RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780875|ref|YP_003065288.1| protoporphyrinogen oxidase (methyltransferase) protein [Candidatus Liberibacter asiaticus str. psy62] (264 letters) >gnl|CDD|32715 COG2890, HemK, Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]. Length = 280 Score = 208 bits (530), Expect = 1e-54 Identities = 98/263 (37%), Positives = 138/263 (52%), Gaps = 8/263 (3%) Query: 3 ALRDSHSFLCRVTGLSSHQVIVDPDSVLDDRQRFFLTNAIVRSLKHESIHRILGWRDFYN 62 D+ L + G Q++ P++ L + + L + R + E + ILG +F Sbjct: 21 PNLDAELLLLHLLGKPRDQLLAHPEAELSEEELERLRELLERRAEGEPVAYILGSAEFGG 80 Query: 63 VRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFF 122 +R + PRP+TELLV++ALA + RILDLGTG+GA+ +AL KE P Sbjct: 81 LRFKVDEGVLIPRPDTELLVEAALAL-----LLQLDKRILDLGTGSGAIAIALAKEGPDA 135 Query: 123 KGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFSSVEGLFDVIVSNPPYIESVIVDC 182 + + VDIS AL +A+ NA NG+ R +QSD F + G FD+IVSNPPYI + + Sbjct: 136 EVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRGKFDLIVSNPPYIPAEDPE- 193 Query: 183 LGLEVRDFDPRISLDGGIDGLSHYRTIADGVSRHLNKDGLCSVEIGYNQKVDVVRIFESR 242 L EV ++P ++L GG DGL YR I L G+ +EIG Q V +FE Sbjct: 194 LLPEVVRYEPLLALVGGGDGLEVYRRILGEAPDILKPGGVLILEIGLTQGEAVKALFEDT 253 Query: 243 KLF-LVNAFKDYGGNDRVLLFCR 264 F +V KD G DRV+L Sbjct: 254 GFFEIVETLKDLFGRDRVVLAKL 276 >gnl|CDD|38115 KOG2904, KOG2904, KOG2904, Predicted methyltransferase [General function prediction only]. Length = 328 Score = 122 bits (307), Expect = 1e-28 Identities = 75/250 (30%), Positives = 118/250 (47%), Gaps = 13/250 (5%) Query: 27 DSVLDDRQRFFLTNAIVRSLKHESIHRILGWRDFYNVRLTLSSDTFEPRPETELLVDSAL 86 D L Q + A ++ K + ILG + F ++ L PRPETE V++ + Sbjct: 79 DDPLVILQLESIRWACLQRYKRMPLQYILGSQPFGDLDLVCKPGVLIPRPETEEWVEAVI 138 Query: 87 AFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGV 146 +L E ILDLGTG+GA+ L+LL P +D+S A+++AK NA + Sbjct: 139 D-ALNNSEHSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKL 197 Query: 147 SERFD----TLQSDWF---SSVEGLFDVIVSNPPYIESVIVDCLGLEVRDFDPRISLDGG 199 S R + ++SD +EG D++VSNPPYI L EVR ++P+++LDGG Sbjct: 198 SGRIEVIHNIMESDASDEHPLLEGKIDLLVSNPPYIRKDDNRQLKPEVRLYEPKLALDGG 257 Query: 200 IDGLSHYRTIADGVSRHLNKDGLCSVE-IGYNQKVDVVRIFESRKLFLVNAF----KDYG 254 ++G + +R L G +E + + +VRI+ N D+ Sbjct: 258 LEGYDNLVHYWLLATRMLQPGGFEQLELVERKEHSYLVRIWMISLKDDSNGKAAVVSDFA 317 Query: 255 GNDRVLLFCR 264 G R ++ R Sbjct: 318 GRPRFVIIHR 327 >gnl|CDD|32642 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]. Length = 300 Score = 72.6 bits (178), Expect = 1e-13 Identities = 36/100 (36%), Positives = 53/100 (53%), Gaps = 1/100 (1%) Query: 82 VDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNA 141 +D L + ++LDLG G G + L L K+SP K VD++ +A+E A+ N Sbjct: 143 LDKGSRLLLETLPPDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNL 202 Query: 142 VTNGVSERFDTLQSDWFSSVEGLFDVIVSNPPYIESVIVD 181 NGV E + S+ + VEG FD+I+SNPP+ V Sbjct: 203 AANGV-ENTEVWASNLYEPVEGKFDLIISNPPFHAGKAVV 241 >gnl|CDD|147386 pfam05175, MTS, Methyltransferase small domain. This domain is found in ribosomal RNA small subunit methyltransferase C as well as other methyltransferases . Length = 170 Score = 68.0 bits (167), Expect = 3e-12 Identities = 38/93 (40%), Positives = 54/93 (58%), Gaps = 2/93 (2%) Query: 82 VDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNA 141 +D L + K ++LDLG G G + AL K SP + VDI+ +ALE A++N Sbjct: 16 LDIGSRLLLSHLPKPLGGKVLDLGCGYGVLGAALAKRSPDLEVTMVDINARALESARANL 75 Query: 142 VTNGVSERFDTLQSDWFSSVE-GLFDVIVSNPP 173 NG+ E + SD +S+VE G FD+I+SNPP Sbjct: 76 AANGL-ENGEVFWSDLYSAVEPGKFDLIISNPP 107 >gnl|CDD|33880 COG4123, COG4123, Predicted O-methyltransferase [General function prediction only]. Length = 248 Score = 68.0 bits (166), Expect = 3e-12 Identities = 35/105 (33%), Positives = 54/105 (51%), Gaps = 6/105 (5%) Query: 82 VDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNA 141 D+ L + + K+ RILDLG G GA+ L L + + K VGV+I +A E+A+ N Sbjct: 31 TDAILLAAFAPVPKKG--RILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNV 88 Query: 142 VTNGVSERFDTLQSD----WFSSVEGLFDVIVSNPPYIESVIVDC 182 N + ER +++D + V FD+I+ NPPY + Sbjct: 89 ALNPLEERIQVIEADIKEFLKALVFASFDLIICNPPYFKQGSRLN 133 >gnl|CDD|38401 KOG3191, KOG3191, KOG3191, Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]. Length = 209 Score = 65.0 bits (158), Expect = 2e-11 Identities = 48/185 (25%), Positives = 81/185 (43%), Gaps = 11/185 (5%) Query: 63 VRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKE-SPF 121 + SD +EP +T LL+D AL ++ + L++G G+G V L P Sbjct: 10 LIRLDFSDVYEPAEDTFLLLD-ALEKDAAELKGHNPEICLEIGCGSGVVSTFLASVIGPQ 68 Query: 122 FKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFSSVE-GLFDVIVSNPPYIESVIV 180 + DI+ +ALE A N V D +++D S + DV+V NPPY+ + Sbjct: 69 ALYLATDINPEALEATLETARCNRV--HIDVVRTDLLSGLRNESVDVLVFNPPYVPTS-D 125 Query: 181 DCLGLEVRDFDPRISLDGGIDGLSHYRTIADGVSRHLNKDGLC-SVEIGYNQKVDVVRIF 239 + +G E + GG DG + V L+ G+ V + N+ ++++I Sbjct: 126 EEIGDEGIAS----AWAGGKDGREVTDRLLPQVPDILSPRGVFYLVALRANKPKEILKIL 181 Query: 240 ESRKL 244 E + Sbjct: 182 EKKGY 186 >gnl|CDD|30465 COG0116, COG0116, Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]. Length = 381 Score = 55.3 bits (133), Expect = 2e-08 Identities = 30/141 (21%), Positives = 47/141 (33%), Gaps = 21/141 (14%) Query: 117 KESPFFKGVGVDISCKALEIAKSNAVTNGVSER--FDTLQSDWFSSVEGLFDVIVSNPPY 174 + G DI + +E AK+NA GV + F + + V++SNPPY Sbjct: 250 RGKELPIIYGSDIDPRHIEGAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVISNPPY 309 Query: 175 IESVIVDCLGLEVRDFDPRISLDGGIDGLSHYRTIADGVSRHLNKDGLCSVEIGYNQKVD 234 E R+ + + L YR + R L V + Sbjct: 310 GE----------------RLGSEALVAKL--YREFGRTLKRLLAGWSR-YVFTTSEDLLF 350 Query: 235 VVRIFESRKLFLVNAFKDYGG 255 + + +K L N GG Sbjct: 351 CLGLRADKKRKLYNGPLKCGG 371 >gnl|CDD|32445 COG2264, PrmA, Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]. Length = 300 Score = 51.4 bits (123), Expect = 3e-07 Identities = 55/178 (30%), Positives = 75/178 (42%), Gaps = 30/178 (16%) Query: 69 SDTFEPRPETELLV--DSALAF----------SLPRIEKRD--VVRILDLGTGTGAVCLA 114 S P P EL + D LAF L +EK +LD+G G+G + +A Sbjct: 120 SWREYPEPSDELNIELDPGLAFGTGTHPTTSLCLEALEKLLKKGKTVLDVGCGSGILAIA 179 Query: 115 LLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFSS----VEGLFDVIVS 170 K K VGVDI +A+E A+ NA NGV +Q+ F G FDVIV+ Sbjct: 180 AAKLGAK-KVVGVDIDPQAVEAARENARLNGVELL---VQAKGFLLLEVPENGPFDVIVA 235 Query: 171 NPPYIESVIVDCLGLEVRDFDPRISLDGGIDGLSH-YRTIADGVSRHLNKDGLCSVEI 227 N + V+V+ R P GG LS A+ V+ + G VE+ Sbjct: 236 N--ILAEVLVELAPDIKRLLKP-----GGRLILSGILEDQAESVAEAYEQAGFEVVEV 286 >gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).. Length = 107 Score = 50.9 bits (122), Expect = 4e-07 Identities = 33/82 (40%), Positives = 45/82 (54%), Gaps = 5/82 (6%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 R+LDLG GTGA+ LAL P + GVDIS ALE+A+ A +++ + L+ D Sbjct: 1 RVLDLGCGTGALALALA-SGPGARVTGVDISPVALELARKAA-AALLADNVEVLKGDAEE 58 Query: 160 SVEGL---FDVIVSNPPYIESV 178 FDVI+S+PP V Sbjct: 59 LPPEADESFDVIISDPPLHHLV 80 >gnl|CDD|32444 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal structure and biogenesis]. Length = 198 Score = 46.4 bits (110), Expect = 7e-06 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 4/75 (5%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 +LDLG GTG + + + + VDI +ALEIA++NA + + +D S Sbjct: 48 TVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLG--DVEFVVAD-VS 103 Query: 160 SVEGLFDVIVSNPPY 174 G FD ++ NPP+ Sbjct: 104 DFRGKFDTVIMNPPF 118 >gnl|CDD|36485 KOG1271, KOG1271, KOG1271, Methyltransferases [General function prediction only]. Length = 227 Score = 46.5 bits (110), Expect = 8e-06 Identities = 33/96 (34%), Positives = 48/96 (50%), Gaps = 12/96 (12%) Query: 78 TELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIA 137 + L D + R+ K R+LDLGTG G + L KE K GVD S KA+E+A Sbjct: 52 VDWLKDLIVIS---RVSK-QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELA 107 Query: 138 KSNAVTNGVS-----ERFDTLQSDWFSSVEGLFDVI 168 ++ A +G S ++ D D+ S G FD++ Sbjct: 108 QNIAERDGFSNEIRFQQLDITDPDFLS---GQFDLV 140 >gnl|CDD|32409 COG2227, UbiG, 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]. Length = 243 Score = 44.9 bits (106), Expect = 2e-05 Identities = 27/92 (29%), Positives = 44/92 (47%), Gaps = 7/92 (7%) Query: 99 VRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWF 158 +R+LD+G G G + L + G+D S K +E+AK +A+ +GV+ + + Sbjct: 61 LRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDL 118 Query: 159 SSVEGLFDVIVSNP-----PYIESVIVDCLGL 185 +S G FDV+ P ES + C L Sbjct: 119 ASAGGQFDVVTCMEVLEHVPDPESFLRACAKL 150 >gnl|CDD|110191 pfam01170, UPF0020, Putative RNA methylase family UPF0020. This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains. Length = 171 Score = 44.6 bits (106), Expect = 3e-05 Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 6/82 (7%) Query: 100 RILD--LGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSD- 156 +LD G+GT + AL+ + G DI + + A+ NA GV ++ + +Q+D Sbjct: 31 PLLDPFCGSGTILIEAALMGANVAL--YGSDIDRRMVRGARINAEAAGVGDKIEFVQADA 88 Query: 157 -WFSSVEGLFDVIVSNPPYIES 177 + G D IV++PPY Sbjct: 89 ADLPLLNGSVDTIVTDPPYGIR 110 >gnl|CDD|32052 COG1867, TRM1, N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]. Length = 380 Score = 44.1 bits (104), Expect = 3e-05 Identities = 33/128 (25%), Positives = 51/128 (39%), Gaps = 23/128 (17%) Query: 60 FYNVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKES 119 FYN + + D L V AF K R+LD + TG + E+ Sbjct: 29 FYNPAMEFNRD---------LSVLVLKAFG-----KLLPKRVLDALSATGIRGIRYAVET 74 Query: 120 PFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWF---SSVEGLFDVIVSNP---- 172 K V DIS KA+E+ K N N + + + D + FDVI +P Sbjct: 75 GVVKVVLNDISPKAVELIKENVRLNSGEDA-EVINKDANALLHELHRAFDVIDIDPFGSP 133 Query: 173 -PYIESVI 179 P++++ + Sbjct: 134 APFLDAAL 141 >gnl|CDD|32446 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]. Length = 432 Score = 43.4 bits (102), Expect = 6e-05 Identities = 42/158 (26%), Positives = 67/158 (42%), Gaps = 25/158 (15%) Query: 33 RQRFFLTNAIVRSLKHESIHRILGWRDFYN---------VRLTLSSDTF-EPRPE-TELL 81 + F IV+++ + I G + V +S +F + P E L Sbjct: 222 LEAFPEIKGIVQNINRAKTNVIEGDEEITLYGLESIREGVSFQISPRSFFQVNPAVAEKL 281 Query: 82 VDSALAFSLPRIEKRDVVRILDL--GTGTGAVCLALLKESPFFKGVGVDISCKALEIAKS 139 ++AL + +E R+LDL G GT + LA K GV+IS +A+E A+ Sbjct: 282 YETALEW----LELAGGERVLDLYCGVGTFGLPLA----KRVKKVHGVEISPEAVEAAQE 333 Query: 140 NAVTNGVS-ERFDTLQSDWFSSV---EGLFDVIVSNPP 173 NA NG+ F ++ F+ DV+V +PP Sbjct: 334 NAAANGIDNVEFIAGDAEEFTPAWWEGYKPDVVVVDPP 371 >gnl|CDD|31289 COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]. Length = 393 Score = 41.5 bits (97), Expect = 2e-04 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 8/81 (9%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSE-RFDTLQSDWF 158 R+L+L + TG + + VD+S +ALE A+ NA NG+ R + D F Sbjct: 220 RVLNLFSYTGGFSVHAALGGAS-EVTSVDLSKRALEWARENAELNGLDGDRHRFIVGDVF 278 Query: 159 SSVEGL------FDVIVSNPP 173 + FD+I+ +PP Sbjct: 279 KWLRKAERRGEKFDLIILDPP 299 >gnl|CDD|32408 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]. Length = 238 Score = 40.6 bits (95), Expect = 4e-04 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 9/76 (11%) Query: 81 LVDSALAFSLPRIEKRDVV---------RILDLGTGTGAVCLALLKESPFFKGVGVDISC 131 L++ ++F L R+ +R ++ ++LD+ GTG + L L K + VG+DIS Sbjct: 26 LMNDLMSFGLHRLWRRALISLLGIKPGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISE 85 Query: 132 KALEIAKSNAVTNGVS 147 LE+A+ GV Sbjct: 86 SMLEVAREKLKKKGVQ 101 >gnl|CDD|30634 COG0286, HsdM, Type I restriction-modification system methyltransferase subunit [Defense mechanisms]. Length = 489 Score = 39.6 bits (92), Expect = 0.001 Identities = 30/114 (26%), Positives = 50/114 (43%), Gaps = 19/114 (16%) Query: 72 FEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCL---ALLKESPFFKGV-GV 127 + PR +EL+V+ L E R+ I D G+G + L LK + G Sbjct: 169 YTPREVSELIVE------LLDPEPRN--SIYDPACGSGGMLLQAAKYLKRHQDEIFIYGQ 220 Query: 128 DISCKALEIAKSNAVTNGVSERF-----DTLQSDWFSS--VEGLFDVIVSNPPY 174 +I+ +AK N + +G+ DTL + +G FD +++NPP+ Sbjct: 221 EINDTTYRLAKMNLILHGIEGDANIRHGDTLSNPKHDDKDDKGKFDFVIANPPF 274 >gnl|CDD|111293 pfam02384, N6_Mtase, N-6 DNA Methylase. Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The R-M system is a complex containing three polypeptides: M (this family), S (pfam01420), and R. This family consists of N-6 adenine-specific DNA methylase EC:2.1.1.72 from Type I and Type IC restriction systems. These methylases have the same sequence specificity as their corresponding restriction enzymes. Length = 312 Score = 38.8 bits (91), Expect = 0.002 Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 28/119 (23%) Query: 72 FEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKG------- 124 + PR ++L+V+ +E + I D G+G L++ F K Sbjct: 29 YTPREVSKLIVE--------LLEPKPGESIYDPACGSGGF---LIQADKFVKSHDGDTND 77 Query: 125 ---VGVDISCKALEIAKSNAVTNGVS-ERF-----DTLQSDWFSSVEGLFDVIVSNPPY 174 G +++ +A+ N + +G+ F DTL S F + FDV+V+NPP+ Sbjct: 78 ISIYGQELNPTTYRLARMNMILHGIEYNDFGIRHGDTLLSPKFEEDKK-FDVVVANPPF 135 >gnl|CDD|32411 COG2230, Cfa, Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]. Length = 283 Score = 38.3 bits (89), Expect = 0.002 Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 2/71 (2%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 +LD+G G G + + +E VGV +S + L A+ G+ + + D+ Sbjct: 75 TLLDIGCGWGGLAIYAAEEYG-VTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDY-R 132 Query: 160 SVEGLFDVIVS 170 E FD IVS Sbjct: 133 DFEEPFDRIVS 143 >gnl|CDD|32423 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism]. Length = 187 Score = 37.1 bits (86), Expect = 0.005 Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 2/63 (3%) Query: 85 ALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTN 144 AL S R D R+ D+G GTG++ + P + + ++ +ALE+ + NA Sbjct: 24 ALTLSKLRPRPGD--RLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARF 81 Query: 145 GVS 147 GV Sbjct: 82 GVD 84 >gnl|CDD|38630 KOG3420, KOG3420, KOG3420, Predicted RNA methylase [Translation, ribosomal structure and biogenesis]. Length = 185 Score = 36.9 bits (85), Expect = 0.006 Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 5/77 (6%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 ++ DLG G G + +A +G DI +ALEI NA V + D LQ D Sbjct: 51 KLKDLGCGCGMLSIAFSMPKNESV-LGFDIDPEALEIFTRNAEEFEV--QIDLLQCDILD 107 Query: 160 --SVEGLFDVIVSNPPY 174 G+FD V NPP+ Sbjct: 108 LELKGGIFDTAVINPPF 124 >gnl|CDD|32589 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]. Length = 256 Score = 36.4 bits (84), Expect = 0.008 Identities = 28/152 (18%), Positives = 52/152 (34%), Gaps = 7/152 (4%) Query: 22 VIVDPDSVLDDRQRFFLTNAIVRSLKHESIHRILGWRDFYNVRLTLSS--DTFEPRPETE 79 V + P + ++ E I LG FY ++ T + + R + Sbjct: 20 VRLTPGEKFHTDLGIIPHDEVIGKPYGEVIKSHLG-VKFYVLKPTPEDYLLSMKRRTQII 78 Query: 80 LLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLK-ESPFFKGVGVDISCKALEIAK 138 D+ + I R+L+ GTG+GA+ L + P +I + A+ Sbjct: 79 YPKDAGYIVARLGISPGS--RVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTAR 136 Query: 139 SNAVTNGVSERFDTLQSDWFSSVEGL-FDVIV 169 N G+ +R D ++ D + Sbjct: 137 ENLSEFGLGDRVTLKLGDVREGIDEEDVDAVF 168 >gnl|CDD|37941 KOG2730, KOG2730, KOG2730, Methylase [General function prediction only]. Length = 263 Score = 36.1 bits (83), Expect = 0.010 Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 8/81 (9%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 I+D G G + + P+ + +DI + A+ NA GV +R + D+ Sbjct: 97 VIVDAFCGVGGNTIQFALQGPYV--IAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD 154 Query: 160 SVEGL------FDVIVSNPPY 174 L +D + +PP+ Sbjct: 155 LASKLKADKIKYDCVFLSPPW 175 >gnl|CDD|31085 COG0742, COG0742, N6-adenine-specific methylase [DNA replication, recombination, and repair]. Length = 187 Score = 35.6 bits (82), Expect = 0.013 Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 6/91 (6%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 R+LDL G+GA+ L L + V V+ KA++I K N G+ L++D Sbjct: 46 RVLDLFAGSGALGLEALSRG-AARVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALR 104 Query: 160 SVEGL-----FDVIVSNPPYIESVIVDCLGL 185 +++ L FD++ +PPY + ++ L L Sbjct: 105 ALKQLGTREPFDLVFLDPPYAKGLLDKELAL 135 >gnl|CDD|37398 KOG2187, KOG2187, KOG2187, tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]. Length = 534 Score = 34.6 bits (79), Expect = 0.030 Identities = 29/80 (36%), Positives = 42/80 (52%), Gaps = 9/80 (11%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSE-RFDTLQS-DWF 158 +LD+ GTG + LAL + +GV+IS A+E A+ NA NG+S F Q+ D F Sbjct: 387 LLDVCCGTGTIGLAL--ARGVKRVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLF 444 Query: 159 SSVEG-LFD----VIVSNPP 173 S+ D V + +PP Sbjct: 445 PSLLTPCCDSETLVAIIDPP 464 >gnl|CDD|32943 COG3129, COG3129, Predicted SAM-dependent methyltransferase [General function prediction only]. Length = 292 Score = 34.2 bits (78), Expect = 0.033 Identities = 28/89 (31%), Positives = 45/89 (50%), Gaps = 12/89 (13%) Query: 99 VRILDLGTGTGAVCL-ALLKESPF-FKGVGVDISCKALEIAKSNAVTNGVSERFDTL--Q 154 +RILD+G G A C+ L+ + ++ VG +I ++L AK+ N ER L Q Sbjct: 80 IRILDIGVG--ANCIYPLIGVHEYGWRFVGSEIDSQSLSSAKAIISANPGLERAIRLRRQ 137 Query: 155 SD---WFSSVEGL---FDVIVSNPPYIES 177 D F+ + G +D + NPP+ +S Sbjct: 138 KDSDAIFNGIIGKNERYDATLCNPPFHDS 166 >gnl|CDD|32530 COG2384, COG2384, Predicted SAM-dependent methyltransferase [General function prediction only]. Length = 226 Score = 34.1 bits (78), Expect = 0.038 Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 2/76 (2%) Query: 96 RDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQS 155 + RI D+G+ + + L+K +P V ++ LE A N N +SER D Sbjct: 15 KQGARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLG 74 Query: 156 DWFSSVE--GLFDVIV 169 D + +E DVIV Sbjct: 75 DGLAVLELEDEIDVIV 90 >gnl|CDD|33985 COG4262, COG4262, Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]. Length = 508 Score = 33.0 bits (75), Expect = 0.085 Identities = 39/157 (24%), Positives = 59/157 (37%), Gaps = 30/157 (19%) Query: 78 TELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIA 137 E LV AL+ + +L LG G G LLK + VD+ + +E+A Sbjct: 276 HESLVYPALSS-VRGAR-----SVLVLGGGDGLALRELLKYPQVEQITLVDLDPRMIELA 329 Query: 138 KSNAVTNGVSE------RFDTLQSDWFSSVEGLFDVIVSNPPYIESVIVDCLGLEVRDFD 191 V +++ R + D F + D+ + VIVD D Sbjct: 330 SHATVLRALNQGSFSDPRVTVVNDDAFQWLRTAADM-------FDVVIVDLP-------D 375 Query: 192 PRISLDGGIDGLSHYRTIADGVSRHLNKDGLCSVEIG 228 P G + + YR + SRHL + GL V+ G Sbjct: 376 PSTPSIGRLYSVEFYRLL----SRHLAETGLMVVQAG 408 >gnl|CDD|37572 KOG2361, KOG2361, KOG2361, Predicted methyltransferase [General function prediction only]. Length = 264 Score = 33.0 bits (75), Expect = 0.089 Identities = 32/137 (23%), Positives = 52/137 (37%), Gaps = 11/137 (8%) Query: 44 RSLKHESIHRILG-WRDFYNVRLTLSSDTFEPRPETELLVDSALAF----SLPRIEKRDV 98 + +K +S R+L Y + DTF E D L ++++ Sbjct: 13 KKVKEQSASRVLEEEVVKYEREASKYWDTFYKIHENRFFKDRNWLLREFPELLPVDEKSA 72 Query: 99 VRILDLGTGTGAVCLALLKESP--FFKGVGVDISCKALEIAKSNA---VTNGVSERFDTL 153 IL++G G G LLK SP K D S +A+E+ K ++ + + +D Sbjct: 73 ETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLT 132 Query: 154 QSDWFSSVE-GLFDVIV 169 E G D+I Sbjct: 133 SPSLKEPPEEGSVDIIT 149 >gnl|CDD|145274 pfam02005, TRM, N2,N2-dimethylguanosine tRNA methyltransferase. This enzyme EC:2.1.1.32 used S-AdoMet to methylate tRNA. The TRM1 gene of Saccharomyces cerevisiae is necessary for the N2,N2-dimethylguanosine modification of both mitochondrial and cytoplasmic tRNAs. The enzyme is found in both eukaryotes and archaebacteria. Length = 375 Score = 32.3 bits (74), Expect = 0.13 Identities = 32/129 (24%), Positives = 49/129 (37%), Gaps = 18/129 (13%) Query: 60 FYNVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKES 119 FYN R+ + D L V +L + + +LD + +G + E Sbjct: 21 FYNPRMEFNRD---------LSVTVIRQLNLLHKKLGRGIIVLDALSASGIRAIRFALEV 71 Query: 120 PFFKGVGV-DISCKALEIAKSNAVTNGVSERFDTLQSD---WFSSVEGLFDVIVSNP--- 172 P + V DIS KA+E+ K N N V D FDVI +P Sbjct: 72 PGVEEVFANDISPKAVELIKENVKLNEVENIVVINGDDANMLMRENHRRFDVIDLDPFGS 131 Query: 173 --PYIESVI 179 P+++S + Sbjct: 132 PAPFLDSAV 140 >gnl|CDD|30846 COG0500, SmtA, SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]. Length = 257 Score = 31.7 bits (68), Expect = 0.20 Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 6/80 (7%) Query: 100 RILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFS 159 +LD+G GTG + L VGVD+S + L +A++ A G+ D + +D Sbjct: 51 GVLDIGCGTGRLALLARLGGRGAYVVGVDLSPEMLALARARAEGAGL-GLVDFVVADALG 109 Query: 160 SVEGL-----FDVIVSNPPY 174 V FD+++S Sbjct: 110 GVLPFEDSASFDLVISLLVL 129 >gnl|CDD|111429 pfam02527, GidB, rRNA small subunit methyltransferase G. This is a family of bacterial glucose inhibited division proteins these are probably involved in the regulation of cell devision. GidB has been shown to be a methyltransferase G specific to the rRNA small subunit. Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. GidB specifically methylates the N7 position of a guanosine in 16S rRNA. Length = 184 Score = 31.1 bits (71), Expect = 0.30 Identities = 26/129 (20%), Positives = 52/129 (40%), Gaps = 22/129 (17%) Query: 53 RILGWRDFYNVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTG--A 110 +L W N R L+S T L+DS + +++ D+G+G G Sbjct: 11 LLLEW----NKRYNLTSITEPNELLERHLLDSLVVLEY---LDNIRIKVADVGSGAGFPG 63 Query: 111 VCLAL-------------LKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDW 157 + LA+ LK+ F + + +++ + + I + A E++D + S Sbjct: 64 IPLAIAFPDKKLTLLESLLKKINFLEELKKELNLENVTIVHARAEEYQHEEQYDVITSRA 123 Query: 158 FSSVEGLFD 166 +S+ L + Sbjct: 124 VASLNELTE 132 >gnl|CDD|32590 COG2520, COG2520, Predicted methyltransferase [General function prediction only]. Length = 341 Score = 31.0 bits (70), Expect = 0.37 Identities = 27/108 (25%), Positives = 42/108 (38%), Gaps = 12/108 (11%) Query: 78 TELLVDSALAFSLPR--IEKRDVV-------RILDLGTGTGAVCLALLKESPFFKGVGVD 128 VD A + PR E+ V +LD+ G G + + K+ K +D Sbjct: 160 CRFKVDVAKVYFSPRLSTERARVAELVKEGETVLDMFAGVGPFSIPIAKKGRP-KVYAID 218 Query: 129 ISCKALEIAKSNAVTNGVSERFDTLQSD--WFSSVEGLFDVIVSNPPY 174 I+ A+E K N N V R + + D + G+ D I+ P Sbjct: 219 INPDAVEYLKENIRLNKVEGRVEPILGDAREVAPELGVADRIIMGLPK 266 >gnl|CDD|33879 COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]. Length = 219 Score = 30.7 bits (69), Expect = 0.45 Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 8/75 (10%) Query: 76 PETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPF-FKGVGVDISCKAL 134 PET L+ S P+ RIL++GT G L + P + ++ + Sbjct: 45 PETGALLRLLARLSGPK-------RILEIGTAIGYSALWMALALPDDGRLTTIERDEERA 97 Query: 135 EIAKSNAVTNGVSER 149 EIA+ N GV +R Sbjct: 98 EIARENLAEAGVDDR 112 >gnl|CDD|34582 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat) [General function prediction only]. Length = 287 Score = 30.3 bits (68), Expect = 0.49 Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 16/77 (20%) Query: 69 SDTFEPRPETELLVDSALAFSLP--------RIEKRDVVRILDLGTGTGAVCLALLKESP 120 ++ F+ +LVD L +S+P + + R+LDLG GTG AL + Sbjct: 95 AERFD-----HILVDK-LGYSVPELLAEMIGKADLGPFRRMLDLGCGTGLTGEALRDMAD 148 Query: 121 FFKGVGVDISCKALEIA 137 GVDIS L A Sbjct: 149 RLT--GVDISENMLAKA 163 >gnl|CDD|39261 KOG4058, KOG4058, KOG4058, Uncharacterized conserved protein [Function unknown]. Length = 199 Score = 30.0 bits (67), Expect = 0.64 Identities = 19/104 (18%), Positives = 44/104 (42%), Gaps = 2/104 (1%) Query: 86 LAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNG 145 + L + +++DLG+G G + LA + VGV+++ + ++ +A G Sbjct: 61 VENVLSLLRGNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNPWLVAYSRLHAWRAG 119 Query: 146 VSERFDTLQSD-WFSSVEGLFDVIVSNPPYIESVIVDCLGLEVR 188 ++ + D W + +V++ + + D L E+ Sbjct: 120 CAKSTRFRRKDLWKVDLRDYRNVVIFGAESVMPDLEDKLRTELP 163 >gnl|CDD|30380 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]. Length = 259 Score = 29.8 bits (67), Expect = 0.69 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 12/87 (13%) Query: 93 IEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISC-----KALEIAKSNAVTNGVS 147 +L++G G GA+ LL+ + + +D + + V NG Sbjct: 26 ANISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVING-- 83 Query: 148 ERFDTLQSDWFSSVEGLFDVIVSNPPY 174 D L+ D+ S + +V+N PY Sbjct: 84 ---DALKFDFPSLAQ--PYKVVANLPY 105 >gnl|CDD|31543 COG1352, CheR, Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]. Length = 268 Score = 29.9 bits (67), Expect = 0.72 Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 10/92 (10%) Query: 57 WRDFYNVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTG------A 110 + F + LT++ F PE + + L + +K +RI TG A Sbjct: 57 LQAFLD-ALTINVTEFFRDPEHFEELRDEVLPELVKRKKGRPIRIWSAACSTGEEPYSLA 115 Query: 111 VCLA---LLKESPFFKGVGVDISCKALEIAKS 139 + L K + DI LE A++ Sbjct: 116 MLLLEALGKLAGFRVKILATDIDLSVLEKARA 147 >gnl|CDD|36874 KOG1661, KOG1661, KOG1661, Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]. Length = 237 Score = 29.9 bits (67), Expect = 0.78 Identities = 24/122 (19%), Positives = 44/122 (36%), Gaps = 17/122 (13%) Query: 31 DDRQRFFLTNAIVRSLKHESIHRILGWRDFYNVRLTLSSDTFEPRPETELLVDSALAFSL 90 DD N I+R+ + E R D+ + P+ + L S Sbjct: 11 DDLIDNLRENKIIRTRRVEQAMRATDRSDYAPRSERTNPYMDSPQK-----IGYNLTISA 65 Query: 91 PRIEK------RDVVR----ILDLGTGTG--AVCLALLKESPFFKGVGVDISCKALEIAK 138 P + D ++ LD+G+G+G C A + + G++ + +E +K Sbjct: 66 PHMHATALEYLDDHLQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSK 125 Query: 139 SN 140 N Sbjct: 126 KN 127 >gnl|CDD|30770 COG0421, SpeE, Spermidine synthase [Amino acid transport and metabolism]. Length = 282 Score = 29.2 bits (65), Expect = 1.1 Identities = 23/109 (21%), Positives = 40/109 (36%), Gaps = 12/109 (11%) Query: 69 SDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVD 128 + E+L L + P + R+L +G G G +LK P + V+ Sbjct: 54 LTERDEFIYHEMLAHVPL-LAHPNPK-----RVLIIGGGDGGTLREVLKHLPVERITMVE 107 Query: 129 ISCKALEIAKS---NAVTNGVSERFDTLQSD---WFSSVEGLFDVIVSN 171 I +E+A+ R + + D + E FDVI+ + Sbjct: 108 IDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVIIVD 156 >gnl|CDD|33863 COG4106, Tam, Trans-aconitate methyltransferase [General function prediction only]. Length = 257 Score = 29.1 bits (65), Expect = 1.1 Identities = 23/97 (23%), Positives = 34/97 (35%), Gaps = 14/97 (14%) Query: 75 RPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKAL 134 RP +LL R+ R++DLG G G L + P G+D S L Sbjct: 17 RPARDLLA---------RVPLERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAML 67 Query: 135 EIAKSNAVTNGVSERFDTLQSDWFSSVEGLFDVIVSN 171 A + + E D W D++ +N Sbjct: 68 AKAAQ-RLPDATFEEADL--RTWKPEQP--TDLLFAN 99 >gnl|CDD|38220 KOG3010, KOG3010, KOG3010, Methyltransferase [General function prediction only]. Length = 261 Score = 29.1 bits (65), Expect = 1.2 Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 2/38 (5%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAK 138 D+GTG G + + + + D+S L++AK Sbjct: 37 AWDVGTGNGQAARGI--AEHYKEVIATDVSEAMLKVAK 72 >gnl|CDD|36754 KOG1541, KOG1541, KOG1541, Predicted protein carboxyl methylase [General function prediction only]. Length = 270 Score = 28.8 bits (64), Expect = 1.6 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 2/47 (4%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVS 147 ILD+G G+G L + +GVDIS LE A + + Sbjct: 54 ILDIGCGSGLSGSVLSDSGHQW--IGVDISPSMLEQAVERELEGDLI 98 >gnl|CDD|36038 KOG0820, KOG0820, KOG0820, Ribosomal RNA adenine dimethylase [RNA processing and modification]. Length = 315 Score = 28.8 bits (64), Expect = 1.6 Identities = 24/75 (32%), Positives = 36/75 (48%), Gaps = 4/75 (5%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCK-ALEIAKSNAVTNGVSERFDTLQSDWFS 159 +L++G GTG + + LL+ K V V+I + E+ K T S + L D+ Sbjct: 62 VLEVGPGTGNLTVKLLEAGK--KVVAVEIDPRMVAELEKRVQGTP-KSGKLQVLHGDFLK 118 Query: 160 SVEGLFDVIVSNPPY 174 + FD VSN PY Sbjct: 119 TDLPRFDGCVSNLPY 133 >gnl|CDD|147130 pfam04816, DUF633, Family of unknown function (DUF633). This family of proteins are uncharacterized have no known function. Length = 204 Score = 28.4 bits (64), Expect = 1.8 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 2/71 (2%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFSS 160 + D+G+ + + L+K + + +++ L+ A N +G++ER D D + Sbjct: 1 LADIGSDHAYLPIYLVKNNLASFAIAGEVNKGPLQSAVKNVKKSGLTERIDVRLGDGLAV 60 Query: 161 VE--GLFDVIV 169 +E L DVIV Sbjct: 61 IEELDLIDVIV 71 >gnl|CDD|30706 COG0357, GidB, Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]. Length = 215 Score = 28.4 bits (63), Expect = 2.0 Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 10/71 (14%) Query: 61 YNVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTG--AVCLALLKE 118 +N L++ ++DS + R+LD+G+G G + LA+ Sbjct: 34 WNKAYNLTAIRDPEELWQRHILDSLVLL---PYLDGKAKRVLDIGSGAGFPGIPLAI--- 87 Query: 119 SPFFKGVGVDI 129 F + V + Sbjct: 88 --AFPDLKVTL 96 >gnl|CDD|110158 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT). Length = 205 Score = 28.1 bits (63), Expect = 2.3 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 3/56 (5%) Query: 87 AFSLPRIEKRDVVRILDLGTGTG--AVCLALLKESPFFKGVGVDISCKALEIAKSN 140 A L +E + +R+L++G+G+G C A + + V ++ + +EIA+ N Sbjct: 63 AMMLELLELKPGMRVLEIGSGSGYLTACFARMV-GEVGRVVSIEHIPELVEIARRN 117 >gnl|CDD|144964 pfam01564, Spermine_synth, Spermine/spermidine synthase. Spermine and spermidine are polyamines. This family includes spermidine synthase that catalyses the fifth (last) step in the biosynthesis of spermidine from arginine, and spermine synthase. Length = 240 Score = 28.0 bits (63), Expect = 2.5 Identities = 36/155 (23%), Positives = 54/155 (34%), Gaps = 40/155 (25%) Query: 77 ETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEI 136 E++ L S P +K +L +G G G ++K K V+I K +E Sbjct: 61 YHEMIAHVPL-CSHPNPKK-----VLIIGGGDGGALREVVKHPSVEKITLVEIDEKVIEF 114 Query: 137 AKSNAVTNGVS---ERFDTLQSDWFSSVEGL---FDVIVSNPPYIESVIVDCLGLEVRDF 190 +K + R + D F ++ FDVI IVD Sbjct: 115 SKKFLPSLAGGFDDPRVKVVIGDGFKFLKDYLVKFDVI----------IVDST------- 157 Query: 191 DPRISLDGGIDGL---SHYRTIADGVSRHLNKDGL 222 DP G + L Y D + R L +DG+ Sbjct: 158 DP----VGPAENLFSKEFY----DLLKRALKEDGV 184 >gnl|CDD|36753 KOG1540, KOG1540, KOG1540, Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]. Length = 296 Score = 27.6 bits (61), Expect = 3.2 Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 6/64 (9%) Query: 92 RIEKRDVVRILDLGTGTGAVCLALLKESPFFKG------VGVDISCKALEIAKSNAVTNG 145 ++ +++LD+ GTG + +L+ G +DI+ L + K A Sbjct: 95 KLGPGKGMKVLDVAGGTGDIAFRILRHVKSQFGDRESKVTVLDINPHMLAVGKQRAKKRP 154 Query: 146 VSER 149 + Sbjct: 155 LKAS 158 >gnl|CDD|153374 cd07362, HPCD_like, Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. This subfamily of class III extradiol dioxygenases consists of two types of proteins with known enzymatic activities; 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) and 2-amino-5-chlorophenol 1,6-dioxygenase. HPCD catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield the product alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. 2-amino-5-chlorophenol 1,6-dioxygenase catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. The enzyme is probably a heterotetramer composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and both belong to this family. Like all Class III extradiol dioxygenases, these enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Length = 272 Score = 27.5 bits (61), Expect = 4.3 Identities = 15/61 (24%), Positives = 20/61 (32%), Gaps = 3/61 (4%) Query: 79 ELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAK 138 LLV+ L D I D GT V L L + V + A + + Sbjct: 96 RLLVEEGQEAGLRVKAVNDPTYIWDYGT---VVPLRYLNPNKDIPVVSISACWTAASLEE 152 Query: 139 S 139 S Sbjct: 153 S 153 >gnl|CDD|31295 COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]. Length = 129 Score = 27.5 bits (61), Expect = 4.4 Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%) Query: 187 VRDFDPRISLDGGIDGLSHYRTIADGVSRHLNKDGLCSVEIGYNQKVDVVRIFESRKLFL 246 + + + L+GG GL H IADG + ++ +++G KV V+ I E+ K+ L Sbjct: 16 ITPYGAFVELEGGKTGLVHISEIADGFVKDIHD----HLKVGQEVKVKVLDIDENGKISL 71 >gnl|CDD|36712 KOG1499, KOG1499, KOG1499, Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones, Transcription, Signal transduction mechanisms]. Length = 346 Score = 27.1 bits (60), Expect = 4.7 Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 12/76 (15%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVTNGVSERFDTLQSDWFSS 160 +LD+G GTG + + K K V+ S A + A+ NG+ + ++ Sbjct: 64 VLDVGCGTGILSMFAAKAGA-RKVYAVEASSIA-DFARKIVKDNGLEDVITVIKGK---- 117 Query: 161 VEGL------FDVIVS 170 VE + D+IVS Sbjct: 118 VEDIELPVEKVDIIVS 133 >gnl|CDD|176202 cd08240, 6_hydroxyhexanoate_dh_like, 6-hydroxyhexanoate dehydrogenase. 6-hydroxyhexanoate dehydrogenase, an enzyme of the zinc-dependent alcohol dehydrogenase-like family of medium chain dehydrogenases/reductases catalyzes the conversion of 6-hydroxyhexanoate and NAD(+) to 6-oxohexanoate + NADH and H+. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. NAD(H)-binding occurs in the cleft between the catalytic and coenzyme-binding domains, at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine, the ribose of NAD, a serine, then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction. Length = 350 Score = 26.8 bits (60), Expect = 6.4 Identities = 24/86 (27%), Positives = 35/86 (40%), Gaps = 2/86 (2%) Query: 84 SALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPFFKGVGVDISCKALEIAKSNAVT 143 SA+ +P + VV I+ G G G + LALLK + VDI LE AK+ Sbjct: 165 SAVKKLMPLVADEPVV-IIGAG-GLGLMALALLKALGPANIIVVDIDEAKLEAAKAAGAD 222 Query: 144 NGVSERFDTLQSDWFSSVEGLFDVIV 169 V+ + G D ++ Sbjct: 223 VVVNGSDPDAAKRIIKAAGGGVDAVI 248 >gnl|CDD|173748 cd07853, STKc_NLK, Catalytic domain of the Serine/Threonine Kinase, Nemo-Like Kinase. Serine/Threonine Kinases (STKs), Nemo-Like Kinase (NLK) subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The NLK subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. Mitogen-activated protein kinases (MAPKs) are important mediators of cellular responses to extracellular signals. NLK is an atypical MAPK that is not regulated by a MAPK kinase. It functions downstream of the MAPK kinase kinase Tak1, which also plays a role in activating the JNK and p38 MAPKs. The Tak1/NLK pathways are regulated by Wnts, a family of secreted proteins that is critical in the control of asymmetric division and cell polarity. NLK can phosphorylate transcription factors from the TCF/LEF family, inhibiting their ability to activate the transcription of target genes. In prostate cancer cells, NLK is involved in regulating androgen receptor-mediated transcription and its expression is altered during cancer progression. Length = 372 Score = 26.6 bits (59), Expect = 6.4 Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%) Query: 20 HQVIVDPDSVLDDRQRFFLTNAIVRSLKHESIHRIL 55 H++IV P + D + FL I+R LK+ IL Sbjct: 91 HKIIVSPQPLSSDHVKVFLYQ-ILRGLKYLHSAGIL 125 >gnl|CDD|30495 COG0146, HyuB, N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]. Length = 563 Score = 26.3 bits (58), Expect = 7.7 Identities = 25/97 (25%), Positives = 33/97 (34%), Gaps = 15/97 (15%) Query: 174 YIESVIVDCLGLEVRDFDPRIS-----------LDGGIDGLSHYRTIADGVSRHLNKDGL 222 I VI L P S ++ G ++Y TI G KDGL Sbjct: 340 RIADVIFGALAQAAPGRVPAASQGTMNNVTFGGINQKGRGFAYYETIGGGSGAGPGKDGL 399 Query: 223 CSVEIGY-NQKVDVVRIFESRKLFLVNAF---KDYGG 255 V N + + I E R L+ AF + GG Sbjct: 400 DGVHTHMTNTRNTPIEILERRYPVLLEAFSLREGSGG 436 >gnl|CDD|37882 KOG2671, KOG2671, KOG2671, Putative RNA methylase [Replication, recombination and repair]. Length = 421 Score = 26.4 bits (58), Expect = 8.0 Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 13/85 (15%) Query: 101 ILDLGTGTGAVCLALLKESPFFKGVGVDISC-----KALEIAKSNAVTNGVSERF-DTLQ 154 + D GTG++ ++ + G +D E K+N G S +F D L Sbjct: 212 VYDPFVGTGSLLVSAAHFGAYVIGTDIDYRTVRAGRGEDESIKANFKQYGSSSQFLDVLT 271 Query: 155 SD-----WFSSVEGLFDVIVSNPPY 174 +D S++ FD IV +PPY Sbjct: 272 ADFSNPPLRSNL--KFDAIVCDPPY 294 >gnl|CDD|36585 KOG1371, KOG1371, KOG1371, UDP-glucose 4-epimerase/UDP-sulfoquinovose synthase [Cell wall/membrane/envelope biogenesis]. Length = 343 Score = 26.4 bits (58), Expect = 8.1 Identities = 30/128 (23%), Positives = 54/128 (42%), Gaps = 13/128 (10%) Query: 7 SHSFLCRVTGLSSHQVI-VDPDSVLDDRQRFFLTNAIVRSLKHESIHRILGW----RDFY 61 + ++ +VTGL VI P + + + N ++ + +I R RD+ Sbjct: 168 NKAYGWKVTGLRYFNVIGAHPSGRIGE-APLGIPNNLLPYVFQVAIGRRPNLQVVGRDYT 226 Query: 62 NVRLTLSSDTFEPRPETELLVDSALAFSLPRIEKRDVVRILDLGTGTGAVCLALLKESPF 121 + T+ D L D +A +L ++ + +LGTG G+ L L+ + F Sbjct: 227 TIDGTIVRDYIHVLD----LADGHVA-ALGKLRGAAEFGVYNLGTGKGSSVLELV--TAF 279 Query: 122 FKGVGVDI 129 K +GV I Sbjct: 280 EKALGVKI 287 >gnl|CDD|30885 COG0539, RpsA, Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]. Length = 541 Score = 26.4 bits (58), Expect = 9.1 Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 4/46 (8%) Query: 198 GGIDGLSHYRTIADGVSRHLNKDGLCSVEIGYNQKVDVVRIFESRK 243 GG+DGL H I+ H ++ V++G KV V+ + E R Sbjct: 213 GGVDGLLHISEISWKRVDHPSE----VVKVGDEVKVKVISLDEERG 254 >gnl|CDD|36040 KOG0822, KOG0822, KOG0822, Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]. Length = 649 Score = 26.1 bits (57), Expect = 9.5 Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 12/81 (14%) Query: 49 ESIHRILGWRDFYNVRLTLSSD--------TFEPRP----ETELLVDSALAFSLPRIEKR 96 S H++L ++D+ L SD TFE P + + + AL +P + Sbjct: 307 NSEHQLLSYKDYLQAPLQPLSDNLENQTYETFEKDPVKYDQYQQAILKALLDRVPDESAK 366 Query: 97 DVVRILDLGTGTGAVCLALLK 117 I+ LG G G + A LK Sbjct: 367 TTTVIMVLGAGRGPLVDASLK 387 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.324 0.141 0.418 Gapped Lambda K H 0.267 0.0796 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,272,378 Number of extensions: 173596 Number of successful extensions: 478 Number of sequences better than 10.0: 1 Number of HSP's gapped: 453 Number of HSP's successfully gapped: 74 Length of query: 264 Length of database: 6,263,737 Length adjustment: 92 Effective length of query: 172 Effective length of database: 4,275,709 Effective search space: 735421948 Effective search space used: 735421948 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: 41 (22.0 bits) S2: 56 (25.2 bits)