RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780246|ref|YP_003064659.1| 50S ribosomal protein L6 [Candidatus Liberibacter asiaticus str. psy62] (177 letters) >gnl|CDD|177062 CHL00140, rpl6, ribosomal protein L6; Validated. Length = 178 Score = 204 bits (522), Expect = 9e-54 Identities = 93/175 (53%), Positives = 124/175 (70%) Query: 1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKK 60 MSRIGK I++P V+V+++D IKVKGPKG LS + D I++ +Q+ L V+ + SKK Sbjct: 1 MSRIGKLPIKIPDNVNVSIDDQIIKVKGPKGTLSRKIPDLITIEIQDNSLFVSKKDESKK 60 Query: 61 ARAAWGMSRTMINNLFHGVTKGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEG 120 ARA G+ RT+INN+ GV++G+E+KLE+ GVG RA + G++L ++LG+SH V G Sbjct: 61 ARALHGLYRTLINNMVIGVSEGFEKKLELQGVGYRAQVQGKDLILNLGYSHPVKIKIPPG 120 Query: 121 ISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGIRYSGEVIIRKEGK 175 IS+ V T I + GIDK+ VG AA+IRS R EPYKGKGIRY GEVI RK GK Sbjct: 121 ISVEVENNTNITIKGIDKELVGQFAAKIRSVRPPEPYKGKGIRYKGEVIRRKAGK 175 >gnl|CDD|30446 COG0097, RplF, Ribosomal protein L6P/L9E [Translation, ribosomal structure and biogenesis]. Length = 178 Score = 198 bits (504), Expect = 9e-52 Identities = 91/176 (51%), Positives = 116/176 (65%) Query: 1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKK 60 MSRIGK+ I +P GV V++E + VKGPKG+L+ D + E + V K+ Sbjct: 1 MSRIGKRPIVIPAGVTVSIEGQVVTVKGPKGELTREFHDNVVKVEVEDNILVVRPVDGKR 60 Query: 61 ARAAWGMSRTMINNLFHGVTKGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEG 120 RA G R +INN+ GVT+G+E+KLEI GVG RA + G NL++ LG+SH V+ EG Sbjct: 61 KRALHGTVRALINNMVKGVTEGFEKKLEIVGVGYRAQVVGGNLELFLGYSHPVVIEIPEG 120 Query: 121 ISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGIRYSGEVIIRKEGKK 176 I++ V PTEI+V GIDK+ VG VAA IR+ R EPYKGKGIRY GE I RKEGK Sbjct: 121 ITVEVPGPTEIVVEGIDKELVGQVAANIRAARKPEPYKGKGIRYDGEYIRRKEGKT 176 >gnl|CDD|38464 KOG3254, KOG3254, KOG3254, Mitochondrial/chloroplast ribosomal protein L6 [Translation, ribosomal structure and biogenesis]. Length = 211 Score = 144 bits (364), Expect = 1e-35 Identities = 65/179 (36%), Positives = 102/179 (56%), Gaps = 3/179 (1%) Query: 2 SRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVT---LQEGMLSVATINGS 58 +GKK I V +E +++VKGP G+L+ + ++++ + GM + + Sbjct: 32 VYVGKKEIIVKENKQRDLEGEQLQVKGPHGELNLRFPNYLNLSNDKKKSGMDANIKKQET 91 Query: 59 KKARAAWGMSRTMINNLFHGVTKGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPL 118 KK RA WG R ++ N GVT G+ + L++ GVG RA ++G+ L + LG+SHDVL + Sbjct: 92 KKQRAMWGTFRALLANNVKGVTMGFLKILKLVGVGYRASLEGKFLHLKLGYSHDVLLSIP 151 Query: 119 EGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGIRYSGEVIIRKEGKKK 177 + + PT +++ GIDKQKV AA++RS++ EPYKGKGI E + K K Sbjct: 152 TDVQVKNPTPTSLVLRGIDKQKVTQFAAKVRSFKPPEPYKGKGIYVDDEKVKLKAKKSI 210 >gnl|CDD|109407 pfam00347, Ribosomal_L6, Ribosomal protein L6. Length = 76 Score = 83.8 bits (208), Expect = 2e-17 Identities = 34/74 (45%), Positives = 45/74 (60%) Query: 91 GVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRS 150 VG R +DG NL + LG ++ G+++ V K T IIVSGIDK+KVG AA I + Sbjct: 2 PVGVRVSIDGVNLVLVLGPKGELTREIPPGVTVKVEKITVIIVSGIDKEKVGQFAALIGT 61 Query: 151 YRSAEPYKGKGIRY 164 YR+ P GKG+ Y Sbjct: 62 YRAPIPNMGKGVSY 75 Score = 48.7 bits (117), Expect = 8e-07 Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 8/78 (10%) Query: 11 VPLGVDVAVED-HEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKAR-----AA 64 +P+GV V+++ + + V GPKG+L+ + G++V +++ ++V ++G K + A Sbjct: 1 IPVGVRVSIDGVNLVLVLGPKGELTREIPPGVTVKVEK--ITVIIVSGIDKEKVGQFAAL 58 Query: 65 WGMSRTMINNLFHGVTKG 82 G R I N+ GV+ G Sbjct: 59 IGTYRAPIPNMGKGVSYG 76 >gnl|CDD|38465 KOG3255, KOG3255, KOG3255, 60S ribosomal protein L9 [Translation, ribosomal structure and biogenesis]. Length = 179 Score = 35.3 bits (81), Expect = 0.008 Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%) Query: 9 IQVPLGVDVAVEDHEIKVKGPKGQL--SFMM--SDGISVTLQEGMLSVATINGSKKARAA 64 + +P VD+ ++ H + VKGP+G L F + + ++ L + G++K A Sbjct: 10 VHIPENVDITLKGHVVIVKGPRGTLWRDFNHINVELSLLGKKKKRLKIDKWWGTRKGVAC 69 Query: 65 WGMSRTMINNLFHGVTKGYERK 86 + I N GVT G+ K Sbjct: 70 LRTVVSHIENCIKGVTIGFIYK 91 >gnl|CDD|31637 COG1448, TyrB, Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]. Length = 396 Score = 26.3 bits (58), Expect = 4.7 Identities = 24/121 (19%), Positives = 43/121 (35%), Gaps = 2/121 (1%) Query: 30 KGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVTKGYERKLEI 89 QL ++ S G VATI + + RA W + + + L+ Sbjct: 272 LSQLKAIIRTNYSNPPAHGAAVVATILNNPELRAEWEQELEEMRQRILEMRQALVDALKA 331 Query: 90 SGVGCR--AFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAE 147 G + R + G S + + E I++ I V+G++ + +VA Sbjct: 332 LGAPRNFDFIISQRGMFSYTGLSPEQVDRLREEFGIYLVASGRINVAGLNTSNIDYVAKA 391 Query: 148 I 148 I Sbjct: 392 I 392 >gnl|CDD|30315 cd02783, MopB_CT_2, The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.. Length = 156 Score = 26.1 bits (57), Expect = 4.7 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 10/57 (17%) Query: 42 SVTLQEGMLSVATINGSKKARAAWGMSRT--------MINNLFHGVTKGYERKLEIS 90 + T++ G +V T N K AWG+ ++N+L + IS Sbjct: 68 TETVEPG--TVWTWNAIGKRPGAWGLKPDAPESVKGFLLNHLINDSLPPPGDAKRIS 122 >gnl|CDD|36147 KOG0929, KOG0929, KOG0929, Guanine nucleotide exchange factor [Intracellular trafficking, secretion, and vesicular transport]. Length = 1514 Score = 25.7 bits (56), Expect = 6.4 Identities = 18/69 (26%), Positives = 23/69 (33%), Gaps = 3/69 (4%) Query: 102 NLKMSLGFSHDVLYTPLE-GISIFVSKPTEIIVSGIDKQKVGHVAAEIRSY-RSAEPY-K 158 + F L+ GI +F KP + I K VG EI + E K Sbjct: 502 DADDPEQFEALKSEKQLQEGIQLFNGKPKKGISFLDSKGTVGTSPLEIAEFLIGTEGLSK 561 Query: 159 GKGIRYSGE 167 Y GE Sbjct: 562 TILGDYLGE 570 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.317 0.135 0.381 Gapped Lambda K H 0.267 0.0786 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 2,003,185 Number of extensions: 97659 Number of successful extensions: 185 Number of sequences better than 10.0: 1 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 10 Length of query: 177 Length of database: 6,263,737 Length adjustment: 88 Effective length of query: 89 Effective length of database: 4,362,145 Effective search space: 388230905 Effective search space used: 388230905 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 (21.6 bits) S2: 54 (24.5 bits)