RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780225|ref|YP_003064638.1| peptidyl-tRNA hydrolase [Candidatus Liberibacter asiaticus str. psy62] (189 letters) >1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} (A:) Length = 205 Score = 205 bits (524), Expect = 2e-54 Identities = 57/186 (30%), Positives = 98/186 (52%), Gaps = 3/186 (1%) Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIK 60 +++AGLGNPG++Y RHN+GF +DRI + + + + G + + +++K Sbjct: 17 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76 Query: 61 PQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISE 120 PQ++MN SG+++ + +Y++ L + L+I+DD L G LRL+ GG HNGL+++ E Sbjct: 77 PQSYMNYSGEAIGPLAAYYQV-PLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIE 135 Query: 121 KCG--KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178 + + RL IGIG PP +L FSS ER + ++ ++ L + Sbjct: 136 HLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFS 195 Query: 179 SFLNHI 184 Sbjct: 196 GSTERF 201 >2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A {Mycobacterium tuberculosis H37RV} PDB: 2z2j_A 2z2k_A 2jrc_A (A:) Length = 191 Score = 203 bits (519), Expect = 9e-54 Identities = 73/186 (39%), Positives = 106/186 (56%), Gaps = 3/186 (1%) Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWK-KKFHAEISEGQLDGLRTILI 59 +V GLGNPG Y RHN+GF+ D + + K+ AE++ G+ G +L Sbjct: 4 PLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLA 63 Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119 KP+ +MN SG+ + + FY + N +VIHDDLDL+FG +RLK GGG+ GHNGL+S+ Sbjct: 64 KPRCYMNESGRQIGPLAKFYSVA-PANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVV 122 Query: 120 EKCG-KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178 G K+++R+RIGIGRPP VL NF+ ER + I + A + LL ++ Sbjct: 123 AALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGME 182 Query: 179 SFLNHI 184 N + Sbjct: 183 PAQNRV 188 >2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli K12} (A:) Length = 193 Score = 200 bits (510), Expect = 1e-52 Identities = 69/192 (35%), Positives = 96/192 (50%), Gaps = 4/192 (2%) Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFP-AWKKKFHAEISEGQLDGLRTILI 59 + ++ GL NPG EY RHN G +D + P + KF S L G L+ Sbjct: 2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLL 61 Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119 P TFMNLSG+++ + +F+++ N + LV HD+LDL G + K GGG GHNGLK I Sbjct: 62 VPTTFMNLSGKAVAAMASFFRI-NPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 120 Query: 120 EKCG--KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKRED 177 K G N+ RLRIGIG P D ++ VLG E+ + ID AR + Sbjct: 121 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 180 Query: 178 VSFLNHIVSVRK 189 N + + + Sbjct: 181 TKATNRLHAFKA 192 >2cjq_A RNA-directed RNA polymerase; transferase, RNA-dependent RNA polymerase, nucleotidyltransferase, BVDV, helicase, membrane, protease; 2.60A {Bovine viral diarrhea virus} PDB: 1s48_A 1s49_A* 1s4f_A (A:128-154,A:519-598,A:664-720) Length = 164 Score = 27.6 bits (61), Expect = 1.1 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 10/50 (20%) Query: 123 GKNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLL 172 GK+Y++L++ P ERY L PI++ + R L +L Sbjct: 116 GKHYEQLQLQARTSP----------VTGVGTERYKLGPIVNLLLRRLRVL 155 >2vvf_A Major capsid protein P2; double jelly-roll viral capsid, viral protein; 2.5A {Pseudoalteromonas phage PM2} PDB: 2w0c_A (A:1-139) Length = 139 Score = 26.7 bits (59), Expect = 2.1 Identities = 5/54 (9%), Positives = 13/54 (24%), Gaps = 7/54 (12%) Query: 56 TILIKPQTFMNL-SGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGG 108 + + + + L+ +K + H F +K Sbjct: 48 RVELDGRLLSTYKTLNDLILENTRHKRKIKAGVVSFH------FVRPEMKGVNV 95 >3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} (A:) Length = 457 Score = 26.1 bits (55), Expect = 2.9 Identities = 2/20 (10%), Positives = 5/20 (25%) Query: 66 NLSGQSLLEVMNFYKLPNLE 85 L +++ N Sbjct: 2 TLKAGQTQSFNDWFPDDNFA 21 >3g02_A Epoxide hydrolase; alpha/beta hydrolase fold, enantioselective, mutant, directed evolution; 1.50A {Aspergillus niger} PDB: 1qo7_A 3g0i_A* (A:1-73,A:225-322) Length = 171 Score = 25.2 bits (55), Expect = 5.5 Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 4/32 (12%) Query: 40 KKFHAEISEGQLDGLRTIL----IKPQTFMNL 67 F I + QLD L+T++ I P T+ +L Sbjct: 18 NPFTVSIPDEQLDDLKTLVRLSKIAPPTYESL 49 >3a3d_A PBP4, penicillin-binding protein 4; DACB, hydrolase; 1.60A {Haemophilus influenzae} PDB: 3a3e_A* 3a3f_A* 3a3i_A* (A:1-43,A:331-453) Length = 166 Score = 25.3 bits (55), Expect = 5.8 Identities = 7/71 (9%), Positives = 12/71 (16%), Gaps = 16/71 (22%) Query: 99 GTLRLKTGGGDAGHNGLKSISEKCGKNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFL 158 + KTG +N G + N S Sbjct: 102 KNVIAKTGSLKGVYN----------------LAGFMTNARGEKVAFVQFINGYSTGDLES 145 Query: 159 LPIIDNIARSL 169 + + Sbjct: 146 KTKRAPLVQFE 156 >1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} (A:) Length = 312 Score = 25.2 bits (53), Expect = 6.0 Identities = 8/74 (10%), Positives = 20/74 (27%) Query: 12 HEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQS 71 ++ + + +S L + L + ++LS Sbjct: 226 ARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNR 285 Query: 72 LLEVMNFYKLPNLE 85 L + +LP + Sbjct: 286 LDRNPSPDELPQVG 299 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 0.325 0.144 0.445 Gapped Lambda K H 0.267 0.0637 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,532,976 Number of extensions: 69734 Number of successful extensions: 172 Number of sequences better than 10.0: 1 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 13 Length of query: 189 Length of database: 4,956,049 Length adjustment: 84 Effective length of query: 105 Effective length of database: 2,116,429 Effective search space: 222225045 Effective search space used: 222225045 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: 52 (24.0 bits)