RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781013|ref|YP_003065426.1| phage-associated protein [Candidatus Liberibacter asiaticus str. psy62] (302 letters) >gnl|CDD|147893 pfam05984, Cytomega_UL20A, Cytomegalovirus UL20A protein. This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein. Length = 102 Score = 30.9 bits (69), Expect = 0.47 Identities = 17/75 (22%), Positives = 34/75 (45%), Gaps = 3/75 (4%) Query: 148 RTITVEEITKMADGSNISPENVVEQIKKPVRFDSDSEFATLESQLVK-GFKSMPPQLTKE 206 R++ EE ADG I+ + +++ + D D +++ L+ G S P+ +E Sbjct: 28 RSVENEEPATSADGDGITLQGELKESQDGETPDDDEDYSGDYDVLITDGDGSEHPEPVEE 87 Query: 207 F--QEAQVQIKKDSA 219 + + Q K+D Sbjct: 88 KNDEHKEDQAKEDEK 102 >gnl|CDD|131882 TIGR02835, spore_sigmaE, RNA polymerase sigma-E factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active. Length = 234 Score = 29.8 bits (67), Expect = 0.96 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 2/61 (3%) Query: 193 VKGFKSMPPQLTKEFQEAQVQ--IKKDSAIARSIQESNIMRFAYSNRSFWVTIVWITIIV 250 + G +++PP LT E +EA +Q + D + ++ E N+ Y R F T + I +V Sbjct: 24 IGGSEALPPPLTGEEEEALLQKLTQGDESAKSTLIERNLRLVVYIARKFENTGIGIEDLV 83 Query: 251 A 251 + Sbjct: 84 S 84 >gnl|CDD|184098 PRK13507, PRK13507, formate--tetrahydrofolate ligase; Provisional. Length = 587 Score = 29.3 bits (66), Expect = 1.4 Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 10/68 (14%) Query: 130 EENKTWRRLYDPNDPNTNRTITVEEITKM---ADGSNISPENVVEQIKKPVRFDSDSEFA 186 E ++ LY P R +E I + ADG + +P E K R +SD E A Sbjct: 458 NEPNDFKFLYPLEMPLRER---IETIAREVYGADGVSYTP----EAEAKLKRLESDPETA 510 Query: 187 TLESQLVK 194 + +VK Sbjct: 511 DFGTCMVK 518 >gnl|CDD|180631 PRK06585, holA, DNA polymerase III subunit delta; Reviewed. Length = 343 Score = 28.7 bits (65), Expect = 1.8 Identities = 16/81 (19%), Positives = 34/81 (41%), Gaps = 11/81 (13%) Query: 156 TKMADGSNISPENVVEQIKKPVRFDSDSEFATLESQLVKGFKSMPPQLTK---EFQEAQV 212 K+ +G S E + ++ PV F E L + + +L + Q A++ Sbjct: 263 LKVENGK--SAEQAIASLRPPVFF---KRKPDFEKAL-RRWS--LERLLRALERLQAAEL 314 Query: 213 QIKKDSAIARSIQESNIMRFA 233 +++ A+A +I ++ A Sbjct: 315 DCRRNPALADAIARRVLLSIA 335 >gnl|CDD|180063 PRK05415, PRK05415, hypothetical protein; Provisional. Length = 341 Score = 28.7 bits (65), Expect = 1.9 Identities = 17/129 (13%), Positives = 39/129 (30%), Gaps = 32/129 (24%) Query: 165 SPENVVEQIKKPVRFDSDSEFATLESQLVKGFKSMPPQLTKEFQEAQVQIKKDSAIARSI 224 E +++ FD FA P +E +E A R Sbjct: 16 LEEEEEPELRAQQAFDEQEAFA-------------PAAPDEEEEEEGELEAAVEAALRP- 61 Query: 225 QESNIMRFAYSNRSFWVTIVW--ITIIVAFLLTQIINS--NVFAQLCESKYIATVVSLSA 280 RS W ++W + ++ + ++ Q + + F + S ++ ++ Sbjct: 62 -----------KRSLWRKLLWGGLGLLGSLVVGQAVQWLRDAFQR---SDWLGLGAAVVG 107 Query: 281 IICGFWAIV 289 + + Sbjct: 108 ALIVLAGLG 116 >gnl|CDD|179102 PRK00733, hppA, membrane-bound proton-translocating pyrophosphatase; Validated. Length = 666 Score = 28.6 bits (65), Expect = 2.0 Identities = 14/85 (16%), Positives = 32/85 (37%), Gaps = 21/85 (24%) Query: 212 VQIKKDSAIARSIQESNIMRFAYSNRSFWVTIVWITIIVAFLLTQIINSNVFAQLCESKY 271 V++ K +++ NR VT V ++I++ + T + + + Sbjct: 257 VRLGKGGNPMKAL-----------NRGLIVTAV-LSIVLTYFATYWLLGDGADG-----F 299 Query: 272 IATVVSLSAIICGFWAIVGKGLFGV 296 + A++ G +V L G+ Sbjct: 300 TWLNLFG-AVLIG---LVVGALIGL 320 >gnl|CDD|180110 PRK05476, PRK05476, S-adenosyl-L-homocysteine hydrolase; Provisional. Length = 425 Score = 28.6 bits (65), Expect = 2.0 Identities = 11/20 (55%), Positives = 12/20 (60%), Gaps = 7/20 (35%) Query: 84 HPIEVIMDLSFRIFPKIANQ 103 HP EV MD+SF ANQ Sbjct: 352 HPSEV-MDMSF------ANQ 364 >gnl|CDD|180943 PRK07360, PRK07360, FO synthase subunit 2; Reviewed. Length = 371 Score = 27.9 bits (63), Expect = 3.3 Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 7/43 (16%) Query: 149 TITVEEITKMADGSN---ISPENVVEQIK----KPVRFDSDSE 184 T+ E ITKMA S +S E + IK P + D+ E Sbjct: 323 TLMEEHITKMAGASGGTYMSVEELQWMIKSIGRIPKQRDTLYE 365 >gnl|CDD|181993 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed. Length = 552 Score = 27.5 bits (62), Expect = 4.5 Identities = 11/37 (29%), Positives = 25/37 (67%), Gaps = 2/37 (5%) Query: 148 RTITVEEITKMADGSNISPENVVEQIKKPVRFDSDSE 184 R ++VE I K+ G ++S E ++E +++ +R+D++ Sbjct: 277 REVSVEYINKLL-GIDLSAEEIIELLER-MRYDAEIG 311 >gnl|CDD|162332 TIGR01385, TFSII, transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end. Length = 299 Score = 27.1 bits (60), Expect = 6.4 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 5/68 (7%) Query: 114 NKYQSHSTEQLQEIVQEENKTWRRLYDPNDP-----NTNRTITVEEITKMADGSNISPEN 168 NK + H E + ++ ++ K+W+++ D N N TV E S + Sbjct: 50 NKLRKHPNEDISKLAKKIIKSWKKVVDKNKSDHPGGNPEDKTTVGESVNSVKQEAKSQSD 109 Query: 169 VVEQIKKP 176 +EQ K Sbjct: 110 KIEQPKYV 117 >gnl|CDD|168296 PRK05926, PRK05926, hypothetical protein; Provisional. Length = 370 Score = 26.7 bits (59), Expect = 7.6 Identities = 14/47 (29%), Positives = 23/47 (48%) Query: 1 MKKRTFTQTNPPYSTIAVANFFIDKGVKYSIPIDHLKIQQFIYLTHC 47 ++K + PP S IAVA F+D ++L I+ ++L C Sbjct: 274 LRKMGSRHSIPPASIIAVARLFLDNFPNIKALWNYLGIEVALHLLSC 320 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 0.320 0.134 0.397 Gapped Lambda K H 0.267 0.0633 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,870,199 Number of extensions: 301172 Number of successful extensions: 766 Number of sequences better than 10.0: 1 Number of HSP's gapped: 766 Number of HSP's successfully gapped: 25 Length of query: 302 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 209 Effective length of database: 3,984,929 Effective search space: 832850161 Effective search space used: 832850161 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 (21.8 bits) S2: 57 (25.9 bits)