RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780939|ref|YP_003065352.1| type I signal peptidase [Candidatus Liberibacter asiaticus str. psy62] (248 letters) >1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptide processing, protein translocation, membrane bound proteinase; HET: 1PN; 1.95A {Escherichia coli} (A:72-99,A:175-215) Length = 69 Score = 58.3 bits (141), Expect = 1e-09 Identities = 30/103 (29%), Positives = 43/103 (41%), Gaps = 35/103 (33%) Query: 107 VIGLPGDRISLEKGIIYINGAPVVRHMEGYFSYHYKEDWSSNVPIFQEKLSNGVLYNVLS 166 +GLPGD+++ + PV + + Sbjct: 1 AVGLPGDKVTYD---------PVSKELTIQPGCSS------------------------G 27 Query: 167 QDFLAPSSNISEFLVPKGHYFMMGDNRDKSKDSRWVEVGFVPE 209 Q + P ++ ++VP G YFMMGDNRD S DSR+ GFVPE Sbjct: 28 QYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRY--WGFVPE 68 >1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptide processing, protein translocation, membrane bound proteinase; HET: 1PN; 1.95A {Escherichia coli} (A:1-71,A:216-248) Length = 104 Score = 57.2 bits (138), Expect = 2e-09 Identities = 36/77 (46%), Positives = 54/77 (70%), Gaps = 6/77 (7%) Query: 30 IRTFLFQPSVIPSGSMIPTLLVGDYIIVNKFSYGYSKYSFPFSYNLFNGRIFNNQPRRGD 89 +R+F+++P IPSGSM+PTLL+GD+I+V KF+YG + + P+RGD Sbjct: 1 VRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGH------PKRGD 54 Query: 90 VVVFRYPKDPSIDYVKR 106 +VVF+YP+DP +DY+KR Sbjct: 55 IVVFKYPEDPKLDYIKR 71 >2or0_A Hydroxylase; APC7385, rhodococcus SP. RHA1, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: MSE; 2.10A {Rhodococcus SP} (A:109-244) Length = 136 Score = 30.4 bits (68), Expect = 0.25 Identities = 7/47 (14%), Positives = 17/47 (36%), Gaps = 6/47 (12%) Query: 176 ISEFLVPKGHYFMMGDNRDK--SKDSRWVEVGF----VPEENLVGRA 216 ++P+ Y ++ D D + + ++ VP + A Sbjct: 74 SLHVILPRTDYQIVEDTWDVIGLRGTGSKDLIVDGAFVPGYRTLNAA 120 >2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl reductase, ketoacyl synthase, ketoacyl reductase; HET: FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G* (G:1106-1261) Length = 156 Score = 27.5 bits (61), Expect = 1.9 Identities = 9/22 (40%), Positives = 11/22 (50%), Gaps = 2/22 (9%) Query: 79 RIFNNQPRRGDVVVFRYPKDPS 100 R+F P RG V P DP+ Sbjct: 71 RLF--APTRGMYVEITNPDDPA 90 >2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A (A:71-189) Length = 119 Score = 27.3 bits (60), Expect = 2.3 Identities = 8/75 (10%), Positives = 17/75 (22%), Gaps = 26/75 (34%) Query: 44 SMIPTLLVGDYIIVNKFSYGYSKYSFPFSYNLFNGRIFNNQPRRGDVVVFRYPKDPSIDY 103 + G V+K G +V Sbjct: 44 DGMAIRSEGKIYFVDK----------------------QASLSDGLWLVDIKGA----IS 77 Query: 104 VKRVIGLPGDRISLE 118 ++ + LPG ++ + Sbjct: 78 IRELTKLPGRKLHVA 92 >2uv8_G Fatty acid synthase subunit beta (FAS1); fatty acid biosynthesis, malonyl/palmitoyl transferase, phosphopantetheine, transferase; HET: GVL FMN; 3.10A {Saccharomyces cerevisiae} PDB: 2vkz_G* 3hmj_G* (G:1103-1260) Length = 158 Score = 27.1 bits (60), Expect = 2.4 Identities = 12/75 (16%), Positives = 24/75 (32%), Gaps = 16/75 (21%) Query: 79 RIFNNQPRRGDVVVFRYPKDPSI-----------DYVKRVI--GLPGDRISLEKGIIYIN 125 ++F +P +G VV S + VI L + I +E I Sbjct: 53 KVF--KPSQGMVVEISNGNTSSKTVVTLSEPVQGELKPTVILKLLKENIIQMEM-IENRT 109 Query: 126 GAPVVRHMEGYFSYH 140 + ++++ Sbjct: 110 MDGKPVSLPLLYNFN 124 >2d29_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: FAD; 1.65A {Thermus thermophilus HB8} (A:121-232) Length = 112 Score = 26.9 bits (59), Expect = 3.0 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 7/47 (14%) Query: 175 NISEFLVPKGH-YFMMGDNRDKS--KDSRWVEVGF----VPEENLVG 214 IS F + +G +K S ++ VPEE L+G Sbjct: 66 GISAFAFFRPERGLKVGRKEEKLGLTASDTAQLILEDLFVPEEALLG 112 >3k3w_B Penicillin G acylase; hydrolase; 3.31A {Alcaligenes faecalis} (B:338-440) Length = 103 Score = 26.4 bits (58), Expect = 3.5 Identities = 10/77 (12%), Positives = 25/77 (32%), Gaps = 10/77 (12%) Query: 15 DTLKSILQALFFAILIRTFLFQPSVIPSGSMIPTLLVGDYIIVNKFSYGYSKYSFPFSYN 74 L ++ A+ +T GS+ + +G +++ + P N Sbjct: 16 QVLMPVVPESHRAMYSQTGFATQQGPNPGSINLS--MGTKVLLRALVLE--AHPDPKRVN 71 Query: 75 LFNGRIFNNQPRRGDVV 91 +F R +++ Sbjct: 72 VFGER------SSQEIM 82 >1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA dehydrogenase, , aldehyde dehydrogenase, oxidoreductase; HET: FAD; 2.10A {Streptomyces hygroscopicus} (A:105-209) Length = 105 Score = 25.3 bits (55), Expect = 7.1 Identities = 5/46 (10%), Positives = 14/46 (30%), Gaps = 7/46 (15%) Query: 176 ISEFLVPKGHY-FMMGDNRDKS--KDSRWVEVGF----VPEENLVG 214 + +VP + S + + ++ VP ++ Sbjct: 59 GAVVVVPADTPGVRVERVPKPSGCRAAGHADLHLDQVRVPAGAVLA 104 >2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid metabolism, FAD, polymorphism, flavoprotein, mitochondrion, disease mutation; HET: FAD COS; 1.9A {Homo sapiens} PDB: 1jqi_A* (A:117-227) Length = 111 Score = 25.4 bits (55), Expect = 7.9 Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 7/45 (15%) Query: 177 SEFLVPKGH-YFMMGDNRDKS--KDSRWVEVGF----VPEENLVG 214 S FLVP +G DK + S + F +P+++++G Sbjct: 67 SAFLVPMPTPGLTLGKKEDKLGIRGSSTANLIFEDCRIPKDSILG 111 >2z1q_A Acyl-COA dehydrogenase; FAD, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: FAD; 2.30A {Thermus thermophilus} (A:104-248) Length = 145 Score = 25.4 bits (54), Expect = 8.4 Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 7/48 (14%) Query: 175 NISEFLVPKGHYFMMGDNRDKSKDSRWVEVG-------FVPEENLVGR 215 + + FLV + + +K + VP EN++G Sbjct: 98 HFTAFLVERDTPGLSFGPEEKKMGIKASSTRQVILEDVKVPVENVLGE 145 >3i23_A Oxidoreductase, GFO/IDH/MOCA family; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 2.30A {Enterococcus faecalis} PDB: 3fd8_A* 3hnp_A (A:126-349) Length = 224 Score = 25.2 bits (55), Expect = 9.2 Identities = 6/39 (15%), Positives = 12/39 (30%), Gaps = 5/39 (12%) Query: 130 VRHMEGYFSYHYKEDWSSNVPIFQEKLSNGVLYNVLSQD 168 + +E + Y+ + Q NG Y + Sbjct: 21 INEVETHIDYYRPGSITE-----QGPKENGSFYGLGIHL 54 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.325 0.143 0.454 Gapped Lambda K H 0.267 0.0610 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,091,274 Number of extensions: 98574 Number of successful extensions: 321 Number of sequences better than 10.0: 1 Number of HSP's gapped: 321 Number of HSP's successfully gapped: 21 Length of query: 248 Length of database: 4,956,049 Length adjustment: 86 Effective length of query: 162 Effective length of database: 2,048,819 Effective search space: 331908678 Effective search space used: 331908678 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 (24.4 bits)