RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780745|ref|YP_003065158.1| OstA family protein [Candidatus Liberibacter asiaticus str. psy62] (181 letters) >2r19_A Protein YHBN; beta-jellyroll, mainly beta, beta-TACO, structural genomics, montreal-kingston bacterial structural genomics initiative, BSGI; 2.16A {Escherichia coli K12} PDB: 2r1a_A Length = 159 Score = 70.1 bits (171), Expect = 3e-13 Identities = 24/136 (17%), Positives = 53/136 (38%), Gaps = 6/136 (4%) Query: 42 NEKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNNTN--RDVSNKINRM 99 ++ IHI++D + F GNV +TQ + ADK+ + ++V + + Sbjct: 7 DQPIHIESDQQSLDMQGNVVTFTGNVIVTQGTIKINADKVVVTRPGGEQGKEVIDGYGKP 66 Query: 100 DVERNIFIQSGEINVIASNGYVDFQKRILVLNGDRADKVILKEKLNTFLGCKLIVNIDTS 159 + + AS + + K +VL G+ L++ + G K+ + Sbjct: 67 ATFYQMQDNGKPVEGHASQMHYELAKDFVVLTGN----AYLQQVDSNIKGDKITYLVKEQ 122 Query: 160 FASLQGCESDQVQSII 175 + +V +++ Sbjct: 123 KMQAFSDKGKRVTTVL 138 Score = 29.3 bits (65), Expect = 0.52 Identities = 9/47 (19%), Positives = 19/47 (40%) Query: 41 GNEKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNN 87 + + A + + A GN ++ Q D +++ DK+T Sbjct: 75 NGKPVEGHASQMHYELAKDFVVLTGNAYLQQVDSNIKGDKITYLVKE 121 >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 = 31.8 bits (72), Expect = 0.092 Identities = 36/211 (17%), Positives = 65/211 (30%), Gaps = 97/211 (45%) Query: 26 LSQAAASYMTRFKVLG------NEKI-----H----IKADMLEVKD-------AVQKA-- 61 + Q A Y+ K+LG + H + A + D +V+KA Sbjct: 243 VIQLA-HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301 Query: 62 --FFKGNVFMTQEDF-------SLQADKMTIDYNNTN-------RDVSNKINRMDVERNI 105 FF G E + S+ D +++ N +++ + V+ Sbjct: 302 VLFFIG--VRCYEAYPNTSLPPSILED--SLENNEGVPSPMLSISNLT----QEQVQD-- 351 Query: 106 FIQSGEINVIASNGYVDFQKRI---LVLNGDRADKVILKEKLNTFLGCKLIVNIDTSFA- 161 ++ +N ++ K++ LV NG + L+V + Sbjct: 352 YVN-------KTNSHLPAGKQVEISLV-NGAKN----------------LVV------SG 381 Query: 162 ---SLQG---------CESDQVQSIIRYDGR 180 SL G S QS I + R Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412 Score = 30.7 bits (69), Expect = 0.22 Identities = 29/150 (19%), Positives = 56/150 (37%), Gaps = 58/150 (38%) Query: 21 LLKADLSQAAASYMTRFKVLGNEKIHIKADMLEVKDAVQKAFFKGNVFMTQE-------- 72 L+ AD + A S + + L + AD++ ++ V+ F++G MT + Sbjct: 1752 LIPADATFAGHS-LGEYAALAS-----LADVMSIESLVEVVFYRG---MTMQVAVPRDEL 1802 Query: 73 -----------------DFSLQA--------DKMT------IDYNNTNRD--VSNKINRM 99 FS +A K T ++YN N+ + + + Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL 1862 Query: 100 DVERNI--FIQSGEINVIASNGYVDFQKRI 127 D N+ FI+ +I++I + QK + Sbjct: 1863 DTVTNVLNFIKLQKIDII------ELQKSL 1886 >1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase; HET: ATG ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 340 Score = 29.6 bits (65), Expect = 0.41 Identities = 12/64 (18%), Positives = 21/64 (32%) Query: 4 FLNSIHLYIHLLALVFVLLKADLSQAAASYMTRFKVLGNEKIHIKADMLEVKDAVQKAFF 63 + I + L + L A GN++I A + +K + + Sbjct: 277 LIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQGSAVIGAIKASFENETV 336 Query: 64 KGNV 67 K NV Sbjct: 337 KANV 340 >1epw_A Bontoxilysin B, botulinum neurotoxin type B; zinc, metalloprotease, transmembrane, hydrolase; 1.90A {Clostridium botulinum} SCOP: b.29.1.6 b.42.4.2 d.92.1.7 h.4.2.1 PDB: 1f31_A* 1g9a_A* 1g9b_A* 1g9c_A* 1g9d_A* 1i1e_A* 1s0b_A 1s0c_A 1s0d_A 1s0e_A 1s0f_A 1s0g_A 2np0_A 2etf_A 1z0h_A 2nm1_A 3g94_A 1f82_A Length = 1290 Score = 29.1 bits (65), Expect = 0.57 Identities = 9/47 (19%), Positives = 21/47 (44%) Query: 81 MTIDYNNTNRDVSNKINRMDVERNIFIQSGEINVIASNGYVDFQKRI 127 + ID+N+ N ++ IN+ N FI ++ + +++ Sbjct: 748 INIDFNDINSKLNEGINQAIDNINNFINGCSVSYLMKKMIPLAVEKL 794 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} Length = 508 Score = 28.5 bits (63), Expect = 0.79 Identities = 41/184 (22%), Positives = 71/184 (38%), Gaps = 42/184 (22%) Query: 13 HLLA--LVFVLLKADLSQAAASYMTRFKVLGNEKIHIKADMLEVKDAVQKAFF------- 63 HLL VL A S+ Y RF NE I +K + L V + +++ + Sbjct: 286 HLLPRNTQIVLFSATFSERVEKYAERFAPNANE-IRLKTEELSV-EGIKQLYMDCQSEEH 343 Query: 64 KGNVFMTQEDFSLQADKMTIDYNNTNRDVSNKINRMDVERNIFIQSGEINVIASNGYVDF 123 K NV + E + L +I + +D + +I R + + + N Sbjct: 344 KYNVLV--ELYGLLTIGQSIIFCK-KKDTAEEI-----ARRMTADGHTVACLTGN----- 390 Query: 124 QKRILVLNGDRADKVILKEKLNTFLGCKLIVNIDTSFASLQGCESDQVQSIIRYD----- 178 L G + D ++ ++ T K++V T+ +G + QV ++ YD Sbjct: 391 ------LEGAQRDAIMDSFRVGT---SKVLV---TTNVIARGIDVSQVNLVVNYDMPLDQ 438 Query: 179 -GRP 181 GRP Sbjct: 439 AGRP 442 >1hz6_A Protein L; four stranded beta-sheet with central alpha helix, binds kappa light chain of immunoglobulins, protein binding; 1.70A {Finegoldia magna atcc 29328} SCOP: d.15.7.1 PDB: 1hz5_A 1k53_A 1k51_A 1k52_A 1jml_A 1k50_A 2jzp_A 2kac_A 1kh0_A 1ymh_E 1mhh_E* 1hez_E 1ynt_E Length = 72 Score = 26.3 bits (57), Expect = 3.9 Identities = 15/53 (28%), Positives = 25/53 (47%) Query: 43 EKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNNTNRDVSNK 95 E++ IKA+++ + Q A FKG + AD + D DV++K Sbjct: 10 EEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEWTVDVADK 62 >1gnt_A HCP, hybrid cluster protein; oxidoreductase, aerobic desulfovibrio vulgaris; HET: FSO; 1.25A {Desulfovibrio vulgaris} SCOP: e.26.1.1 PDB: 1e9v_A 1e2u_A* 1oa1_A 1w9m_A 1e1d_A* Length = 553 Score = 26.1 bits (57), Expect = 4.5 Identities = 10/27 (37%), Positives = 12/27 (44%) Query: 28 QAAASYMTRFKVLGNEKIHIKADMLEV 54 + A+Y VLG K I MLE Sbjct: 156 KGVAAYAEHAAVLGFRKTEIDEFMLEA 182 >2gum_A Glycoprotein B; envelope glycoprotein, membrane fusion, viral protein; 2.10A {Human herpesvirus 1 strain kos} SCOP: e.76.1.1 Length = 628 Score = 25.9 bits (57), Expect = 5.1 Identities = 8/53 (15%), Positives = 16/53 (30%) Query: 62 FFKGNVFMTQEDFSLQADKMTIDYNNTNRDVSNKINRMDVERNIFIQSGEINV 114 F+ E + AD+ RD++ K + + + V Sbjct: 198 FYGYREGSHTEHTTYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTV 250 >3ns4_A Vacuolar protein sorting-associated protein 53; GARP complex component, helical bundle, membrane tethering C membrane traffic, VPS51; HET: MSE; 2.90A {Saccharomyces cerevisiae} Length = 271 Score = 26.0 bits (56), Expect = 5.7 Identities = 6/36 (16%), Positives = 13/36 (36%) Query: 112 INVIASNGYVDFQKRILVLNGDRADKVILKEKLNTF 147 + +N +L L G D + K+ + + Sbjct: 140 SKLTNNNPDSAVWSFVLALKGIPWDLALWKKMWSAY 175 >1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase; HET: ATG ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 323 Score = 25.7 bits (55), Expect = 6.5 Identities = 6/58 (10%), Positives = 19/58 (32%) Query: 4 FLNSIHLYIHLLALVFVLLKADLSQAAASYMTRFKVLGNEKIHIKADMLEVKDAVQKA 61 + + LA V ++ ++ + R + + + + ++ KA Sbjct: 266 IVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLASMLAKIHKLNNKA 323 >2ptl_A Protein L; binding protein(immunoglobulin L chain); NMR {Finegoldia magna atcc 29328} SCOP: d.15.7.1 Length = 78 Score = 25.1 bits (54), Expect = 9.0 Identities = 15/60 (25%), Positives = 29/60 (48%) Query: 43 EKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNNTNRDVSNKINRMDVE 102 E++ IKA+++ + Q A FKG + AD + D DV++K ++++ Sbjct: 16 EEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEYTVDVADKGYTLNIK 75 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 0.323 0.137 0.378 Gapped Lambda K H 0.267 0.0454 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,412,521 Number of extensions: 61083 Number of successful extensions: 150 Number of sequences better than 10.0: 1 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 17 Length of query: 181 Length of database: 5,693,230 Length adjustment: 86 Effective length of query: 95 Effective length of database: 3,608,246 Effective search space: 342783370 Effective search space used: 342783370 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 54 (25.3 bits)