RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780147|ref|YP_003064560.1| 50S ribosomal protein L11 [Candidatus Liberibacter asiaticus str. psy62] (142 letters) >gnl|CDD|162455 TIGR01632, L11_bact, 50S ribosomal protein L11. This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11. Length = 140 Score = 219 bits (559), Expect = 3e-58 Identities = 74/140 (52%), Positives = 100/140 (71%) Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62 K + I+KLQ+ +G A P+PPVGPA+GQ G+ IM FCK FNA T E G+P+P +T Y Sbjct: 1 KKIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVY 60 Query: 63 KDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDI 122 +DKSFTF + PPVS+ LKK G++ GSK P KE G ITR+ +R+IA++KM D+ DI Sbjct: 61 EDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVREIAEIKMSDLNTKDI 120 Query: 123 EGAMRMVEGSACSMGISVVD 142 E AM+++ G+A SMGI +V Sbjct: 121 EAAMKIIAGTAKSMGIEIVG 140 >gnl|CDD|178895 PRK00140, rplK, 50S ribosomal protein L11; Validated. Length = 141 Score = 213 bits (545), Expect = 1e-56 Identities = 80/142 (56%), Positives = 97/142 (68%), Gaps = 1/142 (0%) Query: 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60 MAK V +KLQI +G A P+PPVGPA+GQ G+ IM FCKAFNA T+ KG+PIP +T Sbjct: 1 MAKKVVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNARTQDQ-KGLPIPVVIT 59 Query: 61 CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAI 120 Y+D+SFTF PP S LKK GI+ GS P KE G ITR +R+IA+ KM D+ A Sbjct: 60 VYEDRSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVREIAETKMPDLNAA 119 Query: 121 DIEGAMRMVEGSACSMGISVVD 142 DIE AMRM+ G+A SMGI V Sbjct: 120 DIEAAMRMIAGTARSMGIVVEG 141 >gnl|CDD|128897 smart00649, RL11, Ribosomal protein L11/L12. Length = 132 Score = 182 bits (464), Expect = 3e-47 Identities = 71/133 (53%), Positives = 96/133 (72%), Gaps = 1/133 (0%) Query: 9 VKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFT 68 +KLQI +G A P+PP+GPA+GQ GI IM FCK FNA T+ +KG+PIP +T Y DKSFT Sbjct: 1 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKD-KKGLPIPVKITVYNDKSFT 59 Query: 69 FTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRM 128 F + PP SF LKK GI+ GSK PGK+ G+IT + + +IA++K D+ A D+E A++ Sbjct: 60 FIIKTPPASFLLKKAAGIEKGSKKPGKKKVGNITLDQVYEIAKIKRPDLNAKDLEAAVKE 119 Query: 129 VEGSACSMGISVV 141 + G+A SMGI+V Sbjct: 120 ILGTARSMGITVE 132 >gnl|CDD|184732 PRK14539, PRK14539, 50S ribosomal protein L11/unknown domain fusion protein; Provisional. Length = 196 Score = 99.6 bits (248), Expect = 2e-22 Identities = 55/140 (39%), Positives = 77/140 (55%), Gaps = 5/140 (3%) Query: 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60 K V ++ KLQ +G AKP GP++ GI + F K FN AT G P+P +T Sbjct: 2 AKKEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDATRD-RGGEPVPVQIT 56 Query: 61 CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAI 120 YKDKSF F + P SF +K+ IKSGS G+IT + +IA+ K+ D+ Sbjct: 57 VYKDKSFDFKLFTAPASFKIKQAAKIKSGSANSKTTIVGTITLSQLEEIAKYKLPDLNTD 116 Query: 121 DIEGAMRMVEGSACSMGISV 140 D+E AM + G+A +MG+ V Sbjct: 117 DVEEAMHTIAGTAKNMGVLV 136 >gnl|CDD|179232 PRK01143, rpl11p, 50S ribosomal protein L11P; Validated. Length = 163 Score = 97.7 bits (244), Expect = 1e-21 Identities = 48/135 (35%), Positives = 80/135 (59%), Gaps = 2/135 (1%) Query: 7 RIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKD-K 65 ++V++ +E G A P PP+GPA+G G+ + + N T+ KG+ +P V D K Sbjct: 3 KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKTKDF-KGMQVPVKVIVDTDTK 61 Query: 66 SFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGA 125 F + PP + +KKE+GI+ GS PG E G+++ E + KIA +K D+ + D++ A Sbjct: 62 KFEIEVGIPPTTALIKKELGIEKGSGEPGHEVVGNLSFEQVVKIAIMKKDDLLSYDLKAA 121 Query: 126 MRMVEGSACSMGISV 140 ++ V G+ SMG++V Sbjct: 122 VKEVLGTCVSMGVTV 136 >gnl|CDD|140342 PTZ00321, PTZ00321, ribosomal protein L11; Provisional. Length = 342 Score = 65.0 bits (158), Expect = 6e-12 Identities = 40/136 (29%), Positives = 66/136 (48%), Gaps = 7/136 (5%) Query: 13 IESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE-GMEKGIPIPTTVTCYKDKSFTFTM 71 I++G A PPVG + G+ M F K+FN T+ + + + + Y DKS+ FT+ Sbjct: 57 IKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKSYLFTI 116 Query: 72 SQPPVSFFLKKEVGIKSGSKLP---GKESCGSITRENIRKIAQLKMQDMGAID---IEGA 125 PP ++F+ + + K P C +T E +IA++K + G + IE Sbjct: 117 EPPPTAWFILRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETR 176 Query: 126 MRMVEGSACSMGISVV 141 +R V G A MG+ + Sbjct: 177 VRRVVGQARRMGVCFI 192 >gnl|CDD|184471 PRK14039, PRK14039, ADP-dependent glucokinase; Provisional. Length = 453 Score = 29.0 bits (65), Expect = 0.48 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 3/81 (3%) Query: 61 CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGK-ESCGSI-TRENIRKIA-QLKMQDM 117 + F +S+P V KK ++ G K G + GS+ RE + K A +L+ D Sbjct: 328 IIHTREFVLCVSKPDVKMAKKKIEAMEFGLKCAGVYAASGSLDGREFVEKEASKLQESDF 387 Query: 118 GAIDIEGAMRMVEGSACSMGI 138 G +E ++ G A +G Sbjct: 388 GREQVELFLKAFGGKALGLGA 408 >gnl|CDD|178621 PLN03072, PLN03072, 60S ribosomal protein L12; Provisional. Length = 166 Score = 28.2 bits (63), Expect = 0.82 Identities = 10/42 (23%), Positives = 26/42 (61%) Query: 99 GSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISV 140 G+I+ +++ +IA++ A ++ G ++ + G+ S+G +V Sbjct: 103 GNISLDDVIEIAKIMRPRSMAKELAGTVKEILGTCVSVGCTV 144 >gnl|CDD|185273 PRK15375, PRK15375, pathogenicity island 1 effector protein StpP; Provisional. Length = 535 Score = 27.1 bits (59), Expect = 1.5 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 3/64 (4%) Query: 12 QIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE-GMEKGIPIPTTVTCYKDKSFTFT 70 +IE+G+ P GP +G A + + N T+ + G+P+P + K Sbjct: 281 KIEAGAPMPQTMSGPTLGLARFAVSSI--PINQQTQVKLSDGMPVPVNTLTFDGKPVALA 338 Query: 71 MSQP 74 S P Sbjct: 339 GSYP 342 >gnl|CDD|179714 PRK04023, PRK04023, DNA polymerase II large subunit; Validated. Length = 1121 Score = 26.8 bits (60), Expect = 1.8 Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 17/80 (21%) Query: 47 EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKL---------PGKE 96 E +EKGI V +KD + + M+ P++ F +E+G+ S KL G Sbjct: 717 EPLEKGILRAKHDVYVFKDGTVRYDMTDLPLTHFRPREIGV-SVEKLRELGYTHDIYGNP 775 Query: 97 SCGSITRENIRKIAQLKMQD 116 + E+ +I +LK+QD Sbjct: 776 ----LESED--QIVELKVQD 789 >gnl|CDD|165527 PHA03269, PHA03269, envelope glycoprotein C; Provisional. Length = 566 Score = 27.0 bits (59), Expect = 1.9 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 3/71 (4%) Query: 14 ESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYK-DKSFTFTMS 72 ++ S P P V P + A P A +AF +A + E T+ K D + S Sbjct: 90 QAASRAPDPAVAPQLAAAPKPDAA--EAFTSAAQAHEAPADAGTSAASKKPDPAAHTQHS 147 Query: 73 QPPVSFFLKKE 83 PP ++ E Sbjct: 148 PPPFAYTRSME 158 >gnl|CDD|184800 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional. Length = 1337 Score = 27.0 bits (60), Expect = 2.0 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%) Query: 47 EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGI 86 E +EKGI V +KD + + M+ PV+ F +E+G+ Sbjct: 764 EPLEKGILRAKHDVYVFKDGTVRYDMTDLPVTHFRPREIGV 804 >gnl|CDD|163319 TIGR03547, muta_rot_YjhT, mutatrotase, YjhT family. Members of this protein family contain multiple copies of the beta-propeller-forming Kelch repeat. All are full-length homologs to YjhT of Escherichia coli, which has been identified as a mutarotase for sialic acid. This protein improves bacterial ability to obtain host sialic acid, and thus serves as a virulence factor. Some bacteria carry what appears to be a cyclically permuted homolog of this protein. Length = 346 Score = 25.7 bits (57), Expect = 3.9 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 9/44 (20%) Query: 71 MSQPPVSFFLKKEVGI--------KSGSKLPGKESCGS-ITREN 105 SQPP +F K V ++ + P + GS I + Sbjct: 157 FSQPPEDYFWNKNVLSYDPSTNQWRNLGENPFLGTAGSAIVHKG 200 >gnl|CDD|171764 PRK12845, PRK12845, 3-ketosteroid-delta-1-dehydrogenase; Reviewed. Length = 564 Score = 25.9 bits (57), Expect = 4.4 Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 15/54 (27%) Query: 20 PSPPVGPAIGQAGIPIMAFCKAFNAATEG----------MEKGIPIPTTVTCYK 63 P P G A G+ C+ F+ A G ME IP+P T Y+ Sbjct: 131 PEQPGGSAAGRT-----CECRPFDTAVLGEYRPRLRPGVMEVSIPMPVTGADYR 179 >gnl|CDD|161834 TIGR00354, polC, DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. Length = 1095 Score = 25.6 bits (56), Expect = 5.3 Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 3/74 (4%) Query: 47 EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVG--IKSGSKLPGKESCGSITR 103 E +EKGI V +KD + F + P++ F E+G ++ +L + Sbjct: 692 EPLEKGILRAKNGVYVFKDGTARFDATDLPITHFKPAEIGVSVEKLRELGYERDYYGAEL 751 Query: 104 ENIRKIAQLKMQDM 117 ++ +I +LK QD+ Sbjct: 752 KDENQIVELKPQDV 765 >gnl|CDD|130311 TIGR01244, TIGR01244, conserved hypothetical protein TIGR01244. No member of this family is characterized. The member from Xylella fastidiosa is a longer protein with an N-terminal region described by this model, followed by a metallo-beta-lactamase family domain and an additional C-terminal region. Members scoring above the trusted cutoff are limited to the proteobacteria. Length = 135 Score = 25.3 bits (55), Expect = 5.7 Identities = 7/15 (46%), Positives = 12/15 (80%) Query: 27 AIGQAGIPIMAFCKA 41 AIG A P++A+C++ Sbjct: 81 AIGAAEGPVLAYCRS 95 >gnl|CDD|148653 pfam07168, FAE_3-kCoA_syn1, Fatty acid elongase 3-ketoacyl-CoA synthase 1. This family contains fatty acid elongase 3-ketoacyl-CoA synthase 1, a plant enzyme approximately 350 residues long. Length = 336 Score = 25.2 bits (55), Expect = 5.8 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 8/46 (17%) Query: 31 AGIPIMAFCKAFNAAT----EGMEKGIPIPTTVTCYKDKSFTFTMS 72 AG+ F AFN AT ++KG+P T T + F F++S Sbjct: 227 AGVCFSLFSPAFNLATNDQWHTLKKGVPHLTVYTAF----FYFSIS 268 >gnl|CDD|180459 PRK06195, PRK06195, DNA polymerase III subunit epsilon; Validated. Length = 309 Score = 25.1 bits (55), Expect = 6.5 Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Query: 116 DMGAIDIEGAMRMVEGSACSMGISVV 141 + AID E A S CS+GI VV Sbjct: 2 NFVAIDFETANEK-RNSPCSIGIVVV 26 >gnl|CDD|185454 PTZ00112, PTZ00112, origin recognition complex 1 protein; Provisional. Length = 1164 Score = 25.0 bits (54), Expect = 6.6 Identities = 12/48 (25%), Positives = 23/48 (47%) Query: 87 KSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134 K S LP E G E I + M+++ + + +++VE ++C Sbjct: 388 KRSSMLPMSEQKGRGASEKSEYIKEFTMEEVAKLTKDTTIKLVEENSC 435 >gnl|CDD|180418 PRK06133, PRK06133, glutamate carboxypeptidase; Reviewed. Length = 410 Score = 24.6 bits (54), Expect = 8.5 Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%) Query: 73 QPPVSFFLKKEVGIKSGSK-LPGKESCGSITRENIRKI-AQLKMQD 116 QP LK+ V I+SGS G + ++ E ++ + A+++ Sbjct: 36 QPAYLDTLKELVSIESGSGDAEGLKQVAALLAERLKALGAKVERAP 81 >gnl|CDD|184801 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional. Length = 1627 Score = 24.4 bits (53), Expect = 9.5 Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 17/81 (20%) Query: 47 EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLP---------GKE 96 E +EKGI V +KD + F + P++ F E+ + S KL GK Sbjct: 741 EPLEKGILRAKNDVYVFKDGTIRFDCTDVPITHFKPSEINV-SVEKLRELGYDKDIEGKP 799 Query: 97 SCGSITRENIRKIAQLKMQDM 117 + R++ +I +LK+QD+ Sbjct: 800 ----LERDD--QILELKVQDV 814 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 0.317 0.133 0.379 Gapped Lambda K H 0.267 0.0722 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,213,649 Number of extensions: 126564 Number of successful extensions: 272 Number of sequences better than 10.0: 1 Number of HSP's gapped: 266 Number of HSP's successfully gapped: 30 Length of query: 142 Length of database: 5,994,473 Length adjustment: 84 Effective length of query: 58 Effective length of database: 4,179,401 Effective search space: 242405258 Effective search space used: 242405258 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 (21.7 bits) S2: 52 (23.8 bits)