RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780146|ref|YP_003064559.1| 50S ribosomal protein L1 [Candidatus Liberibacter asiaticus str. psy62] (232 letters) >2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} (A:) Length = 189 Score = 187 bits (476), Expect = 1e-48 Identities = 36/191 (18%), Positives = 82/191 (42%), Gaps = 6/191 (3%) Query: 43 VEIAMNLGIDPRHANQMVRGVVTMPNGTGVNVRVAVFAT--SSKADEAREAGADIVGGED 100 +++ +++ + + + V+++P + T +S+ A E GA GG Sbjct: 1 LDLTLDMALGKKKNVEPFTSVLSLPYPFASEINKVAVFTENASEVKIAEENGAAFAGGTS 60 Query: 101 LFEIVKGGQIDFDRCIATPDMMPLVGRLGRILGPRGIMPNLRVGTVTTDVATAVRESKSG 160 L + + +I D +A P++MP + RL + L + + ++ D+ + K+G Sbjct: 61 LIQKIWDDEIVADFYVAVPEIMPELNRLRKKLNKKYPKLS--RNSIGRDIPKMLELFKNG 118 Query: 161 -AVDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTM 219 + E+ + I + + +I N+ A ++ V + +P G +V R L S+ Sbjct: 119 HEIKVDEERENFLQTKIATLDMSSDQIAANLQAVINEVCRHRPL-NLGPFVVRAFLRSST 177 Query: 220 GCGIKVDLSSF 230 G+ + + Sbjct: 178 SEGLLLKIDPL 188 >2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A 2vpl_A (A:18-137) Length = 120 Score = 136 bits (344), Expect = 3e-33 Identities = 35/126 (27%), Positives = 58/126 (46%), Gaps = 8/126 (6%) Query: 104 IVKGGQIDFDRCIATPDMMPLVGRLGRILGPRGIMPNLRVGTVTTDVATAVRESKSGAVD 163 + +AT V GI P V V G ++ Sbjct: 3 YTIDEAAHLVKELATAKFDETVEVHA----KLGIDPRRSDQNVRG----TVSLPHGGRIE 54 Query: 164 FRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTMGCGI 223 FR++K G IHA +GK SF +K+ +N+ AF+ A+ KP AKG +++ V +++TMG + Sbjct: 55 FRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSV 114 Query: 224 KVDLSS 229 +++ S Sbjct: 115 RINPHS 120 >3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (D:184-271) Length = 88 Score = 131 bits (332), Expect = 8e-32 Identities = 54/88 (61%), Positives = 64/88 (72%) Query: 71 GVNVRVAVFATSSKADEAREAGADIVGGEDLFEIVKGGQIDFDRCIATPDMMPLVGRLGR 130 G V++AV A K DEA+ AGADIVGGE+L E +KGG +DFD+ IAT DMM V LGR Sbjct: 1 GKTVKIAVLAQGDKIDEAKAAGADIVGGEELIEQIKGGFMDFDKLIATSDMMAKVASLGR 60 Query: 131 ILGPRGIMPNLRVGTVTTDVATAVRESK 158 ILGPRG+MP + GTVT +VA AV E K Sbjct: 61 ILGPRGLMPTPKAGTVTPNVAQAVEEFK 88 >1ad2_A TL2, ribosomal protein L1; RNA binding, protein synthesis, mutant; 1.90A {Thermus thermophilus} (A:69-159) Length = 91 Score = 119 bits (299), Expect = 5e-28 Identities = 46/91 (50%), Positives = 60/91 (65%), Gaps = 1/91 (1%) Query: 71 GVNVRVAVFATSSKADEAREAGADIVGGEDLFEIVKGGQIDFDRCIATPDMMPLVGR-LG 129 G VRV A K EA EAGAD VGGE++ + + G +DFD +ATPD+M VG LG Sbjct: 1 GKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLG 60 Query: 130 RILGPRGIMPNLRVGTVTTDVATAVRESKSG 160 RILGPRG++PN + GTV ++ +RE K+G Sbjct: 61 RILGPRGLLPNPKAGTVGFNIGEIIREIKAG 91 >3fik_5 50S ribosomal protein L1; ribosome, decoding, tRNA, EF-TU, ternary complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding; 6.70A {Escherichia coli} PDB: 2rdo_9 2gya_2 2gyc_2 (5:1-71,5:134-234) Length = 172 Score = 116 bits (292), Expect = 3e-27 Identities = 52/100 (52%), Positives = 75/100 (75%) Query: 132 LGPRGIMPNLRVGTVTTDVATAVRESKSGAVDFRSEKAGIIHAGIGKVSFENKKIEENVL 191 G RG+MPN +VGTVT +VA AV+ +K+G V +R++K GIIH IGKV F+ K++EN+ Sbjct: 69 TGRRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLE 128 Query: 192 AFVSAVVKAKPSVAKGDYVKRVTLSSTMGCGIKVDLSSFS 231 A + A+ KAKP+ AKG Y+K+V++S+TMG G+ VD + S Sbjct: 129 ALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVDQAGLS 168 Score = 99.5 bits (248), Expect = 3e-22 Identities = 32/69 (46%), Positives = 53/69 (76%) Query: 3 SKISKRMQQISQGIDRSALYGLSDAVVMLKERATARFDETVEIAMNLGIDPRHANQMVRG 62 +K++KRM+ I + +D + Y +++A+ +LKE ATA+F E+V++A+NLGID R ++Q VRG Sbjct: 2 AKLTKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRG 61 Query: 63 VVTMPNGTG 71 +P+GTG Sbjct: 62 ATVLPHGTG 70 >1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translational repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} (A:55-148) Length = 94 Score = 110 bits (277), Expect = 2e-25 Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 9/96 (9%) Query: 71 GVNVRVAVFATSSKADEAREAGADIVGGEDLFE------IVKGGQIDFDRCIATPDMMPL 124 G ++AV T A +A E G ++ E++ E ++ D IA D+MPL Sbjct: 1 GKEAKIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPL 60 Query: 125 VGR-LGRILGPRGIMPNLRVGTVTTDVATAVRESKS 159 +GR +G ILGPRG MP ++ V K Sbjct: 61 IGRYMGVILGPRGKMPKPV--PANANIKPLVERLKK 94 >2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (5:55-147) Length = 93 Score = 109 bits (275), Expect = 2e-25 Identities = 30/95 (31%), Positives = 39/95 (41%), Gaps = 9/95 (9%) Query: 71 GVNVRVAVFATSSKADEAREAGADIVGGEDLFE------IVKGGQIDFDRCIATPDMMPL 124 G + VFA A A E D++ ++L E K D D IA +M Sbjct: 1 GQETTIVVFAEGETALRAEEVADDVLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQD 60 Query: 125 VGR-LGRILGPRGIMPNLRVGTVTTDVATAVRESK 158 +GR LG +LGPRG MP DV + K Sbjct: 61 IGRYLGTVLGPRGKMPEPLDPDD--DVVEVIERMK 93 >2noq_G 60S ribosomal protein L1; IRES RNA, ribosome, translation, internal initiation; 7.30A {Saccharomyces cerevisiae} PDB: 1s1i_A (G:57-149) Length = 93 Score = 108 bits (271), Expect = 8e-25 Identities = 20/93 (21%), Positives = 38/93 (40%), Gaps = 9/93 (9%) Query: 73 NVRVAVFATSSKADEAREAGADIVGGEDLFEI------VKGGQIDFDRCIATPDMMPLVG 126 N+ + +F + D A+ G D + +DL ++ +K ++ IA+ ++ V Sbjct: 3 NMSICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVP 62 Query: 127 R-LGRILGPRGIMPNLRVGTVTTDVATAVRESK 158 R LG L G P D+ V + + Sbjct: 63 RLLGPQLSKAGKFPTPVSHND--DLYGKVTDVR 93 >1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} (A:59-152) Length = 94 Score = 105 bits (265), Expect = 4e-24 Identities = 22/96 (22%), Positives = 39/96 (40%), Gaps = 10/96 (10%) Query: 71 GVNVRVAVFATSSKADEAREAGADIVGGEDLFEIVKGGQ-------IDFDRCIATPDMMP 123 RV V +S + + A++A +V + + ++G + + + + Sbjct: 1 SKAKRVLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESXA 60 Query: 124 LVGR-LGRILGPRGIMPNLRVGTVTTDVATAVRESK 158 L GR LG LGPRG P T D++ + K Sbjct: 61 LAGRILGPALGPRGKFPTPLPNTA--DISEYINRFK 94 >3fik_5 50S ribosomal protein L1; ribosome, decoding, tRNA, EF-TU, ternary complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding; 6.70A {Escherichia coli} PDB: 2rdo_9 2gya_2 2gyc_2 (5:72-133) Length = 62 Score = 105 bits (263), Expect = 8e-24 Identities = 32/62 (51%), Positives = 48/62 (77%) Query: 73 NVRVAVFATSSKADEAREAGADIVGGEDLFEIVKGGQIDFDRCIATPDMMPLVGRLGRIL 132 +VRVAVF + A+ A+ AGA++VG EDL + +K G+++FD IA+PD M +VG+LG++L Sbjct: 1 SVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVVGQLGQVL 60 Query: 133 GP 134 GP Sbjct: 61 GP 62 >3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (D:1-183,D:272-352) Length = 264 Score = 104 bits (261), Expect = 1e-23 Identities = 27/73 (36%), Positives = 44/73 (60%) Query: 159 SGAVDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSST 218 G V+FR +K GI+H GK++FE + + N+ A + +V KP+ AKG Y K +SS+ Sbjct: 184 KGKVEFRVDKTGIVHIPFGKLNFEEEDLLINLFATIKSVETNKPTGAKGVYWKSAHISSS 243 Query: 219 MGCGIKVDLSSFS 231 MG I++++ Sbjct: 244 MGPSIRLNIREML 256 Score = 99.2 bits (247), Expect = 4e-22 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 2/78 (2%) Query: 1 MVSKISKRMQQISQGIDRSALYGLSDAVVMLKERATARFDETVEIAMNLGIDPRHANQMV 60 SKR +I + + Y L A+ ++K+ ++ +F ET E L IDP++ +Q + Sbjct: 114 SDRTRSKRFLEIQKLREIKQEYDLKTALSLMKQMSSTKFVETAEAHFRLNIDPKYNDQQL 173 Query: 61 RGVVTMPNGTG--VNVRV 76 R V++P GT V RV Sbjct: 174 RATVSLPKGTKGKVEFRV 191 >1ad2_A TL2, ribosomal protein L1; RNA binding, protein synthesis, mutant; 1.90A {Thermus thermophilus} (A:1-68,A:160-228) Length = 137 Score = 101 bits (253), Expect = 1e-22 Identities = 25/68 (36%), Positives = 46/68 (67%) Query: 162 VDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTMGC 221 ++FR++K G IHA +GK F +K+ +N+ AF+ A+ KP AKG +++ V +++TMG Sbjct: 70 IEFRNDKTGAIHAPVGKACFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGP 129 Query: 222 GIKVDLSS 229 ++++ S Sbjct: 130 SVRINPHS 137 Score = 100 bits (252), Expect = 1e-22 Identities = 31/73 (42%), Positives = 49/73 (67%) Query: 4 KISKRMQQISQGIDRSALYGLSDAVVMLKERATARFDETVEIAMNLGIDPRHANQMVRGV 63 K KR + + + +D + +Y + +A ++KE ATA+FDETVE+ LGIDPR ++Q VRG Sbjct: 2 KHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGT 61 Query: 64 VTMPNGTGVNVRV 76 V++P+G + R Sbjct: 62 VSLPHGLRIEFRN 74 >1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translational repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} (A:1-54,A:149-219) Length = 125 Score = 90.1 bits (224), Expect = 2e-19 Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 2/70 (2%) Query: 162 VDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTMGC 221 V + +G +++I +N+ A ++ V K ++K + TMG Sbjct: 56 VVINTRDKPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKGLY--HIKDAYVKLTMGP 113 Query: 222 GIKVDLSSFS 231 +KV Sbjct: 114 AVKVKKEKAK 123 Score = 69.7 bits (171), Expect = 3e-13 Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 5/63 (7%) Query: 16 IDRSALYGLSDAVVMLKERA-TARFDETVEIAMNL-GIDPRHANQMVRGVVTMPNGTGVN 73 +DR AL AV +E A F ++ E L ID R ++ V +P+G V Sbjct: 1 MDREALL---QAVKEARELAKPRNFTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRTVV 57 Query: 74 VRV 76 + Sbjct: 58 INT 60 >2noq_G 60S ribosomal protein L1; IRES RNA, ribosome, translation, internal initiation; 7.30A {Saccharomyces cerevisiae} PDB: 1s1i_A (G:1-56,G:150-213) Length = 120 Score = 86.3 bits (214), Expect = 3e-18 Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 2/66 (3%) Query: 160 GAVDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTM 219 + F+ +K + +G V E + +L V+ V + V + + S+M Sbjct: 57 STIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQ--NVGSLVVKSSM 114 Query: 220 GCGIKV 225 G ++ Sbjct: 115 GPAFRL 120 >1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} (A:1-58,A:153-217) Length = 123 Score = 84.3 bits (209), Expect = 1e-17 Identities = 11/67 (16%), Positives = 29/67 (43%), Gaps = 3/67 (4%) Query: 160 GAVDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTM 219 +V +++ + IG + + + EN +A ++A+ ++ + + +T Sbjct: 59 RSVLVKTKDQPQVQVFIGTEDXKPEDLAENAIAVLNAIENKAK---VETNLRNIYVKTTX 115 Query: 220 GCGIKVD 226 G +KV Sbjct: 116 GKAVKVK 122 Score = 71.6 bits (176), Expect = 1e-13 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 2/63 (3%) Query: 16 IDRSALYGLSDAVVMLKERATARFDETVEIAMNL-GIDPRHANQMVRGVVTMPNGTG-VN 73 D+ +L + + F ++VEI + GID + + +R +V +P V Sbjct: 3 ADKESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDXKKGDLKLREIVPLPKQPRSVL 62 Query: 74 VRV 76 V+ Sbjct: 63 VKT 65 >2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (5:1-54,5:148-212) Length = 119 Score = 83.5 bits (207), Expect = 2e-17 Identities = 12/66 (18%), Positives = 24/66 (36%), Gaps = 2/66 (3%) Query: 160 GAVDFRSEKAGIIHAGIGKVSFENKKIEENVLAFVSAVVKAKPSVAKGDYVKRVTLSSTM 219 V RS + H +G + I +N+ + + + V + +TM Sbjct: 55 NTVQLRSGERRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKGPLN--IDTVYVKTTM 112 Query: 220 GCGIKV 225 G ++V Sbjct: 113 GPAMEV 118 Score = 68.9 bits (169), Expect = 5e-13 Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 6/64 (9%) Query: 16 IDRSALYGLSDAVVMLKERATAR-FDETVEIAMNL-GIDPRHANQMVRGVVTMPNGTG-V 72 + + +AV E A R F ETV++A+NL +D + V V +P GT V Sbjct: 1 MADQEIE---NAVSRALEDAPERNFRETVDLAVNLRDLDLNDPSNRVDESVVLPAGTNTV 57 Query: 73 NVRV 76 +R Sbjct: 58 QLRS 61 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} (A:1221-1330,A:1541-1688) Length = 258 Score = 27.5 bits (61), Expect = 1.6 Identities = 7/41 (17%), Positives = 11/41 (26%), Gaps = 8/41 (19%) Query: 4 KISKRMQQISQGIDRSALYGLSDAVVMLKERATARFDETVE 44 ++ R QI ++ LK A E Sbjct: 32 QLVTREAQIKDWVENELEA--------LKLEAEEIPSEDQN 64 >2gx8_A NIF3-related protein; structural genomics, unknown function, PSI, protein structure initiative; HET: EPE; 2.20A {Bacillus cereus atcc 14579} (A:1-132,A:360-397) Length = 170 Score = 26.0 bits (57), Expect = 3.9 Identities = 18/88 (20%), Positives = 35/88 (39%), Gaps = 10/88 (11%) Query: 13 SQGID--RSALYGLSDAV--VMLKERATARFDETVEIAMNLGIDPRHANQMVRGVVTMPN 68 S G+D LY S+A+ + + F+ + + D + + N Sbjct: 8 SSGVDLGTENLYFQSNAMSKIPNGHEIISLFESMYPKHLAMEGDK------IGLQIGALN 61 Query: 69 GTGVNVRVAVFATSSKADEAREAGADIV 96 +V +A+ T DEA + GA+++ Sbjct: 62 KPVRHVLIALDVTEEVVDEAIQLGANVI 89 >2ebu_A Replication factor C subunit 1; A/B/A 3 layers, parallel beta-sheet, DNA replication, clamp loader, RFC1, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Length = 112 Score = 25.3 bits (55), Expect = 7.7 Identities = 8/48 (16%), Positives = 19/48 (39%) Query: 63 VVTMPNGTGVNVRVAVFATSSKADEAREAGADIVGGEDLFEIVKGGQI 110 V + + + + SK+D+A G I+ + L +++ Sbjct: 53 VTGNVSKKTNYLVMGRDSGQSKSDKAAALGTKIIDEDGLLNLIRTMPG 100 >3f8x_A Putative delta-5-3-ketosteroid isomerase; YP_050331.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.55A {Pectobacterium atrosepticum SCRI1043} (A:) Length = 148 Score = 24.9 bits (54), Expect = 8.6 Identities = 10/38 (26%), Positives = 13/38 (34%), Gaps = 2/38 (5%) Query: 98 GEDLFEIVKGGQIDFDRCIATPDMMPLVGRLGRILGPR 135 G DL E G+I +V L +G R Sbjct: 107 GVDLIEFNDAGKITDLV--VXXRPASVVIDLSVEVGKR 142 >1chu_A Protein (L-aspartate oxidase); flavoenzyme, NAD biosynthesis, FAD, oxidoreductase; 2.20A {Escherichia coli} (A:239-354) Length = 116 Score = 24.9 bits (54), Expect = 9.4 Identities = 7/29 (24%), Positives = 9/29 (31%) Query: 26 DAVVMLKERATARFDETVEIAMNLGIDPR 54 D + F E + LGID Sbjct: 74 DISHKPADFIRQHFPMIYEKLLGLGIDLT 102 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 0.318 0.134 0.367 Gapped Lambda K H 0.267 0.0440 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,672,157 Number of extensions: 75255 Number of successful extensions: 294 Number of sequences better than 10.0: 1 Number of HSP's gapped: 270 Number of HSP's successfully gapped: 40 Length of query: 232 Length of database: 4,956,049 Length adjustment: 86 Effective length of query: 146 Effective length of database: 2,048,819 Effective search space: 299127574 Effective search space used: 299127574 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: 53 (24.9 bits)