RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780763|ref|YP_003065176.1| hypothetical protein CLIBASIA_03260 [Candidatus Liberibacter asiaticus str. psy62] (107 letters) >1ybx_A Conserved hypothetical protein; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics; HET: MSE; 1.80A {Clostridium thermocellum} (A:) Length = 143 Score = 100 bits (251), Expect = 7e-23 Identities = 35/103 (33%), Positives = 59/103 (57%) Query: 1 MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60 NI +V Q ++ Q E+++E + E +AGGG V+V G+ + + I ++ Sbjct: 40 GGNINNLVKQAQKXQRDXERVQEELKEKTVEASAGGGAVTVVATGRKDIKEITIKPEVVD 99 Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGL 103 D+VE L+DLI+AA ++A +K ++ V + +IT GL PGL Sbjct: 100 PDDVEXLQDLILAAVNEALRKADEXVTAEISKITGGLGGIPGL 142 >1j8b_A YBAB; hypothetical protein, structural genomics, structure 2 function project, S2F, unknown function; HET: MSE; 1.75A {Haemophilus influenzae rd KW20} (A:) Length = 112 Score = 95.2 bits (237), Expect = 3e-21 Identities = 43/107 (40%), Positives = 61/107 (57%), Gaps = 1/107 (0%) Query: 1 MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60 + + Q ++ Q K +K +E I LE G +G G+V + ING + + ID SL Sbjct: 7 KGGLGGLXKQAQQXQEKXQKXQEEIAQLEVTGESGAGLVKITINGAHNCRRIDIDPSLXE 66 Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGLKFPF 107 +D E LEDLI AA +DA ++ E+L K +T G P+PPG KFPF Sbjct: 67 DD-KEXLEDLIAAAFNDAVRRAEELQKEKXASVTAGXPLPPGXKFPF 112 >3f42_A Protein HP0035; helicobacter pylori unknown-function, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.78A {Helicobacter pylori} (A:) Length = 99 Score = 91.6 bits (228), Expect = 4e-20 Identities = 21/98 (21%), Positives = 41/98 (41%), Gaps = 2/98 (2%) Query: 1 MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60 + ++ G + + +++E +GGG VSV NG L ++ID SLL Sbjct: 2 HXDFSQLGGLLDGXKKEFSQLEEKNKDTIHTSKSGGGXVSVSFNGLGELVDLQIDDSLL- 60 Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLP 98 ++ E + + +A +D +K +E+ Sbjct: 61 -EDKEAXQIYLXSALNDGYKAVEENRKNLAFNXLGNFA 97 >1f07_A Coenzyme F420-dependent N5,N10- methylenetetrahydromethanopterin reductase; (beta, alpha)8 barrel, TIM barrel; HET: MPO; 2.00A {Methanothermobacterthermautotrophicus} (A:1-205,A:281-321) Length = 246 Score = 32.8 bits (74), Expect = 0.019 Identities = 11/34 (32%), Positives = 17/34 (50%) Query: 68 EDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPP 101 D+ +AA+++ KIE L + G PI P Sbjct: 197 ADIDVAAYTEFIPKIEALGEMGVTQYVAGSPIGP 230 >1q1l_A Chorismate synthase; beta alpha beta sandwich, structural genomics, PSI, protein structure initiative, midwest center for structural genomics; 2.05A {Aquifex aeolicus} (A:) Length = 401 Score = 26.7 bits (59), Expect = 1.0 Identities = 8/29 (27%), Positives = 14/29 (48%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRING 45 K E+ K I ++ +G + GG+ V Sbjct: 209 KDEEFKTYIDEVKEKGESLGGVFEVFALN 237 >1um0_A Chorismate synthase; beta-alpha-beta sandwich fold, lyase; HET: FMN; 1.95A {Helicobacter pylori} (A:146-299) Length = 154 Score = 26.7 bits (59), Expect = 1.3 Identities = 7/49 (14%), Positives = 17/49 (34%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVE 65 + E K +I + ++ GG+ +R + I ++ Sbjct: 37 QEEAQKTAIQNAIKNHDSIGGVALIRARSIKTNQKLPIGLGQGLYAKLD 85 >1qxo_A Chorismate synthase; beta-alpha-beta, flavoprotein, shikimate, anti-infective, lyase; HET: FMN EPS; 2.00A {Streptococcus pneumoniae} (A:155-315) Length = 161 Score = 26.3 bits (58), Expect = 1.6 Identities = 7/29 (24%), Positives = 18/29 (62%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRING 45 + +++K+ I ++ +G+ GG+V + G Sbjct: 42 REQEIKDYIDQIKRDGDTIGGVVETVVGG 70 >1yq2_A Beta-galactosidase; glycosyl hydrolase family 2, TIM barrel, hexamer; 1.90A {Arthrobacter SP} (A:728-1024) Length = 297 Score = 25.8 bits (56), Expect = 2.0 Identities = 3/28 (10%), Positives = 10/28 (35%) Query: 36 GGMVSVRINGKNMLTGVKIDRSLLFEDN 63 ++ ++G +++ DN Sbjct: 18 FDAGTLVSLAGQPVSGPRLELWRAPTDN 45 >1y69_8 Ribosome recycling factor; RRF; 3.33A {Deinococcus radiodurans} (8:) Length = 113 Score = 25.8 bits (57), Expect = 2.1 Identities = 11/35 (31%), Positives = 17/35 (48%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95 ED+ +D + A KKIE +A K E+ + Sbjct: 78 EDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 112 >1sq1_A Chorismate synthase; structural genomics, bifunctional alpha/beta tetrameric protein, PSI, protein structure initiative; 2.80A {Campylobacter jejuni} (A:145-309) Length = 165 Score = 25.9 bits (57), Expect = 2.1 Identities = 7/42 (16%), Positives = 15/42 (35%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSL 58 K I + ++ G V +++G + G + L Sbjct: 41 LESDFKNEILNARNSKDSVGAAVFTKVSGXLIGLGEVLYDKL 82 >1r53_A Chorismate synthase; two layers alpha-beta, lyase; 2.20A {Saccharomyces cerevisiae} (A:148-329) Length = 182 Score = 25.6 bits (56), Expect = 2.3 Identities = 7/42 (16%), Positives = 13/42 (30%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSL 58 M + I ++ GG+V+ + G L Sbjct: 50 VAGLMVKEIEKYRGNKDSIGGVVTCVVRNLPTGLGEPCFDKL 91 >2o11_A Chorismate synthase; shikimate pathway, lyase; 1.65A {Mycobacterium tuberculosis H37RV} PDB: 2o12_A* 2qhf_A 2g85_A 1ztb_A (A:160-372) Length = 213 Score = 25.5 bits (56), Expect = 2.6 Identities = 7/29 (24%), Positives = 12/29 (41%) Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRING 45 M I + + +G+ GG+V G Sbjct: 42 AEADMIAQIEAAKKDGDTLGGVVEAVALG 70 >1eh1_A Ribosome recycling factor; translation, hinge variability; 2.60A {Thermus thermophilus} (A:1-35,A:106-185) Length = 115 Score = 25.5 bits (56), Expect = 2.8 Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 14/82 (17%) Query: 12 KEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVEILEDLI 71 + ++ E+ + +I ++R + L + + L ED + E I Sbjct: 46 RAVRQYAEEGRVAI-------------RNIRREALDKLKKLAKELHLS-EDETKRAEAEI 91 Query: 72 IAAHSDAHKKIEDLVATKTQEI 93 + K + L K QEI Sbjct: 92 QKITDEFIAKADQLAEKKEQEI 113 >2prg_C Nuclear receptor coactivator SRC-1, peroxisome proliferator activated receptor gamma; complex (thiazolidinedione/receptor), ligand-binding domain; HET: BRL; 2.30A {Homo sapiens} (C:) Length = 88 Score = 25.2 bits (55), Expect = 3.1 Identities = 6/29 (20%), Positives = 10/29 (34%) Query: 76 SDAHKKIEDLVATKTQEITEGLPIPPGLK 104 S K+ L+ T ++ I K Sbjct: 5 SQTSHKLVQLLTTTAEQQLRHADIDTSCK 33 >3bga_A Beta-galactosidase; NYSGXRC, protein structure initiative II (PSI-II), glycosyl hydrolase family 2, jelly-roll fold; 2.10A {Bacteroides thetaiotaomicron vpi-5482} PDB: 3dec_A (A:729-1010) Length = 282 Score = 25.3 bits (55), Expect = 3.3 Identities = 5/16 (31%), Positives = 10/16 (62%) Query: 36 GGMVSVRINGKNMLTG 51 G + S+ ++GK +L Sbjct: 17 GALSSLTLDGKELLAA 32 >1wqg_A Ribosome recycling factor; translation factor, triple-helix bundle, protein synthesis; 2.15A {Mycobacterium tuberculosis} (A:1-32,A:105-185) Length = 113 Score = 25.0 bits (55), Expect = 3.4 Identities = 10/35 (28%), Positives = 15/35 (42%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95 ED V E + +I++LV K E+ E Sbjct: 78 EDEVGRAEKDLDKTTHQYVTQIDELVKHKEGELLE 112 >1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex aeolicus} (A:1-36,A:107-184) Length = 114 Score = 25.1 bits (55), Expect = 3.5 Identities = 7/35 (20%), Positives = 13/35 (37%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95 ED + + + +I L+ K +EI Sbjct: 79 EDEKKRALERLQKLTDKYIDEINKLMEAKEKEIMS 113 >1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio parahaemolyticus} (A:1-32,A:105-185) Length = 113 Score = 25.0 bits (55), Expect = 3.7 Identities = 18/84 (21%), Positives = 38/84 (45%), Gaps = 14/84 (16%) Query: 12 KEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVEILEDLI 71 K ++G+ E + ++ + +R + N L + D+ + ED ++ I Sbjct: 43 KIVRGEAEGGRVAVRN-------------IRRDANNDLKALLKDKEIS-EDEDRKAQEEI 88 Query: 72 IAAHSDAHKKIEDLVATKTQEITE 95 A KKI++++A K +E+ E Sbjct: 89 QKLTDVAVKKIDEVLAAKEKELME 112 >1dd5_A Ribosome recycling factor; three-helix bundle, beta-alpha-beta sandwich; 2.55A {Thermotoga maritima} (A:1-33,A:105-185) Length = 114 Score = 25.1 bits (55), Expect = 3.9 Identities = 10/35 (28%), Positives = 20/35 (57%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95 ED+ + LE+ I + +K++++ K +EI E Sbjct: 79 EDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIME 113 >1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia coli} (A:1-32,A:105-185) Length = 113 Score = 25.0 bits (55), Expect = 4.0 Identities = 11/35 (31%), Positives = 17/35 (48%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95 ED+ +D + A KKIE +A K E+ + Sbjct: 78 EDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 112 >3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon metabolism, pyridoxal phosphate, structural genomics; HET: LLP; 1.50A {Mycobacterium tuberculosis} (A:1-54,A:297-447) Length = 205 Score = 24.0 bits (52), Expect = 6.8 Identities = 6/44 (13%), Positives = 15/44 (34%) Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGLK 104 + + D+I A + + + + P+ GL+ Sbjct: 155 DTEFTEVADIIATALATGSSVDVSALKDRATRLARAFPLYDGLE 198 >1c4z_A E6AP, ubiquitin-protein ligase E3A; bilobal structure, elongated shape, E3 ubiquitin ligase, E2 ubiquitin conjugating enzyme; 2.60A {Homo sapiens} (A:1-88) Length = 88 Score = 24.0 bits (52), Expect = 7.7 Identities = 7/31 (22%), Positives = 17/31 (54%) Query: 52 VKIDRSLLFEDNVEILEDLIIAAHSDAHKKI 82 +K+ R + +D + LE + + +D K++ Sbjct: 8 LKVRRDHIIDDALVRLEMIAMENPADLKKQL 38 >1cbk_A Protein (7,8-dihydro-6-hydroxymethylpterin- pyrophosphokinase); HET: ROI; 2.02A {Haemophilus influenzae} (A:) Length = 160 Score = 23.7 bits (51), Expect = 8.7 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 2/49 (4%) Query: 54 IDRSLLFEDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPG 102 +D +L N I + + H D H + + V EI L +P Sbjct: 94 LDLDILLYGNEIIQNERLTIPHYDMHNR--EFVIVPLFEIASDLVLPNS 140 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 0.314 0.134 0.363 Gapped Lambda K H 0.267 0.0618 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 760,279 Number of extensions: 29902 Number of successful extensions: 115 Number of sequences better than 10.0: 1 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 29 Length of query: 107 Length of database: 4,956,049 Length adjustment: 63 Effective length of query: 44 Effective length of database: 2,826,334 Effective search space: 124358696 Effective search space used: 124358696 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: 42 (22.0 bits) S2: 50 (23.3 bits)