RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254781128|ref|YP_003065541.1| hypothetical protein CLIBASIA_05150 [Candidatus Liberibacter asiaticus str. psy62] (225 letters) >1orm_A Outer membrane protein X; OMPX, trosy, DHPC, detergents, lipids, micelles; NMR {Escherichia coli} (A:) Length = 148 Score = 31.2 bits (70), Expect = 0.13 Identities = 18/158 (11%), Positives = 42/158 (26%), Gaps = 20/158 (12%) Query: 68 QSPVRLQNLSLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFT 127 QS + Q + G ++ ++ G G Sbjct: 11 QSDAQGQMNKMGGFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPA 70 Query: 128 FDNNNSSILQNTLIYGFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLA 187 + N+ + + + G+G + + ++ + G G++ Sbjct: 71 YRINDWASIYGVVGVGYGKFQTTEYPTYKNDTS------------DYGFSYGAGLQFNPM 118 Query: 188 SMLSIRGEYRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 +++ Y + G + AGV RF Sbjct: 119 ENVALDFSYEQS-------RIRSVDV-GTWIAGVGYRF 148 >2k0l_A Outer membrane protein A; OMPA, trosy, sidechain, DHPC micelles; NMR {Klebsiella pneumoniae} (A:) Length = 216 Score = 30.5 bits (68), Expect = 0.20 Identities = 22/146 (15%), Positives = 39/146 (26%), Gaps = 8/146 (5%) Query: 80 GVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFTFDNNNSSILQNT 139 G G G +G A + + + + Sbjct: 55 GAFGGYQVNPYLGFEM-GYDWLGRMAYKGSVDNGAFKAQGVQLTAKLGYPITD-----DL 108 Query: 140 LIYGFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLASMLSIRGEYRYV 199 IY G + S + + + V G+E + ++ R EY++V Sbjct: 109 DIYTRLGGMVWRADSKGNYASTGVSRSEHDTGVSP--VFAGGVEWAVTRDIATRLEYQWV 166 Query: 200 ACYDQPWDVSKWREKGDFTAGVVLRF 225 V + G + GV RF Sbjct: 167 NNIGDAGTVGTRPDNGMLSLGVSYRF 192 >1qjp_A Outer membrane protein A; HET: C8E; 1.65A {Escherichia coli} (A:) Length = 171 Score = 27.4 bits (60), Expect = 1.8 Identities = 20/143 (13%), Positives = 38/143 (26%), Gaps = 10/143 (6%) Query: 89 DGTLVYGASLGVEGFHLEPRGGIDGDKVAGTLLFRTGFTFDNNNSSILQNTLIYGFGGAR 148 + L GA G + + P G + + +N L G Sbjct: 32 ENKLGAGAFGG---YQVNPYVGFEMG-YDWLGRMPYKGSVENGAYKAQGVQLTAKLGYPI 87 Query: 149 IRNIMSVESADTAKSTIRNIVANGFLDK------VIGVGIEKKLASMLSIRGEYRYVACY 202 ++ + V G+E + ++ R EY++ Sbjct: 88 TDDLDIYTRLGGMVWRADTYSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNI 147 Query: 203 DQPWDVSKWREKGDFTAGVVLRF 225 + + G + GV RF Sbjct: 148 GDAHTIGTRPDNGMLSLGVSYRF 170 >3fde_A E3 ubiquitin-protein ligase UHRF1; SRA domain, base flipping, DNA CPG methylation, cell cycle, developmental protein, DNA damage; HET: 5CM; 1.41A {Mus musculus} PDB: 2zo0_B* 2zo2_B* 3f8i_A* 2zo1_B* 3f8j_B* 2zkd_A* 2zke_A* 2zkf_A* 2zkg_A 3dwh_A 3bi7_A 3clz_A* (A:1-194) Length = 194 Score = 25.3 bits (55), Expect = 6.9 Identities = 32/172 (18%), Positives = 49/172 (28%), Gaps = 37/172 (21%) Query: 77 SLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGTL-LFRTGFTFDNNNSSI 135 + GV +G + + G H GI G G L G D+ ++ Sbjct: 9 PIPGVPVG-----TMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAGGYEDDVDNG- 62 Query: 136 LQNTLIYGFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLASMLS---- 191 N Y G R + + ++ + N N L I +K A Sbjct: 63 --NYFTYTGSGGRDLSGNKRTAGQSSDQKLTNN--NRALALNCHSPINEKGAEAEDWRQG 118 Query: 192 -----IRGE-------------YRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 +R RY Y V W E+G +V R+ Sbjct: 119 KPVRVVRNMKGGKHSKYAPAEGNRYDGIY---KVVKYWPERGKSG-FLVWRY 166 >1p4t_A Outer membrane protein NSPA; beta barrel; HET: CXE; 2.55A {Neisseria meningitidis} (A:) Length = 155 Score = 25.0 bits (54), Expect = 8.1 Identities = 16/129 (12%), Positives = 35/129 (27%), Gaps = 14/129 (10%) Query: 97 SLGVEGFHLEPRGGIDGDKVAGTLLFRTGFTFDNNNSSILQNTLIYGFGGARIRNIMSVE 156 V+ + D ++ + FD + Y + Sbjct: 41 RFAVDYTRYKNYKAPSTDFKLYSIGASAIYDFDTQS-----PVKPYLGARLSLNRASVDL 95 Query: 157 SADTAKSTIRNIVANGFLDKVIGVGIEKKLASMLSIRGEYRYVACYDQPWDVSKWREKGD 216 + S + + G+ + + + YRY + K G+ Sbjct: 96 GGSDSFS-------QTSIGLGVLTGVSYAVTPNVDLDAGYRYNYIGKV--NTVKNVRSGE 146 Query: 217 FTAGVVLRF 225 +AGV ++F Sbjct: 147 LSAGVRVKF 155 >2f1v_A Outer membrane protein W; outer membrane protein beta barrel; 2.70A {Escherichia coli K12} PDB: 2f1t_A (A:) Length = 197 Score = 25.1 bits (54), Expect = 8.2 Identities = 8/91 (8%), Positives = 24/91 (26%), Gaps = 8/91 (8%) Query: 143 GFGGARIRNIMSVESADTAKSTIRNIVANGFLDKVIGVGIEKKLASMLSIRGEYRYVACY 202 G G + + ++ + ++ VG++ + + Y+ Sbjct: 101 GAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWGAAGQVGVDYLINRDWLVNMSVWYMDID 160 Query: 203 -DQPWDVSKWREKGD-------FTAGVVLRF 225 + + ++ F RF Sbjct: 161 TTANYKLGGAQQHDSVRLDPWVFMFSAGYRF 191 >2pb7_A E3 ubiquitin-protein ligase UHRF1; beta barrel, NEW fold; 1.90A {Homo sapiens} (A:) Length = 239 Score = 24.9 bits (54), Expect = 9.2 Identities = 35/172 (20%), Positives = 52/172 (30%), Gaps = 36/172 (20%) Query: 77 SLNGVSIGLDGQDGTLVYGASLGVEGFHLEPRGGIDGDKVAGT--LLFRTGFTFDNNNSS 134 + G+ +G + + G H GI G G L+ G+ D ++ Sbjct: 16 PIPGIPVG-----TMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAGGYEDDVDHG- 69 Query: 135 ILQNTLIYGFGGARIRNIM---SVESAD-TAKSTIRNIVANGFLDKVIGVGIEKKLASML 190 N Y G R + + +S D +T R + N F G E K Sbjct: 70 ---NFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEAKDWRSG 126 Query: 191 S----IRGE-------------YRYVACYDQPWDVSKWREKGDFTAGVVLRF 225 +R RY Y V W EKG +V R+ Sbjct: 127 KPVRVVRNVKGGKNSKYAPAEGNRYDGIY---KVVKYWPEKGKSG-FLVWRY 174 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 0.322 0.140 0.412 Gapped Lambda K H 0.267 0.0584 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,677,174 Number of extensions: 70046 Number of successful extensions: 155 Number of sequences better than 10.0: 1 Number of HSP's gapped: 155 Number of HSP's successfully gapped: 12 Length of query: 225 Length of database: 4,956,049 Length adjustment: 85 Effective length of query: 140 Effective length of database: 2,082,624 Effective search space: 291567360 Effective search space used: 291567360 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: 53 (24.5 bits)