RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780928|ref|YP_003065341.1| histidyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(496 letters)
>gnl|CDD|178812 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 387 bits (997), Expect = e-108
Identities = 150/495 (30%), Positives = 224/495 (45%), Gaps = 95/495 (19%)
Query: 6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDE-D 64
++ + PRG D +E + D+IR ++E YGF I TP+ EY++ + + +E D
Sbjct: 1 MMKIQAPRGTRDILPEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKVGEETD 60
Query: 65 RPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGR 124
K +++ QD G+ ++LR + TAP+ R V E+ P + Y IGP+FR E+ GR
Sbjct: 61 IVEKEMYTFQDKGGRSLTLRPEGTAPVVRAVIEHKLQ---PFKLYYIGPMFRYERPQKGR 117
Query: 125 FRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRN--------DYHIGINNRKILD 176
+RQF Q V+ +GS + ADAE+ + AD L+A+G+K D+ I N RK L
Sbjct: 118 YRQFHQFGVEVIGSDSPLADAEVIALAADILKALGLKGLKLLINSLGDFEIRANYRKALV 177
Query: 177 GILEKIGLHGDDKLNERLI--VLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTS 234
G LEK D+ RL LR +DK DK + K A
Sbjct: 178 GFLEKGLDELDEDSKRRLETNPLRILDKKDK----------------EDQELLKDA---- 217
Query: 235 EQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISST 294
++ +L + ++ F EL EL+ G I
Sbjct: 218 ---PKLLDYLDEE-----------------SKEHFEEL---KELLDALGI---PYVIDPR 251
Query: 295 IVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIG 354
+VRGL+YYTG V+E + G+V GGGRYDGLV +F G PA GF+IG
Sbjct: 252 LVRGLDYYTGTVFEFVTD--------DLGAQGTVCGGGRYDGLVEQFGGPPTPAVGFAIG 303
Query: 355 ISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSS 414
+ RL++ L+ L V + + D++ + LR AGIR E+
Sbjct: 304 VERLLLLLEELGEEP------VDVYVVPLGEDAE--LAALKLAEKLRAAGIRVELDY-GG 354
Query: 415 KNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQI 474
+ Q KYAD+ +I G E + G + +KDL G Q
Sbjct: 355 RKLKKQFKYADKSGARFVLILGEDELANGTVTVKDLRTG------------------EQQ 396
Query: 475 TIPISELVSTVKKIL 489
T+P+ ELV +K++L
Sbjct: 397 TVPLDELVEALKELL 411
>gnl|CDD|161881 TIGR00442, hisS, histidyl-tRNA synthetase. This model finds a
histidyl-tRNA synthetase in every completed genome.
Apparent second copies from Bacillus subtilis,
Synechocystis sp., and Aquifex aeolicus are slightly
shorter, more closely related to each other than to
other hisS proteins, and actually serve as regulatory
subunits for an enzyme of histidine biosynthesis. They
were excluded from the seed alignment and score much
lower than do single copy histidyl-tRNA synthetases of
other genomes not included in the seed alignment. These
putative second copies of HisS score below the trusted
cutoff. The regulatory protein kinase GCN2 of
Saccharomyces cerevisiae (YDR283c), and related proteins
from other species designated eIF-2 alpha kinase, have a
domain closely related to histidyl-tRNA synthetase that
may serve to detect and respond to uncharged tRNA(his),
an indicator of amino acid starvation; these regulatory
proteins are not orthologous and so score below the
noise cutoff.
Length = 397
Score = 363 bits (935), Expect = e-101
Identities = 145/444 (32%), Positives = 220/444 (49%), Gaps = 51/444 (11%)
Query: 12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDE-DRPNKGV 70
PRG D +E+ I ++IR ++E YGF I TP+ EY++ + + +E D K +
Sbjct: 3 PRGTRDFLPEEMIKWQYIEETIREVFELYGFKEIRTPIFEYTELFARKVGEETDIVEKEM 62
Query: 71 FSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQ 130
++ +D G+ ++LR + TAP+AR V EN + P + Y IGP+FR E+ GR+RQF Q
Sbjct: 63 YTFKDKGGRSLTLRPEGTAPVARAVIENKLLLPKPFKLYYIGPMFRYERPQKGRYRQFHQ 122
Query: 131 CDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKL 190
V+ +GS + ADAE+ + A+ L+ +GIK D+ + IN+ IL+G LE
Sbjct: 123 FGVEVIGSDSPLADAEIIALAAEILKELGIK--DFTLEINSLGILEGRLEY--------- 171
Query: 191 NERLIVLRAIDK-LDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLE 249
R +LR +DK LDK G V+ L + + + + L +
Sbjct: 172 --REALLRYLDKHLDKLGEDSVRRLE-----------KNPLRILDSKNEKIQELLK-EAP 217
Query: 250 KSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEA 309
K + L E+ + EL+ G KI ++VRGL+YYTG V+E
Sbjct: 218 KILDFL---------DEESRAHFEELKELLDALGI---PYKIDPSLVRGLDYYTGTVFEF 265
Query: 310 ILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESST 369
+ +E G++ GGGRYDGLV G PA GF+IGI RL++ L+ L
Sbjct: 266 VT-----DELG---AQGTICGGGRYDGLVEELGGPPTPAVGFAIGIERLLLLLEELG-LE 316
Query: 370 NNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNC 429
+ V + + ++ + Q LR AGIR E+ LG + QLKYAD+
Sbjct: 317 PPEESSPDVYVVPL--GEEAELEALKLAQKLRKAGIRVEVDLG-GRKLKKQLKYADKLGA 373
Query: 430 PLAIIQGTGERSRGMLQIKDLAKG 453
A+I G E + G + +KDL G
Sbjct: 374 RFAVILGEDELANGTVTLKDLETG 397
>gnl|CDD|183519 PRK12420, PRK12420, histidyl-tRNA synthetase; Provisional.
Length = 423
Score = 208 bits (532), Expect = 2e-54
Identities = 136/449 (30%), Positives = 223/449 (49%), Gaps = 46/449 (10%)
Query: 13 RGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFS 72
+G D +E +RN+I ++ +++E YG P+ETP L + + D K +++
Sbjct: 8 KGTKDYLPEEQVLRNKIKRALEDVFERYGCKPLETPTLNMYELMSSKYGGGDEILKEIYT 67
Query: 73 LQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGP---GRFRQFI 129
L D + ++LRYDLT P A+ VA N I P + Y IG VFR+ GP GRFR+FI
Sbjct: 68 LTDQGKRDLALRYDLTIPFAKVVAMN-PNIRLPFKRYEIGKVFRD---GPIKQGRFREFI 123
Query: 130 QCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDK 189
QCDVD VG + A+AE+ M + + + + I NNRK+L+GIL+ IG+ +
Sbjct: 124 QCDVDIVGVESVMAEAELMSMAFELFRRLNL---EVTIQYNNRKLLNGILQAIGIPTELT 180
Query: 190 LNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLE 249
+ V+ ++DK++K G+ GV+ L E ++ E D + + + L+
Sbjct: 181 SD----VILSLDKIEKIGIDGVRKDLLE------------RGISEEMADTICNTVLSCLQ 224
Query: 250 KSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEA 309
S+ + E + E G NEL + + + G N N + + RGL YTG VYE
Sbjct: 225 LSIADFKEAFNNPLVAE-GVNELQQLQQYLIALGINEN-CIFNPFLARGLTMYTGTVYEI 282
Query: 310 ILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNV--PATGFSIGISRLIVALKSLES 367
L + + S+G GGRYD ++ F+G ++ P G S G+ + AL E+
Sbjct: 283 FL--------KDGSITSSIGSGGRYDNIIGAFRGDDMNYPTVGISFGLDVIYTALSQKET 334
Query: 368 STNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRR 427
++ V I + L Q+ Q+ T G++ E+ L + + L YA++
Sbjct: 335 ISSTAD----VFIIPL---GTELQCLQIAQQLRSTTGLKVELEL-AGRKLKKALNYANKE 386
Query: 428 NCPLAIIQGTGERSRGMLQIKDLAKGKEL 456
N P +I G E S G + ++++ +G E+
Sbjct: 387 NIPYVLIIGEEEVSTGTVMLRNMKEGSEV 415
>gnl|CDD|178555 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 198 bits (505), Expect = 3e-51
Identities = 138/458 (30%), Positives = 220/458 (48%), Gaps = 53/458 (11%)
Query: 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSL-GKFLPDEDRPNK 68
++P+G D +++ IR + I ++++ +G ++TP+ E ++L GK+ D +K
Sbjct: 328 KIPKGTRDFAKEQMAIREKAFSIITSVFKRHGATALDTPVFELRETLMGKYGED----SK 383
Query: 69 GVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQF 128
++ L D G+ SLRYDLT P ARYVA N T + Y+I V+R + GR+R+F
Sbjct: 384 LIYDLADQGGELCSLRYDLTVPFARYVAMNGITSF---KRYQIAKVYRRDNPSKGRYREF 440
Query: 129 IQCDVDNVGSSAET-ADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGD 187
QCD D G D E+ ++ + L+ + I Y + +N+RK+LDG+LE G+
Sbjct: 441 YQCDFDIAGVYEPMGPDFEIIKVLTELLDELDI--GTYEVKLNHRKLLDGMLEICGV-PP 497
Query: 188 DKLNERLIVLRAIDKLDKFGLQGVKLLLGEGR------TDNSGDF--TKGANLTSEQIDI 239
+K + +IDKLDK + VK + E + D G+F +G L
Sbjct: 498 EKFRT---ICSSIDKLDKQSFEQVKKEMVEEKGLSNETADKIGNFVKERGPPLE------ 548
Query: 240 MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGL 299
L L + E G + +EL ++ + + KS +I ++ RGL
Sbjct: 549 ----LLSKLRQEGSEFL----GNASSRAALDELEIMFKALEKSK-AIGKIVFDLSLARGL 599
Query: 300 EYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLI 359
+YYTG +YEA+ K GS+ GGRYD LV F G+ VPA G S+GI R+
Sbjct: 600 DYYTGVIYEAVF---------KGAQVGSIAAGGRYDNLVGMFSGKQVPAVGVSLGIERVF 650
Query: 360 VALKSLESSTNNIKEM--GPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNF 417
++ E + + VL++ + D L+ L AGI+AE + S
Sbjct: 651 AIMEQQEEEKSQVIRPTETEVLVSII--GDDKLALAAELVSELWNAGIKAEYKV--STRK 706
Query: 418 GNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKE 455
LK A P ++ G E S+G +++K+L G E
Sbjct: 707 AKHLKRAKESGIPWMVLVGEKELSKGFVKLKNLEAGVE 744
>gnl|CDD|161882 TIGR00443, hisZ_biosyn_reg, ATP phosphoribosyltransferase,
regulatory subunit. Apparant second copies of
histidyl-tRNA synthetase, found in Bacillus subtilis,
Synechocystis sp., Aquifex aeolicus, and others, are in
fact a regulatory subunit of ATP
phosphoribosyltransferase, and usually encoded by a gene
adjacent to that encoding the catalytic subunit.
Length = 314
Score = 166 bits (423), Expect = 1e-41
Identities = 101/347 (29%), Positives = 165/347 (47%), Gaps = 45/347 (12%)
Query: 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWI 81
E + I +++++ ++G+ I TP LEY D+ N+ +F L D G+ +
Sbjct: 7 EAARKEEIERQLQDVFRSWGYQEIITPTLEYLDT---LSAGGGILNEDLFKLFDSLGRVL 63
Query: 82 SLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAE 141
LR D+T P+AR V+ P R G VFR + G GR R+F Q V+ +G+
Sbjct: 64 GLRPDMTTPIARAVSTRLRDRPLPLRLCYAGNVFRTNESGAGRSREFTQAGVELIGAGGP 123
Query: 142 TADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAID 201
ADAE+ ++ + L+A+G+K D+ I + + ++ +LE+ GL + R + A+
Sbjct: 124 AADAEVIALLIEALKALGLK--DFKIELGHVGLVRALLEEAGLPEE----AREALREALA 177
Query: 202 KLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSI--DLEKSMHELYELV 259
+ D L ++ LL E D E + +++ + D E+ + E L
Sbjct: 178 RKD---LVALEELLAELGLD------------PEVRERLLALPRLRGDGEEVLEEARALA 222
Query: 260 KGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAI---LGFPVM 316
E +EL + EL+ G I + +VRG YYTG ++E LG P
Sbjct: 223 GSE-TAEAALDELEAVLELLEARGVEE-YISLDLGLVRGYHYYTGLIFEGYAPGLGAP-- 278
Query: 317 NEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALK 363
+ GGGRYD L+ RF G+ +PATGF++ + RL+ AL
Sbjct: 279 -----------IAGGGRYDNLLGRF-GRPLPATGFALNLERLLEALT 313
>gnl|CDD|183410 PRK12292, hisZ, ATP phosphoribosyltransferase regulatory subunit;
Provisional.
Length = 391
Score = 165 bits (419), Expect = 4e-41
Identities = 117/452 (25%), Positives = 202/452 (44%), Gaps = 68/452 (15%)
Query: 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGK--FLPDED 64
+ +LP G D +E R I + +++ +G++ + TP LEY D+L +
Sbjct: 1 MMWQLPEGIRDLLPEEARKIEEIRRRLLDLFRRWGYEEVITPTLEYLDTLLAGGGAILDL 60
Query: 65 RPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGR 124
R K V G+ + LR D+TA +AR A P R G VFR ++ G GR
Sbjct: 61 RTFKLV---DQLSGRTLGLRPDMTAQIARIAATRLANRPGPLRLCYAGNVFRAQERGLGR 117
Query: 125 FRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGL 184
R+F+Q V+ +G + ADAE+ +++ + L+A+G+ ++ + + + + +LE GL
Sbjct: 118 SREFLQSGVELIGDAGLEADAEVILLLLEALKALGLP--NFTLDLGHVGLFRALLEAAGL 175
Query: 185 HGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL 244
++ RA+ D L+ +L+L +L+ E D +++
Sbjct: 176 SE----ELEEVLRRALANKDYVALE--ELVL---------------DLSEELRDALLALP 214
Query: 245 SIDLEKSMHELYELVK--GTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYY 302
L L E K ++ ++ +EL ++E + K GY + + ++R L+YY
Sbjct: 215 --RLRGGREVLEEARKLLPSLPIKRALDELEALAEALEKYGYGI-PLSLDLGLLRHLDYY 271
Query: 303 TGCVYEAI---LGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLI 359
TG V+E +G P + GGRYD L+ RF G+ PATGFS+ + RL+
Sbjct: 272 TGIVFEGYVDGVGNP-------------IASGGRYDDLLGRF-GRARPATGFSLDLDRLL 317
Query: 360 VALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGN 419
LE K++ V+ + + +L+ Q LR G + L +NF +
Sbjct: 318 ELQ--LELPVEARKDL--VIAPDSEALAAALA----AAQELRKKGEIVVLALP-GRNFED 368
Query: 420 QLKYADRRNCPLAIIQGTGERSRGMLQIKDLA 451
+YA R + G Q++ LA
Sbjct: 369 AREYARDRQI---------VEADGEWQVEPLA 391
>gnl|CDD|178145 PLN02530, PLN02530, histidine-tRNA ligase.
Length = 487
Score = 162 bits (412), Expect = 2e-40
Identities = 126/464 (27%), Positives = 225/464 (48%), Gaps = 52/464 (11%)
Query: 4 KTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDE 63
K K+ P+G D P +++R+RN + D R + +GF+ ++ P+LE S+ L E
Sbjct: 65 KPKIDVNPPKGTRDFPPEDMRLRNWLFDHFREVSRLFGFEEVDAPVLE-SEELYIRKAGE 123
Query: 64 DRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPG 123
+ ++ +++ +D G+ ++LR +LT LAR V + ++ P + + IG +R E+ G
Sbjct: 124 EITDQ-LYNFEDKGGRRVALRPELTPSLARLVLQKGKSLSLPLKWFAIGQCWRYERMTRG 182
Query: 124 RFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIG 183
R R+ Q ++D +G A+AE+ + + VGI +D I +++RK+L +L+ G
Sbjct: 183 RRREHYQWNMDIIGVPGVEAEAELLAAIVTFFKRVGITSSDVGIKVSSRKVLQAVLKSYG 242
Query: 184 LHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF 243
+ ++ ++ +DKL+K + ++ L ++ E I+ ++
Sbjct: 243 IP-EESFAPVCVI---VDKLEKLPREEIEKELDT------------LGVSEEAIEGILDV 286
Query: 244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYT 303
LS+ KS+ +L L+ A + +L + L GY + + +++VRGL YYT
Sbjct: 287 LSL---KSLDDLEALLG---ADSEAVADLKQLFSLAEAYGY-QDWLVFDASVVRGLAYYT 339
Query: 304 GCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALK 363
G V+E GF + + ++ GGGRYD L+S F G++ PA GF G +IV L
Sbjct: 340 GIVFE---GFDRAGKLR------AICGGGRYDRLLSTFGGEDTPACGFGFG-DAVIVEL- 388
Query: 364 SLESSTNNIKEMG--PVLITTMDH-----DSDSLSKYQMYTQMLRTAGIRAEMFLGSSKN 416
+KE G P L +D D D LR G ++ L K
Sbjct: 389 --------LKEKGLLPELPHQVDDVVFALDEDLQGAAAGVASRLREKGRSVDLVL-EPKK 439
Query: 417 FGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREI 460
K+A+R ++ G E RGM+++KDL+ G++ ++
Sbjct: 440 LKWVFKHAERIGAKRLVLVGASEWERGMVRVKDLSSGEQTEVKL 483
>gnl|CDD|183413 PRK12295, hisZ, ATP phosphoribosyltransferase regulatory subunit;
Provisional.
Length = 373
Score = 84.2 bits (209), Expect = 6e-17
Identities = 92/387 (23%), Positives = 155/387 (40%), Gaps = 86/387 (22%)
Query: 29 ILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD---ED-RPNKGVFSLQDDDGQWISLR 84
+++ +E G ++ P+L+ FL D ED R + +F D++G+ + LR
Sbjct: 10 AAEALLASFEAAGAVRVDPPILQ---PAEPFL-DLSGEDIR--RRIFVTSDENGEELCLR 63
Query: 85 YDLTAPLAR-YVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSA-ET 142
D T P+ R ++A P R +G VFR + +F+Q +++ G +
Sbjct: 64 PDFTIPVCRRHIATAGGE---PARYAYLGEVFR--QRRDRA-SEFLQAGIESFGRADPAA 117
Query: 143 ADAEMCMMMADTLEAVGIKRNDYHIG-------------------------INNRKILDG 177
ADAE+ + + L A+G + +G + LD
Sbjct: 118 ADAEVLALALEALAALGPGDLEVRLGDVGLFAALVDALGLPPGWKRRLLRHFGRPRSLDA 177
Query: 178 ILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSG------------- 224
+L ++ D L+E VL A+ L+ G + G
Sbjct: 178 LLARLAGPRVDPLDEHAGVLAALADEAAARALVEDLMSIAGISPVGGRSPAEIARRLLEK 237
Query: 225 -DFTKGANLTSEQIDIMVSFLSI--DLEKSMHELYELVKGTIAGEKGFNELVVISELVR- 280
A L +E + ++ FL+I + ++ L L A + G + +
Sbjct: 238 AALAAAARLPAEALAVLERFLAISGPPDAALAALRAL-----AADAGLDLDAALDRFEAR 292
Query: 281 -----KSGYNSNRIKISSTIVRGLEYYTGCVYE---AILGFPVMNEKQKPVVFGSVGGGG 332
G + R++ S++ R L+YYTG V+E A G P P+ GGG
Sbjct: 293 LAALAARGIDLERLRFSASFGRPLDYYTGFVFEIRAAGNGDP-------PLA-----GGG 340
Query: 333 RYDGLVSRF-KGQNVPATGFSIGISRL 358
RYDGL++R G+ +PA GFSI + RL
Sbjct: 341 RYDGLLTRLGAGEPIPAVGFSIWLDRL 367
>gnl|CDD|183520 PRK12421, PRK12421, ATP phosphoribosyltransferase regulatory
subunit; Provisional.
Length = 392
Score = 67.3 bits (165), Expect = 9e-12
Identities = 99/376 (26%), Positives = 150/376 (39%), Gaps = 62/376 (16%)
Query: 11 LPRGFADC-PT---KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSL----GKFLPD 62
LP G AD P K R+R R+LD + G+ + PL+EY +SL G+ D
Sbjct: 9 LPDGVADVLPEEAQKIERLRRRLLDLFAS----RGYQLVMPPLIEYLESLLTGAGQ---D 61
Query: 63 EDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAE--NFDTIVFPCRTYRIGPVFRNEK 119
F L D G+ + +R D+T +AR A N + + C Y G V
Sbjct: 62 LKLQT---FKLIDQLSGRLMGVRADITPQVARIDAHLLNREGVARLC--Y-AGSVLHTLP 115
Query: 120 HGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGIL 179
G R +Q + G + AD E+ +M L G+ H+ + + I +
Sbjct: 116 QGLFGSRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNAGVPA--LHLDLGHVGIFRRLA 173
Query: 180 EKIGLHGDDKLNERLIVL---RAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQ 236
E GL +++ E L L +A+ +L + Q L +G D F A L
Sbjct: 174 ELAGLSPEEE--EELFDLLQRKALPELAEV-CQN--LGVGS---DLRRMFYALARLNG-- 223
Query: 237 IDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIV 296
LE L L A + +EL ++ ++ + I +
Sbjct: 224 ----------GLEALDRALSVLALQDAAIRQALDELKTLAAHLKNRWPELP-VSIDLAEL 272
Query: 297 RGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGIS 356
RG Y+TG V+ A + Q + G GRYDG+ F G+ PATGFS+ +
Sbjct: 273 RGYHYHTGLVFAAYIP----GRGQ-ALARG-----GRYDGIGEAF-GRARPATGFSMDLK 321
Query: 357 RLIVALKSLESSTNNI 372
L +AL+ LE I
Sbjct: 322 EL-LALQFLEEEAGAI 336
>gnl|CDD|183411 PRK12293, hisZ, ATP phosphoribosyltransferase regulatory subunit;
Provisional.
Length = 281
Score = 37.3 bits (87), Expect = 0.011
Identities = 30/118 (25%), Positives = 44/118 (37%), Gaps = 17/118 (14%)
Query: 10 ELPRG----FADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDR 65
E+P+G F K +++ I + I GF+ I TP Y
Sbjct: 6 EIPQGSKLYFG----KSAKLKREIENVASEILYENGFEEIVTPFFSYHQHQS------IA 55
Query: 66 PNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFR---NEKH 120
K + D+ ISLR D T + R V + + + I PVFR NE +
Sbjct: 56 DEKELIRFSDEKNHQISLRADSTLDVVRIVTKRLGRSTEHKKWFYIQPVFRYPSNEIY 113
>gnl|CDD|161893 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit. Most
phenylalanyl-tRNA synthetases are heterodimeric, with 2
alpha (pheS) and 2 beta (pheT) subunits. This model
describes the alpha subunit, which shows some similarity
to class II aminoacyl-tRNA ligases. Mitochondrial
phenylalanyl-tRNA synthetase is a single polypeptide
chain, active as a monomer, and similar to this chain
rather than to the beta chain, but excluded from this
model. An interesting feature of the alignment of all
sequences captured by this model is a deep split between
non-spirochete bacterial examples and all other
examples; supporting this split is a relative deletion
of about 50 residues in the former set between two
motifs well conserved throughout the alignment.
Length = 294
Score = 34.6 bits (80), Expect = 0.059
Identities = 34/118 (28%), Positives = 50/118 (42%), Gaps = 27/118 (22%)
Query: 27 NRILDSIRNIYENYGFDPIETPLLEYS----DSLGKFLPDEDRPNKGVFSLQDDDGQWIS 82
R++D IR+I+ GF + P +E D+L +P +D P + D +I
Sbjct: 75 TRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDAL--NIP-QDHP-----ARDMQDTFYIK 126
Query: 83 ----LRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE----KHGPGRFRQFIQCD 132
LR TA R + EN P R + G VFRN+ H P +F Q +
Sbjct: 127 DRLLLRTHTTAVQLRTMEENEKP---PIRIFSPGRVFRNDTVDATHLP----EFHQVE 177
>gnl|CDD|178118 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 34.6 bits (80), Expect = 0.062
Identities = 34/109 (31%), Positives = 44/109 (40%), Gaps = 30/109 (27%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL 83
R R +I+ IR ++ GF +ETP+L + G RP F +D L
Sbjct: 230 RTRAKIISYIRRFLDDRGFLEVETPMLN-MIAGGA----AARP----FVTHHND-----L 275
Query: 84 RYDLT---AP---LARYVAENFDTIVFPCRTYRIGPVFRNE----KHGP 122
DL A L R V F+ R Y IG FRNE +H P
Sbjct: 276 NMDLYLRIATELHLKRLVVGGFE------RVYEIGRQFRNEGISTRHNP 318
>gnl|CDD|131420 TIGR02367, PylS, pyrrolysyl-tRNA synthetase. PylS is the archaeal
enzyme responsible for charging the pyrrolysine tRNA,
PylT, by ligating a free molecule of pyrrolysine.
Pyrrolysine is encoded at an in-frame UAG (amber) at
least in several corrinoid-dependent methyltransferases
of the archaeal genera Methanosarcina and
Methanococcoides, such as trimethylamine
methyltransferase.
Length = 453
Score = 33.9 bits (77), Expect = 0.089
Identities = 43/189 (22%), Positives = 85/189 (44%), Gaps = 25/189 (13%)
Query: 33 IRNIYENYGFDPIETPLL---EYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA 89
I + + GF I++P+L EY + +G + ++ +K +F + + LR L
Sbjct: 249 ITKFFVDRGFLEIKSPILIPAEYIERMG--IDNDTELSKQIFRVDKN----FCLRPMLAP 302
Query: 90 PLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCM 149
L Y+ + + P + + IGP +R E G +F + +GS + E
Sbjct: 303 NLYNYLRKLDRALPDPIKIFEIGPCYRKESDGKEHLEEFTMLNFCQMGSGCTRENLE--A 360
Query: 150 MMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDK---LDK- 205
++ D L+ + I D+ I ++ + L+ +HGD +L+ ++ +D+ +DK
Sbjct: 361 IIKDFLDHLEI---DFEIVGDSCMVYGDTLDI--MHGDLELSSAVVGPIPLDREWGIDKP 415
Query: 206 -----FGLQ 209
FGL+
Sbjct: 416 WIGAGFGLE 424
>gnl|CDD|181936 PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewed.
Length = 417
Score = 33.7 bits (77), Expect = 0.10
Identities = 34/129 (26%), Positives = 58/129 (44%), Gaps = 12/129 (9%)
Query: 41 GFDPIETPLLEYSDSLGKFLPDEDRP-NKGVFSLQDDDGQWISLRYDLTAPLARYVAENF 99
GF I++P+L ++ + + D D +K +F + + LR L L Y+
Sbjct: 221 GFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKN----FCLRPMLAPGLYNYL-RKL 275
Query: 100 DTIV-FPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAV 158
D I+ P + + IGP +R E G +F + +GS + E ++ D L+ +
Sbjct: 276 DRILPDPIKIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRENLE--NIIDDFLKHL 333
Query: 159 GIKRNDYHI 167
GI DY I
Sbjct: 334 GI---DYEI 339
>gnl|CDD|129550 TIGR00458, aspS_arch, aspartyl-tRNA synthetase, archaeal type. In
a multiple sequence alignment of representative
asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic
type aspartyl-tRNA synthetases (aspS_arch), and
bacterial type aspartyl-tRNA synthetases (aspS_bact),
there is a striking similarity between asnS and
aspS_arch in gap pattern and in sequence, and a striking
divergence of aspS_bact. Consequently, a separate model
was built for each of the three groups. This model,
aspS_arch, represents aspartyl-tRNA synthetases from the
eukaryotic cytosol and from the Archaea. In some
species, this enzyme aminoacylates tRNA for both Asp and
Asn; Asp-tRNA(asn) is subsequently transamidated to
Asn-tRNA(asn).
Length = 428
Score = 32.5 bits (74), Expect = 0.24
Identities = 29/125 (23%), Positives = 43/125 (34%), Gaps = 43/125 (34%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLG-------------KFLPDEDRPNKGV 70
RIR+ +L+S+R GF + TP L S + G FL + K
Sbjct: 134 RIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPITYFEREAFLGQSPQLYKQQ 193
Query: 71 FSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGR-FRQFI 129
+A F+ R Y IGP+FR E+H R +
Sbjct: 194 L-----------------------MAAGFE------RVYEIGPIFRAEEHNTHRHLNEAT 224
Query: 130 QCDVD 134
D++
Sbjct: 225 SIDIE 229
>gnl|CDD|161870 TIGR00418, thrS, threonyl-tRNA synthetase. This model represents
the threonyl-tRNA synthetase found in most organisms.
This protein is a class II tRNA synthetase, and is
recognized by the pfam model tRNA-synt_2b. Note that B.
subtilis has closely related isozymes thrS and thrZ. The
N-terminal regions are quite dissimilar between archaeal
and eubacterial forms, while some eukaryotic forms are
missing sequence there altogether..
Length = 563
Score = 32.7 bits (75), Expect = 0.25
Identities = 30/123 (24%), Positives = 47/123 (38%), Gaps = 24/123 (19%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL 83
IRN + D +R YG+ +ETP++ Y L + D + +F + D + L
Sbjct: 201 TIRNLLEDFVRQKQIKYGYMEVETPIM-YDLELWEISGHWDNYKERMFPFTELDNREFML 259
Query: 84 RYDLTAPLARYVAENFDTIVF----------PCRTYRIGPVFRNEK----HGPGRFRQFI 129
+ + P ++F P R +G R E+ HG R R F
Sbjct: 260 KP-MNCP--------GHFLIFKSSLRSYRDLPLRIAELGYSHRYEQSGELHGLMRVRGFT 310
Query: 130 QCD 132
Q D
Sbjct: 311 QDD 313
>gnl|CDD|129590 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms.
Length = 496
Score = 32.0 bits (73), Expect = 0.34
Identities = 30/106 (28%), Positives = 44/106 (41%), Gaps = 24/106 (22%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL 83
+R++I+ +IR ++ GF +ETP+L+ G RP + D D
Sbjct: 173 LVRSKIIKAIRRFLDDRGFIEVETPMLQ-VIPGGA----NARPFITHHNALDMD------ 221
Query: 84 RYDLTAP---LARYVAENFDTIVFPCRTYRIGPVFRNE----KHGP 122
Y AP L R + F+ + Y IG FRNE H P
Sbjct: 222 LYLRIAPELYLKRLIVGGFE------KVYEIGRNFRNEGVDTTHNP 261
>gnl|CDD|178491 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 32.1 bits (73), Expect = 0.36
Identities = 19/60 (31%), Positives = 26/60 (43%), Gaps = 19/60 (31%)
Query: 17 DCPTKEIRIRNRILD------------------SIRNIYEN-YGFDPIETPLLEYSDSLG 57
D +E+R+R R+LD IR E+ +GF IETP+L S G
Sbjct: 179 DSIKEEVRLRYRVLDLRRPQMNANLRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEG 238
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 31.1 bits (70), Expect = 0.71
Identities = 28/111 (25%), Positives = 42/111 (37%), Gaps = 22/111 (19%)
Query: 26 RNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY 85
R +I++ +RN + GF +ETP + P + +D + LR
Sbjct: 256 RTKIINYLRNFLNDRGFIEVETPTMNLVAGGANARP--------FITHHNDLDLDLYLRI 307
Query: 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE----KHGPGRFRQFIQCD 132
PL + D + Y IG VFRNE H P +F C+
Sbjct: 308 ATELPLKMLIVGGID------KVYEIGKVFRNEGIDNTHNP----EFTSCE 348
>gnl|CDD|179042 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 30.8 bits (71), Expect = 0.75
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 23 IRIRNRILDSIRNIYENYGFDPIETPLL 50
+++R+++ +IRN ++ GF IETP+L
Sbjct: 141 LKLRSKVTSAIRNFLDDNGFLEIETPIL 168
>gnl|CDD|178496 PLN02908, PLN02908, threonyl-tRNA synthetase.
Length = 686
Score = 30.9 bits (70), Expect = 0.85
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETP 48
RI N+++D IR Y G+D + TP
Sbjct: 322 RIYNKLMDFIREQYWERGYDEVITP 346
>gnl|CDD|181111 PRK07773, PRK07773, replicative DNA helicase; Validated.
Length = 886
Score = 30.1 bits (68), Expect = 1.5
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 158 VGIKRNDYHIGINNRKILDGILEKIGLHGDDKLN 191
+G R+ YH+ I+ K L L +G G +K+
Sbjct: 670 LGKGRDQYHVHISGAKDLVRFLRHVGAVGAEKVA 703
>gnl|CDD|129558 TIGR00466, kdsB, 3-deoxy-D-manno-octulosonate cytidylyltransferase.
Length = 238
Score = 29.9 bits (67), Expect = 1.5
Identities = 14/88 (15%), Positives = 30/88 (34%), Gaps = 19/88 (21%)
Query: 126 RQFIQCDVDNVGSSAETADAEMCMMMAD-------TLEAVGIKRNDYHIGINNRKILDGI 178
R + D ++V + + E+CM E V + + + + +
Sbjct: 41 RCIVATDDESVAQTCQKFGIEVCMTSKHHNSGTERLAEVVEK------LALKDDERI--- 91
Query: 179 LEKIGLHGDDKLNERLIVLRAIDKLDKF 206
+ L GD+ + I+ + D L
Sbjct: 92 ---VNLQGDEPFIPKEIIRQVADNLATK 116
>gnl|CDD|161718 TIGR00120, ArgJ, glutamate N-acetyltransferase/amino-acid
acetyltransferase. This enzyme can acetylate Glu to
N-acetyl-Glu by deacetylating N-2-acetyl-ornithine into
ornithine; the two halves of this reaction represent the
first and fifth steps in the synthesis of Arg (or
citrulline) from Glu by way of ornithine (EC 2.3.1.35).
In Bacillus stearothermophilus, but not in Thermus
thermophilus HB27, the enzyme is bifunctional and can
also use acetyl-CoA to acetylate Glu (EC 2.3.1.1).
Length = 404
Score = 29.8 bits (67), Expect = 1.8
Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 3/102 (2%)
Query: 173 KILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANL 232
KI GI + G + N +AI D F + G G KGA +
Sbjct: 120 KIRTGINKLYGELKNSS-NSSDNFAKAIMTTDTFPKEVAVEFELPGEKVRIGGVAKGAGM 178
Query: 233 TSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVV 274
+ + M+ F++ D L +++ A +K FN++ V
Sbjct: 179 IAPNMATMLGFITTDAAIESKALQKML--RRATDKSFNQITV 218
>gnl|CDD|178244 PLN02638, PLN02638, cellulose synthase A (UDP-forming), catalytic
subunit.
Length = 1079
Score = 29.5 bits (66), Expect = 2.0
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 303 TGCVYE--AILGF--PVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRL 358
TGCV+ A+ G+ P+ + +KP S+ GG R S KG + +G + +
Sbjct: 629 TGCVFNRTALYGYEPPIKPKHKKPGFLSSLCGGSRKKSSKSSKKGSDKKKSGKHVDPTVP 688
Query: 359 IVALKSLE 366
+ L+ +E
Sbjct: 689 VFNLEDIE 696
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 29.6 bits (66), Expect = 2.1
Identities = 29/117 (24%), Positives = 48/117 (41%), Gaps = 20/117 (17%)
Query: 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGK---FLPDEDRPNKGVFSLQDDD 77
+ R+RI+ R+ ++ GF IETP+L S G +P P K ++L
Sbjct: 154 DHLAKRHRIIKCARDFLDSRGFLEIETPILTKSTPEGARDYLVPSRIHP-KEFYALPQSP 212
Query: 78 GQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVD 134
+ L + A RY +++ FR+E P R +F Q D++
Sbjct: 213 QLFKQLL--MIAGFERY--------------FQLARCFRDEDLRPNRQPEFTQLDIE 253
>gnl|CDD|179044 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 29.3 bits (67), Expect = 2.2
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLL 50
R R++I+ +IR +N GF +ETP+L
Sbjct: 173 RKRSKIISAIRRFLDNRGFLEVETPML 199
>gnl|CDD|179011 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 29.3 bits (67), Expect = 2.3
Identities = 34/137 (24%), Positives = 45/137 (32%), Gaps = 52/137 (37%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLL------EYSDSLGKFLPDEDRPNKGVFSLQDDD 77
IR + IR G+ ++TP + E S + R N +F + D
Sbjct: 271 TIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHY-----REN--MFPTTESD 323
Query: 78 GQWISLR-----------------Y-DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEK 119
G+ +L+ Y DL PL R AE G V R E
Sbjct: 324 GEEYALKPMNCPGHVQIYKQGLRSYRDL--PL-RL-AE-------------FGTVHRYEP 366
Query: 120 ----HGPGRFRQFIQCD 132
HG R R F Q D
Sbjct: 367 SGALHGLMRVRGFTQDD 383
>gnl|CDD|129551 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type. In
a multiple sequence alignment of representative
asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic
type aspartyl-tRNA synthetases (aspS_arch), and
bacterial type aspartyl-tRNA synthetases (aspS_bact),
there is a striking similarity between asnS and
aspS_arch in gap pattern and in sequence, and a striking
divergence of aspS_bact. Consequently, a separate model
was built for each of the three groups. This model,
aspS_bact, represents aspartyl-tRNA synthetases from the
Bacteria and from mitochondria. In some species, this
enzyme aminoacylates tRNA for both Asp and Asn;
Asp-tRNA(asn) is subsequently transamidated to
Asn-tRNA(asn). This model generates very low scores for
the archaeal type of aspS and for asnS; scores between
the trusted and noise cutoffs represent fragmentary
sequences.
Length = 583
Score = 28.9 bits (65), Expect = 2.8
Identities = 10/30 (33%), Positives = 21/30 (70%)
Query: 21 KEIRIRNRILDSIRNIYENYGFDPIETPLL 50
+ +++R+++ ++RN + GF IETP+L
Sbjct: 136 QRLKLRHKVTKAVRNFLDQQGFLEIETPML 165
>gnl|CDD|114830 pfam06134, RhaA, L-rhamnose isomerase (RhaA). This family consists
of several bacterial L-rhamnose isomerase proteins
(EC:5.3.1.14).
Length = 416
Score = 28.6 bits (64), Expect = 3.6
Identities = 11/44 (25%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 11 LPRGFADCPTKEIRIRNRILDSIRNIY-----ENYGFDPIETPL 49
+P G+ D P+ + R R+ +++ ++ E Y D +E+ L
Sbjct: 184 IPDGYKDIPSDRLTPRKRLKEALDEVFSEKLDEAYNLDAVESKL 227
>gnl|CDD|179948 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 28.6 bits (65), Expect = 4.1
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 107 RTYRIGPVFRNEKH 120
R + IGPVFR E+H
Sbjct: 204 RVFEIGPVFRAEEH 217
>gnl|CDD|181528 PRK08661, PRK08661, prolyl-tRNA synthetase; Provisional.
Length = 477
Score = 28.6 bits (65), Expect = 4.1
Identities = 23/100 (23%), Positives = 40/100 (40%), Gaps = 30/100 (30%)
Query: 398 QMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELS 457
+ L+ AGIR ++ S K G + + + PL I G
Sbjct: 314 EELKKAGIRVKLDDRSDKTPGWKFNEWELKGVPLRIEIG--------------------P 353
Query: 458 REIKNNESWREARVAQ------ITIPISELVSTVKKILQE 491
R+++NN + + T+P+ ELV V ++L+E
Sbjct: 354 RDLENNT----VVLVRRDTLEKETVPLDELVEKVPELLEE 389
>gnl|CDD|179744 PRK04132, PRK04132, replication factor C small subunit;
Provisional.
Length = 846
Score = 28.3 bits (63), Expect = 4.4
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 126 RQFIQCD--VDNVGSSAETADAEMCMMMADTLEAVGIK---RNDYHIGINNRKILDGILE 180
R + C+ ++ TA EM + L GI R YH+ I+ + L L+
Sbjct: 264 RAYFDCNGGIEKDAIVLSTASKEMAEQIVYALAGFGIIAKLREKYHVIISGSENLKRFLD 323
Query: 181 KIGLHGDDKLNERLIVLR 198
+IG ++KL + L +++
Sbjct: 324 EIGFSQEEKLEKALKLIK 341
>gnl|CDD|178180 PLN02567, PLN02567, alpha,alpha-trehalase.
Length = 554
Score = 28.5 bits (64), Expect = 4.6
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 11/36 (30%)
Query: 316 MNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGF 351
M+EK G VGGGG Y +P TGF
Sbjct: 506 MHEKYDARYCGEVGGGGEY-----------IPQTGF 530
>gnl|CDD|161887 TIGR00457, asnS, asparaginyl-tRNA synthetase. In a multiple
sequence alignment of representative asparaginyl-tRNA
synthetases (asnS), archaeal/eukaryotic type
aspartyl-tRNA synthetases (aspS_arch), and bacterial
type aspartyl-tRNA synthetases (aspS_bact), there is a
striking similarity between asnS and aspS_arch in gap
pattern and in sequence, and a striking divergence of
aspS_bact. Consequently, a separate model was built for
each of the three groups. This model, asnS, represents
asparaginyl-tRNA synthetases from the three domains of
life. Some species lack this enzyme and charge tRNA(asn)
by misacylation with Asp, followed by transamidation of
Asp to Asn.
Length = 453
Score = 28.1 bits (63), Expect = 4.9
Identities = 22/99 (22%), Positives = 37/99 (37%), Gaps = 14/99 (14%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL 83
R+RN + +I ++ GF + P+L +D G +F + D +
Sbjct: 137 RVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGA---------GELFRVSTDGIDFSQD 187
Query: 84 RYDLTAPLARYVAENFDTIVFPC---RTYRIGPVFRNEK 119
+ A L V+ + + Y GP FR EK
Sbjct: 188 FFGKEAYLT--VSGQLYLETYALALSKVYTFGPTFRAEK 224
>gnl|CDD|148911 pfam07558, Shugoshin_N, Shugoshin N-terminal coiled-coil region.
The Shugoshin protein is found to have this conserved
N-terminal coiled-coil region and a highly conserved
C-terminal basic region, family Shugoshin_C pfam07557.
Shugoshin is a crucial target of Bub1 kinase function at
kinetochores, necessary for both meiotic and mitotic
localisation of shugoshin to the kinetochore. Human
shugoshin is diffusible and mediates kinetochore-driven
formation of kinetochore-microtubules during bipolar
spindle assembly. Further, the primary role of shugoshin
is to ensure bipolar attachment of kinetochores, and its
role in protecting cohesion has co-developed to
facilitate this process.
Length = 46
Score = 27.9 bits (63), Expect = 5.9
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 8/39 (20%)
Query: 454 KELSREIKNNESWREARVAQITIPISELVSTVKKILQEN 492
K+ + KNN + ++I ISEL V K+L EN
Sbjct: 7 KQNAELAKNN--------SALSIKISELEKEVSKLLNEN 37
>gnl|CDD|182254 PRK10124, PRK10124, putative UDP-glucose lipid carrier transferase;
Provisional.
Length = 463
Score = 27.8 bits (62), Expect = 6.9
Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 1/70 (1%)
Query: 274 VISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFG-SVGGGG 332
+ + +R GYN + ++ + G E LGF V+ P G S G
Sbjct: 131 IGAGWLRNHGYNKRMVAVAGDLPAGQMLLESFRNEPWLGFEVVGVYHDPKPGGVSNDWAG 190
Query: 333 RYDGLVSRFK 342
LV K
Sbjct: 191 NLQQLVEDAK 200
>gnl|CDD|132714 TIGR03675, arCOG00543, arCOG00543 universal archaeal
KH-domain/beta-lactamase-domain protein. This family of
proteins is universal in the archaea and consistsof an
N-terminal type-1 KH-domain (pfam00013) a central
beta-lactamase-domain (pfam00753) with a C-terminal
motif associated with RNA metabolism (pfam07521).
KH-domains are associated with RNA-binding, so taken
together, this protein is a likely metal-dependent
RNAase. This family was defined in as arCOG01782.
Length = 630
Score = 27.6 bits (62), Expect = 7.7
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 452 KGKELSREIKNNESWREARVAQITIPI-SELVSTVKKILQENKEE 495
KG REI W +V + T PI S+ + +++ L+ EE
Sbjct: 110 KGGSTLREITAETGWT-PKVVR-TPPIESKTIKNIREYLRSESEE 152
>gnl|CDD|181701 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated.
Length = 367
Score = 27.6 bits (62), Expect = 7.8
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 45 IETPLLEYSDS-LGKFLPDEDRPN 67
+ETP+ E DS LG F+ D+D +
Sbjct: 262 LETPIGEEDDSHLGDFIEDQDATS 285
>gnl|CDD|185610 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 27.3 bits (60), Expect = 9.0
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLG 57
IRIRN + + +++ GF I TPL+ SD G
Sbjct: 215 IRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEG 249
>gnl|CDD|177368 PHA02517, PHA02517, putative transposase OrfB; Reviewed.
Length = 277
Score = 27.1 bits (60), Expect = 9.3
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 7/50 (14%)
Query: 362 LKSLESSTNNIKEMGPVLITTMDHDSDSLSKY--QMYTQMLRTAGIRAEM 409
L +LE + G ++ H SD S+Y YTQ L+ AGIRA
Sbjct: 155 LDALEQALWARGRPGGLI-----HHSDKGSQYVSLAYTQRLKEAGIRAST 199
>gnl|CDD|177796 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 27.4 bits (61), Expect = 9.3
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 229 GANLTSEQIDIM--VSFLSIDLEKSMHELYELVKGTIAGE 266
GA+L + I ++ + LSI EKSM E E++K + GE
Sbjct: 379 GADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGE 418
>gnl|CDD|185085 PRK15131, PRK15131, mannose-6-phosphate isomerase; Provisional.
Length = 389
Score = 27.2 bits (61), Expect = 9.4
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 73 LQDDDGQWISLR----YDLTAPLARYVAENFDTIVF 104
+QD +G +SLR D +A L VA+ F + F
Sbjct: 48 VQDANGDIVSLRDVIESDKSALLGEAVAKRFGELPF 83
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 27.3 bits (60), Expect = 9.8
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 24 RIRNRILDSIRNIYENYGFDPIETPLLE 51
+R++IL +IR GF +ETP+++
Sbjct: 185 VVRSKILAAIRQFMVARGFMEVETPMMQ 212
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.318 0.138 0.393
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,144,822
Number of extensions: 546409
Number of successful extensions: 1234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1180
Number of HSP's successfully gapped: 61
Length of query: 496
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 399
Effective length of database: 3,898,497
Effective search space: 1555500303
Effective search space used: 1555500303
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: 59 (26.4 bits)