RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780856|ref|YP_003065269.1| NADH-quinone oxidoreductase, E subunit [Candidatus Liberibacter asiaticus str. psy62] (218 letters) >3i9v_2 NADH-quinone oxidoreductase subunit 2; electron transport, respiratory chain, 4Fe- 4S, cell membrane, flavoprotein, FMN, iron; HET: FMN; 3.10A {Thermus thermophilus HB8} PDB: 2fug_2* 3iam_2* 3ias_2* Length = 181 Score = 156 bits (396), Expect = 3e-39 Identities = 51/179 (28%), Positives = 90/179 (50%), Gaps = 4/179 (2%) Query: 17 SFSEESAIWVNEVISRYPPSRCQSAVIPLLMRAQEQEGWVSRAAIEVVANILDMAYIRVL 76 F ++ ++ E ++YPP ++A++PLL R Q++EGW+ IE +A ++ V+ Sbjct: 2 GFFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEGWIRPERIEEIARLVGTTPTEVM 61 Query: 77 EIATFYTQFQLSPVGTRAHVQVCGTTPCMLRGCEKLIEVCRNKIHQKPLHRNSDGTLSWE 136 +A+FY+ +Q P + H+QVC T C L G E+L + + P DG S + Sbjct: 62 GVASFYSYYQFVPT-GKYHLQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQ 120 Query: 137 EVECQGACVNAPMVMIGKDTY-EDLTPERLEEIIDAFSTGQGDTIRPGPQIDRISSAPA 194 +VEC G+C AP++ + + Y E +T RLE ++ G+ + + Sbjct: 121 KVECLGSCHTAPVIQVNDEPYVECVTRARLEALLAGLRAGK--RLEEIELPGKCGHHVH 177 >2auv_A Potential NAD-reducing hydrogenase subunit; thioredoxin, thiordoxin-like, oxidoreductase; NMR {Desulfovibrio fructosovorans} Length = 85 Score = 103 bits (257), Expect = 4e-23 Identities = 23/86 (26%), Positives = 47/86 (54%), Gaps = 1/86 (1%) Query: 87 LSPVGTRAHVQVCGTTPCMLRGCEKLIEVCRNKIHQKPLHRNSDGTLSWEEVECQGACVN 146 + P G + + VC T C ++G +K++ + ++ DG S + + C G C Sbjct: 1 MVPKG-KYPISVCMGTACFVKGADKVVHAFKEQLKIDIGDVTPDGRFSIDTLRCVGGCAL 59 Query: 147 APMVMIGKDTYEDLTPERLEEIIDAF 172 AP+VM+G+ Y ++TP ++++I+ + Sbjct: 60 APIVMVGEKVYGNVTPGQVKKILAEY 85 >1m2d_A [2Fe-2S] ferredoxin; thioredoxin-like fold, [2Fe-2S] cluster, Cys59Ser variant, electron transport; 1.05A {Aquifex aeolicus} SCOP: c.47.1.11 PDB: 1m2a_A 1f37_A 1m2b_A Length = 110 Score = 64.3 bits (156), Expect = 2e-11 Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 13/86 (15%) Query: 95 HVQVCGTTP--------CMLRGCEKLIEVCRNKIHQKPLHRNSDGTLSWEEVECQGACVN 146 HV VC C RG ++ + KI P T C A + Sbjct: 5 HVFVCVQDRPPGHPQGSCAQRGSREVFQAFMEKIQTDPQL---FMTTVITPTGCMNASMM 61 Query: 147 APMVMIGKD--TYEDLTPERLEEIID 170 P+V++ D Y + PE ++EI++ Sbjct: 62 GPVVVVYPDGVWYGQVKPEDVDEIVE 87 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 37.6 bits (87), Expect = 0.002 Identities = 41/284 (14%), Positives = 77/284 (27%), Gaps = 133/284 (46%) Query: 18 FSEESAIWVNEVISRYPP------SRCQSAVIPLLMRAQEQE----------GWVSRAAI 61 F E + ++ Y + L+ + E W+ + Sbjct: 170 FEE-----LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS- 223 Query: 62 EVVANILDMAY----------IRVLEIATFYTQFQ---LSPVGT-RAHVQVCGTTPCMLR 107 N D Y I V+++A + + +P G R++++ G T Sbjct: 224 ----NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP-GELRSYLK--GAT----- 271 Query: 108 GCEKLIEVCRNKIHQKPLHRNSDGTL---------SWEE----------------VECQ- 141 G H S G + SWE V C Sbjct: 272 G-----------------H--SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE 312 Query: 142 ------------------GACVNAPMVMIGKDTYEDLTPERLEEIIDAFSTGQGDTIRPG 183 V +PM+ I +LT E++++ ++ ++ + Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLSI-----SNLTQEQVQDYVNKTNS----HL--- 360 Query: 184 PQIDRISSA----P-----AGGLTSLLDNNSKKRGKKKKDDKIS 218 P ++ + +G SL N R K K + Sbjct: 361 PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR-KAKAPSGLD 403 Score = 29.1 bits (65), Expect = 0.80 Identities = 35/156 (22%), Positives = 54/156 (34%), Gaps = 57/156 (36%) Query: 1 MSVRRLAEEEFQ---------P-SSFSFSEESAIWVNEVISRYPPSRCQSAVIPLLMRAQ 50 MS+ L E F P S I +N R S Q A+ ++ R Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP--GRVAASFSQEALQYVVERVG 1834 Query: 51 EQEGWVSRAAIEVVA-NILDMAYI-----RVLEIATFYTQF-QLSPVGTRAHVQVCGTTP 103 ++ GW+ +E+V N+ + Y+ R L+ T F +L + Sbjct: 1835 KRTGWL----VEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKI------------- 1877 Query: 104 CMLRGCEKLIEVCRNKIHQKPLHRNSDGTLSWEEVE 139 +IE+ QK +LS EEVE Sbjct: 1878 -------DIIEL------QK--------SLSLEEVE 1892 Score = 28.0 bits (62), Expect = 1.5 Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 10/82 (12%) Query: 17 SFSEESAIWVNEVISRYPPSRCQSAVIPLLMRAQEQEGWVSRA---AIEVVANILDMAYI 73 SFS+E+ +V E + + ++ ++ E + +V+ A++ V N+L+ +I Sbjct: 1820 SFSQEALQYVVERVGKR-----TGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN--FI 1872 Query: 74 RVLEIATFYTQFQLSPVGTRAH 95 ++ +I Q LS H Sbjct: 1873 KLQKIDIIELQKSLSLEEVEGH 1894 >1uyl_A HSP 86, heat shock protein HSP 90-alpha; ATPase, chaperone, ATP-binding; 1.4A {Homo sapiens} SCOP: d.122.1.1 PDB: 1uy7_A* 1uy8_A* 1uy9_A* 1uyc_A* 1uyd_A* 1uye_A* 1uyf_A* 1uyg_A* 1uyh_A* 1uyk_A* 1uy6_A 2cdd_A* 2uwd_A* 2vci_A* 2vcj_A* 2wi1_A* 2wi2_A* 2wi3_A* 2wi4_A* 2wi5_A* ... Length = 236 Score = 31.2 bits (70), Expect = 0.17 Identities = 17/103 (16%), Positives = 36/103 (34%), Gaps = 8/103 (7%) Query: 78 IATFYTQFQLSPVGTRAHVQVCGTTPCMLR----GCEKLIEVCRNKIHQKPLHRNSDGTL 133 IA T+ + + A + + G EK+ + ++ ++ S Sbjct: 110 IAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVAEKVTVITKHNDDEQY-AWESSAGG 168 Query: 134 SWEEVECQGACVNAPM---VMIGKDTYEDLTPERLEEIIDAFS 173 S+ G + + + +D E L R++EI+ S Sbjct: 169 SFTVRTDTGEPMGRGTKVILHLKEDQTEYLEERRIKEIVKKHS 211 >3evu_A Myosin light chain kinase, green fluorescent protein, calmodulin chimera; gcamp2,calcium sensor, GFP, calmodulin,M13, signaling protein; HET: CRO; 1.75A {Aequorea victoria} PDB: 3ek4_A* 3ek7_A* 3evv_A* 3ek8_A* 3ekh_A* 3ekj_A* 3evr_A* Length = 449 Score = 29.5 bits (66), Expect = 0.68 Identities = 11/57 (19%), Positives = 22/57 (38%), Gaps = 8/57 (14%) Query: 125 LHRNSDGTLSWE----EVECQGAC----VNAPMVMIGKDTYEDLTPERLEEIIDAFS 173 ++ + +E +G N + +T + LT E++ E +AFS Sbjct: 262 YKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNTRDQLTEEQIAEFKEAFS 318 >2gqp_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, ligand, NECA, NPCA, adenosine; HET: PA7 PG4 1PE; 1.50A {Canis lupus familiaris} SCOP: d.122.1.1 PDB: 1tc0_A* 1tbw_A* 1u0z_A* 1u2o_A* 1ysz_A* 1yt0_A* 1yt1_A* 2exl_A* 2fyp_A* 2gfd_A* 1tc6_A* 2h8m_A* 2hch_A* 2hg1_A* 2esa_A* Length = 236 Score = 28.5 bits (63), Expect = 1.0 Identities = 6/67 (8%), Positives = 22/67 (32%), Gaps = 3/67 (4%) Query: 110 EKLIEVCRNKIHQKPLHRNSDGTLSWEEVECQGACVNAPMVM---IGKDTYEDLTPERLE 166 + V + SD + +G + + + ++ + L + ++ Sbjct: 142 ADKVIVTSKHNNDTQHIWESDSNEFSVIADPRGNTLGRGTTITLVLKEEASDYLELDTIK 201 Query: 167 EIIDAFS 173 ++ +S Sbjct: 202 NLVKKYS 208 >1a32_A Ribosomal protein S15; multiwavelength anomalous diffraction, protein-RNA, ribosomal protein interactions, ribosome, RNA-binding; 2.10A {Bacillus stearothermophilus} SCOP: a.16.1.2 PDB: 1qd7_H Length = 88 Score = 28.5 bits (64), Expect = 1.1 Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 13/62 (20%) Query: 160 LTPERLEEIIDAFSTGQGDTIRPGPQI----DRISSAPAGGLTSLLDNNSK----KRGKK 211 LT ER EII+ F + DT P QI ++I++ L L + K +RG Sbjct: 2 LTQERKREIIEQFKVHENDTGSPEVQIAILTEQINN-----LNEHLRVHKKDHHSRRGLL 56 Query: 212 KK 213 K Sbjct: 57 KM 58 >3ofo_O 30S ribosomal protein S15; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 1p6g_O 1p87_O 3ofp_O 3i1m_O 2qan_O* 2qb9_O* 2qbb_O* 2qbd_O 2qbf_O 2qbh_O* 2qbj_O* 2qou_O* 2qow_O* 2qoy_O* 2qp0_O* 2vaz_F 2z4k_O* 2z4m_O* 2qal_O 3i1o_O ... Length = 88 Score = 28.1 bits (63), Expect = 1.7 Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 13/62 (20%) Query: 160 LTPERLEEIIDAFSTGQGDTIRPGPQI----DRISSAPAGGLTSLLDNNSK----KRGKK 211 L+ E +I+ F DT Q+ +I+ L + K +RG Sbjct: 2 LSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINH-----LQGHFAEHKKDHHSRRGLL 56 Query: 212 KK 213 + Sbjct: 57 RM 58 >2wer_A ATP-dependent molecular chaperone HSP82; ATPase, cytoplasm, ATP-binding, phosphoprotein, stress response, nucleotide-binding; HET: RDC; 1.60A {Saccharomyces cerevisiae} PDB: 2weq_A* 2wep_A* 1zwh_A* 1zw9_A* 2fxs_A* 3c11_A* 3c0e_A* 2akp_A Length = 220 Score = 27.7 bits (61), Expect = 2.3 Identities = 17/106 (16%), Positives = 44/106 (41%), Gaps = 7/106 (6%) Query: 75 VLEIATFYTQFQLSPVGTRAHVQVCGTTPC----MLRGCEKLIEVCRNKIHQKPLHRNSD 130 + IA T+ + + A V + G + +++ + ++ ++ + ++ Sbjct: 93 LGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSLFLVADRVQVISKSNDDEQYIWESNA 152 Query: 131 G---TLSWEEVECQGACVNAPMVMIGKDTYEDLTPERLEEIIDAFS 173 G T++ +EV + + + D E L +R++E+I S Sbjct: 153 GGSFTVTLDEVNERIGRGTILRLFLKDDQLEYLEEKRIKEVIKRHS 198 >1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16 Length = 131 Score = 27.5 bits (60), Expect = 2.7 Identities = 9/38 (23%), Positives = 18/38 (47%) Query: 40 SAVIPLLMRAQEQEGWVSRAAIEVVANILDMAYIRVLE 77 S ++P ++ WV R ++ + D A+ +LE Sbjct: 12 SGLVPRGSHMADENKWVRRDVSTALSRMGDEAFEPLLE 49 >3i1m_O 30S ribosomal protein S15; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 2qan_O* 2qb9_O* 2qbb_O* 2qbd_O 2qbf_O 2qbh_O* 2qbj_O* 2qou_O* 2qow_O* 2qoy_O* 2qp0_O* 2vaz_F 2z4k_O* 2z4m_O* 2qal_O 3i1o_O 3i1q_O 3i1s_O 3i1z_O 3i21_O ... Length = 89 Score = 27.0 bits (60), Expect = 3.8 Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 13/62 (20%) Query: 160 LTPERLEEIIDAFSTGQGDTIRPGPQI----DRISSAPAGGLTSLLDNNSK----KRGKK 211 L+ E +I+ F DT Q+ +I+ L + K +RG Sbjct: 3 LSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINH-----LQGHFAEHKKDHHSRRGLL 57 Query: 212 KK 213 + Sbjct: 58 RM 59 >2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis, apoptosis, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 134 Score = 26.9 bits (59), Expect = 4.2 Identities = 15/94 (15%), Positives = 25/94 (26%), Gaps = 8/94 (8%) Query: 107 RGCEKLIE--VCR-NKIHQKPLHRNSDGTLSWEEVECQGACVNAPMVMIGKDT-----YE 158 +GC + IE R +K P W C + Sbjct: 31 KGCMEKIEKGQVRLSKKMVDPEKPQLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFS 90 Query: 159 DLTPERLEEIIDAFSTGQGDTIRPGPQIDRISSA 192 L E E + + + R G ++D + Sbjct: 91 LLATEDKEALKKQLPGVKSEGKRKGDEVDGVDEV 124 >2vqe_O 30S ribosomal protein S15; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1eg0_F* 1gix_R* 1hnw_O* 1hnx_O* 1hnz_O* 1hr0_O 1ibk_O* 1ibl_O* 1ibm_O 1jgo_R* 1jgp_R* 1jgq_R* 1ml5_R* 1xmo_O* 1xmq_O* 1xnq_O* 1xnr_O* 1yl4_R 2b64_O* 2b9m_O* ... Length = 89 Score = 26.6 bits (59), Expect = 4.7 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 13/62 (20%) Query: 160 LTPERLEEIIDAFSTGQGDTIRPGPQI----DRISSAPAGGLTSLLDNNSK----KRGKK 211 +T E +++I F+ GDT Q+ RI+ L+ L + K RG Sbjct: 3 ITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINR-----LSEHLKVHKKDHHSHRGLL 57 Query: 212 KK 213 Sbjct: 58 MM 59 >2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl reductase, ketoacyl synthase, ketoacyl reductase; HET: FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G* Length = 2060 Score = 26.0 bits (57), Expect = 7.8 Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 5/35 (14%) Query: 148 PMVMIGKDTYEDLTPERLEEIIDAFSTGQGDTIRP 182 PM+ I DLT ++E IDA + + Sbjct: 331 PMLSI-----RDLTRSAVQEHIDATNQHLPEDRHI 360 >1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4 Length = 202 Score = 25.8 bits (56), Expect = 8.2 Identities = 8/24 (33%), Positives = 15/24 (62%) Query: 149 MVMIGKDTYEDLTPERLEEIIDAF 172 +V I +D + +PE +E+I+ F Sbjct: 177 VVKITEDEFYQYSPEEVEQILAKF 200 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 0.132 0.393 Gapped Lambda K H 0.267 0.0567 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,921,958 Number of extensions: 87833 Number of successful extensions: 367 Number of sequences better than 10.0: 1 Number of HSP's gapped: 363 Number of HSP's successfully gapped: 22 Length of query: 218 Length of database: 5,693,230 Length adjustment: 89 Effective length of query: 129 Effective length of database: 3,535,514 Effective search space: 456081306 Effective search space used: 456081306 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: 55 (25.3 bits)