RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780791|ref|YP_003065204.1| exodeoxyribonuclease VII large subunit [Candidatus Liberibacter asiaticus str. psy62] (529 letters) >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} (A:1-326) Length = 326 Score = 39.0 bits (90), Expect = 0.001 Identities = 27/205 (13%), Positives = 67/205 (32%), Gaps = 67/205 (32%) Query: 236 IANSSIPIISAIGHETDWTLADYAADL--RAPTPTG--AAEMAVPVKEHLQSSLINLEAR 291 I ++P++ L++ ++ ++ + TG AA A+ + + +S+ +A Sbjct: 145 IQEKALPLL----------LSNPPRNMIGQSQSGTGKTAA-FALTMLSRVDASVPKPQAI 193 Query: 292 LNNIIIRLIKYKINTLNSLLKALPNSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYR--- 348 L + ++ + + K + + D +P+ + + +I+I Sbjct: 194 CLAPSRELARQIMDVVTEMGKYTE-----VKTAFGIKDSVPKGAKIDAQIVIGTPGTVMD 248 Query: 349 ---------------------------HFNHIINRIKSDFLIHNIQKNRQHIL------E 375 RI H + +N Q +L E Sbjct: 249 LMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRI-----KHLLPRNTQIVLFSATFSE 303 Query: 376 KQQHIEQIVKQHLR---YIFLEKKE 397 + +E+ ++ I L+ +E Sbjct: 304 R---VEKYAERFAPNANEIRLKTEE 325 >1sg6_A Pentafunctional AROM polypeptide; shikimate pathway, aromatic amino acid biosynthesis, DHQS, open form, form J, domain movement, cyclase; HET: NAD; 1.70A {Emericella nidulans} (A:1-181) Length = 181 Score = 34.4 bits (78), Expect = 0.033 Identities = 20/161 (12%), Positives = 42/161 (26%), Gaps = 16/161 (9%) Query: 91 KITTFPGSSKYQIIIESLIPSGSGTLLTALEKRKKKLLEEGLFSDQHKNPIPFIPKIIAV 150 T + II + + + + L +D + Sbjct: 3 NPTKISILGRESIIADFGLWRNYVAKDLISDCSSTTYV---LVTDTN------------- 46 Query: 151 ITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKEGRTCPRPD 210 I S + ++ + + E K + + D Sbjct: 47 IGSIYTPSFEEAFRKRAAEITPSPRLLIYNRPPGEVSKSRQTKADIEDWMLSQNPPCGRD 106 Query: 211 IIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHET 251 +++A GGG I DL F +R + +P ++ Sbjct: 107 TVVIALGGGVIGDLTGFVASTYMRGVRYVQVPTTLLAMVDS 147 >2hpi_A DNA polymerase III alpha subunit; POL-beta-like nucleotidyltransferase fold; HET: DNA; 3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A* (A:1024-1128) Length = 105 Score = 32.1 bits (73), Expect = 0.19 Identities = 15/100 (15%), Positives = 40/100 (40%), Gaps = 8/100 (8%) Query: 14 EYSVSELSYHLKHIVESNLSHVCVRGEISGYRGIHS-SGH--AYFSLKDNHSRIDAIIWK 70 ++ ELS ++ + V + G + + SG A F+L D ++ +++ Sbjct: 3 SCTIEELSEFVRELPGK--PKVLLSGMVEEVVRKPTRSGGMMARFTLSDETGALEVVVFG 60 Query: 71 GTLNKIEFLPEEGIEFLVIGKITTFPGSSKYQIIIESLIP 110 + +E I LV+ ++ +++ +++ Sbjct: 61 RAYEGVSPKLKEDIPLLVLAEVEKGEE---LRVLAQAVWT 97 >1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} (A:160-248) Length = 89 Score = 31.6 bits (72), Expect = 0.24 Identities = 11/74 (14%), Positives = 21/74 (28%), Gaps = 2/74 (2%) Query: 33 SHVCVRGEISGYRGIHSSGH--AYFSLKDNHSRIDAIIWKGTLNKIEFLPEEGIEFLVIG 90 V +G+I L D + + + G E V G Sbjct: 7 EKVTTQGKIVSVETKKFQNMNILTAVLSDGLVHVPLKWFNQDYLQTYLKQLTGKEVFVTG 66 Query: 91 KITTFPGSSKYQII 104 + + + +Y+I Sbjct: 67 TVKSNAYTGQYEIH 80 >3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB: 3f2c_A* 3f2d_A* (A:1-110) Length = 110 Score = 31.3 bits (71), Expect = 0.31 Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 5/81 (6%) Query: 35 VCVRGEISGYRGIHS-SGH--AYFSLKDNHSRIDAIIWKGTLNKIEFLP--EEGIEFLVI 89 V V+G + SG + D + I ++ E + ++G+ V Sbjct: 20 VVVQGYVFDAEVSELKSGRTLLTMKITDYTNSILVKMFSRDKEDAELMSGVKKGMWVKVR 79 Query: 90 GKITTFPGSSKYQIIIESLIP 110 G + II L Sbjct: 80 GSVQNDTFVRDLVIIANDLNE 100 >2z7x_B TOLL-like receptor 1, variable lymphocyte receptor B; TLR2, TLR1, lipopeptide, innate immunity, glycoprotein, immune response, inflammatory response, leucine-rich repeat, membrane; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} (B:1-484) Length = 484 Score = 31.1 bits (68), Expect = 0.33 Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 4/54 (7%) Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQH 372 + S+ L +P++L I+ N+I SD L + + Sbjct: 3 FLVDRSKNGLIHVPKDLSQKTTILNI----SQNYISELWTSDILSLSKLRILII 52 >1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* (A:) Length = 680 Score = 30.0 bits (65), Expect = 0.67 Identities = 7/69 (10%), Positives = 20/69 (28%), Gaps = 6/69 (8%) Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILEKQQ 378 + CS +L ++P +L N+ ++ N + + + Sbjct: 7 EVADCSHLKLTQVPDDLPTNITVLNL----THNQLRRLP--AANFTRYSQLTSLDVGFNT 60 Query: 379 HIEQIVKQH 387 + + Sbjct: 61 ISKLEPELC 69 >2z63_A TOLL-like receptor 4, variable lymphocyte receptor B; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} (A:1-534) Length = 534 Score = 29.7 bits (64), Expect = 0.82 Identities = 7/53 (13%), Positives = 16/53 (30%), Gaps = 4/53 (7%) Query: 316 NSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQK 368 + T C ++P L + + + FN + + F + Sbjct: 7 VPNITYQCMELNFYKIPDNLPFSTKNLDL----SFNPLRHLGSYSFFSFPELQ 55 >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} (A:1221-1330,A:1541-1688) Length = 258 Score = 29.5 bits (66), Expect = 1.0 Identities = 15/115 (13%), Positives = 32/115 (27%), Gaps = 30/115 (26%) Query: 321 LSCSRYRL--DRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILE--- 375 L+ +R + L + KYR + + I+ ++ LE Sbjct: 7 LTTAREHHSSVKYASPN---LNM----KYR-------KRQLVTREAQIKDWVENELEALK 52 Query: 376 ------KQQHIEQIVKQHLRYIFLEKKEKIA-ILHMLREQTKNRIFYLHTHIKKL 423 + + + + R I E + ++ N + I L Sbjct: 53 LEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQW----GNDFYKRDPRIAPL 103 Score = 26.8 bits (59), Expect = 7.3 Identities = 11/79 (13%), Positives = 27/79 (34%), Gaps = 9/79 (11%) Query: 348 RHFNHIINRIKSDFLIHNIQKNRQHILEKQQHIEQIVKQHLRYIFLEKKEKIAILHMLRE 407 R +H + S L N++ ++ ++ ++ I+ V+ L + K + + E Sbjct: 11 RE-HHSSVKYASPNL--NMKYRKRQLVTREAQIKDWVENELEAL----KLEAE--EIPSE 61 Query: 408 QTKNRIFYLHTHIKKLITR 426 + I Sbjct: 62 DQNEFLLERTREIHNEAES 80 >3clh_A 3-dehydroquinate synthase; shikimate pathway, aromatic amino acid biosynthesis, DHQS, amino-acid biosynthesis, cytoplasm, lyase, NAD; HET: NAD; 2.40A {Helicobacter pylori} (A:1-160) Length = 160 Score = 29.7 bits (66), Expect = 1.0 Identities = 22/109 (20%), Positives = 37/109 (33%), Gaps = 15/109 (13%) Query: 148 IAVITSPT-----GAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKE 202 +I+ + + L+ +RV + E K + LN E Sbjct: 29 ALIISDSIVAGLHLPYLLERLKA----LEVRVCVIE----SGEKYKNFHSLERILNNAFE 80 Query: 203 GRTCPRPDIIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHET 251 + R ++I A GGG I D+ F + R I +IP + Sbjct: 81 MQ-LNRHSLMI-ALGGGVISDMVGFASSIYFRGIDFINIPTTLLAQVDA 127 >2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte receptor B; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic vesicle; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 2z7x_A* (A:1-513) Length = 513 Score = 28.5 bits (61), Expect = 2.1 Identities = 5/52 (9%), Positives = 12/52 (23%), Gaps = 12/52 (23%) Query: 306 TLNSLLKALPNSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRI 357 + ++ +P L ++ + FN I Sbjct: 3 SCDAS--------GVCDGRSRSFTSIPSGLTAAMKSLDL----SFNKITYIG 42 >3g23_A Peptidase U61, LD-carboxypeptidase A; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.89A {Novosphingobium aromaticivorans DSM12444} (A:1-155,A:263-274) Length = 167 Score = 28.3 bits (63), Expect = 2.2 Identities = 14/93 (15%), Positives = 28/93 (30%), Gaps = 7/93 (7%) Query: 148 IAVITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKE---IANAILQ-LNTLKEG 203 IA+ +P+ R+ R+ + ++C A + L+ E Sbjct: 6 IAIC-APSTPFTREDSARVIALAAAEFPDLSLSF-HEQCFASEGHFAGSDALRLSAFLEC 63 Query: 204 RTCPRPDIIILARGG-GSIEDLWHFNDEMIVRA 235 + + RGG G+ + A Sbjct: 64 ANDDAFEAVWFVRGGYGANRIAEDALARLGRAA 96 >1xah_A Sadhqs, 3-dehydroquinate synthase; shikimate pathway, aromatic amino acid biosynthesis, open form, form B, domain movement, cyclase; HET: NAD; 2.20A {Staphylococcus aureus} PDB: 1xag_A* 1xai_A* 1xaj_A* 1xal_A* (A:1-165) Length = 165 Score = 27.0 bits (59), Expect = 6.3 Identities = 13/106 (12%), Positives = 28/106 (26%), Gaps = 5/106 (4%) Query: 148 IAVITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKEGRTCP 207 ++ V + + + + G++ + Sbjct: 34 SFLLIDEY--VNQYFANKFDDILSYENVHKVIIPAGEKTKTF--EQYQETLEYILSHHVT 89 Query: 208 RPDIIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHETDW 253 R II A GGG+ D F ++R + +P + Sbjct: 90 RNTAII-AVGGGATGDFAGFVAATLLRGVHFIQVPTTILAHDSSVG 134 >3l39_A Putative PHOU-like phosphate regulatory protein; BT4638, structural genomics, joint center for structural genomics, JCSG; 1.93A {Bacteroides thetaiotaomicron} (A:) Length = 227 Score = 26.7 bits (58), Expect = 6.7 Identities = 18/151 (11%), Positives = 43/151 (28%), Gaps = 1/151 (0%) Query: 279 EHLQSSLINLEARLNNIIIRLIKYKINTLNSLLKALPNSDQTLSCSRY-RLDRLPRELEH 337 S E + ++ +L + L++++ + T Y ++ + RE + Sbjct: 15 NSFFSKFTPKEPKFFPLLKQLSDVLSASSVLLVESMEHDLPTERADYYKQIKDMEREGDR 74 Query: 338 NLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILEKQQHIEQIVKQHLRYIFLEKKE 397 +I F +R L + I + I + + E Sbjct: 75 LTHLIFDELSTTFITPFDREDIHDLASCMDDVIDGINSSAKRIVIYNPRPISESGKELSR 134 Query: 398 KIAILHMLREQTKNRIFYLHTHIKKLITRIE 428 I + + + + + K L Sbjct: 135 LIHEEAINIGKAMDELETFRKNPKPLRDYCT 165 >2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein, membrane protein; HET: NAG MAN; 2.70A {Homo sapiens} (A:1-375) Length = 375 Score = 26.7 bits (57), Expect = 6.8 Identities = 6/35 (17%), Positives = 12/35 (34%), Gaps = 4/35 (11%) Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHI 353 + + C R R +P + ++ N I Sbjct: 14 RAVLCHRKRFVAVPEGIPTETRLLDL----GKNRI 44 >1pq4_A Periplasmic binding protein component of AN ABC type zinc uptake transporter; ZNUA, loop, metal-binding, metal binding protein; 1.90A {Synechocystis SP} (A:189-270) Length = 82 Score = 26.6 bits (59), Expect = 8.9 Identities = 5/39 (12%), Positives = 13/39 (33%) Query: 380 IEQIVKQHLRYIFLEKKEKIAILHMLREQTKNRIFYLHT 418 I+ + +L +F E + + + + L Sbjct: 42 IDTAKENNLTMVFGETQFSTKSSEAIAAEIGAGVELLDP 80 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.321 0.137 0.398 Gapped Lambda K H 0.267 0.0504 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 3,991,772 Number of extensions: 188029 Number of successful extensions: 596 Number of sequences better than 10.0: 1 Number of HSP's gapped: 595 Number of HSP's successfully gapped: 43 Length of query: 529 Length of database: 4,956,049 Length adjustment: 93 Effective length of query: 436 Effective length of database: 1,812,184 Effective search space: 790112224 Effective search space used: 790112224 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: 57 (26.3 bits)