RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780740|ref|YP_003065153.1| peptidase S16 lon domain protein [Candidatus Liberibacter asiaticus str. psy62] (221 letters) >3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, cytoplasm, hydrolase, nucleotide-B protease, serine protease, stress response; 2.60A {Bacillus subtilis} Length = 209 Score = 122 bits (307), Expect = 6e-29 Identities = 33/198 (16%), Positives = 76/198 (38%), Gaps = 4/198 (2%) Query: 12 EDLPCLLPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANS 71 E+L +P+ PL G+L+ P V + + + + D +I L Sbjct: 3 EELKRSIPLLPLRGLLVYPTMVLHLDVGRDKSVQALEQAMMHDHMIFLATQQDISIDEPG 62 Query: 72 DNGLSQIGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAG 131 ++ + +G +I ++ +G + V G+ R +++ + D Sbjct: 63 EDEIFTVGTYTKIKQMLKLPNGTIRVLVEGLKRAHIVKYNEHEDYTSVDIQLIHEDDSKD 122 Query: 132 NDNDGVDRVALLEVFRNYLTVNN---LDADWESIEEASNEILVNSLAMLSPFSEEEKQAL 188 +++ + R LL+ F Y+ ++ + + + + +A P ++KQ + Sbjct: 123 TEDEALMR-TLLDHFDQYIKISKKISAETYAAVTDIEEPGRMADIVASHLPLKLKDKQDI 181 Query: 189 LEAPDFRARAQTLIAIMK 206 LE D + R +I + Sbjct: 182 LETADVKDRLNKVIDFIN 199 >3ljc_A ATP-dependent protease LA; LON N-domain, allosteric enzyme, ATP-binding, DNA-binding, H nucleotide-binding, serine protease, stress respo; 2.60A {Escherichia coli} Length = 252 Score = 104 bits (261), Expect = 1e-23 Identities = 38/194 (19%), Positives = 79/194 (40%), Gaps = 8/194 (4%) Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQ 77 +P+ PL +++ P V + I ++ + D+ I LV + N L Sbjct: 18 IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 77 Query: 78 IGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAGNDNDGV 137 +G + I ++ DG + V G+ R R+ + + + + + + Sbjct: 78 VGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESPTIDEREQEVL 137 Query: 138 DRVALLEVFRNYLTVNN-----LDADWESIEEASNEILVNSLAMLSPFSEEEKQALLEAP 192 R + F Y+ +N + SI++ + L +++A P +KQ++LE Sbjct: 138 VR-TAISQFEGYIKLNKKIPPEVLTSLNSIDDPAR--LADTIAAHMPLKLADKQSVLEMS 194 Query: 193 DFRARAQTLIAIMK 206 D R + L+A+M+ Sbjct: 195 DVNERLEYLMAMME 208 >1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural genomics, PSI, protein structure initiative; 2.60A {Bordetella parapertussis 12822} SCOP: b.122.1.10 Length = 210 Score = 87.7 bits (216), Expect = 2e-18 Identities = 37/195 (18%), Positives = 61/195 (31%), Gaps = 9/195 (4%) Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDN--GL 75 +P+FPL L P VFE RY+ M +A G+V + D L Sbjct: 4 IPLFPL-SNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVL 62 Query: 76 SQIGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAGNDND 135 ++ G + RI + + G RFRL P D Sbjct: 63 ARAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPLEVPP 122 Query: 136 GVDRVA-----LLEVFRNYLTVNNLDADWESIEEASNEILVNSLAMLSPFSEEEKQALLE 190 + R A L+ + ++ + + A + +K LL Sbjct: 123 ELARSASALGRLIARLQREGVPPHIMPMAAPFRLDDCGWVADRWAEMLSLPPADKARLLL 182 Query: 191 APDFRARAQTLIAIM 205 P R + + A++ Sbjct: 183 LPP-LDRLREIDAVL 196 >2ane_A ATP-dependent protease LA; LONN119, LON protease, hydrolase; 2.03A {Escherichia coli} SCOP: b.122.1.10 Length = 125 Score = 65.6 bits (159), Expect = 8e-12 Identities = 20/93 (21%), Positives = 38/93 (40%) Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQ 77 +P+ PL +++ P V + I ++ + D+ I LV + N L Sbjct: 18 IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 77 Query: 78 IGCIGRITSFVETDDGHYIMTVIGVCRFRLLEE 110 +G + I ++ DG + V G+ R R+ Sbjct: 78 VGTVASILQMLKLPDGTVKVLVEGLQRARISAL 110 >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 = 41.5 bits (97), Expect = 1e-04 Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 19/96 (19%) Query: 125 FISDLAGNDNDG----VDRVALLEVFRNYLTVNN-------LDADWESIEEASNEIL--- 170 ++S L G V + L E YL N+ L + ++ + E++ Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126 Query: 171 VNSLAML-SPFSEEEKQALLE-APDFRARAQTLIAI 204 + + M PF ++ AL + A+ L+AI Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQ---LVAI 159 Score = 38.4 bits (89), Expect = 0.001 Identities = 51/304 (16%), Positives = 83/304 (27%), Gaps = 135/304 (44%) Query: 9 KNREDLP---CLL--PI-FPLLGMLLL-------------PG---SRFS----------F 36 +N + P LL PI PL+G++ L PG S Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT 279 Query: 37 SVFERRYIAMFDS--------VLAGDRL--IGL----------VQPAISGFLANS-DNG- 74 +V IA DS A L IG+ + P+I L +S +N Sbjct: 280 AVA----IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI---LEDSLENNE 332 Query: 75 ------LSQIGC-IGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQL-----NSWRCFYI 122 LS ++ +V + H L Q+ N + + Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSH-------------LPAGKQVEISLVNGAKNLVV 379 Query: 123 A-PFISDLAG-NDN-------DGVD--RVALLE---VFRN------------YLTVNNLD 156 + P S L G N G+D R+ E F N L Sbjct: 380 SGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV----P 434 Query: 157 ADWESIEE----ASNEILVNSLAMLSP-FSEEEKQALLEAPDFRARAQTLIAIMKIVLAR 211 A + I + + + + P + + D R + ++ + Sbjct: 435 AS-DLINKDLVKNNVSFNAKDIQI--PVYDTFDGS------DLRVLSGSISER----IVD 481 Query: 212 AYTH 215 Sbjct: 482 CIIR 485 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 34.6 bits (78), Expect = 0.017 Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 7/30 (23%) Query: 184 EKQAL--LEAP-----DFRARAQTLIAIMK 206 EKQAL L+A D A A + A M+ Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47 >2iw5_B Protein corest, REST corepressor 1; oxidoreductase/transcription regulator, oxidoreductase/repressor complex, histone demethylase; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2v1d_B* Length = 235 Score = 29.0 bits (64), Expect = 0.88 Identities = 7/42 (16%), Positives = 19/42 (45%), Gaps = 2/42 (4%) Query: 178 SPFSEEEKQALLEAPDFRARAQTLIAIMKIVLARAYTHCENR 219 + ++ EE+ ++A R + AI ++ ++ +N Sbjct: 134 ARWTTEEQLLAVQA--IRKYGRDFQAISDVIGNKSVVQVKNF 173 >1tlj_A Hypothetical UPF0130 protein SSO0622; midwest center for structural genomics, PSI, protein structure initiative, MCSG; 2.80A {Sulfolobus solfataricus} SCOP: d.282.1.1 Length = 213 Score = 28.3 bits (63), Expect = 1.6 Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 11/62 (17%) Query: 43 YIAMFD-------SVLAGDRLIGLVQPAISGFLANSDNGLSQI----GCIGRITSFVETD 91 ++ +++ + + D+ IG + P I GFL + + C GRIT Sbjct: 2 HMLVWEELREKALNKIYHDKEIGYLDPDILGFLLAFYRNRNDVYTQSSCSGRITIVDAEM 61 Query: 92 DG 93 Sbjct: 62 PW 63 >1v5e_A Pyruvate oxidase; oxidoreductase, flavoprotein; HET: FAD; 1.60A {Aerococcus viridans} SCOP: c.31.1.3 c.36.1.5 c.36.1.9 PDB: 2dji_A* 1v5f_A* 1v5g_A* Length = 590 Score = 27.0 bits (58), Expect = 3.6 Identities = 17/119 (14%), Positives = 33/119 (27%), Gaps = 6/119 (5%) Query: 79 GCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLA-GNDNDGV 137 I + E + + + + EA + I +A + Sbjct: 468 TEYAFIKNKYEDTNKNLFGVDFTDVDYAKIAEAQGAKGFTVSRIEDMDRVMAEAVAANKA 527 Query: 138 DRVALLEVFRNY-----LTVNNLDADWESIEEASNEILVNSLAMLSPFSEEEKQALLEA 191 +++ + LD+ S +E A L PF E + LE+ Sbjct: 528 GHTVVIDCKITQDRPIPVETLKLDSKLYSEDEIKAYKERYEAANLVPFREYLEAEGLES 586 >3c5o_A UPF0311 protein RPA1785; beta-barrels, structural genomics, PSI-2, protein structure initiative; 2.20A {Rhodopseudomonas palustris CGA009} Length = 157 Score = 26.0 bits (57), Expect = 6.4 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 4/56 (7%) Query: 41 RRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQIGCIGRITSFVETDDGHYI 96 RR I + + G+ + G V P + F N L ++ ETDDG + Sbjct: 33 RRIIPILGGEVKGEGISGQVLPFGADFQIIRPNELIELEA----KYAFETDDGAVV 84 >2dvk_A UPF0130 protein APE0816; hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.80A {Aeropyrum pernix} Length = 188 Score = 25.5 bits (56), Expect = 8.5 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%) Query: 44 IAMFDSVLAGDRLIGLVQPAISGFLA--NSDNGL-SQIGCIGRITSFVETDDGH 94 + + VL +RLIG + P LA N + + S C GRIT Sbjct: 1 MGSIEEVLLEERLIGYLDPGAEKVLARINRPSKIVSTSSCTGRITLIEGEAHWL 54 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 0.325 0.141 0.417 Gapped Lambda K H 0.267 0.0497 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,919,230 Number of extensions: 85470 Number of successful extensions: 320 Number of sequences better than 10.0: 1 Number of HSP's gapped: 315 Number of HSP's successfully gapped: 14 Length of query: 221 Length of database: 5,693,230 Length adjustment: 89 Effective length of query: 132 Effective length of database: 3,535,514 Effective search space: 466687848 Effective search space used: 466687848 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 (21.6 bits) S2: 55 (25.5 bits)