RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780796|ref|YP_003065209.1| ribonuclease H [Candidatus Liberibacter asiaticus str. psy62] (152 letters) >gnl|CDD|178927 PRK00203, rnhA, ribonuclease H; Reviewed. Length = 150 Score = 252 bits (647), Expect = 2e-68 Identities = 87/146 (59%), Positives = 111/146 (76%) Query: 6 LREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKY 65 +++V YTDGAC GNPGPGGWG +LRYKG EK +SGGE TTNNRMELMAAI+AL ALK Sbjct: 1 MKQVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGGEALTTNNRMELMAAIEALEALKE 60 Query: 66 PCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWI 125 PC+V LYTDS YV +G ++WI W++NGWKT+DKK VKN+DLW + A +H++ +W+ Sbjct: 61 PCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKWHWV 120 Query: 126 KGHAGNQENEKVDRIARNAAVSFKNK 151 KGHAG+ ENE+ D +AR A + Sbjct: 121 KGHAGHPENERCDELARAGAEEATLE 146 >gnl|CDD|169558 PRK08719, PRK08719, ribonuclease H; Reviewed. Length = 147 Score = 84.9 bits (210), Expect = 8e-18 Identities = 39/101 (38%), Positives = 61/101 (60%), Gaps = 2/101 (1%) Query: 46 TTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNI 105 T N +EL+A I+AL + ++Y+DS Y +GF++W+ W+Q GW+ SDKK V N Sbjct: 48 TDNAELELLALIEALEYARD--GDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANR 105 Query: 106 DLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAV 146 DLW + E A+ V++ + H+G + NE D +A+ AA Sbjct: 106 DLWQQVDELRARKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 >gnl|CDD|75628 PRK06548, PRK06548, ribonuclease H; Provisional. Length = 161 Score = 77.5 bits (190), Expect = 1e-15 Identities = 46/145 (31%), Positives = 72/145 (49%), Gaps = 4/145 (2%) Query: 8 EVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPC 67 E+ A TDG+ NPGP GW Y + SGG TNN EL A + L A ++ Sbjct: 5 EIIAATDGSSLANPGPSGWA---WYVDENTWDSGGWDIATNNIAELTAVRELLIATRHTD 61 Query: 68 K-VLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIK 126 + +L+ +DS YV ++W+ W+ W+ +D K V N ++ + + + W+ Sbjct: 62 RPILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVN 121 Query: 127 GHAGNQENEKVDRIARNAAVSFKNK 151 H G+ NE D +AR AA +F + Sbjct: 122 AHTGHPLNEAADSLARQAANNFSTR 146 >gnl|CDD|139967 PRK13907, rnhA, ribonuclease H; Provisional. Length = 128 Score = 39.6 bits (92), Expect = 3e-04 Identities = 41/143 (28%), Positives = 61/143 (42%), Gaps = 27/143 (18%) Query: 9 VHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCK 68 + Y DGA GNPGP G GV ++ +S +N+ E A L ALKY + Sbjct: 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHA---LLAALKYCTE 58 Query: 69 -----VLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQH--KVD 121 V TDS V + +K+ KN ++ +E + Q+ D Sbjct: 59 HNYNIVSFRTDSQLVERAV---------------EKEYAKN-KMFAPLLEEALQYIKSFD 102 Query: 122 LYWIKGHAGNQENEKVDRIARNA 144 L++IK +Q N+ D +AR A Sbjct: 103 LFFIKWIPSSQ-NKVADELARKA 124 >gnl|CDD|180903 PRK07238, PRK07238, bifunctional RNase H/acid phosphatase; Provisional. Length = 372 Score = 33.4 bits (77), Expect = 0.021 Identities = 42/154 (27%), Positives = 61/154 (39%), Gaps = 39/154 (25%) Query: 14 DGACSGNPGPGGWGVLLRYKGKEKIISGGE-----KETTNNRME---LMAAIKALTALKY 65 DG GNPGP G+G ++ + +++ E TNN E L+A ++A L Sbjct: 8 DGGSRGNPGPAGYGAVVWDADRGEVL--AERAEAIGRATNNVAEYRGLIAGLEAAAELG- 64 Query: 66 PCKVLLYTDSSYVHKGFSQWIKKWQQNG-WKTSDKKTVKNIDLWMKFVEASAQH------ 118 +V + DS V + Q +G WK VK+ D MK + A A+ Sbjct: 65 ATEVEVRMDSKLVVE---------QMSGRWK------VKHPD--MKPLAAQARELASQFG 107 Query: 119 KVDLYWI----KGHAGNQENEKVDRIARNAAVSF 148 +V WI HA NE +D A Sbjct: 108 RVTYTWIPRARNAHADRLANEAMDAAAGGEPWGP 141 >gnl|CDD|131706 TIGR02658, TTQ_MADH_Hv, methylamine dehydrogenase heavy chain. This family consists of the heavy chain of methylamine dehydrogenase light chain, a periplasmic enzyme. The enzyme contains a tryptophan tryptophylquinone (TTQ) prothetic group derived from two Trp residues in the light subunity. The enzyme forms a complex with the type I blue copper protein amicyanin and a cytochrome. Electron transfer procedes from TQQ to the copper and then to the heme group of the cytochrome. Length = 352 Score = 26.7 bits (59), Expect = 2.7 Identities = 10/37 (27%), Positives = 21/37 (56%) Query: 2 DSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKI 38 D+K L + A+T+ + PGGW + ++ +++I Sbjct: 226 DAKFLPAIEAFTEAEKADGWRPGGWQQVAYHRARDRI 262 >gnl|CDD|152347 pfam11912, DUF3430, Protein of unknown function (DUF3430). This family of proteins are functionally uncharacterized. This protein is found in eukaryotes. Proteins in this family are typically between 209 to 265 amino acids in length. Length = 204 Score = 26.7 bits (59), Expect = 2.7 Identities = 8/16 (50%), Positives = 8/16 (50%) Query: 12 YTDGACSGNPGPGGWG 27 Y DG CSG G G Sbjct: 29 YQDGDCSGEGSSSGIG 44 >gnl|CDD|178087 PLN02468, PLN02468, putative pectinesterase/pectinesterase inhibitor. Length = 565 Score = 25.6 bits (56), Expect = 5.8 Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 6/38 (15%) Query: 40 SGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSY 77 SG ++T NN + ++KA+ C V LY DS Y Sbjct: 50 SGNSEKTGNNGKSISTSVKAV------CDVTLYKDSCY 81 >gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional. Length = 1017 Score = 25.4 bits (55), Expect = 6.2 Identities = 19/83 (22%), Positives = 33/83 (39%), Gaps = 14/83 (16%) Query: 15 GACSGNPGPGGWGV--------------LLRYKGKEKIISGGEKETTNNRMELMAAIKAL 60 G + PGP G G L++ K +I+ G K+T E + + Sbjct: 227 GGTAAIPGPFGSGKCVDGDTLILTKEFGLIKIKDLYEILDGKGKKTVEGNEEWTELEEPI 286 Query: 61 TALKYPCKVLLYTDSSYVHKGFS 83 T Y ++ +++V+KG S Sbjct: 287 TLYGYKDGKIVEIKATHVYKGAS 309 >gnl|CDD|148573 pfam07037, DUF1323, Putative transcription regulator (DUF1323). This family consists of several hypothetical Enterobacterial proteins of around 120 residues in length. This family appears to have an HTH domain and is therefore likely to act as a transcriptional regulator. Length = 122 Score = 25.5 bits (56), Expect = 6.3 Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 1/21 (4%) Query: 84 QWIKKW-QQNGWKTSDKKTVK 103 Q I +W ++ GWKTS K VK Sbjct: 15 QTINRWVRKEGWKTSPKPGVK 35 >gnl|CDD|162390 TIGR01496, DHPS, dihydropteroate synthase. This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284. Length = 257 Score = 25.3 bits (56), Expect = 6.6 Identities = 7/21 (33%), Positives = 12/21 (57%) Query: 46 TTNNRMELMAAIKALTALKYP 66 T + +EL+ ++ AL YP Sbjct: 178 TPEHNLELLKHLEEFVALGYP 198 >gnl|CDD|178740 PLN03199, PLN03199, delta6-acyl-lipid desaturase-like protein; Provisional. Length = 485 Score = 25.0 bits (54), Expect = 7.6 Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%) Query: 67 CKVLLYTDSSYVHKGFSQWIKK-WQQNGWKTSD 98 C ++ Y+D +H + + +QQ GW D Sbjct: 149 CALVFYSDRFAMHIASALLLGLFFQQCGWLAHD 181 >gnl|CDD|165130 PHA02765, PHA02765, hypothetical protein; Provisional. Length = 117 Score = 25.0 bits (54), Expect = 8.3 Identities = 16/74 (21%), Positives = 32/74 (43%) Query: 72 YTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGN 131 Y D+ + K F Q+I +N S K+T KN + + K+D + H Sbjct: 25 YGDTEKIFKKFRQYIYNHDKNSHVFSIKETTKNSNGLHYHILVFTNKKLDYSRVHKHMPP 84 Query: 132 QENEKVDRIARNAA 145 + +++ + +N + Sbjct: 85 HSDIRIELVPKNIS 98 >gnl|CDD|115110 pfam06433, Me-amine-dh_H, Methylamine dehydrogenase heavy chain (MADH). Methylamine dehydrogenase (EC:1.4.99.3) a periplasmic quinoprotein found in several methyltrophic bacteria. Induced when grown on methylamine as a carbon source MADH catalyses the oxidative deamination of amines to there corresponding aldehydes. MADH is a hetero- tetramer, comprised of two heavy chains (H) and two light chains (L). The H-chain forms a beta-propeller like structure. Length = 342 Score = 24.8 bits (54), Expect = 8.9 Identities = 9/37 (24%), Positives = 21/37 (56%) Query: 2 DSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKI 38 +K L+ + A+T+ + PGGW + ++ +++I Sbjct: 216 GAKFLKPIEAFTEAEKADGWRPGGWQQVAYHRARDRI 252 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.315 0.131 0.408 Gapped Lambda K H 0.267 0.0616 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,402,943 Number of extensions: 132247 Number of successful extensions: 252 Number of sequences better than 10.0: 1 Number of HSP's gapped: 249 Number of HSP's successfully gapped: 17 Length of query: 152 Length of database: 5,994,473 Length adjustment: 85 Effective length of query: 67 Effective length of database: 4,157,793 Effective search space: 278572131 Effective search space used: 278572131 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: 53 (24.4 bits)