RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780584|ref|YP_003064997.1| 50S ribosomal protein L28 [Candidatus Liberibacter asiaticus str. psy62] (97 letters) >gnl|CDD|30576 COG0227, RpmB, Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]. Length = 77 Score = 71.5 bits (175), Expect = 5e-14 Identities = 34/74 (45%), Positives = 52/74 (70%) Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60 MSR C+LT K MSGN VSH++NKT+RRFLPNL ++ S + +LR+S ALR+++ Sbjct: 1 MSRRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTID 60 Query: 61 RQGGLDRFLSNSKK 74 ++G +D L+ ++ Sbjct: 61 KKGKIDAVLAKARA 74 >gnl|CDD|144429 pfam00830, Ribosomal_L28, Ribosomal L28 family. The ribosomal 28 family includes L28 proteins from bacteria and chloroplasts. The L24 protein from yeast also contains a region of similarity to prokaryotic L28 proteins. L24 from yeast is also found in the large ribosomal subunit. Length = 61 Score = 71.4 bits (176), Expect = 5e-14 Identities = 28/61 (45%), Positives = 44/61 (72%) Query: 3 RVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQ 62 R C+LT K M GN VSH+NNKT+RR+ PNL + L S+ + + +L++S ALR+++++ Sbjct: 1 RRCQLTGKGPMFGNNVSHSNNKTKRRWKPNLQKKRLWSESLGRWVRLKVSTKALRTIDKK 60 Query: 63 G 63 G Sbjct: 61 G 61 >gnl|CDD|38488 KOG3278, KOG3278, KOG3278, Mitochondrial/chloroplast ribosomal protein L28 [Translation, ribosomal structure and biogenesis]. Length = 215 Score = 47.8 bits (113), Expect = 7e-07 Identities = 22/90 (24%), Positives = 47/90 (52%), Gaps = 3/90 (3%) Query: 9 KKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRF 68 N + NKTRR + PN+ L S I++ K +++++ LR+++++GG+D + Sbjct: 51 SHIQYGNNVIEDGGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEY 110 Query: 69 LSNSKK---ENLSARMRTLRSQILKKMSEK 95 L + + L LR+++L + + + Sbjct: 111 LLKTPSARQKMLGEMGLYLRTKVLARYAIE 140 >gnl|CDD|38489 KOG3279, KOG3279, KOG3279, Uncharacterized conserved protein (melanoma antigen P15) [Function unknown]. Length = 283 Score = 32.7 bits (74), Expect = 0.020 Identities = 14/81 (17%), Positives = 36/81 (44%), Gaps = 1/81 (1%) Query: 17 KVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKEN 76 K + ++PNL R + S +++ + +++ L ++ GLD ++ ++ + Sbjct: 98 KREQTKRRVPHFWVPNLRRSVVHSHVLDCYMSVVVTERTLELIDECHGLDHYILKNRACD 157 Query: 77 L-SARMRTLRSQILKKMSEKS 96 L S L+ ++L + Sbjct: 158 LRSKFALKLKREMLLALQNGV 178 >gnl|CDD|177037 CHL00112, rpl28, ribosomal protein L28; Provisional. Length = 63 Score = 30.3 bits (68), Expect = 0.12 Identities = 18/61 (29%), Positives = 37/61 (60%) Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60 MS+ C+LT K +G VSH++ +T++ NL + S+ + +L+IS A+++++ Sbjct: 1 MSKKCQLTGKKANNGYTVSHSHKRTKKLQKVNLQTKKIWSNTQNRWVKLKISTKAIKTLK 60 Query: 61 R 61 + Sbjct: 61 K 61 >gnl|CDD|36475 KOG1261, KOG1261, KOG1261, Malate synthase [Energy production and conversion]. Length = 552 Score = 26.9 bits (59), Expect = 1.2 Identities = 10/40 (25%), Positives = 17/40 (42%) Query: 26 RRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGL 65 LP+ ++ + S M + I+ C R V GG+ Sbjct: 301 PDHLLPDRVQVGMTSPFMRAYSKRLINTCHRRGVHAMGGM 340 >gnl|CDD|35190 COG5631, COG5631, Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]. Length = 199 Score = 26.6 bits (58), Expect = 1.4 Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 1/73 (1%) Query: 18 VSHANNKTRRRFLPNLCRITLISDIMEQKYQLR-ISKCALRSVERQGGLDRFLSNSKKEN 76 + ++ R + L ++C++ D Y LR + K L + G + + Sbjct: 89 LHIIRHRDRPKSLADICQMLNREDTHNITYSLRKLLKGGLITRTGSGKEVTYEVTALGHR 148 Query: 77 LSARMRTLRSQIL 89 AR +R +L Sbjct: 149 ACARYADIREVLL 161 >gnl|CDD|112909 pfam04114, Gaa1, Gaa1-like, GPI transamidase component. GPI (glycosyl phosphatidyl inositol) transamidase is a multi-protein complex. Gpi16, Gpi8 and Gaa1 for a sub-complex of the GPI transamidase. GPI transamidase that adds glycosylphosphatidylinositols (GPIs) to newly synthesized proteins. Length = 498 Score = 25.6 bits (56), Expect = 3.3 Identities = 13/48 (27%), Positives = 14/48 (29%), Gaps = 10/48 (20%) Query: 30 LPNLCRITLISDIMEQ----KYQLRISKCALRSVERQGGLDRFLSNSK 73 LPNL L I E KY L + Q F K Sbjct: 127 LPNLDLFNLAQRITEHEGFMKYSLHLQP------SDQHSNSGFWQRLK 168 >gnl|CDD|177096 CHL00204, ycf1, Ycf1; Provisional. Length = 1832 Score = 25.5 bits (56), Expect = 3.3 Identities = 11/27 (40%), Positives = 18/27 (66%) Query: 69 LSNSKKENLSARMRTLRSQILKKMSEK 95 L+ K ++L+ R +T+R+QI K EK Sbjct: 1022 LTEKKIKDLTDRTKTIRNQIEKITKEK 1048 >gnl|CDD|109553 pfam00502, Phycobilisome, Phycobilisome protein. Length = 157 Score = 24.5 bits (54), Expect = 6.9 Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 2/33 (6%) Query: 67 RFLSNSKKENLSARMRT--LRSQILKKMSEKSS 97 R+LS + E+L ++ R + + ++ +S Sbjct: 12 RYLSGGELESLKGFVQRGNARLEAAEALTANAS 44 >gnl|CDD|38760 KOG3552, KOG3552, KOG3552, FERM domain protein FRM-8 [General function prediction only]. Length = 1298 Score = 24.3 bits (52), Expect = 7.2 Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 1/39 (2%) Query: 53 KCALRSVERQGGLDRFLSNSKKENLSAR-MRTLRSQILK 90 K +L+ +E++ GL+RF+ S E + + ++ S LK Sbjct: 330 KISLKYIEKEWGLERFVPVSLLEGMKRKEIKKAISHFLK 368 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 0.319 0.128 0.342 Gapped Lambda K H 0.267 0.0610 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 976,485 Number of extensions: 40495 Number of successful extensions: 94 Number of sequences better than 10.0: 1 Number of HSP's gapped: 94 Number of HSP's successfully gapped: 19 Length of query: 97 Length of database: 6,263,737 Length adjustment: 65 Effective length of query: 32 Effective length of database: 4,859,152 Effective search space: 155492864 Effective search space used: 155492864 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 51 (23.7 bits)