RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780316|ref|YP_003064729.1| phenylalanyl-tRNA synthetase
subunit beta [Candidatus Liberibacter asiaticus str. psy62]
(805 letters)
>gnl|CDD|179078 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 880 bits (2276), Expect = 0.0
Identities = 320/813 (39%), Positives = 467/813 (57%), Gaps = 31/813 (3%)
Query: 1 MKFTLSWLKDHLDTDVSLEKICDTLTSIGLEVEKVDNR-EALSPFTIVKVLSVERNPDLD 59
MKF+LSWLK++++ D+S E++ + LT IGLEVE V++ LS + KVL E++P+ D
Sbjct: 1 MKFSLSWLKEYVNPDISSEELAEALTMIGLEVEGVEDVAAGLSGVVVGKVLECEKHPNAD 60
Query: 60 ----CAILRIDTGKHQEIQVVCGAPNVRVGLLGVWAPPGSCIPENNMIVNVRKIRGIEST 115
C ++D G+ + +Q+VCGAPNVR G A PG+ +P + K+RG+ES
Sbjct: 61 KLRVC---QVDVGE-EPLQIVCGAPNVRAGDKVPVALPGAVLP-GGFKIKKAKLRGVESE 115
Query: 116 GMMCSEKELMLSDDSASIMELPIDAPVGGRLSDYLELSDPIIDVSLTPNRSDCIGVRGIA 175
GM+CS EL LSDD I+ELP DAPVG +YL L D +I++SLTPNR+DC+ VRGIA
Sbjct: 116 GMLCSASELGLSDDHDGIIELPEDAPVGTDAREYLGLDDTVIEISLTPNRADCLSVRGIA 175
Query: 176 LDLVAAGLGKLKEINISCPLSSESIPLEIKFDLDDSSLCKGFAMCCVKGVRNNVA-PNWM 234
+L A LK I +I ++ +++D LC +A +KGV+N P W+
Sbjct: 176 RELAALLGLPLKLPEI--EPVPATIDDKLPVEIEDPDLCPRYAGRVIKGVKNIAPSPLWL 233
Query: 235 RQRLKAVGLRSISALVDITNYVSLDRGYPSHVFDASRISDVLTVRRACSGEKILALDNQE 294
++RL+A G+R I+ +VDITNYV L+ G P H FD +I + VRRA GEK+ LD +E
Sbjct: 234 QERLRAAGIRPINNVVDITNYVMLELGQPLHAFDLDKIGGGIVVRRAKEGEKLTTLDGKE 293
Query: 295 YDLSPDNVVIASDGRIQSIAGIIGGKHAGCDDNTTDVLVEVALWDPINIARSGKNLGIIT 354
L P+++VIA D + ++AG++GG+ + +NTT+VL+E A +DP++I ++ + LG+ T
Sbjct: 294 RTLDPEDLVIADDKKPLALAGVMGGEDSEVTENTTNVLLESAYFDPVSIRKTARRLGLRT 353
Query: 355 DSRYRFERGVDLQGMIPVLKHIVSLILSLCGGTASDICIARNITYKPRKIVFMNSEVKRL 414
D+ YRFERGVD + L+ +LIL L GG + + K I + RL
Sbjct: 354 DASYRFERGVDPALTLLALERATALILELGGGEVVEGVVDVYPLPKEPTITLRLERINRL 413
Query: 415 SGIDVPIEDSLRILERLGFSVIGEY-DKFEVSVPSWRQDVEEKADLVEEILRIYGVDQIK 473
G ++ E+ + IL+RLGF V D V+VPSWR D+E + DLVEE+ RIYG D I
Sbjct: 414 LGTEISDEEIVDILKRLGFEVTEVDGDGLTVTVPSWRFDIEIEEDLVEEVARIYGYDNIP 473
Query: 474 SEPLPLTQVEDKRNLSLQQSRTRYVKRVLASRAMMEVVNWSFISKEQSVLFGGGQRELEI 533
S P L+ Q R ++R LA+ EV+ +SF+S E + LFG L +
Sbjct: 474 STPPVAALT--MGGLTEAQRLLRRLRRALAALGYQEVITYSFVSPEDAKLFGLNPEPLLL 531
Query: 534 LNPISADMSNMRTSLLPGLLKATGRNVDRAIADFAIFEVSHVYE-NDTPEGQKYMAAGIR 592
LNPIS ++S MRTSLLPGLL+A N++R D A+FE+ V+ + + AG+
Sbjct: 532 LNPISEELSVMRTSLLPGLLEAVAYNLNRGNKDVALFEIGRVFLPDGDLPREPEHLAGVL 591
Query: 593 KGSSGIEGSGRLWSDKSEERCRFVDLFDAKADALSVIEPFVSLDSLRFESGAPSWYHPGR 652
G+ E W K R VD FD K D +++E + + HPGR
Sbjct: 592 TGNRVEES----WGGK-----RPVDFFDLKGDVEALLEALGLPEVEFVAEFEAAALHPGR 642
Query: 653 SGIIKTSAEIVLGYFGEFHPNILDFFGLSNPICGFEVYLDSIPISQKKRTKTKKVVHLSS 712
S I V+G+ GE HP +L L FE+ LD++ + +K K K +S
Sbjct: 643 SAEIYL-DGKVIGFIGELHPKVLKKLDLPGRTYVFELDLDALLEAARKLPKYKP---ISK 698
Query: 713 LHPVKRDLAFIVDQHIPAGTLVNIIKNVDR-LIDDVTVFDVFQGKSLGEGKKSVAIQVLI 771
V+RDLA +VD+ +PA ++ IK L++ V +FDV++GK +GEGKKS+A ++
Sbjct: 699 FPAVRRDLALVVDEDVPAADILKAIKKAGGKLLESVELFDVYEGKGIGEGKKSLAFRLTF 758
Query: 772 QPLKDTFRDDDIRILMDRIVENVVKKTNAVLRS 804
Q T D++I MD+IV + +K A LR
Sbjct: 759 QDPDRTLTDEEINAAMDKIVAALEEKFGAELRG 791
>gnl|CDD|161895 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.
Length = 798
Score = 648 bits (1674), Expect = 0.0
Identities = 297/814 (36%), Positives = 470/814 (57%), Gaps = 27/814 (3%)
Query: 1 MKFTLSWLKDHLD-TDVSLEKICDTLTSIGLEVEKVDN-REALSPFTIVKVLSVERNPDL 58
MK +L WL++++ +++ E+I + LTSIGLEVE V + L + KVL VE +P+
Sbjct: 1 MKISLKWLREYVPLSEIDNEEIAEALTSIGLEVEAVIPFSKPLKGVVVGKVLEVEPHPNA 60
Query: 59 D-CAILRIDTGKHQEIQVVCGAPNVRVGLLGVWAPPGSCIPENNMIVNVRKIRGIESTGM 117
D + ++D G+ + +Q+VCGAPNV G A PG+ +P N + + K+RG+ES GM
Sbjct: 61 DKLKVCKVDIGEKEMLQIVCGAPNVEAGKKVAVALPGAKLP-NGLKIKKSKLRGVESEGM 119
Query: 118 MCSEKELMLSDDSASIMELPIDAPVGGRLSDYLELSDPIIDVSLTPNRSDCIGVRGIALD 177
+CSE EL L + S I+ L DAP+G +++YL L D II+VS+TPNR DC+ + GIA +
Sbjct: 120 LCSEDELGLDEKSDGIIVLDEDAPLGTDIAEYLGLDDDIIEVSITPNRGDCLSILGIARE 179
Query: 178 LVAAGLGKLKEINISCPLSSESIPLEIKFDLDDSSLCKGFAMCCVKGVRNNVAPNWMRQR 237
L A L+ P ++E+I K +++D +C + +KGV+ +P W+++R
Sbjct: 180 LAALFDLPLETPVPFEPETTETIDEGFKIEIEDPEVCPFYLGRVIKGVKVKPSPLWLKER 239
Query: 238 LKAVGLRSISALVDITNYVSLDRGYPSHVFDASRIS-DVLTVRRACSGEKILALDNQEYD 296
L+ G+R I+ +VDITNYV L+ G P H FDA +I + VR A GE LD +E +
Sbjct: 240 LRRSGIRPINNIVDITNYVMLELGQPLHAFDADKIEGSNIEVRSAKEGESFTTLDGKERE 299
Query: 297 LSPDNVVIASDGRIQSIAGIIGGKHAGCDDNTTDVLVEVALWDPINIARSGKNLGIITDS 356
L ++VIA D + +IAG++GGK +G D TT++ +E A ++P I ++ + LGI TDS
Sbjct: 300 LKKGDLVIADDKKPLAIAGVMGGKESGVTDTTTNIFLESAYFNPERIRKTARRLGISTDS 359
Query: 357 RYRFERGVDLQGMIPVLKHIVSLILSLCGG-TASDICIARNITYKPRKIVFMNSEVKRLS 415
YRFERGVD + L ++LIL + GG S + K +KI ++ ++
Sbjct: 360 SYRFERGVDPELTELALDRALNLILEIFGGEVISVVSDVYKEKAKEKKISLRIKKLNKIL 419
Query: 416 GIDVPIEDSLRILERLGFSVIGEYDKFEVSVPSWRQDVEEKADLVEEILRIYGVDQIKSE 475
GI + E+ IL+RLGF V + D +EV+VPS+R D+ + DL+EEI RIYG D I +E
Sbjct: 420 GISLSDEEVRDILKRLGFKVEKQKDGWEVTVPSYRHDITIEEDLIEEIARIYGYDNIPAE 479
Query: 476 PLPLTQVEDKRNLSLQQSRTRYVKRVLASRAMMEVVNWSFISKEQSVLFGGGQRE--LEI 533
PL ++ +K N R ++ +L + EV+ +S +S E++ F + E +EI
Sbjct: 480 PLSVSSKLNKNN--ENYLLLRKLRTLLVGLGLNEVITYSLVSSEKAEKFNFPKLENLVEI 537
Query: 534 LNPISADMSNMRTSLLPGLLKATGRNVDRAIADFAIFEVSHVYEND--TPEGQKYMAAGI 591
NP+S + S +RTSLLP LL+ N +R D IFE+ V+ D + Q +A I
Sbjct: 538 KNPLSNERSVLRTSLLPSLLEVLAYNQNRKNKDVKIFEIGKVFAKDGLGVKEQLRLAILI 597
Query: 592 RKGSSGIEGSGRLWSDKSEERCRFVDLFDAKADALSVIEPF-VSLDSLRFESGAPSWYHP 650
SG E + W+ K E+ VD +D K D S++E +S D + HP
Sbjct: 598 ----SG-EKNPSSWNHKEEK----VDFYDLKGDVESLLELLGLSDDVYFKNTAENEELHP 648
Query: 651 GRSGIIKTSAEIVLGYFGEFHPNILDFFGLSNPICGFEVYLDSIPISQKKRTKTKKVVHL 710
G+S I + + G+ GE HP I + L P E+ LD + S KK K + +
Sbjct: 649 GQSATIYLKGKKI-GFIGELHPEIAKKYDLKEPTFVAELDLDRLLESLKKVPKYRP---I 704
Query: 711 SSLHPVKRDLAFIVDQHIPAGTLVNIIKNVD-RLIDDVTVFDVFQGKSLGEGKKSVAIQV 769
S V RD++F+V + +PA ++ +IK L+++V +FDV++GK++GEGKKS+A+++
Sbjct: 705 SKFPAVTRDISFLVPKDVPANEIIKLIKKSGLELLEEVELFDVYEGKNIGEGKKSLALRL 764
Query: 770 LIQPLKDTFRDDDIRILMDRIVENVVKKTNAVLR 803
+++ + T D++I ++++++ + +K A LR
Sbjct: 765 VLRDKERTLTDEEINKIVEKVLNLLKEKLGAELR 798
>gnl|CDD|129106 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 = 176 bits (449), Expect = 2e-44
Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 2/171 (1%)
Query: 217 FAMCCVKGVRNNV-APNWMRQRLKAVGLRSISALVDITNYVSLDRGYPSHVFDASRIS-D 274
+ ++GV+N +P W+++RL G+R I+ +VDITNYVSL+ G P H FD +I
Sbjct: 4 YLGRVIRGVKNTRPSPEWLQERLHRAGIRPINNVVDITNYVSLETGQPLHAFDLDKIKGK 63
Query: 275 VLTVRRACSGEKILALDNQEYDLSPDNVVIASDGRIQSIAGIIGGKHAGCDDNTTDVLVE 334
+ +RRA GE LD +EY+L ++VIA D ++AG++GG+ + +NTT++ +E
Sbjct: 64 DIPLRRAKEGETFETLDGKEYELDEGDLVIADDEGPLALAGVMGGEESEVTENTTNIFLE 123
Query: 335 VALWDPINIARSGKNLGIITDSRYRFERGVDLQGMIPVLKHIVSLILSLCG 385
A++ P I + + L + TD+ RFERGVD + + L +L+L +CG
Sbjct: 124 PAIFSPRTIRITARTLNLFTDASGRFERGVDPELVELALDRAAALLLEICG 174
>gnl|CDD|181993 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 552
Score = 131 bits (332), Expect = 6e-31
Identities = 98/413 (23%), Positives = 174/413 (42%), Gaps = 66/413 (15%)
Query: 294 EYDLSPDNVVIASDGRIQSIAGIIGGKHAGCDDNTTDVLVEVALWDPINIARSGKNLGII 353
++D P +++ S+G + S II + + T ++ ++V D + + L II
Sbjct: 190 DFDRYP--LIVDSEGNVLSFPPIINSELTRVTEGTRNLFIDVTGTDLEAVLLA---LNII 244
Query: 354 TDSRYRFERGVDLQGMIPVLKHIVSLILSLCGGTASDICIARNITYKPRKIVFMNSEVKR 413
+ ERG G I +K +I T D PR + +
Sbjct: 245 ATALA--ERG----GTIESVK----VIYPDGELTTPD--------LTPRTREVSVEYINK 286
Query: 414 LSGIDVPIEDSLRILERLGFSVIGEYDKFEVSVPSWRQDVEEKADLVEEILRIYGVDQIK 473
L GID+ E+ + +LER+ + DK +V+VP +R D+ + D++E++ YG + ++
Sbjct: 287 LLGIDLSAEEIIELLERMRYDAEIGDDKVKVTVPPYRVDILHEVDVIEDVAIAYGYNNLE 346
Query: 474 SEPLPLTQV--EDKRNLSLQQSRTRYVKRVLASRAMMEVVNWSFISKEQSVLFGGGQRE- 530
E + + R ++ ++ EV+N++ S+E VLF E
Sbjct: 347 PELPKVFTIGRLHPIEKL-----ERAIRDLMVGLGFQEVMNFTLTSEE--VLFEKMNLEP 399
Query: 531 ----LEILNPISADMSNMRTSLLPGLLKATGRNVDRAIADFAIFEVSHVYENDTPEGQKY 586
+E+LNPIS D + +RTSLLP LL+ N R IFE+ V D
Sbjct: 400 EEDYVEVLNPISEDYTVVRTSLLPSLLEFLSNNKHREYPQ-KIFEIGDVVLIDESTETGT 458
Query: 587 MAAGIRKGSSGIEGSGRLWSDKSEERCRFVDLFDAKA---DALSVIEPFV-SLD-SLRFE 641
++E + + ++A + SV++ + L E
Sbjct: 459 ---------------------RTERKLAAA-IAHSEASFTEIKSVVQALLRELGIEYEVE 496
Query: 642 SGAPSWYHPGRSGIIKTSAEIVLGYFGEFHPNILDFFGLSNPICGFEVYLDSI 694
+ PGR I + + + G GE HP +L+ FG+ P+ FE+ L+++
Sbjct: 497 ESEHPSFIPGRCADILVNGKKI-GVIGEIHPEVLENFGIEVPVVAFEIDLEAL 548
>gnl|CDD|161894 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.
Length = 551
Score = 86.0 bits (213), Expect = 3e-17
Identities = 120/573 (20%), Positives = 212/573 (36%), Gaps = 103/573 (17%)
Query: 153 SDPIIDVSLTPNRSDCIGVRGIALDLVAAGLGKLKE-INISCPLSSESI-PLEIKFDLDD 210
P I V PNR D + V G+A L+ + I L S ++K +D+
Sbjct: 40 ESPEIKVEFNPNRPDLLSVEGLAR--------SLRGYLGIEKGLKSYDSKKGDVKLTVDE 91
Query: 211 SSL-CKGFA-MCCVKGVRNN--VAPNWM--RQRLKAVGLRSISALVDITNYVSLDRGYPS 264
S L + F VKG+ N V + + +++L R+ V I + LD+
Sbjct: 92 SVLQIRPFITGAVVKGIILNDKVLESLIELQEKLHWNIGRNRR-KVAIGIH-DLDKVEFP 149
Query: 265 HVFDASRISDV----LTVRRACSGEKILAL--DNQEY-------DLSPDNVVIASDGRIQ 311
+ A + + L + + ++IL Y D P +++ S +
Sbjct: 150 FHYKAVSPNGIKFVPLNSDQEMTPDEILEEHPKGIRYAHIIEDSDKFP--LILDSKDDVL 207
Query: 312 SIAGIIGGKHAGCDDNTTDVLVEVALWDPINIARSGKNLGIITDSRYRFERGVDLQGMIP 371
S+ II + NT ++L++V D L I +RG ++
Sbjct: 208 SMPPIINSELTKLTVNTRNLLIDVTGTDK-TAVE--ITLNIACTMFA--DRGDGRITVVE 262
Query: 372 VLKHIVSLILSLCGGTASDICIARNITYKPRKIVFMNSEVKRLSGIDVPIEDSLRILERL 431
V + L PR + + L G+++ ++ L+++
Sbjct: 263 VERPDEHLGQP---------------NLAPRFMEVSVEYINSLLGLNLSADEIAHSLKKM 307
Query: 432 GFSVIGEYDKFEVSVPSWRQDVEEKADLVEEILRIYGVDQI-KSEPLPLTQVEDKRNLSL 490
+ +K +V +P++R D+ + D++E++ YG + PL T L
Sbjct: 308 RLDAVQSDEKLKVVIPAYRVDILHEVDIIEDVAIGYGYNNFPPELPLINTIGR----LKP 363
Query: 491 QQSRTRYVKRVLASRAMMEVVNWSFISKEQSVLF--GGGQRELEILNPISADMSNMRTSL 548
+ ++ ++ EV+ + S+E + ++++ NP + + + +RTSL
Sbjct: 364 LNKVSDIIREIMVGLGFQEVIPLTLTSEEVNFKRMRIEDNNDVKVANPKTLEYTIVRTSL 423
Query: 549 LPGLLKATGRNVDRAIADFAIFEVSHVYENDTPEGQKYMAAGIRKGSSGIEGSGRLWSDK 608
LPGLL+ N + IFE+ V D DK
Sbjct: 424 LPGLLETLSENKHHELPQ-KIFEIGDVVVKD---------------------------DK 455
Query: 609 SEERCR-FVDLFDAKADA---LSVIEPFVSLDSLRFESGAPSW--------YHPGRSGII 656
SE R R L + + I+ V +L E G + PGR I
Sbjct: 456 SETRSRVVTKLAVGITHSEANFNEIKSIV--AALARELGIEYEIEESEHPSFIPGRGAKI 513
Query: 657 KTSAEIVLGYFGEFHPNILDFFGLSNPICGFEV 689
+ + G+FGE HP +L F L P+ FEV
Sbjct: 514 VFEGKAI-GHFGEIHPEVLTNFELEFPVSAFEV 545
>gnl|CDD|129107 smart00874, B5, tRNA synthetase B5 domain. This domain is found in
phenylalanine-tRNA synthetase beta subunits.
Length = 71
Score = 84.5 bits (210), Expect = 1e-16
Identities = 33/70 (47%), Positives = 45/70 (64%), Gaps = 2/70 (2%)
Query: 401 PRKIVFMNSEVKRLSGIDVPIEDSLRILERLGFSV--IGEYDKFEVSVPSWRQDVEEKAD 458
PR I + RL G+D+ E+ IL+RLGF V G+ D EV+VPS+R D+ +AD
Sbjct: 1 PRTITLRRERINRLLGLDLSAEEIEEILKRLGFEVEVSGDDDTLEVTVPSYRFDILIEAD 60
Query: 459 LVEEILRIYG 468
L+EE+ RIYG
Sbjct: 61 LIEEVARIYG 70
Score = 30.2 bits (69), Expect = 2.1
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 1 MKFTLSWLKDHLDTDVSLEKICDTLTSIGLEVEKVDNREAL 41
+ + L D+S E+I + L +G EVE + + L
Sbjct: 4 ITLRRERINRLLGLDLSAEEIEEILKRLGFEVEVSGDDDTL 44
>gnl|CDD|177906 PLN02265, PLN02265, probable phenylalanyl-tRNA synthetase beta
chain.
Length = 597
Score = 73.6 bits (181), Expect = 2e-13
Identities = 82/305 (26%), Positives = 118/305 (38%), Gaps = 59/305 (19%)
Query: 409 SEVKRLSGIDVPIEDSLRILER--LGFSVIGEYD-KFEVSVPSWRQDVEEKADLVEEILR 465
S + G+ + E+ +L + L + VSVP R D+ D+ E++
Sbjct: 317 SYINSSIGVSLDAEEVASLLNKMQLQAEQSSDDGCTIRVSVPPTRSDILHPCDVAEDVAI 376
Query: 466 IYGVDQIKSE---------PLPLTQVEDKRNLSLQQSRTRYVKRVLASRAMMEVVNWSFI 516
YG + I PL Q D ++ +A EV+ W
Sbjct: 377 AYGYNNIPKRKPKSMTVGKQQPLNQFSDL------------LRAEVAMAGFTEVLTWILC 424
Query: 517 SKEQSVLFGGGQRE------LEILNPISADMSNMRTSLLPGLLKATGRNVDRAIADFAIF 570
S +++ F RE + I NP SAD +RTSLLPGLLK G N D +F
Sbjct: 425 SHKEN--FAMLNREDDGNSAVIIGNPRSADFEVVRTSLLPGLLKTLGHNKDAPKP-IKLF 481
Query: 571 EVSHVYENDTPE-----GQKYMAAGIRKGSSGIEGSGRLWSDKSEE--RCRFVDLFDAKA 623
EVS V D + + +AA +SG E L D+ E FV++ D
Sbjct: 482 EVSDVVLLDESKDVGARNSRRLAALYCGTTSGFEVIHGL-VDRIMEVLGIPFVEIGDNNG 540
Query: 624 DALSVIEPFVSLDSLRFESGAPSWYHPGR-SGIIKTSAEIVLGYFGEFHPNILDFFGLSN 682
+ S P Y PGR + II + G FG HP +L+ F + +
Sbjct: 541 YYVE-------------PSNEPE-YFPGRQASIIYKGKHV--GTFGIVHPEVLNNFDIPD 584
Query: 683 PICGF 687
P C F
Sbjct: 585 P-CSF 588
>gnl|CDD|183389 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 34.4 bits (80), Expect = 0.11
Identities = 26/119 (21%), Positives = 56/119 (47%), Gaps = 23/119 (19%)
Query: 33 EKVDNREALSPFTIVKVLSVERNPDLDCAI-LRIDTGKHQEIQVVCGAPNVRVGLLGVWA 91
+KV+ R + +VL E+ D + L++D G+ + Q+V G + +
Sbjct: 549 DKVELR-------VAEVLEAEKVEKSDKLLKLQVDLGEEEPRQIVSG--------IAKFY 593
Query: 92 PPGSCIPENNMIV-NV--RKIRGIESTGMMCSEKELMLSDDSASIMELPIDAPVGGRLS 147
PP + + ++V N+ K+ G ES GM+ + ++ D +++ + + P G ++
Sbjct: 594 PPEELVGKKVVVVANLKPAKLMGEESQGMILAAED----DGKLTLLTVDKEVPNGSKVK 648
>gnl|CDD|172756 PRK14268, PRK14268, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 258
Score = 32.7 bits (74), Expect = 0.43
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 378 SLILSLCGGTASDICIARNITYKPRKIVF 406
S LSL GG +CIAR + KP+ I+F
Sbjct: 150 SPALSLSGGQQQRLCIARTLAVKPKIILF 178
>gnl|CDD|182690 PRK10742, PRK10742, putative methyltransferase; Provisional.
Length = 250
Score = 31.7 bits (72), Expect = 0.70
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 233 WMRQRLKAVGLRSISALVDIT---NYVSLDRGYP 263
W+++RL+ + S++AL DIT V LD +P
Sbjct: 142 WLQERLQLIHASSLTALTDITPRPQVVYLDPMFP 175
>gnl|CDD|181525 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 31.1 bits (71), Expect = 1.2
Identities = 20/119 (16%), Positives = 52/119 (43%), Gaps = 21/119 (17%)
Query: 688 EVYLDSIPISQKKRTKTKKVVHLS-------------SLHPVKRDLAFIVDQHIPAGTLV 734
+V D + + + + K+ ++ +L RD++ + + ++
Sbjct: 320 KVTPDYVTLKKNNKEIKLKISNIRLLSEKELREWKKKNLEKYVRDISVLFPKGADPEVIL 379
Query: 735 NIIKNVDRLIDDVTVFDVFQGKSLGEGKKSVAIQVLIQPLKDTFRDDDIRILMDRIVEN 793
+++ N+ + D + + DV+ GK + EG SV ++ + F +D+ ++ I+E
Sbjct: 380 DLLDNLKHVFD-IEIIDVYSGKQIEEGYLSVTFRITV------FGKEDLE-NVEEILEG 430
>gnl|CDD|180976 PRK07431, PRK07431, aspartate kinase; Provisional.
Length = 587
Score = 30.7 bits (70), Expect = 1.4
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 138 IDAPVGGR----LSDYLELSDPIIDVSLTPNRSDCIGVRGIALDL 178
IDA G + + + EL D I+++ T + D VRG+ALD
Sbjct: 393 IDAEDGDKALRAVCEAFELEDSQIEINPTASGQDEPEVRGVALDR 437
>gnl|CDD|163306 TIGR03527, selenium_YedF, selenium metabolism protein YedF.
Members of this protein family are about 200 amino acids
in size, and include the uncharacterized YedF protein of
Escherichia coli. This family shares an N-terminal
domain, modeled by pfam01206, with the sulfurtransferase
TusA (also called SirA). The C-terminal domain includes
a typical redox-active disulfide motif, CGXC. This
protein family found only among those genomes that also
carry the selenium donor protein SelD, and its
connection to selenium metabolism is indicated by the
method of partial phylogenetic profiling vs. SelD. Its
gene typically is found next to selD. Members of this
family are found even when selenocysteine and
selenouridine biosynthesis pathways are, except for
SelD, completely absent, as in Enterococcus faecalis.
Its role in selenium metabolism is unclear, but may
include either detoxification or a role in labile
selenoprotein biosynthesis.
Length = 194
Score = 29.9 bits (68), Expect = 2.4
Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 401 PRKIVFMNSEVKRLSGIDVPIEDSLRILERLGFSVI 436
P++I+F+N VK L+ + + L+ LE+ G ++
Sbjct: 121 PKRILFVNGGVK-LTTEGSEVLEDLKELEKKGVEIL 155
>gnl|CDD|132490 TIGR03449, mycothiol_MshA, UDP-N-acetylglucosamine:
1L-myo-inositol-1-phosphate
1-alpha-D-N-acetylglucosaminyltransferase. Members of
this protein family, found exclusively in the
Actinobacteria, are MshA, the glycosyltransferase of
mycothiol biosynthesis. Mycothiol replaces glutathione
in these species.
Length = 405
Score = 29.7 bits (67), Expect = 2.8
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 573 SHVYENDTPEGQKYMAAGIRKGSSGI-EGSGRLWSDKSEERCRFVDLFDAKADALSVIEP 631
+ + + DTPE R G + + + RL ++ EE V +DA D + V+ P
Sbjct: 140 AALADGDTPE-----PEARRIGEQQLVDNADRLIANTDEEARDLVRHYDADPDRIDVVAP 194
Query: 632 FVSLDSLR 639
L+ R
Sbjct: 195 GADLERFR 202
>gnl|CDD|184583 PRK14237, PRK14237, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 29.7 bits (67), Expect = 3.1
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 381 LSLCGGTASDICIARNITYKPRKIVFMNSEVKRLSGIDV-PIEDSL 425
L+L GG +CIAR I KP I+ M+ L I +E+++
Sbjct: 162 LTLSGGQQQRLCIARAIAVKP-DILLMDEPASALDPISTMQLEETM 206
>gnl|CDD|163014 TIGR02778, ligD_pol, DNA polymerase LigD, polymerase domain. DNA
repair of double-stranded breaks by non-homologous end
joining (NHEJ) is accomplished by a two-protein system
that is present in a minority of prokaryotes. One
component is the Ku protein (see TIGR02772), which binds
DNA ends. The other is a DNA ligase, a protein that is a
multidomain polypeptide in most of those bacteria that
have NHEJ, a permuted polypeptide in Mycobacterium
tuberculosis and a few other species, and the product of
tandem genes in some other bacteria. This model
represents the polymerase domain.
Length = 245
Score = 29.6 bits (67), Expect = 3.7
Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 10/54 (18%)
Query: 193 CPLSSESIPLEIKFDLD-DSSLCKGFAMCCVKGVRNNVAPNWMRQRLKAVGLRS 245
+ + P I FDLD + + + A +R+ L +GL S
Sbjct: 106 ARIDAPEKPDRIVFDLDPGPGV--AWKLVVE-------AAQLIRELLDELGLES 150
>gnl|CDD|128425 smart00115, CASc, Caspase, interleukin-1 beta converting enzyme
(ICE) homologues. Cysteine aspartases that mediate
programmed cell death (apoptosis). Caspases are
synthesised as zymogens and activated by proteolysis of
the peptide backbone adjacent to an aspartate. The
resulting two subunits associate to form an
(alpha)2(beta)2-tetramer which is the active enzyme.
Activation of caspases can be mediated by other caspase
homologues.
Length = 241
Score = 29.5 bits (67), Expect = 3.8
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 9/76 (11%)
Query: 7 WLKDHLDTDVSLEKICDTLTSIGLEVEKVDNREALSPFTIVKVL-SVERNP---DLDCAI 62
L TDV E + + S+G EV +N A +++ L P D D +
Sbjct: 21 SLPRRNGTDVDAENLTELFQSLGYEVHVKNNLTAEE---MLEELKEFAERPEHSDSDSFV 77
Query: 63 LRIDTGKHQEIQVVCG 78
+ + H E + G
Sbjct: 78 CVLLS--HGEEGGIYG 91
>gnl|CDD|179264 PRK01254, PRK01254, hypothetical protein; Provisional.
Length = 707
Score = 28.9 bits (65), Expect = 4.8
Identities = 17/36 (47%), Positives = 17/36 (47%), Gaps = 10/36 (27%)
Query: 597 GIEGSGR------LWSDKSEERCRFVDLFDAKADAL 626
GIE S R WSDK R L DAKAD L
Sbjct: 156 GIEASLRRIAHYDYWSDK----VRRSVLVDAKADIL 187
>gnl|CDD|162807 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein PhnK.
Members of this family are the PhnK protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and the
adjacent-encoded PhnL resemble transporter ATP-binding
proteins but are suggested, based on mutatgenesis
studies, to be part of this complex rather than part of
a transporter per se.
Length = 253
Score = 29.0 bits (65), Expect = 5.1
Identities = 35/105 (33%), Positives = 53/105 (50%), Gaps = 15/105 (14%)
Query: 385 GGTASDICIARNITYKPRKIVFMNSEVKRLSGIDVPIE----DSLRILER-LGFSVI-GE 438
GG + IARN+ +PR +VFM+ G+DV ++ D LR L R LG +VI
Sbjct: 151 GGMQQRLQIARNLVTRPR-LVFMDEPT---GGLDVSVQARLLDLLRGLVRDLGLAVIIVT 206
Query: 439 YDKFEVSVPSWRQDVEEKADLVEEILRIYGVDQIKSEPL-PLTQV 482
+D + + R V ++ +VE L DQ+ +P P TQ+
Sbjct: 207 HDLGVARLLAQRLLVMQQGRVVESGL----TDQVLDDPQHPYTQL 247
>gnl|CDD|184597 PRK14270, PRK14270, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 28.8 bits (64), Expect = 5.7
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 381 LSLCGGTASDICIARNITYKPRKIVFMNSEVKRLSGID-VPIED 423
L L GG +CIAR I KP ++ M+ L I + IED
Sbjct: 146 LKLSGGQQQRLCIARTIAVKP-DVILMDEPTSALDPISTLKIED 188
>gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional.
Length = 387
Score = 28.5 bits (64), Expect = 7.5
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 7/50 (14%)
Query: 417 IDVPIEDSLRILERLGFSVIGEYDKFEV-----SVP-SWRQDVEEKADLV 460
+D P++ + ++LE+ G IG+ D E+ SV SW Q E D V
Sbjct: 284 LDGPVQATAKVLEKAGMK-IGDIDLVEINEAFASVVLSWAQVHEPDMDKV 332
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 28.2 bits (63), Expect = 7.6
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 381 LSLCGGTASDICIARNITYKPRKIVFMNSEVKRLSGIDVPIEDSLRILE 429
LSL GG +CIAR I +P +++ M+ L PI +LRI E
Sbjct: 150 LSLSGGQQQRLCIARAIAVQP-EVILMDEPCSALD----PIS-TLRIEE 192
>gnl|CDD|162242 TIGR01187, potA, spermidine/putrescine ABC transporter ATP-binding
subunit. This model describes spermidine/putrescine ABC
transporter, ATP binding subunit in bacteria and its
equivalents in archaea. This transport system belong to
the larger ATP-Binding Cassette (ABC) transporter
superfamily. The characteristic feature of these
transporter is the obligatory coupling of ATP hydrolysis
to substrate translocation. The minimal configuration of
bacterial ABC transport system: an ATPase or ATP binding
subunit; An integral membrane protein; a hydrophilic
polypetpide, which likely functions as substrate binding
protein. Polyamines like spermidine and putrescine play
vital role in cell proliferation, differentiation, and
ion homeostasis. The concentration of polyamines within
the cell are regulated by biosynthesis, degradation and
transport (uptake and efflux included).
Length = 325
Score = 27.8 bits (62), Expect = 9.8
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 383 LCGGTASDICIARNITYKPRKIVFMNSEVKRLSGIDVPIEDSL-----RILERLGFSVI 436
L GG + +AR + +KP KI+ ++ + LS +D + D + I E+LG + +
Sbjct: 101 LSGGQQQRVALARALVFKP-KILLLD---EPLSALDKKLRDQMQLELKTIQEQLGITFV 155
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
0.320 0.138 0.400
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 13,261,423
Number of extensions: 896431
Number of successful extensions: 1666
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1636
Number of HSP's successfully gapped: 48
Length of query: 805
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 704
Effective length of database: 3,812,065
Effective search space: 2683693760
Effective search space used: 2683693760
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (27.4 bits)