RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780130|ref|YP_003064543.1| hypothetical protein CLIBASIA_00045 [Candidatus Liberibacter asiaticus str. psy62] (205 letters) >3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae} Length = 800 Score = 78.0 bits (191), Expect = 1e-15 Identities = 31/160 (19%), Positives = 61/160 (38%), Gaps = 20/160 (12%) Query: 52 HDEKIKALEVIIE--KANAAPIIVAYHFNSDLARLQKAFPQ---------GRTLDKD-PC 99 K+ L+ ++ K + +++ L L G Sbjct: 554 SSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRI 613 Query: 100 TIQEWNEG--KIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQR 157 +I +N + + G G+NL + +V F W+ + Q + R R Sbjct: 614 SIDHFNSPDSNDFVFLLSTRAGGLGINLM-TADTVVIFDSDWNPQADLQAMARA--HRIG 670 Query: 158 QAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197 Q K V VY L++++T++E VL+R R K ++ +++ Sbjct: 671 Q---KNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISL 707 >3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12} Length = 968 Score = 74.6 bits (182), Expect = 2e-14 Identities = 21/192 (10%), Positives = 58/192 (30%), Gaps = 18/192 (9%) Query: 8 QRELYCDLQGENIEAFNSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKAN 67 Q + + G ++ + L ++ + D +++ L + Sbjct: 443 QYQTAIKVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHR 502 Query: 68 AAPIIVAYHFNSDLARLQKAFPQ----------GRTLDKDPCTIQEW--NEGKIPLLFAH 115 + ++V + +L++ + + W E + Sbjct: 503 SQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLC 562 Query: 116 PASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNT 175 G N Q + +V F L ++ + +Q I R+ R Q + ++ + T Sbjct: 563 SEIGSEGRNFQ-FASHMVMFDLPFNPDLLEQRIGRLD--RIGQ---AHDIQIHVPYLEKT 616 Query: 176 IDELVLQRLRTK 187 ++++ Sbjct: 617 AQSVLVRWYHEG 628 >1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A Length = 500 Score = 71.9 bits (175), Expect = 1e-13 Identities = 35/180 (19%), Positives = 65/180 (36%), Gaps = 19/180 (10%) Query: 31 KCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIE-KANAAPIIVAYHFNSDL-------- 81 K Q+ + + + I+ +E+I E I + F Sbjct: 303 KLKQIVDHPALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIE 362 Query: 82 --ARLQKAFPQGRTLDKDPCTIQE--WNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSL 137 + F G K+ I N + + + G G+NL N ++ F Sbjct: 363 KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLT-SANRVIHFDR 421 Query: 138 WWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197 WW+ Q +R+ R Q R V V+ LI+ T++E + Q L K ++ ++++ Sbjct: 422 WWNPAVEDQATDRV--YRIGQ---TRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476 >1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination/DNA binding complex; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19 Length = 644 Score = 65.0 bits (157), Expect = 1e-11 Identities = 35/168 (20%), Positives = 65/168 (38%), Gaps = 21/168 (12%) Query: 44 EEKHWKEVHDEKIKALEVIIEKANAAP---IIVAYHFNSDLARLQKAFPQ---------G 91 K + K+ L+ I+ +++ ++ L +K G Sbjct: 389 STKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDG 448 Query: 92 RTLDKDPCT-IQEWNEGKIP--LLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMI 148 K ++ +N P + + G GLNL G N LV F W+ +Q + Sbjct: 449 TMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLI-GANRLVMFDPDWNPANDEQAM 507 Query: 149 ERIGVTRQRQAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLN 196 R+ R Q K+ ++Y L++ TI+E +LQR K + +++ Sbjct: 508 ARV--WRDGQ---KKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVD 550 >2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A* Length = 472 Score = 60.0 bits (144), Expect = 3e-10 Identities = 28/151 (18%), Positives = 58/151 (38%), Gaps = 11/151 (7%) Query: 42 YDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLAR----LQKAFPQGRTLDKD 97 ++E + KI+ L I+E+ II+ N + R RT ++ Sbjct: 323 WEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREE 382 Query: 98 -PCTIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQ 156 ++ + G+ + + G+++ N+ V S E+ Q + RI Sbjct: 383 REEILEGFRTGRFRAIVSSQV-LDEGIDVP-DANVGVIMSGSGSAREYIQRLGRIL---- 436 Query: 157 RQAGFKRAVFVYYLIAQNTIDELVLQRLRTK 187 R + K+ +Y LI++ T + +R + Sbjct: 437 RPSKGKKEAVLYELISRGTGEVNTARRRKNA 467 >1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase/recombination complex; 2.00A {Sulfolobus solfataricus P2} SCOP: c.37.1.19 Length = 271 Score = 47.3 bits (111), Expect = 2e-06 Identities = 34/215 (15%), Positives = 68/215 (31%), Gaps = 29/215 (13%) Query: 6 KFQRELYCDLQGENIEAFNSASK---------TVKCLQLANGAVYYDEEKHWKEVHDEKI 56 Q +Y +S + T+ L+ + K+ Sbjct: 39 PEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGGEQSVRRSGKM 98 Query: 57 KALEVIIE--KANAAPIIVAYHFNSDLARLQKAFPQGRTL------------DKDPCTIQ 102 IIE I + F ++ + ++D + Sbjct: 99 IRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISK 158 Query: 103 EWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFK 162 N + + + G G+NL + + F WW+ Q +R+ R Q Sbjct: 159 FQNNPSVKFIVLSVKAGGFGINLTSANRV-IHFDRWWNPAVEDQATDRV--YRIGQ---T 212 Query: 163 RAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197 R V V+ LI+ T++E + Q L K ++ ++++ Sbjct: 213 RNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 247 >1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombination, hydrolase; 2.90A {Pyrococcus furiosus dsm 3638} SCOP: c.37.1.19 c.37.1.19 Length = 494 Score = 47.0 bits (110), Expect = 3e-06 Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 10/88 (11%) Query: 100 TIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQA 159 + E+ G+ +L A GL++ +++VF+ Q R G R Sbjct: 411 ILDEFARGEFNVLVATSV-GEEGLDVP-EVDLVVFYEPVPSAIRSIQRRGRTG--RHMP- 465 Query: 160 GFKRAVFVYYLIAQNTIDELVLQRLRTK 187 V L+A+ T DE R K Sbjct: 466 -----GRVIILMAKGTRDEAYYWSSRQK 488 >3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain, chromatin regulator, coiled coil, nucleus, repressor, transcription; 2.20A {Saccharomyces cerevisiae} PDB: 3hgq_A Length = 328 Score = 44.2 bits (104), Expect = 2e-05 Identities = 13/81 (16%), Positives = 30/81 (37%), Gaps = 3/81 (3%) Query: 118 SCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNTID 177 + + ++L+ D Q+ I+ + ++ + G +R + L+A N+ID Sbjct: 184 TKYPIKSKA-RFDMLICLDTTVD--TSQKDIQYLLQYKRERKGLERYAPIVRLVAINSID 240 Query: 178 ELVLQRLRTKSTIQDLLLNAL 198 L + L + Sbjct: 241 HCRLFFGKKFDKNSREYLENV 261 >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 = 40.3 bits (94), Expect = 3e-04 Identities = 25/151 (16%), Positives = 49/151 (32%), Gaps = 69/151 (45%) Query: 21 EAFNSASKT---------VKCLQ------LANGAVYYDEEKHWKE--------VHDEKIK 57 E+F + + V+C + L ++ D ++ E + + + Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP-SILEDSLEN-NEGVPSPMLSISNLTQE 347 Query: 58 ALEVIIEKANA--------------AP--IIVA------YHFNSDLARLQKAFPQGRTLD 95 ++ + K N+ ++V+ Y N L R KA P G LD Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL-RKAKA-PSG--LD 403 Query: 96 KDPCTIQEWNEGKIP-----LLFAH---PAS 118 + +IP L F++ P + Sbjct: 404 ----------QSRIPFSERKLKFSNRFLPVA 424 Score = 36.5 bits (84), Expect = 0.004 Identities = 32/162 (19%), Positives = 50/162 (30%), Gaps = 65/162 (40%) Query: 9 REL-YCDLQGENIEAFNS---ASKTVKCLQLANGA---VYYDEEKHWKEV--HDEKIKAL 59 L +Q + + NS A K V + L NGA V V + + L Sbjct: 342 SNLTQEQVQ-DYVNKTNSHLPAGKQV-EISLVNGAKNLV----------VSGPPQSLYGL 389 Query: 60 EVIIEKANAA----------------------PIIVAYHFNSDLARLQKAFPQGRTLDKD 97 + + KA A P+ +H S L L A ++KD Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH--SHL--LVPASDL---INKD 442 Query: 98 -PCTIQEWNEG--KIPLLFAHPASCGH---GLNLQ-YGGNIL 132 +N +IP+ G +L+ G+I Sbjct: 443 LVKNNVSFNAKDIQIPVY--------DTFDGSDLRVLSGSIS 476 Score = 29.5 bits (66), Expect = 0.52 Identities = 16/73 (21%), Positives = 24/73 (32%), Gaps = 30/73 (41%) Query: 48 WKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDL----ARLQKAFPQGRTLDKDPCTIQ- 102 W+ KA+ V L R +A+P +L P ++ Sbjct: 289 WESFFVSVRKAITV-------------------LFFIGVRCYEAYPN-TSL--PPSILED 326 Query: 103 --EWNEGK-IPLL 112 E NEG P+L Sbjct: 327 SLENNEGVPSPML 339 >1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19 Length = 367 Score = 28.1 bits (61), Expect = 1.4 Identities = 17/113 (15%), Positives = 36/113 (31%), Gaps = 2/113 (1%) Query: 40 VYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLARLQKAFPQGRTLDKDPC 99 + E+ K K ++ D+ A + + Sbjct: 220 EVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREK 279 Query: 100 TIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIG 152 I+ + + KI +L A G+++ N ++ + L + E + I R G Sbjct: 280 VIRLFKQKKIRILIATDV-MSRGIDVN-DLNCVINYHLPQNPESYMHRIGRTG 330 >2i88_A Colicin-E1; protein-membrane interactions, toxin-membrane interactions, toxin structure, voltage-gated channel, membrane protein; 2.50A {Escherichia coli} Length = 191 Score = 27.8 bits (62), Expect = 2.0 Identities = 18/89 (20%), Positives = 31/89 (34%), Gaps = 20/89 (22%) Query: 2 KQYHKFQRELYCDLQGENIEAFNSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKA--L 59 ++Y K +EL +G+ I N A EK+ K+V ++K Sbjct: 34 EKYSKMAQELADKSKGKKIGNVNEALAAF--------------EKY-KDVLNKKFSKADR 78 Query: 60 EVIIEKANAAPIIVAYHFNSDLARLQKAF 88 + I NA + + L + K Sbjct: 79 DAI---FNALASVKYDDWAKHLDQFAKYL 104 >1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19 Length = 165 Score = 26.2 bits (57), Expect = 6.0 Identities = 17/152 (11%), Positives = 49/152 (32%), Gaps = 19/152 (12%) Query: 52 HDEKIKALEVIIEKANAAPIIVAYHFNSDLARLQKAFPQ----------GRTLDKDPCTI 101 + K + L + + + ++ + + L + + Sbjct: 14 EEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIM 73 Query: 102 QEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGF 161 +E+ G +L + G+++Q ++++ + L + E + I R G R + G Sbjct: 74 KEFRSGSSRILIST-DLLARGIDVQ-QVSLVINYDLPANKENYIHRIGRGG--RFGRKG- 128 Query: 162 KRAVFVYYLIAQNTIDELVLQRLRTKSTIQDL 193 + + + + I++L Sbjct: 129 ----VAINFVTNEDVGAMRELEKFYSTQIEEL 156 >1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A* Length = 394 Score = 25.8 bits (55), Expect = 6.6 Identities = 14/129 (10%), Positives = 40/129 (31%), Gaps = 1/129 (0%) Query: 24 NSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLAR 83 T++ ++ V +E K+ ++ + N + + Sbjct: 224 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 283 Query: 84 LQKAFPQGRTLDKDPCTIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEE 143 + ++ TI + + G+++Q ++++ + L + E Sbjct: 284 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQ-QVSLVINYDLPANKEN 342 Query: 144 HQQMIERIG 152 + I R G Sbjct: 343 YIHRIGRGG 351 >3elf_A Fructose-bisphosphate aldolase; zinc enzyme, mechanism, dihydroxyacetone, glyceraldehyde-3-phosphate, aldol condensation, glycolysis; HET: 2FP; 1.31A {Mycobacterium tuberculosis} PDB: 3ekz_A* 3ekl_A* Length = 349 Score = 25.7 bits (56), Expect = 8.4 Identities = 9/44 (20%), Positives = 16/44 (36%) Query: 33 LQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYH 76 +Q + G + K++ + E A P+ VA H Sbjct: 50 IQFSTGGAEFGSGLGVKDMVTGAVALAEFTHVIAAKYPVNVALH 93 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 0.322 0.137 0.414 Gapped Lambda K H 0.267 0.0479 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,843,147 Number of extensions: 83603 Number of successful extensions: 289 Number of sequences better than 10.0: 1 Number of HSP's gapped: 280 Number of HSP's successfully gapped: 32 Length of query: 205 Length of database: 5,693,230 Length adjustment: 88 Effective length of query: 117 Effective length of database: 3,559,758 Effective search space: 416491686 Effective search space used: 416491686 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 (21.9 bits) S2: 54 (25.2 bits)