RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780225|ref|YP_003064638.1| peptidyl-tRNA hydrolase [Candidatus Liberibacter asiaticus str. psy62] (189 letters) >gnl|CDD|180073 PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provisional. Length = 189 Score = 245 bits (629), Expect = 4e-66 Identities = 90/186 (48%), Positives = 119/186 (63%), Gaps = 4/186 (2%) Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRI-HSFHFFPAWKKKFHAEISEGQLDGLRTILI 59 M ++ GLGNPG EY RHNIGFM +D + KKKF I+EG+++G + IL+ Sbjct: 2 MKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILL 61 Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119 KPQT+MNLSG+++ + NFYK+P E+ LVIHDDLDL G +RLK GGG GHNGLKSI Sbjct: 62 KPQTYMNLSGKAVAALANFYKIP-PEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSII 120 Query: 120 EKCG-KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178 G +++ RLRIGIGR PD ++ +VLG FS E+ L ID A ++ LL + Sbjct: 121 AHLGTQDFWRLRIGIGR-PDKKKVVDYVLGKFSKEEQELLDKAIDKAADAIELLLEGGFE 179 Query: 179 SFLNHI 184 +N Sbjct: 180 KAMNKF 185 >gnl|CDD|129539 TIGR00447, pth, peptidyl-tRNA hydrolase. The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function. Length = 188 Score = 166 bits (423), Expect = 2e-42 Identities = 70/165 (42%), Positives = 96/165 (58%), Gaps = 3/165 (1%) Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHS-FHFFPAWKKKFHAEISEGQLDGLRTILI 59 + ++ GLGNPG +Y RHN GF +D + S +KKF G L G + IL+ Sbjct: 1 IKLIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILL 60 Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119 KP T+MNLSG+++ + +FY++ LV+HD+LDL G +RLK GGG GHNGLKSI Sbjct: 61 KPLTYMNLSGEAVRALASFYRIKP-AELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSII 119 Query: 120 EKCGK-NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIID 163 G N+ RLRIGIG P + ++ VL F+ E L +D Sbjct: 120 SHLGTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLEKALD 164 >gnl|CDD|182647 PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional. Length = 332 Score = 30.1 bits (68), Expect = 0.35 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Query: 33 HFFPAWKKKFHAEISEGQLDGLR-TILIKPQTFMNLSGQSLLEVMNFYKLP 82 FF K+KF ++E GL T L + F G +LLE + K+P Sbjct: 231 RFF---KEKFFTPVAEAATSGLTFTKLQPAREFYAPVGTTLLEALESNKVP 278 >gnl|CDD|149934 pfam09037, Sulphotransf, Stf0 sulphotransferase. Members of this family are essential for the biosynthesis of sulpholipid-1 in prokaryotes. They adopt a structure that belongs to the sulphotransferase superfamily, consisting of a single domain with a core four-stranded parallel beta-sheet flanked by alpha-helices. Length = 245 Score = 27.4 bits (61), Expect = 2.4 Identities = 24/90 (26%), Positives = 30/90 (33%), Gaps = 5/90 (5%) Query: 61 PQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISE 120 PQ F E LP LE + D L G G GLK + Sbjct: 28 PQEFFQR--PQPREWAEGVGLP-LEPGTPDTEFADAYLQAA-LTRGRTPNGVFGLKLMWN 83 Query: 121 KCGKNYKRL-RIGIGRPPDTAHIIRHVLGN 149 + G +RL + GR D I V G+ Sbjct: 84 QLGLLLQRLAHLYPGRSGDGLRDIEAVFGD 113 >gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated. Length = 319 Score = 27.1 bits (60), Expect = 2.6 Identities = 10/24 (41%), Positives = 14/24 (58%) Query: 50 QLDGLRTILIKPQTFMNLSGQSLL 73 QL+G R +I+P MN S + L Sbjct: 105 QLNGYRLFVIEPADAMNESASNAL 128 >gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional. Length = 248 Score = 26.7 bits (60), Expect = 3.5 Identities = 6/16 (37%), Positives = 12/16 (75%) Query: 159 LPIIDNIARSLPLLAK 174 + I+DNI R++P + + Sbjct: 191 ITIVDNITRAVPNMTE 206 >gnl|CDD|165505 PHA03246, PHA03246, large tegument protein UL36; Provisional. Length = 3095 Score = 26.5 bits (58), Expect = 4.1 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 9/56 (16%) Query: 142 IIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKRED---------VSFLNHIVSVR 188 I+RH + + + YFL+ I++ R++P LAK D FL + +R Sbjct: 1515 ILRHASAHPGNLDYYFLVGEIESDLRAIPSLAKYVDFYRRGHDSFEGFLARLEQMR 1570 >gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated. Length = 328 Score = 26.6 bits (59), Expect = 4.2 Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 1/28 (3%) Query: 50 QLDGLRTILIKPQTFMNLSGQ-SLLEVM 76 QL G + +LI+P MN + +LL+ + Sbjct: 103 QLGGRKVVLIEPAEAMNRNAANALLKSL 130 >gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional. Length = 1167 Score = 26.7 bits (59), Expect = 4.4 Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%) Query: 123 GKNYKR--LRIGIGRPPDTAHIIRHVLGNFSSP 153 G N +R +GI RPP + S+P Sbjct: 244 GVNVQRQPWAVGIVRPPSVDEVRAAAKSGKSAP 276 >gnl|CDD|178527 PLN02939, PLN02939, transferase, transferring glycosyl groups. Length = 977 Score = 26.4 bits (58), Expect = 4.9 Identities = 16/48 (33%), Positives = 24/48 (50%) Query: 37 AWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYKLPNL 84 A ++K H EI E QL+ LR L+ L SL + ++ K N+ Sbjct: 189 AAQEKIHVEILEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEENM 236 >gnl|CDD|130386 TIGR01319, glmL_fam, conserved hypothetical protein. This small family includes, so far, an uncharacterized protein from E. coli O157:H7 and GlmL from Clostridium tetanomorphum and Clostridium cochlearium. GlmL is located between the genes for the two subunits, epsilon (GlmE) and sigma (GlmS), of the coenzyme-B12-dependent glutamate mutase (methylaspartate mutase), the first enzyme in a pathway of glutamate fermentation. Members shows significant sequence similarity to the hydantoinase branch of the hydantoinase/oxoprolinase family (pfam01968). Length = 463 Score = 25.8 bits (56), Expect = 7.4 Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 4/33 (12%) Query: 153 PERY----FLLPIIDNIARSLPLLAKREDVSFL 181 E Y +LP + +A P A R + L Sbjct: 430 FEYYIDKRGILPALALLAEDDPDAAARIMIKCL 462 >gnl|CDD|181600 PRK08974, PRK08974, long-chain-fatty-acid--CoA ligase; Validated. Length = 560 Score = 25.8 bits (57), Expect = 7.5 Identities = 12/28 (42%), Positives = 19/28 (67%), Gaps = 1/28 (3%) Query: 84 LENYLVIHDDL-DLDFGTLRLKTGGGDA 110 L N L+ +++ +LDF +L+L GGG A Sbjct: 309 LFNALLNNEEFQELDFSSLKLSVGGGMA 336 >gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated. Length = 325 Score = 25.6 bits (56), Expect = 7.9 Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%) Query: 53 GLRTILIKPQTFMNL-SGQSLLEVM 76 GLR ILI P MNL + SLL+V+ Sbjct: 113 GLRVILIHPAESMNLQAANSLLKVL 137 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 0.325 0.144 0.445 Gapped Lambda K H 0.267 0.0547 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 3,260,287 Number of extensions: 205836 Number of successful extensions: 468 Number of sequences better than 10.0: 1 Number of HSP's gapped: 461 Number of HSP's successfully gapped: 19 Length of query: 189 Length of database: 5,994,473 Length adjustment: 88 Effective length of query: 101 Effective length of database: 4,092,969 Effective search space: 413389869 Effective search space used: 413389869 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 (21.5 bits) S2: 54 (25.0 bits)