RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254781086|ref|YP_003065499.1| F0F1 ATP synthase subunit B' [Candidatus Liberibacter asiaticus str. psy62] (176 letters) >2cly_A ATP synthase B chain, mitochondrial; mitochondrion, ION transport, CF(0), stator, transport, acetylation, hydrogen ION transport; 2.8A {Bos taurus} (A:) Length = 214 Score = 67.6 bits (165), Expect = 8e-13 Identities = 18/147 (12%), Positives = 44/147 (29%), Gaps = 11/147 (7%) Query: 26 FWLAIIFGIFYWVTHRFILPRLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAI 85 + AI F + + + + E++ A + E+S Sbjct: 57 TFSAISTIGFLVYIVKKYGASVGEFADKLNEQKIAQLEEVKQASIKQIQDAIDMEKSQQA 116 Query: 86 ARAHAKEIIDKVVAAAEQNLEFQREVFEKDLLHKLSN----AQNEIDDMQKKASQEVYSI 141 + D N+ EV ++ LH++ + +Q Q+ Sbjct: 117 LVQKRHYLFD----VQRNNIAMALEVTYRERLHRVYREVKNRLDYHISVQNMMRQKEQEH 172 Query: 142 VGEVTKDLVRKLGFSVSDADVQKILDR 168 + + V + S+S ++ + + Sbjct: 173 MINWVEKRVVQ---SISAQQEKETIAK 196 >1yew_A Particulate methane monooxygenase, B subunit; membrane protein, copper, zinc, beta barrel, oxidoreductase; 2.80A {Methylococcus capsulatus str} (A:151-230) Length = 80 Score = 34.0 bits (78), Expect = 0.012 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%) Query: 25 FFWLAI-IFGIFYWVTHRFILPRLSSIMEVRRNLISSDQEK 64 FW AI + I YW +PRL + R + + S ++ Sbjct: 11 AFWFAIGVAWIGYWSRRPIFIPRLLMVDAGRADELVSATDR 51 >2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor, chromophore, glycoprotein, lipoprotein, membrane, palmitate phosphorylation; HET: BOG RET PLM TWT PC1; 2.50A {Todarodes pacificus} PDB: 2ziy_A* (A:) Length = 448 Score = 31.1 bits (68), Expect = 0.083 Identities = 5/62 (8%), Positives = 14/62 (22%), Gaps = 13/62 (20%) Query: 1 MASSSSSDFSSRFPPFDTSTFLSQFFWLA---------IIFGIFYWVTHRFILPRLSSIM 51 M + + + + + W GIF + ++ Sbjct: 1 MGRDLRDNETW----WYNPSIVVHPHWREFDQVPDAVYYSLGIFIGICGIIGCGGNGIVI 56 Query: 52 EV 53 + Sbjct: 57 YL 58 >1b9u_A Protein (ATP synthase); membrane protein; HET: GMA; NMR {Synthetic} (A:) Length = 34 Score = 29.3 bits (66), Expect = 0.29 Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 4/34 (11%) Query: 18 TSTFLSQFFWLAIIFGIFYWVTHRFILPRLSSIM 51 +T L Q AI F +F +++ P L + + Sbjct: 4 NATILGQ----AIAFVLFVLFCMKYVWPPLMAAI 33 >1sa0_E Stathmin 4; alpha-tubulin, beta-tubulin, colchicine, GTPase, microtubule podophyllotoxin, tubulin, cell cycle; HET: GTP GDP CN2; 3.58A {Rattus norvegicus} (E:1-90) Length = 90 Score = 26.2 bits (58), Expect = 2.4 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%) Query: 62 QEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNLEF 107 Q+K+++A+ + + + LA R H +E+I K A E+N F Sbjct: 48 QKKLEAAEERRKYQEAELLKHLAEKREHEREVIQK---AIEENNNF 90 >3ezq_A Tumor necrosis factor receptor superfamily member 6; apoptosis, DISC, FAS, membrane,receptor, transmembrane; 2.73A {Homo sapiens} PDB: 1ddf_A (A:1-62) Length = 62 Score = 25.8 bits (57), Expect = 3.1 Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 6/48 (12%) Query: 131 QKKASQEVYSIVGEVT----KDLVRKLGFSVSDADVQKILDRKRDGID 174 S+ + +I G +T K VRK G ++A + +I + Sbjct: 4 DVDLSKYITTIAGVMTLSQVKGFVRKNGV--NEAKIDEIKNDNVQDTA 49 >3fyq_A CG6831-PA (talin); 5-helix bundle, cell adhesion; 1.95A {Drosophila melanogaster} (A:) Length = 199 Score = 25.7 bits (56), Expect = 3.3 Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 4/82 (4%) Query: 59 SSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDK--VVAAAEQNLEFQREVFE--K 114 S + +A V +I + ++ A A E L+ + + E K Sbjct: 2 SRGTQACINAAHTVSGIIGDLDTTIXFATAGTLHSDGDGSFADHREHILQTAKALVEDTK 61 Query: 115 DLLHKLSNAQNEIDDMQKKASQ 136 L+ + Q+++ + + A Sbjct: 62 VLVTGAAGTQDQLANAAQNAVS 83 >1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA dehydrogenase, , aldehyde dehydrogenase, oxidoreductase; HET: FAD; 2.10A {Streptomyces hygroscopicus} (A:1-104,A:210-366) Length = 261 Score = 25.9 bits (56), Expect = 3.6 Identities = 4/32 (12%), Positives = 13/32 (40%) Query: 83 LAIARAHAKEIIDKVVAAAEQNLEFQREVFEK 114 + A +++ A + + E R++ + Sbjct: 1 MPERDALLTDLVGDRAAEWDTSGELPRDLLVR 32 >3epv_A CNRX, nickel and cobalt resistance protein CNRR; all alpha helix, coiled coil, periplasm, plasmid, metal binding protein; HET: MSE; 1.74A {Ralstonia metallidurans CH34} (A:) Length = 109 Score = 25.5 bits (56), Expect = 3.8 Identities = 7/68 (10%), Positives = 17/68 (25%) Query: 46 RLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNL 105 L + + ++ +A ++ I+ A +E+ L Sbjct: 19 ILELKEDAFAQRRREIETRLRAANGKLADAIAKNPAWSPEVEAATQEVERAAGDLQRATL 78 Query: 106 EFQREVFE 113 E Sbjct: 79 VHVFEXRA 86 >3c19_A Uncharacterized protein MK0293; protein structure initiative, PSI-2, NEW YORK SGX research center for structural genomics, nysgxrc; 2.50A {Methanopyrus kandleri AV19} (A:1-10,A:96-186) Length = 101 Score = 25.6 bits (56), Expect = 4.0 Identities = 16/92 (17%), Positives = 36/92 (39%), Gaps = 11/92 (11%) Query: 32 FGIFYWVTHRFILPRLSSIMEVRRNLISSDQE---KMDSAK-REVESMISSYEESLAIAR 87 G+ Y + + +P +VR + K+ + EV ++ + ++E I Sbjct: 3 LGLDYEPSGVYSVPS--RFEDVRVVYGEREWRVSVKIAETEEGEVVTVKAEFDECREIGE 60 Query: 88 AH---AKEIIDKVVAAAEQNLEFQREVFEKDL 116 +E+ V AAA ++ E+++ Sbjct: 61 ETGIPPREVKAMVEAAARV--GGWVDLKEREI 90 >2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM, fusion, lipidic cubic phase, lipidic, mesophase, cholesterol, membrane protein; HET: MAL CAU CLR PLM 12P; 2.40A {Homo sapiens} PDB: 3d4s_A* (A:1-237,A:397-500) Length = 341 Score = 25.3 bits (54), Expect = 4.4 Identities = 4/39 (10%), Positives = 12/39 (30%), Gaps = 2/39 (5%) Query: 3 SSSSSDFSSRFPPFDTSTFLSQFF--WLAIIFGIFYWVT 39 + + S P D + + + + I+ + Sbjct: 16 AFLLAPNRSHAPDHDVTQQRDEVWVVGMGIVMSLIVLAI 54 >1zbm_A Hypothetical protein AF1704; alpha-beta protein, structural genomics, PSI, protein structure initiative; 2.30A {Archaeoglobus fulgidus dsm 4304} (A:1-88,A:179-280) Length = 190 Score = 25.3 bits (56), Expect = 4.9 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 13/62 (20%) Query: 53 VRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNLEFQREVF 112 +RR+L QE+ A RE S+A A + E I+ + + L+ RE Sbjct: 98 IRRDLSVEVQEEFLRAXRE----------SIAFAIENPDEAIEYAXKYS-RGLD--RERA 144 Query: 113 EK 114 ++ Sbjct: 145 KR 146 >3eml_A Human adenosine A2A receptor/T4 lysozyme chimera; caffeine, GPCR, membrane protein, LCP, mesophase, structural genomics, PSI-2; HET: ZMA STE; 2.60A {Homo sapiens} (A:1-222,A:380-488) Length = 331 Score = 24.9 bits (53), Expect = 6.7 Identities = 6/54 (11%), Positives = 11/54 (20%), Gaps = 7/54 (12%) Query: 3 SSSSSDFSSRFPPFDTSTFLSQFFWLAIIFGIF-----YWVTHRFILPRLSSIM 51 + PP S+ + I W L ++ Sbjct: 5 DDDAMGQPVGAPPIMGSSVYITVELAIAVLAILGNVLVCWAVWLN--SNLQNVT 56 >1l2p_A ATP synthase B chain; alpha helix, hydrolase; 1.55A {Escherichia coli} (A:) Length = 61 Score = 24.9 bits (55), Expect = 7.0 Identities = 16/57 (28%), Positives = 31/57 (54%) Query: 81 ESLAIARAHAKEIIDKVVAAAEQNLEFQREVFEKDLLHKLSNAQNEIDDMQKKASQE 137 + L A+A A+ II++ Q L+ + E++ ++ AQ EI+ +K+A +E Sbjct: 2 DQLKKAKAEAQVIIEQANKRRSQILDEAKAEAEQERTKIVAQAQAEIEAERKRAREE 58 >3dh4_A Sodium/glucose cotransporter; membrane protein, symporter, sugar transport, SGLT, ION transport, membrane, sodium transport, symport; HET: GAL; 2.70A {Vibrio parahaemolyticus} (A:) Length = 530 Score = 24.6 bits (52), Expect = 7.0 Identities = 3/30 (10%), Positives = 7/30 (23%) Query: 24 QFFWLAIIFGIFYWVTHRFILPRLSSIMEV 53 + I + ++ LP Sbjct: 54 AIASYEWMSAITLIIVGKYFLPIFIEKGIY 83 >2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase, nucleotide-binding; 3.20A {Archaeoglobus fulgidus} (A:27-171) Length = 145 Score = 24.8 bits (54), Expect = 7.2 Identities = 9/68 (13%), Positives = 28/68 (41%) Query: 92 EIIDKVVAAAEQNLEFQREVFEKDLLHKLSNAQNEIDDMQKKASQEVYSIVGEVTKDLVR 151 ++ V E+ + ++E+ + A + ++ S +V + V + ++ Sbjct: 3 KLPKTVERFFEEWKDQRKEIERLKSVIADLWADILXERAEEFDSXKVVAEVVDADXQALQ 62 Query: 152 KLGFSVSD 159 KL +++ Sbjct: 63 KLAERLAE 70 >1u19_A Rhodopsin; G protein-coupled receptor, membrane protein, retinal protein, photoreceptor, signaling protein; HET: MAN NAG BMA RET PLM HTO HTG; 2.20A {Bos taurus} (A:) Length = 348 Score = 24.5 bits (52), Expect = 7.8 Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 12/51 (23%) Query: 1 MASSSSSDFS---------SRFPPFDTSTFLS---QFFWLAIIFGIFYWVT 39 M + +F R P +L+ QF LA + + Sbjct: 1 MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLG 51 >1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex; HET: DNA NOV; 2.30A {Thermus thermophilus} (A:218-390) Length = 173 Score = 24.7 bits (53), Expect = 7.8 Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 5/68 (7%) Query: 49 SIMEVRRNLISSDQEKMDSA--KREVESMIS-SYEESLAIARAHAKEIIDKVVAAAE--Q 103 S+ + K+ + V ++ E L AK + +K + AA+ + Sbjct: 105 SVKLPNPQFEGQTKGKLLNPEAGTAVGQVVYERLLEILEENPRIAKAVYEKALRAAQARE 164 Query: 104 NLEFQREV 111 RE+ Sbjct: 165 AARKAREL 172 >2o71_A Death domain-containing protein cradd; raidd, apoptosis; 2.00A {Homo sapiens} (A:) Length = 115 Score = 24.5 bits (53), Expect = 8.0 Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 2/39 (5%) Query: 136 QEVYSIVGEVTKDLVRKLGFSVSDADVQKILDRKRDGID 174 ++ +G + +V LG S D+ + + Sbjct: 28 NQLAQRLGPEWEPMVLSLGL--SQTDIYRCKANHPHNVQ 64 >2qiz_A Ubiquitin conjugation factor E4; helical hairpin, ligase; 2.56A {Saccharomyces cerevisiae} PDB: 2qj0_A (A:187-482) Length = 296 Score = 24.4 bits (53), Expect = 9.2 Identities = 14/81 (17%), Positives = 27/81 (33%), Gaps = 3/81 (3%) Query: 12 RFPPFDTSTFLSQFFWLAI-IFGIFYWVTHRFILPRLSSIMEVRRNL--ISSDQEKMDSA 68 R F+S F+L + T F S I ++ + + D Sbjct: 207 RKTADSKPNFISDCFFLTLTYLHYGLGGTLSFEEKMGSEIKALKEEIEKVKKIAANHDVF 266 Query: 69 KREVESMISSYEESLAIARAH 89 R + + +S E++L + Sbjct: 267 ARFITAQLSKMEKALKTTESL 287 >2v8i_A Pectate lyase; periplasm, beta-elimination, pectin degradation; 1.50A {Yersinia enterocolitica} PDB: 2v8k_A* 2v8j_A (A:1-183,A:462-543) Length = 265 Score = 24.5 bits (53), Expect = 9.3 Identities = 6/11 (54%), Positives = 8/11 (72%) Query: 33 GIFYWVTHRFI 43 G+ YW HRF+ Sbjct: 99 GLLYWGGHRFV 109 >2khk_A ATP synthase subunit B; F1FO ATP synthase, spectroscopy, ATP synthesis, cell inner membrane, cell membrane, CF(0), hydrogen ION transport; NMR {Escherichia coli k-12} (A:) Length = 53 Score = 24.2 bits (53), Expect = 9.7 Identities = 11/47 (23%), Positives = 25/47 (53%) Query: 49 SIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIID 95 + +E R+ I+ + A ++++ +S + L A+A A+ II+ Sbjct: 2 AAIEKRQKEIADGLASAERAHKDLDLAKASATDQLKKAKAEAQVIIE 48 >3ilv_A Glutamine-dependent NAD(+) synthetase; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.79A {Cytophaga hutchinsonii atcc 33406} (A:274-519) Length = 246 Score = 24.4 bits (52), Expect = 9.7 Identities = 4/36 (11%), Positives = 11/36 (30%), Gaps = 4/36 (11%) Query: 138 VYSIVGEVTKDLVRKL----GFSVSDADVQKILDRK 169 + + V KD +R + + + + Sbjct: 206 GIAPIAGVDKDFIRSWLRWAEKNRNQHGLHIVNKLA 241 >1j27_A Hypothetical protein TT1725; structural genomics, hypothetical protein from thermus thermophilus HB8, MAD; 1.70A {Thermus thermophilus HB8} (A:) Length = 102 Score = 24.2 bits (53), Expect = 9.8 Identities = 11/81 (13%), Positives = 25/81 (30%), Gaps = 15/81 (18%) Query: 41 RFILPRLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIA-----RAHAKEIID 95 R ++ ++ R + ++ +D+ EV + A +E + Sbjct: 23 RALIKPALERLKARFPVSAARLYGLDAWGYEV----------VGFTLLGNDPAWVEETMR 72 Query: 96 KVVAAAEQNLEFQREVFEKDL 116 + FQ + E L Sbjct: 73 AAARFLAEAGGFQVALEEFRL 93 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 0.319 0.132 0.359 Gapped Lambda K H 0.267 0.0650 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,215,011 Number of extensions: 48614 Number of successful extensions: 295 Number of sequences better than 10.0: 1 Number of HSP's gapped: 290 Number of HSP's successfully gapped: 76 Length of query: 176 Length of database: 4,956,049 Length adjustment: 83 Effective length of query: 93 Effective length of database: 2,150,234 Effective search space: 199971762 Effective search space used: 199971762 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 (21.8 bits) S2: 51 (23.6 bits)