RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026219
(241 letters)
>gnl|CDD|223298 COG0220, COG0220, Predicted S-adenosylmethionine-dependent
methyltransferase [General function prediction only].
Length = 227
Score = 115 bits (291), Expect = 7e-32
Identities = 48/152 (31%), Positives = 77/152 (50%), Gaps = 12/152 (7%)
Query: 97 RQHVNPLSSS-----FTVPAPIPDWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGN 151
+ N L + DWS ++ N P++++IG G G FL+ +A++NP+ N
Sbjct: 16 KAQKNALEDNWPRLGLDPQEEPGDWSALFGNNNAPIVLEIGFGMGEFLVEMAKKNPEK-N 74
Query: 152 YLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSFKQLVSSYPGPLML--VSILCPDP 209
+LG+EIR V +A ++EL L N+ L +A +++ L + I PDP
Sbjct: 75 FLGIEIRVPGVAKALKKIKELGLKNLRLLCGDA----VEVLDYLIPDGSLDKIYINFPDP 130
Query: 210 HFKKKHHKRRVVQKPLVDSIIDYLMPGGKVYF 241
KK+HHKRR+ Q + L PGG ++F
Sbjct: 131 WPKKRHHKRRLTQPEFLKLYARKLKPGGVLHF 162
>gnl|CDD|234649 PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.
Length = 202
Score = 114 bits (288), Expect = 2e-31
Identities = 46/152 (30%), Positives = 78/152 (51%), Gaps = 8/152 (5%)
Query: 92 GHARIRQHVNPLSSSFTVPAPIPDWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGN 151
G Q + DW+E++ N P+ ++IG G G FL+ +A+ NPD N
Sbjct: 9 GRLTKGQQRAIEELWPRLSPAPLDWAELFGNDA-PIHLEIGFGKGEFLVEMAKANPDI-N 66
Query: 152 YLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSFKQLVSSY--PGPLMLVSILCPDP 209
++G+E+ + V +A ++E L+N+ L +A +++ G L + + PDP
Sbjct: 67 FIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDA----VEVLLDMFPDGSLDRIYLNFPDP 122
Query: 210 HFKKKHHKRRVVQKPLVDSIIDYLMPGGKVYF 241
KK+HHKRR+VQ + L PGG+++F
Sbjct: 123 WPKKRHHKRRLVQPEFLALYARKLKPGGEIHF 154
>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 = 111 bits (280), Expect = 2e-30
Identities = 45/131 (34%), Positives = 70/131 (53%), Gaps = 9/131 (6%)
Query: 114 PDWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQEL- 172
DW ++ N PL ++IG G G FL+ +A++NPD ++G+EIR V +A + L
Sbjct: 11 LDWQALFGNEQ-PLFLEIGCGMGDFLVAMAKKNPDK-LFIGIEIRVPGVDKALKKIIALR 68
Query: 173 ALSNIHFLFANASVSFKQLVSSY--PGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSII 230
L N+ L +A +L+ + G L + I PDP KK+HHKRR++Q +
Sbjct: 69 GLQNLRILCGDA----MKLLPNLFPDGSLQKIFINFPDPWPKKRHHKRRLLQPEFLKEYA 124
Query: 231 DYLMPGGKVYF 241
L PGG ++
Sbjct: 125 RVLKPGGVLHL 135
>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 = 104 bits (262), Expect = 7e-28
Identities = 48/128 (37%), Positives = 72/128 (56%), Gaps = 4/128 (3%)
Query: 114 PDWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELA 173
PD++ V+ N PL ++IG G GRFLI +A++NPD N+LG+EI +V A +L
Sbjct: 7 PDFATVFGNKA-PLHLEIGCGKGRFLIDMAKQNPDK-NFLGIEIHTPIVLAANNKANKLG 64
Query: 174 LSNIHFLFANASVSFKQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYL 233
L N+H L +A+ + G L V + PDP KK+H+KRR+ Q + + L
Sbjct: 65 LKNLHVLCGDANELLDKFFPD--GSLSKVFLNFPDPWPKKRHNKRRITQPHFLKEYANVL 122
Query: 234 MPGGKVYF 241
GG ++F
Sbjct: 123 KKGGVIHF 130
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 50.1 bits (120), Expect = 7e-08
Identities = 12/57 (21%), Positives = 31/57 (54%)
Query: 128 MVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANA 184
++D+G G+G LA + +G++I ++ +++A+ ++L N+ F+ +
Sbjct: 7 VLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLGYENVEFIQGDI 63
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 48.1 bits (115), Expect = 1e-07
Identities = 23/113 (20%), Positives = 42/113 (37%), Gaps = 17/113 (15%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
+DIG G+G I LAR P G+++ ++++ A + I F+ +A +
Sbjct: 6 LDIGCGTGSLAIELARLFPG-ARVTGVDLSPEMLELARENAKLALGPRITFVQGDAPDAL 64
Query: 189 KQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYLMPGGKVYF 241
L G + L+D++ L PGG++
Sbjct: 65 DLL----EGFDAVFIGGGGGDLL------------ELLDALASLLKPGGRLVL 101
>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 = 43.6 bits (103), Expect = 7e-06
Identities = 21/113 (18%), Positives = 38/113 (33%), Gaps = 13/113 (11%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
+D+G G+G + LA G++I ++ A L N+ L +A
Sbjct: 3 LDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELP 60
Query: 189 KQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYLMPGGKVYF 241
+ S+ I+ P R +++ L PGG +
Sbjct: 61 PEADESFDV------IISDPPLHHLVEDLARFLEE-----ARRLLKPGGVLVL 102
>gnl|CDD|237615 PRK14121, PRK14121, tRNA (guanine-N(7)-)-methyltransferase;
Provisional.
Length = 390
Score = 43.0 bits (102), Expect = 6e-05
Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 24/121 (19%)
Query: 126 PLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIR----QKLVKRAEFWVQELALSNIHFLF 181
++++IG GSGR L++ A+ NP+ ++G+EI ++++K+ E L L N+ +
Sbjct: 124 KILIEIGFGSGRHLLYQAKNNPNK-LFIGIEIHTPSIEQVLKQIEL----LNLKNLLIIN 178
Query: 182 ANASVSFKQLVSSYPGPLMLVSILCPDPHF-----KKKHHKRRVVQKPLVDSIIDYLMPG 236
+A + + L S+ + + HF KK H RRV+ + ++ + L PG
Sbjct: 179 YDARLLLELLPSNSVEKIFV--------HFPVPWDKKPH--RRVISEDFLNEALRVLKPG 228
Query: 237 G 237
G
Sbjct: 229 G 229
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 38.2 bits (89), Expect = 7e-04
Identities = 24/118 (20%), Positives = 48/118 (40%), Gaps = 8/118 (6%)
Query: 126 PLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALS-NIHFLFANA 184
++D G+GSG FL+ AR PD+ +G+E+ + A + L+ + + +A
Sbjct: 2 DRVLDPGAGSGAFLLAAARAGPDA-RVVGVELDPEAAALARRRLALAGLAPRVRVVVGDA 60
Query: 185 SVSFKQLVSSYPGPLMLVSILCPDPHFKKKHHKR-RVVQKPLVDSIIDYLMPGGKVYF 241
+ + P + + P + K R + + + + L PGG +
Sbjct: 61 -----RELLELPDGSFDLVLGNPPYGPRAGDPKDNRDLYDRFLAAALRLLKPGGVLVV 113
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 37.3 bits (87), Expect = 8e-04
Identities = 27/109 (24%), Positives = 50/109 (45%), Gaps = 13/109 (11%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
+D+G G+GR L LAR P S G++I ++ ++ A+ +++ + F+ A+A
Sbjct: 2 LDLGCGTGRVLRALARAGPSS--VTGVDISKEALELAKERLRDKGP-KVRFVVADAR-DL 57
Query: 189 KQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYLMPGG 237
S+ L++ + L D + K + L+ L PGG
Sbjct: 58 PFEEGSF--DLVICAGLSLD-YLSPK------QLRALLREAARLLRPGG 97
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 35.7 bits (83), Expect = 0.003
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANA 184
+D+G G+G LARR G+++ +++ A + F+ +A
Sbjct: 1 LDVGCGTGLLAEALARRGG--ARVTGVDLSPEMLALAR------KRAPRKFVVGDA 48
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 34.3 bits (79), Expect = 0.009
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 1/67 (1%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
+DIG G+G L L P Y G++I ++ A + L L + + + +
Sbjct: 1 LDIGCGTGTLLRALLEALPGL-EYTGVDISPAALEAAAERLAALGLLDAVRVRLDVLDAI 59
Query: 189 KQLVSSY 195
S+
Sbjct: 60 DLDPGSF 66
>gnl|CDD|234958 PRK01544, PRK01544, bifunctional N5-glutamine
S-adenosyl-L-methionine-dependent methyltransferase/tRNA
(m7G46) methyltransferase; Reviewed.
Length = 506
Score = 34.8 bits (80), Expect = 0.037
Identities = 35/125 (28%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 118 EVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNI 177
E N + ++IG G G I A+ NPD+ ++G+E+ V E ++N
Sbjct: 341 EKLVNEKRKVFLEIGFGMGEHFINQAKMNPDA-LFIGVEVYLNGVANVLKLAGEQNITNF 399
Query: 178 HFLFANASVSFKQLVSSYPG-PLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYLMPG 236
LF N + +++ P L + IL PDP K K K+R+ K + + D L
Sbjct: 400 -LLFPN---NLDLILNDLPNNSLDGIYILFPDPWIKNKQKKKRIFNKERLKILQDKLKDN 455
Query: 237 GKVYF 241
G + F
Sbjct: 456 GNLVF 460
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 34.5 bits (76), Expect = 0.040
Identities = 24/119 (20%), Positives = 44/119 (36%), Gaps = 12/119 (10%)
Query: 123 PTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFA 182
P ++DIG G+GR + LAR +G+++ +++ A + L + F+ A
Sbjct: 47 PGGLGVLDIGCGTGRLAL-LARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVA 105
Query: 183 NASVSFKQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDYLMPGGKVYF 241
+A S LV L + ++ L PGG++
Sbjct: 106 DALGGVLPFEDS--ASFDLVISLLVLHLLPP---------AKALRELLRVLKPGGRLVL 153
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 33.8 bits (78), Expect = 0.050
Identities = 13/57 (22%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 128 MVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANA 184
++D+ G+G + LA+ +G +GL+I + +++ A +++ + N+ F+ +A
Sbjct: 55 VLDVACGTGDMALLLAKSVG-TGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDA 110
>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 = 33.4 bits (77), Expect = 0.067
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 115 DWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKL----VKRAEFWVQ 170
V+K + +D+ G+G I LA+ PD G G++ ++ K++E
Sbjct: 33 KLIGVFKGQKV---LDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSE---- 85
Query: 171 ELALSNIHFLFANA 184
NI F+ A+A
Sbjct: 86 --LPLNIEFIQADA 97
>gnl|CDD|216320 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase (PCMT).
Length = 210
Score = 32.3 bits (74), Expect = 0.13
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 130 DIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFAN 183
+IGSGSG AR + G + +E +LV+ A +++L L N+ + +
Sbjct: 79 EIGSGSGYLTACFARMVGEVGLVVSIEHIPELVEIARRNLEKLGLENVIVVVGD 132
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 32.2 bits (74), Expect = 0.17
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAE 166
+D+G G G LARR G +G++ + ++ A+
Sbjct: 24 LDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAK 61
>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 = 32.1 bits (74), Expect = 0.17
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 126 PLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFAN 183
++D+G+GSG + LA+ PD+ ++I + + A L L N+ FL ++
Sbjct: 89 LRVLDLGTGSGAIALALAKERPDA-RVTAVDISPEALAVARKNAARLGLDNVEFLQSD 145
>gnl|CDD|223434 COG0357, GidB, Predicted S-adenosylmethionine-dependent
methyltransferase involved in bacterial cell division
[Cell envelope biogenesis, outer membrane].
Length = 215
Score = 31.5 bits (72), Expect = 0.26
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 7/56 (12%)
Query: 128 MVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFW---VQELALSNIHFL 180
++DIGSG+G I LA PD L LE K+ F +EL L N+ +
Sbjct: 71 VLDIGSGAGFPGIPLAIAFPDLKVTL-LESLG---KKIAFLREVKKELGLENVEIV 122
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 30.9 bits (70), Expect = 0.44
Identities = 18/56 (32%), Positives = 29/56 (51%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANA 184
+D+ G+G + L+ SG +GL+I + ++K E +E NI FL NA
Sbjct: 52 LDVAGGTGDWTFGLSDSAGSSGKVVGLDINENMLKEGEKKAKEEGKYNIEFLQGNA 107
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 30.7 bits (70), Expect = 0.49
Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 11/97 (11%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELAL-SNIHFLFANASVS 187
+D+G+G+G + LA+R + +G+EI+++ + A+ V L I + A+
Sbjct: 49 LDLGAGNGALGLLLAQRTEKA-KIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEF 107
Query: 188 FK-------QLVSSYPGPLM-LVSILCPDPHFKKKHH 216
K L+ P P S L +P H
Sbjct: 108 LKALVFASFDLIICNP-PYFKQGSRLNENPLRAIARH 143
>gnl|CDD|185434 PTZ00083, PTZ00083, 40S ribosomal protein S27; Provisional.
Length = 85
Score = 28.9 bits (65), Expect = 0.58
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 198 PLMLVSILCPDPHFKKKHHK-RRVVQKP 224
M V +L PDP + + HK +R+VQ P
Sbjct: 2 GFMDVDLLYPDPESEARKHKLKRLVQGP 29
>gnl|CDD|197238 cd09140, PLDc_vPLD1_2_like_bac_1, Catalytic domain, repeat 1, of
uncharacterized bacterial proteins with similarity to
vertebrate phospholipases, PLD1 and PLD2. Catalytic
domain, repeat 1, of uncharacterized bacterial
counterparts of vertebrate, yeast and plant
phospholipase D (PLD, EC 3.1.4.4). PLDs hydrolyze the
terminal phosphodiester bond of phospholipids with the
formation of phosphatidic acid and alcohols. They also
catalyze the transphosphatidylation of phospholipids to
acceptor alcohols, by which various phospholipids can be
synthesized. Instead of the regulatory C2
(calcium-activated lipid binding) domain in plants and
the adjacent Phox (PX) and the Pleckstrin homology (PH)
N-terminal domains in most mammalian and yeast PLDs,
many members in this subfamily contain a SNARE
associated C-terminal domain, whose functional role is
unclear. Like other PLD enzymes, members in this
subfamily contain two copies of the conserved HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue), that may play an important role in the
catalysis.
Length = 146
Score = 29.4 bits (67), Expect = 0.82
Identities = 12/23 (52%), Positives = 13/23 (56%), Gaps = 6/23 (26%)
Query: 136 GRFLIWLARRNPDSGNYLGLEIR 158
G FL WLA R PD L+IR
Sbjct: 52 GDFLNWLAERRPD------LDIR 68
>gnl|CDD|232816 TIGR00080, pimt, protein-L-isoaspartate(D-aspartate)
O-methyltransferase. This is an all-kingdom (but not
all species) full-length ortholog enzyme for repairing
aging proteins. Among the prokaryotes, the gene name is
pcm. Among eukaryotes, pimt [Protein fate, Protein
modification and repair].
Length = 215
Score = 29.8 bits (67), Expect = 0.89
Identities = 16/63 (25%), Positives = 33/63 (52%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
++IG+GSG LA G + +E +L ++AE +++L L N+ + + + +
Sbjct: 82 LEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGW 141
Query: 189 KQL 191
+ L
Sbjct: 142 EPL 144
>gnl|CDD|218654 pfam05605, Di19, Drought induced 19 protein (Di19). This family
consists of several drought induced 19 (Di19) like
proteins. Di19 has been found to be strongly expressed
in both the roots and leaves of Arabidopsis thaliana
during progressive drought. The precise function of Di19
is unknown.
Length = 209
Score = 29.7 bits (67), Expect = 0.99
Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 7/77 (9%)
Query: 102 PLSSSFTVPAPIPDWSEVYKNPTLPLMVDIGSGSGRFLIW-LARRNPDSGNYLGLEIRQK 160
PL SSF +P D S K+ + GS S + L+ RN + E+ +K
Sbjct: 139 PLLSSFICSSPSADTSSTSKSDS----STEGSASAKSSDQKLSERNSSDSSLSKEELEEK 194
Query: 161 LVKRAEFWVQELALSNI 177
KR+EF VQ L LS I
Sbjct: 195 A-KRSEF-VQGLLLSTI 209
>gnl|CDD|204182 pfam09254, Endonuc-FokI_C, Restriction endonuclease FokI, C
terminal. Members of this family are predominantly
found in prokaryotic restriction endonuclease FokI, and
adopt a structure consisting of an alpha/beta/alpha core
containing a five-stranded beta-sheet. They recognise
the double-stranded DNA sequence 5'-GGATG-3' and cleave
DNA phosphodiester groups 9 base pairs away on this
strand and 13 base pairs away on the complementary
strand.
Length = 193
Score = 29.0 bits (64), Expect = 1.9
Identities = 13/85 (15%), Positives = 28/85 (32%), Gaps = 10/85 (11%)
Query: 158 RQKLVKRAEFW-VQELALSNIHFLFANASVS---------FKQLVSSYPGPLMLVSILCP 207
R K + E+W V +++ FLF + + + L + +L
Sbjct: 109 RNKHINPNEWWKVYPSSVTEFKFLFVSGHFKGNYKAQLTRLNHITNCNGAVLSVEELLIG 168
Query: 208 DPHFKKKHHKRRVVQKPLVDSIIDY 232
K V++ + I++
Sbjct: 169 GEMIKAGTLTLEEVRRKFNNGEINF 193
>gnl|CDD|225174 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA
(uracil-5-)-methyltransferase [Translation, ribosomal
structure and biogenesis].
Length = 432
Score = 29.2 bits (66), Expect = 2.0
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 115 DWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELAL 174
+W E+ + +D+ G G F + LA+R G+EI + V+ A+ +
Sbjct: 287 EWLELAGGERV---LDLYCGVGTFGLPLAKR---VKKVHGVEISPEAVEAAQENAAANGI 340
Query: 175 SNIHF 179
N+ F
Sbjct: 341 DNVEF 345
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 28.8 bits (65), Expect = 2.1
Identities = 27/125 (21%), Positives = 48/125 (38%), Gaps = 15/125 (12%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHF----LFANA 184
+D+G+GSG I LA+ PD+ + ++I + A + L + LF
Sbjct: 115 LDLGTGSGAIAIALAKEGPDA-EVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPL 173
Query: 185 SVSFKQLVS-----SYPGPLMLVSILCPDPH---FKKKHHKRRVVQKPLVDSIIDYLMPG 236
F +VS P +L ++ +P V ++ ++ D L PG
Sbjct: 174 RGKFDLIVSNPPYIPAEDPELLPEVVRYEPLLALVGGGDG-LEVYRR-ILGEAPDILKPG 231
Query: 237 GKVYF 241
G +
Sbjct: 232 GVLIL 236
>gnl|CDD|152552 pfam12117, DUF3580, Protein of unknown function (DUF3580). This
domain is found in viruses, and is about 120 amino acids
in length. It is found in association with pfam01057.
Length = 120
Score = 28.0 bits (62), Expect = 2.2
Identities = 19/58 (32%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 113 IPDWSEVYKNPTLPLMVDIGS-GSGRFLIWLARRNPDSGNYLGLEIRQKLVKRA-EFW 168
+PDWSE + P + I S GS R + P S NY + L A E W
Sbjct: 6 VPDWSENWAEPKIQ--TPINSPGSARSPSTTPKSTPLSQNYALTPLASDLADLALEPW 61
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 28.8 bits (65), Expect = 2.5
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 128 MVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKR 164
+++IG G G LA+R + + +EI +L KR
Sbjct: 33 VLEIGPGKGALTTELAKR---AKQVVAIEIDPRLAKR 66
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 28.4 bits (64), Expect = 3.0
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 130 DIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANAS 185
+IG+GSG LAR G + +E ++L ++A ++ L N+ + S
Sbjct: 78 EIGTGSGYQAAVLARL---VGRVVSIERIEELAEQARRNLETLGYENVTVRHGDGS 130
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 143
Score = 27.9 bits (63), Expect = 3.2
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 129 VDIGSGSG---RFLIWLARRNPDSGNYLGLEIRQKLVKRAE 166
VD G+G G L +L + +G++ R +LV++A
Sbjct: 30 VDHGAGKGYLGFILYYLLFKRKYGVRVVGIDARAELVEKAN 70
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 28.0 bits (63), Expect = 3.6
Identities = 22/94 (23%), Positives = 32/94 (34%), Gaps = 20/94 (21%)
Query: 103 LSSSFTVPAP-IPDWSEVYKNPTLPLM-------------------VDIGSGSGRFLIWL 142
L F V P D+ K T + ++ G+GSG +L
Sbjct: 53 LGVKFYVLKPTPEDYLLSMKRRTQIIYPKDAGYIVARLGISPGSRVLEAGTGSGALTAYL 112
Query: 143 ARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSN 176
AR G+ EIR+ K A + E L +
Sbjct: 113 ARAVGPEGHVTTYEIREDFAKTARENLSEFGLGD 146
>gnl|CDD|211555 TIGR00138, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase
GidB. GidB (glucose-inhibited division protein B)
appears to be present and in a single copy in nearly all
complete eubacterial genomes. It is missing only from
some obligate intracellular species of various lineages
(Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera,
etc.). GidB shows a methytransferase fold in its the
crystal structure, and acts as a 7-methylguanosine
(m(7)G) methyltransferase, apparently specific to 16S
rRNA [Protein synthesis, tRNA and rRNA base
modification].
Length = 181
Score = 28.0 bits (63), Expect = 3.8
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 7/54 (12%)
Query: 128 MVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFW---VQELALSNIH 178
++DIGSG+G I LA P+ L LE K+ F EL L+N+
Sbjct: 46 VIDIGSGAGFPGIPLAIARPELKLTL-LESNH---KKVAFLREVKAELGLNNVE 95
>gnl|CDD|213067 cd11751, GH94N_like_4, Glycoside hydrolase family 94
N-terminal-like domain of uncharacterized function. The
glycoside hydrolase family 94 (previously known as
glycosyltransferase family 36) includes cellobiose
phosphorylase (EC:2.4.1.20), cellodextrin phosphorylase
(EC:2.4.1.49), chitobiose phosphorylase (EC:2.4.1.-),
amongst other members. Their N-terminal domain is
involved in oligomerization and may play a role in
catalysis, but it is separate from the catalytic domain
[an (alpha/alpha)(6) barrel]. The GH64N domain, as
represented by this model, is found near the N-terminus
of GH94 members and related proteins with
uncharacterized specificities.
Length = 223
Score = 28.1 bits (63), Expect = 3.9
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 91 LGHARIRQHVNPLSSSFTVPAPIPDWSEVYK 121
+G++ N + SS TV P D E++
Sbjct: 43 IGYSEFTSEYNGIRSSLTVFVPKDDPVEIWS 73
>gnl|CDD|240357 PTZ00317, PTZ00317, NADP-dependent malic enzyme; Provisional.
Length = 559
Score = 28.4 bits (64), Expect = 3.9
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 12/49 (24%)
Query: 122 NP--TLPLMVDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFW 168
NP LP+++D+G+ + + L + YLGL R+K + E++
Sbjct: 188 NPSRVLPVVLDVGTNNEKLL--------NDPLYLGL--REKRLDDDEYY 226
>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 = 27.8 bits (62), Expect = 4.0
Identities = 13/56 (23%), Positives = 27/56 (48%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANA 184
+D+ G+ + I LA G+ +GL+ + ++ V++ L N+ + NA
Sbjct: 50 LDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNA 105
>gnl|CDD|223849 COG0778, NfnB, Nitroreductase [Energy production and conversion].
Length = 207
Score = 28.0 bits (62), Expect = 4.4
Identities = 16/92 (17%), Positives = 31/92 (33%), Gaps = 10/92 (10%)
Query: 137 RFLIWLARRNPDSGN-----YLGL----EIRQKLVKRAEFWVQELALSNIHFLFANASVS 187
++ AR P +GN ++ + E++ L + A Q L A +
Sbjct: 30 EKILEAARLAPSAGNLQPWRFIVVRDEDELKAALAELAGGG-QAQLKEASALLAVLADLE 88
Query: 188 FKQLVSSYPGPLMLVSILCPDPHFKKKHHKRR 219
V+ P + ++ K + RR
Sbjct: 89 SLDKVAEGRAPDLGAAVFLLAERRKLLGYGRR 120
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 28.5 bits (63), Expect = 4.6
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 19 FAAFHRTAKALISKPSSTFLCRRRHHHRCLYRNTASAASAAC 60
++ ++L SK +T C+ + H RCLY+ AS+A + C
Sbjct: 1476 YSVLDMVDRSLPSKRCAT--CKNKFHTRCLYKWFASSARSNC 1515
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 27.7 bits (62), Expect = 5.6
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 77 AELNLPVSNKITGELGHARIRQHV 100
AE+ LPV N+ GE A IR V
Sbjct: 39 AEVILPVRNRAKGEAAVAAIRTAV 62
>gnl|CDD|227698 COG5411, COG5411, Phosphatidylinositol 5-phosphate phosphatase
[Signal transduction mechanisms].
Length = 460
Score = 27.8 bits (62), Expect = 5.8
Identities = 12/64 (18%), Positives = 19/64 (29%), Gaps = 2/64 (3%)
Query: 173 ALSNIHFLFANASVSFKQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSIIDY 232
+L L S + + + VS+ P H K H+ + K L
Sbjct: 379 SLGQPRLLELIGSDVIVG-PTLWMIYVPDVSLKSPPGH-KASHNGATPILKRLQVVSSVS 436
Query: 233 LMPG 236
G
Sbjct: 437 PAMG 440
>gnl|CDD|232992 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In
bacteria, the incorporation of selenocysteine as the
21st amino acid, encoded by TGA, requires several
elements: SelC is the tRNA itself, SelD acts as a donor
of reduced selenium, SelA modifies a serine residue on
SelC into selenocysteine, and SelB is a
selenocysteine-specific translation elongation factor.
3-prime or 5-prime non-coding elements of mRNA have been
found as probable structures for directing
selenocysteine incorporation. This model describes SelA.
This model excludes homologs that appear to differ in
function from Frankia alni, Helicobacter pylori,
Methanococcus jannaschii and other archaea, and so on
[Protein synthesis, tRNA aminoacylation].
Length = 454
Score = 27.5 bits (62), Expect = 6.5
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 107 FTVPAPIPDWSEVYKNPTLPLMVDIGSGS 135
FT I + + + LP+M D+GSGS
Sbjct: 228 FTEEVSIAELVALGREHGLPVMEDLGSGS 256
>gnl|CDD|223031 PHA03273, PHA03273, envelope glycoprotein C; Provisional.
Length = 486
Score = 27.7 bits (61), Expect = 6.8
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 99 HVNPLSSSFTVPAPIPDWSEVYKNPTLPLMVDIGSGSGRFLIWLARRNPDSGNYLG 154
H ++ + ++ + +P + V N T + V+ R I+L +R P SG G
Sbjct: 87 HETTITCTKSLIS-VPYYKSVDMNCTTSVGVNYSEY--RLEIYLNQRTPFSGTPPG 139
>gnl|CDD|237538 PRK13876, PRK13876, conjugal transfer coupling protein TraG;
Provisional.
Length = 663
Score = 27.6 bits (62), Expect = 6.9
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 41 RRHHHRCLYRNTASAASAACNTSKEIR 67
R R L + +A SAA N E+R
Sbjct: 190 RARFGRVLLFDPTNAKSAAYNPLLEVR 216
>gnl|CDD|220213 pfam09377, SBDS_C, SBDS protein C-terminal domain. This family is
highly conserved in species ranging from archaea to
vertebrates and plants. The family contains several
Shwachman-Bodian-Diamond syndrome (SBDS) proteins from
both mouse and humans. Shwachman-Diamond syndrome is an
autosomal recessive disorder with clinical features that
include pancreatic exocrine insufficiency,
haematological dysfunction and skeletal abnormalities.
Members of this family play a role in RNA metabolism.
Length = 126
Score = 26.5 bits (59), Expect = 7.2
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 11/69 (15%)
Query: 171 ELALSNIHF-LFANASVS------FKQLVSSYPGPL----MLVSILCPDPHFKKKHHKRR 219
E AL + F + N S K+L P+ M V + P KK K +
Sbjct: 29 EKALKELGFSVDPNKSAKEQALEVIKKLQEKQIIPIARAKMRVRVTVPVKAAKKVKEKLK 88
Query: 220 VVQKPLVDS 228
+ + V+
Sbjct: 89 KLYEFKVEE 97
>gnl|CDD|225370 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal
structure and biogenesis].
Length = 300
Score = 26.9 bits (60), Expect = 9.9
Identities = 24/117 (20%), Positives = 42/117 (35%), Gaps = 19/117 (16%)
Query: 129 VDIGSGSGRFLIWLARRNPDSGNYLGLEIRQKLVKRAEFWVQELALSNIHFLFANASVSF 188
+D+G G G + LA+++P + L E A N+ + +
Sbjct: 163 LDLGCGYGVLGLVLAKKSPQAKLTL---------VDVNARAVESARKNLAANGVENTEVW 213
Query: 189 KQLVSSYPGPLMLVSILCPDPHFKKKHHKRRVVQKPLVDSII----DYLMPGGKVYF 241
+ P I+ +P F H + V L II +L PGG+++
Sbjct: 214 ASNLYE-PVEGKFDLIIS-NPPF----HAGKAVVHSLAQEIIAAAARHLKPGGELWI 264
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
0.323 0.136 0.423
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,444,839
Number of extensions: 1155990
Number of successful extensions: 1272
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1259
Number of HSP's successfully gapped: 57
Length of query: 241
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 147
Effective length of database: 6,768,326
Effective search space: 994943922
Effective search space used: 994943922
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.2 bits)