RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|255764485|ref|YP_003065139.2| hypothetical protein CLIBASIA_03065 [Candidatus Liberibacter asiaticus str. psy62] (243 letters) >gnl|CDD|150221 pfam09476, Pilus_CpaD, Pilus biogenesis CpaD protein (pilus_cpaD). Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known. Length = 200 Score = 151 bits (383), Expect = 2e-37 Identities = 63/177 (35%), Positives = 99/177 (55%), Gaps = 1/177 (0%) Query: 67 DYRDRYPILMRKVEQIVDIPLLAGRGEIKYPIHDTIRGFLEKYKNDSASVLFLLIPSPTV 126 DYR R+PI++ + ++ +D+P+ GRG + + GF +Y A L + +PS + Sbjct: 24 DYRTRHPIVVEEADRTLDLPVGPGRGGLTASQRARLAGFAARYGRRGAGPLVIDVPSGSP 83 Query: 127 SSASIRRAVKDIRKIIISSGIPVSSISERIYDADYGMDVDTIRLSYFASKPSAGKCGFWP 186 ++ + ++R ++ ++G+P S+IS R YDA IR+SY CG WP Sbjct: 84 NARAASALSAEVRALLAAAGVPPSNISVRAYDAAGARAPGPIRVSYTRYTAKVPPCGDWP 143 Query: 187 EDMLGNAKGNRNWTNYGCAYQNNLAAQVVNPLDLFSPRMVTPPDAEQRDKSIQRYRQ 243 ED+ N+ + N+GCA QNNLAA V NP DL PR +TP D +R I++YR+ Sbjct: 144 EDLGAT-FENKPYPNFGCATQNNLAAMVANPRDLVQPRAMTPADGARRTTVIEKYRK 199 >gnl|CDD|162903 TIGR02522, pilus_cpaD, pilus (Caulobacter type) biogenesis lipoprotein CpaD. This family consists of a pilus biogenesis protein, CpaD, from Caulobacter, and homologs in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function is not known. Length = 198 Score = 141 bits (357), Expect = 2e-34 Identities = 67/176 (38%), Positives = 95/176 (53%), Gaps = 7/176 (3%) Query: 67 DYRDRYPILMRKVEQIVDIPLLAGRGEIKYPIHDTIRGFLEKYKNDSASVLFLLIPSPTV 126 DYR R+PI +++ +D+ + G + D + GFL+ + SA L L+IPS Sbjct: 28 DYRQRHPIAVQESSVSIDLLVAPGDRGLSASQQDQLLGFLKDWGRASAQTLTLIIPSAAA 87 Query: 127 SSASIRRAVKDIRKIIISSGIPVSSISERIYDADYGMDVDTIRLSYFASKPSAGKCGFWP 186 + + +IR+++ +SG+ ++ G D IR+SY A KCG WP Sbjct: 88 EAMA-----GEIRRVLAASGVGARNVKVMYRATASG-DTGPIRVSYVAYVAQTTKCGIWP 141 Query: 187 EDMLGNAKGNRNWTNYGCAYQNNLAAQVVNPLDLFSPRMVTPPDAEQRDKSIQRYR 242 ED L K N + N+GCA QNNLAAQ+ NP DL PR +TP D E+RD I RYR Sbjct: 142 ED-LLMTKLNEAYGNFGCATQNNLAAQIANPRDLLGPRAMTPADGERRDIVIDRYR 196 >gnl|CDD|179009 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed. Length = 782 Score = 29.4 bits (67), Expect = 0.89 Identities = 29/170 (17%), Positives = 49/170 (28%), Gaps = 51/170 (30%) Query: 5 YMITILFGGVCFKGLANMRSLISCLKTIFWKNFFLRTLMLGQLF-FLLLFYGTSALAYYD 63 + L G F+G+ ++ + + L +L L + Sbjct: 54 AKLLRLKGLPPFEGVKDIDDALKRAEK-------GGVLSGDELLEIAKTLRYFRQLKRFI 106 Query: 64 EGSDYRDRYPILMRKVEQIVDIPLLA--------GRGEIKYPIHDTIRGFLEKYKNDSAS 115 E + + PIL V +I +P L GE+K DSAS Sbjct: 107 EDLEEEEELPILEEWVAKIRTLPELEQEIHNCIDEEGEVK----------------DSAS 150 Query: 116 VLFLLIPSPTVSSASIRRAVKDIR--------KIIISSGIPVSSISERIY 157 IRR ++ + II S + + + I Sbjct: 151 EKL----------RGIRRQLRRKKSRIREKLESIIRSKSL-QKYLQDTII 189 >gnl|CDD|177587 PHA03334, PHA03334, putative DNA polymerase catalytic subunit; Provisional. Length = 1545 Score = 28.7 bits (64), Expect = 1.4 Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 9/58 (15%) Query: 156 IYDADYGMDVDTIRLSYFASKPSAGKCGFWPEDMLGNAKGNRNWTNYGCAYQNNLAAQ 213 +Y+A++ + V RL+Y+A K L A W + + AQ Sbjct: 351 VYNAEFDVQVIQSRLNYYAFK--------QRPHPLTKALM-EAWEAFLSKDPQLVPAQ 399 >gnl|CDD|180860 PRK07152, nadD, putative nicotinate-nucleotide adenylyltransferase; Validated. Length = 342 Score = 27.6 bits (62), Expect = 3.2 Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 4/33 (12%) Query: 91 RGEIKYPIHDTIRGFLEKYKNDSASVLFLLIPS 123 R + Y I DTI+ F +KY ND ++ +I S Sbjct: 78 RQNVSYTI-DTIKYFKKKYPNDE---IYFIIGS 106 >gnl|CDD|152403 pfam11968, DUF3321, Protein of unknown function (DUF3321). This family is conserved in fungi and is annotated as being a nucleolar protein. Length = 220 Score = 26.8 bits (60), Expect = 5.7 Identities = 9/26 (34%), Positives = 12/26 (46%) Query: 102 IRGFLEKYKNDSASVLFLLIPSPTVS 127 FL S LFL++P P V+ Sbjct: 131 TTKFLRPPGPGSPPSLFLVLPLPCVT 156 >gnl|CDD|149141 pfam07902, Gp58, gp58-like protein. Sequences found in this family are derived from a number of bacteriophage and prophage proteins. They are similar to gp58, a minor structural protein of Lactococcus delbrueckii bacteriophage LL-H. Length = 601 Score = 26.8 bits (59), Expect = 5.7 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 4/55 (7%) Query: 91 RGEIKYPIHDTIRGFLEKYKNDSASVLFLLIPSPTVSSASIRRAVKDIRKIIISS 145 IK I +T G + D+ L L+ S A IRR +D + + SS Sbjct: 113 DTTIKNEIVETAGGIATRISEDTDKKLALINE----SIAGIRREYQDADRQLSSS 163 >gnl|CDD|132310 TIGR03266, methan_mark_1, putative methanogenesis marker protein 1. Members of this protein family represent a distinct clade among the larger set of proteins that belong to families TIGR00702 and pfam02624. Proteins from this clade are found in genome sequence if and only if the species sequenced is one of the methanogens. All methanogens belong to the archaea; some but not all of those sequenced are hyperthermophiles. This protein family was detected by the method of partial phylogenetic profiling (see Haft, et al., 2006). Length = 376 Score = 26.6 bits (59), Expect = 6.2 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%) Query: 99 HDTIRGFLEKYKNDSASVLFLLIPS----PTVSSASIRRAVKD 137 + + LEK+K+ V + S PTV++ S +KD Sbjct: 198 NGYLYELLEKFKDAGVDVKLRDLTSDTGIPTVAAVSDDLKLKD 240 >gnl|CDD|181205 PRK08040, PRK08040, putative semialdehyde dehydrogenase; Provisional. Length = 336 Score = 26.6 bits (59), Expect = 6.2 Identities = 12/31 (38%), Positives = 17/31 (54%) Query: 120 LIPSPTVSSASIRRAVKDIRKIIISSGIPVS 150 L+P S RR V +RKI+ G+P+S Sbjct: 201 LLPDSEGSVREERRLVDQVRKILQDEGLPIS 231 >gnl|CDD|170022 PRK09630, PRK09630, DNA topoisomerase IV subunit A; Provisional. Length = 479 Score = 26.4 bits (58), Expect = 6.8 Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 12/61 (19%) Query: 94 IKYPIHDTIRGFLEKYKND-SASVL----------FL-LIPSPTVSSASIRRAVKDIRKI 141 IK+ ++DT+R L K K S+S L FL +P+P A+ + A I+KI Sbjct: 349 IKHKLYDTVREMLSKRKTSPSSSDLHNAVLEALTPFLDTLPTPVDKQATAQLASLTIKKI 408 Query: 142 I 142 + Sbjct: 409 L 409 >gnl|CDD|178721 PLN03178, PLN03178, leucoanthocyanidin dioxygenase; Provisional. Length = 360 Score = 26.3 bits (58), Expect = 7.1 Identities = 7/30 (23%), Positives = 13/30 (43%) Query: 173 FASKPSAGKCGFWPEDMLGNAKGNRNWTNY 202 +A+ + G + + NA G W +Y Sbjct: 114 YANDQARGAAQGYGSKLAANASGQLEWEDY 143 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 0.325 0.141 0.426 Gapped Lambda K H 0.267 0.0670 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,082,355 Number of extensions: 263179 Number of successful extensions: 702 Number of sequences better than 10.0: 1 Number of HSP's gapped: 696 Number of HSP's successfully gapped: 17 Length of query: 243 Length of database: 5,994,473 Length adjustment: 91 Effective length of query: 152 Effective length of database: 4,028,145 Effective search space: 612278040 Effective search space used: 612278040 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 56 (25.5 bits)