RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781141|ref|YP_003065554.1| hypothetical protein CLIBASIA_05225 [Candidatus Liberibacter asiaticus str. psy62] (196 letters) >2wb6_A AFV1-102; archaeal virus, viral protein; 1.95A {Acidianus filamentous virus 1} Length = 130 Score = 35.5 bits (81), Expect = 0.008 Identities = 31/113 (27%), Positives = 52/113 (46%), Gaps = 9/113 (7%) Query: 70 LDSEILEKKLIAENQQLEHLFPQTKDPAQRENFFKNLFRIGNILGFQKEE---MVDITDH 126 L+S L KK +EN + + + K F ++F + LG E+ M+ ++ Sbjct: 11 LESTSLYKKAGSENLYFQGIVDKNKIVIPMSEFLDSMFLVIEKLGVHAEKKGSMIFLSSE 70 Query: 127 RLLSLAYYAQIGLQSQKLSEDAYH-KIRHKPFVNITTNKAKNHRRITSQEKAI 178 R + LA + Q+G + D YH K+ F+ I T KAK+ + EK + Sbjct: 71 R-VKLADWKQLG----AMCSDCYHCKLPLSSFIEIVTRKAKDKFLVMYNEKEV 118 >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 = 34.2 bits (77), Expect = 0.019 Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 15/38 (39%) Query: 2 QNQA-KILAQSAEALAQLINHHIPDDSSP------TLE 32 + QA K L S + A DDS+P T+E Sbjct: 18 EKQALKKLQASLKLYA--------DDSAPALAIKATME 47 Score = 30.7 bits (68), Expect = 0.22 Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 6/25 (24%) Query: 175 EK-AIQKLYQTGSLY--DS---LEI 193 EK A++KL + LY DS L I Sbjct: 18 EKQALKKLQASLKLYADDSAPALAI 42 >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 = 33.8 bits (77), Expect = 0.029 Identities = 30/164 (18%), Positives = 48/164 (29%), Gaps = 74/164 (45%) Query: 11 SAEALAQLI---NHHIPDDSSPTLEKTYPETYHRIRYLRQKALNIIN---HFVETG---- 60 + E + + N H+P +Q ++++N + V +G Sbjct: 345 TQEQVQDYVNKTNSHLPAG-------------------KQVEISLVNGAKNLVVSGPPQS 385 Query: 61 --------RNPDNIAKELD-SEIL--EKKLIAENQQL--------EHLFPQT----KDPA 97 R LD S I E+KL N+ L L P + KD Sbjct: 386 LYGLNLTLRKAKA-PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV 444 Query: 98 QRENFFK-NLFRI---------------GNILGFQKEEMVD-IT 124 + F +I G+I E +VD I Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS----ERIVDCII 484 Score = 31.5 bits (71), Expect = 0.13 Identities = 33/163 (20%), Positives = 49/163 (30%), Gaps = 56/163 (34%) Query: 14 ALAQLINHHIPDDSSPTLEK------TYPETYHRIRYLRQKALNIINH--F--VETGR-- 61 ALA + ++ TL K Y ++ N F V G Sbjct: 103 ALA----AKLLQENDTTLVKTKELIKNY---ITARIMAKRPFDKKSNSALFRAVGEGNAQ 155 Query: 62 ---------NPDNIAKELDSEI------LEKKLIAENQQLEHLFPQTKDPAQRENFF-KN 105 N D+ +EL ++ L LI + E L + E F + Sbjct: 156 LVAIFGGQGNTDDYFEEL-RDLYQTYHVLVGDLIKFSA--ETLSELIRTTLDAEKVFTQG 212 Query: 106 LFRIGNILGF-QKEEMVDITDHRLLS------------LAYYA 135 L NIL + + D+ LLS LA+Y Sbjct: 213 L----NILEWLENPSNTPDKDY-LLSIPISCPLIGVIQLAHYV 250 Score = 29.9 bits (67), Expect = 0.35 Identities = 25/99 (25%), Positives = 37/99 (37%), Gaps = 36/99 (36%) Query: 58 ETGR--------NPDNIAKELDSEILE-------KK---LI------AENQQLEHLFPQT 93 E GR NP +A E L+ K+ L+ ENQQ + Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ----YVAA 1856 Query: 94 KDPAQRENFFKNLFRIGNILGFQKEEMVDITD-HRLLSL 131 D + L + N+L F K + +DI + + LSL Sbjct: 1857 GD-------LRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888 Score = 26.1 bits (57), Expect = 5.2 Identities = 30/150 (20%), Positives = 44/150 (29%), Gaps = 75/150 (50%) Query: 7 ILAQSAEALAQLINHHIPDDSSPTLEKTYPETYHRIRYLRQKALNIINHFVETGRNPDNI 66 ++ SAE L++LI D+ EK + + LNI+ NP Sbjct: 187 LIKFSAETLSELI--RTTLDA----EKVFT-----------QGLNILEWL----ENPS-- 223 Query: 67 AKELDSEILEKK--------LIAENQQLEHLFPQT-----KDPAQ-R------------- 99 D + L +I QL H + T P + R Sbjct: 224 -NTPDKDYLLSIPISCPLIGVI----QLAH-YVVTAKLLGFTPGELRSYLKGATGHSQGL 277 Query: 100 ------------ENFFKN-------LFRIG 110 E+FF + LF IG Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIG 307 >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 = 31.7 bits (71), Expect = 0.11 Identities = 36/156 (23%), Positives = 61/156 (39%), Gaps = 57/156 (36%) Query: 44 YLRQKALNIINHFVETG-RNPDNIAKELDSEILEKKLIAENQQLEH-LFPQTKDPAQREN 101 ++ AL I+N + G RN DN+ K ILE Q E+ L+P Sbjct: 1392 WMMNGALQILNSGIIPGNRNADNVDK-----ILE--------QFEYVLYPS--------- 1429 Query: 102 FFKNLFRIGNILGFQKEEMVDITDHRLLSLAYYA--QIGLQSQKLSED----AYHKIRHK 155 K L K + V R +S+ + Q G Q+ + D A + R+ Sbjct: 1430 --KTL----------KTDGV-----RAVSITSFGFGQKGGQAIVVHPDYLYGAITEDRYN 1472 Query: 156 PFVNITTNKAKNHRRITSQEKAIQKLYQTGSLYDSL 191 +V +++++EK+ K + G +Y+ L Sbjct: 1473 EYV----------AKVSAREKSAYKFFHNGMIYNKL 1498 Score = 28.6 bits (63), Expect = 1.0 Identities = 32/137 (23%), Positives = 49/137 (35%), Gaps = 46/137 (33%) Query: 27 SSPTLEKTYPETYHRIRYLRQKALNIINHFVETGRNPDNIAKELDSEILEKKLIAENQQL 86 +SP L Y R R L + I D + EL++ LE + I Q Sbjct: 1240 ASPNLNMKY-----RKRQLVTREAQI----------KDWVENELEALKLEAEEIPSEDQN 1284 Query: 87 EHLFPQTKD----------PAQRE---NFFKNLFRIGNILGFQKEEMVDITDHRLLSLAY 133 E L +T++ AQ++ +F+K RI + G +LA Sbjct: 1285 EFLLERTREIHNEAESQLRAAQQQWGNDFYKRDPRIAPLRG---------------ALAT 1329 Query: 134 YAQIGLQSQKLSEDAYH 150 Y GL L ++H Sbjct: 1330 Y---GLTIDDLGVASFH 1343 >2dwu_A Glutamate racemase; isomerase; HET: DGL; 1.60A {Bacillus anthracis} Length = 276 Score = 27.4 bits (60), Expect = 2.1 Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 7/81 (8%) Query: 44 YLRQKALNIINHFVETGRNPDNIAKELDSEILEKKLIAENQQLEHLFPQTKDPAQRENFF 103 L + V + + A EL + + K ++A+N +H F T + F Sbjct: 193 LLESYIKKELGEDVTIISSAEETAIELSTILQHKGILADNLNPKHRFFTTGSVSS----F 248 Query: 104 KNLFRIGNILGFQKE-EMVDI 123 +++ LG+Q + VD+ Sbjct: 249 EHIAER--WLGYQISVDCVDL 267 >2fl8_A Baseplate structural protein GP10; bacteriophage T4, tail, evolution, structural comparisons, virus/viral protein complex; 1.20A {Enterobacteria phage T4} PDB: 2fl9_A Length = 602 Score = 26.0 bits (57), Expect = 5.1 Identities = 15/84 (17%), Positives = 27/84 (32%), Gaps = 17/84 (20%) Query: 109 IGNILGFQKEEMVDITDHRLLSLAYYAQIGLQSQKLSEDAYHKIRH----KPFVNITTNK 164 +G +L K+E++D TD+ +S Q D + K Sbjct: 390 LGTLL--TKDEIIDETDNLYVS-----------QGPGVDISGDVNLTDFDKIGWPNVEAV 436 Query: 165 AKNHRRITSQEKAIQKLYQTGSLY 188 R + +Y G++Y Sbjct: 437 QSYQREFNAVSNIFDTIYPIGTIY 460 >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 Score = 25.5 bits (55), Expect = 7.6 Identities = 12/54 (22%), Positives = 23/54 (42%) Query: 12 AEALAQLINHHIPDDSSPTLEKTYPETYHRIRYLRQKALNIINHFVETGRNPDN 65 AEA+ QL+ + L + R +K L ++ F+++G P+ Sbjct: 458 AEAIQQLLKELDLEALEKELLEEMKHPSRARRAKARKRLEVVRAFLDSGNRPEW 511 >3nz2_A Hexapeptide-repeat containing-acetyltransferase; structural genomics, center for structural genomics of infec diseases, csgid; HET: ACO; 2.35A {Vibrio cholerae o1 biovar eltor} PDB: 3ect_A* Length = 195 Score = 25.7 bits (56), Expect = 8.1 Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 3/42 (7%) Query: 71 DSEILEKKLIAENQQLEHLFPQTKDPAQRENFFKNLF-RIGN 111 +EI + A +L+ Q+ D A+R + LF +G+ Sbjct: 22 SAEIEALRSQA--GRLKLEINQSLDEAERYALQRELFGHLGH 61 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 0.317 0.133 0.369 Gapped Lambda K H 0.267 0.0686 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,642,274 Number of extensions: 74650 Number of successful extensions: 278 Number of sequences better than 10.0: 1 Number of HSP's gapped: 277 Number of HSP's successfully gapped: 26 Length of query: 196 Length of database: 5,693,230 Length adjustment: 87 Effective length of query: 109 Effective length of database: 3,584,002 Effective search space: 390656218 Effective search space used: 390656218 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 (21.7 bits) S2: 54 (24.7 bits)