RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781078|ref|YP_003065491.1| hypothetical protein CLIBASIA_04900 [Candidatus Liberibacter asiaticus str. psy62] (242 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 = 42.6 bits (100), Expect = 7e-05 Identities = 37/198 (18%), Positives = 59/198 (29%), Gaps = 72/198 (36%) Query: 10 FFVVFLSIVVPNHSLAVDLYLPRKIDLFNE--ADNNVEYQDDEYGIWSGNYVGLHISRLY 67 F FL + P HS L DL N+ NNV ++ + I +Y Sbjct: 416 FSNRFLPVASPFHS----HLLVPASDLINKDLVKNNVS--------FNAK--DIQIP-VY 460 Query: 68 ETHPLADTINRKTYNSLLPNGLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYF 127 +T +D R S+ ++ D + + Sbjct: 461 DTFDGSDL--RVLSGSISE-----------RIVDCIIRLPVKWETT-------------- 493 Query: 128 IYGDVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGI 187 KA + +D +G GG G V+ +N DG G V++ Sbjct: 494 ----TQFKATHILD----FGPGGASGLGVL----------THRN----KDGTGVRVIVAG 531 Query: 188 GLDYMVNYDISLSASYRY 205 L DI+ Y + Sbjct: 532 TL------DINPDDDYGF 543 Score = 40.3 bits (94), Expect = 4e-04 Identities = 47/259 (18%), Positives = 80/259 (30%), Gaps = 98/259 (37%) Query: 6 YGALFFVVFLSIVVPN--HSLAVDLY------LPRKIDLF---NEADNNVEYQDDEYGIW 54 +G+L ++VP +A L LP + F +E E Sbjct: 13 HGSLEH----VLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL-------- 60 Query: 55 SGNYVGLHISRLYETHPLADTINRKTYNSLLPNGLGIELGHNIQLE-DFVFGINCHTTAA 113 G ++G ++S L E ++ +L L + E ++ G + H AA Sbjct: 61 VGKFLG-YVSSLVEPSK------VGQFDQVLNLCLT-------EFENCYLEGNDIHALAA 106 Query: 114 K--DDSTFYRLKEKYFI--YGDVVLKAGYSV----DSLL----------IYGMGGFGG-- 153 K ++ +K K I Y + A +S L + + FGG Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI--FGGQG 164 Query: 154 --------------AY------VIDSSLEKVE--SDNSKNAKGRFDGHGSSVVLGI---- 187 Y +I S E + + +A+ F G L I Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF-TQG----LNILEWL 219 Query: 188 -------GLDYMVNYDISL 199 DY+++ IS Sbjct: 220 ENPSNTPDKDYLLSIPISC 238 Score = 37.2 bits (86), Expect = 0.003 Identities = 39/180 (21%), Positives = 65/180 (36%), Gaps = 59/180 (32%) Query: 22 HSLAVDLYLPRKI--DLFNEADNNVEYQDDEYGIWSGNYVGLHISRLYETHPLADTIN-- 77 + +DLY K D++N ADN+ + D Y G I + +P+ TI+ Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFK---DTY--------GFSILDIVINNPVNLTIHFG 1677 Query: 78 -------RKTYNSLLPNGLGIELGHNIQLEDFVFGINCHTTAAK---------------- 114 R+ Y++++ + + ++ E IN H+T+ Sbjct: 1678 GEKGKRIRENYSAMIFETI---VDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734 Query: 115 -----DDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNS 169 + + F LK K I D AG+S+ G Y +SL V S S Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATF-AGHSL------------GEYAALASLADVMSIES 1781 >2f1v_A Outer membrane protein W; outer membrane protein beta barrel; 2.70A {Escherichia coli K12} PDB: 2f1t_A Length = 197 Score = 42.6 bits (99), Expect = 9e-05 Identities = 20/157 (12%), Positives = 42/157 (26%), Gaps = 7/157 (4%) Query: 89 LGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGY---SVDSLLI 145 LG+ + V + K + ++ Y + Sbjct: 39 LGLTFTYMATDNIGVELLAATPFRHKIGTRATGDIATVHHLPPTLMAQWYFGDASSKFRP 98 Query: 146 YGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRY 205 Y G D+ + + D G +G+DY++N D ++ S Y Sbjct: 99 YVGAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWG--AAGQVGVDYLINRDWLVNMSVWY 156 Query: 206 IPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 + I + N + + + + F Sbjct: 157 MD--IDTTANYKLGGAQQHDSVRLDPWVFMFSAGYRF 191 >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 = 42.3 bits (99), Expect = 1e-04 Identities = 20/118 (16%), Positives = 37/118 (31%), Gaps = 11/118 (9%) Query: 90 GIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSV-DSLLIYGM 148 G L + + ++ G+ T + T Y + Y + D IYG+ Sbjct: 23 GFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPAYRINDWASIYGV 82 Query: 149 GGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYI 206 G G + ++ + D G GL + +++L SY Sbjct: 83 VGVG----------YGKFQTTEYPTYKNDTSDYGFSYGAGLQFNPMENVALDFSYEQS 130 >2k0l_A Outer membrane protein A; OMPA, trosy, sidechain, DHPC micelles; NMR {Klebsiella pneumoniae} Length = 216 Score = 38.7 bits (89), Expect = 0.001 Identities = 25/155 (16%), Positives = 45/155 (29%), Gaps = 15/155 (9%) Query: 88 GLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYG 147 G G G+ + G + + F V L A Sbjct: 53 GAGAFGGYQVN---PYLGFEMGYDWLGRMAYKGSVDNGAFKAQGVQLTAKLGYPITDDLD 109 Query: 148 MGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207 + G V + + + G S V G+++ V DI+ Y+++ Sbjct: 110 IYTRLGGMVWRADSKGNYASTG--VSRSEHDTGVSPVFAGGVEWAVTRDIATRLEYQWV- 166 Query: 208 HHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 N D V + + + SLG++ F Sbjct: 167 ---------NNIGDAGTVGTRPDNGMLSLGVSYRF 192 >2jmm_A Outer membrane protein A; NMR {Escherichia coli} Length = 156 Score = 34.5 bits (79), Expect = 0.024 Identities = 18/112 (16%), Positives = 34/112 (30%), Gaps = 19/112 (16%) Query: 131 DVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLD 190 + K GY + G V + SD N S V G++ Sbjct: 58 QLTAKLGYPKLGTDDLDIYTRLGGMVWRADT----SDKDGNGYISAAEASVSPVFAGGVE 113 Query: 191 YMVNYDISLSASYRYIPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 Y++ I+ + R + + + + + SLG++ F Sbjct: 114 YVIRRRITPEIATRL---------------EYQWTNNASDNGMLSLGVSYRF 150 >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 = 33.2 bits (75), Expect = 0.053 Identities = 25/155 (16%), Positives = 46/155 (29%), Gaps = 20/155 (12%) Query: 88 GLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYG 147 G G G+ + + K + K GY + L Sbjct: 36 GAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQ-LTAKLGYPITDDLDIY 94 Query: 148 MGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207 G + +D N G+ G S V G++Y + +I+ Y++ Sbjct: 95 TRLGGMVW---------RADTYSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWT- 144 Query: 208 HHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 N D + + + + SLG++ F Sbjct: 145 ---------NNIGDAHTIGTRPDNGMLSLGVSYRF 170 >2pbi_A Regulator of G-protein signaling 9; helix WRAP, RGS domain, DEP domain, DHEX domain, GGL domain, beta propeller, signaling protein; 1.95A {Mus musculus} Length = 424 Score = 31.3 bits (71), Expect = 0.19 Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%) Query: 90 GIELGHNIQLEDFVFGI-NCHTTAAKDDSTFYRLKEKYF 127 LG+ I +++ + + K DS+ YR + YF Sbjct: 72 AQNLGNFIVKYGYIYPLQDPKNLILKPDSSLYRFQTPYF 110 >3dwo_X Probable outer membrane protein; beta barrel; HET: C8E; 2.20A {Pseudomonas aeruginosa} Length = 451 Score = 30.0 bits (66), Expect = 0.47 Identities = 11/61 (18%), Positives = 19/61 (31%), Gaps = 3/61 (4%) Query: 185 LGIGLDYMVNYDISLSASYRYIPH---HIHSVNNSNAKSDVERVDRKGNAHIASLGINMH 241 LG G + ++S+ A+Y + +VN + SL Sbjct: 383 LGAGYRFQSMPELSIDAAYSRQFVKEVPLKTVNQDRLGGGRLDGRATSKGQVFSLSATYD 442 Query: 242 F 242 F Sbjct: 443 F 443 >3h8d_A Myosin-VI; myosin VI, myosin 6, DAB2, cargo binding, protein-peptide complex, actin-binding, ATP-binding, calmodulin-binding; 2.20A {Mus musculus} PDB: 2kia_A Length = 141 Score = 26.9 bits (59), Expect = 3.9 Identities = 12/39 (30%), Positives = 19/39 (48%) Query: 33 KIDLFNEADNNVEYQDDEYGIWSGNYVGLHISRLYETHP 71 +I AD + Q+ + G W ++ G I+R E HP Sbjct: 18 RIPFIRPADQYKDPQNKKKGWWYAHFDGPWIARQMELHP 56 >1p4t_A Outer membrane protein NSPA; beta barrel; HET: CXE; 2.55A {Neisseria meningitidis} SCOP: f.4.1.1 Length = 155 Score = 26.9 bits (59), Expect = 4.2 Identities = 15/102 (14%), Positives = 27/102 (26%), Gaps = 22/102 (21%) Query: 141 DSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLS 200 + Y F + + G+ Y V ++ L Sbjct: 76 SPVKPYLGARLSLNRA----------SVDLGGSDSFSQTSIGLGVLTGVSYAVTPNVDLD 125 Query: 201 ASYRYIPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 A YRY + + N +V + S G+ + F Sbjct: 126 AGYRY-----NYIGKVNTVKNV-------RSGELSAGVRVKF 155 >1cb8_A Protein (chondroitinase AC); lyase, chondroitin degradation; HET: MAN RAM GCU MFU; 1.90A {Flavobacterium heparinum} SCOP: a.102.3.2 b.24.1.1 b.30.5.2 PDB: 1hm2_A* 1hm3_A* 1hmu_A* 1hmw_A* Length = 678 Score = 26.1 bits (57), Expect = 6.6 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 3/43 (6%) Query: 165 ESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207 ES N +N GR+ G++ + G +Y Y+I + IP Sbjct: 349 ESGNKENLLGRYLSDGATNIQLRGPEY---YNIMPVWEWDKIP 388 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 0.320 0.140 0.414 Gapped Lambda K H 0.267 0.0611 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,121,390 Number of extensions: 94141 Number of successful extensions: 256 Number of sequences better than 10.0: 1 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 28 Length of query: 242 Length of database: 5,693,230 Length adjustment: 90 Effective length of query: 152 Effective length of database: 3,511,270 Effective search space: 533713040 Effective search space used: 533713040 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 (21.7 bits) S2: 55 (25.2 bits)