RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780614|ref|YP_003065027.1| F0F1 ATP synthase subunit epsilon [Candidatus Liberibacter asiaticus str. psy62] (135 letters) >2rq6_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon subunit, ATP synthesis, CF1, hydrogen ION transport, hydrolase; NMR {Thermosynechococcus elongatus} PDB: 2rq7_A Length = 138 Score = 99.1 bits (247), Expect = 3e-22 Identities = 27/129 (20%), Positives = 57/129 (44%), Gaps = 1/129 (0%) Query: 7 LHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHRYV 66 + +++P+K V+ + V+LPS G + +L HAP+LT +++G++ + E + Sbjct: 3 MTVRVIAPDKTVWDAPAEEVILPSTTGQLGILSNHAPLLTALETGVMRVRQDREWVA-IA 61 Query: 67 VIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQLLVD 126 ++GG ++ + T+L D L+ + + L + + Q Sbjct: 62 LMGGFAEVENNEVTILVNGAERGDTIDLEKAKAEFAAAQAALAQAEQGESKQAKIQATQA 121 Query: 127 LSCLRRRIQ 135 R R+Q Sbjct: 122 FRRARARLQ 130 >2qe7_H ATP synthase subunit epsilon; blockage of ATP hydrolysis, F1-ATPase, single particle analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} Length = 135 Score = 93.8 bits (233), Expect = 1e-20 Identities = 27/117 (23%), Positives = 55/117 (47%), Gaps = 1/117 (0%) Query: 7 LHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHRYV 66 + ++V+PE+ VF GE V+ G++ V+ GH P++T +K+ V I +E Sbjct: 4 VQVDIVTPERKVFQGEADIVIARGVEGELGVMAGHIPLVTPLKTAPVRIKQGDKE-TLIA 62 Query: 67 VIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQL 123 V GG ++ P +L++T + ++ +K + L + D+ + + Sbjct: 63 VSGGFLEVRPDKVNILADTAELPEEIDVERAKKAKARHETILKRLDKTDKDYLRHKR 119 >1aqt_A ATP synthase; hydrolase, ATPase, epsilon subunit; 2.30A {Escherichia coli} SCOP: a.2.10.1 b.93.1.1 PDB: 1qo1_J 1bsh_A 1bsn_A 1fs0_E Length = 138 Score = 91.8 bits (228), Expect = 4e-20 Identities = 27/106 (25%), Positives = 54/106 (50%) Query: 5 NDLHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHR 64 + H ++VS E+ +FSG V+ + + G++ + GHAP+LT IK G++ I Sbjct: 2 STYHLDVVSAEQQMFSGLVEKIQVTGSEGELGIYPGHAPLLTAIKPGMIRIVKQHGHEEF 61 Query: 65 YVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNN 110 + GGI ++ P + TVL++T + + + + +++ Sbjct: 62 IYLSGGILEVQPGNVTVLADTAIRGQDLDEARAMEAKRKAEEHISS 107 >2xok_H ATP synthase; hydrolase, ATP-binding, F(O), F(1), mitochondr inner membrane, transmembrane; HET: ANP; 3.01A {Saccharomyces cerevisiae} Length = 160 Score = 88.9 bits (220), Expect = 4e-19 Identities = 25/121 (20%), Positives = 54/121 (44%), Gaps = 3/121 (2%) Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63 + L + P + ++SG EV V LP++ G I VL H P + + G+V + Sbjct: 30 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNS-K 88 Query: 64 RYVVIGGICDIVP-SHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122 ++ + GG + P S V + P+++ + ++ + E ++++ + Q Sbjct: 89 KFFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQ 148 Query: 123 L 123 + Sbjct: 149 V 149 >2w6j_H F1-ATPase delta subunit; ATP phosphorylase (H+ transporting), transit peptide, F1FO ATP synthase, ATP phosphorylase; 3.84A {Bos taurus} PDB: 2w6h_H 2w6i_H Length = 168 Score = 87.8 bits (217), Expect = 8e-19 Identities = 28/133 (21%), Positives = 57/133 (42%), Gaps = 2/133 (1%) Query: 5 NDLHFELVSPEKCVF-SGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63 + F SP + F S V+ V +P++ G +L H P L ++ G+V + Sbjct: 36 GQMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTS 95 Query: 64 RYVVIGGICDIVPSH-CTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122 +Y V G + +L+E + +D L A + +++ S+L D R +++ Sbjct: 96 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQI 155 Query: 123 LLVDLSCLRRRIQ 135 + L + ++ Sbjct: 156 RIEANEALVKALE 168 >2ck3_H ATP synthase delta chain; ATP phosphorylase, ATP phosphorylase (H+ transporting), F1FO ATP synthase, F1-ATPase, hydrolase, ATP synthesis; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.2.10.1 b.93.1.1 PDB: 1e79_H* 1h8e_H* 2jdi_H* 2v7q_H* Length = 146 Score = 87.7 bits (217), Expect = 9e-19 Identities = 28/133 (21%), Positives = 57/133 (42%), Gaps = 2/133 (1%) Query: 5 NDLHFELVSPEKCVF-SGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63 + F SP + F S V+ V +P++ G +L H P L ++ G+V + Sbjct: 14 GQMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTS 73 Query: 64 RYVVIGGICDIVPSH-CTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122 +Y V G + +L+E + +D L A + +++ S+L D R +++ Sbjct: 74 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQI 133 Query: 123 LLVDLSCLRRRIQ 135 + L + ++ Sbjct: 134 RIEANEALVKALE 146 >2e5y_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon subunit, hydrolase; HET: ATP; 1.92A {Bacillus SP} PDB: 2e5t_A 2e5u_A Length = 133 Score = 86.1 bits (213), Expect = 2e-18 Identities = 21/120 (17%), Positives = 52/120 (43%), Gaps = 1/120 (0%) Query: 5 NDLHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHR 64 +H +V+P+ V+ +V+ V + ++ G++ +L GH P++ ++ + + Sbjct: 2 KTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKG-GKTQY 60 Query: 65 YVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQLL 124 V GG ++ P T+L++ ++ + + + L + D + E L Sbjct: 61 IAVSGGFLEVRPDKVTILAQAAERAEDIDVLRAKAAKERAERRLQSQQDDIDFKRAELAL 120 >2hld_H ATP synthase delta chain, mitochondrial; ATP phosphorylase (H+ transporting), F1FO, F1- ATPase, hydrolase; HET: ANP; 2.80A {Saccharomyces cerevisiae} PDB: 3fks_H Length = 138 Score = 82.3 bits (203), Expect = 4e-17 Identities = 26/132 (19%), Positives = 56/132 (42%), Gaps = 2/132 (1%) Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63 + L + P + ++SG EV V LP++ G I VL H P + + G+V + Sbjct: 8 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNSKK 67 Query: 64 RYVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQL 123 ++ G S V + P+++ + ++ + E ++++ + Q+ Sbjct: 68 FFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQV 127 Query: 124 LVDLSCLRRRIQ 135 V L L+ ++ Sbjct: 128 EV-LENLQSVLK 138 >3oee_H ATP synthase subunit delta; ATP phosphatase, F1F0 ATPase, ATP synthesis, H ADP, PO4, mitochondria; HET: ANP; 2.74A {Saccharomyces cerevisiae} PDB: 2wpd_H* 3fks_H 2hld_H* 3oeh_H* 3ofn_H* 3oe7_H* Length = 138 Score = 82.3 bits (203), Expect = 4e-17 Identities = 25/121 (20%), Positives = 54/121 (44%), Gaps = 3/121 (2%) Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63 + L + P + ++SG EV V LP++ G I VL H P + + G+V + Sbjct: 8 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNS-K 66 Query: 64 RYVVIGGICDIVP-SHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122 ++ + GG + P S V + P+++ + ++ + E ++++ + Q Sbjct: 67 KFFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQ 126 Query: 123 L 123 + Sbjct: 127 V 127 >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 = 36.8 bits (85), Expect = 0.001 Identities = 34/151 (22%), Positives = 48/151 (31%), Gaps = 65/151 (43%) Query: 6 DLHFELVS-PEKCVFSGEVQ----SV---VL---PSELGD----ITVLVGHAPVLTTIKS 50 D + L+S P C G +Q V +L P EL T GH S Sbjct: 227 DKDY-LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT---GH--------S 274 Query: 51 -GIVT-----ISLSCEEIHRYVV--------IGGICDIVPSH----CTVLSETIL----- 87 G+VT + S E V IG V + T L +IL Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIG-----VRCYEAYPNTSLPPSILEDSLE 329 Query: 88 -------PM---DNACLQALEKRIDEVCSDL 108 PM N + ++ +++ S L Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360 >3aj7_A Oligo-1,6-glucosidase; (beta/alpha)8-barrel, hydrolase; 1.30A {Saccharomyces cerevisiae} PDB: 3a4a_A* 3a47_A Length = 589 Score = 28.3 bits (62), Expect = 0.59 Identities = 6/35 (17%), Positives = 12/35 (34%) Query: 19 FSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIV 53 FS + +P++ + G+ P S Sbjct: 543 FSSDATDFKIPNDDSSFKLEFGNYPKKEVDASSRT 577 >1mkf_A M3; decoy receptor, PSI, protein structure initiative; 2.10A {Murid herpesvirus 4} SCOP: b.116.1.1 PDB: 1ml0_A 2nyz_A 2nz1_A Length = 382 Score = 27.4 bits (60), Expect = 1.2 Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 10/80 (12%) Query: 39 VGHAPVLTTIKSGIVTISLSCEEIHRYVVIGGICDIVPSHCTVLSETILPMDNACLQALE 98 +G AP L+T SG+ T S+ +I R D + +HC +ET + C L+ Sbjct: 3 LGLAPALSTHSSGVSTQSVDLSQIKR-------GDEIQAHCLTPAETEV---TECAGILK 52 Query: 99 KRIDEVCSDLNNICDVDQRF 118 + + +L +C+V + Sbjct: 53 DVLSKNLHELQGLCNVKNKM 72 >3mml_B Allophanate hydrolase subunit 1; structural genomics, PSI-2, protein structure initiative, tuberculosis structural genomics consortium; 2.50A {Mycobacterium smegmatis} Length = 228 Score = 25.4 bits (55), Expect = 5.0 Identities = 11/50 (22%), Positives = 21/50 (42%) Query: 68 IGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQR 117 + G+ DIVP+ TVL + P A + ++ + + D+ Sbjct: 54 LLGVVDIVPAARTVLVKLAGPRYQAPTRQRLGKLRVRPEAITHQPPGDRV 103 >2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Length = 123 Score = 24.8 bits (54), Expect = 6.8 Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 9/49 (18%) Query: 62 IHRYVVIGGICDIVPSHCTVLSETIL---------PMDNACLQALEKRI 101 IHR + G + V + V ++ NA + RI Sbjct: 29 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRI 77 >3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural genomics, PSI-2, protein structure initiative; 1.50A {Listeria monocytogenes str} Length = 244 Score = 24.7 bits (53), Expect = 7.3 Identities = 7/85 (8%), Positives = 19/85 (22%), Gaps = 9/85 (10%) Query: 50 SGIVTISLSCEEIHRYVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLN 109 + + + + ++V L ++ID + Sbjct: 32 HAYLPCFAVKNQTASFAIA---GEVVDGPFQS------AQKQVRSSGLTEQIDVRKGNGL 82 Query: 110 NICDVDQRFQMEQLLVDLSCLRRRI 134 + + + L R I Sbjct: 83 AVIEKKDAIDTIVIAGMGGTLIRTI 107 >5csm_A Chorismate mutase; chorismate pyruvatemutase, allosteric protein, complex (isomerase/peptide), transition state analog; HET: TRP; 2.00A {Saccharomyces cerevisiae} SCOP: a.130.1.2 PDB: 3csm_A* 2csm_A* 4csm_A* 1csm_A* Length = 256 Score = 24.3 bits (53), Expect = 8.7 Identities = 7/12 (58%), Positives = 9/12 (75%) Query: 90 DNACLQALEKRI 101 D CLQ+L +RI Sbjct: 147 DIECLQSLSRRI 158 >3c0k_A UPF0064 protein YCCW; PUA domain, adoMet dependent methyltransferase fold; 2.00A {Escherichia coli K12} Length = 396 Score = 24.3 bits (52), Expect = 9.2 Identities = 9/24 (37%), Positives = 13/24 (54%) Query: 18 VFSGEVQSVVLPSELGDITVLVGH 41 VFSG V + + LG+ +V H Sbjct: 22 VFSGAVARMEGKASLGETIDIVDH 45 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 0.324 0.139 0.412 Gapped Lambda K H 0.267 0.0669 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,185,919 Number of extensions: 51731 Number of successful extensions: 212 Number of sequences better than 10.0: 1 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 24 Length of query: 135 Length of database: 5,693,230 Length adjustment: 82 Effective length of query: 53 Effective length of database: 3,705,222 Effective search space: 196376766 Effective search space used: 196376766 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 51 (23.5 bits)