RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780592|ref|YP_003065005.1| TPR repeat-containing protein [Candidatus Liberibacter asiaticus str. psy62] (271 letters) >gnl|CDD|163072 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator. Length = 899 Score = 58.2 bits (141), Expect = 2e-09 Identities = 38/181 (20%), Positives = 67/181 (37%), Gaps = 4/181 (2%) Query: 88 QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSV 147 QA + Q+ P + G +DE + ++ A D D +S G Sbjct: 313 QAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEA 372 Query: 148 LAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSR 207 +G +A +A EL P ++ + + +S L GD A L A+Q+ R Sbjct: 373 YLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR 432 Query: 208 IRQNLALVVGLQGRMKEAYSIASQELSPEEATRNI-KYIKSILSQRDPWKKIAKARSNHN 266 L L G+ +A + A + + ++ + +I + +AKAR Sbjct: 433 ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGK---GDLAKAREAFE 489 Query: 267 K 267 K Sbjct: 490 K 490 Score = 42.0 bits (99), Expect = 1e-04 Identities = 36/152 (23%), Positives = 60/152 (39%), Gaps = 7/152 (4%) Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133 L G TA+A+ + +P D + A + D+ + + Sbjct: 743 HRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-- 800 Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193 PD ++ + L K AL E+AL+L+PN +I+ + + G+ A Sbjct: 801 --PDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALP 858 Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEA 225 LR A + + IR +LAL + GR EA Sbjct: 859 LLRKAVNIAPEAAAIRYHLALALLATGRKAEA 890 Score = 38.9 bits (91), Expect = 0.002 Identities = 40/157 (25%), Positives = 64/157 (40%), Gaps = 6/157 (3%) Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133 D+L +G ALA R+ L P + VL A L AG +E DA+ + P Sbjct: 200 GDLLLSLGNIELALAAYRKAIALRPNNPAVLLALATILIEAGEFEEAEKHADAL-LKKAP 258 Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193 + P K V Q + +A + AL+ +P + S +G+L+ A + Sbjct: 259 NSP--LAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQ 316 Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEAYSIAS 230 L + + R+ LA + GR+ EA + S Sbjct: 317 YLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLS 353 Score = 33.9 bits (78), Expect = 0.046 Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 1/87 (1%) Query: 140 LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199 LI A S L + K+ A+I+ + AL+ PN++ + YL +GD AE++LR A Sbjct: 25 LIEAAKSYLQK-NKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKAL 83 Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAY 226 + +++ LA LQG+ ++ Sbjct: 84 SLGYPKNQVLPLLARAYLLQGKFQQVL 110 Score = 33.1 bits (76), Expect = 0.082 Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 1/149 (0%) Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIP 136 AD + A+A+ +++ L P++ E + L A + Q+ Sbjct: 642 ADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK 701 Query: 137 DWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLR 196 +G + + + A+ Y +AL+ +P+ S + + L G+ A + L Sbjct: 702 AALGFELEGDLYLRQKDYPAAIQAYRKALKRAPS-SQNAIKLHRALLASGNTAEAVKTLE 760 Query: 197 FASQMIGADSRIRQNLALVVGLQGRMKEA 225 + D+ +R LA + Q +A Sbjct: 761 AWLKTHPNDAVLRTALAELYLAQKDYDKA 789 Score = 33.1 bits (76), Expect = 0.083 Identities = 20/95 (21%), Positives = 36/95 (37%) Query: 101 PEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIE 160 P + DE I+ D + + KG +L +G AL Sbjct: 156 PRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAA 215 Query: 161 YERALELSPNESSIVSNIAMSYLLMGDLKTAEEKL 195 Y +A+ L PN +++ +A + G+ + AE+ Sbjct: 216 YRKAIALRPNNPAVLLALATILIEAGEFEEAEKHA 250 Score = 32.0 bits (73), Expect = 0.18 Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 7/98 (7%) Query: 109 AYGKSLANAGYLDEG----LDAINRAQR---PDIPDWQLISAKGSVLAQMGKHSEALIEY 161 + + AN +D DAI R ++ D + + I A + + G EA+ Sbjct: 497 DFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWL 556 Query: 162 ERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199 E+A EL+P E +A YL G LK A L A+ Sbjct: 557 EKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAA 594 Score = 32.0 bits (73), Expect = 0.19 Identities = 39/184 (21%), Positives = 75/184 (40%), Gaps = 6/184 (3%) Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQRPDIPDWQLI 141 G ++A+A + A L PE S +G D+ L A + ++PD L Sbjct: 411 GDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNA--SLH 468 Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201 + G++ G ++A +E+AL + P+ +N+A + G+ A ++ + Sbjct: 469 NLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI 528 Query: 202 IGADSRIRQNLALVVGLQGRMKEAYSIASQ--ELSPEEATRNIKYIKSILSQRDPWKKIA 259 + R LA + G +EA + + EL+P+E + + L + K +A Sbjct: 529 DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALA 588 Query: 260 KARS 263 Sbjct: 589 ILNE 592 >gnl|CDD|182209 PRK10049, pgaA, outer membrane protein PgaA; Provisional. Length = 765 Score = 43.2 bits (102), Expect = 8e-05 Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 5/96 (5%) Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLD-AINR-AQRPD 134 A R + + +L + ++ L P++ + +LA+AG DE L A + PD Sbjct: 56 AVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPD 115 Query: 135 IPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170 + A V + G+H + L +AL +P Sbjct: 116 KANLL---ALAYVYKRAGRHWDELRAMTQALPRAPQ 148 >gnl|CDD|162919 TIGR02552, LcrH_SycD, type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array. Length = 135 Score = 41.5 bits (98), Expect = 2e-04 Identities = 24/126 (19%), Positives = 48/126 (38%), Gaps = 12/126 (9%) Query: 88 QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDE------GLDAINRAQRPDIPDWQLI 141 A ++ + L E E + A +L G DE L A + + + Sbjct: 1 SGGATLKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY------NSRYW 54 Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201 + + ++ EA+ Y A L P++ + A L +G+ ++A + L A ++ Sbjct: 55 LGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEI 114 Query: 202 IGADSR 207 G + Sbjct: 115 CGENPE 120 >gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional. Length = 1157 Score = 37.4 bits (87), Expect = 0.004 Identities = 27/113 (23%), Positives = 49/113 (43%), Gaps = 20/113 (17%) Query: 111 GKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170 G + ++G + + + +A R + D + + A G +Q G + A+ ++E+AL L P+ Sbjct: 276 GLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPH 335 Query: 171 -------ESSIVSNIAMSYLLM----------GDLKTAEEKLRFASQMIGADS 206 ES + N Y L+ +L AE + A Q+ DS Sbjct: 336 SSNRDKWESLLKVN---RYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDS 385 Score = 37.4 bits (87), Expect = 0.005 Identities = 38/181 (20%), Positives = 62/181 (34%), Gaps = 42/181 (23%) Query: 76 YADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQR--- 132 A LR+ G+ +QA A+MR++A P D E + AYG L+ + L +N R Sbjct: 501 LAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQW 560 Query: 133 -PDIPDW------QLISAKGSVL------------------------------AQMGKHS 155 +I + + + L Q G ++ Sbjct: 561 NSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA 620 Query: 156 EALIEYERALELSP-NESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRIRQNLAL 214 A Y+R L P N + + I + GDL A +L ++ +AL Sbjct: 621 AARAAYQRVLTREPGNADARLGLIE-VDIAQGDLAAARAQLAKLPATANDSLNTQRRVAL 679 Query: 215 V 215 Sbjct: 680 A 680 Score = 37.0 bits (86), Expect = 0.006 Identities = 24/132 (18%), Positives = 51/132 (38%), Gaps = 14/132 (10%) Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRA-----QRPDIPDW 138 G+ +A+ ++Q P+D E L A G++ + G + +A + W Sbjct: 283 GQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKW 342 Query: 139 Q---------LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLK 189 + L+ +G + ++A Y++A ++ +S V + + D Sbjct: 343 ESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYA 402 Query: 190 TAEEKLRFASQM 201 AE + A +M Sbjct: 403 AAERYYQQALRM 414 Score = 31.2 bits (71), Expect = 0.26 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 5/68 (7%) Query: 136 PDWQLISAKGSVLAQM--GKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193 P ++ A+ LA + G+ +A+ E ++A+ +P +S + + +Y GD A Sbjct: 268 PAFR---ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVA 324 Query: 194 KLRFASQM 201 + A + Sbjct: 325 QFEKALAL 332 Score = 26.6 bits (59), Expect = 6.4 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 4/64 (6%) Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR---AQRP 133 A+ L G+ AQA + RQ L P + + L AG + DA+ R Q+P Sbjct: 468 AEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQA-DALMRRLAQQKP 526 Query: 134 DIPD 137 + P+ Sbjct: 527 NDPE 530 >gnl|CDD|179448 PRK02603, PRK02603, photosystem I assembly protein Ycf3; Provisional. Length = 172 Score = 33.1 bits (76), Expect = 0.079 Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 2/50 (4%) Query: 145 GSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEK 194 G + A G+H +AL Y +ALEL+P + S ++NIA+ Y G+ AEE Sbjct: 79 GIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRGE--KAEEA 126 Score = 30.8 bits (70), Expect = 0.40 Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 15/95 (15%) Query: 152 GKHSEALIEYERALEL--SPNESS-IVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRI 208 G+++EAL YE AL+L PN+ S I+ N+ + Y G+ A L + Q + + + Sbjct: 49 GEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKA---LEYYHQALELNPKQ 105 Query: 209 RQ---NLALVVGLQGRMKEAYSIASQELSPEEATR 240 N+A++ +G A + +EA Sbjct: 106 PSALNNIAVIYHKRGE------KAEEAGDQDEAEA 134 >gnl|CDD|185096 PRK15174, PRK15174, Vi polysaccharide export protein VexE; Provisional. Length = 656 Score = 32.0 bits (72), Expect = 0.15 Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 4/85 (4%) Query: 75 VYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQR 132 +YAD L R G+ +A+ +++Q +P+ V A Y ++L G D + ++ Sbjct: 289 LYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK 348 Query: 133 PDIPDWQLISAKGSVLAQMGKHSEA 157 W A + L Q GK SEA Sbjct: 349 GVTSKWNR-YAAAA-LLQAGKTSEA 371 >gnl|CDD|128343 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism. Length = 34 Score = 32.0 bits (74), Expect = 0.15 Identities = 13/27 (48%), Positives = 18/27 (66%) Query: 144 KGSVLAQMGKHSEALIEYERALELSPN 170 G+ ++G + EAL YE+ALEL PN Sbjct: 7 LGNAYLKLGDYDEALEYYEKALELDPN 33 >gnl|CDD|149015 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by pfam00515. Length = 34 Score = 31.7 bits (73), Expect = 0.22 Identities = 13/28 (46%), Positives = 17/28 (60%) Query: 143 AKGSVLAQMGKHSEALIEYERALELSPN 170 G ++G + EAL YE+ALEL PN Sbjct: 6 NLGLAYYKLGDYEEALEAYEKALELDPN 33 >gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain. Length = 234 Score = 31.2 bits (71), Expect = 0.29 Identities = 24/112 (21%), Positives = 45/112 (40%), Gaps = 2/112 (1%) Query: 116 NAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIV 175 G L+ + +++A D D+ A Q+G+ +A + RAL L+PN ++ Sbjct: 43 EQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVL 102 Query: 176 SNIAMSYLLMGDLKTAEEKLRFA--SQMIGADSRIRQNLALVVGLQGRMKEA 225 +N G + A ++ A + +R +N L G +A Sbjct: 103 NNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA 154 Score = 30.4 bits (69), Expect = 0.54 Identities = 38/194 (19%), Positives = 69/194 (35%), Gaps = 23/194 (11%) Query: 21 LIPLLLFSSCHLNPRISIPDPESLENMNHEQLLEVTSTIGLQY----------------- 63 L+ LL + C P + P S + + ++ + L Y Sbjct: 3 LVFLLALTGCVTTPDV----PRSSRTTDRNKAAKIRVQLALGYLEQGDLEVAKENLDKAL 58 Query: 64 QSHTKNKMIGIVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG 123 + + + + A +++G +A R+ L P + +VL YG L G ++ Sbjct: 59 EHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQA 118 Query: 124 LDAINRAQR-PDIPD-WQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMS 181 + +A P P + + G + G +A RAL++ P + +A Sbjct: 119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL 178 Query: 182 YLLMGDLKTAEEKL 195 Y L G K A L Sbjct: 179 YYLRGQYKDARAYL 192 >gnl|CDD|152282 pfam11846, DUF3366, Domain of unknown function (DUF3366). This domain is functionally uncharacterized. This domain is found in bacteria. This presumed domain is about 200 amino acids in length. Length = 193 Score = 30.8 bits (70), Expect = 0.40 Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 9/88 (10%) Query: 31 HLNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQAL 90 L I+ +PE L HEQ L++ + + + A L +G+ A+A Sbjct: 114 ALLLGITPQNPELLLPY-HEQALKL-------LRYKPRPAVYRR-LALALALLGKPAEAR 164 Query: 91 AVMRQVAILYPEDQEVLAAYGKSLANAG 118 M Q LYP A Y + A + Sbjct: 165 DWMAQARYLYPLADFCAALYARPAAASA 192 >gnl|CDD|117839 pfam09295, ChAPs, ChAPs (Chs5p-Arf1p-binding proteins). ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialized cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they form also interactions with each other. Length = 395 Score = 30.4 bits (69), Expect = 0.47 Identities = 35/168 (20%), Positives = 72/168 (42%), Gaps = 14/168 (8%) Query: 32 LNPRISIPDPESLENM---NHEQLLEVTSTIG----LQYQSHTKNKMI-GIVYADVLRRV 83 LNP + + E + NM E L +G +Q + N ++ G++ +R Sbjct: 126 LNP-FTNGELEDVANMFLKAFELLFFRGPQLGSPSEIQVPTLVNNYLVEGLL--KYVRLT 182 Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISA 143 R +AL ++ ++ PE +LA + L + + ++ A + + D++L+ Sbjct: 183 KRYDRALNLLEKLREEEPEVVSLLA---RVLLLMDEEIDAVKLMHDALQENPMDYELLCL 239 Query: 144 KGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTA 191 + L K AL +RA+ +P+E + + Y+ + D + A Sbjct: 240 QAEFLLSKKKDELALECAKRAVNSAPSEFKTWALLVKVYIKLEDWENA 287 >gnl|CDD|162156 TIGR01004, PulS_OutS, lipoprotein, PulS/OutS family. This family comprises lipoproteins from four gamma proteobacterial species: PulS protein of Klebsiella pneumoniae, the OutS protein of Erwinia chrysanthemi and Pectobacterium chrysanthemi, and the functionally uncharacterized E. coli protein EtpO. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family. Length = 128 Score = 30.3 bits (68), Expect = 0.59 Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%) Query: 15 IKCIVFLIPLLLFSSCHLNPRI----SIPDPESLENM 47 +KCI F + + S C NP I S+P E LE + Sbjct: 6 LKCIAFGLCCVSLSGCQQNPAIHKAASVPANEQLEQL 42 >gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA; Provisional. Length = 204 Score = 29.4 bits (67), Expect = 0.91 Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 3/38 (7%) Query: 187 DLKTAEEKLRFASQMIGA--DSRIRQNLALVVGLQGRM 222 TA E LRF ++ G D + + LA VGL G Sbjct: 87 TELTALENLRFYQRLHGPGDDEALWEALAQ-VGLAGFE 123 >gnl|CDD|181272 PRK08180, PRK08180, feruloyl-CoA synthase; Reviewed. Length = 614 Score = 29.1 bits (66), Expect = 1.3 Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 5/33 (15%) Query: 72 IGIVYADVLRRVGRTAQALAVM-----RQVAIL 99 + YA+ L RV AQAL R + IL Sbjct: 68 RRLTYAEALERVRAIAQALLDRGLSAERPLMIL 100 >gnl|CDD|185101 PRK15179, PRK15179, Vi polysaccharide biosynthesis protein TviE; Provisional. Length = 694 Score = 28.8 bits (64), Expect = 1.5 Identities = 26/140 (18%), Positives = 48/140 (34%) Query: 74 IVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRP 133 ++ A L R+ + LAV R + +P+ E + + ++ G I Sbjct: 90 VLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG 149 Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193 + I + ++G+ +A +ER P + A S G L A + Sbjct: 150 GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARD 209 Query: 194 KLRFASQMIGADSRIRQNLA 213 L+ IG +R Sbjct: 210 VLQAGLDAIGDGARKLTRRL 229 >gnl|CDD|184326 PRK13788, PRK13788, adenylosuccinate synthetase; Provisional. Length = 404 Score = 28.6 bits (64), Expect = 1.9 Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 14/125 (11%) Query: 32 LNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQALA 91 LNP++ I + L +H+ + + +G T + IG Y+D RRVG L Sbjct: 91 LNPKLLISERAHLVLPHHKYVDGRKNFVG------TTGRGIGPAYSDRARRVGIRFGDLL 144 Query: 92 VMRQVAILYPEDQEVLAAYGKSLANAGY--LDEGLDAINRAQRPDIPDWQLISAKGSVLA 149 A+L + +L A S AG+ +++ L + + +P I+ GS+L Sbjct: 145 ---DEAVLRERVERLLEAKPNSTREAGWDTVEKALADLAPMREILLP---FIADTGSLLR 198 Query: 150 QMGKH 154 + + Sbjct: 199 EAIRE 203 >gnl|CDD|182072 PRK09782, PRK09782, bacteriophage N4 receptor, outer membrane subunit; Provisional. Length = 987 Score = 28.3 bits (63), Expect = 2.3 Identities = 19/73 (26%), Positives = 34/73 (46%) Query: 143 AKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMI 202 A+ ++ Q A+ + ALEL PN S+ + + + GD+ + E L A + + Sbjct: 614 ARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL 673 Query: 203 GADSRIRQNLALV 215 D + + LA V Sbjct: 674 PDDPALIRQLAYV 686 >gnl|CDD|181247 PRK08137, PRK08137, amidase; Provisional. Length = 497 Score = 27.8 bits (62), Expect = 3.0 Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%) Query: 108 AAYGKSLANAGYL--DEGLDAINRAQRPD 134 AY +LA+A L EG+DA + R D Sbjct: 381 PAYLDALADAKRLAGPEGIDAALKEHRLD 409 >gnl|CDD|183138 PRK11443, PRK11443, lipoprotein; Provisional. Length = 124 Score = 27.8 bits (62), Expect = 3.5 Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%) Query: 16 KCIVFLIPLLLFSSCHLNPRISIPDPES 43 K I L+ LLL S C ++P P S Sbjct: 3 KFIAPLLALLL-SGCQIDPYTHAPTLTS 29 >gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional. Length = 991 Score = 27.5 bits (61), Expect = 3.6 Identities = 10/22 (45%), Positives = 15/22 (68%) Query: 182 YLLMGDLKTAEEKLRFASQMIG 203 Y+L+GD +TA+ R S M+G Sbjct: 742 YVLVGDQQTAQPSFRLTSAMVG 763 >gnl|CDD|150766 pfam10129, OpgC_C, OpgC protein. This domain, found in various hypothetical and OpgC prokaryotic proteins. It is likely to act as an acyltransferase enzyme. Length = 358 Score = 27.1 bits (61), Expect = 4.4 Identities = 10/30 (33%), Positives = 14/30 (46%) Query: 71 MIGIVYADVLRRVGRTAQALAVMRQVAILY 100 G+ Y RR G A A ++R+ LY Sbjct: 50 AAGMAYGRAFRRRGWLAAAARILRRAWQLY 79 >gnl|CDD|182152 PRK09932, PRK09932, glycerate kinase II; Provisional. Length = 381 Score = 27.2 bits (60), Expect = 4.7 Identities = 36/162 (22%), Positives = 59/162 (36%), Gaps = 30/162 (18%) Query: 87 AQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLD-EGLDAINRAQRPDIP---DWQLIS 142 AQAL V D +VL A G +LA ++ + D ++ D L+ Sbjct: 146 AQALGVR-----FLDADGQVLGANGGNLARVASIEMDECDPRLANCHIEVACDVDNPLVG 200 Query: 143 AKGSVLA---QMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199 A+G+ Q G E + E E+ L+ N + + L+ E Sbjct: 201 ARGAAAVFGPQKGATPEMVEELEQGLQ---NYARV-------------LQQQTE--INVC 242 Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAYSIASQELSPEEATRN 241 QM G + +A V L +K I ++ E+A + Sbjct: 243 QMAGGGAAGGMGIAAAVFLNADIKPGIEIVLNAVNLEQAVQG 284 >gnl|CDD|162353 TIGR01426, MGT, glycosyltransferase, MGT family. This model describes the MGT (macroside glycosyltransferase) subfamily of the UDP-glucuronosyltransferase family. Members include a number of glucosyl transferases for macrolide antibiotic inactivation, but also include transferases of glucose-related sugars for macrolide antibiotic production. Length = 392 Score = 27.0 bits (60), Expect = 5.1 Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 5/44 (11%) Query: 192 EEKLRFASQMIGADSRIRQNLALVVGLQGRMKEA--YSIASQEL 233 EKLR A + +D R + L ++ ++EA A+ E+ Sbjct: 346 AEKLREAVLAVLSDPRYAERLR---KMRAEIREAGGARRAADEI 386 >gnl|CDD|179714 PRK04023, PRK04023, DNA polymerase II large subunit; Validated. Length = 1121 Score = 27.2 bits (61), Expect = 5.2 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 8/43 (18%) Query: 72 IGIVYADVLRRVGRTAQALAVM-----RQVAILY---PEDQEV 106 + I YA +R G TAQAL+V+ R+ L P D E+ Sbjct: 135 LAIYYAGPIRSAGGTAQALSVLVGDYVRRKLGLDRYKPTDDEI 177 >gnl|CDD|149016 pfam07721, TPR_4, Tetratricopeptide repeat. This Pfam entry includes tetratricopeptide-like repeats not detected by the pfam00515, pfam07719 and pfam07720 models. Length = 26 Score = 26.5 bits (60), Expect = 6.7 Identities = 5/22 (22%), Positives = 11/22 (50%) Query: 74 IVYADVLRRVGRTAQALAVMRQ 95 + A L +G +A A++ + Sbjct: 5 LALARALLALGDLDEARALLER 26 >gnl|CDD|183811 PRK12882, ubiA, prenyltransferase; Reviewed. Length = 276 Score = 26.5 bits (59), Expect = 7.6 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%) Query: 119 YLDEGLDAINRAQRPDIPDWQLISAKGSV 147 Y D +D INR RP IP +S +G++ Sbjct: 60 YFDREIDRINRPDRP-IPSGA-VSPRGAL 86 >gnl|CDD|150637 pfam09986, DUF2225, Uncharacterized protein conserved in bacteria (DUF2225). This domain, found in various hypothetical bacterial proteins, has no known function. Length = 214 Score = 26.5 bits (59), Expect = 8.5 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%) Query: 156 EALIEYERALELSPNESSIVSNIAMSYL---LMGDLKTAEEKLRFASQMIGA 204 +AL Y+ A E + + YL L L EE LR+ S++IG+ Sbjct: 143 KALELYKEAYEKEDFPIEGIDEATLMYLIGELSRRLGNKEEALRWFSKVIGS 194 >gnl|CDD|184801 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional. Length = 1627 Score = 26.0 bits (57), Expect = 10.0 Identities = 11/24 (45%), Positives = 16/24 (66%) Query: 70 KMIGIVYADVLRRVGRTAQALAVM 93 + + I YA +R G TAQAL+V+ Sbjct: 137 EYLAIYYAGPIRSAGGTAQALSVL 160 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 0.319 0.133 0.371 Gapped Lambda K H 0.267 0.0642 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,362,382 Number of extensions: 280388 Number of successful extensions: 698 Number of sequences better than 10.0: 1 Number of HSP's gapped: 686 Number of HSP's successfully gapped: 62 Length of query: 271 Length of database: 5,994,473 Length adjustment: 92 Effective length of query: 179 Effective length of database: 4,006,537 Effective search space: 717170123 Effective search space used: 717170123 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: 56 (25.5 bits)