RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780624|ref|YP_003065037.1| ubiquinone/menaquinone
biosynthesis methyltransferase [Candidatus Liberibacter asiaticus str.
psy62]
(265 letters)
>gnl|CDD|178932 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 343 bits (883), Expect = 2e-95
Identities = 112/240 (46%), Positives = 158/240 (65%), Gaps = 2/240 (0%)
Query: 18 FREVPEEEKQNMVNHVFSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDV 77
F V EEEKQ V +F ++ +YD+MNDL+S GLHR W+ + L R +VLD+
Sbjct: 1 FMTVAEEEKQEKVAEMFDSIAPKYDLMNDLLSFGLHRVWRRKTIKWLGVRP--GDKVLDL 58
Query: 78 AGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETLPFE 137
A GTGD+A +A+A ++V D + ML+VGR++ L + F++ +AE LPF
Sbjct: 59 ACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFP 118
Query: 138 ANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIYDMWSFKV 197
NSFDA T+AFG+RN+P I L+E+YR+LK GGRL++LEFS+ P KK YD + FKV
Sbjct: 119 DNSFDAVTIAFGLRNVPDIDKALREMYRVLKPGGRLVILEFSKPTNPPLKKAYDFYLFKV 178
Query: 198 IPQLGRFIAGDEEPYQYLIESIRRFPNQQDFAAVISAAGFSNVSFTNYTNGVVALHSGWK 257
+P +G+ I+ + E Y YL ESIR FP+Q++ AA++ AGF V + N T G+VALH G+K
Sbjct: 179 LPLIGKLISKNAEAYSYLAESIRAFPDQEELAAMLEEAGFERVRYRNLTGGIVALHVGYK 238
>gnl|CDD|162613 TIGR01934, MenG_MenH_UbiE, ubiquinone/menaquinone biosynthesis
methyltransferases. Note that a number of
non-orthologous genes which are members of pfam03737
have been erroneously annotated as MenG
methyltransferases.
Length = 223
Score = 280 bits (718), Expect = 3e-76
Identities = 100/228 (43%), Positives = 149/228 (65%), Gaps = 5/228 (2%)
Query: 30 VNHVFSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIA 89
V +F R++ +YD++NDL+S GLHR W+ V + K + +VLDVA GTGD+A +A
Sbjct: 1 VQEMFDRIAPKYDLLNDLLSFGLHRLWRRRAVKLIGVFKGQ--KVLDVACGTGDLAIELA 58
Query: 90 EASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFG 149
+++ +R ++ D ++EML V + ++ I FI+A+AE LPFE NSFDA T+AFG
Sbjct: 59 KSAPDRGKVTGVDFSSEMLEVAKKKSELPL---NIEFIQADAEALPFEDNSFDAVTIAFG 115
Query: 150 IRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIYDMWSFKVIPQLGRFIAGDE 209
+RN+ I L+E+YR+LK GGRL++LEFS+ + KK Y + V+P +G I+ +
Sbjct: 116 LRNVTDIQKALREMYRVLKPGGRLVILEFSKPANALLKKFYKFYLKNVLPSIGGLISKNA 175
Query: 210 EPYQYLIESIRRFPNQQDFAAVISAAGFSNVSFTNYTNGVVALHSGWK 257
E Y YL ESIR FP+Q++ AA++ AGF V + + T GV A+H G K
Sbjct: 176 EAYTYLPESIRAFPSQEELAAMLKEAGFEEVRYRSLTFGVAAIHVGKK 223
>gnl|CDD|131799 TIGR02752, MenG_heptapren, 2-heptaprenyl-1,4-naphthoquinone
methyltransferase. MenG is a generic term for a
methyltransferase that catalyzes the last step in
menaquinone biosynthesis; the exact enzymatic activity
differs for different MenG because the menaquinone
differ in their prenoid side chains in different
species. Members of this MenG protein family are
2-heptaprenyl-1,4-naphthoquinone methyltransferase, and
are found together in operons with the two subunits of
the heptaprenyl diphosphate synthase in Bacillus
subtilis and related species.
Length = 231
Score = 179 bits (456), Expect = 6e-46
Identities = 83/234 (35%), Positives = 131/234 (55%), Gaps = 3/234 (1%)
Query: 24 EEKQNMVNHVFSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGD 83
E K+ V+ VF ++ +YD MN ++S H+ W++ + +N + LDV GT D
Sbjct: 1 ESKEERVHKVFEKIYKKYDRMNSVISFQRHKKWRKDTMKRMNVQAGT--SALDVCCGTAD 58
Query: 84 VAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETLPFEANSFDA 143
+ +AEA ++ D + MLSVGR + L + + + NA LPF+ NSFD
Sbjct: 59 WSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHN-VELVHGNAMELPFDDNSFDY 117
Query: 144 CTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIYDMWSFKVIPQLGR 203
T+ FG+RN+P VL+E+YR++K GG+++ LE S+ P FK++Y + ++P G+
Sbjct: 118 VTIGFGLRNVPDYMQVLREMYRVVKPGGKVVCLETSQPTIPGFKQLYFFYFKYIMPLFGK 177
Query: 204 FIAGDEEPYQYLIESIRRFPNQQDFAAVISAAGFSNVSFTNYTNGVVALHSGWK 257
A + Y +L ES R FP + A + AGF +V +YT GV A+H G+K
Sbjct: 178 LFAKSYKEYSWLQESTRDFPGMDELAEMFQEAGFKDVEVKSYTGGVAAMHMGFK 231
>gnl|CDD|177877 PLN02233, PLN02233, ubiquinone biosynthesis methyltransferase.
Length = 261
Score = 117 bits (294), Expect = 3e-27
Identities = 70/213 (32%), Positives = 117/213 (54%), Gaps = 13/213 (6%)
Query: 33 VFSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIAEAS 92
+F+R++ YD +NDL+SLG HR WK M + + K D VLD+ G+GD+AF ++E
Sbjct: 38 LFNRIAPVYDNLNDLLSLGQHRIWKR-MAVSWSGAKMGDR-VLDLCCGSGDLAFLLSEKV 95
Query: 93 DNRSQIVVADINNEMLSVGRDRAFKENLQ-----DCITFIEANAETLPFEANSFDACTLA 147
+ +++ D ++E L+V R + L+ I +IE +A LPF+ FDA T+
Sbjct: 96 GSDGKVMGLDFSSEQLAVAASR---QELKAKSCYKNIEWIEGDATDLPFDDCYFDAITMG 152
Query: 148 FGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIYD-MWSFKVIPQLGRFIA 206
+G+RN+ +QE+YR+LK G R+ +L+F++ P + + M V+P +
Sbjct: 153 YGLRNVVDRLKAMQEMYRVLKPGSRVSILDFNKSTQPFTTSMQEWMIDNVVVPVATGYGL 212
Query: 207 GDEEPYQYLIESIRRFPNQQDFAAVISAAGFSN 239
E Y+YL SI + ++ + AGFS+
Sbjct: 213 AKE--YEYLKSSINEYLTGEELEKLALEAGFSS 243
>gnl|CDD|149353 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 95
Score = 77.7 bits (192), Expect = 3e-15
Identities = 35/101 (34%), Positives = 56/101 (55%), Gaps = 6/101 (5%)
Query: 75 LDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETL 134
LDV GTG + +A +Q+ D++ EML++ R RA ++ L F+ +AE L
Sbjct: 1 LDVGCGTGLLTEALARLPG--AQVTGVDLSPEMLALARKRAQEDGLT----FVVGDAEDL 54
Query: 135 PFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLV 175
PF SFD + + ++P L+EI R+LK GG+L++
Sbjct: 55 PFPDESFDVVVSSLVLHHLPDPERALREIARVLKPGGKLVI 95
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 72.7 bits (179), Expect = 9e-14
Identities = 35/110 (31%), Positives = 55/110 (50%), Gaps = 10/110 (9%)
Query: 73 RVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAE 132
RVLDV G G+ A +A ++V D + ML++ ++RA + F+ +A+
Sbjct: 22 RVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPN--VEFVRGDAD 79
Query: 133 TLPFEANSFDAC----TLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEF 178
LPF SFDA L + + L EI R+L+ GGR++VL+
Sbjct: 80 GLPFPDGSFDAVRSDRVLQH-LEDPAR---ALAEIARVLRPGGRVVVLDT 125
>gnl|CDD|165876 PLN02232, PLN02232, ubiquinone biosynthesis methyltransferase.
Length = 160
Score = 63.2 bits (153), Expect = 7e-11
Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 7/151 (4%)
Query: 102 DINNEMLSVG--RDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIRNMPHITLV 159
D ++E L+V R + CI +IE +A LPF+ FDA T+ +G+RN+
Sbjct: 4 DFSSEQLAVAATRQSLKARSCYKCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNVVDRLRA 63
Query: 160 LQEIYRILKCGGRLLVLEFSEVQGPVFKKIYDMWSFK--VIPQLGRFIAGDEEPYQYLIE 217
++E+YR+LK G R+ +L+F++ V W V+P + E Y+YL
Sbjct: 64 MKEMYRVLKPGSRVSILDFNKSNQSV-TTFMQGWMIDNVVVPVATVYDLAKE--YEYLKY 120
Query: 218 SIRRFPNQQDFAAVISAAGFSNVSFTNYTNG 248
SI + ++ + AGFS+ + G
Sbjct: 121 SINGYLTGEELETLALEAGFSSACHYEISGG 151
>gnl|CDD|178108 PLN02490, PLN02490, MPBQ/MSBQ methyltransferase.
Length = 340
Score = 61.8 bits (150), Expect = 2e-10
Identities = 51/191 (26%), Positives = 82/191 (42%), Gaps = 34/191 (17%)
Query: 56 WKEAMVTN-LNPRK--SKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGR 112
W E M + L P ++ +V+DV GGTG I + D ++ + + D + L+ +
Sbjct: 96 WTEDMRDDALEPADLSDRNLKVVDVGGGTGFTTLGIVKHVDAKN-VTILDQSPHQLAKAK 154
Query: 113 DRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGR 172
KE L++C IE +AE LPF + D A I P ++E YR+LK GG+
Sbjct: 155 Q---KEPLKEC-KIIEGDAEDLPFPTDYADRYVSAGSIEYWPDPQRGIKEAYRVLKIGGK 210
Query: 173 LLVLEFSEVQGPVFKKIYDMWSFKVIPQLGRFIAGDEEPYQYLIESIRRFPNQQDFAAVI 232
++ GPV + L RF A + FP ++++
Sbjct: 211 ACLI------GPVHPTFW----------LSRFFA----------DVWMLFPKEEEYIEWF 244
Query: 233 SAAGFSNVSFT 243
+ AGF +V
Sbjct: 245 TKAGFKDVKLK 255
>gnl|CDD|149354 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 56.6 bits (137), Expect = 7e-09
Identities = 22/100 (22%), Positives = 37/100 (37%), Gaps = 3/100 (3%)
Query: 75 LDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETL 134
LD+ GTG + + EA + DI+ L +R + +
Sbjct: 1 LDIGCGTGTLLRALLEALPG-LEYTGVDISPAALEAAAER-LAALGLLDAVRVRLDVLDA 58
Query: 135 PFEA-NSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRL 173
SFD + + ++ VL+ + R+LK GG L
Sbjct: 59 IDLDPGSFDVVVASNVLHHLADPRAVLRNLRRLLKPGGVL 98
>gnl|CDD|162684 TIGR02072, BioC, biotin biosynthesis protein BioC. This enzyme,
which is found in biotin biosynthetic gene clusters in
proteobacteria, firmicutes, green-sulfur bacteria,
fusobacterium and bacteroides, is believed to carry out
an enzymatic step prior to the formation of pimeloyl-CoA
(although attribution of this annotation is not
traceable). The enzyme appears related to
methyltransferases by homology.
Length = 240
Score = 52.3 bits (126), Expect = 1e-07
Identities = 48/223 (21%), Positives = 83/223 (37%), Gaps = 25/223 (11%)
Query: 34 FSRVSHRYDVMNDLMSLGLHRFWKEAMVTNL-NPRKSKDYRVLDVAGGTGDVAFRIAEAS 92
F++ + YD + R + ++ L VLD+ GTG + R
Sbjct: 2 FNKAAKTYDRHAKI-----QREMAKRLLALLKEKGIFIPASVLDIGCGTGYL-TRALLKR 55
Query: 93 DNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETLPFEANSFD--ACTLAFGI 150
+++ + DI+ ML+ K L + + FI +AE LP E +SFD LA
Sbjct: 56 FPQAEFIALDISAGMLAQA-----KTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQW 110
Query: 151 RNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIYDMWSFKVIP-----QLGRFI 205
+ + L E+ R+LK GG +L FS ++ + + +L +
Sbjct: 111 CDDL--SQALSELARVLKPGG---LLAFSTFGPGTLHELRQSFGQHGLRYLSLDELKALL 165
Query: 206 AGDEEPYQYLIESIR-RFPNQQDFAAVISAAGFSNVSFTNYTN 247
E E I F + D + G + +S +
Sbjct: 166 KNSFELLTLEEELITLSFDDPLDVLRHLKKTGANGLSSGRTSR 208
>gnl|CDD|183351 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
Length = 272
Score = 43.8 bits (104), Expect = 5e-05
Identities = 44/182 (24%), Positives = 74/182 (40%), Gaps = 47/182 (25%)
Query: 73 RVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFK---ENLQDCITFIEA 129
VLD+ G G F A +++ D+ EML+ R A K N + F
Sbjct: 80 TVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTN----VEFRLG 135
Query: 130 NAETLPFEANSFDA----CTLAFGIRNM-PHITLVLQEIYRILKCGGRLLVLEFSEV--Q 182
E LP NS D C + N+ P V +E +R+LK GGR + S+V +
Sbjct: 136 EIEALPVADNSVDVIISNCVI-----NLSPDKERVFKEAFRVLKPGGRFAI---SDVVLR 187
Query: 183 GPV---FKKIYDMWSFKVIPQLGRFIAGDEEPYQYLIESIRRFPNQQDFAAVISAAGFSN 239
G + + ++++ +AG + +YL A+++ AGF +
Sbjct: 188 GELPEEIRNDAELYA--------GCVAGALQEEEYL--------------AMLAEAGFVD 225
Query: 240 VS 241
++
Sbjct: 226 IT 227
>gnl|CDD|180257 PRK05785, PRK05785, hypothetical protein; Provisional.
Length = 226
Score = 39.7 bits (93), Expect = 7e-04
Identities = 41/210 (19%), Positives = 79/210 (37%), Gaps = 25/210 (11%)
Query: 30 VNHVFSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIA 89
+ ++++ YD N +S W+ +V + + +VLDVA G G++++
Sbjct: 11 LQEAYNKIPKAYDRANRFISFNQDVRWRAELVKTILKYCGRPKKVLDVAAGKGELSYHFK 70
Query: 90 EASDNRSQIVVADINNEMLS---VGRDRAFKENLQDCITFIEANAETLPFEANSFDACTL 146
+ + +V D ML V D+ + + E LPF SFD
Sbjct: 71 KVF--KYYVVALDYAENMLKMNLVADDK------------VVGSFEALPFRDKSFDVVMS 116
Query: 147 AFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGP--VFKKIYDMWSFK-VIPQLGR 203
+F + +I V+ E R+ + + F + P V K+ Y + + ++P +
Sbjct: 117 SFALHASDNIEKVIAEFTRVSR-----KQVGFIAMGKPDNVIKRKYLSFYLRYIMPYIAC 171
Query: 204 FIAGDEEPYQYLIESIRRFPNQQDFAAVIS 233
Y+Y+ R P +
Sbjct: 172 LAGAKCRDYKYIYYIYERLPTNSFHREIFE 201
>gnl|CDD|163311 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3.
Length = 251
Score = 37.1 bits (87), Expect = 0.005
Identities = 40/149 (26%), Positives = 61/149 (40%), Gaps = 32/149 (21%)
Query: 68 KSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVA-DINNEMLSVGRDRAFKENLQDCITF 126
K RVLD+ G+G +A +A A + V A DI+ E L+V R A + L D +TF
Sbjct: 85 KKGPLRVLDLGTGSGAIA--LALAKERPDARVTAVDISPEALAVARKNAARLGL-DNVTF 141
Query: 127 IEANAETLPFEANSFDA-------------CTLAFGIRNM-PHITLV------------L 160
++++ P FD L +R P + L +
Sbjct: 142 LQSDW-FEPLPGGKFDLIVSNPPYIPEADIHLLDPEVRFHEPRLALFGGEDGLDFYRRII 200
Query: 161 QEIYRILKCGGRLLVLEFSEVQGPVFKKI 189
+ R+LK GG L+LE QG + +
Sbjct: 201 AQAPRLLKPGG-WLLLEIGYDQGEAVRAL 228
>gnl|CDD|131763 TIGR02716, C20_methyl_CrtF, C-20 methyltransferase BchU. Members
of this protein family are the
S-adenosylmethionine-depenedent C-20 methyltransferase
BchU, part of the pathway of bacteriochlorophyll c
production in photosynthetic green sulfur bacteria. The
position modified by this enzyme represents the
difference between bacteriochlorophylls c and d; strains
lacking this protein can only produced
bacteriochlorophyll d.
Length = 306
Score = 36.2 bits (83), Expect = 0.010
Identities = 18/106 (16%), Positives = 45/106 (42%), Gaps = 4/106 (3%)
Query: 74 VLDVAGGTGDVAFRIAEASDNRSQIVVADIN-NEMLSVGRDRAFKENLQDCITFIEANAE 132
++DV GG GD++ + + ++ +N + + + A ++ + D + I +
Sbjct: 153 MIDVGGGIGDISAAMLKHF---PELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIY 209
Query: 133 TLPFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEF 178
+ N T++ ++ + ++ GGRLL+L+
Sbjct: 210 KESYPEADAVLFCRILYSANEQLSTIMCKKAFDAMRSGGRLLILDM 255
>gnl|CDD|177887 PLN02244, PLN02244, tocopherol O-methyltransferase.
Length = 340
Score = 35.1 bits (81), Expect = 0.018
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 6/68 (8%)
Query: 111 GRDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIR---NMPHITLVLQEIYRIL 167
A + L D ++F A+A PFE FD L + + +MP +QE+ R+
Sbjct: 157 ANALAAAQGLSDKVSFQVADALNQPFEDGQFD---LVWSMESGEHMPDKRKFVQELARVA 213
Query: 168 KCGGRLLV 175
GGR+++
Sbjct: 214 APGGRIII 221
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 34.7 bits (80), Expect = 0.021
Identities = 29/112 (25%), Positives = 51/112 (45%), Gaps = 4/112 (3%)
Query: 73 RVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAE 132
+VLDV G G F +AE D +V D++ M+S +RA + + F A+
Sbjct: 269 KVLDVGCGIGGGDFYMAENFD--VHVVGIDLSVNMISFALERAI--GRKCSVEFEVADCT 324
Query: 133 TLPFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGP 184
+ NSFD I ++ + + ++ LK GG++L+ ++ G
Sbjct: 325 KKTYPDNSFDVIYSRDTILHIQDKPALFRSFFKWLKPGGKVLISDYCRSPGT 376
>gnl|CDD|162871 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In many
organisms, this protein is fused to the CbiE subunit.
The fused protein, when found in organisms catalyzing
the oxidative version of the cobalamin biosynthesis
pathway, is called CobL.
Length = 124
Score = 34.2 bits (79), Expect = 0.035
Identities = 21/112 (18%), Positives = 42/112 (37%), Gaps = 6/112 (5%)
Query: 64 LNPRKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDC 123
L R + D+ G+G + A N ++ + N E L + A + + +
Sbjct: 15 LRLRP--GDVLWDIGAGSGSITIEAARLVPN-GRVYAIERNPEALRLIERNARRFGVSNI 71
Query: 124 ITFIEANAETLPFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLV 175
+ E L D + + +L+ I+R L+ GGR+++
Sbjct: 72 VIVEGDAPEALEDSLPEPDRVFIGGSGG---LLQEILEAIWRRLRPGGRIVL 120
>gnl|CDD|181047 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 34.0 bits (79), Expect = 0.037
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 70 KDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEA 129
R+LD G G ++ +A +++V +DI+ +M+ R+RA + L ITF
Sbjct: 63 TGLRILDAGCGVGSLSIPLARRG---AKVVASDISPQMVEEARERAPEAGLAGNITFEVG 119
Query: 130 NAETLPFEANSFDA 143
+ E+L FD
Sbjct: 120 DLESL---LGRFDT 130
>gnl|CDD|182918 PRK11036, PRK11036, putative S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 255
Score = 34.2 bits (79), Expect = 0.038
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 58 EAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFK 117
+ ++ L PR RVLD GG G A ++AE Q+++ D++ EM+ + A
Sbjct: 35 DRLLAELPPRP---LRVLDAGGGEGQTAIKLAELG---HQVILCDLSAEMIQRAKQAAEA 88
Query: 118 ENLQDCITFIEANAE 132
+ + D + FI A+
Sbjct: 89 KGVSDNMQFIHCAAQ 103
>gnl|CDD|129628 TIGR00537, hemK_rel_arch, HemK-related putative methylase. The
gene hemK from E. coli was found to contribute to heme
biosynthesis and originally suggested to be
protoporphyrinogen oxidase (Medline 95189105).
Functional analysis of the nearest homolog in
Saccharomyces cerevisiae, YNL063w, finds it is not
protoporphyrinogen oxidase and sequence analysis
suggests that HemK homologs have
S-adenosyl-methionine-dependent methyltransferase
activity (Medline 99237242). Homologs are found, usually
in a single copy, in nearly all completed genomes, but
varying somewhat in apparent domain architecture. This
model represents an archaeal and eukaryotic protein
family that lacks an N-terminal domain found in HemK and
its eubacterial homologs. It is found in a single copy
in the first six completed archaeal and eukaryotic
genomes.
Length = 179
Score = 32.1 bits (73), Expect = 0.15
Identities = 40/153 (26%), Positives = 56/153 (36%), Gaps = 24/153 (15%)
Query: 63 NLNPRKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADIN---------NEMLSVGRD 113
NL K D VL++ GTG VA R+ I+ DIN N L+
Sbjct: 14 NLRELKPDD--VLEIGAGTGLVAIRLKGKGK---CILTTDINPFAVKELRENAKLNNVGL 68
Query: 114 RAFKENLQDCIT----FIEANAETLPFEANSFDACTLAFGIRNMPH----ITLVLQEIYR 165
+L + I N LP E + L I I L E+
Sbjct: 69 DVVMTDLFKGVRGKFDVILFNPPYLPLEDDLRRGDWLDVAIDGGKDGRKVIDRFLDELPE 128
Query: 166 ILKCGGRLLVLEFSEVQGP-VFKKIYDMWSFKV 197
ILK GGR+ +++ S P F K+ + F+
Sbjct: 129 ILKEGGRVQLIQSSLNGEPDTFDKLDER-GFRY 160
>gnl|CDD|162663 TIGR02021, BchM-ChlM, magnesium protoporphyrin O-methyltransferase.
This model represents the
S-adenosylmethionine-dependent O-methyltransferase
responsible for methylation of magnesium protoporphyrin
IX. This step is essentiasl for the biosynthesis of both
chlorophyll and bacteriochlorophyll. This model
encompasses two closely related clades, from
cyanobacteria (and plants) where it is called ChlM and
other photosynthetic bacteria where it is known as BchM.
Length = 219
Score = 32.1 bits (73), Expect = 0.15
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 57 KEAMVTNLNPRKSKDY----RVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGR 112
+ AM L KD RVLD GTG ++ +A + + DI+ +M+ + R
Sbjct: 38 RAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELA---KRGAIVKAVDISEQMVQMAR 94
Query: 113 DRAFKENLQDCITF 126
+RA ++ + F
Sbjct: 95 NRAQGRDVAGNVEF 108
>gnl|CDD|182340 PRK10258, PRK10258, biotin biosynthesis protein BioC; Provisional.
Length = 251
Score = 32.0 bits (73), Expect = 0.18
Identities = 32/140 (22%), Positives = 61/140 (43%), Gaps = 16/140 (11%)
Query: 34 FSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIAEASD 93
F R + Y+ +L R +A++ L RK VLD G G ++ E
Sbjct: 13 FGRAAAHYEQHAEL-----QRQSADALLAMLPQRKFT--HVLDAGCGPGWMSRYWRERG- 64
Query: 94 NRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIRNM 153
SQ+ D++ ML+ R + ++ + E+LP +FD ++
Sbjct: 65 --SQVTALDLSPPMLAQARQK------DAADHYLAGDIESLPLATATFDLAWSNLAVQWC 116
Query: 154 PHITLVLQEIYRILKCGGRL 173
+++ L+E+YR+++ GG +
Sbjct: 117 GNLSTALRELYRVVRPGGVV 136
>gnl|CDD|166927 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 31.3 bits (71), Expect = 0.25
Identities = 27/110 (24%), Positives = 47/110 (42%), Gaps = 4/110 (3%)
Query: 67 RKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITF 126
R K +LD+ GTG V + ++ D + + +++ R A K + + I
Sbjct: 37 RLRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVL 96
Query: 127 IEANAETLPFEANS-FDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLV 175
I+ A + F N FD + G + I E I+K GGR+++
Sbjct: 97 IKGEAPEILFTINEKFDRIFIGGGSEKLKEIISASWE---IIKKGGRIVI 143
>gnl|CDD|184896 PRK14903, PRK14903, 16S rRNA methyltransferase B; Provisional.
Length = 431
Score = 31.0 bits (70), Expect = 0.34
Identities = 37/170 (21%), Positives = 63/170 (37%), Gaps = 22/170 (12%)
Query: 70 KDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEA 129
RVLD G IAE ++ +I+ DI+ E + + A + L I
Sbjct: 237 PGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIAD 296
Query: 130 NAETLPFEANSFD------ACTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQG 183
+ ++FD CT RN P E+ R + + + SE+Q
Sbjct: 297 AERLTEYVQDTFDRILVDAPCTSLGTARNHP-------EVLRRVN---KEDFKKLSEIQ- 345
Query: 184 PVFKKIYDMWSFKVIPQLGRFIAGD-EEPYQYLIESIRRFPNQQDFAAVI 232
+ + W K++ + G + + E ++RF +Q A VI
Sbjct: 346 --LRIVSQAW--KLLEKGGILLYSTCTVTKEENTEVVKRFVYEQKDAEVI 391
>gnl|CDD|178452 PLN02861, PLN02861, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 30.2 bits (68), Expect = 0.59
Identities = 11/44 (25%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 183 GPVFKKIYDMWSFKVIPQLGRFIAGDEEPYQYLIESIRRFPNQQ 226
GPV++ IY +P + P+Q+ ++++++PN Q
Sbjct: 23 GPVYRSIYAKDGLLDLPA------DIDSPWQFFSDAVKKYPNNQ 60
>gnl|CDD|172452 PRK13943, PRK13943, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 322
Score = 29.8 bits (67), Expect = 0.74
Identities = 30/126 (23%), Positives = 55/126 (43%), Gaps = 11/126 (8%)
Query: 70 KDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEA 129
K RVL++ GGTG A ++ + +V + + ++ + + + +++ I
Sbjct: 80 KGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGD 139
Query: 130 NAETLPFEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLV---LEFSEVQGP-V 185
+P E +D + G+ +P T Q LK GGR++V L+ S Q +
Sbjct: 140 GYYGVP-EFAPYDVIFVTVGVDEVPE-TWFTQ-----LKEGGRVIVPINLKLSRRQPAFL 192
Query: 186 FKKIYD 191
FKK
Sbjct: 193 FKKKDP 198
>gnl|CDD|148559 pfam07005, DUF1537, Protein of unknown function, DUF1537. This
conserved region is found in proteins of unknown
function in a range of Proteobacteria as well as the
Gram-positive Oceanobacillus iheyensis.
Length = 224
Score = 29.5 bits (67), Expect = 0.79
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 74 VLDVAGGTGDVAFRIAEASDNRSQIVVAD-INNEML 108
+ DV G + +A +IVV D + L
Sbjct: 11 LADVRQGAEALRAALAALLAQGVRIVVVDAETDADL 46
>gnl|CDD|182801 PRK10876, recB, exonuclease V subunit beta; Provisional.
Length = 1181
Score = 28.4 bits (64), Expect = 1.8
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 38 SHRYDVMNDLMSLGLHRF 55
+HRYD+ L +L LHR+
Sbjct: 1104 AHRYDLQYQLYTLALHRY 1121
>gnl|CDD|180466 PRK06202, PRK06202, hypothetical protein; Provisional.
Length = 232
Score = 28.0 bits (63), Expect = 2.4
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 51 GLHRFWKEAMVTNLNPRKSKD--YRVLDVAGGTGDVAFRIA 89
+ W+ L P S D +LD+ G GD+A +A
Sbjct: 39 RIVAGWRGLYRRLLRPALSADRPLTLLDIGCGGGDLAIDLA 79
>gnl|CDD|185578 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 27.9 bits (62), Expect = 2.7
Identities = 17/74 (22%), Positives = 27/74 (36%), Gaps = 9/74 (12%)
Query: 65 NPRKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVA--------DINNEMLSVGRDRAF 116
R + DY V+ V G A + R +++ I E+L G A
Sbjct: 27 PARTNYDYDVIIVGGSIAGPVLAKALSKQGRKVLMLERDLFSKPDRIVGELLQPGGVNAL 86
Query: 117 KE-NLQDCITFIEA 129
KE +++C I
Sbjct: 87 KELGMEECAEGIGM 100
>gnl|CDD|162689 TIGR02081, metW, methionine biosynthesis protein MetW. This
protein is found alongside MetX, of the enzyme that
acylates homoserine as a first step toward methionine
biosynthesis, in many species. It appears to act in
methionine biosynthesis but is not fully characterized.
Length = 194
Score = 27.7 bits (62), Expect = 2.9
Identities = 36/158 (22%), Positives = 58/158 (36%), Gaps = 24/158 (15%)
Query: 73 RVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCITFIEANAE 132
RVLD+ G G++ + + R + D + + V R + I+ + +
Sbjct: 16 RVLDLGCGDGELLALLRDEKQVRGYGIEIDQDGVLACVARG----------VNVIQGDLD 65
Query: 133 T-LP-FEANSFDACTLAFGIRNMPHITLVLQEIYRILKCGGRLLVLEFSEVQGPVFKKIY 190
L F SFD L+ ++ + +L E+ R+ GR ++ F P F
Sbjct: 66 EGLEAFPDKSFDYVILSQTLQATRNPEEILDEMLRV----GRHAIVSF-----PNFGYWR 116
Query: 191 DMWSFKVIPQLGRFIAGDEEPYQYLIESIRRFPNQQDF 228
WS I GR E PY + F DF
Sbjct: 117 VRWS---ILTKGRMPVTGELPYDWYNTPNIHFCTIADF 151
>gnl|CDD|179773 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 27.2 bits (61), Expect = 4.2
Identities = 19/61 (31%), Positives = 25/61 (40%), Gaps = 23/61 (37%)
Query: 126 FIEANAETLPF------------EA--NSFDACTLAFGIRNMPHITLVL------QEIYR 165
F E N E L F E NS DAC A GI +P I + + ++ YR
Sbjct: 20 FFEKNKELLGFDNPARALYTTVKELVDNSLDACEEA-GI--LPDIKIEIKRVDEGKDHYR 76
Query: 166 I 166
+
Sbjct: 77 V 77
>gnl|CDD|129538 TIGR00446, nop2p, NOL1/NOP2/sun family putative RNA methylase.
Length = 264
Score = 27.4 bits (61), Expect = 4.3
Identities = 19/87 (21%), Positives = 28/87 (32%), Gaps = 11/87 (12%)
Query: 64 LNPRKSKDYRVLDVAGGTGDVAFRIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDC 123
L P RVLD+A G +I+ N IV + + R + N+ C
Sbjct: 67 LEPDP--PERVLDMAAAPGGKTTQISALMKNEGAIVANEFSKS-----RTKVLIANINRC 119
Query: 124 ----ITFIEANAETLPFEANSFDACTL 146
+ + FDA L
Sbjct: 120 GVLNVAVTNFDGRVFGAAVPKFDAILL 146
>gnl|CDD|128443 smart00138, MeTrc, Methyltransferase, chemotaxis proteins.
Methylates methyl-accepting chemotaxis proteins to form
gamma-glutamyl methyl ester residues.
Length = 264
Score = 26.9 bits (60), Expect = 5.7
Identities = 33/199 (16%), Positives = 61/199 (30%), Gaps = 60/199 (30%)
Query: 23 EEEKQNMVNHV------FSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLD 76
EEE +++ + F R S ++ + + + L + R + R+
Sbjct: 56 EEELAELLDLMTTNETRFFRESKHFEALEEKVLPLLIA----------SRRHGRRVRIWS 105
Query: 77 VAGGTGDVAFRIA--------EASDNRSQIVVADINNEMLS------------------- 109
TG+ + +A +A + +I+ DI+ + L
Sbjct: 106 AGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKAL 165
Query: 110 -------VGRDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIRNM------PHI 156
V K L++ + F + N FD RN+ P
Sbjct: 166 LARYFSRVEDKYRVKPELKERVRFAKHNLLAESPPLGDFDLIFC----RNVLIYFDEPTQ 221
Query: 157 TLVLQEIYRILKCGGRLLV 175
+L LK GG L +
Sbjct: 222 RKLLNRFAEALKPGGYLFL 240
>gnl|CDD|152517 pfam12082, DUF3559, Domain of unknown function (DUF3559). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria and archaea. This domain is
typically between 305 to 348 amino acids in length. This
domain is found associated with pfam04851, pfam00271,
pfam04313.
Length = 307
Score = 26.8 bits (60), Expect = 6.3
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 87 RIAEASDNRSQIVVADINNEMLSVGRDRAFKENLQDCIT----FIEAN 130
+ E QI+ +D +E++S D KE +D + F++ N
Sbjct: 108 LLEELRRGHEQIIDSDNEDEVISAEWDYGEKEKAEDYLESFEEFVKEN 155
>gnl|CDD|163029 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are
encoded near genes for homologs of PfaB, PfaC, and/or
PfaD.
Length = 2582
Score = 26.5 bits (58), Expect = 7.4
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 225 QQDFAAVISAAGFSNVSFTNYTNGVVALHS 254
Q+ F+A I A F+ Y+NG LHS
Sbjct: 799 QKPFSAAIDKAKFNTPLVPLYSNGTGKLHS 828
>gnl|CDD|178776 PLN03238, PLN03238, probable histone acetyltransferase MYST;
Provisional.
Length = 290
Score = 26.3 bits (58), Expect = 7.7
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 42 DVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVL 75
D+++ L SL L ++WK V +++ R ++
Sbjct: 239 DIVSTLQSLNLIKYWKGQHVIHVDQRVLDEHWAK 272
>gnl|CDD|185160 PRK15248, PRK15248, fimbrial outer membrane usher protein StbC;
Provisional.
Length = 853
Score = 26.3 bits (58), Expect = 9.0
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 34 FSRVSHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGG 80
F RV YD+ N + NL R ++ Y+ +AGG
Sbjct: 357 FGRVRQYYDIENRFFEGTFQHGVNNTITLNLGSRIAQRYQAW-LAGG 402
>gnl|CDD|177721 PLN00104, PLN00104, MYST -like histone acetyltransferase;
Provisional.
Length = 450
Score = 26.2 bits (58), Expect = 9.2
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 42 DVMNDLMSLGLHRFWKEAMVTNLNPR 67
D+++ L SL L ++ K V +P+
Sbjct: 390 DIVSTLQSLNLIQYRKGQHVICADPK 415
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
0.322 0.136 0.405
Gapped
Lambda K H
0.267 0.0858 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,370,390
Number of extensions: 277394
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 528
Number of HSP's successfully gapped: 47
Length of query: 265
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,006,537
Effective search space: 693130901
Effective search space used: 693130901
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 (21.9 bits)
S2: 56 (25.1 bits)