RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780817|ref|YP_003065230.1| preprotein translocase subunit SecB [Candidatus Liberibacter asiaticus str. psy62] (152 letters) >gnl|CDD|180234 PRK05751, PRK05751, preprotein translocase subunit SecB; Validated. Length = 156 Score = 173 bits (440), Expect = 2e-44 Identities = 52/138 (37%), Positives = 84/138 (60%), Gaps = 2/138 (1%) Query: 5 QKQAFTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNANTISGADFDVILSFDI 64 + F I Y KD SFE+PNAP F + QP + +N+ NAN ++ ++V+L+ + Sbjct: 9 AQPQFQIQRIYTKDLSFENPNAPAIF--QEEWQPEVNLNLDTNANKLAEDVYEVVLTVTV 66 Query: 65 EAKNNDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIRDGGFP 124 AK +K F E+ +GI I + P+E ++ +L +ECP +LFP+ R+II++ +R GGFP Sbjct: 67 TAKLGEKTAFLCEVQQAGIFTIRNIPEEQLAPLLGIECPNILFPYAREIIADLVRRGGFP 126 Query: 125 PLVIDTIDFLKLFQQEKS 142 PL + I+F L++Q Sbjct: 127 PLNLAPINFDALYEQRLQ 144 >gnl|CDD|129891 TIGR00809, secB, protein-export chaperone SecB. The archaeal Methanococcus jannaschii homolog MJ0357 has been shown (PubMed:14985117) to share many properties, including chaperone-like activity, and scores between trusted and noise. Length = 140 Score = 116 bits (291), Expect = 4e-27 Identities = 44/133 (33%), Positives = 79/133 (59%), Gaps = 2/133 (1%) Query: 9 FTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNANTISGADFDVILSFDIEAKN 68 F I Y+KD SFE+PNAPH F + +P + +++ N+ +S ++V+L+ + A+ Sbjct: 7 FQIQRIYVKDLSFEAPNAPHIF--QLDWRPEVDLDLDTNSTQLSDDFYEVVLNITVTARL 64 Query: 69 NDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIRDGGFPPLVI 128 + F E+ +G+ I+ E ++ L V CP +LFP+ R+IIS+ ++ G FPPL + Sbjct: 65 EEYTAFLCEVKQAGVFNIIGIESEQMAHCLGVHCPNMLFPYAREIISSCVQRGTFPPLNL 124 Query: 129 DTIDFLKLFQQEK 141 ++F L+ Q++ Sbjct: 125 APVNFDALYMQQQ 137 >gnl|CDD|106068 PRK13031, PRK13031, preprotein translocase subunit SecB; Provisional. Length = 149 Score = 64.4 bits (156), Expect = 1e-11 Identities = 35/139 (25%), Positives = 72/139 (51%), Gaps = 3/139 (2%) Query: 1 MEKKQKQAFTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNA-NTISGADFDVI 59 M+++ + F I Y+KD SF PN+ + N +P + +++V A ++ + Sbjct: 1 MDQQAQPQFQIQKVYVKDLSFSIPNSDKIW--TTNWKPELHTDLKVEATKLPEENTYETV 58 Query: 60 LSFDIEAKNNDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIR 119 L+ +++ +N+ V F E+ +GI + + + I CP +L+ + R+ IS+ + Sbjct: 59 LTLEVKVENDGMVAFEAEVKQAGIFTVANMQEAQIEHAKKAFCPNILYHYAREAISDLVI 118 Query: 120 DGGFPPLVIDTIDFLKLFQ 138 GGFP L + ++F ++Q Sbjct: 119 SGGFPQLCLSAVNFDAMYQ 137 >gnl|CDD|184804 PRK14720, PRK14720, transcript cleavage factor/unknown domain fusion protein; Provisional. Length = 906 Score = 26.7 bits (59), Expect = 2.5 Identities = 13/74 (17%), Positives = 31/74 (41%), Gaps = 4/74 (5%) Query: 31 FDIQNQQPTIKINVQVNANTISGADFDVILSFDIEAKNNDKVIFRLELAYSGILRILDCP 90 +++ +P ++V DF D + ++ DK+ E+ + R L+ Sbjct: 705 PYVKDLEPKDLYELKVEIKP----DFAWFEFEDEKEQDGDKLTRVPEIGFLVTRRALNKK 760 Query: 91 QEHISQILFVECPQ 104 ++ + + VE P+ Sbjct: 761 KKELEHLKDVEMPE 774 >gnl|CDD|182501 PRK10503, PRK10503, multidrug efflux system subunit MdtB; Provisional. Length = 1040 Score = 25.8 bits (57), Expect = 4.8 Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%) Query: 35 NQQPTIKINVQVN--ANTISGAD 55 N+Q I +NVQ AN I+ AD Sbjct: 285 NKQQAIVMNVQRQPGANIIATAD 307 >gnl|CDD|179074 PRK00591, prfA, peptide chain release factor 1; Validated. Length = 359 Score = 25.4 bits (57), Expect = 6.3 Identities = 8/15 (53%), Positives = 9/15 (60%) Query: 138 QQEKSLIKNKEGLMK 152 Q E+S KNK MK Sbjct: 259 QDERSQHKNKAKAMK 273 >gnl|CDD|163567 TIGR03855, NAD_NadX, aspartate dehydrogenase. Members of this protein family are L-aspartate dehydrogenase, as shown for the NADP-dependent enzyme TM_1643 of Thermotoga maritima. Members lack homology to NadB, the aspartate oxidase (EC 1.4.3.16) of most mesophilic bacteria (described by TIGR00551), which this enzyme replaces in the generation of oxaloacetate from aspartate for the NAD biosynthetic pathway. All members of the seed alignment are found adjacent to other genes of NAD biosynthesis, although other uses of L-aspartate dehydrogenase may occur. Length = 229 Score = 25.4 bits (56), Expect = 6.8 Identities = 12/33 (36%), Positives = 15/33 (45%) Query: 42 INVQVNANTISGADFDVILSFDIEAKNNDKVIF 74 INV + +G D V + D EA N IF Sbjct: 153 INVAATLSLAAGFDAKVEIVADPEADRNIHEIF 185 >gnl|CDD|148448 pfam06841, Phage_T4_gp19, T4-like virus tail tube protein gp19. This family consists of several tail tube protein gp19 sequences from the T4-like viruses. This famiyl also contains bacterial members which suggest lateral transfer of genes. Length = 133 Score = 24.9 bits (55), Expect = 8.3 Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 8/32 (25%) Query: 52 SGADFDVILSFDIEAKNNDKVIFRLELAYSGI 83 SG D D A +N+ I LELAY G+ Sbjct: 109 SGPDLD--------ADSNEVAIETLELAYEGL 132 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 0.142 0.411 Gapped Lambda K H 0.267 0.0681 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,447,511 Number of extensions: 148713 Number of successful extensions: 344 Number of sequences better than 10.0: 1 Number of HSP's gapped: 341 Number of HSP's successfully gapped: 21 Length of query: 152 Length of database: 5,994,473 Length adjustment: 85 Effective length of query: 67 Effective length of database: 4,157,793 Effective search space: 278572131 Effective search space used: 278572131 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: 53 (24.3 bits)