RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780258|ref|YP_003064671.1| 50S ribosomal protein L2 [Candidatus Liberibacter asiaticus str. psy62] (278 letters) >2j01_D 50S ribosomal protein L2; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (D:49-276) Length = 228 Score = 224 bits (573), Expect = 7e-60 Identities = 123/229 (53%), Positives = 161/229 (70%), Gaps = 3/229 (1%) Query: 49 VTMRFRGGGHKNRYRLVDFKRGE-YGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAP 107 +T+RFRGGGHK YR++DFKR + G+ V +EYDPNR+A IAL+ Y +G YI+AP Sbjct: 1 ITVRFRGGGHKRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAP 60 Query: 108 QRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVE 167 L VG +V++ A ++ GNA+PLRFIPVG++VH VE++P KG +++R+AG+ A++ Sbjct: 61 DGLQVGQQVVAGPDA-PIQVGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQG 119 Query: 168 RDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSNVNHAKAGRARWLGMRSHVRGVAMN 227 R+ +LRL SGE+R VH C A++GAV N DH N+ KAGR+RWLG R HVRG AMN Sbjct: 120 REGDYVILRLPSGELRKVHGECYATVGAVGNADHKNIVLGKAGRSRWLGRRPHVRGAAMN 179 Query: 228 PVDHPHGGGEGKTSGGRNPCSPWGKLTKGKRTRS-NKSTDVFIARSRHK 275 PVDHPHGGGEG+ GR P SPWG TKG +TR K + FI R K Sbjct: 180 PVDHPHGGGEGRAPRGRPPASPWGWQTKGLKTRKRRKPSSRFIIARRKK 228 >1rl2_A Protein (ribosomal protein L2); RNA-binding domain, peptidyltransferease center, X-RAY diffraction; 2.30A {Geobacillus stearothermophilus} (A:) Length = 137 Score = 166 bits (421), Expect = 3e-42 Identities = 67/138 (48%), Positives = 103/138 (74%), Gaps = 1/138 (0%) Query: 61 RYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSD 120 +YR++DFKR + G+ G V +EYDPNR+A IALI+Y++G YI+AP+ L VG ++ S Sbjct: 1 QYRIIDFKRDKDGIPGRVATIEYDPNRSANIALINYADGEKRYIIAPKNLKVGXEIXSGP 60 Query: 121 SAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSG 180 A D+K GNA+PL IPVG++VHN+E+KPG+GGQ+ R+AG+ A+++ ++ ++RL+SG Sbjct: 61 DA-DIKIGNALPLENIPVGTLVHNIELKPGRGGQLVRAAGTSAQVLGKEGKYVIVRLASG 119 Query: 181 EMRFVHSSCMASIGAVSN 198 E+R + C A++G V N Sbjct: 120 EVRXILGKCRATVGEVGN 137 >3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (E:62-198) Length = 137 Score = 165 bits (419), Expect = 6e-42 Identities = 56/138 (40%), Positives = 90/138 (65%), Gaps = 1/138 (0%) Query: 66 DFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSDSAVDV 125 DF+R E + G + +EYDPNR A+I LI Y +G YIL P+ +GD ++S + Sbjct: 1 DFRRNEKDIYGKIVTIEYDPNRNAYICLIHYGDGEKRYILHPRGAIIGDTIVSGTEV-PI 59 Query: 126 KPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSGEMRFV 185 K GNA+PL +P+G+ +HN+E+ G+GGQ++R+AG+ A+L+ ++ A L+L SGE+R + Sbjct: 60 KMGNALPLTDMPLGTAIHNIEITLGRGGQLARAAGAVAKLIAKEGKSATLKLPSGEVRLI 119 Query: 186 HSSCMASIGAVSNQDHSN 203 +C A++G V N + Sbjct: 120 SKNCSATVGQVGNVGVNQ 137 >1vq8_A 50S ribosomal protein L2P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} (A:1-168) Length = 168 Score = 160 bits (407), Expect = 1e-40 Identities = 59/165 (35%), Positives = 93/165 (56%), Gaps = 2/165 (1%) Query: 40 KGGRNNTGRVTMRFRGGGHKNRYRLVDFKR-GEYGLEGVVKRLEYDPNRTAFIALISYSN 98 + GR T FR H+ + L K + G V +E+DP R+A +A + + + Sbjct: 4 RIQGQRRGRGTSTFRAPSHRYKADLEHRKVEDGDVIAGTVVDIEHDPARSAPVAAVEFED 63 Query: 99 GSLAYILAPQRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRS 158 G ILAP+ + VGD++ SA ++ PGN +PL IP G V NVE PG GG+ +R+ Sbjct: 64 GDRRLILAPEGVGVGDELQVGVSA-EIAPGNTLPLAEIPEGVPVCNVESSPGDGGKFARA 122 Query: 159 AGSYARLVERDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSN 203 +G A+L+ DR+ A+++L SGEM+ + C A+IG V+ ++ Sbjct: 123 SGVNAQLLTHDRNVAVVKLPSGEMKRLDPQCRATIGVVAGGGRTD 167 >2zkr_a 60S ribosomal protein L8; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1i_B (a:1-177) Length = 177 Score = 157 bits (398), Expect = 1e-39 Identities = 43/176 (24%), Positives = 84/176 (47%), Gaps = 10/176 (5%) Query: 35 RGLCSKGGRNNTGRVTMRFRGGGHKNRYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALI 94 + G + R ++ R G + R VDF ++G+VK + +DP R A +A + Sbjct: 4 VIRGQRKGAGSVFRAHVKHRKGAAR--LRAVDFAERHGYIKGIVKDIIHDPGRGAPLAKV 61 Query: 95 SYSNGS-----LAYILAPQRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVHNVEMKP 149 + + +A + + G V A + GN +P+ +P G+IV +E KP Sbjct: 62 VFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKA-QLNIGNVLPVGTMPEGTIVCCLEEKP 120 Query: 150 GKGGQISRSAGSYARLVER--DRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSN 203 G G+++R++G+YA ++ + + ++L SG + + S+ A +G V+ + Sbjct: 121 GDRGKLARASGNYATVISHNPETKKTRVKLPSGSKKVISSANRAVVGVVAGGGRID 176 >3i1n_C 50S ribosomal protein L2; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C 3df2_C 3df4_C 1vs6_C 3i1p_C 3i1r_C 3i1t_C 3i20_C 3i22_C 2qam_C* 1p85_A 1p86_A 2i2v_C 2i2t_C* 2qao_C* ... (C:70-200,C:260-273) Length = 145 Score = 155 bits (394), Expect = 4e-39 Identities = 74/130 (56%), Positives = 96/130 (73%), Gaps = 1/130 (0%) Query: 73 GLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSDSAVDVKPGNAMP 132 G+ VV+RLEYDPNR+A IAL+ Y +G YILAP+ L GD++ S A +KPGN +P Sbjct: 4 GIPAVVERLEYDPNRSANIALVLYKDGERRYILAPKGLKAGDQIQSGVDA-AIKPGNTLP 62 Query: 133 LRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSGEMRFVHSSCMAS 192 +R IPVGS VHNVEMKPGKGGQ++RSAG+Y ++V RD + LRL SGEMR V + C A+ Sbjct: 63 MRNIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVARDGAYVTLRLRSGEMRKVEADCRAT 122 Query: 193 IGAVSNQDHS 202 +G V N +H+ Sbjct: 123 LGEVGNAEHN 132 >2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_B (B:28-136) Length = 109 Score = 132 bits (333), Expect = 7e-32 Identities = 38/109 (34%), Positives = 65/109 (59%), Gaps = 4/109 (3%) Query: 106 APQRLSVGDKVISSDSA----VDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGS 161 A + + GD +++S+ V + G+A PL +PVG++++NVE +PG+G Q R+AG+ Sbjct: 1 ATENMQAGDTILNSNHIGRMAVAAREGDAHPLGALPVGTLINNVESEPGRGAQYIRAAGT 60 Query: 162 YARLVERDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSNVNHAKAG 210 L+ + A+++L S V +C+A++G VSN DH+ KAG Sbjct: 61 CGVLLRKVNGTAIIQLPSKRQMQVLETCVATVGRVSNVDHNKRVIGKAG 109 >1giy_D 50S ribosomal protein L2; ribosome assembly, protein synthesis, LIFE; 5.50A {Thermus thermophilus} (D:57-140) Length = 84 Score = 112 bits (281), Expect = 7e-26 Identities = 37/83 (44%), Positives = 59/83 (71%) Query: 119 SDSAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLS 178 S D+K GNA+PL IPVG++VHN+E+KPG+GGQ+ R+AG+ A+++ ++ ++RL+ Sbjct: 2 SGPDADIKIGNALPLENIPVGTLVHNIELKPGRGGQLVRAAGTSAQVLGKEGKYVIVRLA 61 Query: 179 SGEMRFVHSSCMASIGAVSNQDH 201 SGE+R + C A++G V N Sbjct: 62 SGEVRMILGKCRATVGEVGNGGR 84 >1giy_D 50S ribosomal protein L2; ribosome assembly, protein synthesis, LIFE; 5.50A {Thermus thermophilus} (D:1-56) Length = 56 Score = 86.6 bits (215), Expect = 3e-18 Identities = 29/56 (51%), Positives = 43/56 (76%) Query: 61 RYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKV 116 +YR++DFKR + G+ G V +EYDPNR+A IALI+Y++G YI+AP+ L VG ++ Sbjct: 1 QYRIIDFKRDKDGIPGRVATIEYDPNRSANIALINYADGEKRYIIAPKNLKVGMEI 56 >3i1n_C 50S ribosomal protein L2; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C 3df2_C 3df4_C 1vs6_C 3i1p_C 3i1r_C 3i1t_C 3i20_C 3i22_C 2qam_C* 1p85_A 1p86_A 2i2v_C 2i2t_C* 2qao_C* ... (C:1-69,C:201-230) Length = 99 Score = 84.1 bits (208), Expect = 2e-17 Identities = 35/69 (50%), Positives = 40/69 (57%) Query: 1 MALKNFNPDTSGRRQLVMVDRNSLHSGKPIKSLTRGLCSKGGRNNTGRVTMRFRGGGHKN 60 MA+ P + GRR +V V LH GKP L GGRNN GR+T R GGGHK Sbjct: 1 MAVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITTRHIGGGHKQ 60 Query: 61 RYRLVDFKR 69 YR+VDFKR Sbjct: 61 AYRIVDFKR 69 Score = 52.5 bits (126), Expect = 6e-08 Identities = 18/31 (58%), Positives = 19/31 (61%) Query: 201 HSNVNHAKAGRARWLGMRSHVRGVAMNPVDH 231 KAG ARW G+R VRG AMNPVDH Sbjct: 69 RMLRVLGKAGAARWRGVRPTVRGTAMNPVDH 99 >3cih_A Putative alpha-rhamnosidase; structural genomics, protein structure initiative II, NYSGXRC, (alpha/alpha)6 barrel domain; 2.33A {Bacteroides thetaiotaomicron vpi-5482} (A:39-51,A:168-298) Length = 144 Score = 27.9 bits (62), Expect = 1.4 Identities = 10/54 (18%), Positives = 15/54 (27%), Gaps = 4/54 (7%) Query: 42 GRNNTGRVTMRFRGGGHKNRYR----LVDFKRGEYGLEGVVKRLEYDPNRTAFI 91 G+ G +T++ G K + K Y LE I Sbjct: 45 GKETFGFITLKNLSGKGKIDLYYGESPEEAKDKAYCETLDKLLLEPGQITDLAI 98 >1phz_A Protein (phenylalanine hydroxylase); aromatic amino acid hydroxylase, phosphorylation, intrasteric regulation, allosteric regulation; 2.20A {Rattus norvegicus} (A:1-131) Length = 131 Score = 26.8 bits (59), Expect = 3.1 Identities = 3/22 (13%), Positives = 8/22 (36%) Query: 72 YGLEGVVKRLEYDPNRTAFIAL 93 + ++L T++I Sbjct: 6 LENGVLSRKLSDFGQETSYIED 27 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 0.317 0.134 0.396 Gapped Lambda K H 0.267 0.0578 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,059,570 Number of extensions: 88407 Number of successful extensions: 162 Number of sequences better than 10.0: 1 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 14 Length of query: 278 Length of database: 4,956,049 Length adjustment: 87 Effective length of query: 191 Effective length of database: 2,015,014 Effective search space: 384867674 Effective search space used: 384867674 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 (21.7 bits) S2: 54 (24.9 bits)