RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD family protein [Candidatus Liberibacter asiaticus str. psy62] (188 letters) >3mlq_E Transcription-repair coupling factor; tudor, transferase-transcription complex; 2.91A {Thermus thermophilus} Length = 71 Score = 43.9 bits (104), Expect = 2e-05 Identities = 15/49 (30%), Positives = 30/49 (61%), Gaps = 3/49 (6%) Query: 14 FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPV 61 G+++++P HGVG ++ +EV G+K ++ V+ + + K L +PV Sbjct: 3 HMPGDYLIHPEHGVGQYLGLETREVLGVKRDYLVLRYKGEGK--LYLPV 49 >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 = 35.7 bits (82), Expect = 0.007 Identities = 39/237 (16%), Positives = 59/237 (24%), Gaps = 108/237 (45%) Query: 3 FQQKRDAMRQGFRTG--EHIVYP-------------AHGVGTIT---EIK--EQEVAGMK 42 F R A+ F G + YP + G + I QE + Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE----Q 348 Query: 43 LEFFVIAFDKDKMCLKVPVGKAIDIG-----------------------MRKL------- 72 ++ +V + +P GK ++I +RK Sbjct: 349 VQDYVNKTNSH-----LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403 Query: 73 -SEAHFVERALK----------------LVRGKARVKRTMWSRRAQEYDAKINSGDLIAI 115 S F ER LK LV + + + + N+ D+ I Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK-----DLVKNNVSFNAKDI-QI 457 Query: 116 AEVV------RDLHRTDSQPEKSYSERQLYESALNRMVREIA--AVNSISEPEAINL 164 V DL R L S R+V I V Sbjct: 458 P--VYDTFDGSDL-------------RVLSGSISERIVDCIIRLPVKW---ETTTQF 496 Score = 34.9 bits (80), Expect = 0.011 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 32/83 (38%) Query: 119 VRDLHRTDSQ----------PEKSYSERQLYESALNRMVREIAAVNS-----ISEPEAIN 163 + +L + Q P +Q+ I+ VN +S P + Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPA----GKQVE----------ISLVNGAKNLVVSGP-PQS 385 Query: 164 LIEVNLSSKSSKTEKSTSENQDK 186 L L+ K + + +Q + Sbjct: 386 L--YGLNLTLRKAKAPSGLDQSR 406 Score = 31.8 bits (72), Expect = 0.095 Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%) Query: 110 GDLIA-IAEVVRDLHRTDSQPEKSYSE 135 GDLI AE + +L RT EK +++ Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQ 211 >2w5e_A Putative serine protease; coiled coil, transmembrane, thiol protease, RNA replication, ribosomal frameshifting, catalytic triad, membrane; 2.00A {Human astrovirus 1} Length = 163 Score = 30.5 bits (68), Expect = 0.22 Identities = 19/102 (18%), Positives = 29/102 (28%), Gaps = 3/102 (2%) Query: 13 GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP--VGKAIDIGMR 70 GF +G IV AH VG T + M +KD + P + + + Sbjct: 25 GFFSGNDIVTAAHVVGNNTFVNVCYEGLMYEAKVRYMPEKDIAFITCPGDLHPTARLKLS 84 Query: 71 KLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGD 111 K + V + M Y + G Sbjct: 85 KNPDYSCVTVMAYVNEDLVVSTAAAMVYGNTLSYAVRTQDGM 126 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 28.4 bits (62), Expect = 0.99 Identities = 17/89 (19%), Positives = 40/89 (44%), Gaps = 16/89 (17%) Query: 78 VERALKLVRGKARVKRTMWS----RRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE-KS 132 + +A +L + +++ W +R QE DA ++V+ R ++ + + Sbjct: 74 IAQADRLTQEPESIRK--WREEQRKRLQELDAA---------SKVMEQEWREKAKKDLEE 122 Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161 +++RQ + N++ IA +P+A Sbjct: 123 WNQRQSEQVEKNKINNRIADKAFYQQPDA 151 >2pml_X PFPK7, Ser/Thr protein kinase; phosphorylation, transferase; HET: ANP; 2.60A {Plasmodium falciparum} PDB: 2pmn_X* 2pmo_X* Length = 348 Score = 25.5 bits (55), Expect = 7.9 Identities = 7/59 (11%), Positives = 19/59 (32%) Query: 109 SGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167 A+ + + L KS +++ +S + E+ + I + + Sbjct: 53 DNKFYALKKYEKSLLEKKRDFTKSNNDKISIKSKYDDFKNELQIITDIKNEYCLTCEGI 111 >1efp_A ETF, protein (electron transfer flavoprotein); electron transport, glutaric acidemia type II; HET: FAD AMP; 2.60A {Paracoccus denitrificans} SCOP: c.26.2.3 c.31.1.2 Length = 307 Score = 25.2 bits (55), Expect = 8.5 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 3/34 (8%) Query: 35 EQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68 Q +AGMK ++A +KD+ P+ + D G Sbjct: 261 IQHLAGMKDSKVIVAINKDEEA---PIFQIADYG 291 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 0.315 0.129 0.348 Gapped Lambda K H 0.267 0.0469 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,456,529 Number of extensions: 63797 Number of successful extensions: 192 Number of sequences better than 10.0: 1 Number of HSP's gapped: 192 Number of HSP's successfully gapped: 15 Length of query: 188 Length of database: 5,693,230 Length adjustment: 87 Effective length of query: 101 Effective length of database: 3,584,002 Effective search space: 361984202 Effective search space used: 361984202 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: 41 (21.6 bits) S2: 54 (25.2 bits)