDIDEESLEETYEKMYQAYSRIFKR 171
Query: 418 FGFEKIMVK 426
G + V+
Sbjct: 172 LGLPFVKVE 180
>gnl|CDD|145985 pfam03129, HGTP_anticodon, Anticodon binding domain. This domain
is found in histidyl, glycyl, threonyl and prolyl tRNA
synthetases it is probably the anticodon binding domain.
Length = 93
Score = 68.0 bits (167), Expect = 8e-12
Identities = 23/89 (25%), Positives = 44/89 (49%)
Query: 556 IVTTITSSAVEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEAS 615
I +YAQ++A L+ + +E D RNE++ K R+ + IP ++ G+KE
Sbjct: 5 IPLGEKDELEDYAQKLAEELREAGIRVELDDRNESLGKKFRDADLIGIPFRLVVGEKELE 64
Query: 616 ERSIGIRRFGSTTTQKVSLLDAIPILTKE 644
++ +R + + VSL + + L +
Sbjct: 65 NGTVTVRDRDTGEKETVSLEELVEKLKEL 93
>gnl|CDD|37535 KOG2324, KOG2324, KOG2324, Prolyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 457
Score = 59.2 bits (143), Expect = 4e-09
Identities = 70/359 (19%), Positives = 133/359 (37%), Gaps = 60/359 (16%)
Query: 293 EINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVF-NHG 351
+I+ P + + LW+++G WD+ + +F + + L P + A+ +
Sbjct: 73 KISLPILSSKELWEKTGRWDAMGSELFRLHDRKG-----KQMCLTPTHEEDITALMATYI 127
Query: 352 LKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTKE----QMFNECLKI 407
SY++LP+R+ + G +R+E GL+R R F D + F + E Q + +
Sbjct: 128 PLSYKQLPIRVYQIGRKFRDELRPRF-GLLRGREFLMKDMYSFDSDEETAQQTYQLVDQA 186
Query: 408 HNLIISIYKDFGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLD----TIKNSSQDRI 463
++ I+K G + V + + G + I +D +
Sbjct: 187 YD---RIFKQLGLPFVKVWADS----------------GDIGGEVSHEFHLIHPVGEDTL 227
Query: 464 NT----GVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQVD--FNL----PSRFNAFYVNS 513
+ G K K GR + +I+V F L NA +VN
Sbjct: 228 MSCPSCGYSKNSEDLDLSKIASCPKCNEGRLTKTKSIEVGHTFLLGTKYSKPLNAKFVNV 287
Query: 514 HSEKCHPVMIHRAVFG-SIERFIGIMIENFKGN----LPLWLSPIQAIVTTITSS----- 563
+ P +H +G + R + E + P ++P + +
Sbjct: 288 EGK---PEFLHMGCYGIGVTRLLAAAAEVLSDDKGLRWPSLIAPYKVCLIGPKKGSKSQR 344
Query: 564 AVEYAQEI--ANLLKSHHLSIETDFRNE-TINYKIREHSIKKIPIIIICGDKEASERSI 619
A E E+ + + H I D R E TI +I++ + IP +I+ G+ + +
Sbjct: 345 AQEVISELLNDEAVGNLHGEILLDDREELTIGKRIKDANRLGIPFVIVVGNSASWDNPE 403
>gnl|CDD|145794 pfam02824, TGS, TGS domain. The TGS domain is named after ThrRS,
GTPase, and SpoT. Interestingly, TGS domain was
detected also at the amino terminus of the uridine
kinase from the spirochaete Treponema pallidum (but not
any other organism, including the related spirochaete
Borrelia burgdorferi). TGS is a small domain that
consists of ~50 amino acid residues and is predicted to
possess a predominantly beta-sheet structure. There is
no direct information on the functions of the TGS
domain, but its presence in two types of regulatory
proteins (the GTPases and guanosine polyphosphate
phosphohydrolases/synthetases) suggests a ligand (most
likely nucleotide)-binding, regulatory role.
Length = 60
Score = 56.0 bits (136), Expect = 3e-08
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 5 IKLTFPDGSIKNFPVHATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVREG-SIEIIT 63
I++ PDG + P +T D A +I L KK + +NG+ L + +G +EI+T
Sbjct: 1 IRVYTPDGKVPELPRGSTPEDFAYAIHTDLGKKFIGAKVNGQRVGLDHVLEDGDVVEIVT 60
>gnl|CDD|29823 cd00778, ProRS_core_arch_euk, Prolyl-tRNA synthetase (ProRS) class
II core catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain. This
subfamily contains the core domain of ProRS from
archaea, the cytoplasm of eukaryotes and some bacteria..
Length = 261
Score = 55.2 bits (133), Expect = 6e-08
Identities = 56/281 (19%), Positives = 112/281 (39%), Gaps = 47/281 (16%)
Query: 263 SGVIFWHRKGWKIFQTLISYMRRKIKD-DYEEINTPQVLDQHLWQ-QSGHWDSYRANMFA 320
G + + G+ I++ + + ++IK+ +E + P ++ + + + H + + +
Sbjct: 22 KGCMVFRPYGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAW 81
Query: 321 VKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGL 380
V + AL+P + +F+ ++SYR+LP+++ ++ +V+R E +
Sbjct: 82 VTHGGLEELEEP-LALRPTSETAIYPMFSKWIRSYRDLPLKINQWVNVFRWETKTT-RPF 139
Query: 381 MRVRGFTQDDAH-VFCTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRVGSDA 439
+R R F + H T+E+ E L+I +L Y+D I V + E
Sbjct: 140 LRTREFLWQEGHTAHATEEEAEEEVLQILDLYKEFYED--LLAIPVVKGRKTEW------ 191
Query: 440 LWDDAENIMKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTI-QV 498
++ GA Y E ++ D GR Q GT +
Sbjct: 192 ---------------------EKF-------AGADYTYTIEAMMPD--GRALQSGTSHNL 221
Query: 499 DFNLPSRFNAFYVNSHSEKCHPVMIHRAVFGSIERFIGIMI 539
N F+ Y + +K + H+ +G R IG +I
Sbjct: 222 GQNFSKAFDIKYQDKDGQKEYV---HQTSWGISTRLIGAII 259
>gnl|CDD|58340 cd00772, ProRS_core, Prolyl-tRNA synthetase (ProRS) class II core
catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain..
Length = 264
Score = 54.7 bits (131), Expect = 9e-08
Identities = 34/178 (19%), Positives = 65/178 (36%), Gaps = 3/178 (1%)
Query: 262 GSGVIFWHRKGWKIFQTLISYMRRKIKDD-YEEINTPQVLDQHLWQQSGHWDSYRANMFA 320
G G+I + I + + + + K+ + P + ++ D + A
Sbjct: 21 GRGIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELA 80
Query: 321 VKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGL 380
V + FAL+P + +KS+++LP L + G+ +R+E G
Sbjct: 81 VFKDAGDEELEEDFALRPTLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIR-PRFGF 139
Query: 381 MRVRGFTQDDAHVF-CTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEKRVGS 437
+R R F D H E+ E L + + I +D + + K G+
Sbjct: 140 LRAREFIMKDGHSAHADAEEADEEFLNMLSAYAEIARDLAAIDFIEGEADEGAKFAGA 197
>gnl|CDD|29797 cd00738, HGTP_anticodon, HGTP anticodon binding domain, as found at
the C-terminus of histidyl, glycyl, threonyl and prolyl
tRNA synthetases, which are classified as a group of
class II aminoacyl-tRNA synthetases (aaRS). In aaRSs,
the anticodon binding domain is responsible for
specificity in tRNA-binding, so that the activated amino
acid is transferred to a ribose 3' OH group of the
appropriate tRNA only. This domain is also found in the
accessory subunit of mitochondrial polymerase gamma (Pol
gamma b)..
Length = 94
Score = 52.6 bits (126), Expect = 3e-07
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 6/92 (6%)
Query: 552 PIQAIVTTIT---SSAVEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIII 608
PI + +T A EYAQ++ N L ++ + + D R I K RE ++ +P ++
Sbjct: 1 PIDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDRERKIGKKFREADLRGVPFAVV 60
Query: 609 CGDKEASERSIGIRRFGSTTTQKVSL-LDAIP 639
G+ E + ++ T + +L +D +P
Sbjct: 61 VGEDELENGKVTVKS--RDTGESETLHVDELP 90
>gnl|CDD|30473 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 52.5 bits (126), Expect = 3e-07
Identities = 76/440 (17%), Positives = 144/440 (32%), Gaps = 100/440 (22%)
Query: 274 KIFQTLISYMRRKIKD-DYEEINTPQVLDQHLWQQSG--HWDSYRANMFAVKCADDTIKD 330
+ + + S +R+ + + EI TP L+ + D M+ K D K
Sbjct: 19 ALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFK---D--KG 73
Query: 331 LRTFALKPMNCPGHV-AVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQD 389
R+ AL+P AV + L P++L FG V+R E R R F Q
Sbjct: 74 GRSLALRPELTAPVARAVAENKL--DLPKPLKLYYFGPVFRYERPQKG----RYRQFYQF 127
Query: 390 DAHVFCTKEQMFN-ECLKIHNLIISIYKDFGFEKIMVKLSTR--PEKRVGS------DAL 440
V + + E + L + I + G +++++R E R+ +AL
Sbjct: 128 GVEVIGSDSPDADAEVIA---LAVEILEALGIGGFTLEINSRGILEGRLEYLGIDQREAL 184
Query: 441 WDDAENIMKGVLDTIKNSSQDRINTGVL-----------------------LGEGAF--- 474
+ + K + S+ R+ T L L E +
Sbjct: 185 LRYLDKLDKIGKLELDEDSKRRLKTNPLRVLDSKKDSDQELLKNAPELLDYLDEESLEHL 244
Query: 475 ---------YGPKFEYILKDAIGRDWQCGTIQVDFNLPSRFNAFYVNSHSEKCHPVMIHR 525
G +E G D+ GT+ F A ++
Sbjct: 245 EELLALLDALGISYEIDPSLVRGLDYYTGTV---------FEAVTDGLGAQG-------- 287
Query: 526 AVFGS------IERFIG---------------IMIENFKGNLPLWLSPIQAIVTTITSSA 564
+V G +E F G I+ +G + + V + A
Sbjct: 288 SVCGGGRYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGKEDPVETRVDVYVVPLGEDA 347
Query: 565 VEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSIGIRRF 624
A ++A L++ +S+E D+ + + + +I G+ E + + ++
Sbjct: 348 EPEALKLAQKLRAAGISVEVDYSGRKLKKQFKYADKLGARFAVILGEDELANGVVTVKDL 407
Query: 625 GSTTTQKVSLLDAIPILTKE 644
+ ++V L + + L +
Sbjct: 408 ATGEQEEVPLDELVEELKEL 427
>gnl|CDD|29815 cd00770, SerRS_core, Seryl-tRNA synthetase (SerRS) class II core
catalytic domain. SerRS is responsible for the
attachment of serine to the 3' OH group of ribose of the
appropriate tRNA. This domain 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 in the core domain. SerRS
synthetase is a homodimer..
Length = 297
Score = 47.8 bits (114), Expect = 1e-05
Identities = 39/189 (20%), Positives = 80/189 (42%), Gaps = 18/189 (9%)
Query: 240 ESEKRDHRKLAREMDL--FHIAEDGSGVIFWHRKGWKIF--QTLISYMRRK-IKDDYEEI 294
+ + +DH +L ++D+ F SG F++ KG + LI++ K + +
Sbjct: 15 DFKPKDHVELGEKLDILDFERGAKVSGSRFYYLKGDGALLERALINFALDFLTKRGFTPV 74
Query: 295 NTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKS 354
P ++ + + + +G + ++ V + L A P+ A+ +
Sbjct: 75 IPPFLVRKEVMEGTGQLPKFDEQLYKV---EGEDLYLIATAEVPLA-----ALHRDEILE 126
Query: 355 YRELPVRLAEFGSVYRNEPSGS----LHGLMRVRGFTQDDAHVFCTKEQMFNECLKIHNL 410
ELP++ A + +R E +GS GL RV F + + VF E+ + E ++ +
Sbjct: 127 EEELPLKYAGYSPCFRKE-AGSAGRDTRGLFRVHQFEKVEQFVFTKPEESWEELEELISN 185
Query: 411 IISIYKDFG 419
I ++ G
Sbjct: 186 AEEILQELG 194
>gnl|CDD|32699 COG2872, COG2872, Predicted metal-dependent hydrolases related to
alanyl-tRNA synthetase HxxxH domain [General function
prediction only].
Length = 241
Score = 47.3 bits (112), Expect = 1e-05
Identities = 29/140 (20%), Positives = 56/140 (40%), Gaps = 12/140 (8%)
Query: 74 RHSCAHIMAEAVQSIWPEVQVAIGPIIEDGFYYDFDKEQPFSSDELAQIEKKMQEIIARD 133
H+ H+++ + ++ I ED DFD + DE+ ++E E++ +
Sbjct: 98 MHTALHLLSAVLYKVYG-ALTTGFEIGEDYARIDFD--GEDTEDEIEEVEALANELVKEN 154
Query: 134 SPFLKQYLSHEKARELFESKKEAYKVEILESIPAKENVTLYRQGEWFDL--CRGPHVRST 191
P + ++ E+A +L K + P E + D+ C G HV++T
Sbjct: 155 LPVIIYFIPREEAEKLPGLVKLK-----NKVPPDVEGKIRIVEIGDIDVQPCGGTHVKNT 209
Query: 192 GQVKKFF--KLMKVAGAYWR 209
G++ + K K R
Sbjct: 210 GEIGEIKILKTEKKGKGNRR 229
>gnl|CDD|30363 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 46.8 bits (111), Expect = 2e-05
Identities = 34/148 (22%), Positives = 67/148 (45%), Gaps = 21/148 (14%)
Query: 65 EDPRSLAVIRHSCAHIMAEAVQSIW-PEVQVAIGPIIEDGFYYDFDKEQPFSSDELAQIE 123
E+ R + H+ H++ A++ + V A + + +DF + +++EL +IE
Sbjct: 557 EERRRRLMRNHTATHLLHAALRKVLGDHVWQAGSLVDPEKLRFDFSHYKALTAEELKEIE 616
Query: 124 KKMQEIIARDSPFLKQYLSHEKARE-----LFESKKEAYKVEILESIPAKENVTLYRQGE 178
+ + EII + P + + ++A+ LF E Y + V + G+
Sbjct: 617 RLVNEIIRENLPVKTEEMDLDEAKAKGAMALFG---EKY----------GDEVRVVEIGD 663
Query: 179 W-FDLCRGPHVRSTGQVKKFFKLMKVAG 205
+ +LC G HV +TG + FK++ G
Sbjct: 664 FSVELCGGTHVSNTGDI-GLFKIISEEG 690
>gnl|CDD|35409 KOG0188, KOG0188, KOG0188, Alanyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 895
Score = 46.1 bits (109), Expect = 3e-05
Identities = 29/159 (18%), Positives = 66/159 (41%), Gaps = 18/159 (11%)
Query: 47 VCDLSDPVREG-SIEIITPEDPRSLAVIRHSCAHIMAEAVQSIWPEVQVAIGPIIEDGFY 105
+ L + G +E+ E+ R L + H+ H++ A++ + + D
Sbjct: 542 IGVLEGDLSVGDQVELHVDEERRQLIMRNHTATHLLNFALRQVLKGTDQKGSLVAPDKLR 601
Query: 106 YDFDKEQPFSSDELAQIEKKMQEIIARDSPFLKQYLSHEKARELFESKKEAYKVEILESI 165
+DF + + ++L ++E K+ E I +++P + L +A+ K+ L ++
Sbjct: 602 FDFSTKGALTKEQLKKVEDKINEFIQKNAPVYAKELPLAEAK----------KIPGLRAV 651
Query: 166 PAK---ENVTLYRQGEW----FDLCRGPHVRSTGQVKKF 197
+ + V + G + C G H+ +T + F
Sbjct: 652 FDEVYPDPVRVVSVGAGQLTSVEFCGGTHLTNTSHIGDF 690
>gnl|CDD|30521 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 46.0 bits (109), Expect = 3e-05
Identities = 38/198 (19%), Positives = 77/198 (38%), Gaps = 16/198 (8%)
Query: 240 ESEKRDHRKLAREMDL--FHIAEDGSGVIFWHRKGW--KIFQTLISYM-RRKIKDDYEEI 294
+ E +DH +L ++ L F A SG F+ KG ++ + LI +M K + E+
Sbjct: 137 DFEPKDHVELGEKLGLLDFERAAKVSGSRFYFYKGKGARLERALIQFMLDLHTKHGFTEV 196
Query: 295 NTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKS 354
P +++ +G + +++ V D L P + +
Sbjct: 197 LPPYLVNLESMFGTGQLPKFEEDLYKV-EDPD-------LYLIPTAEVPLTNLHRDEILD 248
Query: 355 YRELPVRLAEFGSVYRNEPSGS---LHGLMRVRGFTQDDAHVFCTKEQMFNECLKIHNLI 411
+LP++ + +R+E + GL+RV F + + V E+ E ++
Sbjct: 249 EEDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESEEELEEMLGNA 308
Query: 412 ISIYKDFGFEKIMVKLST 429
+ ++ +V L T
Sbjct: 309 EEVLQELELPYRVVNLCT 326
>gnl|CDD|133438 cd01668, TGS_RelA_SpoT, TGS_RelA_SpoT: The RelA (SpoT) protein,
also referred to as ppGpp hydrolase/synthetase, is a
ribosome-associated protein that is activated during
amino acid starvation and thought to mediate the
stringent response. RelA contains a TGS domain, named
after the Threonyl-tRNA Synthetase, GTPase, and SpoT
proteins where it occurs. The function of the TGS
domain is unknown.
Length = 60
Score = 42.9 bits (102), Expect = 3e-04
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 10 PDGSIKNFPVHATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVREG-SIEIIT 63
P G I P AT D A +I + + V +NGK+ LS +++G +EIIT
Sbjct: 6 PKGEIIELPAGATVLDFAYAIHTEIGNRCVGAKVNGKLVPLSTVLKDGDIVEIIT 60
>gnl|CDD|73226 cd00773, HisRS-like_core, Class II Histidinyl-tRNA synthetase
(HisRS)-like catalytic core domain. HisRS is a
homodimer. It is responsible for the attachment of
histidine to the 3' OH group of ribose of the
appropriate tRNA. This domain is primarily responsible
for ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. This domain is also found at the
C-terminus of eukaryotic GCN2 protein kinase and at the
N-terminus of the ATP phosphoribosyltransferase
accessory subunit, HisZ. HisZ along with HisG catalyze
the first reaction in histidine biosynthesis. HisZ is
found only in a subset of bacteria and differs from
HisRS in lacking a C-terminal anti-codon binding
domain..
Length = 261
Score = 42.1 bits (99), Expect = 4e-04
Identities = 35/166 (21%), Positives = 55/166 (33%), Gaps = 34/166 (20%)
Query: 274 KIFQTLISYMRRKIKDDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDL-- 331
I TL R YEEI+TP +F K D+ K++
Sbjct: 7 YIEDTLREVFERY---GYEEIDTPVF--------------EYTELFLRKSGDEVSKEMYR 49
Query: 332 ------RTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRG 385
R AL+P LP++L G V+R E R R
Sbjct: 50 FKDKGGRDLALRPDLTAPVARAVAEN-LLSLPLPLKLYYIGPVFRYERPQKG----RYRE 104
Query: 386 FTQDDAHVFCTKEQMFN-ECLKIHNLIISIYKDFGFEKIMVKLSTR 430
F Q + + + + E + L + I + G + +K++ R
Sbjct: 105 FYQVGVEIIGSDSPLADAEVIA---LAVEILEALGLKDFQIKINHR 147
>gnl|CDD|39365 KOG4163, KOG4163, KOG4163, Prolyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 551
Score = 39.6 bits (92), Expect = 0.003
Identities = 60/291 (20%), Positives = 109/291 (37%), Gaps = 60/291 (20%)
Query: 352 LKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAH-VFCTKEQMFNECLKIHNL 410
++S+R+LP++L ++ +V R E +R R F + H F T E+ E L+I +L
Sbjct: 178 IQSHRDLPLKLNQWCNVVRWEFKHPQ-PFLRTREFLWQEGHTAFATPEEAEEEVLQILDL 236
Query: 411 IISIYKDFGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDTIKNSSQDRINTGVLLG 470
+Y++ ++ + EK G D T++
Sbjct: 237 YARVYEELLAIPVVKGRKSEKEKFAGGD------------YTTTVE-------------- 270
Query: 471 EGAFYGPKFEYILKDAIGRDWQCGTIQVDFNLPSRFN-AFYVNSHSEKCHP-VMIHRAVF 528
AF GR Q T +L F+ F + + + +
Sbjct: 271 --AFIP---------CSGRGIQGAT---SHHLGQNFSKMFEIVFEDPGEGEKEFVWQNSW 316
Query: 529 GSIERFIGIMIENFKGN----LPLWLSPIQAIVTTI----------TSSAVEYAQEIANL 574
G R IG+MI + LP ++P+Q +V + ++ + +
Sbjct: 317 GLSTRTIGVMIMTHGDDKGLVLPPRVAPVQVVVVPVGITDATSEEDKQELLDACSAVESR 376
Query: 575 LKSHHLSIETDFR-NETINYKIREHSIKKIPIIIICGDKE-ASERSIGIRR 623
L + E D R N T +K +K +P+ I G ++ AS + + +RR
Sbjct: 377 LLGAGIRAEADLRDNYTPGWKFNHWELKGVPLRIEIGPRDLASNQVVAVRR 427
>gnl|CDD|133435 cd01616, TGS, The TGS domain, named after the ThrRS, GTPase, and
SpoT/RelA proteins where it occurs, is structurally
similar to ubiquitin. TGS is a small domain of about 50
amino acid residues with a predominantly beta-sheet
structure. There is no direct information on the
function of the TGS domain, but its presence in two
types of regulatory proteins (the GTPases and guanosine
polyphosphate phosphohydrolases/synthetases) suggests a
ligand (most likely nucleotide)-binding, regulatory
role.
Length = 60
Score = 38.5 bits (90), Expect = 0.006
Identities = 19/53 (35%), Positives = 26/53 (49%)
Query: 10 PDGSIKNFPVHATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVREGSIEII 62
PDGS P AT D A I L K + +NG++ DLS +++G I
Sbjct: 6 PDGSAVELPKGATAMDFALKIHTDLGKGFIGALVNGQLVDLSYTLQDGDTVSI 58
>gnl|CDD|29801 cd00861, ProRS_anticodon_short, ProRS Prolyl-anticodon binding
domain, short version found predominantly in bacteria.
ProRS belongs to class II aminoacyl-tRNA synthetases
(aaRS). This alignment contains the anticodon binding
domain, which is responsible for specificity in
tRNA-binding, so that the activated amino acid is
transferred to a ribose 3' OH group of the appropriate
tRNA only..
Length = 94
Score = 37.5 bits (87), Expect = 0.013
Identities = 18/79 (22%), Positives = 38/79 (48%)
Query: 564 AVEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSIGIRR 623
E A+++ L++ + + D RNE K + + IP I+ G K A+E + I+
Sbjct: 16 QQELAEKLYAELQAAGVDVLLDDRNERPGVKFADADLIGIPYRIVVGKKSAAEGIVEIKV 75
Query: 624 FGSTTTQKVSLLDAIPILT 642
+ +++S+ + + L
Sbjct: 76 RKTGEKEEISIDELLEFLQ 94
>gnl|CDD|73227 cd00774, GlyRS-like_core, Glycyl-tRNA synthetase (GlyRS)-like class
II core catalytic domain. GlyRS functions as a homodimer
in eukaryotes, archaea and some bacteria and as a
heterotetramer in the remainder of prokaryotes. It is
responsible for the attachment of glycine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP binding and hydrolysis.
This alignment contains only sequences from the GlyRS
form which homodimerizes. The heterotetramer glyQ is in
a different family of class II aaRS. Class II assignment
is based upon its structure and the presence of three
characteristic sequence motifs. This domain is also
found at the N-terminus of the accessory subunit of
mitochondrial polymerase gamma (Pol gamma b). Pol gamma
b stimulates processive DNA synthesis and is functional
as a homodimer, which can associate with the catalytic
subunit Pol gamma alpha to form a heterotrimer. Despite
significant both structural and sequence similarity with
GlyRS, Pol gamma b lacks conservation of several class
II functional residues..
Length = 254
Score = 37.1 bits (86), Expect = 0.014
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 7/79 (8%)
Query: 356 RELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFC---TKEQMFNECLKIHNLII 412
R+LP +A+ G +RNE S +GL RVR FTQ + F F+ + +
Sbjct: 104 RKLPFGVAQIGKSFRNEIS-PRNGLFRVREFTQAEIEFFVDPEKSHPWFDYWA---DQRL 159
Query: 413 SIYKDFGFEKIMVKLSTRP 431
F ++L+
Sbjct: 160 KWLPKFAQSPENLRLTDHE 178
>gnl|CDD|30772 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 37.2 bits (86), Expect = 0.015
Identities = 38/175 (21%), Positives = 59/175 (33%), Gaps = 63/175 (36%)
Query: 288 KDDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKC--------ADDTIKDL-------- 331
++D EI+TP +L + +W+ SGH D + + V+C AD I++
Sbjct: 58 REDVVEIDTPIILPEEVWKASGHVDKFSDPL--VECKKCGERYRADHLIEEYLGKDGHGN 115
Query: 332 -------RTFALKPMNCP------GHVAVFN----------HGLKSY------------- 355
+ CP V FN Y
Sbjct: 116 MSPEELTEIIREYDIRCPECGGELNEVREFNLMFKTTIGPVEDSLGYLRPETAQGIFVNF 175
Query: 356 --------RELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTKEQMFN 402
+LP +A+ G +RNE S +GL R R F Q + F E+ +
Sbjct: 176 KNLLEFARNKLPFGIAQIGKSFRNEISPR-NGLFRTREFEQAEIEFFVDPEEKEH 229
>gnl|CDD|37509 KOG2298, KOG2298, KOG2298, Glycyl-tRNA synthetase and related class
II tRNA synthetase [Translation, ribosomal structure and
biogenesis].
Length = 599
Score = 34.9 bits (80), Expect = 0.073
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 356 RELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFC 395
+LP A+ G +RNE S GL+RVR FT + F
Sbjct: 206 GKLPFASAQIGKSFRNEIS-PRSGLLRVREFTMAEIEHFV 244
>gnl|CDD|30665 COG0317, SpoT, Guanosine polyphosphate
pyrophosphohydrolases/synthetases [Signal transduction
mechanisms / Transcription].
Length = 701
Score = 34.1 bits (78), Expect = 0.13
Identities = 15/60 (25%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 10 PDGSIKNFPVHATGSDVAESISRSLAKKAVAVAINGKVCDLSDPVREG-SIEIITPEDPR 68
P G + + P AT D A ++ + + + +NG++ L+ ++ G +EIIT +
Sbjct: 394 PKGKVIDLPKGATPLDFAYAVHTDIGHRCIGAKVNGRIVPLTTKLQTGDQVEIITSKHAG 453
>gnl|CDD|164576 CHL00201, syh, histidine-tRNA synthetase; Provisional.
Length = 430
Score = 32.2 bits (73), Expect = 0.41
Identities = 27/117 (23%), Positives = 45/117 (38%), Gaps = 7/117 (5%)
Query: 531 IERFIGIMIENFKGNLPLWLSPIQAIVTTITSSAVEYAQEIANLLKSHHLSIETDFRNET 590
+ER + I K N+ L I + T A + EI L+ ++ E D +
Sbjct: 308 LERLLLIA----KDNIILPKQSIDVYIATQGLKAQKKGWEIIQFLEKQNIKFELDLSSSN 363
Query: 591 INYKIREHSIKKIPIIIICGDKEASERSIGIRRFGST---TTQKVSLLDAIPILTKE 644
+ +I++ K+ II GD E + I I+ Q + I L K+
Sbjct: 364 FHKQIKQAGKKRAKACIILGDNEIMDNCITIKWLDEQVQENAQYSNFKQEISYLKKK 420
>gnl|CDD|37720 KOG2509, KOG2509, KOG2509, Seryl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 455
Score = 31.4 bits (71), Expect = 0.78
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 356 RELPVRLAEFGSVYRNEPSGSLH---GLMRVRGFTQDDAHVFCTKEQ---MFNECLKIHN 409
+LP++ +R E GL RV F + + V E M E
Sbjct: 263 DQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEMLEE------ 316
Query: 410 LIISIYKDF 418
+I+ ++F
Sbjct: 317 -MINNQEEF 324
>gnl|CDD|145636 pfam02597, ThiS, ThiS family. ThiS (thiaminS) is a 66 aa protein
involved in sulphur transfer. ThiS is coded in the
thiCEFSGH operon in E. coli. This family of proteins
have two conserved Glycines at the COOH terminus.
Thiocarboxylate is formed at the last G in the
activation process. Sulphur is transferred from ThiI to
ThiS in a reaction catalysed by IscS. MoaD, a protein
involved sulphur transfer in molybdopterin synthesis,
is about the same length and shows limited sequence
similarity to ThiS. Both have the conserved GG at the
COOH end.
Length = 70
Score = 31.1 bits (71), Expect = 1.0
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 19 VHATGSDVAESISR-SLAKKAVAVAINGKVCDLSD---PVREGS-IEIITP 64
G+ VAE + L + VAVA+NG++ S P+++G + II P
Sbjct: 16 ELPEGATVAELLEALGLNPERVAVAVNGEIVPRSQADTPLKDGDEVAIIPP 66
>gnl|CDD|176353 cd00565, ThiS, ThiaminS ubiquitin-like sulfur carrier protein.
ThiS (ThiaminS) is a sulfur carrier protein involved in
thiamin biosynthesis in bacteria. The ThiS fold, like
those of two closely related proteins MoaD and Urm1, is
similar to that of ubiquitin although there is little
or no sequence similarity.
Length = 65
Score = 31.0 bits (71), Expect = 1.1
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 5/37 (13%)
Query: 33 SLAKKAVAVAINGKVCDLSD----PVREG-SIEIITP 64
L + VAVA+NG++ S+ P+++G IEI+T
Sbjct: 25 GLDPRGVAVALNGEIVPRSEWASTPLQDGDRIEIVTA 61
>gnl|CDD|30368 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 29.8 bits (67), Expect = 2.3
Identities = 10/99 (10%), Positives = 30/99 (30%), Gaps = 18/99 (18%)
Query: 234 YLYFLEESEKRDHRKLAREMDLFHIAEDGSGVIFWHRKGWKIFQTLISYMRRKIKDDYEE 293
Y+ ++ E+ + E G + ++++ + IK+ +
Sbjct: 199 YVKIAKDLEEDPGNDEEEAREEVEKLESG-------DEEAELWRKFVDLSLEGIKETLDR 251
Query: 294 INTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLR 332
+ D + + S+ + ++DL
Sbjct: 252 LGVK--FDVYDSEGE----SFYNGKV-----EKVVEDLE 279
>gnl|CDD|36737 KOG1524, KOG1524, KOG1524, WD40 repeat-containing protein CHE-2
[General function prediction only].
Length = 737
Score = 29.2 bits (65), Expect = 3.5
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 406 KIHNLIISIYKDFGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDT 454
K +L I+ K FG E+ + K+ T W+D NI+ G+ DT
Sbjct: 472 KNRDLFITSVKRFGKEEEIYKIGTMVHTLA-----WNDTTNILCGLQDT 515
>gnl|CDD|38910 KOG3706, KOG3706, KOG3706, Uncharacterized conserved protein
[Function unknown].
Length = 629
Score = 29.2 bits (65), Expect = 4.0
Identities = 26/144 (18%), Positives = 43/144 (29%), Gaps = 17/144 (11%)
Query: 324 ADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFG--SVYRNEPSGSLHGLM 381
D KD AL P + G R V +F +V R +
Sbjct: 492 VDQMAKDFIHHALPPYLTGDEAELSVPGGALERLNSVVRLQFTDHTVVRLLRDQIQRLVT 551
Query: 382 RVRG-----FTQDDAHVFCTKEQMFNECL----KIHNLIISIYKDFGFEKIMVKLSTRPE 432
G + ++ + E+ E L L+ Y +KL++ E
Sbjct: 552 ESEGMVFIYHSVKNSREYHMMEETEFEILPFPADALELLKQSYNPEAISVKDLKLTSDEE 611
Query: 433 KRVGSDALWDDAENIMKGVLDTIK 456
K + +LW +G+L
Sbjct: 612 KLSLATSLWT------EGLLLVKN 629
>gnl|CDD|38949 KOG3745, KOG3745, KOG3745, Exocyst subunit - Sec10p [Intracellular
trafficking, secretion, and vesicular transport].
Length = 763
Score = 28.7 bits (64), Expect = 5.3
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 108 FDKEQPFSSDELAQIEKKMQEIIARDSPFLKQYLSHEKA------RELFESKKEAYKVEI 161
F EQPF S+ L I + ++ +S F+K+ + + + +F K + E+
Sbjct: 258 FQPEQPFISNILQDIFNDILKLCESESKFIKRVFPNPETVLQKFIQNIFGQKIKDRVEEL 317
Query: 162 LESIPAKENVTLY 174
LE ++ Y
Sbjct: 318 LEECKEGKDFLAY 330
>gnl|CDD|80310 cd04860, AE_Prim_S, AE_Prim_S: primase domain similar to that found
in the small subunit of archaeal and eukaryotic (A/E)
DNA primases. Primases are DNA-dependent RNA polymerases
which synthesis the short RNA primers required for DNA
replication. In addition to its catalytic role in
replication, DNA primase may play a role in coupling
replication to DNA damage repair and in checkpoint
control during S phase. In eukaryotes, this small
catalytically active primase subunit (p50) and a larger
primase subunit (p60), referred to jointly as the core
primase, associate with the B subunit and the DNA
polymerase alpha subunit in a complex, called Pol
alpha-pri. The function of the larger primase subunit is
unclear. Included in this group are Pfu41 and Pfu46,
these two proteins comprise the primase complex of the
archaea Pyrococcus furiosus; Pfu41 and Pfu46 have
sequence identity to the eukaryotic p50 and p60 primase
proteins respectively. Pfu41 preferentially uses dNTPs
as substrate. Pfu46 regulates the primase activity of
Pfu41..
Length = 232
Score = 28.7 bits (64), Expect = 5.6
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 389 DDAHVFCTKEQMFNECLK-----IHNLIISIYKDFGFEKIMVKLSTR 430
DD C+ + +C K + L + +DFGF+ I+ S R
Sbjct: 90 DDVRTCCSGATICEKCWKFAKEAVKILDDILREDFGFKHILWVFSGR 136
>gnl|CDD|32399 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 28.3 bits (63), Expect = 7.4
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 36 KKAVAVAINGKVCD---LSDPVREGSIEII 62
K V VA++GK+ L+D +R + E I
Sbjct: 517 KTVVFVAVDGKLVGVIALADELRPDAKEAI 546
>gnl|CDD|37859 KOG2648, KOG2648, KOG2648, Diphthamide biosynthesis protein
[Translation, ribosomal structure and biogenesis].
Length = 453
Score = 28.0 bits (62), Expect = 8.4
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 527 VFGSIERFIGIMIENFKGNLPLWLSPIQAIVTTITSSAVEYAQEIANLLKSHHLSIE 583
VF I + ++++ + N P I IV T + +A LK L +E
Sbjct: 126 VFVDIPIDLDHLVKSLQRNFP---QLISQIVLLGTIQFAHSLEALATELKEELLDLE 179
>gnl|CDD|73265 cd01483, E1_enzyme_family, Superfamily of activating enzymes (E1)
of the ubiquitin-like proteins. This family includes
classical ubiquitin-activating enzymes E1,
ubiquitin-like (ubl) activating enzymes and other
mechanistic homologes, like MoeB, Thif1 and others. The
common reaction mechanism catalyzed by MoeB, ThiF and
the E1 enzymes begins with a nucleophilic attack of the
C-terminal carboxylate of MoaD, ThiS and ubiquitin,
respectively, on the alpha-phosphate of an ATP molecule
bound at the active site of the activating enzymes,
leading to the formation of a high-energy acyladenylate
intermediate and subsequently to the formation of a
thiocarboxylate at the C termini of MoaD and ThiS..
Length = 143
Score = 28.0 bits (62), Expect = 9.1
Identities = 8/49 (16%), Positives = 18/49 (36%)
Query: 571 IANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSI 619
A L + + E I+ + + + ++I D A R++
Sbjct: 58 AARRLNELNPGVNVTAVPEGISEDNLDDFLDGVDLVIDAIDNIAVRRAL 106
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.136 0.412
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,157,735
Number of extensions: 444978
Number of successful extensions: 1189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1150
Number of HSP's successfully gapped: 54
Length of query: 652
Length of database: 6,263,737
Length adjustment: 100
Effective length of query: 552
Effective length of database: 4,102,837
Effective search space: 2264766024
Effective search space used: 2264766024
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: 61 (27.2 bits)