RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9573
(809 letters)
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 788 bits (2037), Expect = 0.0
Identities = 304/816 (37%), Positives = 470/816 (57%), Gaps = 34/816 (4%)
Query: 1 MQIPENWLRTIINPKLSSNDLANLLTMSGLETEKIETNIPIFSKIIIGKIINIIKHPDID 60
M+ +WL+ +NP +SS +LA LTM GLE E +E S +++GK++ KHP+ D
Sbjct: 1 MKFSLSWLKEYVNPDISSEELAEALTMIGLEVEGVEDVAAGLSGVVVGKVLECEKHPNAD 60
Query: 61 NFNICKVDTYKNILDIVCNIPNIRVGLKVPCAIIGSSLLCINKKKSFIINIEKKYKIKSY 120
+C+VD + L IVC PN+R G KVP A+ G+ L F I K ++S
Sbjct: 61 KLRVCQVDVGEEPLQIVCGAPNVRAGDKVPVALPGAVL-----PGGFKIKKAKLRGVESE 115
Query: 121 GLLCSEYDLKINNKNKYLFELPEDAPIGKNFYDYYKFNNLKFVIKLTPNRGDCLSLLGIA 180
G+LCS +L +++ + + ELPEDAP+G + +Y ++ I LTPNR DCLS+ GIA
Sbjct: 116 GMLCSASELGLSDDHDGIIELPEDAPVGTDAREYLGLDDTVIEISLTPNRADCLSVRGIA 175
Query: 181 REISILSNTPLKLLNTKITLPNYKEILPVKISAIDLCGRFSGRIIRGINPKALTPKWMKI 240
RE++ L PLKL + + LPV+I DLC R++GR+I+G+ A +P W++
Sbjct: 176 RELAALLGLPLKLPEIEPVPATIDDKLPVEIEDPDLCPRYAGRVIKGVKNIAPSPLWLQE 235
Query: 241 RLEDSGQKLVSVLHDITNYVMLELGIPINIFDLSKISGELNIRWGNIGETIKISNDLIIK 300
RL +G + ++ + DITNYVMLELG P++ FDL KI G + +R GE + +
Sbjct: 236 RLRAAGIRPINNVVDITNYVMLELGQPLHAFDLDKIGGGIVVRRAKEGEKLTTLDGKERT 295
Query: 301 IDKNIGIISDNFKIISLSGIINGFDASVTLNTKDIYLGVAFWWPNSIRGKSNHYNLVTES 360
+D +I+D+ K ++L+G++ G D+ VT NT ++ L A++ P SIR + L T++
Sbjct: 296 LDPEDLVIADDKKPLALAGVMGGEDSEVTENTTNVLLESAYFDPVSIRKTARRLGLRTDA 355
Query: 361 SYRFERGIDFSKTIKCLERVTNLIIEI-CGTSSSKISQIDDQIINIPVRKEIKVRSERVI 419
SYRFERG+D + T+ LER T LI+E+ G + + P I +R ER+
Sbjct: 356 SYRFERGVDPALTLLALERATALILELGGGEVVEGVVDVYPL----PKEPTITLRLERIN 411
Query: 420 KILGIKLTNQEISNIFIRLKFHFIQKNN-IFLVIPPAHRFDLEIEEDIIEEIIRIYGFEN 478
++LG +++++EI +I RL F + + V P+ RFD+EIEED++EE+ RIYG++N
Sbjct: 412 RLLGTEISDEEIVDILKRLGFEVTEVDGDGLTVTVPSWRFDIEIEEDLVEEVARIYGYDN 471
Query: 479 IPISLPITVSKISPIKEGYQSLFSIRHQLAFADYQEVINYSFIEDSLEKDFSQNINNYPI 538
IP + P+ + + E + L +R LA YQEVI YSF+ K F +N P+
Sbjct: 472 IPSTPPVAALTMGGLTEAQRLLRRLRRALAALGYQEVITYSFVSPEDAKLF--GLNPEPL 529
Query: 539 ELLNPISKKFNTMRSTLIGSLVNNICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTVSG 598
LLNPIS++ + MR++L+ L+ + YNL R + + LFEI V+L D
Sbjct: 530 LLLNPISEELSVMRTSLLPGLLEAVAYNLNRGNKDVALFEIGRVFLPD---------GDL 580
Query: 599 YKELKKIAVIAYGPLLEPQWGEENRNIDYFDLKNDLENLFFPIKLNFLKI----NNSILH 654
+E + +A + G +E WG R +D+FDLK D+E L + L ++ + LH
Sbjct: 581 PREPEHLAGVLTGNRVEESWG-GKRPVDFFDLKGDVEALLEALGLPEVEFVAEFEAAALH 639
Query: 655 PNRSALIFKKTKNIGFIGEIHPILQQKYDLPLAPIFFEV--DALELQKRQIPNYIQISKF 712
P RSA I+ K IGFIGE+HP + +K DLP FE+ DAL R++P Y ISKF
Sbjct: 640 PGRSAEIYLDGKVIGFIGELHPKVLKKLDLPGRTYVFELDLDALLEAARKLPKYKPISKF 699
Query: 713 PNVVRDIVFIFNKNINLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEKSFAF 772
P V RD+ + ++++ D++ + K +++S+ LFD Y GK + + +KS AF
Sbjct: 700 PAVRRDLALVVDEDVPAADILKAI---KKAGGK--LLESVELFDVYEGKGIGEGKKSLAF 754
Query: 773 RCILQDPKKTLKNNIINNAINALINSVCKNFNAKLR 808
R QDP +TL + IN A++ ++ ++ + F A+LR
Sbjct: 755 RLTFQDPDRTLTDEEINAAMDKIVAALEEKFGAELR 790
>gnl|CDD|232990 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase, beta subunit,
non-spirochete bacterial. Every known example of the
phenylalanyl-tRNA synthetase, except the monomeric form
of mitochondrial, is an alpha 2 beta 2 heterotetramer.
The beta subunits break into two subfamilies that are
considerably different in sequence, length, and pattern
of gaps. This model represents the subfamily that
includes the beta subunit from Bacteria other than
spirochetes, as well as a chloroplast-encoded form from
Porphyra purpurea. The chloroplast-derived sequence is
considerably shorter at the amino end, however, so This
model was built in fragment mode [Protein synthesis,
tRNA aminoacylation].
Length = 797
Score = 575 bits (1485), Expect = 0.0
Identities = 277/819 (33%), Positives = 448/819 (54%), Gaps = 33/819 (4%)
Query: 1 MQIPENWLRTIINPKLSSND-LANLLTMSGLETEKIETNIPIFSKIIIGKIINIIKHPDI 59
M+I WLR + N+ +A LT GLE E + +++GK++ + HP+
Sbjct: 1 MKISLKWLREYVPLSEIDNEEIAEALTSIGLEVEAVIPFSKPLKGVVVGKVLEVEPHPNA 60
Query: 60 DNFNICKVDT-YKNILDIVCNIPNIRVGLKVPCAIIGSSLLCINKKKSFIINIEKKYKIK 118
D +CKVD K +L IVC PN+ G KV A+ G+ L I K ++
Sbjct: 61 DKLKVCKVDIGEKEMLQIVCGAPNVEAGKKVAVALPGAKLP-----NGLKIKKSKLRGVE 115
Query: 119 SYGLLCSEYDLKINNKNKYLFELPEDAPIGKNFYDYYKFNNLKFVIKLTPNRGDCLSLLG 178
S G+LCSE +L ++ K+ + L EDAP+G + +Y ++ + +TPNRGDCLS+LG
Sbjct: 116 SEGMLCSESELGLDEKSDGIIVLDEDAPLGTDIAEYLGLDDDIIEVSITPNRGDCLSILG 175
Query: 179 IAREISILSNTPLKLLNTKITLPNY--KEILPVKISAIDLCGRFSGRIIRGINPKALTPK 236
IARE++ L + L+ E ++I ++C + GR+I+G+ +P
Sbjct: 176 IARELAALFDLNLETPVPFEPETTETIDEGFKIEIEDPEVCPFYLGRVIKGVK-VKPSPL 234
Query: 237 WMKIRLEDSGQKLVSVLHDITNYVMLELGIPINIFDLSKISGELNIRWGNIGETIKISND 296
W+K RL SG + ++ + DITNYVMLELG P++ FD KI G + +R GE+ +
Sbjct: 235 WLKERLRRSGIRPINNIVDITNYVMLELGQPLHAFDADKIEGNIVVRSAKEGESFTTLDG 294
Query: 297 LIIKIDKNIGIISDNFKIISLSGIINGFDASVTLNTKDIYLGVAFWWPNSIRGKSNHYNL 356
++ K +I+D+ K ++++G++ G ++ VT T +I+L A++ P SIR + +
Sbjct: 295 KERELKKGDLVIADDKKPLAIAGVMGGKESGVTDTTTNIFLESAYFNPESIRKTARRLGI 354
Query: 357 VTESSYRFERGIDFSKTIKCLERVTNLIIEICGTSSSKISQIDDQIINIPVRKEIKVRSE 416
T+SSYRFERG+D T L+R NLI+EI G IS + D K+I +R +
Sbjct: 355 STDSSYRFERGVDPELTELALDRALNLILEIFG--GEVISVVSDNYKEKAKEKKISLRIK 412
Query: 417 RVIKILGIKLTNQEISNIFIRLKFHFIQKNNIFLVIPPAHRFDLEIEEDIIEEIIRIYGF 476
++ KILGI+L+++E+ +I RL F ++ + + V P++R D+EIEED+IEEI RIYG+
Sbjct: 413 KLNKILGIELSDEEVRDILKRLGFKVEKQKDGWEVTVPSYRHDIEIEEDLIEEIARIYGY 472
Query: 477 ENIPISLPITVSKISPIKEGYQSLFSIRHQLAFADYQEVINYSFIEDSLEKDFSQNINNY 536
+NIP SK++ E Y L +R L EVI YSF++ + F+
Sbjct: 473 DNIPAEPLSVSSKLNKNNENYLLLRKLRTLLVGLGLNEVITYSFVDPEKAEKFNFPKLEN 532
Query: 537 PIELLNPISKKFNTMRSTLIGSLVNNICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTV 596
+E+ NP+S + + +R++L+ SL+ + YN RK + +++FEI V+ D
Sbjct: 533 LVEIKNPLSNERSVLRTSLLPSLLEVLAYNQNRKNKDVKIFEIGKVFAKDG--------- 583
Query: 597 SGYKELKKIAVIAYGPLLEPQWGEENRNIDYFDLKNDLENLFFPIKLN-----FLKINNS 651
KE ++A++ G W + +D++DLK D+E+L + L+ N
Sbjct: 584 EAVKEQLRLAILISGEKNPSSWNHKEEKVDFYDLKGDVESLLELLGLSDDVYFKNTAENE 643
Query: 652 ILHPNRSALIFKKTKNIGFIGEIHPILQQKYDLPLAPIFFEV--DALELQKRQIPNYIQI 709
LHP +SA I+ K K IGFIGE+HP + +KYDL FE+ D L +++P Y I
Sbjct: 644 ELHPGQSATIYLKGKKIGFIGELHPEIAKKYDLKEPTFVFELDLDRLLESLKKVPKYRPI 703
Query: 710 SKFPNVVRDIVFIFNKNINLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEKS 769
SKFP V RDI F+ K++ +++ + ++ + LFD Y GK + + +KS
Sbjct: 704 SKFPAVTRDISFLVPKDVPANEIIKLIKKSGLEL-----LEEVELFDVYQGKNIGEGKKS 758
Query: 770 FAFRCILQDPKKTLKNNIINNAINALINSVCKNFNAKLR 808
A R +L+D ++TL + IN + ++N++ + A+LR
Sbjct: 759 LALRLVLRDKERTLTDEEINKIVEKVLNALKEKLGAELR 797
>gnl|CDD|223150 COG0072, PheT, Phenylalanyl-tRNA synthetase beta subunit
[Translation, ribosomal structure and biogenesis].
Length = 650
Score = 502 bits (1294), Expect = e-169
Identities = 229/669 (34%), Positives = 369/669 (55%), Gaps = 26/669 (3%)
Query: 147 IGKNFYDYYKFNNLKFVIKLTPNRGDCLSLLGIAREISILSNTPLKLLNTKITLPNYKEI 206
+ +Y ++L I +TPNR DCLS+LGIARE++ + L+ + L + + +
Sbjct: 1 MPTIVREYLDLDDLIIEISITPNRADCLSMLGIARELAAEYDLKLEFPKIRD-LESAEGL 59
Query: 207 ---LPVKISAI-DLCGRFSGRIIRGINPKALTPKWMKIRLEDSGQKLVSVLHDITNYVML 262
+ ++I A C R++GR+I+G+ A +P W++ RL G + ++ L DITNYV L
Sbjct: 60 ARKIFLEIEAGKYACPRYAGRVIKGVKVNAPSPLWLQARLRGVGIRPINNLVDITNYVHL 119
Query: 263 ELGIPINIFDLSKISGELNIRWGNIGETIKISNDLIIKIDKNIGIISDNFKIISLSGIIN 322
ELG P + FD+ KI G++ +R+ GET+ + ++ +I+D+ K ++L+G++
Sbjct: 120 ELGQPRHAFDIGKIDGKIPVRYAKEGETLVFLDGKERELLTGDLVIADHEKGLALAGVMG 179
Query: 323 GFDASVTLNTKDIYLGVAFWWPNSIRGKSNHYNLVTESSYRFERGIDFSKTIKCLERVTN 382
G D+ V NT D+ L VA + P I S L TE+S+RFERG+D K L R T
Sbjct: 180 GADSEVDPNTTDVLLEVASFPPIIISKTSRRLGLDTEASFRFERGVDPELVEKALNRATT 239
Query: 383 LIIEICGTSSSKISQIDDQIINIPVRKEIKVRSERVIKILGIKLTNQEISNIFIRLKFHF 442
L+ EICG S + I + ++I++R ER+ ++LG++L+ +EI I RL F
Sbjct: 240 LLAEICGGEVSSV-VIVGGDEKLTPPRKIELRLERINRLLGLELSAEEIEKILKRLGFKV 298
Query: 443 IQKNNIFLVIPPAHRFDLEIEEDIIEEIIRIYGFENIPISLPITVSKISPIKEGYQSLF- 501
K + V P++R D+ IE D+IEE+ RIYG+ NIP LP + Q
Sbjct: 299 EVKGDGLTVTVPSYRVDILIEADLIEEVARIYGYNNIPPELPSAFTIGRGGLTPLQKFRR 358
Query: 502 SIRHQLAFADYQEVINYSFIEDSLEKDFSQNINNYPIELLNPISKKFNTMRSTLIGSLVN 561
+R L +QEVI YS K F N+ +EL NPIS++++ +R++L+ L+
Sbjct: 359 KVRRALVGLGFQEVITYSLTSPEEAKLF-GLENDEALELANPISEEYSVLRTSLLPGLLE 417
Query: 562 NICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTVSGYKELKKIAVIAYGPLLEPQWGEE 621
+ YN RK +R+FEI +V++ D+ +E + +A +A G E W +
Sbjct: 418 ALSYNKNRKNPDVRIFEIGDVFVKDE---------EAERETRHLAGLAAGLAGEESWQGK 468
Query: 622 NRNIDYFDLKNDLENLF--FPIKLNFLKINNSILHPNRSALIFKKTKNIGFIGEIHPILQ 679
R +D++D K DLE L ++ F + HP RSA I+ + IGFIGE+HP +
Sbjct: 469 -RPVDFYDAKGDLEALLEALGVEYEFEPAEHPAFHPGRSAAIYLNKEVIGFIGELHPEVL 527
Query: 680 QKYDLPLAPIFFEVDALELQKRQIPNYIQISKFPNVVRDIVFIFNKNINLQDVMDTMFFE 739
+++DLP FE+D L KR+ P Y ISKFP V RDI + ++++ D++ +
Sbjct: 528 KEFDLPGPVYVFEIDLDALLKRKKPAYKPISKFPAVRRDIALVVDEDVPAGDIVKAI--- 584
Query: 740 KNNNSNCFIIQSISLFDKYCGKKLKDNEKSFAFRCILQDPKKTLKNNIINNAINALINSV 799
K +++S++LFD Y K L + +KS A R QDP++TL + +N +N ++ ++
Sbjct: 585 KKAGGK--LLESVNLFDVY-QKGLGEGKKSLAIRLTFQDPERTLTDEEVNALVNKIVEAL 641
Query: 800 CKNFNAKLR 808
+ F A+LR
Sbjct: 642 KEKFGAELR 650
>gnl|CDD|214391 CHL00192, syfB, phenylalanyl-tRNA synthetase beta chain;
Provisional.
Length = 704
Score = 237 bits (607), Expect = 1e-67
Identities = 202/678 (29%), Positives = 327/678 (48%), Gaps = 58/678 (8%)
Query: 164 IKLTPNRGDCLSLLGIAREISILSN-TPLKLLNTKITLPNYKEI--LPVKISAIDLCGRF 220
I T NR D LS+ G++REIS L N P+KL ++ + ++ L S+ C F
Sbjct: 51 ISSTANRSDVLSIQGLSREISALFNSDPIKLKYYNPSISWFDKLKNLISNDSSKLNCSMF 110
Query: 221 SGRIIRGINPKALTPKWMKIRLEDSGQKLVSVLHDITNYVMLELGIPINIFDLSKISG-- 278
II I K +PKW++ RL SG K ++ L DI NY+MLE G PI I+DL KI
Sbjct: 111 IAVIIENIEIKD-SPKWLQNRLSSSGFKSLNNLTDIQNYIMLETGQPIEIYDLDKIYSKN 169
Query: 279 ---ELNIRWGNIGETIK--ISNDLIIKIDKNIGIISDNFKIISLSGIINGFDASVTLNTK 333
L + + SN I+++ NI ++ N IIS++GII+ + NTK
Sbjct: 170 TTSSLALSSKFALQKSSFIASNSKNIELENNILVVQANNVIISIAGIISNEEIICDKNTK 229
Query: 334 DIYLGVAFWWPNSIRGKSNHYNLVTESSYRFERGIDFSKTIKCLERVTNLIIEICGTSSS 393
I + + + IR S L T+ S R+E+ + ++ R+ +L+ +
Sbjct: 230 SILIEASIFDAAVIRKSSRKLGLRTDRSIRYEKSLKNDNLLEAYYRLVSLLRILNPKLKC 289
Query: 394 KISQIDDQIINIPVRKEIKVRSERVIKILG--------IKLTNQEISNIFIRLKFHFI-- 443
K I +I N R IK+ +++ ILG L+ +EI+N RL F
Sbjct: 290 KFHFIYKKIKNSSRR--IKLSYKKIKDILGPIKINTNTRYLSPKEITNALKRLNFKITYD 347
Query: 444 -QKNNIFLVIPPAHRFDLEIEEDIIEEIIRIYGFENIPISLPITVSKISPIKEGYQSLFS 502
K N ++IP + D+ E D+IEEI RIYGF N LP + I + Y +
Sbjct: 348 SLKLNWEVLIPSYRKDDIVREIDVIEEIARIYGFNNFLSKLP-NIKFIGRLDIDYNTRDK 406
Query: 503 IRHQLAFADYQEVINYSFIEDSLEKDFSQNINNYPIELLNPISKKFNTMRSTLIGSLVNN 562
IR L E+I+YS ++ ++ FS+N I+L NP+ K ++T+RS+L+ L+
Sbjct: 407 IRSYLRNLGLTELIHYSLVK---QESFSKN----EIKLKNPLIKDYSTLRSSLLPGLIEA 459
Query: 563 ICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTVSGYKELKKIAVIAYGPLLEPQWGEEN 622
+ NLK+ + FEI +V+ D + S +E + I G + W E+
Sbjct: 460 VQENLKQGNSTLEGFEIGHVFNLD--------SSSIIEETELAGGIFGGIDIRSSWSEKA 511
Query: 623 RNIDYFDLKNDLENLF----FPIKLNFLKINNS--ILHPNRSALIFKKT-KNIGFIGEIH 675
+++++F+ K +EN F PI + HP ++ IF + IG G++H
Sbjct: 512 QSLNWFEAKGIIENFFQKLNLPIYWKKYSDLDEKINFHPYCTSEIFLSNGQKIGIFGQLH 571
Query: 676 PILQQKYDLPLAPIFFEVDALELQKRQIP-----NYIQISKFPNVVRDIVFIFNKNINLQ 730
P+L K +L FE++ L++ + I +Y S +P ++RD+ FI K+I++
Sbjct: 572 PLLANKLNLNTEIYLFEIN-LDILQYSIQQNNLISYQPYSSYPKIIRDLSFIIKKSISIS 630
Query: 731 DVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEKSFAFRCILQDPKKTLKNNIINN 790
+ + ++ +N +++SI+LFD Y GK + + S R Q KTL N I+
Sbjct: 631 KIKELIYQNGDN-----LLESITLFDYYKGKSIPNGHTSLGLRLTFQSENKTLTNEEIDR 685
Query: 791 AINALINSVCKNFNAKLR 808
L + K NA++R
Sbjct: 686 IQQNLQKVLEKKLNAEIR 703
Score = 31.2 bits (71), Expect = 2.4
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 1 MQIPENWLRTIIN-PKLSSNDLANLLTMSGLETEKIETNIPIFSKIII 47
M+I WL+ +IN + + L N LT++G E E I + II
Sbjct: 1 MKISLKWLKELINLENIDLDTLINKLTLAGFEVEDILSVKIGGESDII 48
>gnl|CDD|202662 pfam03483, B3_4, B3/4 domain. This domain is found in tRNA
synthetase beta subunits as well as in some non tRNA
synthetase proteins.
Length = 159
Score = 174 bits (444), Expect = 9e-51
Identities = 61/156 (39%), Positives = 100/156 (64%)
Query: 234 TPKWMKIRLEDSGQKLVSVLHDITNYVMLELGIPINIFDLSKISGELNIRWGNIGETIKI 293
+P+W++ RL +G + ++ + DITNYVMLELG P++ FDL KI+G++ +R GE
Sbjct: 4 SPEWLQRRLRRAGIRPINNVVDITNYVMLELGQPLHAFDLDKIAGDIVVRLAKGGEKFTT 63
Query: 294 SNDLIIKIDKNIGIISDNFKIISLSGIINGFDASVTLNTKDIYLGVAFWWPNSIRGKSNH 353
+ ++D +I+D+ ++L+GI+ G ++ VT +T +I+L A++ P +IR S
Sbjct: 64 LDGKERELDPGDLVIADDDGPVALAGIMGGEESEVTEDTTNIFLESAYFDPVAIRKTSRK 123
Query: 354 YNLVTESSYRFERGIDFSKTIKCLERVTNLIIEICG 389
L T++SYRFERG+D L+R T LI+E+CG
Sbjct: 124 LGLRTDASYRFERGVDPELVELALDRATALILELCG 159
>gnl|CDD|214876 smart00873, B3_4, B3/4 domain. This domain is found in tRNA
synthetase beta subunits as well as in some non tRNA
synthetase proteins.
Length = 174
Score = 167 bits (425), Expect = 5e-48
Identities = 64/174 (36%), Positives = 106/174 (60%), Gaps = 1/174 (0%)
Query: 217 CGRFSGRIIRGINPKALTPKWMKIRLEDSGQKLVSVLHDITNYVMLELGIPINIFDLSKI 276
C R+ GR+IRG+ +P+W++ RL +G + ++ + DITNYV LE G P++ FDL KI
Sbjct: 1 CPRYLGRVIRGVKNTRPSPEWLQERLHRAGIRPINNVVDITNYVSLETGQPLHAFDLDKI 60
Query: 277 SGE-LNIRWGNIGETIKISNDLIIKIDKNIGIISDNFKIISLSGIINGFDASVTLNTKDI 335
G+ + +R GE + + ++D+ +I+D+ ++L+G++ G ++ VT NT I
Sbjct: 61 KGKDIPLRRAKEGEKFETLDGKEYELDEGDLVIADDEGPLALAGVMGGEESEVTENTTVI 120
Query: 336 YLGVAFWWPNSIRGKSNHYNLVTESSYRFERGIDFSKTIKCLERVTNLIIEICG 389
+L A + P +IR + NL T++S RFERG+D L+R L++EICG
Sbjct: 121 FLEPAIFSPRTIRITARTLNLFTDASGRFERGVDPELVELALDRAAALLLEICG 174
>gnl|CDD|238392 cd00769, PheRS_beta_core, Phenylalanyl-tRNA synthetase (PheRS) beta
chain core domain. PheRS belongs to class II
aminoacyl-tRNA synthetases (aaRS) based upon its
structure. 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. While the alpha chain contains a
catalytic core domain, the beta chain has a
non-catalytic core domain.
Length = 198
Score = 159 bits (404), Expect = 8e-45
Identities = 61/204 (29%), Positives = 106/204 (51%), Gaps = 14/204 (6%)
Query: 495 EGYQSLFSIRHQLAFADYQEVINYSFIEDSLEKDFSQNINNYPIELLNPISKKFNTMRST 554
+ +R LA +QEVI YS + F ++ +EL NP+S++++ +R++
Sbjct: 1 PLQKLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGGLDE-AVELSNPLSEEYSVLRTS 59
Query: 555 LIGSLVNNICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTVSGYKELKKIAVIAYGPLL 614
L+ L++ + NL RK + +RLFEI V+L D+ G +E + +A + G
Sbjct: 60 LLPGLLDALARNLNRKNKPLRLFEIGRVFLKDE---------DGPEEEEHLAALLSGNRE 110
Query: 615 EPQWGEENRNIDYFDLKNDLENLFFPIKLNF----LKINNSILHPNRSALIFKKTKNIGF 670
W + R +D++D K LE L + + +++ + HP RSA I+ + IGF
Sbjct: 111 PESWQGKGRPVDFYDAKGILEALLRALGIIVEFELEELDADLFHPGRSAKIYVNGEVIGF 170
Query: 671 IGEIHPILQQKYDLPLAPIFFEVD 694
IGE+HP + +++DL FE+D
Sbjct: 171 IGELHPEVLKEFDLKEPVYAFELD 194
>gnl|CDD|236592 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 552
Score = 133 bits (337), Expect = 1e-32
Identities = 101/416 (24%), Positives = 186/416 (44%), Gaps = 58/416 (13%)
Query: 296 DLIIKIDKNIGIISDNFKIISLSGIINGFDASVTLNTKDIYLGVAFWWPNSIRGKSNHYN 355
L+ D+ I+ ++S IIN VT T+++++ V
Sbjct: 186 HLLKDFDRYPLIVDSEGNVLSFPPIINSELTRVTEGTRNLFIDVT--------------- 230
Query: 356 LVTESSYRFERGIDFSKTIKCLERVTNLIIEICGTSSS-KISQIDDQIINIPV--RKEIK 412
G D + L + + E GT S K+ D ++ P + +
Sbjct: 231 -----------GTDLEAVLLALNIIATALAERGGTIESVKVIYPDGELT-TPDLTPRTRE 278
Query: 413 VRSERVIKILGIKLTNQEISNIFIRLKFHFIQKNNIFLVIPPAHRFDLEIEEDIIEEIIR 472
V E + K+LGI L+ +EI + R+++ ++ V P +R D+ E D+IE++
Sbjct: 279 VSVEYINKLLGIDLSAEEIIELLERMRYDAEIGDDKVKVTVPPYRVDILHEVDVIEDVAI 338
Query: 473 IYGFENIPISLPI--TVSKISPIKEGYQSLFSIRHQLAFADYQEVINYSFI-EDSLEKDF 529
YG+ N+ LP T+ ++ PI++ + +IR + +QEV+N++ E+ L +
Sbjct: 339 AYGYNNLEPELPKVFTIGRLHPIEKLER---AIRDLMVGLGFQEVMNFTLTSEEVLFEKM 395
Query: 530 SQNINNYPIELLNPISKKFNTMRSTLIGSLVNNICYNLKRKLERIRLFEIANVYLHDKFI 589
+ +E+LNPIS+ + +R++L+ SL+ + N R+ ++FEI +V L D
Sbjct: 396 NLEPEEDYVEVLNPISEDYTVVRTSLLPSLLEFLSNNKHREY-PQKIFEIGDVVLID--- 451
Query: 590 KDSPFTVSGYKELKKIA-VIAYGPLLEPQWGEENRNIDYFDLKNDLENLF--FPIKLNFL 646
T +G + +K+A IA + + ++K+ ++ L I+
Sbjct: 452 ---ESTETGTRTERKLAAAIA------------HSEASFTEIKSVVQALLRELGIEYEVE 496
Query: 647 KINNSILHPNRSALIFKKTKNIGFIGEIHPILQQKYDLPLAPIFFEVDALELQKRQ 702
+ + P R A I K IG IGEIHP + + + + + + FE+D L KR
Sbjct: 497 ESEHPSFIPGRCADILVNGKKIGVIGEIHPEVLENFGIEVPVVAFEIDLEALLKRL 552
>gnl|CDD|232989 TIGR00471, pheT_arch, phenylalanyl-tRNA synthetase, beta subunit.
Every known example of the phenylalanyl-tRNA synthetase,
except the monomeric form of mitochondrial, is an alpha
2 beta 2 heterotetramer. The beta subunits break into
two subfamilies that are considerably different in
sequence, length, and pattern of gaps. This model
represents the subfamily that includes the beta subunit
from eukaryotic cytosol, the Archaea, and spirochetes
[Protein synthesis, tRNA aminoacylation].
Length = 551
Score = 113 bits (284), Expect = 4e-26
Identities = 86/397 (21%), Positives = 170/397 (42%), Gaps = 56/397 (14%)
Query: 307 IISDNFKIISLSGIINGFDASVTLNTKDIYLGVAFWWPNSIRGKSNHYNLVTESSYRFER 366
I+ ++S+ IIN +T+NT+++ + V
Sbjct: 199 ILDSKDDVLSMPPIINSELTKLTVNTRNLLIDVT-------------------------- 232
Query: 367 GIDFSKTIKCLERVTNLIIEIC-GTSSSKISQIDDQIINIP--VRKEIKVRSERVIKILG 423
G D + L + + G + + D+ + P + ++V E + +LG
Sbjct: 233 GTDKTAVEITLNIACTMFADRGDGRITVVEVERPDEHLGQPNLAPRFMEVSVEYINSLLG 292
Query: 424 IKLTNQEISNIFIRLKFHFIQKNNIFLVIPPAHRFDLEIEEDIIEEIIRIYGFENIPISL 483
+ L+ EI++ +++ +Q + V+ PA+R D+ E DIIE++ YG+ N P L
Sbjct: 293 LNLSADEIAHSLKKMRLDAVQSDEKLKVVIPAYRVDILHEVDIIEDVAIGYGYNNFPPEL 352
Query: 484 PI--TVSKISPIKEGYQSLFSIRHQLAFADYQEVINYSFI-EDSLEKDFSQNINNYPIEL 540
P+ T+ ++ P+ + + I L F QEVI + E+ K NN +++
Sbjct: 353 PLINTIGRLKPLNKVSDIIREIMVGLGF---QEVIPLTLTSEEVNFKRMRIEDNND-VKV 408
Query: 541 LNPISKKFNTMRSTLIGSLVNNICYNLKRKLERIRLFEIANVYLHDKFIKDSPFTVSGYK 600
NP + ++ +R++L+ L+ + N +L ++FEI +V + D + + +
Sbjct: 409 ANPKTLEYTIVRTSLLPGLLETLSENKHHELP-QKIFEIGDVVVKD------DKSETRSR 461
Query: 601 ELKKIAVIAYGPLLEPQWGEENRNIDYFDLKNDLENLFFPIKLNFLKINNSI--LHPNRS 658
+ K+AV G + ++ ++K+ + L + + + + P R
Sbjct: 462 VVTKLAV-----------GITHSEANFNEIKSIVAALARELGIEYEIEESEHPSFIPGRG 510
Query: 659 ALIFKKTKNIGFIGEIHPILQQKYDLPLAPIFFEVDA 695
A I + K IG GEIHP + ++L FEV+
Sbjct: 511 AKIVFEGKAIGHFGEIHPEVLTNFELEFPVSAFEVNI 547
>gnl|CDD|239196 cd02796, tRNA_bind_bactPheRS, tRNA-binding-domain-containing
prokaryotic phenylalanly tRNA synthetase (PheRS) beta
chain. PheRS aminoacylate phenylalanine transfer RNAs
(tRNAphe). PheRSs belong structurally to class II
aminoacyl tRNA synthetases (aaRSs) but, as they
aminoacylate the 2'OH of the terminal ribose of tRNA
they belong functionally to class 1 aaRSs. This domain
has general tRNA binding properties and is believed to
direct tRNAphe to the active site of the enzyme.
Length = 103
Score = 97.6 bits (244), Expect = 2e-24
Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 45 IIIGKIINIIKHPDIDNFNICKVDT-YKNILDIVCNIPNIRVGLKVPCAIIGSSLLCINK 103
+++GK++ + HP+ D N+CKVD L IVC PN+R G KV A+ G+ L
Sbjct: 1 VVVGKVLEVEPHPNADKLNVCKVDIGENKPLQIVCGAPNVRAGDKVVVALPGAVLP---- 56
Query: 104 KKSFIINIEKKYKIKSYGLLCSEYDLKINNKNKYLFELPEDAPIGKNF 151
I K ++S G+LCS +L + + + ELPEDAP+G +
Sbjct: 57 -GGLKIKKRKLRGVESEGMLCSAKELGLGEDSDGIIELPEDAPVGTDI 103
>gnl|CDD|202554 pfam03147, FDX-ACB, Ferredoxin-fold anticodon binding domain. This
is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold.
Length = 94
Score = 93.3 bits (233), Expect = 6e-23
Identities = 32/99 (32%), Positives = 58/99 (58%), Gaps = 5/99 (5%)
Query: 710 SKFPNVVRDIVFIFNKNINLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEKS 769
SKFP V RD+ F+ ++++ D++D + + +++ + LFD Y GKK+ + +KS
Sbjct: 1 SKFPAVRRDLAFVVDEDVPAADILDVI-----RKAGGELLEDVELFDVYRGKKIPEGKKS 55
Query: 770 FAFRCILQDPKKTLKNNIINNAINALINSVCKNFNAKLR 808
AFR Q P++TL + +N ++ ++ K F A+LR
Sbjct: 56 LAFRLTFQSPERTLTDEEVNAIHEKIVKALEKKFGAELR 94
>gnl|CDD|214893 smart00896, FDX-ACB, Ferredoxin-fold anticodon binding domain.
This is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold, consisting of an alpha+beta sandwich
with anti-parallel beta-sheets (beta-alpha-beta x2).
Length = 93
Score = 91.3 bits (228), Expect = 3e-22
Identities = 28/99 (28%), Positives = 57/99 (57%), Gaps = 6/99 (6%)
Query: 710 SKFPNVVRDIVFIFNKNINLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEKS 769
SKFP V RD+ F+ ++++ +++D + + + +++ + LFD Y G + + +KS
Sbjct: 1 SKFPAVRRDLAFVVDEDVPAAELLDAI---REAGGD--LLEDVRLFDVYEGG-IPEGKKS 54
Query: 770 FAFRCILQDPKKTLKNNIINNAINALINSVCKNFNAKLR 808
A+R Q P +TL + +N + ++ ++ K F A+LR
Sbjct: 55 LAYRLTYQSPDRTLTDEEVNAIHDKIVAALEKKFGAELR 93
>gnl|CDD|197942 smart00874, B5, tRNA synthetase B5 domain. This domain is found in
phenylalanine-tRNA synthetase beta subunits.
Length = 68
Score = 84.5 bits (210), Expect = 3e-20
Identities = 27/68 (39%), Positives = 43/68 (63%)
Query: 409 KEIKVRSERVIKILGIKLTNQEISNIFIRLKFHFIQKNNIFLVIPPAHRFDLEIEEDIIE 468
+ I +R ER+ ++LG+++ +EI I RL F + V P++RFD+ IE D+IE
Sbjct: 1 RTITLRLERINRLLGLEILAEEIEEILKRLGFEVEVSGDTLEVTVPSYRFDILIEADLIE 60
Query: 469 EIIRIYGF 476
E+ RIYG+
Sbjct: 61 EVARIYGY 68
>gnl|CDD|223151 COG0073, ARC1, EMAP domain [General function prediction only].
Length = 123
Score = 85.5 bits (212), Expect = 9e-20
Identities = 38/129 (29%), Positives = 59/129 (45%), Gaps = 12/129 (9%)
Query: 25 LTMSGLETEKIETNIPIFSKIIIGKIINIIKHPDIDNFNICKVDT--YKNILDIVCNIPN 82
LT GLE E+IE + + +GK++ HP+ D + KVD K IVC PN
Sbjct: 1 LTRIGLEVEEIEIDDFAKVDLRVGKVVEAEPHPNADKLLVLKVDLGDEKEPRQIVCGAPN 60
Query: 83 IRVGLKVPCAIIGSSL--LCINKKKSFIINIEKKYKIKSYGLLCSEYDLKINNKNKYLFE 140
G K+ A +G+ L + K ++S G+L S +L ++++N +
Sbjct: 61 FYAGEKLVGAKVGAVLNGGKLKPAKLRG--------VESEGMLLSAEELGLSDENVGILT 112
Query: 141 LPEDAPIGK 149
L E P G
Sbjct: 113 LDEGVPPGT 121
>gnl|CDD|202663 pfam03484, B5, tRNA synthetase B5 domain. This domain is found in
phenylalanine-tRNA synthetase beta subunits.
Length = 70
Score = 74.6 bits (184), Expect = 1e-16
Identities = 25/70 (35%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 408 RKEIKVRSERVIKILGIKLTNQEISNIFIRLKFHF-IQKNNIFLVIPPAHRFDLEIEEDI 466
+ I + E++ ++LGI+L+ +EI I RL F + + V P++R D+ E D+
Sbjct: 1 PRVITLDLEKINRLLGIELSPEEIKKILKRLGFKVEVSDEDTLKVTVPSYRPDILHEVDL 60
Query: 467 IEEIIRIYGF 476
IEEI R+YG+
Sbjct: 61 IEEIARLYGY 70
>gnl|CDD|239066 cd02153, tRNA_bindingDomain, The tRNA binding domain is also known
as the Myf domain in literature. This domain is found in
a diverse collection of tRNA binding proteins, including
prokaryotic phenylalanyl tRNA synthetases (PheRS),
methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA
synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p,
Thermus thermophilus CsaA, Aquifex aeolicus Trbp111,
human p43 and human EMAP-II. PheRS, MetRS and hTyrRS
aminoacylate their cognate tRNAs. Arc1p is a
transactivator of yeast methionyl-tRNA and glutamyl-tRNA
synthetases. The molecular chaperones Trbp111 and CsaA
also contain this domain. CsaA has export related
activities; Trbp111 is structure-specific recognizing
the L-shape of the tRNA fold. This domain has general
tRNA binding properties. In a subset of this family
this domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. An
EMAP-II-like cytokine is released from hTyrRS upon
cleavage. The active cytokine heptapeptide locates to
this domain. For homodimeric members of this group which
include CsaA, Trbp111 and Escherichia coli MetRS this
domain acts as a dimerization domain.
Length = 99
Score = 72.9 bits (180), Expect = 1e-15
Identities = 33/116 (28%), Positives = 51/116 (43%), Gaps = 26/116 (22%)
Query: 45 IIIGKIINIIKHPDIDNFNICKVDT-YKNILDIVCNIPNI-----RVGLKVPCAIIGSSL 98
+ +GKI+ HP+ D + KVD + IV N+ VG KV A+
Sbjct: 1 LRVGKIVEAEPHPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAV----- 55
Query: 99 LCINKKKSFIINIEKKYKIK---SYGLLCSEYDLKINNKNKYLFELPEDAPIGKNF 151
N++ K K++ S G+L S +L + + + ELPEDAP+G
Sbjct: 56 -----------NLKPK-KLRGVESEGMLLSAEELGLEEGSVGILELPEDAPVGDRI 99
>gnl|CDD|216589 pfam01588, tRNA_bind, Putative tRNA binding domain. This domain is
found in prokaryotic methionyl-tRNA synthetases,
prokaryotic phenylalanyl tRNA synthetases the yeast GU4
nucleic-binding protein (G4p1 or p42, ARC1), human
tyrosyl-tRNA synthetase, and endothelial-monocyte
activating polypeptide II. G4p1 binds specifically to
tRNA form a complex with methionyl-tRNA synthetases. In
human tyrosyl-tRNA synthetase this domain may direct
tRNA to the active site of the enzyme. This domain may
perform a common function in tRNA aminoacylation.
Length = 95
Score = 62.2 bits (152), Expect = 5e-12
Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 15/108 (13%)
Query: 45 IIIGKIINIIKHPDIDNFNICKVDTYKNILDIVCNIPNIRVGLKVPCAIIGSSLLCINKK 104
+ +GK++ KHP+ D + KVD + IV N+ ++ + K
Sbjct: 1 LRVGKVLEAEKHPNADKLLVLKVDVGEEERQIVSGAVNVYPPEEL-----------VGKL 49
Query: 105 KSFIINIEKK--YKIKSYGLLCSEYDLKINNKNKYLFELPEDAPIGKN 150
+ N++ ++S G++ S +L + L E P D P G
Sbjct: 50 VVVVANLKPAKLRGVESEGMILSAEELD--GGSVGLLEPPGDVPPGTR 95
>gnl|CDD|215149 PLN02265, PLN02265, probable phenylalanyl-tRNA synthetase beta
chain.
Length = 597
Score = 62.8 bits (153), Expect = 4e-10
Identities = 73/306 (23%), Positives = 138/306 (45%), Gaps = 61/306 (19%)
Query: 418 VIKILGIKLTNQEISNIFIRLKFHFIQKN----NIFLVIPPAHRFDLEIEEDIIEEIIRI 473
+ +G+ L +E++++ +++ Q + I + +PP R D+ D+ E++
Sbjct: 319 INSSIGVSLDAEEVASLLNKMQLQAEQSSDDGCTIRVSVPPT-RSDILHPCDVAEDVAIA 377
Query: 474 YGFENIPISLP--ITVSKISPIKEGYQSLFS--IRHQLAFADYQEVINYSFIEDSLEKDF 529
YG+ NIP P +TV K P+ + FS +R ++A A + EV+ +I S +++F
Sbjct: 378 YGYNNIPKRKPKSMTVGKQQPLNQ-----FSDLLRAEVAMAGFTEVLT--WILCSHKENF 430
Query: 530 SQNIN-----NYPIELLNPISKKFNTMRSTLIGSLVNNICYNLKRKLERIRLFEIANVYL 584
+ +N N + + NP S F +R++L+ L+ + +N K + I+LFE+++V L
Sbjct: 431 A-MLNREDDGNSAVIIGNPRSADFEVVRTSLLPGLLKTLGHN-KDAPKPIKLFEVSDVVL 488
Query: 585 HDKFIKDSPFTVSGYKELKKIAVIAYGP----------------LLEPQWGEENRNIDYF 628
D G + +++A + G +L + E N Y+
Sbjct: 489 LD------ESKDVGARNSRRLAALYCGTTSGFEVIHGLVDRIMEVLGIPFVEIGDNNGYY 542
Query: 629 DLKNDLENLFFPIKLNFLKINNSILHPNRSALIFKKTKNIGFIGEIHPILQQKYDLPLAP 688
++ E +F P R A I K K++G G +HP + +D+P
Sbjct: 543 -VEPSNEPEYF---------------PGRQASIIYKGKHVGTFGIVHPEVLNNFDIPDPC 586
Query: 689 IFFEVD 694
F E+D
Sbjct: 587 SFLELD 592
>gnl|CDD|225917 COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of
Phe-aaRS-beta [General function prediction only].
Length = 229
Score = 41.2 bits (97), Expect = 0.001
Identities = 21/91 (23%), Positives = 35/91 (38%), Gaps = 3/91 (3%)
Query: 246 GQKLVSV--LHDITNYVMLELGIPINIFDLSKISGELNIRWGNIGETIKISNDLIIKIDK 303
G L + + DI N L+ +PI +D KI G+L + + GET +
Sbjct: 94 GNSLPRINPVVDIYNAASLKYAVPIGGYDADKIVGDLRLTLADGGETFDTLGAKNEPPLE 153
Query: 304 NIGIISDNFKII-SLSGIINGFDASVTLNTK 333
++ D+ + VT +TK
Sbjct: 154 GEIVLVDDEGAFCRRWNWRDSVRTMVTESTK 184
>gnl|CDD|129561 TIGR00469, pheS_mito, phenylalanyl-tRNA synthetase, mitochondrial.
Unlike all other known phenylalanyl-tRNA synthetases,
the mitochondrial form demonstrated from yeast is
monomeric. It is similar to but longer than the alpha
subunit (PheS) of the alpha 2 beta 2 form found in
Bacteria, Archaea, and eukaryotes, and shares the
characteristic motifs of class II aminoacyl-tRNA
ligases. This model models the experimental example from
Saccharomyces cerevisiae (designated MSF1) and its
orthologs from other eukaryotic species [Protein
synthesis, tRNA aminoacylation].
Length = 460
Score = 39.7 bits (92), Expect = 0.005
Identities = 26/106 (24%), Positives = 47/106 (44%), Gaps = 3/106 (2%)
Query: 703 IPNYIQISKFPNVVRDIVFIFNKNI-NLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGK 761
IP + IS P D+ F ++I + + F + N +++ I L DK+ K
Sbjct: 357 IPKFKPISHHPGCFNDLAFWLPEDIEDDAGFHENDFMDIIRNIAGDLVEQIKLVDKF--K 414
Query: 762 KLKDNEKSFAFRCILQDPKKTLKNNIINNAINALINSVCKNFNAKL 807
K +KS FR Q + L N +N + + +++ FN ++
Sbjct: 415 HPKTGKKSMCFRINYQHMDRNLTNAEVNEIHDMIASALVDEFNVEI 460
>gnl|CDD|225315 COG2517, COG2517, Predicted RNA-binding protein containing a
C-terminal EMAP domain [General function prediction
only].
Length = 219
Score = 37.5 bits (87), Expect = 0.015
Identities = 19/89 (21%), Positives = 42/89 (47%), Gaps = 3/89 (3%)
Query: 6 NWLRTIINPKLSSNDLANLLTMSGLETEKIETNIPIFSKIIIGKIINIIKHPDIDNFNIC 65
+W + N T+ L+ +I + I I++G+++++ KHP+ D +
Sbjct: 86 DWSTKFLEQADEVRFFLN--TILNLDRGEIN-DPVIAVDIVVGEVMSVGKHPNADKLLVT 142
Query: 66 KVDTYKNILDIVCNIPNIRVGLKVPCAII 94
V+ + +V N ++R G +V A++
Sbjct: 143 VVNIGGRAVTVVTNDLDVREGDRVAVALL 171
>gnl|CDD|239198 cd02799, tRNA_bind_EMAP-II_like, tRNA-binding-domain-containing
EMAP2-like proteins. This family contains a diverse
fraction of tRNA binding proteins, including
Caenorhabditis elegans methionyl-tRNA synthetase
(CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS),
Saccharomyces cerevisiae Arc1p, human p43 and EMAP2.
CeMetRS and hTyrRS aminoacylate their cognate tRNAs.
Arc1p is a transactivator of yeast methionyl-tRNA and
glutamyl-tRNA synthetases. This domain has general
tRNA binding properties. In a subset of this family
this domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. A
EMAP-II-like cytokine also is released from hTyrRS upon
cleavage. The active cytokine heptapeptide locates to
this domain.
Length = 105
Score = 30.3 bits (69), Expect = 1.0
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 45 IIIGKIINIIKHPDIDNFNICKVD 68
I +GKI+ + KHPD D+ + ++D
Sbjct: 8 IRVGKILKVRKHPDADSLYVEEID 31
>gnl|CDD|225798 COG3259, FrhA, Coenzyme F420-reducing hydrogenase, alpha subunit
[Energy production and conversion].
Length = 441
Score = 32.0 bits (73), Expect = 1.4
Identities = 12/82 (14%), Positives = 28/82 (34%)
Query: 464 EDIIEEIIRIYGFENIPISLPITVSKISPIKEGYQSLFSIRHQLAFADYQEVINYSFIED 523
++ +E++ E + +G + R + +Y+++I S
Sbjct: 194 VELFKELLERMEEEESYHLGLVKKGDHPEPYDGSIRAYDDREKFDPDEYEDIIPESVYPY 253
Query: 524 SLEKDFSQNINNYPIELLNPIS 545
S K YP + P++
Sbjct: 254 SYLKHPYYKDLGYPDYRVGPLA 275
>gnl|CDD|240145 cd05014, SIS_Kpsf, KpsF-like protein. KpsF is an
arabinose-5-phosphate isomerase which contains SIS
(Sugar ISomerase) domains. SIS domains are found in many
phosphosugar isomerases and phosphosugar binding
proteins. KpsF catalyzes the reversible reaction of
ribulose 5-phosphate to arabinose 5-phosphate. This is
the second step in the CMP-Kdo biosynthesis pathway.
Length = 128
Score = 29.0 bits (66), Expect = 4.5
Identities = 11/39 (28%), Positives = 23/39 (58%)
Query: 372 KTIKCLERVTNLIIEICGTSSSKISQIDDQIINIPVRKE 410
+ L+R II I G +S ++++ D ++++PV +E
Sbjct: 65 NLLPHLKRRGAPIIAITGNPNSTLAKLSDVVLDLPVEEE 103
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 29.6 bits (67), Expect = 7.1
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 709 ISKFPNVVRDIVFIFNKNINLQDVMDTMFFEKNNNSNCFIIQSISLFDKYCGKKLKDNEK 768
VRDI +F K + + ++D + +N + F I+ I D Y GK++++
Sbjct: 355 KKNLEKYVRDISVLFPKGADPEVILDLL----DNLKHVFDIEII---DVYSGKQIEEGYL 407
Query: 769 SFAFR 773
S FR
Sbjct: 408 SVTFR 412
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.322 0.142 0.412
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 42,257,239
Number of extensions: 4422078
Number of successful extensions: 4191
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4107
Number of HSP's successfully gapped: 117
Length of query: 809
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 704
Effective length of database: 6,280,432
Effective search space: 4421424128
Effective search space used: 4421424128
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: 63 (28.2 bits)