RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025498
(252 letters)
>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 = 185 bits (473), Expect = 2e-59
Identities = 71/181 (39%), Positives = 110/181 (60%), Gaps = 7/181 (3%)
Query: 69 FADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRT 128
F +IGCG G L++++ P+ L IG+E+R + ++I+ALR QN+ ++
Sbjct: 24 FLEIGCGMGDFLVAMAKKNPDKLFIGIEIRVPGVDKALKKIIALR-----GLQNLRILCG 78
Query: 129 NSMKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLLDEYAYVLGVGGIIYTITD 188
++MK +PN F G L K+F FPDP K+++H+RR++ P L EYA VL GG+++ TD
Sbjct: 79 DAMKLLPNLFPDGSLQKIFINFPDPWPKKRHHKRRLLQPEFLKEYARVLKPGGVLHLATD 138
Query: 189 VEELGDWMRSCLENHPMFEALTK-EELEADPVVKLLSSATEEGQKVARNGGQTFQAVFRR 247
VEE +WM L HP+FE + + +L DP+ L +TE QKV R GG F+ +F +
Sbjct: 139 VEEYFEWMLEHLSEHPLFERILESTDLNEDPITD-LRISTEYEQKVQRLGGPIFELIFIK 197
Query: 248 I 248
+
Sbjct: 198 L 198
>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 = 147 bits (374), Expect = 2e-44
Identities = 61/203 (30%), Positives = 99/203 (48%), Gaps = 10/203 (4%)
Query: 46 DYSLHYPHFFPPADQVNCSKKIQFADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYV 105
DYSL P F A + +IGCG G LI ++ P+ +G+E+ +
Sbjct: 1 DYSLDKPDF---ATVFGNKAPL-HLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIV--- 53
Query: 106 KERILALRVSNPGQYQNISVVRTNSMKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVI 165
+ A +N +N+ V+ ++ + + +F G L+K+F FPDP K+++++RR+
Sbjct: 54 ---LAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFLNFPDPWPKKRHNKRRIT 110
Query: 166 SPHLLDEYAYVLGVGGIIYTITDVEELGDWMRSCLENHPMFEALTKEELEADPVVKLLSS 225
PH L EYA VL GG+I+ TD E L + M L + +FE +K + + +
Sbjct: 111 QPHFLKEYANVLKKGGVIHFKTDNEPLFEDMLKVLSENDLFENTSKSTDLNNSPLSRPRN 170
Query: 226 ATEEGQKVARNGGQTFQAVFRRI 248
TE Q+ R G F F R+
Sbjct: 171 MTEYEQRFERLGHPVFDLCFERL 193
>gnl|CDD|223298 COG0220, COG0220, Predicted S-adenosylmethionine-dependent
methyltransferase [General function prediction only].
Length = 227
Score = 145 bits (369), Expect = 3e-43
Identities = 55/239 (23%), Positives = 102/239 (42%), Gaps = 15/239 (6%)
Query: 12 KSTGLPRKRFYRARAHSNPLSDSHFPVPISPSHVDYSLHYPHFFPPADQVNCSKKIQFAD 71
+ R+R +A N L D+ + + P + + F N + I +
Sbjct: 3 RIRSFVRRRLRLTKAQKNALEDNWPRLGLDPQ--EEPGDWSALFG-----NNNAPI-VLE 54
Query: 72 IGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRTNSM 131
IG G G L+ ++ PE +G+E+R ++I L + +N+ ++ +++
Sbjct: 55 IGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGL------KNLRLLCGDAV 108
Query: 132 KYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLLDEYAYVLGVGGIIYTITDVEE 191
+ + G L K++ FPDP K+++H+RR+ P L YA L GG+++ TD EE
Sbjct: 109 EVLDYLIPDGSLDKIYINFPDPWPKKRHHKRRLTQPEFLKLYARKLKPGGVLHFATDNEE 168
Query: 192 LGDWMRSCLENHPMFEALTKEELEADPVVKLLSSATEEGQKVARNGGQTFQAVFRRIVP 250
+WM + HP F E+L + ++ E ++ R G +
Sbjct: 169 YFEWMMLEVLEHPPFLKFESEDLHYNLPPP-DNNPVTEYEQKFRRLGHPVYDLEFIKKK 226
>gnl|CDD|234649 PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.
Length = 202
Score = 98.7 bits (247), Expect = 2e-25
Identities = 36/137 (26%), Positives = 70/137 (51%), Gaps = 6/137 (4%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRTNS 130
+IG G G L+ ++ P++ IG+E+ + ++I ++N + ++ ++
Sbjct: 46 EIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTN------LRLLCGDA 99
Query: 131 MKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLLDEYAYVLGVGGIIYTITDVE 190
++ + + F G L +++ FPDP K+++H+RR++ P L YA L GG I+ TD E
Sbjct: 100 VEVLLDMFPDGSLDRIYLNFPDPWPKKRHHKRRLVQPEFLALYARKLKPGGEIHFATDWE 159
Query: 191 ELGDWMRSCLENHPMFE 207
++M L F
Sbjct: 160 GYAEYMLEVLSAEGGFL 176
>gnl|CDD|237615 PRK14121, PRK14121, tRNA (guanine-N(7)-)-methyltransferase;
Provisional.
Length = 390
Score = 43.0 bits (102), Expect = 8e-05
Identities = 39/145 (26%), Positives = 64/145 (44%), Gaps = 16/145 (11%)
Query: 63 CSKKIQFADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQN 122
+KI +IG G G L+ + P L IG+E+ E V ++I L + N
Sbjct: 121 NQEKI-LIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKN------ 173
Query: 123 ISVVRTNS---MKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLLDEYAYVLGV 179
+ ++ ++ ++ +P+ + K+F FP P +K RRVIS L+E VL
Sbjct: 174 LLIINYDARLLLELLPS----NSVEKIFVHFPVPW--DKKPHRRVISEDFLNEALRVLKP 227
Query: 180 GGIIYTITDVEELGDWMRSCLENHP 204
GG + TD E ++ P
Sbjct: 228 GGTLELRTDSELYFEFSLELFLKLP 252
>gnl|CDD|234958 PRK01544, PRK01544, bifunctional N5-glutamine
S-adenosyl-L-methionine-dependent methyltransferase/tRNA
(m7G46) methyltransferase; Reviewed.
Length = 506
Score = 40.2 bits (94), Expect = 7e-04
Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 12/120 (10%)
Query: 53 HFFPPADQVNCSKKIQFADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILAL 112
+ F VN +K+ F +IG G G I+ + + P+ L IG+E+ Y+ L
Sbjct: 336 YLFSKEKLVNEKRKV-FLEIGFGMGEHFINQAKMNPDALFIGVEV------YLNGVANVL 388
Query: 113 RVSNPGQYQNIS--VVRTNSMKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLL 170
+++ QNI+ ++ N++ I N L ++ LFPDP K K ++R+ + L
Sbjct: 389 KLAGE---QNITNFLLFPNNLDLILNDLPNNSLDGIYILFPDPWIKNKQKKKRIFNKERL 445
>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 = 37.8 bits (88), Expect = 7e-04
Identities = 23/118 (19%), Positives = 45/118 (38%), Gaps = 16/118 (13%)
Query: 69 FADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRT 128
D+GCG G L ++L+ P + G+++ E ++ AL N+ V++
Sbjct: 2 VLDLGCGTGALALALA-SGPGARVTGVDISPVALELARKAAAALL------ADNVEVLKG 54
Query: 129 NSMKYIPNYFEKGQLTKMFFLFPDPHFKEKNHRRRVISPHLLDEYAYVLGVGGIIYTI 186
++ + + P H E + R L+E +L GG++
Sbjct: 55 DAEE--LPPEADESFDVIISDPPLHHLVE-DLAR------FLEEARRLLKPGGVLVLT 103
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 37.8 bits (88), Expect = 9e-04
Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 13/120 (10%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRTNS 130
D G G G L++ + P+ ++G+EL + + R++ G + VV ++
Sbjct: 6 DPGAGSGAFLLAAARAGPDARVVGVELDPEAA-----ALARRRLALAGLAPRVRVVVGDA 60
Query: 131 MKYIPNYFEKGQLTKMFF---LFPDPHFKEKNHRRRVISPHLLDEYAYVLGVGGIIYTIT 187
+ + G + P + N + L +L GG++ IT
Sbjct: 61 RELLE--LPDGSFDLVLGNPPYGPRAGDPKDNRD---LYDRFLAAALRLLKPGGVLVVIT 115
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 33.8 bits (78), Expect = 0.019
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVV 126
DIGCG G L I L+ LFP + G++L ++ E +E I+ V
Sbjct: 7 DIGCGTGSLAIELARLFPGARVTGVDLSPEMLELARENA------KLALGPRITFV 56
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 33.0 bits (76), Expect = 0.11
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 58 ADQVNCSKKIQFADIGCGFGGLLISLSTLFPEVLMIGMEL 97
A KK + D+G G G L + L+ + ++G+E+
Sbjct: 37 AAFAPVPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEI 76
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 30.4 bits (69), Expect = 0.22
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERI 109
D+GCG G +L +L+ P + G+++ + E KER+
Sbjct: 3 DLGCGTGRVLRALARAGP-SSVTGVDISKEALELAKERL 40
>gnl|CDD|222073 pfam13361, UvrD_C, UvrD-like helicase C-terminal domain. This
domain is found at the C-terminus of a wide variety of
helicase enzymes. This domain has a AAA-like structural
fold.
Length = 342
Score = 31.9 bits (73), Expect = 0.24
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 88 PEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISV-VRTNS 130
L ++ E++ I AL ++ +Y++I++ VRTNS
Sbjct: 42 KIFLFTAENEEEE-AEFIANEIKALAENDGIKYKDIAILVRTNS 84
>gnl|CDD|214839 smart00828, PKS_MT, Methyltransferase in polyketide synthase (PKS)
enzymes.
Length = 224
Score = 31.2 bits (71), Expect = 0.34
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRTNS 130
D GCG+G LI L+ P + + G + + E +ERI AL + I + +S
Sbjct: 5 DFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQG-----RIRIFYRDS 59
Query: 131 MK 132
K
Sbjct: 60 AK 61
>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 = 30.4 bits (69), Expect = 0.36
Identities = 12/46 (26%), Positives = 21/46 (45%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSN 116
DIG G G + I + L P + +E + + ++ + VSN
Sbjct: 25 DIGAGTGSVTIEAARLVPNGRVYAIERNPEALDLIERNLRRFGVSN 70
>gnl|CDD|214863 smart00859, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD binding
domain. The semialdehyde dehydrogenase family is found
in N-acetyl-glutamine semialdehyde dehydrogenase (AgrC),
which is involved in arginine biosynthesis, and
aspartate-semialdehyde dehydrogenase, an enzyme involved
in the biosynthesis of various amino acids from
aspartate. This family is also found in yeast and fungal
Arg5,6 protein, which is cleaved into the enzymes
N-acety-gamma-glutamyl-phosphate reductase and
acetylglutamate kinase. These are also involved in
arginine biosynthesis. All proteins in this entry
contain a NAD binding region of semialdehyde
dehydrogenase.
Length = 123
Score = 30.2 bits (69), Expect = 0.43
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 20/65 (30%)
Query: 176 VLGVGGIIYTITDVEELGDWMRSCLENHPMFEALTKEELEADPVVKLLSSATEEGQKVAR 235
++G G Y G + L HP FE + L +S+ G+KV+
Sbjct: 4 IVGATG--YV-------GQELLRLLAEHPDFE-----------LTALAASSRSAGKKVSE 43
Query: 236 NGGQT 240
G
Sbjct: 44 AGPHL 48
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 28.9 bits (65), Expect = 0.87
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRTNS 130
DIGCG G LL +L P + G+++ E ER+ AL + + ++
Sbjct: 2 DIGCGTGTLLRALLEALPGLEYTGVDISPAALEAAAERLAALG---LLDAVRVRLDVLDA 58
Query: 131 MKYIPNYF 138
+ P F
Sbjct: 59 IDLDPGSF 66
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 29.9 bits (68), Expect = 0.96
Identities = 15/69 (21%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 69 FADIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILALRVSNPGQYQNISVVRT 128
DIG G G + I + P +I +E ++ E ++ V N+ VV
Sbjct: 38 LWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVD------NLEVVEG 91
Query: 129 NSMKYIPNY 137
++ + +P+
Sbjct: 92 DAPEALPDL 100
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 29.5 bits (67), Expect = 1.6
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILAL 112
DIGCG+GGL I + + V ++G+ L ++ Y ++RI A
Sbjct: 78 DIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAAR 118
>gnl|CDD|99859 cd06106, ScCit3_like, Saccharomyces cerevisiae (Sc) 2-methylcitrate
synthase Cit3-like. 2-methylcitrate synthase (2MCS)
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate
and CoA. Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) with OAA to
form citrate and CoA, the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). ScCit3 is mitochondrial and functions
in the metabolism of PrCoA; it is a dual specificity CS
and 2MCS, having similar catalytic efficiency with both
AcCoA and PrCoA. The pattern of expression of the ScCIT3
gene follows that of the major mitochondrial CS gene
(CIT1, not included in this group) and its expression is
increased in the presence of a CIT1 deletion. This group
also contains Aspergillus nidulans 2MCS; a deletion of
the gene encoding this protein results in a strain
unable to grow on propionate. This group contains
proteins which functions exclusively as either a CS or a
2MCS, as well as those with relaxed specificity which
have dual functions as both a CS and a 2MCS.
Length = 428
Score = 29.4 bits (66), Expect = 2.0
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 204 PMFEAL-----TKEELEADPVVKLLSSATEEGQKVARNGGQT 240
P F AL T+ ELE DPVV+L+ +E V G+T
Sbjct: 324 PRFTALMEFAQTRPELENDPVVQLVQKLSEIAPGVLTEHGKT 365
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 28.7 bits (65), Expect = 2.5
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 68 QFADIGCGFGGLLISLSTLF-PEVLMIGMELRDKVTEYVKERILALR 113
+ D+GCG G L+ PE ++G++ + + KER L
Sbjct: 22 RVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLG 68
>gnl|CDD|221737 pfam12726, SEN1_N, SEN1 N terminal. This domain is found at the N
terminal of the helicase SEN1. SEN1 is a Pol II
termination factor for noncoding RNA genes. The N
terminal of SEN1, unlike the C terminal, is not required
for growth.
Length = 724
Score = 29.2 bits (66), Expect = 2.7
Identities = 5/31 (16%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 182 IIYTITDVEELGDWMRSCLENHP--MFEALT 210
++ + DV+ + +++ LE++ A+
Sbjct: 544 LLKEVFDVDGRLEAIQALLESNFSTTLNAIN 574
>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 = 28.8 bits (65), Expect = 2.8
Identities = 13/42 (30%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 71 DIGCGFGGLLISLSTLFPEVLMIGMELRDKVTEYVKERILAL 112
DIGCG+GGL+ + + +V ++G+ L ++ ++R+ A
Sbjct: 68 DIGCGWGGLMRRAAERY-DVNVVGLTLSKNQYKHARQRVAAE 108
>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 = 28.7 bits (65), Expect = 2.8
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 59 DQVNCSKKIQFADIGCGFGGLLISLSTLFPEVL 91
Q + + DIGC G L+ F EV
Sbjct: 35 AQFRNKSRKRALDIGCAVGRASFELARYFDEVD 67
>gnl|CDD|179543 PRK03137, PRK03137, 1-pyrroline-5-carboxylate dehydrogenase;
Provisional.
Length = 514
Score = 28.7 bits (65), Expect = 3.1
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 99 DKVTEYVKERILALRVSNPGQYQNI-SVVRTNSMKYIPNYFEKGQ 142
D+V E V E L V NP + V+ S I +Y E G+
Sbjct: 334 DEVLEKVVELTKELTVGNPEDNAYMGPVINQASFDKIMSYIEIGK 378
>gnl|CDD|187575 cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in
this subgroup are poorly defined and have been
identified putatively as isoflavones reductase, sugar
dehydratase, mRNA binding protein etc. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
retain the canonical active site triad (though not the
upstream Asn found in most SDRs) but have an unusual
putative glycine-rich NAD(P)-binding motif, GGXXXXG, in
the usual location. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 250
Score = 27.6 bits (62), Expect = 5.1
Identities = 6/28 (21%), Positives = 10/28 (35%)
Query: 175 YVLGVGGIIYTITDVEELGDWMRSCLEN 202
V G G + V++L + N
Sbjct: 180 LVPGDGHSLVQFIHVKDLARALLGAAGN 207
>gnl|CDD|220356 pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1). CRISPR
loci appear to be mobile elements with a wide host
range. This entry represents proteins that tend to be
found near CRISPR repeats. The species range, so far, is
exclusively bacterial and mesophilic, although CRISPR
loci are particularly common among the archaea and
thermophilic bacteria. Clusters of short DNA repeats
with nonhomologous spacers, which are found at regular
intervals in the genomes of phylogenetically distinct
prokaryotic species, comprise a family with recognisable
features. This family is known as CRISPR (short for
Clustered, Regularly Interspaced Short Palindromic
Repeats). A number of protein families appear only in
association with these repeats and are designated Cas
(CRISPR-Associated) proteins.
Length = 572
Score = 28.0 bits (63), Expect = 5.5
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 6/51 (11%)
Query: 134 IPNYFEKG-QLTKMFFLFPDPHFKEKNHRR-RVISPHLL-DEYAYVLGVGG 181
I G + L P EK+ R I+P+ L D+ +YVLG
Sbjct: 41 IDARERDGKKTIPRSMLVPAT---EKSAGRSSGIAPNFLWDKLSYVLGDFA 88
>gnl|CDD|223210 COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism].
Length = 223
Score = 27.2 bits (61), Expect = 6.3
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 169 LLDEYAYVL--GVGGIIYTITDVEELGDWMRSCLENHPM 205
LL +Y VL G GG++ +T+ D P+
Sbjct: 103 LLKKYDLVLVEGAGGLLVPLTEEYTFADLAV--QLQLPV 139
>gnl|CDD|183282 PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase;
Provisional.
Length = 383
Score = 27.5 bits (62), Expect = 6.4
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 71 DIGCGFGGL 79
DIGCG+GGL
Sbjct: 173 DIGCGWGGL 181
>gnl|CDD|170049 PRK09692, PRK09692, integrase; Provisional.
Length = 413
Score = 27.7 bits (61), Expect = 7.3
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 9/72 (12%)
Query: 16 LPRKRFYRARAHSNPLSDSHFPV-----PISPSHVDYSLHYPHFFPPADQVNCSKKIQFA 70
+P R R H+ PLSD + P+S + ++ +P P +N S+ + A
Sbjct: 269 IPAARMKMNRDHTVPLSDEALAILEMMKPLS-GNREFI--FPSRIKPNQPMN-SQTVNAA 324
Query: 71 DIGCGFGGLLIS 82
G GG+L+S
Sbjct: 325 LKRAGLGGVLVS 336
>gnl|CDD|178550 PLN02966, PLN02966, cytochrome P450 83A1.
Length = 502
Score = 27.4 bits (60), Expect = 8.2
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 200 LENHPMFEALTKEELEADPVVKLL 223
++N P F AL KE L +PV+ LL
Sbjct: 347 VKNLPYFRALVKETLRIEPVIPLL 370
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
0.321 0.138 0.411
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,364,951
Number of extensions: 1291187
Number of successful extensions: 1256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1248
Number of HSP's successfully gapped: 39
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.0 bits)