RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2408
(298 letters)
>gnl|CDD|215135 PLN02244, PLN02244, tocopherol O-methyltransferase.
Length = 340
Score = 113 bits (284), Expect = 4e-29
Identities = 80/250 (32%), Positives = 114/250 (45%), Gaps = 30/250 (12%)
Query: 32 KKTVATLYDSPEGQIGSVLF----GGHMHWGYWDESNSKDNFAQGS-----DKLSRIMIN 82
K+ +A YD S ++ G HMH GY+D S+ + Q + L+ +
Sbjct: 58 KEGIAEFYDE-----SSGVWEDVWGEHMHHGYYDPGASRGDHRQAQIRMIEESLAWAGVP 112
Query: 83 KTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNF 142
+ +R +D+GCG G S LA+ G V GIT+S Q A A A+GL DKV+F
Sbjct: 113 DDDEKRPKRIVDVGCGIGGSSRYLARKYGANVKGITLSPVQAARANALAAAQGLSDKVSF 172
Query: 143 LHGDALNLPFDNDSFDGGWFFESIFHMNHSAAL-NEARRVLK-SGSILTLT----DL-PL 195
DALN PF++ FD W ES HM E RV G I+ +T DL P
Sbjct: 173 QVADALNQPFEDGQFDLVWSMESGEHMPDKRKFVQELARVAAPGGRIIIVTWCHRDLEPG 232
Query: 196 LSVSKNDNKFKEYVKKNIHSNFIL-----VEHYPDLLNKSGFELIKIDDITSHVMPLLVP 250
+ K D ++ + K I + + L Y L G + IK +D + HV P P
Sbjct: 233 ETSLKPDE--QKLLDK-ICAAYYLPAWCSTSDYVKLAESLGLQDIKTEDWSEHVAPFW-P 288
Query: 251 KLTEATLTYK 260
+ ++ LT K
Sbjct: 289 AVIKSALTLK 298
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 80.4 bits (199), Expect = 3e-19
Identities = 34/97 (35%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 93 IDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPF 152
+D+GCG GL LA+ G RV G+ +S + A+ F+ GDA +LPF
Sbjct: 1 LDVGCGTGLLAEALARRGGARVTGVDLS----PEMLALARKRA---PRKFVVGDAEDLPF 53
Query: 153 DNDSFDGGWFFESIFHM-NHSAALNEARRVLKSGSIL 188
++SFD + H+ + AL E RVLK G L
Sbjct: 54 PDESFDVVVSSLVLHHLPDPERALREIARVLKPGGKL 90
>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 = 77.1 bits (190), Expect = 8e-18
Identities = 43/106 (40%), Positives = 53/106 (50%), Gaps = 4/106 (3%)
Query: 91 RFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNL 150
R +D+GCG G + LA G RV G+ IS E A K A A L D V L GDA L
Sbjct: 1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARK-AAAALLADNVEVLKGDAEEL 59
Query: 151 PFDND-SFDG--GWFFESIFHMNHSAALNEARRVLKSGSILTLTDL 193
P + D SFD + + L EARR+LK G +L LT +
Sbjct: 60 PPEADESFDVIISDPPLHHLVEDLARFLEEARRLLKPGGVLVLTLV 105
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 67.8 bits (166), Expect = 5e-14
Identities = 46/152 (30%), Positives = 71/152 (46%), Gaps = 7/152 (4%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAK--AKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFL 143
+ G + +D+GCG G LA+ G V GI IS+ E A + AK G + V F+
Sbjct: 1 LKSGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLG-YENVEFI 59
Query: 144 HGDALNLP---FDNDSFDGGWFFESIFHM-NHSAALNEARRVLKSGSILTLTDLPLLSVS 199
GD LP +++SFD E + H+ + L E RVLK G +L ++D LLS
Sbjct: 60 QGDIEELPQLQLEDNSFDVVISNEVLNHLPDPDKVLEEIIRVLKPGGVLIVSDPVLLSEL 119
Query: 200 KNDNKFKEYVKKNIHSNFILVEHYPDLLNKSG 231
+ E + + I + +L ++G
Sbjct: 120 PALLEDLERLYAGVLEGAIGKKKLLTILREAG 151
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 69.6 bits (171), Expect = 6e-14
Identities = 44/147 (29%), Positives = 68/147 (46%), Gaps = 15/147 (10%)
Query: 60 WDESNSKDNFAQGSDKLSRIM------------INKTSITKGQRFIDIGCGFGLSGIRLA 107
D A+ D ++ +M I+ I G + +D+ CG G + LA
Sbjct: 11 EKVQKVFDKVAKKYDLMNDLMSFGLHRLWRRALISLLGIKPGDKVLDVACGTGDMALLLA 70
Query: 108 KAKG-CRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI 166
K+ G V G+ IS+ E A + K +G+ + V F+ GDA NLPF ++SFD +
Sbjct: 71 KSVGTGEVVGLDISESMLEVAREKLKKKGVQN-VEFVVGDAENLPFPDNSFDAVTISFGL 129
Query: 167 FHMNH-SAALNEARRVLKSGSILTLTD 192
++ AL E RVLK G L + +
Sbjct: 130 RNVTDIDKALKEMYRVLKPGGRLLVLE 156
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 68.0 bits (167), Expect = 2e-13
Identities = 37/103 (35%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAKA--KGCRVDGITISKFQQESAMKTAKAEGLLDKVNFL 143
+ G R +D+GCG G LA+ RV GI S+ A +A GL V F+
Sbjct: 17 VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALA--KERAAGLGPNVEFV 74
Query: 144 HGDALNLPFDNDSFDGGWFFESIFHM-NHSAALNEARRVLKSG 185
GDA LPF + SFD + H+ + + AL E RVL+ G
Sbjct: 75 RGDADGLPFPDGSFDAVRSDRVLQHLEDPARALAEIARVLRPG 117
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 65.9 bits (162), Expect = 1e-12
Identities = 38/121 (31%), Positives = 51/121 (42%), Gaps = 17/121 (14%)
Query: 78 RIMINKTSITKGQRFIDIGCGFGLSGIRLAKA--KGCRVDGITISKFQQESAMKTAKAEG 135
R I + G + +D+ CG G I LAKA K V G+ S+ + + G
Sbjct: 41 RKTIKWLGVRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLG 100
Query: 136 LLDKVNFLHGDALNLPFDNDSFDGGWFFESIFHM--------NHSAALNEARRVLKSGSI 187
L V F+ GDA LPF ++SFD + + AL E RVLK G
Sbjct: 101 LSGNVEFVQGDAEALPFPDNSFD-------AVTIAFGLRNVPDIDKALREMYRVLKPGGR 153
Query: 188 L 188
L
Sbjct: 154 L 154
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 65.7 bits (161), Expect = 2e-12
Identities = 47/176 (26%), Positives = 67/176 (38%), Gaps = 28/176 (15%)
Query: 75 KLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAE 134
KL I+ K + G +DIGCG+G I A+ G V G+T+S+ Q A K A
Sbjct: 60 KLDLIL-EKLGLKPGMTLLDIGCGWGGLAIYAAEEYGVTVVGVTLSEEQLAYAEKRIAAR 118
Query: 135 GLLDKVNFLHGDALNLPFDNDSFD-----GGWFFESIFHMNHSAALNEARRVLKSGSILT 189
GL D V D + FD G FE + N+ + +LK G +
Sbjct: 119 GLEDNVEVRLQD---YRDFEEPFDRIVSVG--MFEHVGKENYDDFFKKVYALLKPGGRML 173
Query: 190 LTDLPLLSVSKNDNKFKEYVKKNIHSNFILVEHYPDLLNKSGFELIKIDDITSHVM 245
L + D +F+ + FI +P G EL I +I
Sbjct: 174 LHSIT-----GPDQEFRRFPD------FIDKYIFP------GGELPSISEILELAS 212
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 60.0 bits (146), Expect = 1e-11
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 4/106 (3%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGD 146
G R +DIGCG G I LA+ G RV G+ +S E A + AK L ++ F+ GD
Sbjct: 1 PGARVLDIGCGTGSLAIELARLFPGARVTGVDLSPEMLELARENAKL-ALGPRITFVQGD 59
Query: 147 ALNLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSILTLTD 192
A + + FD F + L+ +LK G L L
Sbjct: 60 APDALDLLEGFD--AVFIGGGGGDLLELLDALASLLKPGGRLVLNA 103
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 60.2 bits (146), Expect = 1e-10
Identities = 49/176 (27%), Positives = 74/176 (42%), Gaps = 34/176 (19%)
Query: 20 NKDIKENKGNKGKKTVATLYDSPEGQIGSVL-FGGHMHWGYWDESNSKDNFAQGSDKLSR 78
+KE + +VA+ YD + V+ FG H W D +
Sbjct: 1 MTVLKEQRVGDVFSSVASKYD----LMNDVISFGIHRLW---------------KDFTMK 41
Query: 79 IMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCR--VDGITISKFQQESAMKTAKAEGL 136
M K G +F+D+ G G L+ + G V G+ I++ + K AK EG
Sbjct: 42 CMGVKR----GNKFLDVAGGTGDWTFGLSDSAGSSGKVVGLDINENMLKEGEKKAKEEGK 97
Query: 137 LDKVNFLHGDALNLPFDNDSFDGGWFFESIFHM----NHSAALNEARRVLKSGSIL 188
+ + FL G+A LPF++DSFD F + ++ L EA RVLK G +
Sbjct: 98 YN-IEFLQGNAEELPFEDDSFD---IVTISFGLRNFPDYLKVLKEAFRVLKPGGRV 149
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 154
Score = 57.9 bits (140), Expect = 2e-10
Identities = 40/151 (26%), Positives = 64/151 (42%), Gaps = 17/151 (11%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHG 145
+ G R +DIGCG G+ +RL + +G V G+ S +L F
Sbjct: 20 LKPGGRVLDIGCGTGIL-LRLLRERGFDVTGVDPS------------PAAVLIFSLFDAP 66
Query: 146 DALNLPFDNDSFDGGWFFESIFHM-NHSAALNEARRVLKSGSILTLTDLPLLSVSKNDNK 204
D L +D FE + H+ + A L + R +LK G +L ++ ++
Sbjct: 67 DPAVL---AGKYDLITAFEVLEHLPDPPALLQQLRELLKPGGVLLISTPLADDDARLFAN 123
Query: 205 FKEYVKKNIHSNFILVEHYPDLLNKSGFELI 235
+ +N H +F E LL K+GFEL+
Sbjct: 124 WHYLRPRNTHISFYSEESLKRLLEKAGFELV 154
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 59.1 bits (140), Expect = 3e-10
Identities = 40/162 (24%), Positives = 64/162 (39%), Gaps = 5/162 (3%)
Query: 88 KGQRFIDIGCGFG-LSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGD 146
G +DIGCG G L+ + +G V G+ +S A A+ GL V+F+ D
Sbjct: 48 GGLGVLDIGCGTGRLALLARLGGRGAYVVGVDLSPEMLALARARAEGAGL-GLVDFVVAD 106
Query: 147 ALNLPF---DNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSILTLTDLPLLSVSKNDN 203
AL D+ SFD + + + AL E RVLK G L L+DL + +
Sbjct: 107 ALGGVLPFEDSASFDLVISLLVLHLLPPAKALRELLRVLKPGGRLVLSDLLRDGLLEGRL 166
Query: 204 KFKEYVKKNIHSNFILVEHYPDLLNKSGFELIKIDDITSHVM 245
+ ++ LL +L ++ + +
Sbjct: 167 AALLGFGDPVLERGDILLELEALLRLELLDLEELLGLLGELE 208
>gnl|CDD|183282 PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase;
Provisional.
Length = 383
Score = 59.5 bits (145), Expect = 5e-10
Identities = 50/163 (30%), Positives = 70/163 (42%), Gaps = 28/163 (17%)
Query: 39 YDSPEGQIGSVLF----GGHMHW--GYWDESNSKDNFAQGSDKLSRIMINKTSITKGQRF 92
YD +G+ LF M + GYW ++++ + AQ KL I K + G R
Sbjct: 120 YD-----LGNDLFEAMLDPRMQYSCGYWKDADTLEE-AQ-EAKLDLI-CRKLQLKPGMRV 171
Query: 93 IDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPF 152
+DIGCG+G A+ G V G+TIS QQ+ A + + GL V D +L
Sbjct: 172 LDIGCGWGGLARYAAEHYGVSVVGVTISAEQQKLAQE--RCAGL--PVEIRLQDYRDL-- 225
Query: 153 DNDSFD-----GGWFFESIFHMNHSAALNEARRVLKSGSILTL 190
N FD G FE + N+ RR LK + L
Sbjct: 226 -NGQFDRIVSVG--MFEHVGPKNYRTYFEVVRRCLKPDGLFLL 265
>gnl|CDD|233645 TIGR01934, MenG_MenH_UbiE, ubiquinone/menaquinone biosynthesis
methyltransferases. This model represents a family of
methyltransferases involved in the biosynthesis of
menaquinone and ubiqinone. Some members such as the UbiE
enzyme from E. coli are believed to act in both
pathways, while others may act in only the menaquinone
pathway. These methyltransferases are members of the
UbiE/CoQ family of methyltransferases (pfam01209) which
also contains ubiquinone methyltransferases and other
methyltransferases. Members of this clade include a wide
distribution of bacteria and eukaryotes, but no archaea.
An outgroup for this clade is provided by the
phosphatidylethanolamine methyltransferase (EC 2.1.1.17)
from Rhodobacter sphaeroides. Note that a number of
non-orthologous genes which are members of pfam03737
have been erroneously annotated as MenG
methyltransferases [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 223
Score = 55.3 bits (134), Expect = 4e-09
Identities = 40/138 (28%), Positives = 62/138 (44%), Gaps = 20/138 (14%)
Query: 67 DNFAQGSDKLSRIM------------INKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRV 114
D A D L+ ++ + + KGQ+ +D+ CG G I LAK+ R
Sbjct: 6 DRIAPKYDLLNDLLSFGLHRLWRRRAVKLIGVFKGQKVLDVACGTGDLAIELAKSAPDRG 65
Query: 115 DGITISKFQQESAMKTAKAEGLLD-KVNFLHGDALNLPFDNDSFDG---GWFFESIFHMN 170
+T F E ++ AK + L + F+ DA LPF+++SFD + ++ +
Sbjct: 66 K-VTGVDFSSE-MLEVAKKKSELPLNIEFIQADAEALPFEDNSFDAVTIAFGLRNVTDIQ 123
Query: 171 HSAALNEARRVLKSGSIL 188
AL E RVLK G L
Sbjct: 124 --KALREMYRVLKPGGRL 139
>gnl|CDD|216988 pfam02353, CMAS, Mycolic acid cyclopropane synthetase. This family
consist of Cyclopropane-fatty-acyl-phospholipid synthase
or CFA synthase EC:2.1.1.79 this enzyme catalyze the
reaction: S-adenosyl-L-methionine + phospholipid
olefinic fatty acid <=> S-adenosyl-L-homocysteine +
phospholipid cyclopropane fatty acid.
Length = 273
Score = 55.8 bits (135), Expect = 5e-09
Identities = 41/123 (33%), Positives = 58/123 (47%), Gaps = 6/123 (4%)
Query: 70 AQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMK 129
AQ KL I+ +K + G +DIGCG+G R A+ V G+T+SK Q + A +
Sbjct: 46 AQ-QAKLDLIL-DKLGLKPGMTLLDIGCGWGGLMRRAAERYDVNVVGLTLSKNQYKHARQ 103
Query: 130 TAKAEGLLDKVNFLHGD--ALNLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSI 187
AEGL KV L D + PFD G FE + H N+ + +L G +
Sbjct: 104 RVAAEGLQRKVEVLLQDYRDFDEPFDRIVSVG--MFEHVGHENYDTFFKKLYNLLPPGGL 161
Query: 188 LTL 190
+ L
Sbjct: 162 MLL 164
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 52.3 bits (126), Expect = 6e-09
Identities = 27/67 (40%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 92 FIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLP 151
+D+GCG G LA+A V G+ ISK E A + + +G KV F+ DA +LP
Sbjct: 1 ILDLGCGTGRVLRALARAGPSSVTGVDISKEALELAKERLRDKGP--KVRFVVADARDLP 58
Query: 152 FDNDSFD 158
F+ SFD
Sbjct: 59 FEEGSFD 65
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 52.4 bits (126), Expect = 9e-09
Identities = 28/118 (23%), Positives = 43/118 (36%), Gaps = 21/118 (17%)
Query: 89 GQRFIDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDA 147
G R +D G G G + A+A RV G+ + A + GL +V + GDA
Sbjct: 1 GDRVLDPGAGSGAFLLAAARAGPDARVVGVELDPEAAALARRRLALAGLAPRVRVVVGDA 60
Query: 148 L---------------NLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSILTL 190
N P+ + D + + L A R+LK G +L +
Sbjct: 61 RELLELPDGSFDLVLGNPPYGPRAGDPKDNRDL-----YDRFLAAALRLLKPGGVLVV 113
>gnl|CDD|214839 smart00828, PKS_MT, Methyltransferase in polyketide synthase (PKS)
enzymes.
Length = 224
Score = 52.8 bits (127), Expect = 3e-08
Identities = 43/163 (26%), Positives = 73/163 (44%), Gaps = 12/163 (7%)
Query: 91 RFIDIGCGFGLSGIRLAKAKG-CRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALN 149
R +D GCG+G I LA+ ++ G TIS Q E + +A GL ++ + D+
Sbjct: 2 RVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAK 61
Query: 150 LPFDNDSFDGGWFFESIFHMNHSAAL--NEARRVLKSGSILTLTDLPLLSVSKNDNKFKE 207
PF D++D + FE I H+ L N +R LK G L L D +S ++
Sbjct: 62 DPFP-DTYDLVFGFEVIHHIKDKMDLFSNISRH-LKDGGHLVLADFIANLLSAIEH---- 115
Query: 208 YVKKNIHSNFILVEHYPDLLNKSGFELIKIDDITSHVMPLLVP 250
+ S + E + +LL ++ +++ D + + L
Sbjct: 116 ---EETTSYLVTREEWAELLARNNLRVVEGVDASLEIANFLYD 155
>gnl|CDD|203189 pfam05175, MTS, Methyltransferase small domain. This domain is
found in ribosomal RNA small subunit methyltransferase C
as well as other methyltransferases .
Length = 170
Score = 50.6 bits (122), Expect = 8e-08
Identities = 36/136 (26%), Positives = 54/136 (39%), Gaps = 22/136 (16%)
Query: 69 FAQGS-DKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQES 126
F+ G D SR++++ G + +D+GCG+G+ G LAK V + I+ ES
Sbjct: 11 FSHGRLDIGSRLLLSHLPKPLGGKVLDLGCGYGVLGAALAKRSPDLEVTMVDINARALES 70
Query: 127 AMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI-----FH----MNHSAALN- 176
A A G L+ D + + FD I FH ++ A
Sbjct: 71 ARANLAANG-LENGEVFWSDLYS-AVEPGKFD------LIISNPPFHAGKATDYDVAQRF 122
Query: 177 --EARRVLKSGSILTL 190
A R LK G L +
Sbjct: 123 IAGAARHLKPGGELWI 138
>gnl|CDD|131799 TIGR02752, MenG_heptapren, demethylmenaquinone 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
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 231
Score = 51.0 bits (122), Expect = 1e-07
Identities = 39/136 (28%), Positives = 62/136 (45%), Gaps = 19/136 (13%)
Query: 60 WDESNSKDNFAQGS---DKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKG--CRV 114
+D NS +F + + M ++ G +D+ CG I LA+A G V
Sbjct: 18 YDRMNSVISFQRHKKWRKDTMKRM----NVQAGTSALDVCCGTADWSIALAEAVGPEGHV 73
Query: 115 DGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI-FHM---- 169
G+ S+ + K GL V +HG+A+ LPFD++SFD + +I F +
Sbjct: 74 IGLDFSENMLSVGRQKVKDAGL-HNVELVHGNAMELPFDDNSFD----YVTIGFGLRNVP 128
Query: 170 NHSAALNEARRVLKSG 185
++ L E RV+K G
Sbjct: 129 DYMQVLREMYRVVKPG 144
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 47.8 bits (114), Expect = 2e-07
Identities = 35/100 (35%), Positives = 47/100 (47%), Gaps = 6/100 (6%)
Query: 93 IDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQESAMKTAKAEGLLD--KVNFLHGDALN 149
+DIGCG G L +A G G+ IS E+A + A GLLD +V DA++
Sbjct: 1 LDIGCGTGTLLRALLEALPGLEYTGVDISPAALEAAAERLAALGLLDAVRVRLDVLDAID 60
Query: 150 LPFDNDSFDGGWFFESIFHMNH-SAALNEARRVLKSGSIL 188
L SFD + H+ A L RR+LK G +L
Sbjct: 61 LDP--GSFDVVVASNVLHHLADPRAVLRNLRRLLKPGGVL 98
>gnl|CDD|233687 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
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 219
Score = 49.0 bits (117), Expect = 6e-07
Identities = 32/112 (28%), Positives = 49/112 (43%), Gaps = 14/112 (12%)
Query: 80 MINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDK 139
+ K + KG+R +D GCG GL I LAK +G V + IS+ + A A+ +
Sbjct: 48 WLPKDPL-KGKRVLDAGCGTGLLSIELAK-RGAIVKAVDISEQMVQMARNRAQGRDVAGN 105
Query: 140 VNFLHGDALNLPFDNDSFDGGWFFESIFH---------MNHSAALNEARRVL 182
V F D L+L FD + + H + H A+L + R +
Sbjct: 106 VEFEVNDLLSL---CGEFDIVVCMDVLIHYPASDMAKALGHLASLTKERVIF 154
>gnl|CDD|177877 PLN02233, PLN02233, ubiquinone biosynthesis methyltransferase.
Length = 261
Score = 49.1 bits (117), Expect = 7e-07
Identities = 35/122 (28%), Positives = 61/122 (50%), Gaps = 9/122 (7%)
Query: 78 RIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGC--RVDGITISKFQQESAM--KTAKA 133
R+ ++ + G R +D+ CG G L++ G +V G+ S Q A + KA
Sbjct: 63 RMAVSWSGAKMGDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKA 122
Query: 134 EGLLDKVNFLHGDALNLPFDNDSFDG---GWFFESIFHMNHSAALNEARRVLKSGSILTL 190
+ + ++ GDA +LPFD+ FD G+ ++ ++ A+ E RVLK GS +++
Sbjct: 123 KSCYKNIEWIEGDATDLPFDDCYFDAITMGYGLRNV--VDRLKAMQEMYRVLKPGSRVSI 180
Query: 191 TD 192
D
Sbjct: 181 LD 182
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 47.2 bits (113), Expect = 2e-06
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 77 SRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGL 136
S ++ KG R +++G G G+ I AK G +V G+ I+ + E A AK +
Sbjct: 12 SFLLAENAVDKKGDRVLEVGTGSGIVAIVAAK-NGKKVVGVDINPYAVECAKCNAKLNNI 70
Query: 137 -LDKVNFLHGDALNLPFDNDSFD 158
+ V + D L PF D FD
Sbjct: 71 RNNGVEVIRSD-LFEPFRGDKFD 92
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 47.1 bits (113), Expect = 3e-06
Identities = 22/59 (37%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGD 146
G R +D GCG G I LA+ G +V IS E A + A GL + F GD
Sbjct: 63 TGLRILDAGCGVGSLSIPLARR-GAKVVASDISPQMVEEARERAPEAGLAGNITFEVGD 120
>gnl|CDD|173391 PTZ00098, PTZ00098, phosphoethanolamine N-methyltransferase;
Provisional.
Length = 263
Score = 46.9 bits (111), Expect = 4e-06
Identities = 45/176 (25%), Positives = 79/176 (44%), Gaps = 12/176 (6%)
Query: 76 LSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEG 135
LS I +N+ S + +DIG G G + + G V G+ I + A +
Sbjct: 45 LSDIELNENS-----KVLDIGSGLGGGCKYINEKYGAHVHGVDICEKMVNIAKLRNSDK- 98
Query: 136 LLDKVNFLHGDALNLPFDNDSFDGGWFFESIFHM---NHSAALNEARRVLKSGSILTLTD 192
+K+ F D L F ++FD + ++I H+ + + + LK IL +TD
Sbjct: 99 --NKIEFEANDILKKDFPENTFDMIYSRDAILHLSYADKKKLFEKCYKWLKPNGILLITD 156
Query: 193 LPLLSVSKNDNKFKEYVKKNIHSNFILVEHYPDLLNKSGFELIKIDDITSHVMPLL 248
+ D +FK Y+KK ++ I ++ Y DL+ F+ + DI+ + + LL
Sbjct: 157 YCADKIENWDEEFKAYIKKRKYT-LIPIQEYGDLIKSCNFQNVVAKDISDYWLELL 211
>gnl|CDD|234248 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 [Protein fate, Protein modification
and repair].
Length = 251
Score = 46.7 bits (112), Expect = 4e-06
Identities = 25/75 (33%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQESAMKTAK--AEGL-LDKVNFL 143
R +D+G G G + LAK RV + IS A+ A+ A L LD V FL
Sbjct: 87 GPLRVLDLGTGSGAIALALAKERPDARVTAVDIS----PEALAVARKNAARLGLDNVEFL 142
Query: 144 HGDALNLPFDNDSFD 158
D P FD
Sbjct: 143 QSDWFE-PLPGGKFD 156
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 45.7 bits (109), Expect = 9e-06
Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 3/80 (3%)
Query: 82 NKTSITKGQRFIDIGCGFGLSGIRLAKAKG-CRVDGITISKFQQESAMKTAKAEGLLDKV 140
+ K R +D+G G G G+ LA+ ++ G+ I + E A + L +++
Sbjct: 38 AFAPVPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERI 97
Query: 141 NFLHGDALNL--PFDNDSFD 158
+ D SFD
Sbjct: 98 QVIEADIKEFLKALVFASFD 117
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 44.4 bits (106), Expect = 3e-05
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 15/78 (19%)
Query: 88 KGQRFIDIGCGFGLSG---IRLAKA-KGCRVDGITISKFQQESAMKTAK---AEGLLDKV 140
+ R +D+G G SG + LAK V + IS A+ A+ GL +V
Sbjct: 108 EPLRVLDLGTG---SGAIALALAKERPDAEVTAVDIS----PEALAVARRNAKHGLGARV 160
Query: 141 NFLHGDALNLPFDNDSFD 158
FL GD P FD
Sbjct: 161 EFLQGDWFE-PLPGGRFD 177
>gnl|CDD|234556 TIGR04345, ovoA_Cterm, putative 4-mercaptohistidine
N1-methyltranferase. Ovothiol A is
N1-methyl-4-mercaptohistidine. In the absence of
S-adenosylmethione, a methyl donor, the intermediate
produced is 4-mercaptohistidine. In both Erwinia
tasmaniensis and Trypanosoma cruzi, a protein occurs
with 5-histidylcysteine sulfoxide synthase activity, but
these two enzymes and most homologs share an additional
C-terminal methyltransferase domain. Thus OvoA may be a
bifunctional enzyme with 5-histidylcysteine sulfoxide
synthase and 4-mercaptohistidine N1-methyltranferase
activity. This model describes C-terminal putative
4-mercaptohistidine N1-methyltranferase domain
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Glutathione and analogs].
Length = 242
Score = 43.4 bits (103), Expect = 5e-05
Identities = 31/131 (23%), Positives = 48/131 (36%), Gaps = 32/131 (24%)
Query: 54 HMHWGYWDESNSKDNFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCR 113
H+G +E NF KL+ + + + +R +DIGC G + LA+
Sbjct: 12 EAHYG--EEYFGVPNFPV---KLAELALAQFRNKSRKRALDIGCAVGRASFELARYFD-E 65
Query: 114 VDGITIS--------KFQQESAM-------------KTAKAEGL-----LDKVNFLHGDA 147
VDGI S ++ ++ K L D+V+F GDA
Sbjct: 66 VDGIDFSARFIRPAVALKERGSLRYALKEEGELVSFKEVTLSDLGLDEVRDRVSFFQGDA 125
Query: 148 LNLPFDNDSFD 158
NL +D
Sbjct: 126 CNLKPHFTGYD 136
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol
methylase [Coenzyme metabolism].
Length = 243
Score = 43.1 bits (102), Expect = 7e-05
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 7/72 (9%)
Query: 89 GQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLD--KVNFLHGD 146
G R +D+GCG G+ LA+ G V GI S E ++ AK L +++
Sbjct: 60 GLRVLDVGCGGGILSEPLARL-GASVTGIDAS----EKPIEVAKLHALESGVNIDYRQAT 114
Query: 147 ALNLPFDNDSFD 158
+L FD
Sbjct: 115 VEDLASAGGQFD 126
>gnl|CDD|216342 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 = 172
Score = 41.5 bits (98), Expect = 1e-04
Identities = 38/160 (23%), Positives = 59/160 (36%), Gaps = 27/160 (16%)
Query: 75 KLSRIMINKTSITKGQRFIDIGCGFG-------LSGIRLAKAKGCRVDGITISKFQQESA 127
L+R M+N G +D CG G L G +A G +D + A
Sbjct: 15 TLARAMVNLAGWKPGDPLLDPMCGSGTILIEAALMGANIAPLYGSDIDWRMVQG-----A 69
Query: 128 MKTAKAEGLLDKVNFLHGDALNLPFDNDSFDG-------GWFFESIFH--MN---HSAAL 175
A+ G+ DK+ F+ DA LP N S D G I + A L
Sbjct: 70 RINAENAGVGDKIEFVQADAAKLPLLNGSVDAIVTNPPYG---IRIGSKGALEKLYPAFL 126
Query: 176 NEARRVLKSGSILTLTDLPLLSVSKNDNKFKEYVKKNIHS 215
EA+RVL+ + + + + ++ + N+H
Sbjct: 127 REAKRVLRGRLVFATPEKKDFEKAAEERGLRKKHEFNVHL 166
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 42.8 bits (101), Expect = 1e-04
Identities = 44/172 (25%), Positives = 81/172 (47%), Gaps = 11/172 (6%)
Query: 81 INKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKV 140
++K + GQ+ +D+GCG G +A+ V GI +S A++ +A G V
Sbjct: 259 VDKLDLKPGQKVLDVGCGIGGGDFYMAENFDVHVVGIDLSVNMISFALE--RAIGRKCSV 316
Query: 141 NFLHGDALNLPFDNDSFDGGWFFESIFHMNHSAALNEA-RRVLKSGSILTLTDLPLLSVS 199
F D + ++SFD + ++I H+ AL + + LK G + ++D S
Sbjct: 317 EFEVADCTKKTYPDNSFDVIYSRDTILHIQDKPALFRSFFKWLKPGGKVLISDY-CRSPG 375
Query: 200 KNDNKFKEYVKK---NIHSNFILVEHYPDLLNKSGFELIKIDDITSHVMPLL 248
+F EY+K+ ++H V+ Y +L +GF+ + +D T + +L
Sbjct: 376 TPSPEFAEYIKQRGYDLHD----VQAYGQMLKDAGFDDVIAEDRTDQFLQVL 423
>gnl|CDD|223971 COG1041, COG1041, Predicted DNA modification methylase [DNA
replication, recombination, and repair].
Length = 347
Score = 42.4 bits (100), Expect = 2e-04
Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 75 KLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAK--GCRVDGITISKFQQESAMKTAK 132
+L+R M+N + +G+ +D CG G GI L +A G RV G I + A +
Sbjct: 184 RLARAMVNLARVKRGELVLDPFCGTG--GI-LIEAGLMGARVIGSDIDERMVRGAKINLE 240
Query: 133 AEGLLDKVNFLHGDALNLPFDNDSFDG 159
G+ D DA NLP ++S D
Sbjct: 241 YYGIEDYPVLKVLDATNLPLRDNSVDA 267
>gnl|CDD|182340 PRK10258, PRK10258, biotin biosynthesis protein BioC; Provisional.
Length = 251
Score = 41.3 bits (97), Expect = 3e-04
Identities = 30/109 (27%), Positives = 51/109 (46%), Gaps = 11/109 (10%)
Query: 89 GQRF---IDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHG 145
++F +D GCG G R + +G +V + +S A + A+ ++L G
Sbjct: 40 QRKFTHVLDAGCGPG-WMSRYWRERGSQVTALDLSPPMLAQARQKDAAD------HYLAG 92
Query: 146 DALNLPFDNDSFDGGWFFESI-FHMNHSAALNEARRVLKSGSILTLTDL 193
D +LP +FD W ++ + N S AL E RV++ G ++ T L
Sbjct: 93 DIESLPLATATFDLAWSNLAVQWCGNLSTALRELYRVVRPGGVVAFTTL 141
>gnl|CDD|222236 pfam13578, Methyltransf_24, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 105
Score = 37.6 bits (88), Expect = 9e-04
Identities = 25/107 (23%), Positives = 40/107 (37%), Gaps = 22/107 (20%)
Query: 95 IGCGFGLSGIRLAKA----KGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNL 150
IG G+S + LA+A R+ I + A + GL D+V L GD+L
Sbjct: 3 IGVYSGVSTLWLAQALKDNGLGRLYSIDP--WPGAEAGANLRKAGLADRVRLLRGDSLEA 60
Query: 151 --PFDNDSFDGGWFFESIFHM--NHSAA-----LNEARRVLKSGSIL 188
+ S D + + +H+ L +L G I+
Sbjct: 61 LARLPDGSID-------LLFIDGDHTYEAVLADLELWLPLLAPGGII 100
>gnl|CDD|233708 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 [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 240
Score = 39.6 bits (93), Expect = 0.001
Identities = 42/184 (22%), Positives = 74/184 (40%), Gaps = 20/184 (10%)
Query: 63 SNSKDNFA----QGSDKLSRIMINKTSITKGQRFIDIGCGFG-LSGIRLAKAKGCRVDGI 117
+ + D A + + +L ++ K +DIGCG G L+ L +
Sbjct: 6 AKTYDRHAKIQREMAKRLLALLKEKGIFIPA-SVLDIGCGTGYLTRALLKRFPQAEFIAN 64
Query: 118 TISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI--FHMNHSAAL 175
IS A V F+ GDA LP ++ SFD ++ + S AL
Sbjct: 65 DISAGMLAQAKTKLSE-----NVQFICGDAEKLPLEDSSFDLIVSNLALQWCD-DLSQAL 118
Query: 176 NEARRVLKSGSILTLTDLPLLSVSKNDNKFKEYVKKNIHSNFILVEHYPDLLNKSGFELI 235
+E RVLK G +L + ++ + F ++ ++ ++ LL S FEL+
Sbjct: 119 SELARVLKPGGLLAFSTFGPGTLHELRQSFGQHG-----LRYLSLDELKALLKNS-FELL 172
Query: 236 KIDD 239
+++
Sbjct: 173 TLEE 176
>gnl|CDD|233303 TIGR01177, TIGR01177, TIGR01177 family protein. This family is
found exclusively in the Archaea [Hypothetical proteins,
Conserved].
Length = 329
Score = 39.7 bits (93), Expect = 0.001
Identities = 42/167 (25%), Positives = 68/167 (40%), Gaps = 29/167 (17%)
Query: 75 KLSRIMINKTSITKGQRFIDIGCGFGLSGIRL-AKAKGCRVDGITISKFQQESAMKTAKA 133
KL+R M+N +T+G R +D CG G G + A G +V G I A +
Sbjct: 169 KLARAMVNLARVTEGDRVLDPFCGTG--GFLIEAGLMGAKVIGCDIDWKMVAGARINLEH 226
Query: 134 EGLLDKVNFLHGDALNLPFDNDSFDG--------------GWFFESIFHMNHSAALNEAR 179
G+ D GDA LP ++S D G ES++ +L E
Sbjct: 227 YGIEDFF-VKRGDATKLPLSSESVDAIATDPPYGRSTTAAGDGLESLY----ERSLEEFH 281
Query: 180 RVLKSGS---ILTLTDLPLLSVSKN----DNKFKEYVKKNIHSNFIL 219
VLKS T + L S++++ +F+ V +++ + +
Sbjct: 282 EVLKSEGWIVYAVPTRIDLESLAEDAFRVVKRFEVRVHRSLTRHIYV 328
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 38.4 bits (90), Expect = 0.002
Identities = 24/81 (29%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 79 IMINKTSITKGQRFIDIGCGFGLSGIRLAKAK-GCRVDGITISKFQQESAMKTAKAEGLL 137
+ ++K G R DIG G G I A A RV I + E + A G +
Sbjct: 25 LTLSKLRPRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFG-V 83
Query: 138 DKVNFLHGDALNLPFDNDSFD 158
D + + GDA D S D
Sbjct: 84 DNLEVVEGDAPEALPDLPSPD 104
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 38.9 bits (91), Expect = 0.002
Identities = 22/73 (30%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKG-CRVDGITISKFQQESAMKTAK--AEGL-LDKVNFL 143
+R +D+G G G I LAK V + IS A+ A+ AE L +V +
Sbjct: 110 LDKRILDLGTGSGAIAIALAKEGPDAEVIAVDIS----PDALALARENAERNGLVRVLVV 165
Query: 144 HGD---ALNLPFD 153
D L FD
Sbjct: 166 QSDLFEPLRGKFD 178
>gnl|CDD|165876 PLN02232, PLN02232, ubiquinone biosynthesis methyltransferase.
Length = 160
Score = 37.7 bits (87), Expect = 0.002
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 5/68 (7%)
Query: 129 KTAKAEGLLDKVNFLHGDALNLPFDNDSFDG---GWFFESIFHMNHSAALNEARRVLKSG 185
++ KA + ++ GDA++LPFD+ FD G+ ++ ++ A+ E RVLK G
Sbjct: 17 QSLKARSCYKCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNV--VDRLRAMKEMYRVLKPG 74
Query: 186 SILTLTDL 193
S +++ D
Sbjct: 75 SRVSILDF 82
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 38.6 bits (90), Expect = 0.002
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 7/78 (8%)
Query: 78 RIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLL 137
MI K + +R +D+GCG GL+G L + R+ G+ IS E+ + A +GL
Sbjct: 115 AEMIGKADLGPFRRMLDLGCGTGLTGEAL-RDMADRLTGVDIS----ENMLAKAHEKGLY 169
Query: 138 DKVNFLHGDALNLPFDND 155
D + +A+ D
Sbjct: 170 DTL--YVAEAVLFLEDLT 185
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 38.0 bits (89), Expect = 0.004
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 81 INKTSITKGQRFIDIGC-GFGLSGIRLAKAKGCRVDGITISKFQQESAMK 129
+ K ++ G+ +G G G ++ AKA G V IT S+ + E A K
Sbjct: 159 LKKANVKPGKWVAVVGAGGLGHMAVQYAKAMGAEVIAITRSEEKLELAKK 208
>gnl|CDD|233880 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 [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 124
Score = 35.4 bits (82), Expect = 0.009
Identities = 26/121 (21%), Positives = 41/121 (33%), Gaps = 17/121 (14%)
Query: 79 IMINKTSITKGQRFIDIGCGFGLSGIRLAKAKG-CRVDGITISKFQQESAMKTAKAEGLL 137
+ ++K + G DIG G G I A+ RV I + + + + G +
Sbjct: 10 LTLSKLRLRPGDVLWDIGAGTGSVTIEAARLVPNGRVYAIERNPEALDLIERNLRRFG-V 68
Query: 138 DKVNFLHGDALNLPFDNDS-FD------GGWFFESIFHMNHSAALNEARRVLKSGSILTL 190
+ + GDA P D D G + I L R L+ G + L
Sbjct: 69 SNIVIVEGDAPEAPEDLLPDPDAVFVGGSGGLLQEI--------LEAVERRLRPGGRIVL 120
Query: 191 T 191
Sbjct: 121 N 121
>gnl|CDD|237007 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
Length = 272
Score = 36.5 bits (85), Expect = 0.012
Identities = 41/208 (19%), Positives = 68/208 (32%), Gaps = 43/208 (20%)
Query: 85 SITKGQRFIDIGCGFGLSGIRLAKAKGC--RVDGITISKFQQESAMKTAKAEGLLDKVNF 142
+ G+ +D+G G G A+ G +V G+ ++ A A+ G V F
Sbjct: 74 ELKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGY-TNVEF 132
Query: 143 LHGDALNLPFDNDSFDGGWFFESIFH---MNHS----AALNEARRVLKSG------SILT 189
G+ LP ++S D I +N S EA RVLK G ++
Sbjct: 133 RLGEIEALPVADNSVD------VIISNCVINLSPDKERVFKEAFRVLKPGGRFAISDVVL 186
Query: 190 LTDLPLLSVSKNDNKFKEYVKKNIH------SNFILVEHYPDLLNKSGFELIKI---DDI 240
+LP E ++ + + + E Y +L ++GF I I +
Sbjct: 187 RGELP------------EEIRNDAELYAGCVAGALQEEEYLAMLAEAGFVDITIQPKREY 234
Query: 241 TSHVMPLLVPKLTEATLTYKKEIYKSIP 268
+ A S
Sbjct: 235 RIPDAREFLEDWGIAPGRQLDGYIVSAT 262
>gnl|CDD|233668 TIGR01983, UbiG, ubiquinone biosynthesis O-methyltransferase. This
model represents an O-methyltransferase believed to act
at two points in the ubiquinone biosynthetic pathway in
bacteria (UbiG) and fungi (COQ3). A separate methylase
(MenG/UbiE) catalyzes the single C-methylation step. The
most commonly used names for genes in this family do not
indicate whether this gene is an O-methyl, or C-methyl
transferase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 224
Score = 36.1 bits (84), Expect = 0.012
Identities = 42/169 (24%), Positives = 62/169 (36%), Gaps = 31/169 (18%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAK---AEGLLDKVNFLH 144
G R +D+GCG GL LA+ G V GI S E ++ AK + L K+ +
Sbjct: 45 FGLRVLDVGCGGGLLSEPLAR-LGANVTGIDAS----EENIEVAKLHAKKDPLLKIEYRC 99
Query: 145 GDALNLPFDND-SFDGGWFFESIFHM-NHSAALNEARRVLKSGSILTLTDLPLLSVSKND 202
+L SFD E + H+ + A + ++LK G IL + + N
Sbjct: 100 TSVEDLAEKGAKSFDVVTCMEVLEHVPDPQAFIRACAQLLKPGGILFFSTI-------NR 152
Query: 203 NK--------FKEY----VKKNIH--SNFILVEHYPDLLNKSGFELIKI 237
EY V K H FI L +G + +
Sbjct: 153 TPKSYLLAIVGAEYILRIVPKGTHDWEKFIKPSELTSWLESAGLRVKDV 201
>gnl|CDD|225174 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA
(uracil-5-)-methyltransferase [Translation, ribosomal
structure and biogenesis].
Length = 432
Score = 36.5 bits (85), Expect = 0.015
Identities = 25/61 (40%), Positives = 36/61 (59%), Gaps = 2/61 (3%)
Query: 87 TKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGD 146
G+R +D+ CG G G+ LAK + +V G+ IS E+A + A A G +D V F+ GD
Sbjct: 292 AGGERVLDLYCGVGTFGLPLAK-RVKKVHGVEISPEAVEAAQENAAANG-IDNVEFIAGD 349
Query: 147 A 147
A
Sbjct: 350 A 350
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally 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. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 35.8 bits (83), Expect = 0.016
Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 12/103 (11%)
Query: 86 ITKGQRFIDIGCGF-GLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLH 144
+ G + +G G GL +LAKA G RV S + E AK G +++
Sbjct: 132 LKPGDTVLVLGAGGVGLLAAQLAKAAGARVIVTDRSDEKLEL----AKELGADHVIDYKE 187
Query: 145 GD--ALNLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSG 185
D D +++ L +A R+L+ G
Sbjct: 188 EDLEEELRLTGGGGADV--VIDAV---GGPETLAQALRLLRPG 225
>gnl|CDD|215270 PLN02490, PLN02490, MPBQ/MSBQ methyltransferase.
Length = 340
Score = 36.0 bits (83), Expect = 0.019
Identities = 34/130 (26%), Positives = 57/130 (43%), Gaps = 17/130 (13%)
Query: 58 GYWDESNSKDNFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGI 117
G+W E + +D+ + +D R + + +D+G G G + + + K VD
Sbjct: 94 GHWTE-DMRDDALEPADLSDRNL----------KVVDVGGGTGFTTLGIVK----HVDAK 138
Query: 118 TISKFQQES-AMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI-FHMNHSAAL 175
++ Q + AK + L + + GDA +LPF D D SI + + +
Sbjct: 139 NVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWPDPQRGI 198
Query: 176 NEARRVLKSG 185
EA RVLK G
Sbjct: 199 KEAYRVLKIG 208
>gnl|CDD|176221 cd08260, Zn_ADH6, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group has the characteristic
catalytic and structural zinc sites of the
zinc-dependent alcohol dehydrogenases. 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 = 345
Score = 35.7 bits (83), Expect = 0.020
Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 7/75 (9%)
Query: 78 RIMINKTSITKGQRFIDIGCG-FGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGL 136
R ++++ + G+ GCG GLS + +A A G RV + I + ++ A+ G
Sbjct: 155 RALVHQARVKPGEWVAVHGCGGVGLSAVMIASALGARVIAVDID----DDKLELARELGA 210
Query: 137 LDKVNFLHGDALNLP 151
+ VN + ++
Sbjct: 211 VATVN--ASEVEDVA 223
>gnl|CDD|236841 PRK11088, rrmA, 23S rRNA methyltransferase A; Provisional.
Length = 272
Score = 35.3 bits (82), Expect = 0.023
Identities = 31/104 (29%), Positives = 42/104 (40%), Gaps = 18/104 (17%)
Query: 90 QRFIDIGCGFGLSGIRLAKA----KGCRVDGITISKFQQESAMK-TAKAEGLLDKVNFLH 144
+DIGCG G LA A ++ G+ ISK A+K AK +V F
Sbjct: 87 TALLDIGCGEGYYTHALADALPEITTMQLFGLDISK----VAIKYAAKR---YPQVTFCV 139
Query: 145 GDALNLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSIL 188
+ LPF + S D I + E RV+K G I+
Sbjct: 140 ASSHRLPFADQSLDA------IIRIYAPCKAEELARVVKPGGIV 177
>gnl|CDD|203179 pfam05148, Methyltransf_8, Hypothetical methyltransferase. This
family consists of several uncharacterized eukaryotic
proteins which are related to methyltransferases
pfam01209.
Length = 219
Score = 34.8 bits (80), Expect = 0.036
Identities = 23/100 (23%), Positives = 40/100 (40%), Gaps = 20/100 (20%)
Query: 146 DALNLPFDNDSFDGGWFFESIFHMNHSAALNEARRVLKSGSILTLTDLPLLSVSKNDNKF 205
D +P +++S D F S+ N + L EA R+LK+G +L + +
Sbjct: 112 DMARVPLEDESVDVAVFCLSLMGTNIADFLKEANRILKNGGLLKIAE------------- 158
Query: 206 KEYVKKNIHSNFILVEHYPDLLNKSGFELIKIDDITSHVM 245
+ S F V + K GFE+ +D + +
Sbjct: 159 -------VRSRFPSVGLFERAFTKLGFEVEHVDLSNAQFV 191
>gnl|CDD|226607 COG4122, COG4122, Predicted O-methyltransferase [General function
prediction only].
Length = 219
Score = 34.6 bits (80), Expect = 0.037
Identities = 26/115 (22%), Positives = 50/115 (43%), Gaps = 19/115 (16%)
Query: 85 SITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAE----GLLDKV 140
++ +R ++IG G S + +A A DG + + E + A+ G+ D++
Sbjct: 56 RLSGPKRILEIGTAIGYSALWMALA--LPDDGRLTTIERDEERAEIARENLAEAGVDDRI 113
Query: 141 NFLH-GDALNL--PFDNDSFDGGWFFESIF----HMNHSAALNEARRVLKSGSIL 188
L GDAL++ + SFD +F ++ L A +L+ G ++
Sbjct: 114 ELLLGGDALDVLSRLLDGSFD------LVFIDADKADYPEYLERALPLLRPGGLI 162
>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 [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 306
Score = 34.6 bits (79), Expect = 0.040
Identities = 22/176 (12%), Positives = 61/176 (34%), Gaps = 18/176 (10%)
Query: 76 LSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAK--- 132
++++ + + ++ ID+G G G + K + + A+
Sbjct: 137 AIQLLLEEAKLDGVKKMIDVGGGIGDISAAMLKH----FPELDSTILNLPGAIDLVNENA 192
Query: 133 -AEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESIFHMNH---SAALNEARRVLKSGSIL 188
+G+ D++ + D + D F ++ N + +A ++SG L
Sbjct: 193 AEKGVADRMRGIAVDIYKESYPEA--DAVLFCRILYSANEQLSTIMCKKAFDAMRSGGRL 250
Query: 189 TLTDLPLLSVSKNDNKFKEYVKKNIHSNFILVEH-----YPDLLNKSGFELIKIDD 239
+ D+ + + + + F ++ Y ++L G++ + +
Sbjct: 251 LILDMVIDDPENPNFDYLSHYILGAGMPFSVLGFKEQARYKEILESLGYKDVTMVR 306
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 34.0 bits (78), Expect = 0.051
Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 81 INKTSITKGQRFIDIGCGFGLSGIR--LAKAKGCRVDGITISKFQQESAMKTAKAEGLLD 138
++K + KG +DIGCG G + L + +V + + + A+ G+L+
Sbjct: 33 LSKLRLRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLN 92
Query: 139 KVNFLHGDALN-LPFDNDSFD 158
+ + G+A L N+ FD
Sbjct: 93 NIVLIKGEAPEILFTINEKFD 113
>gnl|CDD|225370 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal
structure and biogenesis].
Length = 300
Score = 34.2 bits (79), Expect = 0.068
Identities = 32/139 (23%), Positives = 53/139 (38%), Gaps = 26/139 (18%)
Query: 65 SKDNFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKG-CRVDGITISKFQ 123
S+D +GS L + G + +D+GCG+G+ G+ LAK ++ + ++
Sbjct: 139 SRDKLDKGSRLLLETLPPDL----GGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARA 194
Query: 124 QESAMKTAKAEGLLDKVNFLHGDALNLPFDNDSFDGGWFFESI-----FHMNHSAALN-- 176
ESA K A G+ + + + FD I FH + +
Sbjct: 195 VESARKNLAANGVENTEVWASNLYEPVE---GKFD------LIISNPPFHAGKAVVHSLA 245
Query: 177 -----EARRVLKSGSILTL 190
A R LK G L +
Sbjct: 246 QEIIAAAARHLKPGGELWI 264
>gnl|CDD|232960 TIGR00406, prmA, ribosomal protein L11 methyltransferase.
Ribosomal protein L11 methyltransferase is an
S-adenosyl-L-methionine-dependent methyltransferase
required for the modification of ribosomal protein L11.
This protein is found in bacteria and (with a probable
transit peptide) in Arabidopsis [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 288
Score = 33.7 bits (77), Expect = 0.085
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 5/70 (7%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEG----LLDKVNFL 143
K + ID+GCG G+ I K +V GI I ESA K A+ L K+ +L
Sbjct: 159 KDKNVIDVGCGSGILSIAALKLGAAKVVGIDIDPLAVESARKNAELNQVSDRLQVKLIYL 218
Query: 144 HGDALNLPFD 153
+ D
Sbjct: 219 E-QPIEGKAD 227
>gnl|CDD|225172 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal
structure and biogenesis].
Length = 198
Score = 33.4 bits (77), Expect = 0.086
Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAK--AEGLLDKVNFLHG 145
+G+ +D+G G G+ I A RV + I A++ A+ AE LL V F+
Sbjct: 45 EGKTVLDLGAGTGILAIGAALLGASRVLAVDIDP----EALEIARANAEELLGDVEFVVA 100
Query: 146 DA--LNLPFD 153
D FD
Sbjct: 101 DVSDFRGKFD 110
>gnl|CDD|226413 COG3897, COG3897, Predicted methyltransferase [General function
prediction only].
Length = 218
Score = 33.6 bits (77), Expect = 0.087
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 76 LSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEG 135
L+R + + +G+R +D+G G GL I A+A V I + +++ A A G
Sbjct: 67 LARYIDDHPETVRGKRVLDLGAGSGLVAIAAARAGAAEVVAADIDPWLEQAIRLNAAANG 126
Query: 136 LLDKVNFLHGDALNLPFDNDSFD----GGWFFESIFH 168
+ + F H D + +FD G F+
Sbjct: 127 VS--ILFTHADLI---GSPPAFDLLLAGDLFYNHTEA 158
>gnl|CDD|233713 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
[Amino acid biosynthesis, Aspartate family].
Length = 194
Score = 33.1 bits (76), Expect = 0.10
Identities = 25/75 (33%), Positives = 31/75 (41%), Gaps = 10/75 (13%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHG 145
I G R +D+GCG G L K R GI I + + A G VN + G
Sbjct: 11 IPPGSRVLDLGCGDGELLALLRDEKQVRGYGIEID----QDGVLACVARG----VNVIQG 62
Query: 146 DA-LNLP-FDNDSFD 158
D L F + SFD
Sbjct: 63 DLDEGLEAFPDKSFD 77
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 32.9 bits (76), Expect = 0.10
Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 76 LSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITI-SKFQQESAMKTAKAE 134
+ +I + ++ G ++IG G G L + + RV I I + K A A
Sbjct: 2 IDKI-VRAANLRPGDTVLEIGPGKGALTEELLE-RAKRVTAIEIDPRLAPRLREKFAAA- 58
Query: 135 GLLDKVNFLHGDALNLPFDNDSFD 158
D + +HGDAL
Sbjct: 59 ---DNLTVIHGDALKFDLPKLQPY 79
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 33.1 bits (76), Expect = 0.10
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 7/85 (8%)
Query: 73 SDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAK 132
+ L+ + + G+R +D+ G G + A A V + IS+ SA A
Sbjct: 22 TQLLADALA-AEGLGPGRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLNAL 80
Query: 133 AEGLLDKVNFLHGD---ALN-LPFD 153
G+ V+ GD A+ PFD
Sbjct: 81 LAGV--DVDVRRGDWARAVEFRPFD 103
>gnl|CDD|176207 cd08245, CAD, Cinnamyl alcohol dehydrogenases (CAD) and related
proteins. Cinnamyl alcohol dehydrogenases (CAD),
members of the medium chain dehydrogenase/reductase
family, reduce cinnamaldehydes to cinnamyl alcohols in
the last step of monolignal metabolism in plant cells
walls. CAD binds 2 zinc ions and is NADPH- dependent.
CAD family members are also found in non-plant species,
e.g. in yeast where they have an aldehyde reductase
activity. The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes, or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 330
Score = 33.4 bits (77), Expect = 0.12
Identities = 25/100 (25%), Positives = 36/100 (36%), Gaps = 12/100 (12%)
Query: 95 IGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNLPFDN 154
IG G G ++ A+A G IT S ++E A K A+ ++D G L+
Sbjct: 171 IG-GLGHLAVQYARAMGFETVAITRSPDKRELARKLG-ADEVVDS-----GAELDEQAAA 223
Query: 155 DSFDGGWFFESIFHMNHSAALNEARRVLKSGSILTLTDLP 194
D A A L+ G + L LP
Sbjct: 224 GGADVILVTVVSGA-----AAEAALGGLRRGGRIVLVGLP 258
>gnl|CDD|217012 pfam02390, Methyltransf_4, Putative methyltransferase. This is a
family of putative methyltransferases. The aligned
region contains the GXGXG S-AdoMet binding site
suggesting a putative methyltransferase activity.
Length = 198
Score = 32.7 bits (75), Expect = 0.13
Identities = 35/122 (28%), Positives = 46/122 (37%), Gaps = 20/122 (16%)
Query: 92 FIDIGCGFGLSGIRLAKAK-GCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDALNL 150
F++IGCG G + +AK GI I + A+K A L + L GDA+ L
Sbjct: 24 FLEIGCGMGDFLVAMAKKNPDKLFIGIEIRVPGVDKALKKIIALRGLQNLRILCGDAMKL 83
Query: 151 PFDNDSFDGGWFFESIF-----------HMNH----SAALNEARRVLK-SGSILTLTDLP 194
N DG + IF H L E RVLK G + TD+
Sbjct: 84 -LPNLFPDG--SLQKIFINFPDPWPKKRHHKRRLLQPEFLKEYARVLKPGGVLHLATDVE 140
Query: 195 LL 196
Sbjct: 141 EY 142
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 33.0 bits (76), Expect = 0.13
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 3/80 (3%)
Query: 81 INKTSITKGQRFIDIGCGFGLSGIRLAKAKG--CRVDGITISKFQQESAMKTAKAEGLLD 138
+ + I+ G R ++ G G G LA+A G V I + ++A + GL D
Sbjct: 87 VARLGISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGD 146
Query: 139 KVNFLHGDALNLPFDNDSFD 158
+V GD D + D
Sbjct: 147 RVTLKLGDVRE-GIDEEDVD 165
>gnl|CDD|220246 pfam09445, Methyltransf_15, RNA cap guanine-N2 methyltransferase.
RNA cap guanine-N2 methyltransferases such as
Schizosaccharomyces pombe Tgs1 and Giardia lamblia Tgs2
catalyze methylation of the exocyclic N2 amine of
7-methylguanosine.
Length = 165
Score = 32.3 bits (74), Expect = 0.14
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 89 GQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDAL 148
+ +D+ CG G + I+ A C V GI I+ A A+ G+ D++ F+ GD
Sbjct: 1 ARIILDVFCGAGGNTIQFAN-VFCSVIGIDINPEHLACAQHNAEVYGVSDRIWFILGDWF 59
Query: 149 NL 150
L
Sbjct: 60 EL 61
>gnl|CDD|218454 pfam05132, RNA_pol_Rpc4, RNA polymerase III RPC4. Specific
subunit for Pol III, the tRNA specific polymerase.
Length = 131
Score = 31.5 bits (72), Expect = 0.18
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 2 NKIDTQKNKNKDIKDIKENKDIKENKGNKGKKTVATLYDSPEGQIGSVL 50
K +T K + + + KE+K + K TL D PEG IG +L
Sbjct: 26 TKEETVKTEQAEDGEKKESKKESSAEETAEDKP-CTLRDLPEGYIGKLL 73
>gnl|CDD|176216 cd08254, hydroxyacyl_CoA_DH, 6-hydroxycyclohex-1-ene-1-carboxyl-CoA
dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase,
and other MDR family members. This group contains
enzymes of the zinc-dependent alcohol dehydrogenase
family, including members (aka MDR) identified as
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase and
N-benzyl-3-pyrrolidinol dehydrogenase.
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase
catalyzes the conversion of
6-Hydroxycyclohex-1-enecarbonyl-CoA and NAD+ to
6-Ketoxycyclohex-1-ene-1-carboxyl-CoA,NADH, and H+. This
group displays the characteristic catalytic and
structural zinc sites of the zinc-dependent alcohol
dehydrogenases. 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 have 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 = 338
Score = 32.6 bits (75), Expect = 0.20
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 86 ITKGQRFIDIGCG-FGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEG 135
+ G+ + IG G GL+ +++AKA G V + I +E ++ AK G
Sbjct: 163 VKPGETVLVIGLGGLGLNAVQIAKAMGAAVIAVDI----KEEKLELAKELG 209
>gnl|CDD|215417 PLN02781, PLN02781, Probable caffeoyl-CoA O-methyltransferase.
Length = 234
Score = 32.5 bits (74), Expect = 0.20
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 86 ITKGQRFIDIGC--GFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFL 143
I + ++IG G+ L LA + R+ I I K E ++ K G+ K+NF+
Sbjct: 66 IMNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFI 125
Query: 144 HGDAL 148
DAL
Sbjct: 126 QSDAL 130
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 32.2 bits (74), Expect = 0.23
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 5/87 (5%)
Query: 68 NFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESA 127
NF + + +I + +I+ G ++IG G G L + + RV I I + A
Sbjct: 11 NFLIDKNVIDKI-VEAANISPGDNVLEIGPGLGALTEPLLE-RAARVTAIEI---DRRLA 65
Query: 128 MKTAKAEGLLDKVNFLHGDALNLPFDN 154
+ D + ++GDAL F +
Sbjct: 66 EVLKERFAPYDNLTVINGDALKFDFPS 92
>gnl|CDD|226591 COG4106, Tam, Trans-aconitate methyltransferase [General function
prediction only].
Length = 257
Score = 32.4 bits (74), Expect = 0.24
Identities = 22/76 (28%), Positives = 28/76 (36%), Gaps = 13/76 (17%)
Query: 90 QRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDA-- 147
+R +D+GCG G S LA+ R I+ AM AKA L F D
Sbjct: 32 RRVVDLGCGPGNSTELLAR----RWPDAVITGIDSSPAM-LAKAAQRLPDATFEEADLRT 86
Query: 148 ------LNLPFDNDSF 157
+L F N
Sbjct: 87 WKPEQPTDLLFANAVL 102
>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 [Unknown function, Enzymes of unknown
specificity].
Length = 179
Score = 31.4 bits (71), Expect = 0.38
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 7/61 (11%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVN--FLHG 145
K ++IG G GL IRL KG + I+ F A+K + L+ V +
Sbjct: 19 KPDDVLEIGAGTGLVAIRLKG-KGKCILTTDINPF----AVKELRENAKLNNVGLDVVMT 73
Query: 146 D 146
D
Sbjct: 74 D 74
>gnl|CDD|176228 cd08267, MDR1, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 31.4 bits (72), Expect = 0.50
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 86 ITKGQR-FIDIGC--GFGLSGIRLAKAKGCRVDGI 117
+ GQR I G G G +++AKA G V G+
Sbjct: 141 VKPGQRVLI-NGASGGVGTFAVQIAKALGAHVTGV 174
>gnl|CDD|216320 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase (PCMT).
Length = 210
Score = 30.8 bits (70), Expect = 0.58
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 8/75 (10%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAKAKG--CRVDGITISKFQQESAMKTAKAEGLLDKVNFL 143
+ G R ++IG G G A+ G V I E A + + G L+ V +
Sbjct: 71 LKPGMRVLEIGSGSGYLTACFARMVGEVGLVVSIEHIPELVEIARRNLEKLG-LENVIVV 129
Query: 144 HGD-----ALNLPFD 153
GD P+D
Sbjct: 130 VGDGRQGWPEFAPYD 144
>gnl|CDD|176257 cd08297, CAD3, Cinnamyl alcohol dehydrogenases (CAD). These
alcohol dehydrogenases are related to the cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Cinnamyl alcohol dehydrogenases
(CAD) reduce cinnamaldehydes to cinnamyl alcohols in the
last step of monolignal metabolism in plant cells walls.
CAD binds 2 zinc ions and is NADPH- dependent. CAD
family members are also found in non-plant species, e.g.
in yeast where they have an aldehyde reductase activity.
The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 341
Score = 31.0 bits (71), Expect = 0.62
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 81 INKTSITKGQRFIDI-GCGFGLS--GIRLAKAKGCRVDGI 117
+ K + G ++ I G G GL G++ AKA G RV I
Sbjct: 158 LKKAGLKPGD-WVVISGAGGGLGHLGVQYAKAMGLRVIAI 196
>gnl|CDD|223495 COG0418, PyrC, Dihydroorotase [Nucleotide transport and
metabolism].
Length = 344
Score = 31.1 bits (71), Expect = 0.65
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 244 VMPLLVPKLT--EATLTYKKEIYKSIPN 269
+MP LVP +T L Y++ I K++P
Sbjct: 39 IMPNLVPPVTTVADALAYRERILKAVPA 66
>gnl|CDD|238619 cd01294, DHOase, Dihydroorotase (DHOase) catalyzes the reversible
interconversion of carbamoyl aspartate to
dihydroorotate, a key reaction in the pyrimidine
biosynthesis. In contrast to the large polyfunctional
CAD proteins of higher organisms, this group of DHOases
is monofunctional and mainly dimeric.
Length = 335
Score = 31.1 bits (71), Expect = 0.67
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 244 VMPLLVPKLT--EATLTYKKEIYKSIPNPE 271
VMP L P +T L Y++ I + P P
Sbjct: 35 VMPNLKPPVTTTADALAYRERILAADPGPN 64
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. 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 = 342
Score = 31.1 bits (71), Expect = 0.72
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 78 RIMINKTSITKGQRFI--DIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEG 135
+++ + + G+ + G G G + I++AK G V I + S K +A+
Sbjct: 156 HMLVTRARLRPGETVLVHGAGSGVGSAAIQIAKLFGATV--IATAG----SEDKLERAKE 209
Query: 136 L 136
L
Sbjct: 210 L 210
>gnl|CDD|161703 TIGR00091, TIGR00091, tRNA (guanine-N(7)-)-methyltransferase. This
predicted S-adenosylmethionine-dependent
methyltransferase is found in a single copy in most
Bacteria. It is also found, with a short amino-terminal
extension in eukaryotes. Its function is unknown. In E.
coli, this protein flanks the DNA repair protein MutY,
also called micA [Protein synthesis, tRNA and rRNA base
modification].
Length = 194
Score = 30.4 bits (69), Expect = 0.85
Identities = 43/181 (23%), Positives = 58/181 (32%), Gaps = 26/181 (14%)
Query: 87 TKGQRFIDIGCGFGLSGIRLAKAK-GCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHG 145
K ++IGCG G I +AK GI I +A A G L ++ L G
Sbjct: 15 NKAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLG-LKNLHVLCG 73
Query: 146 DALNLP---FDNDSFDGGWFFESI--FHMNHSAA-------LNEARRVLK-SGSILTLTD 192
DA L F + S + H+ L E VLK G I TD
Sbjct: 74 DANELLDKFFPDGSLSKVFLNFPDPWPKKRHNKRRITQPHFLKEYANVLKKGGVIHFKTD 133
Query: 193 LPLLSVSKNDNKFKEYVKKNIHSNFILVEHY--PDLLNKSGFELIKIDDITSHVMPLLVP 250
N+ F E + K + N + DL N + + L P
Sbjct: 134 --------NEPLF-EDMLKVLSENDLFENTSKSTDLNNSPLSRPRNMTEYEQRFERLGHP 184
Query: 251 K 251
Sbjct: 185 V 185
>gnl|CDD|176261 cd08301, alcohol_DH_plants, Plant alcohol dehydrogenase.
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. There are 7 vertebrate ADH 7 classes, 6
of which have been identified in humans. Class III,
glutathione-dependent formaldehyde dehydrogenase, has
been identified as the primordial form and exists in
diverse species, including plants, micro-organisms,
vertebrates, and invertebrates. Class I, typified by
liver dehydrogenase, is an evolving form. Gene
duplication and functional specialization of ADH into
ADH classes and subclasses created numerous forms in
vertebrates. For example, the A, B and C (formerly
alpha, beta, gamma) human class I subunits have high
overall structural similarity, but differ in the
substrate binding pocket and therefore in substrate
specificity. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine (His-51), the ribose of NAD, a serine
(Ser-48) , 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. 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 an
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.
Length = 369
Score = 30.3 bits (69), Expect = 1.0
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 14/51 (27%)
Query: 99 FGLSGIRLAKAKGCRVDG--------ITISKFQQESAMKTAKAEGLLDKVN 141
FGL + LA A+G R+ G + SKF+Q AK G+ + VN
Sbjct: 194 FGLGAVGLAVAEGARIRGASRIIGVDLNPSKFEQ------AKKFGVTEFVN 238
>gnl|CDD|235350 PRK05134, PRK05134, bifunctional 3-demethylubiquinone-9
3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol
methylase; Provisional.
Length = 233
Score = 29.7 bits (68), Expect = 1.6
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 12/76 (15%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKA----EGLLDKVNFL 143
G+R +D+GCG G+ +A+ G V GI S E ++ A+ GL K+++
Sbjct: 48 FGKRVLDVGCGGGILSESMARL-GADVTGIDAS----EENIEVARLHALESGL--KIDYR 100
Query: 144 HGDALNLPFDND-SFD 158
A L ++ FD
Sbjct: 101 QTTAEELAAEHPGQFD 116
>gnl|CDD|176205 cd08243, quinone_oxidoreductase_like_1, Quinone oxidoreductase
(QOR). NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 320
Score = 29.9 bits (68), Expect = 1.7
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 97 CGFGLSGIRLAKAKGCRVDGIT 118
GL+ ++LAKA G V T
Sbjct: 153 SSVGLAALKLAKALGATVTATT 174
>gnl|CDD|235474 PRK05451, PRK05451, dihydroorotase; Provisional.
Length = 345
Score = 29.7 bits (68), Expect = 1.8
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 244 VMPLLVPKLT--EATLTYKKEIYKSIPN 269
VMP LVP +T L Y++ I ++P
Sbjct: 39 VMPNLVPPVTTVAQALAYRERILAALPA 66
>gnl|CDD|183586 PRK12549, PRK12549, shikimate 5-dehydrogenase; Reviewed.
Length = 284
Score = 29.5 bits (67), Expect = 1.8
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 104 IRLAKAKGCRV-DGITISKFQ 123
+R A+A GCR DG ++ FQ
Sbjct: 236 LRAARALGCRTLDGGGMAVFQ 256
>gnl|CDD|219269 pfam07021, MetW, Methionine biosynthesis protein MetW. This family
consists of several bacterial and one archaeal
methionine biosynthesis MetW proteins. Biosynthesis of
methionine from homoserine in Pseudomonas putida takes
place in three steps. The first step is the acylation of
homoserine to yield an acyl-L-homoserine. This reaction
is catalyzed by the products of the metXW genes and is
equivalent to the first step in enterobacteria,
gram-positive bacteria and fungi, except that in these
microorganisms the reaction is catalyzed by a single
polypeptide (the product of the metA gene in Escherichia
coli and the met5 gene product in Neurospora crassa). In
Pseudomonas putida, as in gram-positive bacteria and
certain fungi, the second and third steps are a direct
sulfhydrylation that converts the O-acyl-L-homoserine
into homocysteine and further methylation to yield
methionine. The latter reaction can be mediated by
either of the two methionine synthetases present in the
cells.
Length = 193
Score = 29.3 bits (66), Expect = 1.9
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 86 ITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHG 145
I G R +D+GCG G L + K GI + + + A+GL + + G
Sbjct: 11 IPPGSRVLDLGCGDGSLLYLLQEEKQVDGRGIELD----AAGVAECVAKGL----SVIQG 62
Query: 146 DA-LNLP-FDNDSFD 158
DA L F + SFD
Sbjct: 63 DADKGLEHFPDKSFD 77
>gnl|CDD|240433 PTZ00482, PTZ00482, membrane-attack complex/perforin (MACPF)
Superfamily; Provisional.
Length = 844
Score = 29.8 bits (67), Expect = 2.0
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 42 PEGQIGSVLFGGHMHWGYWDESNSKDNF 69
P GQ+ VLFG M +WD +N DN+
Sbjct: 609 PHGQV--VLFGFAMRQNFWDHTNKLDNY 634
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 29.1 bits (66), Expect = 2.1
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 7/80 (8%)
Query: 79 IMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLD 138
M+ + G R ++IG G G LA+ G RV I + E A + + G +
Sbjct: 63 RMLQLLELKPGDRVLEIGTGSGYQAAVLARLVG-RVVSIERIEELAEQARRNLETLG-YE 120
Query: 139 KVNFLHGDALN-----LPFD 153
V HGD P+D
Sbjct: 121 NVTVRHGDGSKGWPEEAPYD 140
>gnl|CDD|215319 PLN02585, PLN02585, magnesium protoporphyrin IX methyltransferase.
Length = 315
Score = 29.4 bits (66), Expect = 2.2
Identities = 24/83 (28%), Positives = 32/83 (38%), Gaps = 7/83 (8%)
Query: 57 WGYWDESNS-----KDNFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKG 111
+G DE N + AQ +K+ + S+ G D GCG G I LA +G
Sbjct: 109 YGETDEVNKVQLDIRLGHAQTVEKVLLWLAEDGSL-AGVTVCDAGCGTGSLAIPLAL-EG 166
Query: 112 CRVDGITISKFQQESAMKTAKAE 134
V IS A + AK
Sbjct: 167 AIVSASDISAAMVAEAERRAKEA 189
>gnl|CDD|213903 TIGR04290, meth_Rta_06860, methyltransferase, Rta_06860 family.
Members of this family are methyltransferases that mark
a widely distributed large conserved gene neighborhood
of unknown function. It appears most common in soil and
rhizosphere bacteria.
Length = 226
Score = 29.3 bits (66), Expect = 2.2
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 2/83 (2%)
Query: 89 GQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDAL 148
G +DIGC G I + + RV GI A A+ G + F
Sbjct: 50 GWSVLDIGCNAGFYSIEMKRRGAGRVLGIDSDPRYLAQARFAAEVLGA--DIEFRQMSVY 107
Query: 149 NLPFDNDSFDGGWFFESIFHMNH 171
+L + FD F ++H+ H
Sbjct: 108 DLGRLGERFDLVLFMGVLYHLRH 130
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 337
Score = 29.1 bits (66), Expect = 3.0
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 81 INKTSITKGQRFIDIGCG-FGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDK 139
+ + +T G + +G G GL I++AKA+G RV + I + E A+ G D
Sbjct: 152 VRRAGVTAGDTVLVVGAGPIGLGVIQVAKARGARVIVVDIDDERLE----FARELGADDT 207
Query: 140 VNFLHGD 146
+N D
Sbjct: 208 INVGDED 214
>gnl|CDD|129627 TIGR00536, hemK_fam, HemK family putative methylases. 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. Both
E. coli and H. influenzae have two members rather than
one. The members from the Mycoplasmas have an additional
C-terminal domain [Protein fate, Protein modification
and repair].
Length = 284
Score = 28.9 bits (65), Expect = 3.0
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 2/71 (2%)
Query: 90 QRFIDIGCGFGLSGIRLAKA-KGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDAL 148
+D+G G G + LA V + IS A + A+ L +V F+ +
Sbjct: 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLF 175
Query: 149 NLPFDNDSFDG 159
P D
Sbjct: 176 E-PLAGQKIDI 185
>gnl|CDD|218990 pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA).
This family consists of several Ribosomal protein L11
methyltransferase (EC:2.1.1.-) sequences.
Length = 294
Score = 28.8 bits (65), Expect = 3.3
Identities = 22/73 (30%), Positives = 32/73 (43%), Gaps = 13/73 (17%)
Query: 88 KGQRFIDIGCGFGLSGIRLAK--AKGCRVDGITISKFQQESAMKTAKAEGLLDKVN---- 141
G+ +D+GCG G+ I K AK +V G+ I A++ AK L+ V
Sbjct: 160 PGETVLDVGCGSGILAIAALKLGAK--KVVGVDID----PVAVRAAKENAELNGVEAQLE 213
Query: 142 -FLHGDALNLPFD 153
+L GD D
Sbjct: 214 VYLPGDLPEGKAD 226
>gnl|CDD|176198 cd08236, sugar_DH, NAD(P)-dependent sugar dehydrogenases. This
group contains proteins identified as sorbitol
dehydrogenases and other sugar dehydrogenases of the
medium-chain dehydrogenase/reductase family (MDR), which
includes zinc-dependent alcohol dehydrogenase and
related proteins. Sorbitol and aldose reductase are
NAD(+) binding proteins of the polyol pathway, which
interconverts glucose and fructose. Sorbitol
dehydrogenase is tetrameric and has a single catalytic
zinc per subunit. NAD(P)(H)-dependent oxidoreductases
are the major enzymes in the interconversion of alcohols
and aldehydes, or ketones. Related proteins include
threonine dehydrogenase, formaldehyde dehydrogenase, and
butanediol dehydrogenase. The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit. Horse
liver alcohol dehydrogenase is a dimeric enzyme and each
subunit has two domains. The NAD binding domain is in a
Rossmann fold and the catalytic domain contains a zinc
ion to which substrates bind. There is a cleft between
the domains that closes upon formation of the ternary
complex.
Length = 343
Score = 28.7 bits (65), Expect = 3.3
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 81 INKTSITKGQRFIDIGCG-FGLSGIRLAKAKGC-RVDGITISKFQQESAMK 129
+ IT G + IG G GL I+ K G RV + I + A +
Sbjct: 152 VRLAGITLGDTVVVIGAGTIGLLAIQWLKILGAKRVIAVDIDDEKLAVARE 202
>gnl|CDD|178209 PLN02599, PLN02599, dihydroorotase.
Length = 364
Score = 28.9 bits (65), Expect = 3.7
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 244 VMPLLVPKLT--EATLTYKKEIYKSIP 268
VMP L P +T L Y++ I K++P
Sbjct: 57 VMPNLKPPVTTTARALAYRERIMKALP 83
>gnl|CDD|129935 TIGR00856, pyrC_dimer, dihydroorotase, homodimeric type. This
homodimeric form of dihydroorotase is less common in
microbial genomes than a related dihydroorotase that
appears in a complex with aspartyltranscarbamoylase or
as a homologous domain in multifunctional proteins of
pyrimidine biosynthesis in higher eukaryotes [Purines,
pyrimidines, nucleosides, and nucleotides, Pyrimidine
ribonucleotide biosynthesis].
Length = 341
Score = 28.6 bits (64), Expect = 3.8
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 244 VMPLLVPKLT--EATLTYKKEIYKSIPN 269
VMP L P +T EA + Y++ I ++P
Sbjct: 36 VMPNLAPPVTTVEAAVAYRERILDAVPA 63
>gnl|CDD|185694 cd08024, GH16_CCF, Coelomic cytolytic factor, member of glycosyl
hydrolase family 16. Subgroup of glucanases of unknown
function that are related to beta-GRP (beta-1,3-glucan
recognition protein), but contain active site residues.
Beta-GRPs are one group of pattern recognition receptors
(PRRs), also referred to as biosensor proteins, that
complexes with pathogen-associated beta-1,3-glucans and
then transduces signals necessary for activation of an
appropriate innate immune response. Beta-GRPs are
present in insects and lack all catalytic residues. This
subgroup contains related proteins that still contain
the active site and are widely distributed in
eukaryotes. Their structures adopt a jelly roll fold
with a deep active site channel harboring the catalytic
residues, like those of other glycosyl hydrolase family
16 members.
Length = 330
Score = 28.4 bits (64), Expect = 4.3
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 22 DIKENKGNKGKKTVATLYDSPEGQIGSVLFGGHMHWG-YWDE 62
DI E++GN LYD IG G +HWG +
Sbjct: 152 DIMESRGN------RPLYDG-GEAIGINSVGSTLHWGPDPGQ 186
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 27.7 bits (62), Expect = 4.3
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 98 GFGLSGIRLAKAKG-CRVDGITISKFQQESAMK 129
G GL+ ++LAKA G RV + S+ + E A +
Sbjct: 1 GVGLAAVQLAKALGAARVIAVDRSEEKLELAKE 33
>gnl|CDD|214874 smart00871, AraC_E_bind, Bacterial transcription activator,
effector binding domain. This domain is found in the
probable effector binding domain of a number of
different bacterial transcription activators.and is also
present in some DNA gyrase inhibitors. The absence of a
HTH motif in the DNA gyrase inhibitors is thought to
indicate the fact that these do not bind DNA.
Length = 158
Score = 27.8 bits (62), Expect = 4.5
Identities = 16/106 (15%), Positives = 28/106 (26%), Gaps = 19/106 (17%)
Query: 203 NKFKEYVKKNIHSN-------FILVEHYPDLLNKSGFELI------KIDDITSHVMPLLV 249
+ ++ K+ + + PD F + V +
Sbjct: 31 QRLIQWAKELGLLPVGNSGEPYGVYYDDPDDTPDGEFRYDAGVEVSDEVEAPEGVETKTI 90
Query: 250 PKLTEATLTYKKEIYKSIPNPEKSIDNWLYLFKYMSKNLGYIIVTA 295
P A T+K Y I W ++ N GY + A
Sbjct: 91 PAGKYAVFTHKGGSYDEIQEA------WEAIYGEWLPNSGYELRDA 130
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 28.3 bits (64), Expect = 4.7
Identities = 21/79 (26%), Positives = 30/79 (37%), Gaps = 5/79 (6%)
Query: 74 DKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKA 133
+ RI + T G ++IG G G LAK + +V I + E A
Sbjct: 16 RVVDRI-VEYAEDTDGDPVLEIGPGKGALTDELAK-RAKKVYAIELDPRLAEFLRDDEIA 73
Query: 134 EGLLDKVNFLHGDALNLPF 152
G V + GDAL +
Sbjct: 74 AG---NVEIIEGDALKVDL 89
>gnl|CDD|178018 PLN02396, PLN02396, hexaprenyldihydroxybenzoate methyltransferase.
Length = 322
Score = 28.5 bits (63), Expect = 4.8
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 1/86 (1%)
Query: 88 KGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNFLHGDA 147
+G +FIDIGCG GL LA+ G V G+ + A A + + + +L A
Sbjct: 131 EGLKFIDIGCGGGLLSEPLARM-GATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTA 189
Query: 148 LNLPFDNDSFDGGWFFESIFHMNHSA 173
L + FD E I H+ + A
Sbjct: 190 EKLADEGRKFDAVLSLEVIEHVANPA 215
>gnl|CDD|234786 PRK00517, prmA, ribosomal protein L11 methyltransferase; Reviewed.
Length = 250
Score = 28.2 bits (64), Expect = 5.4
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 21/75 (28%)
Query: 88 KGQRFIDIGCGFGLSGIRLA---------KAKGCRVDGITISKFQQESAMKTAKAEGLLD 138
G+ +D+GCG SGI LA K +D + E+A + A+ G+
Sbjct: 119 PGKTVLDVGCG---SGI-LAIAAAKLGAKKVLAVDIDPQAV-----EAARENAELNGVEL 169
Query: 139 KVNFLHGDALNLPFD 153
V G +L D
Sbjct: 170 NVYLPQG---DLKAD 181
>gnl|CDD|201880 pfam01596, Methyltransf_3, O-methyltransferase. Members of this
family are O-methyltransferases. The family includes
catechol o-methyltransferase, caffeoyl-CoA
O-methyltransferase and a family of bacterial
O-methyltransferases that may be involved in antibiotic
production.
Length = 204
Score = 27.7 bits (62), Expect = 5.5
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 85 SITKGQRFIDIGC--GFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGLLDKVNF 142
+ +R ++IG G+ L LA + ++ I E + + G+ DK++F
Sbjct: 41 KLIGAKRTLEIGVFTGYSLLATALALPEDGKITACDIDPEAYEIGLPFIQKAGVADKISF 100
Query: 143 LHGDAL 148
GDAL
Sbjct: 101 RLGDAL 106
>gnl|CDD|176179 cd05195, enoyl_red, enoyl reductase of polyketide synthase.
Putative enoyl reductase of polyketide synthase.
Polyketide synthases produce polyketides in step by step
mechanism that is similar to fatty acid synthesis. Enoyl
reductase reduces a double to single bond. Erythromycin
is one example of a polyketide generated by 3 complex
enzymes (megasynthases). 2-enoyl thioester reductase
(ETR) catalyzes the NADPH-dependent dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. 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. 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.
Length = 293
Score = 27.9 bits (63), Expect = 6.9
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 86 ITKGQR-FIDIGCG-FGLSGIRLAKAKGCRV 114
+ KG+ I G G + I+LA+ G V
Sbjct: 106 LQKGESVLIHAAAGGVGQAAIQLAQHLGAEV 136
>gnl|CDD|226911 COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic
ion transport and metabolism].
Length = 423
Score = 27.6 bits (62), Expect = 8.0
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 25 ENKGNKGKKTVATLYDSPEGQIGSVLFG 52
+GN+G K V L + P+ IG++L G
Sbjct: 38 AKQGNRGAKRVEKLLEKPDRLIGTILIG 65
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. 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 = 323
Score = 27.8 bits (63), Expect = 8.1
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 6/39 (15%)
Query: 98 GFGLSGIRLAKAKGCRVDGITISKFQQESAMKTAKAEGL 136
G G + I+LAKA G RV I + S K L
Sbjct: 151 GVGTAAIQLAKALGARV--IATA----GSEEKLEACRAL 183
>gnl|CDD|233115 TIGR00755, ksgA, dimethyladenosine transferase. In both E. coli
and Saccharomyces cerevisiae, this protein is
responsible for the dimethylation of two adjacent
adenosine residues in a conserved hairpin of 16S rRNA in
bacteria, 18S rRNA in eukaryotes. This adjacent
dimethylation is the only rRNA modification shared by
bacteria and eukaryotes. A single member of this family
is present in each of the first 20 completed microbial
genomes. This protein is essential in yeast, but not in
E. coli, where its deletion leads to resistance to the
antibiotic kasugamycin. Alternate name:
S-adenosylmethionine--6-N',N'-adenosyl (rRNA)
dimethyltransferase [Protein synthesis, tRNA and rRNA
base modification].
Length = 253
Score = 27.6 bits (62), Expect = 8.2
Identities = 20/86 (23%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 68 NFAQGSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRLAKAKGCRVDGITISKFQQESA 127
NF + +I + ++ +G ++IG G G L K + +V I I + E
Sbjct: 10 NFLIDESVIQKI-VEAANVLEGDVVLEIGPGLGALTEPLLK-RAKKVTAIEIDRRLAERL 67
Query: 128 MKTAKAEGLLDKVNFLHGDALNLPFD 153
K L + + + GDAL + +
Sbjct: 68 RKLL---SLYENLEIIEGDALKVDLN 90
>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 = 27.6 bits (62), Expect = 8.7
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 95 IGCG-FGLSGIRLAKAKG-CRVDGITISKFQQESAMKTAKAEG 135
IG G GL + L KA G + + I E+ ++ AKA G
Sbjct: 182 IGAGGLGLMALALLKALGPANIIVVDID----EAKLEAAKAAG 220
>gnl|CDD|107329 cd06334, PBP1_ABC_ligand_binding_like_1, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in transport of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in transport of amino acids, peptides, or
inorganic ions. Members of this group are
sequence-similar to members of the family of ABC-type
hydrophobic amino acid transporters, such as
leucine-isoleucine-valine-binding protein (LIVBP);
however their ligand specificity has not been determined
experimentally.
Length = 351
Score = 27.6 bits (62), Expect = 9.1
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 13 DIKDIKENKDIKENKGNKGKKTVATLY-DSPEGQ 45
++ I E + G K +A +Y DSP G+
Sbjct: 126 LVQYIAE-----QEGGKLKGKKIALVYHDSPFGK 154
>gnl|CDD|184963 PRK15001, PRK15001, SAM-dependent 23S ribosomal RNA mG1835
methyltransferase; Provisional.
Length = 378
Score = 27.7 bits (61), Expect = 9.2
Identities = 37/142 (26%), Positives = 57/142 (40%), Gaps = 27/142 (19%)
Query: 60 WDESNSKDNFAQ-GSDKLSRIMINKTSITKGQRFIDIGCGFGLSGIRL----AKAKGCRV 114
W N + F++ G D +R + +D+GCG G+ G+ L +AK V
Sbjct: 199 WTIHNHANVFSRTGLDIGARFFMQHLPENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFV 258
Query: 115 D----GITISKFQQESAMKTAKAEGLLDKVNFLHGDALN--LPFDNDSFDGGWFFESIFH 168
D + S+ E+ M A LD+ F+ +AL+ PF ++ FH
Sbjct: 259 DESPMAVASSRLNVETNMPEA-----LDRCEFMINNALSGVEPFRFNAV----LCNPPFH 309
Query: 169 MNHSAALN-------EARRVLK 183
H+ N ARR LK
Sbjct: 310 QQHALTDNVAWEMFHHARRCLK 331
>gnl|CDD|223298 COG0220, COG0220, Predicted S-adenosylmethionine-dependent
methyltransferase [General function prediction only].
Length = 227
Score = 27.3 bits (61), Expect = 9.6
Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 13/80 (16%)
Query: 92 FIDIGCGFGLSGIRLAKA---KGCRVDGITISKFQQ--ESAMKTAKAEGLLDKVNFLHGD 146
++IG G G + +AK K + I A+K K G L + L GD
Sbjct: 52 VLEIGFGMGEFLVEMAKKNPEKNF----LGIEIRVPGVAKALKKIKELG-LKNLRLLCGD 106
Query: 147 A---LNLPFDNDSFDGGWFF 163
A L+ + S D +
Sbjct: 107 AVEVLDYLIPDGSLDKIYIN 126
>gnl|CDD|176190 cd05288, PGDH, Prostaglandin dehydrogenases. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 27.4 bits (62), Expect = 9.9
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 106 LAKAKGCRVDGIT 118
+AK G RV GI
Sbjct: 165 IAKLLGARVVGIA 177
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.135 0.395
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,898,564
Number of extensions: 1410498
Number of successful extensions: 1647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1596
Number of HSP's successfully gapped: 127
Length of query: 298
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 202
Effective length of database: 6,679,618
Effective search space: 1349282836
Effective search space used: 1349282836
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.7 bits)