RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781128|ref|YP_003065541.1| hypothetical protein CLIBASIA_05150 [Candidatus Liberibacter asiaticus str. psy62] (225 letters) >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 = 39.5 bits (92), Expect = 6e-04 Identities = 45/276 (16%), Positives = 66/276 (23%), Gaps = 143/276 (51%) Query: 7 IRNYF-------RNTAKIILSGLFLGFFSSAA------MADYG----------------- 36 I+NY R K S LF + +A +G Sbjct: 123 IKNYITARIMAKRPFDKKSNSALF----RAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ 178 Query: 37 -YSPQFQPTIMVS------------NFAKF--KGLYVAADFSKIDHQ--------SPVRL 73 Y I S + K +GL + + P+ Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-- 236 Query: 74 QNLSLNGV-----------SIGLD-GQ-----DGTLVYGASLGV------------EGFH 104 + L GV +G G+ G G S G+ E F Sbjct: 237 -SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT--GHSQGLVTAVAIAETDSWESFF 293 Query: 105 LEPRGGIDGDKVAGTLLFRTGF----TFDNNN--SSILQNTLIYGFGGARIRNIMSVESA 158 + A T+LF G + N + SIL++ S+E Sbjct: 294 -------VSVRKAITVLFFIGVRCYEAYPNTSLPPSILED---------------SLE-- 329 Query: 159 DTAKSTIRNIVANGFLDKVIGVGIEKKLASMLSIRG 194 N E + MLSI Sbjct: 330 ------------NN----------EGVPSPMLSISN 343 Score = 32.2 bits (73), Expect = 0.11 Identities = 39/215 (18%), Positives = 61/215 (28%), Gaps = 62/215 (28%) Query: 26 FFSSAAMADYGYSPQFQPTIMVSNFAKFKGLYVAADFSKIDHQSPVR--LQNLSLNGVSI 83 F G++ +PT KF G YV+ + L L L Sbjct: 37 FNKILPEPTEGFAADDEPTTPAELVGKFLG-YVS-SLVEPSKVGQFDQVLN-LCLTEFEN 93 Query: 84 G-LDGQD-GTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFT--------FDNNNS 133 L+G D L A L E + K L + T FD ++ Sbjct: 94 CYLEGNDIHALA--AKL-----LQENDTTLVKTK----ELIKNYITARIMAKRPFDKKSN 142 Query: 134 SIL------QNTLIYG-FGG--------ARIRNIMSVESADTAKSTIRNIVANGFLDKVI 178 S L N + FGG +R++ T + +++ Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLY-----QTYHVLVGDLIK-------- 189 Query: 179 GVGIEKKLASMLS--IRGEYRYVACYDQPWDVSKW 211 A LS IR + Q ++ +W Sbjct: 190 ------FSAETLSELIRTTLDAEKVFTQGLNILEW 218 >1orm_A Outer membrane protein X; OMPX, trosy, DHPC, detergents, lipids, micelles; NMR {Escherichia coli} SCOP: f.4.1.1 PDB: 1q9f_A 1q9g_A 1qj8_A* 1qj9_A Length = 148 Score = 37.3 bits (86), Expect = 0.003 Identities = 24/158 (15%), Positives = 40/158 (25%), Gaps = 20/158 (12%) Query: 68 QSPVRLQNLSLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFT 127 QS + Q + G ++ ++ G G Sbjct: 11 QSDAQGQMNKMGGFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPA 70 Query: 128 FDNNNSSILQNTLIYGFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLA 187 + N+ IYG G + E T + G G++ Sbjct: 71 YRIND-----WASIYGVVGVGYGKFQTTEYPTYKNDTSDYGFS-------YGAGLQFNPM 118 Query: 188 SMLSIRGEYRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 +++ Y DV G + AGV RF Sbjct: 119 ENVALDFSYEQSRIRS--VDV------GTWIAGVGYRF 148 >2k0l_A Outer membrane protein A; OMPA, trosy, sidechain, DHPC micelles; NMR {Klebsiella pneumoniae} Length = 216 Score = 33.3 bits (75), Expect = 0.040 Identities = 23/146 (15%), Positives = 38/146 (26%), Gaps = 8/146 (5%) Query: 80 GVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFTFDNNNSSILQNT 139 G G G +G A + + + Sbjct: 55 GAFGGYQVNPYLGFEM-GYDWLGRMAYKGSVDNGAFKAQGVQLTAKLGYPITD----DLD 109 Query: 140 LIYGFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLASMLSIRGEYRYV 199 + GG R A T S + + G+E + ++ R EY++V Sbjct: 110 IYTRLGGMVWRADSKGNYASTGVSRSEHDTGVSPV---FAGGVEWAVTRDIATRLEYQWV 166 Query: 200 ACYDQPWDVSKWREKGDFTAGVVLRF 225 V + G + GV RF Sbjct: 167 NNIGDAGTVGTRPDNGMLSLGVSYRF 192 >1p4t_A Outer membrane protein NSPA; beta barrel; HET: CXE; 2.55A {Neisseria meningitidis} SCOP: f.4.1.1 Length = 155 Score = 29.6 bits (66), Expect = 0.63 Identities = 27/171 (15%), Positives = 51/171 (29%), Gaps = 20/171 (11%) Query: 55 GLYVAADFSKIDHQSPVRLQNLSLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGD 114 G YV AD + S + +S G D V+ + D Sbjct: 5 GFYVQADAAHAKASSSLGSAKGFSPRISAGYRIND------LRFAVDYTRYKNYKAPSTD 58 Query: 115 KVAGTLLFRTGFTFDNNNSSILQNTLIYGFGGARIRNIMSVESADTAKSTIRNIVANGFL 174 ++ + FD + ++ L R + + + S + Sbjct: 59 FKLYSIGASAIYDFDTQSP--VKPYLGARLSLNRASVDLGGSDSFSQTSIGLGV------ 110 Query: 175 DKVIGVGIEKKLASMLSIRGEYRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 G+ + + + YRY Y + K G+ +AGV ++F Sbjct: 111 ----LTGVSYAVTPNVDLDAGYRYN--YIGKVNTVKNVRSGELSAGVRVKF 155 >1qjp_A Outer membrane protein A; HET: C8E; 1.65A {Escherichia coli} SCOP: f.4.1.1 PDB: 1bxw_A* 1g90_A 2ge4_A Length = 171 Score = 28.6 bits (63), Expect = 1.1 Identities = 10/48 (20%), Positives = 19/48 (39%) Query: 178 IGVGIEKKLASMLSIRGEYRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 G+E + ++ R EY++ + + G + GV RF Sbjct: 123 FAGGVEYAITPEIATRLEYQWTNNIGDAHTIGTRPDNGMLSLGVSYRF 170 >1kae_A HDH, histidinol dehydrogenase; L-histidinol dehydrogenase, homodimer, rossman fold, 4 domains, HISD, L-histidine biosynthesis, NAD cofactor; HET: HSO NAD; 1.70A {Escherichia coli} SCOP: c.82.1.2 PDB: 1k75_A* 1kah_A* 1kar_A Length = 434 Score = 26.4 bits (58), Expect = 4.8 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 7/61 (11%) Query: 7 IRNYFRNTAKIILSG-LFLGFFSSAAMADYGYSPQ-FQPTIMVSNFAKFK-GLYVAADFS 63 RN I +G +FLG +S + DY PT + L + ADF Sbjct: 332 TRNARELVDSITSAGSVFLGDWSPESAGDYASGTNHVLPT---YGYTATCSSLGL-ADFQ 387 Query: 64 K 64 K Sbjct: 388 K 388 >3m6y_A 4-hydroxy-2-oxoglutarate aldolase; structural genomics, MCSG, lyase, PSI-2, protein structure initiative; HET: MSE; 1.45A {Bacillus cereus} PDB: 3n73_A 3mux_A Length = 275 Score = 26.5 bits (58), Expect = 5.0 Identities = 12/34 (35%), Positives = 16/34 (47%) Query: 84 GLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVA 117 GL ++ + EGF LEP GGID + Sbjct: 192 GLAHEEEYRAVAKACAEEGFALEPTGGIDKENFE 225 >3kvn_X Esterase ESTA; beta barrel, alpha-beta-alpha motif, cell membrane, cell outer membrane, hydrolase, membrane, transmembrane; HET: C8E; 2.50A {Pseudomonas aeruginosa} Length = 632 Score = 26.0 bits (56), Expect = 7.7 Identities = 32/214 (14%), Positives = 61/214 (28%), Gaps = 37/214 (17%) Query: 21 GLFLGFFSSAAMADYGYSPQFQPTIMVSNFAKFK--GLYVAADFSKIDHQSPVRLQNLSL 78 G+ GF+ A S + M S F +++ + A + + +L Sbjct: 401 GVAAGFYRQKLEAGAKDSDYRMNSYMASAFVQYQENRWWADAALTGGYLDYDDLKRKFAL 460 Query: 79 NGVSIGLDGQDGTLVYGASLGV---------EGFHLEPRGGI------------------ 111 G G ++ S + +HL P Sbjct: 461 GGGERSEKGDTNGHLWAFSARLGYDIAQQADSPWHLSPFVSADYARVEVDGYSEKGASAT 520 Query: 112 -------DGDKVAGTLLFRTGFTFDNNNSSILQNTLIYGFGGARIRNIMSVESADTAKST 164 + + F ++ + + MS+ S + T Sbjct: 521 ALDYDDQKRSSKRLGAGLQGKYAFGSDTQLFAEYAHEREYEDDTQDLTMSLNSLPGNRFT 580 Query: 165 IRNIVANGFLDKVIGVGIEKKLASMLSIRGEYRY 198 + L++V +G +KLA LS+RG Y + Sbjct: 581 LEGYTPQDHLNRV-SLGFSQKLAPELSLRGGYNW 613 >3lm7_A Putative 4-hydroxy-2-oxoglutarate aldolase / 2- dehydro-3-deoxyphosphogluconate aldolase...; structural genomics, PSI-2; 1.90A {Yersinia enterocolitica} Length = 249 Score = 25.5 bits (56), Expect = 9.2 Identities = 10/14 (71%), Positives = 10/14 (71%) Query: 101 EGFHLEPRGGIDGD 114 GF LEP GGID D Sbjct: 186 TGFWLEPTGGIDLD 199 >3m0z_A Putative aldolase; MCSG, PSI-2, structural genomics, protein structure initiative, midwest center for structural genomics, lyase; HET: MSE; 1.20A {Klebsiella pneumoniae subsp} PDB: 3nzr_A 3lm7_A Length = 249 Score = 25.7 bits (56), Expect = 9.3 Identities = 8/17 (47%), Positives = 10/17 (58%) Query: 101 EGFHLEPRGGIDGDKVA 117 F LEP GGID + + Sbjct: 186 HDFWLEPTGGIDLENYS 202 >2pb7_A E3 ubiquitin-protein ligase UHRF1; beta barrel, NEW fold; 1.90A {Homo sapiens} SCOP: b.122.1.12 Length = 239 Score = 25.7 bits (56), Expect = 9.6 Identities = 16/72 (22%), Positives = 23/72 (31%), Gaps = 10/72 (13%) Query: 77 SLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTL-LFRTGFTFDNNNSSI 135 + G+ +G + + G H GI G G L G D+ + Sbjct: 16 PIPGIPVG-----TMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAGGYEDDVDHG- 69 Query: 136 LQNTLIY-GFGG 146 N Y G GG Sbjct: 70 --NFFTYTGSGG 79 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 0.322 0.140 0.412 Gapped Lambda K H 0.267 0.0541 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,916,480 Number of extensions: 83119 Number of successful extensions: 194 Number of sequences better than 10.0: 1 Number of HSP's gapped: 191 Number of HSP's successfully gapped: 19 Length of query: 225 Length of database: 5,693,230 Length adjustment: 89 Effective length of query: 136 Effective length of database: 3,535,514 Effective search space: 480829904 Effective search space used: 480829904 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 55 (25.4 bits)