RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781059|ref|YP_003065472.1| cysteine desulfurase activator complex subunit SufB [Candidatus Liberibacter asiaticus str. psy62] (489 letters) >gnl|CDD|183322 PRK11814, PRK11814, cysteine desulfurase activator complex subunit SufB; Provisional. Length = 486 Score = 1064 bits (2755), Expect = 0.0 Identities = 362/489 (74%), Positives = 417/489 (85%), Gaps = 3/489 (0%) Query: 1 MVAVRETVDKVRKIDVDQYKYGFETNIQVDKAPKGLNEDIIRFISAKKNEPDWMLEWRLL 60 M A ET D V+++ +YKYGF T+I+ D+ PKGLNED++R ISAKKNEP+WMLEWRL Sbjct: 1 MSANTETTDDVKELVNQEYKYGFVTDIETDELPKGLNEDVVRLISAKKNEPEWMLEWRLK 60 Query: 61 AYRRWLTMKDPSWARIRYPAIDFDDLYYYAAPKSIVGPQSLDDVDPELLRTYEKLGIPIR 120 AYR WLTM++P WA++ YP ID+ D+ YY+APK P+SLD+VDPELL T+EKLGIP+R Sbjct: 61 AYRHWLTMEEPHWAKVHYPPIDYQDISYYSAPKCKSKPKSLDEVDPELLETFEKLGIPLR 120 Query: 121 EQEILAGVQTSKVAVDAVFDSVSVVTTFKEELKKSGVIFMPISEAICEHPDLVKKYLSTV 180 EQ+ LAG +VAVDAVFDSVSV TTFKE+L ++GVIF ISEAI EHP+LVKKYL +V Sbjct: 121 EQKRLAG---REVAVDAVFDSVSVATTFKEKLAEAGVIFCSISEAIQEHPELVKKYLGSV 177 Query: 181 VPVGDNFYAALNSAVFTDGSFVYIPKGVRCPMELSTYFRINEKGTGQFERTLIIADEGSY 240 VPV DNF+AALNSAVF+DGSFVYIPKGVRCPMELSTYFRIN TGQFERTLIIADEGSY Sbjct: 178 VPVNDNFFAALNSAVFSDGSFVYIPKGVRCPMELSTYFRINAANTGQFERTLIIADEGSY 237 Query: 241 VSYLEGCTAPQRDENQLHAAVVELVALDNAEIKYSTVQNWYPGDSQGKGGIYNFVTKRGD 300 VSYLEGCTAP RDENQLHAAVVELVALD+AEIKYSTVQNWYPGD GKGGIYNFVTKRG Sbjct: 238 VSYLEGCTAPMRDENQLHAAVVELVALDDAEIKYSTVQNWYPGDENGKGGIYNFVTKRGL 297 Query: 301 CRGMRSKISWTQLETGSAITWKYPSCLLRGEQSCGEFYSIAISNGFQQIDSGTKMLHLAK 360 CRG SKISWTQ+ETGSAITWKYPSC+LRG+ S GEFYS+A++NG QQ D+GTKM+H+ K Sbjct: 298 CRGENSKISWTQVETGSAITWKYPSCILRGDNSVGEFYSVALTNGHQQADTGTKMIHIGK 357 Query: 361 NTTSRIVSKGISAGFSNNTYRGKVSVHRGAAHSRNFTQCDSLLIGNNCGAHTIPYIESKN 420 NT S I+SKGISAG S NTYRG V + A ++RNFTQCDSLLIG+ CGAHT PYIE KN Sbjct: 358 NTKSTIISKGISAGHSQNTYRGLVKIMPKATNARNFTQCDSLLIGDQCGAHTFPYIEVKN 417 Query: 421 SSCNLEHEATTSKISDEHLFYCLQRGIPEEAAIALIVNGFVREVLQKLPMEFAVEAQKLI 480 +S +EHEATTSKIS++ LFYC QRGI EE A+++IVNGF +EV Q+LPMEFAVEAQKL+ Sbjct: 418 NSAQVEHEATTSKISEDQLFYCRQRGISEEDAVSMIVNGFCKEVFQELPMEFAVEAQKLL 477 Query: 481 DISLEGSVG 489 ISLEGSVG Sbjct: 478 AISLEGSVG 486 >gnl|CDD|131035 TIGR01980, sufB, FeS assembly protein SufB. This protein, SufB, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component. Length = 448 Score = 642 bits (1657), Expect = 0.0 Identities = 225/465 (48%), Positives = 297/465 (63%), Gaps = 18/465 (3%) Query: 17 DQYKYGFETNIQ-VDKAPKGLNEDIIRFISAKKNEPDWMLEWRLLAYRRWLTMKDPSWAR 75 +YKYGF + + KGL E+++ IS KK EPDWML++RL A + M P+W Sbjct: 1 TEYKYGFHDEDKYAYETEKGLTEEVVEEISEKKGEPDWMLDFRLRALELFEKMPMPTWGP 60 Query: 76 IRYPAIDFDDLYYYAAPKSIVGPQSLDDVDPELLRTYEKLGIPIREQEILAGVQTSKVAV 135 ID++D+ YY+ P S D+V E+ T+EKLGIP E++ LAGV Sbjct: 61 -DLSGIDYEDIVYYSKP-DKKKATSWDEVPDEIKDTFEKLGIPEAERKALAGV------- 111 Query: 136 DAVFDSVSVVTTFKEELKKSGVIFMPISEAICEHPDLVKKYLSTVVPVGDNFYAALNSAV 195 A +DS + KE+L++ GVIF + A+ E+PDLVK+Y +VVP DN +AALN AV Sbjct: 112 GAQYDSEVIYHNIKEDLEEKGVIFCDMDTALKEYPDLVKEYFMSVVPPSDNKFAALNGAV 171 Query: 196 FTDGSFVYIPKGVRCPMELSTYFRINEKGTGQFERTLIIADEGSYVSYLEGCTAPQRDEN 255 ++ GSFVY+PKGVR M L TYFRIN + TGQFE TLIIADEG+ V Y+EGC+AP N Sbjct: 172 WSGGSFVYVPKGVRVDMPLQTYFRINSENTGQFEHTLIIADEGASVHYIEGCSAPIYSTN 231 Query: 256 QLHAAVVELVALDNAEIKYSTVQNWYPGDSQGKGGIYNFVTKRGDCRGMRSKISWTQLET 315 LHAAVVEL+ ++A ++YSTVQNW +YN VTKR + W Sbjct: 232 SLHAAVVELIVKEDARVRYSTVQNWSKN-------VYNLVTKRALVEE-NGTMEWVSGSI 283 Query: 316 GSAITWKYPSCLLRGEQSCGEFYSIAISNGFQQIDSGTKMLHLAKNTTSRIVSKGISAGF 375 GS IT KYPS +L+GE + EF SIA + Q +D+G KM+HLA NT+S I+SK IS G Sbjct: 284 GSKITMKYPSSILKGEGAKTEFLSIAFAGKGQHLDTGAKMIHLAPNTSSTIISKSISKGG 343 Query: 376 SNNTYRGKVSVHRGAAHSRNFTQCDSLLIGNNCGAHTIPYIESKNSSCNLEHEATTSKIS 435 +TYRG V + GA +++ QCDSLLI + + TIPYIE N + ++EHEAT SKIS Sbjct: 344 GKSTYRGLVKIGPGAKGAKSHVQCDSLLIDDESASDTIPYIEIFNDTVDVEHEATVSKIS 403 Query: 436 DEHLFYCLQRGIPEEAAIALIVNGFVREVLQKLPMEFAVEAQKLI 480 +E LFY + RG+ EE A A+IV GFV + ++LPME+AVE +LI Sbjct: 404 EEQLFYLMSRGLSEEDARAMIVRGFVEPITKELPMEYAVELNRLI 448 >gnl|CDD|162637 TIGR01981, sufD, FeS assembly protein SufD, group 1. This protein, SufD, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. SufB and SufD are homologous. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component. Length = 366 Score = 156 bits (397), Expect = 1e-38 Identities = 92/320 (28%), Positives = 152/320 (47%), Gaps = 13/320 (4%) Query: 156 GVIFMPISEAICEHPDLVKKYLSTVVPVGDN-FYAALNSAVFTDGSFVYIPKGVRC--PM 212 GVI +S+A+ HP+L++ L + + D + ALN+A+F DG+ +Y+PKGV P+ Sbjct: 50 GVIVPDLSDALPLHPELLEDLLDALAVLSDEDRFLALNAALFNDGTVLYVPKGVEVEEPI 109 Query: 213 ELSTYFRINEKGTGQFERTLIIADEGSYVSYLEG-CTAPQRDENQLHAAVVELVALDNAE 271 E+ EK R LII ++GS ++ +E T +VVE+ NA Sbjct: 110 EIKFIGVGGEKNFV-HPRLLIIVEKGSKITVIERFETISLNSGKAFTNSVVEITVGANAS 168 Query: 272 IKYSTVQNWYPGDSQGKGGIYNFVTKRGDCRGMRSKISWTQLETGSAITWKYPSCLLRGE 331 + + VQ + +F R G + + + G ++ L GE Sbjct: 169 VIFVKVQFF-------SKNSTHFSNHRA-FIGRDATLRLAVVNLGGKLSRHNFDVDLEGE 220 Query: 332 QSCGEFYSIAISNGFQQIDSGTKMLHLAKNTTSRIVSKGISAGFSNNTYRGKVSVHRGAA 391 S E +A G Q +D T ++H +T S I+ +GI ++ +RG + + +GA Sbjct: 221 GSKLEVKGLAFGAGSQHVDVRTNVVHNGPDTKSNILHRGILDDRAHGVFRGIIHIPKGAK 280 Query: 392 HSRNFTQCDSLLIGNNCGAHTIPYIESKNSSCNLEHEATTSKISDEHLFYCLQRGIPEEA 451 + +LL+ ++ A T P +E H AT +I DE LFY RGI EE Sbjct: 281 GTDAEQLNRNLLLSDDARADTKPILEIDADDVKASHGATVGQIDDEQLFYLRSRGIDEEE 340 Query: 452 AIALIVNGFVREVLQKLPME 471 A L++ GF+ E+++++P E Sbjct: 341 ARRLLIRGFLGEIIEEIPDE 360 >gnl|CDD|182859 PRK10948, PRK10948, cysteine desulfurase activator complex subunit SufD; Provisional. Length = 424 Score = 52.3 bits (126), Expect = 3e-07 Identities = 42/155 (27%), Positives = 70/155 (45%), Gaps = 4/155 (2%) Query: 316 GSAITWKYPSCLLRGEQSCGEFYSIAISNGFQQIDSGTKMLHLAKNTTSRIVSKGISAGF 375 G+A+ S L GE S S+A+ + D+ T + H SR + K I + Sbjct: 250 GAAVLRHNTSTQLNGENSTLRLNSLAMPVKNEVCDTRTWLEHNKGYCNSRQLHKTIVSDK 309 Query: 376 SNNTYRGKVSVHRGAAHSRNFTQCDSLLIGNNCGAHTIPYIE--SKNSSCNLEHEATTSK 433 + G + V + A + ++LL+G T P +E + + C+ H AT + Sbjct: 310 GRAVFNGLIKVAQHAIKTDGQMTNNNLLLGKLAEVDTKPQLEIYADDVKCS--HGATVGR 367 Query: 434 ISDEHLFYCLQRGIPEEAAIALIVNGFVREVLQKL 468 I DE LFY RGI ++ A +I+ F E+ + + Sbjct: 368 IDDEQLFYLRSRGINQQDAQQMIIYAFAAELTEAI 402 >gnl|CDD|164803 PHA00430, PHA00430, tail fiber protein. Length = 568 Score = 32.2 bits (73), Expect = 0.30 Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 6/70 (8%) Query: 255 NQLHAAVVELVALDNAEIKYSTVQNWY-PGDSQGKGGIY-----NFVTKRGDCRGMRSKI 308 + L+ + L A K V P D +G + ++ + R +R Sbjct: 419 SYLYGTHLTLRADYAVVNKRFHVGQAVFPTDGNLQGTKWGGNLDKWLGAYLNDRYVRKSS 478 Query: 309 SWTQLETGSA 318 WTQ+ T SA Sbjct: 479 GWTQVWTASA 488 >gnl|CDD|150901 pfam10303, DUF2408, Protein of unknown function (DUF2408). This is a family of proteins conserved in fungi. The function is unknown. Length = 124 Score = 31.8 bits (73), Expect = 0.44 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 9/55 (16%) Query: 100 SLDDVDPELLRTYEKLGIPIREQEILAGVQTSKVAVDAVFDSVSVVTTFKEELKK 154 L+++ PEL +EKL I IR + +L+ SK S S ++ KE+LK+ Sbjct: 1 KLEEISPELQPIHEKL-ISIR-RSLLSLATRSK-------FSASELSQLKEQLKE 46 >gnl|CDD|161880 TIGR00440, glnS, glutaminyl-tRNA synthetase. This protein is a relatively rare aminoacyl-tRNA synthetase, found in the cytosolic compartment of eukaryotes, in E. coli and a number of other Gram-negative Bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive Bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln. This enzyme is a class I tRNA synthetase (hit by the pfam model tRNA-synt_1c) and is quite closely related to glutamyl-tRNA synthetases. Length = 522 Score = 28.7 bits (64), Expect = 3.6 Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 2/48 (4%) Query: 65 WLTMKDPSWARIRYPAIDFDDLYYYAAPKSIVGPQSLDDVDPELLRTY 112 WL K +IRY + FD+LY YA G +D++ PE +R Y Sbjct: 61 WLGFK-WEG-KIRYSSDYFDELYRYAEELIKKGLAYVDELTPEEIREY 106 >gnl|CDD|182823 PRK10902, PRK10902, FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional. Length = 269 Score = 28.6 bits (64), Expect = 4.3 Identities = 10/21 (47%), Positives = 16/21 (76%) Query: 109 LRTYEKLGIPIREQEILAGVQ 129 L+ EKLGI + + +++AGVQ Sbjct: 64 LKEQEKLGIKLDKDQLIAGVQ 84 >gnl|CDD|163259 TIGR03429, arom_pren_DMATS, aromatic prenyltransferase, DMATS type. Members of this protein family are mostly fungal enzymes of secondary metabolite production. Characterized or partially characterized members include several examples of dimethylallyltryptophan synthase, a brevianamide F prenyltransferase, LtxC from lyngbyatoxin biosynthesis, and a probable dimethylallyl tyrosine synthase. Length = 406 Score = 28.1 bits (63), Expect = 5.0 Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 8/55 (14%) Query: 64 RWLTMKDPSWARI-RYP-AIDFDD------LYYYAAPKSIVGPQSLDDVDPELLR 110 L K P + A D +Y+Y K+ ++ E +R Sbjct: 148 ALLREKLPKGPLRPQMWLAFDLKGGGVVLKVYFYPRLKAAATGVPSSELVFEAIR 202 >gnl|CDD|150474 pfam09810, Morph_protein1, Defects in morphology protein 1, mitochondrial precursor. Members of this family of proteins are thought to be involved in cellular morphology, though little else is known about them. Length = 329 Score = 27.8 bits (62), Expect = 6.4 Identities = 11/41 (26%), Positives = 17/41 (41%) Query: 111 TYEKLGIPIREQEILAGVQTSKVAVDAVFDSVSVVTTFKEE 151 T K G R + G++ + V +V V T KE+ Sbjct: 32 TLTKFGRKERTPAMKRGIKIHEKLELEVHTTVPVEVTTKED 72 >gnl|CDD|161729 TIGR00133, gatB, glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit. The heterotrimer GatABC is responsible for transferring the NH2 group that converts Glu to Gln, or Asp to Asn after the Glu or Asp has been ligated to the tRNA for Gln or Asn, respectively. In Lactobacillus, GatABC is responsible only for tRNA(Gln). In the Archaea, GatABC is responsible only for tRNA(Asn), while GatDE is responsible for tRNA(Gln). In lineages that include Thermus, Chlamydia, or Acidithiobacillus, the GatABC complex catalyzes both. Length = 478 Score = 27.4 bits (61), Expect = 8.6 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 20/92 (21%) Query: 107 ELLRTYEKLGIPIRE------------QEILAGVQTSKVAVDAVFDSVSVVTTFKEELKK 154 ELL KL I + E + I G + K A + + + + +++ Sbjct: 352 ELLGVLNKLQISLAECGLKPSDLAELIKLIKEGKISGKSAKQLIEEMLENGGDPSKLIEE 411 Query: 155 SGVIFMP--------ISEAICEHPDLVKKYLS 178 G+ + I E I E+P V+KYLS Sbjct: 412 LGLEQISDEKELIKIIEEVIKENPKEVEKYLS 443 >gnl|CDD|162321 TIGR01369, CPSaseII_lrg, carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes. Length = 1050 Score = 27.3 bits (61), Expect = 9.2 Identities = 14/35 (40%), Positives = 20/35 (57%) Query: 99 QSLDDVDPELLRTYEKLGIPIREQEILAGVQTSKV 133 L ++DPELLR +KLG + L GV ++V Sbjct: 474 VKLTELDPELLRRAKKLGFSDAQIARLIGVTEAEV 508 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 0.135 0.400 Gapped Lambda K H 0.267 0.0725 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,973,396 Number of extensions: 515668 Number of successful extensions: 921 Number of sequences better than 10.0: 1 Number of HSP's gapped: 909 Number of HSP's successfully gapped: 17 Length of query: 489 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 392 Effective length of database: 3,898,497 Effective search space: 1528210824 Effective search space used: 1528210824 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 (26.5 bits)