RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780398|ref|YP_003064811.1| dimethyladenosine transferase
[Candidatus Liberibacter asiaticus str. psy62]
(284 letters)
>gnl|CDD|30380 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 257 bits (658), Expect = 3e-69
Identities = 108/262 (41%), Positives = 148/262 (56%), Gaps = 11/262 (4%)
Query: 21 PKKYMGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQ 80
P K +GQNFL+D N++ KI E++ G V+EIG G G LT+ LL AR V IE D+
Sbjct: 4 PNKRLGQNFLIDKNVIDKIVEAANISPGDNVLEIGPGLGALTEPLLERAAR-VTAIEIDR 62
Query: 81 QFFPILKDISSQHPNRLEIIQDDALKVDFEKFFNISSPIRIIANLPYNIGTRLLFNWISA 140
+ +LK+ + + N L +I DALK DF P +++ANLPYNI + +LF +
Sbjct: 63 RLAEVLKERFAPYDN-LTVINGDALKFDFPSLAQ---PYKVVANLPYNISSPILFKLLEE 118
Query: 141 DTWPPFWESLTLLFQKEVGERITAQKNSPHYGRLSVLTGWRTKATMMFDISPHVFFPSPK 200
+ + L+ QKEV ER+ A+ S YGRLSVL + ++FD+ P F+P PK
Sbjct: 119 KFII---QDMVLMVQKEVAERLVAKPGSKDYGRLSVLVQYYADVEIVFDVPPSAFYPPPK 175
Query: 201 VTSTVIHFIPHLNPIPCC--LESLKKITQEAFGKRRKTLRQSLKRLGG-ENLLHQAGIET 257
V S V+ +P E K + AF +RRKTLR +LK L G E +L AGI+
Sbjct: 176 VDSAVVRLVPKKEKPSPVKDEEKFFKFVKAAFSQRRKTLRNNLKNLFGLEEVLEAAGIDP 235
Query: 258 NLRAENLSIEDFCRITNILTDN 279
N RAENLS EDF ++ N L
Sbjct: 236 NARAENLSPEDFLKLANALKGF 257
>gnl|CDD|36039 KOG0821, KOG0821, KOG0821, Predicted ribosomal RNA adenine
dimethylase [RNA processing and modification].
Length = 326
Score = 162 bits (410), Expect = 1e-40
Identities = 92/290 (31%), Positives = 145/290 (50%), Gaps = 23/290 (7%)
Query: 9 SLKTILSHYKIIPKKYMGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTL 68
+++ I+ Y++ K + QNFL+DL + KI + +G+L V EIG GPG +T+ +L
Sbjct: 12 TIREIIKLYRLQAAKQLSQNFLMDLRLTDKIVKKAGNLTNAYVYEIGPGPGGITRSILNA 71
Query: 69 GARKVIVIEKDQQFFPILKDISSQHPNRLEIIQDDALKVDFEKFFNISS---------PI 119
+++V+EKD +F P L+ +S P +L I D L+ EK F+ S +
Sbjct: 72 DVARLLVVEKDTRFIPGLQMLSEAAPGKLRIHHGDVLRFKIEKAFSESLKRPWEDDPPNV 131
Query: 120 RIIANLPYNIGTRLLFNWISADT-----WPPFWESLTLLFQKEVGERITAQKNSPHYGRL 174
II NLP+++ T L+ W+ + + +TL FQKEV ER+ A S RL
Sbjct: 132 HIIGNLPFSVSTPLIIKWLENISCRDGPFVYGRTQMTLTFQKEVAERLCAPTGSKQRSRL 191
Query: 175 SVLTGWRTKATMMFDISPHVFFPSPKVTSTVIHFIPHLNP-IPCCLESLKKITQEAFGKR 233
SV++ + + M+F I F P P+V V+HF P P I + ++K+ + F R
Sbjct: 192 SVMSQYLCEPRMIFTIPGQAFVPKPQVDVGVVHFTPLKQPKIEQPFKLVEKVVRNVFQFR 251
Query: 234 RKTLRQSLKRL--------GGENLLHQAGIETNLRAENLSIEDFCRITNI 275
+K + L+ L LL A I+ LR LSIE F + +
Sbjct: 252 QKYCHRGLRTLFPEEQRLESTGRLLELADIDPTLRPRQLSIEQFKSLAEV 301
>gnl|CDD|109456 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 258
Score = 159 bits (405), Expect = 7e-40
Identities = 73/263 (27%), Positives = 122/263 (46%), Gaps = 13/263 (4%)
Query: 21 PKKYMGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQ 80
++ GQNFL + ++ +I + + + TV+EIG G G LT+ L A++V+ IE D
Sbjct: 4 GRRSYGQNFLTNKKVINRIVDKANLQESDTVLEIGPGKGALTEELAKR-AKQVVAIEIDP 62
Query: 81 QFFPILKDISSQHPNRLEIIQDDALKVDFEKFFNISSPIRIIANLPYNIGTRLLFNWISA 140
+ L+ + HPN +E++ D LK F K P ++ N+PYNI T ++ +
Sbjct: 63 RLAKRLQKKLALHPN-VEVVHQDFLKFSFPKHE----PFLVVGNIPYNITTPIVKKLLFE 117
Query: 141 DTWPPFWESLTLLFQKEVGERITAQKNSPHYGRLSVLTGWRTKATMMFDISPHVFFPSPK 200
+ + L+ QKE R+ A+ S Y RL+VLT T ++ + F P PK
Sbjct: 118 PRFG--RVKMLLVVQKEFARRLLARPGSKIYSRLTVLTEPFTDIKLVAKVPRSSFRPPPK 175
Query: 201 VTSTVIHFIPHLNPIPC--CLESLKKITQEAFGKRRKTLRQSLKRLGGENLLHQA---GI 255
V S ++ +P+ L+ + ++ F + ++L SL+RL + I
Sbjct: 176 VDSALVRLERRDHPLLPVKDLKKYDYLVRKLFNGKGRSLFTSLRRLFPGGQVQALSKTRI 235
Query: 256 ETNLRAENLSIEDFCRITNILTD 278
N LS E + I L
Sbjct: 236 NDNALVGKLSPEQWLTIFKELAK 258
>gnl|CDD|36038 KOG0820, KOG0820, KOG0820, Ribosomal RNA adenine dimethylase [RNA
processing and modification].
Length = 315
Score = 117 bits (294), Expect = 4e-27
Identities = 63/224 (28%), Positives = 102/224 (45%), Gaps = 12/224 (5%)
Query: 21 PKKYMGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQ 80
K GQ+ L + ++ +I E + V+E+G G GNLT LL G KV+ +E D
Sbjct: 32 FNKDFGQHILKNPLVIDQIVEKADLKPTDVVLEVGPGTGNLTVKLLEAGK-KVVAVEIDP 90
Query: 81 QFFPILKDISSQHP--NRLEIIQDDALKVDFEKFFNISSPIRIIANLPYNIGTRLLFNWI 138
+ L+ P +L+++ D LK D F+ ++NLPY I + L+F +
Sbjct: 91 RMVAELEKRVQGTPKSGKLQVLHGDFLKTDL-PRFDG-----CVSNLPYQISSPLVFKLL 144
Query: 139 SADTWPPFWESLTLLFQKEVGERITAQKNSPHYGRLSVLTGWRTKATMMFDISPHVFFPS 198
P F ++ L+FQ+E R+ A+ Y RLS+ + T + + + F P
Sbjct: 145 LHR--PVFRCAV-LMFQREFALRLVARPGDSLYCRLSINVQLLARVTHIMKVGKNNFRPP 201
Query: 199 PKVTSTVIHFIPHLNPIPCCLESLKKITQEAFGKRRKTLRQSLK 242
PKV S+V+ P P + + F ++ KTL K
Sbjct: 202 PKVESSVVRIEPKNPRPPVDFHEWDGLLRICFLRKNKTLMAPFK 245
>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 = 44.7 bits (106), Expect = 3e-05
Identities = 16/91 (17%), Positives = 39/91 (42%), Gaps = 4/91 (4%)
Query: 50 TVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKDISSQH-PNRLEIIQDDALKVD 108
V+++G G G L L + +V ++ + + ++ + +E+++ DA ++
Sbjct: 1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELP 60
Query: 109 FEKFFNISSPIRIIANLPYNIGTRLLFNWIS 139
E S II++ P + L ++
Sbjct: 61 PEAD---ESFDVIISDPPLHHLVEDLARFLE 88
>gnl|CDD|32444 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal
structure and biogenesis].
Length = 198
Score = 41.0 bits (96), Expect = 4e-04
Identities = 19/70 (27%), Positives = 34/70 (48%)
Query: 39 IAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKDISSQHPNRLE 98
+A G L+G TV+++GAG G L LGA +V+ ++ D + I + + + +E
Sbjct: 37 VAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLAVDIDPEALEIARANAEELLGDVE 96
Query: 99 IIQDDALKVD 108
+ D
Sbjct: 97 FVVADVSDFR 106
>gnl|CDD|33834 COG4076, COG4076, Predicted RNA methylase [General function
prediction only].
Length = 252
Score = 38.8 bits (90), Expect = 0.001
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 50 TVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPIL-KDISSQHPNRLEIIQDDALKVD 108
T ++GAG G L+ ++ A +VI IEKD + + +++ E++ DA D
Sbjct: 35 TFADLGAGSGILS-VVAAHAAERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYD 93
Query: 109 FEK 111
FE
Sbjct: 94 FEN 96
>gnl|CDD|31989 COG1804, CaiB, Predicted acyl-CoA transferases/carnitine
dehydratase [Energy production and conversion].
Length = 396
Score = 34.9 bits (80), Expect = 0.024
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 42 SSGSLDGITVIEIG---AGPGNLTQMLLTLGARKVIVIE 77
G L+G+ VI++ AGP Q+L LGA VI +E
Sbjct: 4 RKGPLEGLRVIDLAHVLAGPF-AGQLLADLGAE-VIKVE 40
>gnl|CDD|31263 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
dehydrogenases [Amino acid transport and metabolism /
General function prediction only].
Length = 350
Score = 34.2 bits (78), Expect = 0.042
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 40 AESSGSLDGITVIEIGAGP-GNLTQMLLTL-GARKVIVIEKDQ 80
AE + G TV+ +GAGP G L L L GA VIV+++
Sbjct: 161 AERAAVRPGGTVVVVGAGPIGLLAIALAKLLGASVVIVVDRSP 203
>gnl|CDD|176193 cd08231, MDR_TM0436_like, Hypothetical enzyme TM0436 resembles the
zinc-dependent alcohol dehydrogenases (ADH). This group
contains the hypothetical TM0436 alcohol dehydrogenase
from Thermotoga maritima, proteins annotated as
5-exo-alcohol dehydrogenase, and other members of the
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
MDR, 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.
Length = 361
Score = 32.6 bits (75), Expect = 0.14
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 48 GITVIEIGAGPGNLTQ--MLLTLGARKVIVIEKDQQ 81
G TV+ GAGP L GAR+VIVI+ +
Sbjct: 178 GDTVVVQGAGPLGLYAVAAAKLAGARRVIVIDGSPE 213
>gnl|CDD|176197 cd08235, iditol_2_DH_like, L-iditol 2-dehydrogenase. Putative
L-iditol 2-dehydrogenase based on annotation of some
members in this subgroup. L-iditol 2-dehydrogenase
catalyzes the NAD+-dependent conversion of L-iditol to
L-sorbose in fructose and mannose metabolism. This
enzyme is related to sorbitol dehydrogenase, alcohol
dehydrogenase, and other medium chain
dehydrogenase/reductases. The zinc-dependent alcohol
dehydrogenase (ADH-Zn)-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) to highlight its broad range of activities
and to distinguish 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 GroES-like catalytic
domain. 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 = 343
Score = 32.2 bits (74), Expect = 0.16
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 48 GITVIEIGAGPGNLTQMLLTL--GARKVIVIEKDQQ 81
G TV+ IGAGP L +L GARKVIV + ++
Sbjct: 166 GDTVLVIGAGPIGLLHAMLAKASGARKVIVSDLNEF 201
>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 = 32.2 bits (74), Expect = 0.17
Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 48 GITVIEIGAGP-GNLT-QMLLTLGARKVIVIEKDQQ 81
G TV+ IGAG G L Q L LGA++VI ++ D +
Sbjct: 160 GDTVVVIGAGTIGLLAIQWLKILGAKRVIAVDIDDE 195
>gnl|CDD|37862 KOG2651, KOG2651, KOG2651, rRNA adenine N-6-methyltransferase [RNA
processing and modification].
Length = 476
Score = 31.9 bits (72), Expect = 0.20
Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 1/72 (1%)
Query: 12 TILSHYKIIPKKYMGQNFLLDLNILKKIAESSGSLDGI-TVIEIGAGPGNLTQMLLTLGA 70
+ S + +K++ ++ L ++ S GI V+++GAG G+L++ L
Sbjct: 117 SQSSQLTALFRKHVRPKKQHEIRRLSELVSSISDFTGIDQVVDVGAGQGHLSRFLSLGYG 176
Query: 71 RKVIVIEKDQQF 82
V IE Q+
Sbjct: 177 LSVKAIEGSQRL 188
>gnl|CDD|145073 pfam01728, FtsJ, FtsJ-like methyltransferase. This family
consists of FtsJ from various bacterial and archaeal
sources FtsJ is a methyltransferase, but actually has
no effect on cell division. FtsJ's substrate is the 23S
rRNA. The 1.5 A crystal structure of FtsJ in complex
with its cofactor S-adenosylmethionine revealed that
FtsJ has a methyltransferase fold. This family also
includes the N terminus of flaviviral NS5 protein. It
has been hypothesized that the N-terminal domain of NS5
is a methyltransferase involved in viral RNA capping.
Length = 176
Score = 31.4 bits (72), Expect = 0.26
Identities = 13/28 (46%), Positives = 20/28 (71%)
Query: 48 GITVIEIGAGPGNLTQMLLTLGARKVIV 75
G TV+++GA PG +Q+LL GA+ +V
Sbjct: 22 GKTVLDLGAAPGGFSQVLLERGAKGRVV 49
>gnl|CDD|33744 COG3963, COG3963, Phospholipid N-methyltransferase [Lipid
metabolism].
Length = 194
Score = 31.0 bits (70), Expect = 0.34
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 37 KKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGAR--KVIVIEKDQQFFPILKDISSQHP 94
+K+A G+ V+E+G G G +T+ +L+ G R + IE F L Q
Sbjct: 38 RKMASVIDPESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLN----QLY 93
Query: 95 NRLEIIQDDALKVD 108
+ II DA +
Sbjct: 94 PGVNIINGDAFDLR 107
>gnl|CDD|30641 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
and biogenesis].
Length = 205
Score = 30.6 bits (69), Expect = 0.45
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 8/65 (12%)
Query: 47 DGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKDISSQHPNRLEIIQDDALK 106
G+ V+++GA PG +Q+ ++ D P+ P + +Q D
Sbjct: 45 PGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDIL--PM-----KPIPG-VIFLQGDITD 96
Query: 107 VDFEK 111
D +
Sbjct: 97 EDTLE 101
>gnl|CDD|32589 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 30.6 bits (69), Expect = 0.45
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 9/92 (9%)
Query: 39 IAESSGSLDGITVIEIGAGPGNLTQMLLTL--GARKVIVIEKDQQFFPILKDISSQH--P 94
I G G V+E G G G LT L V E + F ++ S+
Sbjct: 86 IVARLGISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLG 145
Query: 95 NRLEIIQDDALKVDFEKFFNISSPIRIIANLP 126
+R+ + D + E+ + + +LP
Sbjct: 146 DRVTLKLGDVREGIDEEDVD-----AVFLDLP 172
>gnl|CDD|31382 COG1189, COG1189, Predicted rRNA methylase [Translation, ribosomal
structure and biogenesis].
Length = 245
Score = 30.2 bits (68), Expect = 0.74
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 36 LKKIAESSG-SLDGITVIEIGAGPGNLTQMLLTLGARKVIVIE 77
L+K E + G V++IG+ G T +LL GA+ V ++
Sbjct: 67 LEKALEEFELDVKGKVVLDIGSSTGGFTDVLLQRGAKHVYAVD 109
>gnl|CDD|32445 COG2264, PrmA, Ribosomal protein L11 methylase [Translation,
ribosomal structure and biogenesis].
Length = 300
Score = 29.9 bits (67), Expect = 0.87
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 46 LDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKDISSQH--PNRLEIIQDD 103
G TV+++G G G L LGA+KV+ ++ D Q ++ + + ++
Sbjct: 161 KKGKTVLDVGCGSGILAIAAAKLGAKKVVGVDIDPQAVEAARENARLNGVELLVQAKGFL 220
Query: 104 ALKVDFEKFFNISSPIRIIANL 125
L+V F++ I+AN+
Sbjct: 221 LLEVPENGPFDV-----IVANI 237
>gnl|CDD|32353 COG2170, COG2170, Uncharacterized conserved protein [Function
unknown].
Length = 369
Score = 29.1 bits (65), Expect = 1.3
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 7/70 (10%)
Query: 147 WESLTLLFQKEVGERITAQKNSPHYGRLSVLTGWRTKATMMFDISPHVFFPSPKVTSTVI 206
T F + + +P Y RL TG+ + + HV PSP ++
Sbjct: 86 CGGGTHPFADWRRQEVPD---NPRYQRLIERTGYLGRQMTVAGQHVHVGIPSPDDAMYLL 142
Query: 207 H----FIPHL 212
H ++PHL
Sbjct: 143 HRLLRYVPHL 152
>gnl|CDD|32409 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,
4-benzoquinol methylase [Coenzyme metabolism].
Length = 243
Score = 29.1 bits (65), Expect = 1.5
Identities = 14/41 (34%), Positives = 25/41 (60%)
Query: 31 LDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGAR 71
L L+ ++++A L G+ V+++G G G L++ L LGA
Sbjct: 43 LRLDYIREVARLRFDLPGLRVLDVGCGGGILSEPLARLGAS 83
>gnl|CDD|176243 cd08283, FDH_like_1, Glutathione-dependent formaldehyde
dehydrogenase related proteins, child 1. Members
identified as glutathione-dependent formaldehyde
dehydrogenase(FDH), a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. FDH converts formaldehyde and NAD(P) to formate
and NAD(P)H. The initial step in this process the
spontaneous formation of a S-(hydroxymethyl)glutathione
adduct from formaldehyde and glutathione, followed by
FDH-mediated oxidation (and detoxification) of the
adduct to S-formylglutathione. MDH family uses NAD(H)
as a cofactor in the interconversion of alcohols and
aldehydes, or ketones. Like many zinc-dependent alcohol
dehydrogenases (ADH) of the medium chain alcohol
dehydrogenase/reductase family (MDR), these FDHs form
dimers, with 4 zinc ions per dimer. 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.
Length = 386
Score = 29.0 bits (66), Expect = 1.6
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 18/78 (23%)
Query: 47 DGITVIEIGAGP-GNLTQML-LTLGARKVIVIEKDQQFFPILKDISSQHPNRLEIIQD-- 102
G TV G GP G LGA +VI I++ P RLE+ +
Sbjct: 184 PGDTVAVWGCGPVGLFAARSAKLLGAERVIAIDR--------------VPERLEMARSHL 229
Query: 103 DALKVDFEKFFNISSPIR 120
A ++FE+ ++ +R
Sbjct: 230 GAETINFEEVDDVVEALR 247
>gnl|CDD|176196 cd08234, threonine_DH_like, L-threonine dehydrogenase. L-threonine
dehydrogenase (TDH) catalyzes the zinc-dependent
formation of 2-amino-3-ketobutyrate from L-threonine,
via NAD(H)-dependent oxidation. THD is a member of the
zinc-requiring, medium chain NAD(H)-dependent alcohol
dehydrogenase family (MDR). MDRs have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. 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. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Length = 334
Score = 29.0 bits (66), Expect = 1.6
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 48 GITVIEIGAGP-GNLTQMLLTL-GARKVIVIEKDQ 80
G +V+ GAGP G L LL L GA +V V E ++
Sbjct: 160 GDSVLVFGAGPIGLLLAQLLKLNGASRVTVAEPNE 194
>gnl|CDD|144557 pfam01012, ETF, Electron transfer flavoprotein domain. This
family includes the homologous domain shared between
the alpha and beta subunits of the electron transfer
flavoprotein.
Length = 161
Score = 28.7 bits (65), Expect = 1.7
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 32 DLNIL---KKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQ 80
DL L +++AE+ G +T + +G P +L +GA KV+V+E
Sbjct: 17 DLEALEAARQLAEALGG--EVTAVVVGPVPAAAEALLAAMGADKVLVVEDPA 66
>gnl|CDD|36712 KOG1499, KOG1499, KOG1499, Protein arginine N-methyltransferase
PRMT1 and related enzymes [Posttranslational
modification, protein turnover, chaperones,
Transcription, Signal transduction mechanisms].
Length = 346
Score = 28.7 bits (64), Expect = 1.9
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 50 TVIEIGAGPGNLTQMLLTLGARKVIVIE 77
TV+++G G G L+ GARKV +E
Sbjct: 63 TVLDVGCGTGILSMFAAKAGARKVYAVE 90
>gnl|CDD|30357 COG0007, CysG, Uroporphyrinogen-III methylase [Coenzyme
metabolism].
Length = 244
Score = 28.3 bits (63), Expect = 2.4
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 16/66 (24%)
Query: 51 VIEIGAGPGNLTQMLLTLGARKVI----VIEKDQQFFPILKDISSQHPNRLEIIQDDALK 106
V +GAGPG+ LLTL A + + V+ D+ + +++ L + + DA +
Sbjct: 6 VYLVGAGPGDPG--LLTLRALRALQEADVVLYDRL---VPEEV-------LALARRDAER 53
Query: 107 VDFEKF 112
+ K
Sbjct: 54 IYVGKR 59
>gnl|CDD|36714 KOG1501, KOG1501, KOG1501, Arginine N-methyltransferase [General
function prediction only].
Length = 636
Score = 28.5 bits (63), Expect = 2.4
Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 33 LNILKKIAESSGSLDG--ITVIEIGAGPGNLTQMLLTLGARKVIVIE 77
L I K I E LD + V++IG G G L+ M + GA V E
Sbjct: 50 LGIEKTITEPKHVLDIGKVFVLDIGTGTGLLSMMAVRAGADSVTACE 96
>gnl|CDD|36713 KOG1500, KOG1500, KOG1500, Protein arginine N-methyltransferase
CARM1 [Posttranslational modification, protein turnover,
chaperones, Transcription].
Length = 517
Score = 28.1 bits (62), Expect = 2.6
Identities = 15/53 (28%), Positives = 26/53 (49%)
Query: 25 MGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIE 77
M Q+++ + I E+ V+++GAG G L+ GA+KV +E
Sbjct: 155 MMQDYVRTGTYQRAILENHSDFQDKIVLDVGAGSGILSFFAAQAGAKKVYAVE 207
>gnl|CDD|176217 cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like,
2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and
other MDR family members. This subgroup of the medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family has members identified
as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A
dehydrogenase and 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.
Length = 277
Score = 28.4 bits (64), Expect = 2.6
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 48 GITVIEIGAGP-GNLT-QMLLTLGARKVIVIE 77
G V +G G G L Q+ GAR+V+ ++
Sbjct: 98 GERVAVVGLGLVGLLAAQLAKAAGAREVVGVD 129
>gnl|CDD|109889 pfam00851, Peptidase_C6, Helper component proteinase. This protein
is found in genome polyproteins of potyviruses.
Length = 453
Score = 28.0 bits (63), Expect = 2.8
Identities = 20/98 (20%), Positives = 39/98 (39%), Gaps = 23/98 (23%)
Query: 193 HVFFPSPKVTSTVIHFIPHLNPIPCCLESLKKITQEAFGKR-RKTLRQSLKRLGGE---- 247
FP K+T C ++ K ++++ +R R L + L+ LG E
Sbjct: 40 QALFPCGKITCKK------------CAQNYKNLSKDEIKERLRTRLMRQLEELGSEHPRF 87
Query: 248 ----NLLHQAGIETNLRAENLSIEDFCRITNILTDNQD 281
+L + ++ N+++E F IT ++ D
Sbjct: 88 KHVRQVLER--LKQATNVTNMNLEAFSEITKLIGGRTD 123
>gnl|CDD|31085 COG0742, COG0742, N6-adenine-specific methylase [DNA replication,
recombination, and repair].
Length = 187
Score = 28.3 bits (63), Expect = 2.8
Identities = 19/63 (30%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 46 LDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKD--ISSQHPNRLEIIQDD 103
++G V+++ AG G L L+ GA +V+ +EKD++ ILK+ + ++++D
Sbjct: 42 IEGARVLDLFAGSGALGLEALSRGAARVVFVEKDRKAVKILKENLKALGLEGEARVLRND 101
Query: 104 ALK 106
AL+
Sbjct: 102 ALR 104
>gnl|CDD|32588 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 27.9 bits (62), Expect = 3.7
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 48 GITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQF 82
G V+EIG G G +L L +V+ IE+ ++
Sbjct: 73 GDRVLEIGTGSGYQAAVLARL-VGRVVSIERIEEL 106
>gnl|CDD|109450 pfam00392, GntR, Bacterial regulatory proteins, gntR family. This
family of regulatory proteins consists of the N-terminal
HTH region of GntR-like bacterial transcription factors.
At the C-terminus there is usually an
effector-binding/oligomerisation domain. The GntR-like
proteins include the following sub-families: MocR, YtrR,
FadR, AraR, HutC and PlmA, DevA, DasR. Many of these
proteins have been shown experimentally to be
autoregulatory, enabling the prediction of operator
sites and the discovery of cis/trans relationships. The
DasR regulator has been shown to be a global regulator
of primary metabolism and development in Streptomyces
coelicolor.
Length = 64
Score = 27.2 bits (61), Expect = 5.6
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 219 LESLKKITQEAFGKRRKTLRQSLKRLGGENLLH 251
L S +++ FG R T+R++L+RL E L+
Sbjct: 24 LPSEREL-AAEFGVSRTTVREALRRLEAEGLVE 55
>gnl|CDD|32723 COG2898, COG2898, Uncharacterized conserved protein [Function
unknown].
Length = 538
Score = 27.2 bits (60), Expect = 5.7
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 231 GKRRKTLRQSLKRLGGENL---LHQAGIETNLRAENLSIED 268
GKR + LRQ++ R E L + E +I D
Sbjct: 327 GKRMRGLRQAVNRADREGLTFEIVPPDQSPAELDELRAISD 367
>gnl|CDD|144255 pfam00590, TP_methylase, Tetrapyrrole (Corrin/Porphyrin)
Methylases. This family uses S-AdoMet in the
methylation of diverse substrates. This family includes
a related group of bacterial proteins of unknown
function. This family includes the methylase Dipthine
synthase.
Length = 200
Score = 26.9 bits (60), Expect = 5.8
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 54 IGAGPGNLTQMLLTLGARKVI 74
+G GPG+ LLTL A + +
Sbjct: 4 VGIGPGDPE--LLTLRALRAL 22
>gnl|CDD|145054 pfam01700, Orbi_VP3, Orbivirus VP3 (T2) protein. The orbivirus VP3
protein is part of the virus core and makes a 'subcore'
shell made up of 120 copies of the 100K protein. VP3
particles can also bind RNA and are fundamental in the
early stages of viral core formation. Also found in the
family is structural core protein VP2 from broadhaven
virus which is similar to VP3 in bluetongue virus.
Orbivirus are part of the larger reoviridae which have a
dsRNA genome of 10-12 linear segments; orbivirus found
in this family include bluetongue virus and epizootic
hemorrhagic disease virus.
Length = 890
Score = 27.0 bits (60), Expect = 6.3
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 65 LLTLGARKVIVIEKDQQFFPILKDISSQHPNRLEIIQDDALKVDFEKFFNISSPIR 120
+ +KV I + F IL DI + +E+ DAL VD + N+ S +
Sbjct: 114 FYSTILKKVKFIRDEGSF--ILHDIPTHDHRGMEVADPDALGVDVK---NMLSSLT 164
>gnl|CDD|146308 pfam03602, Cons_hypoth95, Conserved hypothetical protein 95.
Length = 181
Score = 26.8 bits (60), Expect = 7.3
Identities = 24/104 (23%), Positives = 39/104 (37%), Gaps = 21/104 (20%)
Query: 44 GSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKD-ISSQHPNRLEIIQD 102
L G V+++ AG G L L+ GA V+ +EKD++ LK+ + + + D
Sbjct: 40 FELGGARVLDLFAGSGALGLEALSRGASSVVFVEKDKKAVATLKENLEALGLEGAVLRMD 99
Query: 103 DALKVDFEKFFNISSPIRIIANLPYNIGTRLLFNWISADTWPPF 146
A L G F+ + D PP+
Sbjct: 100 AARA------------------LLRLAGKGPPFDLVFLD--PPY 123
>gnl|CDD|32702 COG2875, CobM, Precorrin-4 methylase [Coenzyme metabolism].
Length = 254
Score = 26.7 bits (59), Expect = 7.5
Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 50 TVIEIGAGPGNLTQMLLTLGARKVI 74
V IGAGPG+ L+T+ ++++
Sbjct: 4 KVYFIGAGPGDPD--LITVKGQRLL 26
>gnl|CDD|119429 cd05169, PIKKc_TOR, TOR (Target of rapamycin), catalytic domain;
The TOR catalytic domain subfamily is part of a larger
superfamily that includes the catalytic domains of other
kinases such as the typical serine/threonine/tyrosine
protein kinases (PKs), aminoglycoside
phosphotransferase, choline kinase, and RIO kinases. TOR
is a member of the phosphoinositide 3-kinase-related
protein kinase (PIKK) subfamily. PIKKs have intrinsic
serine/threonine kinase activity and are distinguished
from other PKs by their unique catalytic domain, similar
to that of lipid PI3K, and their large molecular weight
(240-470 kDa). TOR contains a rapamycin binding domain,
a catalytic domain, and a FATC (FRAP, ATM and TRRAP,
C-terminal) domain at the C-terminus. It is also called
FRAP (FK506 binding protein 12-rapamycin associated
protein). TOR is a central component of the eukaryotic
growth regulatory network. It controls the expression of
many genes transcribed by all three RNA polymerases. It
associates with other proteins to form two distinct
complexes, TORC1 and TORC2. TORC1 is involved in diverse
growth-related functions including protein synthesis,
nutrient use and transport, autophagy and stress
responses. TORC2 is involved in organizing cytoskeletal
structures..
Length = 280
Score = 26.7 bits (60), Expect = 8.0
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 80 QQFFPILKDISS-QHPNRLEIIQDDALKVDF 109
F P+LK I S Q P RL I+ D + F
Sbjct: 2 SSFDPVLKVIPSKQRPRRLTIVGSDGKEYKF 32
>gnl|CDD|37936 KOG2725, KOG2725, KOG2725, Cytochrome oxidase assembly factor COX15
[Posttranslational modification, protein turnover,
chaperones].
Length = 411
Score = 26.5 bits (58), Expect = 9.0
Identities = 13/46 (28%), Positives = 18/46 (39%)
Query: 131 TRLLFNWISADTWPPFWESLTLLFQKEVGERITAQKNSPHYGRLSV 176
TRL + +S W E Q+E E K SP + L+
Sbjct: 90 TRLTESGLSMVDWKLITEMKPPTSQEEWEEEFEKYKQSPEFKLLNS 135
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.138 0.409
Gapped
Lambda K H
0.267 0.0731 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,440,879
Number of extensions: 182917
Number of successful extensions: 576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 559
Number of HSP's successfully gapped: 51
Length of query: 284
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 191
Effective length of database: 4,254,100
Effective search space: 812533100
Effective search space used: 812533100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)