RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780418|ref|YP_003064831.1| 50S ribosomal protein L25/general stress protein Ctc [Candidatus Liberibacter asiaticus str. psy62] (191 letters) >1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S rRNA-protein complex, cadmium IONS, ribosome; 2.30A {Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T 2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z 2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z 2wrl_Z 2wro_Z ... Length = 206 Score = 155 bits (394), Expect = 4e-39 Identities = 46/183 (25%), Positives = 82/183 (44%), Gaps = 7/183 (3%) Query: 5 ECKLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTI 64 E +L A R+ + LR+ G++P ++Y + + + + K + I Sbjct: 2 EYRLKAYYREGEKPSA---LRRAGKLPGLMYNR-HLNRKVYVDLVEFDKVFRQASIHHVI 57 Query: 65 LTLDIGKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQG 124 + + + + + LD H DF V V ++VP+RF+ G++ G Sbjct: 58 VLELPDGQSLPTLVRQVNLDKRRRRPEHVDF-FVLSDEPVEMYVPLRFVGTP--AGVRAG 114 Query: 125 GKLNVVCHEVSLLCPANNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATI 184 G L + ++ + NIP+ I VD++ L+IGDS+H D++LP TIA + Sbjct: 115 GVLQEIHRDILVKVSPRNIPEFIEVDVSGLEIGDSLHASDLKLPPGVELAVSPEETIAAV 174 Query: 185 VAP 187 V P Sbjct: 175 VPP 177 >2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T* 1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z 1pnu_T 1pny_T 1vor_W 1vou_W 1vow_W ... Length = 237 Score = 116 bits (291), Expect = 4e-27 Identities = 44/174 (25%), Positives = 72/174 (41%), Gaps = 4/174 (2%) Query: 15 KVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILTLDIGKELV 74 + + I A+ Y + AL K + ++ G E Sbjct: 4 TAKPRTPKQKLDESMIAAVAYNKE-NNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETF 62 Query: 75 HVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQGGKLNVVCHEV 134 + K Q+D IH DF V+ G V V VPV + G QGG +++V H + Sbjct: 63 PALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRS--QGEVQGGLVDIVVHNL 120 Query: 135 SLLCPA-NNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATIVAP 187 ++ P IP + VD+ + IGD I DI+LPE + + +T+ +++ P Sbjct: 121 QIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPP 174 >1b75_A Protein (50S ribosomal protein L25); RNA-binding protein; NMR {Escherichia coli} SCOP: b.53.1.1 PDB: 1d6k_A 1dfu_P 1giy_V 1ml5_v* 1p85_T 1p86_T 1vs6_V 1vs8_V 2aw4_V 2awb_V 2gya_T 2gyc_T 2i2t_V 2i2v_V 2j28_V 2qam_V* 2qao_V* 2qba_V* 2qbc_V* 2qbe_V ... Length = 94 Score = 95.8 bits (238), Expect = 5e-21 Identities = 28/91 (30%), Positives = 45/91 (49%) Query: 7 KLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILT 66 ++A +R + GKG++R LR + PAIIYG P I L + F + +LT Sbjct: 3 TINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLAIELDHDKVMNMQAKAEFYSEVLT 62 Query: 67 LDIGKELVHVIPKDYQLDPVSDILIHADFLQ 97 + + + + V +D Q P L H DF++ Sbjct: 63 IVVDGKEIKVKAQDVQRHPYKPKLQHIDFVR 93 >3ic8_A Uncharacterized GST-like proteinprotein; glutathione, transferase, PSI, MCSG, structural genomics; 2.40A {Pseudomonas syringae PV} Length = 310 Score = 31.1 bits (69), Expect = 0.16 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 6/46 (13%) Query: 72 ELVHVIPKDYQLDPVSDILIHADFLQVS------EGSTVTVHVPVR 111 + V + DY ++ V L+ ++ V VH P Sbjct: 258 DKVAIAAVDYGVEAVEGELMFTGREELILRREDNRAGVVHVHFPRL 303 >3dmk_A DOWN syndrome cell adhesion molecule (dscam) isoform 1.30.30, N-terminal eight IG...; IG domains, immunoglobulin domain; HET: NAG NDG; 4.19A {Drosophila melanogaster} Length = 816 Score = 27.6 bits (59), Expect = 2.0 Identities = 10/30 (33%), Positives = 13/30 (43%) Query: 103 TVTVHVPVRFINENKSPGIKQGGKLNVVCH 132 + V+VP R+I E QG V C Sbjct: 708 PLNVYVPPRWILEPTDKAFAQGSDAKVECK 737 >3b43_A Titin; I-SET IG fold, extended poly-IG filament, elastic filament, structural protein; 3.30A {Oryctolagus cuniculus} Length = 570 Score = 26.9 bits (57), Expect = 3.4 Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 8/79 (10%) Query: 103 TVTVHVPVRFINENKSPGIKQGGKLNVVCHEVSLLCPANNIPD-SITVDLNDLKIGDSIH 161 ++T+ P RF+ + G EV L S+ + +I Sbjct: 471 SITLKAPPRFVKKLSDISTVVG-------EEVQLQATIEGAEPISVAWFKDKGEIVRESD 523 Query: 162 MEDIRLPEKTSSMSQLNIT 180 I E +++ Sbjct: 524 NIWISYSENIATLQFSRAE 542 >2o8s_A AGR_C_984P; all alpha-helical protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Agrobacterium tumefaciens str} SCOP: a.295.1.1 Length = 323 Score = 26.8 bits (59), Expect = 3.5 Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%) Query: 38 MSDPK--PIALSAKDISKRLYSKNFMTTILTLDI 69 M+D + AL A + Y+K F+ +LT Sbjct: 102 MADTRLYNYALKAHGLEDMAYAKAFIRKVLTEGA 135 >1gr0_A MYO-inositol-1-phosphate synthase; oxidoreductase, PSI, protein structure initiative, TB structural genomics consortium, TB, TBSGC; HET: NAD; 1.95A {Mycobacterium tuberculosis} SCOP: c.2.1.3 d.81.1.3 Length = 367 Score = 26.7 bits (59), Expect = 3.8 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 7/52 (13%) Query: 37 NMSDPKPIALSAKDISKRLYSKNFMTTILTLDIGKELVHVIPKDYQLDPVSD 88 NM + + L +K ISK +T+ L + + VH+ P D+ + + D Sbjct: 238 NMLERE--RLESKKISK----TQAVTSNLKREFKTKDVHIGPSDH-VGWLDD 282 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.317 0.135 0.379 Gapped Lambda K H 0.267 0.0449 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,575,128 Number of extensions: 70474 Number of successful extensions: 243 Number of sequences better than 10.0: 1 Number of HSP's gapped: 237 Number of HSP's successfully gapped: 13 Length of query: 191 Length of database: 5,693,230 Length adjustment: 87 Effective length of query: 104 Effective length of database: 3,584,002 Effective search space: 372736208 Effective search space used: 372736208 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 (25.3 bits)