RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780891|ref|YP_003065304.1| hypothetical protein CLIBASIA_03940 [Candidatus Liberibacter asiaticus str. psy62] (215 letters) >3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I two-component histidine kinase, phosphoprotein; HET: ADP; 2.03A {Geobacillus stearothermophilus} Length = 244 Score = 46.0 bits (109), Expect = 6e-06 Identities = 41/174 (23%), Positives = 70/174 (40%), Gaps = 22/174 (12%) Query: 12 MDLVALLCSRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIR-----LSSMSAIIR-- 63 M+ V L + I H+I +P+ A ++L+ ++ D+ Q R L AII Sbjct: 11 MEAVTHLAASISHEIRNPLTAARGFIQLIEEQPLAADKRRQYARIAIEELDRAEAIITDY 70 Query: 64 LKFMRLAFGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGEKIDLSRERAKI--- 118 L F + A ++ + +IE+VI+ +A V + T + ER K Sbjct: 71 LTFAKPAPETPEKLNVKL---EIERVIDILRPLANMSCVDIQATLAPFSVIGEREKFRQC 127 Query: 119 LLNLFMVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166 LLN+ A ++P GG + + V + + G L R E + Sbjct: 128 LLNVMKNAIEAMPNGGTLQVYVSIDNGRVLIRIADTGVGMTKEQLERLGEPYFT 181 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 39.4 bits (91), Expect = 7e-04 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%) Query: 154 NGNLARFPEKFTQIVDGNVESTIDSHDIQFYYVILLAHENKIRLL-PEIIDDHN 206 NGNL P +T VD + +D D++ Y + + IRL+ PE+ + +N Sbjct: 865 NGNLKGRP--YTGWVDSKTKEPVDDKDVKAKYETSILEHSGIRLIEPELFNGYN 916 >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 = 35.3 bits (81), Expect = 0.009 Identities = 25/149 (16%), Positives = 41/149 (27%), Gaps = 66/149 (44%) Query: 74 TGSVDSLIGLGDIEQVIEDFIAVDKRVQVSWTGEKIDLSR----ERAKILLNLFMVAHAS 129 +G SL GL + ++ + +G +D SR ER N F Sbjct: 380 SGPPQSLYGL---NLTL-------RKAKAP-SG--LDQSRIPFSERKLKFSNRF------ 420 Query: 130 LPRGGKVTISV---------------QDSKNENIFSLKINGNLARFPEKFTQIVDGNVES 174 LP ++ +D N+ N + P V Sbjct: 421 LP------VASPFHSHLLVPASDLINKDLVKNNV---SFNAKDIQIP----------VYD 461 Query: 175 TIDSHDIQFYYVILLAHENKIRLLPEIID 203 T D D++ + I+D Sbjct: 462 TFDGSDLR---------VLSGSISERIVD 481 >3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transferase, two-component regulatory system; 3.80A {Thermotoga maritima} Length = 349 Score = 35.0 bits (80), Expect = 0.013 Identities = 28/169 (16%), Positives = 64/169 (37%), Gaps = 23/169 (13%) Query: 19 CSRICHDIISPIGAIHNSLELLDEVGIEDEV----MQLIRLSS--MSAIIR--LKFMRLA 70 +R+ H+I +PI I + + + + E + +I + I++ L++ + Sbjct: 136 TARVAHEIRNPITIIGGFIMRMKKHLDDPETLKKYINIITNELSRLETIVKEILEYSKER 195 Query: 71 FGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLF 123 + +L L I +V F + + + +++ R R ++L+NL Sbjct: 196 QVLEFTEFNLNEL--IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLV 253 Query: 124 MVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166 A + GK+ I+ +D + S+ +G + F Sbjct: 254 QNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFT 302 >3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding, cell inner MEM cell membrane, kinase, membrane, nucleotide-binding; 2.50A {Escherichia coli} Length = 222 Score = 33.9 bits (78), Expect = 0.027 Identities = 34/174 (19%), Positives = 67/174 (38%), Gaps = 26/174 (14%) Query: 24 HDIISPIGAIHNSLELLDEVGIEDEVMQ--LIRLSS----MSAIIR--LKFMRLAFGYTG 75 H++ SP+ A+ E+ + + + L++L S + ++ L RL Sbjct: 11 HELRSPLTALKVQTEVAQLSDDDPQARKKALLQLHSGIDRATRLVDQLLTLSRLDSLDNL 70 Query: 76 SVDSLIGLGD-IEQVIEDF--IAVDKRVQVSWTGEKIDLSRER-----AKILLNLFMVAH 127 + I L D ++ + D A ++ V T + R + ++ NL A Sbjct: 71 QDVAEIPLEDLLQSSVMDIYHTAQQAKIDVRLTLNAHSIKRTGQPLLLSLLVRNLLDNAV 130 Query: 128 ASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQIVDGNVEST 175 P+G V +++ N + F ++ NG LAR E+F + + Sbjct: 131 RYSPQGSVVDVTL----NADNFIVRDNGPGVTPEALARIGERFYRPPGQTATGS 180 >2vxt_I Interleukin-18; FAB, IL-18, secreted, cytokine, autoimmunity, glycoprotein, TH1/TH2 cells, immunoglobulin domain, immunoglobulin V region; 1.49A {Homo sapiens} PDB: 1j0s_A 3f62_B Length = 157 Score = 33.3 bits (76), Expect = 0.041 Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 12/71 (16%) Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVESTIDS--HDIQFYYV 186 S PRG VTISV+ K I +L + F E N I DI F+ Sbjct: 55 SQPRGMAVTISVKAEK---ISTLSAENKIISFKE-------MNPPDNIKDTKSDIIFFQR 104 Query: 187 ILLAHENKIRL 197 + H+NK++ Sbjct: 105 SVPGHDNKMQF 115 >1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase; transferase, mitochondrial protein kinase, potassium; HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1 d.122.1.4 PDB: 1gjv_A 1gkx_A* Length = 388 Score = 29.8 bits (66), Expect = 0.44 Identities = 18/162 (11%), Positives = 45/162 (27%), Gaps = 26/162 (16%) Query: 20 SRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIRLSSMSAII-------RLKFMRLAF 71 ++ D + + L + E V + + S + L Sbjct: 126 RQLLDDHKDVVTLLAEGLRESRKHIEDEKLVRYFLDKTLTSRLGIRMLATHHLALHEDKP 185 Query: 72 GYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGEKIDLS---------RERAKILLN 121 + G + + + IE+ ++ + + + +I+ IL Sbjct: 186 DFVGIICTRLSPKKIIEKWVDFARRLCEHKYGNAPRVRINGHVAARFPFIPMPLDYILPE 245 Query: 122 LFMVAHASLPRGG--------KVTISVQDSKNENIFSLKING 155 L A + V I++ ++ + I + G Sbjct: 246 LLKNAMRATMESHLDTPYNVPDVVITIANNDVDLIIRISDRG 287 >1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase, thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP: a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2 PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A* 1jdb_B* 1kee_A* 1t36_A* Length = 1073 Score = 29.9 bits (67), Expect = 0.46 Identities = 22/138 (15%), Positives = 53/138 (38%), Gaps = 34/138 (24%) Query: 42 EVGIEDEVMQLIRLSSMSAIIRLKF------------MRLAFGYTGSVDSLIGLGDIEQV 89 + +++ + LI ++ +A R+ G + L G ++V Sbjct: 829 QFAVKNNEVYLIEVNPRAARTVPFVSKATGVPLAKVAARVMAGKS-----LAEQGVTKEV 883 Query: 90 IEDFIAVDKRVQVSW----------------TGEKIDLSRERAKILLNLFMVAHASLPRG 133 I + +V K V + + TGE + + R A+ + +++++ + Sbjct: 884 IPPYYSV-KEVVLPFNKFPGVDPLLGPEMRSTGEVMGVGRTFAEAFAKAQLGSNSTMKKH 942 Query: 134 GKVTISVQDSKNENIFSL 151 G+ +SV++ E + L Sbjct: 943 GRALLSVREGDKERVVDL 960 >3fmw_A Oxygenase; mithramycin, baeyer-villiger, flavin binding protein, oxidoreductase; HET: FAD; 2.89A {Streptomyces argillaceus} Length = 570 Score = 29.3 bits (64), Expect = 0.68 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 3/65 (4%) Query: 34 HNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGL---GDIEQVI 90 ++E LD G+ D ++ +++ + L FG + GL E ++ Sbjct: 95 IRTVETLDLRGLLDRFLEGTQVAKGLPFAGIFTQGLDFGLVDTRHPYTGLVPQSRTEALL 154 Query: 91 EDFIA 95 + Sbjct: 155 AEHAR 159 >1zvo_C Myeloma immunoglobulin D delta; immunoglobulin fold, antibody, immune system; NMR {Homo sapiens} Length = 512 Score = 29.0 bits (64), Expect = 0.87 Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%) Query: 134 GKVTISVQDSKNENIFSLKIN 154 G+VTISV S+ N FSL + Sbjct: 67 GRVTISVDTSR--NQFSLNLR 85 >2dkh_A 3-hydroxybenzoate hydroxylase; flavoprotein, monooxygenase, substrate complex, oxidoreductase; HET: FAD 3HB; 1.80A {Comamonas testosteroni} PDB: 2dki_A* Length = 639 Score = 28.9 bits (63), Expect = 0.97 Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 5/64 (7%) Query: 30 IGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGDIEQV 89 G ++E+ + D +++ I + F + G G + + D E Sbjct: 75 DGIACRTMEMFEAFEFADSILKEA-----CWINDVTFWKPDPGQPGRIARHGRVQDTEDG 129 Query: 90 IEDF 93 + +F Sbjct: 130 LSEF 133 >3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase, two-component regulatory system; 1.57A {Thermotoga maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A Length = 152 Score = 28.4 bits (63), Expect = 1.3 Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 7/72 (9%) Query: 86 IEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLFMVAHASLPRGGKVTI 138 I +V F + + + +++ R R ++L+NL A + GK+ I Sbjct: 12 IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLVQNAIEATGENGKIKI 71 Query: 139 SVQDSKNENIFS 150 + +D + S Sbjct: 72 TSEDMYTKVRVS 83 >1wth_A Protein GP5, tail-associated lysozyme; triple-stranded beta-helix, OB fold, pseudohexamer, T4 tail lysozyme, GP5-GP27; 2.80A {Enterobacteria phage T4} PDB: 2z6b_A 1k28_A 1pdl_A Length = 584 Score = 28.2 bits (62), Expect = 1.5 Identities = 8/53 (15%), Positives = 15/53 (28%), Gaps = 3/53 (5%) Query: 133 GGKVTISVQDSKNENI---FSLKINGNLARFPEKFTQIVDGNVESTIDSHDIQ 182 G T +V + + + + G+ + I G DI Sbjct: 523 EGNQTNTVNGNLSWKVAGTVDWDVGGDWTEKMASMSSISSGQYTIDGSRIDIG 575 >2fq6_A Cystathionine beta-lyase; protein-inhibitor complex, PLP cofactor covalently bound to P3F inhibitor; HET: P3F; 1.78A {Escherichia coli} SCOP: c.67.1.3 PDB: 2gqn_A* 1cl1_A* 1cl2_A* Length = 415 Score = 28.0 bits (61), Expect = 1.9 Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 27/68 (39%) Query: 26 IISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGD 85 I++ ++ E+ LIRL IGL D Sbjct: 367 ILANQPEHIAAIRPQGEIDFSGT---LIRLH------------------------IGLED 399 Query: 86 IEQVIEDF 93 ++ +I D Sbjct: 400 VDDLIADL 407 >2znx_A SCFV; fluorotryptohpan, 5-fluorotryptophan, 19F, single chain FV, allergen, antimicrobial, bacteriolytic enzyme, glycosidase, hydrolase; HET: FTR 1PG; 2.30A {Homo sapiens} PDB: 2znw_A* Length = 242 Score = 27.8 bits (62), Expect = 2.0 Identities = 6/21 (28%), Positives = 12/21 (57%), Gaps = 2/21 (9%) Query: 134 GKVTISVQDSKNENIFSLKIN 154 +++I+ SK N + L +N Sbjct: 187 SRISITRDTSK--NQYYLDLN 205 >3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide, hydrolysis, alternative splicing, cytoplasm, hydrolase, leukotriene biosynthesis, metal-binding; 1.47A {Homo sapiens} SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A 3b7r_L* 2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 3fts_A* 3ftu_A* 2vj8_A* 3ftw_A* 3ftx_A* 3fty_A* 3fu0_A* 3fu3_A* 3fu5_A* 3fu6_A* 3fud_A* 3fue_A* 3fuf_A* 3fuh_A* ... Length = 616 Score = 27.2 bits (59), Expect = 2.7 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 11/49 (22%) Query: 134 GKVTISVQ-----------DSKNENIFSLKINGNLARFPEKFTQIVDGN 171 G ++VQ D+K+ I + ING ++ Q G+ Sbjct: 42 GTAALTVQSQEDNLRSLVLDTKDLTIEKVVINGQEVKYALGERQSYKGS 90 >1x9q_A SCFV, 4M5.3 anti-fluorescein single chain antibody fragment; VERY high affinity, antibody binding, electrostatics, directed evolution; HET: FLU; 1.50A {Homo sapiens} Length = 268 Score = 26.7 bits (59), Expect = 3.5 Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%) Query: 134 GKVTISVQDSKNENIFSLKIN 154 G+ TIS DSK + L++N Sbjct: 219 GRFTISRDDSK--SSVYLQMN 237 >3hwc_A Chlorophenol-4-monooxygenase component 2; beta barrel, helix bundle, oxidoreductase; 2.50A {Burkholderia cepacia} Length = 515 Score = 26.1 bits (57), Expect = 6.2 Identities = 6/58 (10%), Positives = 16/58 (27%) Query: 19 CSRICHDIISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGS 76 D+ + S D+ ++L + R++ R+ + Sbjct: 376 VMYELLDLAGRSSLMIPSEGQWDDSQSGQWFVKLNNGPKGNPRERVQIGRVIRDLYLT 433 >2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl MAD, two-component systems, transferase; HET: ADP; 1.9A {Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB: 3dge_A* Length = 258 Score = 26.0 bits (57), Expect = 6.6 Identities = 32/177 (18%), Positives = 61/177 (34%), Gaps = 30/177 (16%) Query: 20 SRICHDIISPIGAIHNSLELLDEVGIED------EVMQLIRLSS--MSAIIR--LKFMRL 69 + I H++ +P+ AI E + E E +++I S + ++ L F RL Sbjct: 25 ANISHELRTPLTAIKAYAETIYNSLGELDLSTLKEFLEVIIDQSNHLENLLNELLDFSRL 84 Query: 70 AFGYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGE---------KIDLSRERAKIL 119 + L D +E + V+ E ID +R R ++L Sbjct: 85 ERKSLQINREKVDLCDLVESAVNAIKEFASSHNVNVLFESNVPCPVEAYIDPTRIR-QVL 143 Query: 120 LNLFMVAHASLPRGGKV---TISVQDSKNENIFSLKING------NLARFPEKFTQI 167 LNL + + + + + ++ NG R E+F ++ Sbjct: 144 LNLLNNGVKYSKKDAPDKYVKVILDEKDGGVLIIVEDNGIGIPDHAKDRIFEQFYRV 200 >2k9g_A SH3 domain-containing kinase-binding protein 1; CIN85, adaptor protein, downregulation, CBL, alternative splicing, apoptosis, cell junction; NMR {Homo sapiens} Length = 73 Score = 26.0 bits (57), Expect = 6.7 Identities = 10/45 (22%), Positives = 23/45 (51%) Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVE 173 ++ G VT+ +D + + ++NG FP+ F +++ + E Sbjct: 27 TIKEGDIVTLINKDCIDVGWWEGELNGRRGVFPDNFVKLLPPDFE 71 >3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding, hydrolase, mRNA processing, splicing, nucleotide-binding, nucleus, phosphoprotein, SPLI; 2.10A {Homo sapiens} Length = 270 Score = 25.5 bits (55), Expect = 8.8 Identities = 9/28 (32%), Positives = 15/28 (53%) Query: 28 SPIGAIHNSLELLDEVGIEDEVMQLIRL 55 SP+ + ++E L +G D+ L RL Sbjct: 15 SPMETLITAMEQLYTLGALDDEGLLTRL 42 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 0.323 0.140 0.390 Gapped Lambda K H 0.267 0.0688 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,814,717 Number of extensions: 83078 Number of successful extensions: 304 Number of sequences better than 10.0: 1 Number of HSP's gapped: 302 Number of HSP's successfully gapped: 26 Length of query: 215 Length of database: 5,693,230 Length adjustment: 88 Effective length of query: 127 Effective length of database: 3,559,758 Effective search space: 452089266 Effective search space used: 452089266 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 55 (25.0 bits)