RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781066|ref|YP_003065479.1| putative lysyl-tRNA synthetase
protein [Candidatus Liberibacter asiaticus str. psy62]
(355 letters)
>gnl|CDD|32450 COG2269, COG2269, Truncated, possibly inactive, lysyl-tRNA
synthetase (class II) [Translation, ribosomal structure
and biogenesis].
Length = 322
Score = 352 bits (905), Expect = 8e-98
Identities = 136/347 (39%), Positives = 186/347 (53%), Gaps = 27/347 (7%)
Query: 5 PSQPWWNRDFHYRRRPFLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFST 64
PWW LLKR I +++R +F E +E+++ +L +P + H+ F T
Sbjct: 2 SETPWWQPSASIDN---LLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFET 58
Query: 65 ELIIQDHI-RKPLYLQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWY 123
E + KPL+L TSPE+ K+LLAAG IF +RN E G LH PEFTMLEWY
Sbjct: 59 EFLGPGGAKGKPLWLHTSPEYHMKRLLAAGSGPIFQLGKVFRNEEMGRLHNPEFTMLEWY 118
Query: 124 RAHESYEQLMKDCMNIIRCAAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLG 183
R Y +LM + ++++ E E E ++ EAF RY ID
Sbjct: 119 RVGCDYYRLMNEVDDLLQLVLE----------------CVEAERLSYQEAFLRYLGID-- 160
Query: 184 TTLDNPDQPDRHLLYLQAQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPA 243
P D+ L A + G+ A D+ W + + +E +EPNLG T L +PA
Sbjct: 161 -----PLSADKTELREAAAKLGLSAATDEDWDTLLQLLFVEGVEPNLGKERPTFLYHFPA 215
Query: 244 PESALANIYPADPRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETY 303
++ALA I DPR +RFELY IEL N EL D EQR RFE++ +E+ + Y
Sbjct: 216 SQAALAQISTGDPRVAERFELYYKGIELANGFHELTDAAEQRRRFEQDNKERARRGLPQY 275
Query: 304 PIDEDFLACLTEMPQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQS 350
PIDEDFLA L MP SG+A+GFDRLVML GA +I++VI P +++
Sbjct: 276 PIDEDFLAALARMPPCSGVALGFDRLVMLALGAESIDDVIAFPVARA 322
>gnl|CDD|143920 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 341
Score = 207 bits (528), Expect = 6e-54
Identities = 91/351 (25%), Positives = 141/351 (40%), Gaps = 26/351 (7%)
Query: 10 WNRDFHYRRRP---FLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTEL 66
R RR L R+ I ++RE+ E F+E+++ L S E R F
Sbjct: 7 KYRYLDLRRPKMQANLKLRSKIIRAIREFLDERGFLEVETPILTKSTP-EGGARDFLVP- 64
Query: 67 IIQDHIRKPLYLQTSPEFSCKKLLAAGEEKIFCFAHAWRNGE-QGCLHQPEFTMLEWYRA 125
K YL SP+ + L+ AG +++F A +R+ + + H PEFT L+ +
Sbjct: 65 ---KFYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMS 121
Query: 126 HESYEQLMKDCMNIIR-CAAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGT 184
YE +M ++I+ EV + + IT AEA RY +
Sbjct: 122 FVDYEDVMDLTEDLIKYVFKEVKGKTEKGELLLGIELPEPFPRITYAEAIERYGS----- 176
Query: 185 TLDNPDQPDRHLLYLQAQQAGIRVAHDDTWSDIFSRILIEKIEPNLG---INCCTILDRY 241
D PD L + A + + + + E E LG ++ + +
Sbjct: 177 --DKPDLRFGLELKDVTEIKFEDAALNGGSNKLLGALRSELGERLLGDENLDNPVFVTDF 234
Query: 242 PAPESALANIYPAD-PRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYN 300
P + D P +RF+L E+ + DP EQR RFE+ + +
Sbjct: 235 PLFKRPFYMPKDEDPPGLAERFDLVLNGGEIGGGSIRIHDPEEQRKRFEELGLDPE---- 290
Query: 301 ETYPIDEDFLACLTE-MPQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQS 350
E +L L MP GI +G DRLVML+TG +I EVI P ++
Sbjct: 291 EAEEKFGFYLDALKYGMPPHGGIGLGLDRLVMLLTGLESIREVIAFPKTRK 341
>gnl|CDD|31383 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 192 bits (489), Expect = 1e-49
Identities = 111/330 (33%), Positives = 171/330 (51%), Gaps = 18/330 (5%)
Query: 22 LLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTS 81
+KR+ I ++RE+ + F+E+++ LQ PG R F T D LYL+ +
Sbjct: 180 FIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAA-ARPFITHHNALDM---DLYLRIA 235
Query: 82 PEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIR 141
PE K+L+ G E++F +RN H PEFTMLE+Y+A+ YE LM +I+
Sbjct: 236 PELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIK 295
Query: 142 CAA-EVANQKIFSFQNVNCNPFSEP-EYITVAEAFARYANIDLGTTLDNPDQPDRHLLYL 199
A EV ++ + FS+P + IT+ +A Y +D D D
Sbjct: 296 ELAKEVNGTTKVTYGGQEID-FSKPFKRITMVDALKEYLGVDF------DDLFDDEEAKE 348
Query: 200 QAQQAGIRVAHDDTWS--DIFSRILIEKIEPNLGINCCTILDRYPAPESALANIYPADPR 257
A++ GI V TW + + + E +E L I + D +P S LA + ++P
Sbjct: 349 LAKKHGIEVEKYGTWGLGHLLNELFEELVEAKL-IQPTFVTD-HPVEISPLAKRHRSNPG 406
Query: 258 FTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTE-M 316
T+RFEL+ E+ NA EL DP++QR RFE +++EK+ +E +DEDF+ L M
Sbjct: 407 LTERFELFIGGKEIANAYSELNDPVDQRERFEAQVEEKEAGDDEAMELDEDFVEALEYGM 466
Query: 317 PQSSGIAMGFDRLVMLVTGANNINEVIWTP 346
P + G+ +G DRLVML+T + +I +VI P
Sbjct: 467 PPTGGLGIGIDRLVMLLTNSPSIRDVILFP 496
>gnl|CDD|29820 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core
domain. Class II LysRS is a dimer which attaches a
lysine to the 3' OH group of ribose of the appropriate
tRNA. Its assignment to class II aaRS is based upon its
structure and the presence of three characteristic
sequence motifs in the core domain. It is found in
eukaryotes as well as some prokaryotes and archaea.
However, LysRS belongs to class I aaRS's in some
prokaryotes and archaea. The catalytic core domain is
primarily responsible for the ATP-dependent formation of
the enzyme bound aminoacyl-adenylate..
Length = 329
Score = 186 bits (474), Expect = 8e-48
Identities = 98/328 (29%), Positives = 163/328 (49%), Gaps = 13/328 (3%)
Query: 22 LLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTS 81
+ R+ I S +R++ + F+E+++ LQ G R F T D LYL+ +
Sbjct: 8 FIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAA-ARPFITHHNALDM---DLYLRIA 63
Query: 82 PEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIR 141
PE K+L+ G E+++ +RN H PEFTM+E+Y A+ Y +M ++
Sbjct: 64 PELYLKRLIVGGFERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTEDLFS 123
Query: 142 -CAAEVANQKIFSFQNVNCNPFSEP-EYITVAEAFARYANIDLGTTLDNPDQPDRHLLYL 199
++ + + + F+ P + +T+ +A ID L L
Sbjct: 124 GLVKKINGKTKIEYGGKELD-FTPPFKRVTMVDALKEKTGIDFPELDLEQP---EELAKL 179
Query: 200 QAQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPAPESALANIYPADPRFT 259
A+ ++ T + ++ E +EP L I I+D +P S LA + ++P T
Sbjct: 180 LAKLIKEKIEKPRTLGKLLDKLFEEFVEPTL-IQPTFIID-HPVEISPLAKRHRSNPGLT 237
Query: 260 KRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTE-MPQ 318
+RFEL+ C E+ NA EL DP +QR RFE++ ++K+ +E +DEDF+ L MP
Sbjct: 238 ERFELFICGKEIANAYTELNDPFDQRERFEEQAKQKEAGDDEAMMMDEDFVTALEYGMPP 297
Query: 319 SSGIAMGFDRLVMLVTGANNINEVIWTP 346
+ G+ +G DRLVML+T +N+I +VI P
Sbjct: 298 TGGLGIGIDRLVMLLTDSNSIRDVILFP 325
>gnl|CDD|37096 KOG1885, KOG1885, KOG1885, Lysyl-tRNA synthetase (class II)
[Translation, ribosomal structure and biogenesis].
Length = 560
Score = 162 bits (410), Expect = 2e-40
Identities = 98/339 (28%), Positives = 157/339 (46%), Gaps = 19/339 (5%)
Query: 19 RPFLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYL 78
R R I S +R++ F+E+++ + G T + F T + + LYL
Sbjct: 222 RDRFRIRAKIISYIRKFLDSRGFLEVETPMMNMIAGGAT-AKPFITH---HNDLDMDLYL 277
Query: 79 QTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMN 138
+ +PE K L+ G ++++ +RN H PEFT E+Y A+ YE LM
Sbjct: 278 RIAPELYLKMLVVGGLDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYEDLMDMTEE 337
Query: 139 IIR-CAAEVANQKIFSFQNVNCNP------FSEP-EYITVAEAFARYANIDL--GTTLDN 188
++ + ++ F+ P I + E + I L G+TL
Sbjct: 338 LLSGMVKNITGSYKITYHPNGPEEPELELDFTRPFRRIEMIEELEKELGIKLPPGSTLHT 397
Query: 189 PDQPDRHLLYLQAQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPAPESAL 248
+ R LL + T + + +++ E +EP +N I+D +P S L
Sbjct: 398 EE--TRELLKSLCVDEAVECPPPRTTARLLDKLVGEFLEPTC-VNPTFIID-HPQIMSPL 453
Query: 249 ANIYPADPRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDED 308
A + + T+RFEL+ E+CNA EL DP++QR RFE++ ++K +E +DED
Sbjct: 454 AKYHRSKAGLTERFELFIAGKEICNAYTELNDPVDQRQRFEQQARDKDAGDDEAQMVDED 513
Query: 309 FLACLTE-MPQSSGIAMGFDRLVMLVTGANNINEVIWTP 346
F L +P + G MG DRLVML+T +NNI EV+ P
Sbjct: 514 FCTALEYGLPPTGGWGMGIDRLVMLLTDSNNIREVLLFP 552
>gnl|CDD|58337 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II
core domain. This domain is the core catalytic domain of
class II aminoacyl-tRNA synthetases of the subgroup
containing aspartyl, lysyl, and asparaginyl tRNA
synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. Nearly all class II tRNA synthetases
are dimers and enzymes in this subgroup are homodimers.
These enzymes attach a specific amino acid to the 3' OH
group of ribose of the appropriate tRNA..
Length = 269
Score = 98.8 bits (246), Expect = 2e-21
Identities = 75/324 (23%), Positives = 128/324 (39%), Gaps = 64/324 (19%)
Query: 25 RNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTSPEF 84
R+ I ++R++ + F+E+++ LQ G R F L+ + + YL+ SP+
Sbjct: 4 RSKIIKAIRDFMDDRGFLEVETPMLQKITGGAG-ARPF---LVKYNALGLDYYLRISPQL 59
Query: 85 SCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIRCAA 144
K+L+ G +++F +RN + HQPEFTM++ A YE +++
Sbjct: 60 FKKRLMVGGLDRVFEINRNFRNEDLRARHQPEFTMMDLEMAFADYEDVIE---------- 109
Query: 145 EVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLLYLQAQQA 204
+E +A + G L++ P L Y +A
Sbjct: 110 -----------------LTERLVRHLAREVLGVTAVTYGFELEDFGLPFPRLTYREA--- 149
Query: 205 GIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPA-PESALANIYPADPRFTKRFE 263
+E+ L YPA S LA+ + +P F+
Sbjct: 150 ------------------LERYGQ------PLFLTDYPAEMHSPLASPHDVNPEIADAFD 185
Query: 264 LYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTE-MPQSSGI 322
L+ +E+ N L DP Q F+++ K+ E +L L +P G+
Sbjct: 186 LFINGVEVGNGSSRLHDPDIQAEVFQEQGINKE----AGMEYFEFYLKALEYGLPPHGGL 241
Query: 323 AMGFDRLVMLVTGANNINEVIWTP 346
+G DRL+ML+T + I EVI P
Sbjct: 242 GIGIDRLIMLMTNSPTIREVIAFP 265
>gnl|CDD|29821 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II
core domain. Assignment to class II aminoacyl-tRNA
synthetases (aaRS) based upon its structure and the
presence of three characteristic sequence motifs in the
core domain. This family includes AsnRS as well as a
subgroup of AspRS. AsnRS and AspRS are homodimers,
which attach either asparagine or aspartate to the 3'OH
group of ribose of the appropriate tRNA. While archaea
lack asnRS, they possess a non-discriminating aspRS,
which can mischarge Asp-tRNA with Asn. Subsequently, a
tRNA-dependent aspartate amidotransferase converts the
bound aspartate to asparagine. The catalytic core domain
is primarily responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate..
Length = 322
Score = 67.5 bits (165), Expect = 5e-12
Identities = 72/335 (21%), Positives = 123/335 (36%), Gaps = 56/335 (16%)
Query: 25 RNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTSPEF 84
R+ + + RE+ EN F E+ + + S E EL + KP YL SP+
Sbjct: 27 RSEVLRAFREFLRENGFTEVHTPKI-TSTDTEG-----GAELFKVSYFGKPAYLAQSPQL 80
Query: 85 SCKKLLAAGEEKIFCFAHAWRNGEQGC-LHQPEFTMLEWYRAH-ESYEQLMKDCMNIIRC 142
K++L A E+++ +R + H EF MLE A E Y ++M +I+
Sbjct: 81 Y-KEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIK- 138
Query: 143 AAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLLYLQAQ 202
+ F+ V E E + L L P +P + Y +A
Sbjct: 139 ---------YIFKRVLERCAKELELVNQ-----------LNRELLKPLEPFPRITYDEAI 178
Query: 203 Q--AGIRVAHDDTWSDIFSRILIEKIEPNLGINCCT---ILDRYPAPESAL-ANIYPADP 256
+ V + W + S + E LG + YP +P
Sbjct: 179 ELLREKGVEEEVKWGEDLS----TEHERLLGEIVKGDPVFVTDYPKEIKPFYMKPDDDNP 234
Query: 257 RFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTE- 315
+ F+L + E++ ++ H +++ + K+ +D + +
Sbjct: 235 ETVESFDLLMPGVG------EIVGGSQRIHDYDELEERIKEH-----GLDPESFEWYLDL 283
Query: 316 ----MPQSSGIAMGFDRLVMLVTGANNINEVIWTP 346
MP G +G +RLVM + G +NI E I P
Sbjct: 284 RKYGMPPHGGFGLGLERLVMWLLGLDNIREAILFP 318
>gnl|CDD|30367 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 64.1 bits (156), Expect = 6e-11
Identities = 76/349 (21%), Positives = 129/349 (36%), Gaps = 54/349 (15%)
Query: 11 NRDFHYRRRPF--LLK-RNMIQSSLREYFVENQFIEIDS--MSLQYSPGNETHIRAFSTE 65
NR R + K R+ I ++RE+F EN F E+ + ++ + G E
Sbjct: 120 NRHLDLRTPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGG--------GE 171
Query: 66 LIIQDHIRKPLYLQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCL-HQPEFTMLEWYR 124
L D+ K YL SP+ K+ LAA E++F +R + H EF ML+
Sbjct: 172 LFKVDYFDKEAYLTQSPQLY-KEALAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEM 230
Query: 125 AHESYEQLMKDCMNIIRCAAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGT 184
A +M +I+ + F+ V E E++ +
Sbjct: 231 AFADLNDVMDLAEELIK----------YLFKKVLEECADELEFLG-----------RDNS 269
Query: 185 TLDNPDQPDRHLL-YLQA-QQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYP 242
L P+ + Y +A + + W D + + YP
Sbjct: 270 ELKRPESAPFPRITYKEAIEILEEKGFEKVEWGDDLGTEHERYLGEEYFKP-PVFVTNYP 328
Query: 243 APESAL-ANIYPADPRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQ--EKKKIY 299
P +P F+L A E++ ++ H ++ ++ ++K +
Sbjct: 329 KEIKPFYMRPDPDNPGTVASFDLLAPGGG------EIIGGSQREHDYDLLVERIKEKGLD 382
Query: 300 NETYPIDEDFLACLTE-MPQSSGIAMGFDRLVMLVTGANNINEVIWTPF 347
E+Y E +L MP +G +G +RLVM + G +NI E I PF
Sbjct: 383 PESY---EWYLDLRKYGMPPHAGFGLGLERLVMYILGLDNIREAI--PF 426
>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 = 52.8 bits (126), Expect = 1e-07
Identities = 26/112 (23%), Positives = 43/112 (38%), Gaps = 6/112 (5%)
Query: 25 RNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTSPEF 84
R+ I+ LR + E F E+++ ++ P E L + + LYL+ + E
Sbjct: 2 RSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEP 61
Query: 85 SCKKLLA----AGEEKIFCFAHAWRNGE--QGCLHQPEFTMLEWYRAHESYE 130
+L ++ A+RN +G EFT LE E E
Sbjct: 62 GLVRLFVSHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGE 113
>gnl|CDD|30522 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 47.1 bits (112), Expect = 7e-06
Identities = 19/37 (51%), Positives = 24/37 (64%)
Query: 317 PQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQSNQE 353
P GIA G DRLVML+TGA +I +VI P +Q +
Sbjct: 525 PPHGGIAFGLDRLVMLLTGAESIRDVIAFPKTQQAAD 561
Score = 35.5 bits (82), Expect = 0.023
Identities = 44/192 (22%), Positives = 77/192 (40%), Gaps = 46/192 (23%)
Query: 16 YR----RRP----FLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFST--- 64
YR RRP L R+ + ++R + + F+EI ET I ST
Sbjct: 127 YRYLDLRRPEMQKNLKLRSKVTKAIRNFLDDQGFLEI-----------ETPILTKSTPEG 175
Query: 65 --ELIIQDHIRKPLY--LQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTML 120
+ ++ + + L SP+ + L+ AG ++ + A +R+ + QPEFT +
Sbjct: 176 ARDFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDEDLRADRQPEFTQI 235
Query: 121 EWYRAHESYEQLMKDCMNIIRCAAEVANQKIFS-FQNVNCN-PFSEPEYITVAEAFARYA 178
+ + E +M+ ++R +F + + PF +T AEA RY
Sbjct: 236 DLEMSFVDEEDVMELIEKLLR--------YVFKEVKGIELKTPF---PRMTYAEAMRRYG 284
Query: 179 NIDLGTTLDNPD 190
+ D PD
Sbjct: 285 S-------DKPD 289
>gnl|CDD|35774 KOG0554, KOG0554, KOG0554, Asparaginyl-tRNA synthetase
(mitochondrial) [Translation, ribosomal structure and
biogenesis].
Length = 446
Score = 45.7 bits (108), Expect = 2e-05
Identities = 59/340 (17%), Positives = 119/340 (35%), Gaps = 48/340 (14%)
Query: 25 RNMIQSSLREYFVENQFIEIDSMSLQYSP--GNETHIRAFSTELIIQDHIRKPLYLQTSP 82
R+ + + +F + F I++ + + G + + +D +P +L S
Sbjct: 135 RSALAFATHSFFQSHDFTYINTPIITTNDCEGAGEVFQVTTLTDYSKDFFGRPAFLTVSG 194
Query: 83 EFSCKKLLAAGEEKIFCFAHAWR-NGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIR 141
+ + + A +++ F +R H EF MLE A + C
Sbjct: 195 QLHLEAM-ACALSRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLDDLMSC----- 248
Query: 142 CAAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLL-YLQ 200
AE + + + C I E + + L+ + + + Y +
Sbjct: 249 --AEAYIKHMIKYLLEKC--------IEDMELMHKNEDPGSIDRLELVAKENLLRITYTE 298
Query: 201 AQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPAPESALANIYPAD-PRFT 259
A + ++ A + K P GI+ T ++Y E ++ D P+
Sbjct: 299 AIEL-LQKAVTKKF----------KTPPKWGIDLSTEHEKYLVEECFKKPVFVTDYPKGI 347
Query: 260 KRFELYACNIELCNACDELLDPI-------EQRHRFEKEMQEKKKIYNETYPIDEDFLAC 312
K F + + A +LL P R + ++E+ + ++
Sbjct: 348 KPFYMRLNDDGKTVAAFDLLVPGVGELIGGSLREERKARLKERG-----LTREELEWYLD 402
Query: 313 LTEM--PQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQS 350
L G +GF+R++ +TG +NI +VI PF +
Sbjct: 403 LRRYGSVPHGGFGLGFERMLQYLTGNDNIKDVI--PFPRY 440
>gnl|CDD|73228 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core
domain. Class II assignment is based upon its structure
and the presence of three characteristic sequence
motifs. AspRS is a homodimer, which attaches a specific
amino acid to the 3' OH group of ribose of the
appropriate tRNA. The catalytic core domain is primarily
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. AspRS in this family
differ from those found in the AsxRS family by a GAD
insert in the core domain..
Length = 280
Score = 44.4 bits (105), Expect = 5e-05
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 317 PQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQS 350
P GIA+G DRLVML+TG+ +I +VI P +Q+
Sbjct: 247 PPHGGIALGLDRLVMLLTGSESIRDVIAFPKTQN 280
Score = 33.6 bits (77), Expect = 0.091
Identities = 37/164 (22%), Positives = 68/164 (41%), Gaps = 29/164 (17%)
Query: 22 LLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFST-----ELIIQDHIRKPL 76
L R+ + ++R + E F+EI ET I ST + ++ +
Sbjct: 1 LRLRSRVIKAIRNFLDEQGFVEI-----------ETPILTKSTPEGARDFLVPSRLHPGK 49
Query: 77 Y--LQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMK 134
+ L SP+ + L+ +G ++ F A +R+ + QPEFT ++ + E +M
Sbjct: 50 FYALPQSPQLFKQLLMVSGFDRYFQIARCFRDEDLRADRQPEFTQIDIEMSFVDQEDIMS 109
Query: 135 DCMNIIRCA-AEVANQKIFSFQNVNCNPFSEPEYITVAEAFARY 177
+++ EV ++ + PF +T AEA RY
Sbjct: 110 LIEGLLKYVFKEVLGVELTT-------PFPR---MTYAEAMERY 143
>gnl|CDD|35776 KOG0556, KOG0556, KOG0556, Aspartyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 533
Score = 43.4 bits (102), Expect = 9e-05
Identities = 64/315 (20%), Positives = 122/315 (38%), Gaps = 33/315 (10%)
Query: 28 IQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTSPEFSCK 87
+ + REY F+EI + L + +E F + ++ YL SP+ +
Sbjct: 234 VCFAFREYLRSKGFVEIHTPKLIGAS-SEGGANVFRV-----SYFKQKAYLAQSPQLYKQ 287
Query: 88 KLLAAGEEKIFCFAHAWRNGEQGC-LHQPEFTMLEWYRA-HESYEQLMKDCMNIIRCAAE 145
+ E+++ +R + H EF L+ A +E Y ++M
Sbjct: 288 MAICGDFERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEHYHEVMD----------T 337
Query: 146 VANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLLYLQAQQAG 205
+ +F F+ + E E + F + ++ L + +L ++AG
Sbjct: 338 IGELFVFIFKGLRERYAKEIETVRKQYPFEPFKFLEPPLRLTFKEGVA--ML----REAG 391
Query: 206 IRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPAPESALANI-YPADPRFTKRFEL 264
+ + +D S + L + + + ILD+YP + P +PR++ ++
Sbjct: 392 VEMGDEDDLSTESEKKLGQLVREKYDTD-FYILDKYPLAVRPFYTMPDPENPRYSNSYDF 450
Query: 265 YACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTEMPQSSGIAM 324
+ E+ + + DP R ++ + KI TY ID P +G +
Sbjct: 451 FMRGEEILSGAQRIHDPELLVERAKEHGIDPSKI--STY-IDSFRYGA----PPHAGGGI 503
Query: 325 GFDRLVMLVTGANNI 339
G +R+VML G NNI
Sbjct: 504 GLERVVMLYLGLNNI 518
>gnl|CDD|37622 KOG2411, KOG2411, KOG2411, Aspartyl-tRNA synthetase, mitochondrial
[Translation, ribosomal structure and biogenesis].
Length = 628
Score = 41.9 bits (98), Expect = 2e-04
Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 280 DPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLTEMPQSSGIAMGFDRLVMLVTGANNI 339
+P QR+ E ++ + ++ + ++ + P GIA+G DRLV ++TGA +I
Sbjct: 533 NPDIQRYVLEDILKIPEDAESKGHLLNALDMGA----PPHGGIALGLDRLVAMLTGAPSI 588
Query: 340 NEVIWTPFSQSNQE 353
+VI P + + +
Sbjct: 589 RDVIAFPKTTTGAD 602
Score = 36.2 bits (83), Expect = 0.016
Identities = 35/174 (20%), Positives = 74/174 (42%), Gaps = 27/174 (15%)
Query: 21 FLLKRNMIQSSLREYFVE-NQFIEIDSMSL-QYSPGNETHIRAFSTELIIQDHIRKPLY- 77
L R+ + +R Y + F+E+++ +L + +PG + E ++ + +
Sbjct: 177 NLRLRSNVVKKIRRYLNNRHGFVEVETPTLFKRTPGG-------AREFVVPTRTPRGKFY 229
Query: 78 -LQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDC 136
L SP+ + L+ +G ++ + A +R+ + QPEFT ++ + E +MK
Sbjct: 230 ALPQSPQQFKQLLMVSGIDRYYQIARCFRDEDLRADRQPEFTQVDMEMSFTDQEDIMKLI 289
Query: 137 MNIIRCAAEVANQKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPD 190
+++R ++S + IT A+A +Y + D PD
Sbjct: 290 EDLLR--------YVWSE-DKGIQLPVPFPRITYADAMDKYGS-------DKPD 327
>gnl|CDD|35216 COG5657, CSE1, CAS/CSE protein involved in chromosome segregation
[Cell division and chromosome partitioning].
Length = 947
Score = 31.9 bits (72), Expect = 0.26
Identities = 31/160 (19%), Positives = 44/160 (27%), Gaps = 19/160 (11%)
Query: 151 IFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLL---YLQAQQAGIR 207
I S N I A A +R A +D LL + + +R
Sbjct: 94 IISSSNQLQ--------IQNALAVSRIARLDFPDEWPTLVPDLLSLLSEKDMVTNENSLR 145
Query: 208 VAHD--DTWSDIF-SRILIEKIEPNLGINCCTILDRYPAPESALANIYPADPRFTKRFE- 263
V H +F S L +I P L C L S N+ D F+
Sbjct: 146 VLHHIFKRLRRLFRSDALFLEIAPVLLSILCPFLFSSAYFWSMSENL---DESLLSLFQV 202
Query: 264 -LYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNET 302
L ++ + E E K Y+
Sbjct: 203 CLKLIRRYYDLGFQDIPEFFEDNLDKFMEHFCKLLSYSNP 242
>gnl|CDD|31982 COG1797, CobB, Cobyrinic acid a,c-diamide synthase [Coenzyme
metabolism].
Length = 451
Score = 29.0 bits (65), Expect = 1.9
Identities = 27/121 (22%), Positives = 44/121 (36%), Gaps = 19/121 (15%)
Query: 163 SEPEYITVAEAFARYANID-LGTTLDNPDQ--PDRHLLYLQAQQAGIRVAHDDTWSDIFS 219
SE Y + +A Y + LG + D P RHL + A + A + +++
Sbjct: 153 SERHYELLRDALEEYTGVPVLGYLPRDDDLELPSRHLGLVPASERLELEAKLEALAEVVE 212
Query: 220 R-ILIEKIEPNLGINCCTILDRYPAPES--------ALANIYPADPRFTKRFELYACNIE 270
+ + ++ + D P PE A+A D F F Y N+E
Sbjct: 213 KHVDLDALLEIASSAGPLEPDLSPEPERGNPLGVRIAVA----RDAAFN--F-YYPENLE 265
Query: 271 L 271
L
Sbjct: 266 L 266
>gnl|CDD|34136 COG4457, SrfB, Uncharacterized protein conserved in bacteria,
putative virulence factor [Function unknown].
Length = 1014
Score = 29.2 bits (65), Expect = 1.9
Identities = 22/91 (24%), Positives = 40/91 (43%), Gaps = 10/91 (10%)
Query: 150 KIFSFQNVNCNPFSEPEYITVAEAFARYANIDLG--TT--------LDNPDQPDRHLLYL 199
+ +F + P +PE + R A++D+G TT LD+ + +
Sbjct: 548 RTETFFDALARPDEQPESGPASGRSLRIASVDIGGGTTDLAITTYYLDDGGGSNVKIYPD 607
Query: 200 QAQQAGIRVAHDDTWSDIFSRILIEKIEPNL 230
Q + G +VA DD DI R+++ ++ L
Sbjct: 608 QLFREGFKVAGDDLLLDIIQRLVLPSLQEGL 638
>gnl|CDD|29807 cd00496, PheRS_alpha_core, Phenylalanyl-tRNA synthetase (PheRS)
alpha chain catalytic core domain. PheRS belongs to
class II aminoacyl-tRNA synthetases (aaRS) based upon
its structure and the presence of three characteristic
sequence motifs. This domain is primarily responsible
for ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. While class II aaRSs generally
aminoacylate the 3'-OH ribose of the appropriate tRNA,
PheRS is an exception in that it attaches the amino acid
at the 2'-OH group, like class I aaRSs. PheRS is an
alpha-2/ beta-2 tetramer..
Length = 218
Score = 29.0 bits (65), Expect = 2.1
Identities = 25/105 (23%), Positives = 37/105 (35%), Gaps = 10/105 (9%)
Query: 26 NMIQSSLREYFVENQFIEIDSMSLQYSPGN-------ETHI-RAFSTELIIQDHIRKPLY 77
N + + + FV F E++ ++ N + H R I D R L
Sbjct: 4 NKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYINDPARLLLR 63
Query: 78 LQTSPEFSCKKLLAA-GEEKIFCFAHAWRNGEQGCLHQPEFTMLE 121
TS + L +IF +RN E H PEF +E
Sbjct: 64 THTSA-VQARALAKLKPPIRIFSIGRVYRNDEIDATHLPEFHQIE 107
>gnl|CDD|111033 pfam02091, tRNA-synt_2e, Glycyl-tRNA synthetase alpha subunit.
Length = 284
Score = 27.8 bits (62), Expect = 4.2
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 317 PQSSGIAMGFDRLVMLVTGANNINEVIWT 345
P S I G +RL M + +++ +++W
Sbjct: 150 PVSGEITYGLERLAMYLQKVDSVYDLVWA 178
>gnl|CDD|39428 KOG4227, KOG4227, KOG4227, WD40 repeat protein [General function
prediction only].
Length = 609
Score = 27.8 bits (61), Expect = 4.3
Identities = 23/127 (18%), Positives = 44/127 (34%), Gaps = 9/127 (7%)
Query: 3 QIPSQPWWNRDFHYRRRPFLLKRNMIQSSLREYFVENQFIEIDSMSLQY--SPGNETHIR 60
+I S + F RP R Q +RE+ ++ S + ++ S G++ H R
Sbjct: 27 EIGSVKSVVKTF----RPDFQHRPFCQKDVREHTGCINALQF-SHNDRFLASGGDDMHGR 81
Query: 61 AFSTELIIQDHIRKPLYLQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTML 120
++ + ++ KP+ + P S L E F ++ H E
Sbjct: 82 VWNVDELMVRKTPKPIGVMEHPHRSNIFSLEFDLENRFLYSGE--RWGTVIKHDIETKQS 139
Query: 121 EWYRAHE 127
+
Sbjct: 140 IYVANEN 146
>gnl|CDD|36666 KOG1453, KOG1453, KOG1453, Chimaerin and related Rho GTPase
activating proteins [Signal transduction mechanisms].
Length = 918
Score = 27.8 bits (61), Expect = 4.4
Identities = 14/65 (21%), Positives = 19/65 (29%), Gaps = 1/65 (1%)
Query: 18 RRPFLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQ-DHIRKPL 76
RP R++ + Y + Q E S E S L + KP
Sbjct: 767 LRPPDGTRDLTDMKDKNYPLAAQLPEYKITLHNLSFLEEPPKILISETLARRSVVTSKPA 826
Query: 77 YLQTS 81
L S
Sbjct: 827 SLSVS 831
>gnl|CDD|32576 COG2502, AsnA, Asparagine synthetase A [Amino acid transport and
metabolism].
Length = 330
Score = 27.2 bits (60), Expect = 8.1
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 315 EMPQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQSNQEEI 355
E+PQ+ G +G RL ML+ +I EV + + Q +EE+
Sbjct: 286 ELPQTIGGGIGQSRLCMLLLQKKHIGEVQASVWPQEVREEV 326
>gnl|CDD|31095 COG0752, GlyQ, Glycyl-tRNA synthetase, alpha subunit [Translation,
ribosomal structure and biogenesis].
Length = 298
Score = 26.7 bits (59), Expect = 9.7
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 317 PQSSGIAMGFDRLVMLVTGANNINEVIWT 345
P S I G +RL M + G +N+ ++ W
Sbjct: 156 PVSGEITYGLERLAMYIQGVDNVYDLEWN 184
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
0.322 0.136 0.427
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,647,585
Number of extensions: 249985
Number of successful extensions: 642
Number of sequences better than 10.0: 1
Number of HSP's gapped: 617
Number of HSP's successfully gapped: 38
Length of query: 355
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 260
Effective length of database: 4,210,882
Effective search space: 1094829320
Effective search space used: 1094829320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.2 bits)