RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780292|ref|YP_003064705.1| 50S ribosomal protein L13 [Candidatus Liberibacter asiaticus str. psy62] (155 letters) >gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed. Length = 144 Score = 234 bits (601), Expect = 5e-63 Identities = 73/143 (51%), Positives = 101/143 (70%), Gaps = 1/143 (0%) Query: 4 TFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKV 63 TF K +EVE+KW ++DA+G ++GRLAS++A LRGK+KPT+TP D GD V++INA KV Sbjct: 3 TFSAKPAEVERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKV 62 Query: 64 AFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKN 123 +GKK K YYRH+GYPGG+K+ T E+LA P +++KA+ MLP+ PL R K Sbjct: 63 KLTGKKLTDKIYYRHSGYPGGLKEITFGELLA-KKPERVIEKAVKGMLPKNPLGRAMFKK 121 Query: 124 LHIYAEDHHPHEAQKPVFMDIAK 146 L +YA HPH AQ+P ++I + Sbjct: 122 LKVYAGAEHPHAAQQPEVLEIKQ 144 >gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts. Length = 140 Score = 189 bits (481), Expect = 4e-49 Identities = 74/141 (52%), Positives = 100/141 (70%), Gaps = 1/141 (0%) Query: 4 TFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKV 63 T + S + ++KW +VDA G +GRLAS++A LRGK+KPTYTP D GD+V++INA KV Sbjct: 1 TLAKASDDKKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKV 60 Query: 64 AFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKN 123 +GKK +QK YYRH+GYPGG+K T +E++A P +L+ A+ MLP+ L RK K Sbjct: 61 RLTGKKLEQKVYYRHSGYPGGLKSRTFEEMIA-RKPERVLEHAVKGMLPKNRLGRKLFKK 119 Query: 124 LHIYAEDHHPHEAQKPVFMDI 144 L +YA HPHEAQKP+ +DI Sbjct: 120 LKVYAGSEHPHEAQKPIVLDI 140 >gnl|CDD|177795 PLN00205, PLN00205, ribisomal protein L13 family protein; Provisional. Length = 191 Score = 121 bits (305), Expect = 9e-29 Identities = 53/119 (44%), Positives = 80/119 (67%), Gaps = 1/119 (0%) Query: 15 KWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKT 74 +W + DAKG ++GRLASQI+ L+GK+KPTY P+ DDGD +++NA ++ +G+K K Sbjct: 16 RWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKF 75 Query: 75 YYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHP 133 Y HTGY G +K+ + K+ +A PT +++KA+ RMLPR L + + L I+A HP Sbjct: 76 YRWHTGYIGHLKERSLKDQMA-KDPTEVIRKAVLRMLPRNRLRDDRDRKLRIFAGSEHP 133 >gnl|CDD|180552 PRK06394, rpl13p, 50S ribosomal protein L13P; Reviewed. Length = 146 Score = 59.5 bits (145), Expect = 3e-10 Identities = 38/124 (30%), Positives = 56/124 (45%), Gaps = 29/124 (23%) Query: 13 EKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSG----- 67 + +++DA+G I+GRLAS +A RL +G+ VVI+NA K +G Sbjct: 1 FEAMVVIDAEGQILGRLASYVAKRLL------------EGEEVVIVNAEKAVITGNRERV 48 Query: 68 -KKYDQKTYYRHTGYP--GGIKKTTAKEILAGASPTNILKKAIARMLP-RGPLARKQMKN 123 +KY Q+ P G K P I K+ I MLP + P R+ +K Sbjct: 49 IEKYKQRRERGSHYNPYRNGPKYPR--------RPDRIFKRTIRGMLPYKKPRGREALKR 100 Query: 124 LHIY 127 L +Y Sbjct: 101 LKVY 104 >gnl|CDD|162192 TIGR01077, L13_A_E, ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066. Length = 142 Score = 49.7 bits (119), Expect = 3e-07 Identities = 32/129 (24%), Positives = 55/129 (42%), Gaps = 16/129 (12%) Query: 17 ILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYY 76 ++D G I+GRLAS +A +L +G+ VV++NA K+ SG Y K Y Sbjct: 1 TVIDGSGHILGRLASVVAKQLL------------NGEKVVVVNAEKIVISGNFYRNKLKY 48 Query: 77 RHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHE 135 + + +P+ I ++ + MLP + R ++ L +Y P E Sbjct: 49 KEF-LRKRTLTNPRRGPFFPRAPSRIFRRTVRGMLPHKTARGRAALRRLKVY--VGIPPE 105 Query: 136 AQKPVFMDI 144 K + + Sbjct: 106 LDKKKRVVV 114 >gnl|CDD|185423 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional. Length = 202 Score = 34.6 bits (80), Expect = 0.010 Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 25/117 (21%) Query: 14 KKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQK 73 KK I++D KG ++GRLAS +A L G +V++ + SG + K Sbjct: 3 KKVIVIDCKGHLLGRLASVVAKELL------------LGQKIVVVRCEDLNISGSLFRNK 50 Query: 74 TYYRHTGYPGGIKKTTAKEILAGA----SPTNILKKAIARMLP----RGPLARKQMK 122 Y ++K G +P++I + + MLP RG A K++K Sbjct: 51 VKYEEF-----LRKRMNTNPRRGPFHHRAPSDIFWRTVRGMLPHKTKRGAAALKRLK 102 >gnl|CDD|178796 PRK00016, PRK00016, metal-binding heat shock protein; Provisional. Length = 159 Score = 29.8 bits (68), Expect = 0.27 Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 20/64 (31%) Query: 35 LRLRGKNKPT---------YTPSADD--------GDHVVIINASKVAFSGKKYDQKTYYR 77 L RGK+KPT DD GD ++I ++ + R Sbjct: 55 LEYRGKDKPTDVLSFPMDELPLLEDDGEEGPAYLGD--IVICPEVAEEQAEEQ-GHSLER 111 Query: 78 HTGY 81 + Sbjct: 112 ELAH 115 >gnl|CDD|162131 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family protein. Length = 1394 Score = 28.9 bits (65), Expect = 0.58 Identities = 24/114 (21%), Positives = 43/114 (37%), Gaps = 13/114 (11%) Query: 53 DHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPT-NILKKAIARML 111 D V+++ + G K Y+ G+ ++TTA + + SP +K + + Sbjct: 279 DKVIVLYEGYQIYFGPADKAKQYFEKMGFKCPDRQTTADFLTSLTSPAERQIKPGYEKKV 338 Query: 112 PRGPLARKQM-KNLHIYAE---------DHHPHEAQKPVFMDIAKMNPKNSRRT 155 PR P + +N YA+ D K + + K S+RT Sbjct: 339 PRTPQEFETYWRNSPEYAQLMKEIDEYLDRCSESDTKEAYRE--SHVAKQSKRT 390 >gnl|CDD|177788 PLN00194, PLN00194, aldose 1-epimerase; Provisional. Length = 337 Score = 27.0 bits (60), Expect = 2.4 Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 19/89 (21%) Query: 23 GLIVGRLASQIA---LRLRGKNKPTYTPSADDGD---HVVIINASKVAFSGKKYDQK--- 73 G IVGR+A++I L G TY ++G H SKV + KY + Sbjct: 63 GAIVGRVANRIKGAKFTLNGV---TYKLPPNNGPNSLHGGPKGFSKVVWEVAKYKKGEKP 119 Query: 74 ----TYYRH---TGYPGGIKKTTAKEILA 95 Y+ G+PG + T +L+ Sbjct: 120 SITFKYHSFDGEEGFPGDLSVTVTYTLLS 148 >gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog; Provisional. Length = 606 Score = 26.6 bits (59), Expect = 3.0 Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 5/24 (20%) Query: 44 TYTPSADDGDHV-----VIINASK 62 TYTP+ADD HV V+++A Sbjct: 182 TYTPTADDVGHVLKFECVVVDAET 205 >gnl|CDD|185632 PTZ00453, PTZ00453, cyclin-dependent kinase; Provisional. Length = 96 Score = 26.1 bits (57), Expect = 3.8 Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 22/70 (31%) Query: 47 PSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKA 106 + ++ SK+ +S K YD + YRH IL K Sbjct: 12 NGQREALIMISKLQSKILYSDKYYDDEYEYRHV----------------------ILPKD 49 Query: 107 IARMLPRGPL 116 AR++PR L Sbjct: 50 FARLVPRSRL 59 >gnl|CDD|182731 PRK10788, PRK10788, periplasmic folding chaperone; Provisional. Length = 623 Score = 26.1 bits (58), Expect = 4.4 Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 34 ALRLRGKNKPTYTPSADDGDHVVIINASKV 63 AL L K+KP+Y + D +VV+I +V Sbjct: 549 ALPLPAKDKPSYGMAQDMQGNVVLIALDEV 578 >gnl|CDD|114555 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family consists of lycopene beta and epsilon cyclase proteins. Carotenoids with cyclic end groups are essential components of the photosynthetic membranes in all plants, algae, and cyanobacteria. These lipid-soluble compounds protect against photo-oxidation, harvest light for photosynthesis, and dissipate excess light energy absorbed by the antenna pigments. The cyclisation of lycopene (psi, psi-carotene) is a key branch point in the pathway of carotenoid biosynthesis. Two types of cyclic end groups are found in higher plant carotenoids: the beta and epsilon rings. Carotenoids with two beta rings are ubiquitous, and those with one beta and one epsilon ring are common; however, carotenoids with two epsilon rings are rare. Length = 374 Score = 25.3 bits (56), Expect = 6.8 Identities = 7/14 (50%), Positives = 9/14 (64%) Query: 130 DHHPHEAQKPVFMD 143 D+ PH+ PV MD Sbjct: 161 DNPPHDPDVPVIMD 174 >gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This family includes lycopene beta and epsilion cyclases (which form beta and delta carotene, respectively) from bacteria and plants as well as the plant capsanthin/capsorubin and neoxanthin cyclases which appear to have evolved from the plant lycopene cyclases. The plant lycopene epsilon cyclases also transform neurosporene to alpha zeacarotene. Length = 388 Score = 25.5 bits (56), Expect = 7.0 Identities = 5/14 (35%), Positives = 5/14 (35%) Query: 130 DHHPHEAQKPVFMD 143 PH V MD Sbjct: 165 SRPPHGPSSMVIMD 178 >gnl|CDD|180885 PRK07208, PRK07208, hypothetical protein; Provisional. Length = 479 Score = 25.2 bits (56), Expect = 7.1 Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 5/38 (13%) Query: 5 FFQKSSEVEKKW--ILVDAKGLIVGRLASQIALRLRGK 40 FF KS EV W IL D L+ RL S+I RGK Sbjct: 60 FFSKSPEVMDLWNEILPDDDFLLRPRL-SRI--YYRGK 94 >gnl|CDD|166612 PLN02971, PLN02971, tryptophan N-hydroxylase. Length = 543 Score = 25.0 bits (54), Expect = 8.0 Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 2/40 (5%) Query: 87 KTTAKEILAGA--SPTNILKKAIARMLPRGPLARKQMKNL 124 K T KE++ A +P+N ++ A+A M+ + + K M+ + Sbjct: 329 KPTIKELVMAAPDNPSNAVEWAMAEMINKPEILHKAMEEI 368 >gnl|CDD|178437 PLN02844, PLN02844, oxidoreductase/ferric-chelate reductase. Length = 722 Score = 24.8 bits (54), Expect = 8.9 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 11/57 (19%) Query: 97 ASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKNSR 153 S +K M RGP+ E+H H +P F DI PK +R Sbjct: 627 VSQKQGIKPEEGSMEKRGPVL-----------EEHEIHFGGRPNFQDIFSKFPKETR 672 >gnl|CDD|163145 TIGR03124, ctirate_citX, holo-ACP synthase CitX. Members of this protein family are the CitX protein, or CitX domain of the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems. Length = 165 Score = 24.9 bits (55), Expect = 9.3 Identities = 16/70 (22%), Positives = 21/70 (30%), Gaps = 17/70 (24%) Query: 81 YPGGIKKTTA---------KEILAGASPTNI-LKKAIARMLPRGP-------LARKQMKN 123 PG IK K I A + + A GP ++K Sbjct: 35 IPGPIKNNELLRRVFDIGIKAIEALLAKNGWTILVQQALNEATGPEAFLVVDAPALELKR 94 Query: 124 LHIYAEDHHP 133 L I E+ HP Sbjct: 95 LMIKLEESHP 104 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 0.386 Gapped Lambda K H 0.267 0.0757 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,581,732 Number of extensions: 155694 Number of successful extensions: 288 Number of sequences better than 10.0: 1 Number of HSP's gapped: 279 Number of HSP's successfully gapped: 24 Length of query: 155 Length of database: 5,994,473 Length adjustment: 85 Effective length of query: 70 Effective length of database: 4,157,793 Effective search space: 291045510 Effective search space used: 291045510 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: 53 (24.1 bits)