RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780369|ref|YP_003064782.1| Electron transfer flavoprotein alpha subunit [Candidatus Liberibacter asiaticus str. psy62] (318 letters) >gnl|CDD|177660 PLN00022, PLN00022, electron transfer flavoprotein subunit alpha; Provisional. Length = 356 Score = 278 bits (714), Expect = 1e-75 Identities = 132/324 (40%), Positives = 199/324 (61%), Gaps = 15/324 (4%) Query: 9 LLLADYNQENLSEQTARIVTAAQKI---SHDIHVLVLG--DNIENIAQQAARIQ-GVTQV 62 L++A++ ++ Q+ V AA+ + S I +L+ G +++ A AA V++V Sbjct: 30 LVVAEHEGGSVKPQSLSAVAAAKSLLGESSPISLLLAGSGPSLQQAASHAASSHPSVSEV 89 Query: 63 IVAQSTIFRHKLAGPVSDFVVSIAR--DYKTIMASANAMGKDILPRVAAMLDVMQVSEVI 120 +VA S H LA P + VV + Y I+A++ + GK++LPR AA+LDV +++V+ Sbjct: 90 LVADSDKLTHPLAEPWAKLVVLAQQKGGYSHILAASTSFGKNVLPRAAALLDVSPITDVV 149 Query: 121 EIISPKIFKRPSYTGNIIQTIETTDTYQ-IITIRAIAFPPAPKA----EKVASIHKISAE 175 I+ F RP Y GN + T+ + +++IR +FP P A I ++ Sbjct: 150 RILDSNTFVRPIYAGNALATVRYKGSGPCMLSIRPTSFPVTPALANSESNEAPISQVDLS 209 Query: 176 VL-EKYISNTRFIKEERTSLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIG 234 +L E + +R++ DL SAK+V++GG+ S ENF K+L LA KLG A+G Sbjct: 210 LLDEDSVGKSRWVGLSVQDTERPDLGSAKVVVTGGRGLKSAENF-KMLEKLADKLGGAVG 268 Query: 235 ATRDAVDAGFAPNDWQIGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAP 294 A+R AVDAGF PND Q+GQTG V+PELYIA GISGAIQH++GMKDSKVIV+IN D +AP Sbjct: 269 ASRAAVDAGFVPNDLQVGQTGKIVAPELYIAVGISGAIQHLAGMKDSKVIVAINKDADAP 328 Query: 295 IFKISDYFIVGDIFKILPEIEKNL 318 IF+++DY +V D+F+ +PE+ + L Sbjct: 329 IFQVADYGLVADLFEAVPELLEKL 352 >gnl|CDD|183380 PRK11916, PRK11916, electron transfer flavoprotein subunit YdiR; Provisional. Length = 312 Score = 102 bits (256), Expect = 1e-22 Identities = 83/315 (26%), Positives = 147/315 (46%), Gaps = 36/315 (11%) Query: 21 EQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARIQGVTQVIVAQSTI-------FRHK 73 E+ A + AQ+ ++ +V + QA G + V + + Sbjct: 15 ERYAELFGGAQQWGQQVYAIVQNTDQ----AQAVMPYGPKCIYVLEQNDALQRTENYAES 70 Query: 74 LAGPVSDFVVSIARDYKTIMASANAMGKDILPRVAAMLDVMQVSEV--IEIISPKIFKRP 131 +A + D ++ ++ +A GK + R++ L+ V++ ++I+ I Sbjct: 71 IAALLKDKHPAM------LLLAATKRGKALAARLSVQLNAALVNDATAVDIVDGHICAEH 124 Query: 132 SYTGNIIQTIETTDTYQ-IITIRAIAFPPAPKAEKVASI---HKISAEVLEKYISNTRFI 187 G + E ++ IIT+ AP ++ + H+ E + Y++ I Sbjct: 125 RMYGGLAFAQEKINSPLAIITL-------APGVQEPCTSDTSHQCPTETV-PYVAPRHEI 176 Query: 188 --KEERT-SLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIGATRD-AVDAG 243 +E R + S DLS AK V+ G+ + ++ K++ LA L A +G +R A Sbjct: 177 LCRERRAKAASSVDLSKAKRVVGVGRGLAAQDDL-KMVHELAAVLNAEVGCSRPIAEGEN 235 Query: 244 FAPNDWQIGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAPIFKISDYFI 303 + + IG +GV + +LY+ GISG IQH+ G +KVIV+IN D+NAPIF +DY + Sbjct: 236 WMERERYIGVSGVLLKSDLYLTLGISGQIQHMVGGNGAKVIVAINKDKNAPIFNYADYGL 295 Query: 304 VGDIFKILPEIEKNL 318 VGDI+K++P + L Sbjct: 296 VGDIYKVVPALISQL 310 >gnl|CDD|179570 PRK03363, fixB, putative electron transfer flavoprotein FixB; Provisional. Length = 313 Score = 102 bits (255), Expect = 1e-22 Identities = 68/188 (36%), Positives = 100/188 (53%), Gaps = 6/188 (3%) Query: 133 YTGNIIQTIETTDTYQIITIRAIAFPPA-PKAEKVASIHKISAEVLEKYISNTRFIKEER 191 Y G I Y ++TI + F A P A + H + E ++ TR + R Sbjct: 128 YGGLAIGEERIATPYAVLTISSGTFDAAQPDASRTGETH--TVEWQAPAVAITRTATQAR 185 Query: 192 TSLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIGATRD-AVDAGFAPNDWQ 250 S + DL A++V+S G+ GS EN L L K +GA + +R A + + ++ Sbjct: 186 QS-NSVDLDKARLVVSVGRGIGSKENI-ALAEQLCKAIGAELACSRPVAENEKWMEHERY 243 Query: 251 IGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAPIFKISDYFIVGDIFKI 310 +G + + + PELY+A GISG IQH+ G S+ I +IN D+NAPIF+ +DY IVGD KI Sbjct: 244 VGISNLMLKPELYLAVGISGQIQHMVGANASQTIFAINKDKNAPIFQYADYGIVGDAVKI 303 Query: 311 LPEIEKNL 318 LP + L Sbjct: 304 LPALTAAL 311 >gnl|CDD|183886 PRK13192, PRK13192, bifunctional urease subunit gamma/beta; Reviewed. Length = 208 Score = 31.5 bits (72), Expect = 0.28 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 7/45 (15%) Query: 78 VSDFVVSIARDYKTIMASANAMGK------DILPRVAAMLDVMQV 116 ++D V+ ARD ++ +A +G+ D+LP VA M+ +QV Sbjct: 39 IADEVLEAARDGRS-VAELIDLGRTILTTDDVLPGVADMVPEVQV 82 >gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional. Length = 275 Score = 29.6 bits (67), Expect = 1.1 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 8/59 (13%) Query: 9 LLLADYNQENLSEQTARIVTAAQKISHDIHVLVLG----DNIENIAQQAARIQGVTQVI 63 +LLADYN+ENL E A+ + A D+ + ++++ +A A + VT ++ Sbjct: 27 VLLADYNEENL-EAAAKTLREA---GFDVSTQEVDVSSRESVKALAATAQTLGPVTGLV 81 >gnl|CDD|166881 PRK00275, glnD, PII uridylyl-transferase; Provisional. Length = 895 Score = 29.6 bits (67), Expect = 1.2 Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%) Query: 16 QENLSEQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARIQGVTQVIV 64 Q NL+ ARI+T++ + + D ++ VL D+ E I ARI+ + + + Sbjct: 727 QLNLNIHDARIITSSSQFTLDTYI-VLDDDGEPIGDNPARIEQIREGLT 774 >gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein. Length = 270 Score = 28.9 bits (65), Expect = 1.7 Identities = 15/33 (45%), Positives = 15/33 (45%), Gaps = 4/33 (12%) Query: 120 IEIISPKIFKRPSYTGNIIQTIETTDTYQIITI 152 I I SPK T N I I TT QII I Sbjct: 25 ISITSPK----AQTTRNRISGIHTTGASQIIFI 53 >gnl|CDD|149868 pfam08934, Rb_C, Rb C-terminal domain. The Rb C-terminal domain is required for high-affinity binding to E2F-DP complexes and for maximal repression of E2F-responsive promoters, thereby acting as a growth suppressor by blocking the G1-S transition of the cell cycle. This domain has a strand-loop-helix structure, which directly interacts with both E2F1 and DP1, followed by a tail segment that lacks regular secondary structure. Length = 155 Score = 27.2 bits (60), Expect = 5.7 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 5/77 (6%) Query: 148 QIITIRAIAFPPAPKAEKVASIHKISAEVLEKYISNTRFIK--EERTSLSPTDLS-SAKI 204 Q + R P P + S +K L SN +I + + +SPT ++ ++I Sbjct: 3 QYASTRPPTLSPIPHIPR--SPYKFPNSPLRVPGSNNIYISPLKSPSRMSPTKMTPRSRI 60 Query: 205 VISGGKSFGSMENFHKL 221 ++S G+SFG+ E F K+ Sbjct: 61 LVSIGESFGTAEKFQKI 77 >gnl|CDD|162392 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate synthase. A mutation study of the FolC gene of E. coli suggests that both activitities belong to the same active site. Because some examples are monofunctional (and these cannot be separated phylogenetically), the model is treated as subfamily, not equivalog. Length = 397 Score = 27.2 bits (61), Expect = 6.4 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 4/39 (10%) Query: 18 NLSEQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARI 56 N+ E ++T I D H +LGD +E IA + A I Sbjct: 128 NVIEPLVSVIT---SIGLD-HTEILGDTLEEIAWEKAGI 162 >gnl|CDD|178854 PRK00089, era, GTPase Era; Reviewed. Length = 292 Score = 26.9 bits (61), Expect = 6.4 Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 4/31 (12%) Query: 120 IEIISPKIFKRPSYTGNIIQTIETTDTYQII 150 I I+SPK P T + I+ I T D QII Sbjct: 30 ISIVSPK----PQTTRHRIRGIVTEDDAQII 56 >gnl|CDD|179397 PRK02256, PRK02256, putative aminopeptidase 1; Provisional. Length = 462 Score = 27.1 bits (61), Expect = 7.0 Identities = 11/20 (55%), Positives = 14/20 (70%) Query: 281 SKVIVSINTDENAPIFKISD 300 +KV + I DEN P+F ISD Sbjct: 153 TKVEIVIGEDENDPVFTISD 172 >gnl|CDD|152370 pfam11935, DUF3453, Domain of unknown function (DUF3453). This presumed domain is functionally uncharacterized. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. Length = 241 Score = 26.9 bits (60), Expect = 7.2 Identities = 20/102 (19%), Positives = 38/102 (37%), Gaps = 15/102 (14%) Query: 59 VTQVIVAQST--IFRHKLAGPVSDFVVSIARDYKTIMASAN--AMGKDILPRVAAMLDVM 114 V +VI+ Q+ G +DF +S ++ N A +L R +LDV+ Sbjct: 69 VERVILVQTPGPSDSDPRRGDENDFSLSKVPPNHPLIKYQNLEAEANGLLDR---LLDVL 125 Query: 115 QVSE--------VIEIISPKIFKRPSYTGNIIQTIETTDTYQ 148 Q + ++ +RP + I+ + + Q Sbjct: 126 QEDSISSPLLTATLNSLAVIAKQRPQFANRILNALLNFNPNQ 167 >gnl|CDD|163083 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072). Length = 968 Score = 26.7 bits (59), Expect = 7.8 Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 2/59 (3%) Query: 98 AMGKDILPRVAAMLDVMQVSEVIEIISPKIFKRPSYTGNIIQTIETTDTY--QIITIRA 154 A+GK + + +L ++ + + + +II T+ + IT++A Sbjct: 77 AIGKKLTLQSETLLHSLKALGELPFNEDLLARLEVLVKDIIDTLAQLGLSVGERITLQA 135 >gnl|CDD|184504 PRK14097, pgi, glucose-6-phosphate isomerase; Provisional. Length = 448 Score = 26.7 bits (60), Expect = 9.1 Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 8/37 (21%) Query: 5 DMPVLLLADYNQENLSEQTARIVTAAQKISHDIHVLV 41 D+P +Y++E ARI AA+KI D VLV Sbjct: 49 DLPE----NYDKEEF----ARIKKAAEKIKSDSDVLV 77 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 0.133 0.367 Gapped Lambda K H 0.267 0.0600 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,131,910 Number of extensions: 333390 Number of successful extensions: 718 Number of sequences better than 10.0: 1 Number of HSP's gapped: 712 Number of HSP's successfully gapped: 26 Length of query: 318 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 225 Effective length of database: 3,984,929 Effective search space: 896609025 Effective search space used: 896609025 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: 57 (26.0 bits)