RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15354
(218 letters)
>gnl|CDD|202430 pfam02845, CUE, CUE domain. CUE domains have been shown to bind
ubiquitin. It has been suggested that CUE domains are
related to pfam00627 and this has been confirmed by the
structure of the domain. CUE domains also occur in two
protein of the IL-1 signal transduction pathway, tollip
and TAB2.
Length = 42
Score = 41.3 bits (98), Expect = 7e-06
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 123 AEAQRIREIFPNIPLNAIVRELGRSHGNAELTISRLIADS 162
+ ++E+FP++ I L S+GN E I L+ S
Sbjct: 3 EMLETLKEMFPDLDEEVIRAVLQASNGNVEAAIDALLEGS 42
>gnl|CDD|214715 smart00546, CUE, Domain that may be involved in binding
ubiquitin-conjugating enzymes (UBCs). CUE domains also
occur in two protein of the IL-1 signal transduction
pathway, tollip and TAB2. Ponting (Biochem. J.)
"Proteins of the Endoplasmic reticulum" (in press).
Length = 43
Score = 35.2 bits (82), Expect = 0.001
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 124 EAQRIREIFPNIPLNAIVRELGRSHGNAELTISRLIADS 162
++E+FPN+ I L + GN E TI+ L+ S
Sbjct: 5 ALHDLKEMFPNLDEEVIEAVLEANTGNVEATINNLLEGS 43
>gnl|CDD|153244 cd06551, LPLAT, Lysophospholipid acyltransferases (LPLATs) of
glycerophospholipid biosynthesis. Lysophospholipid
acyltransferase (LPLAT) superfamily members are
acyltransferases of de novo and remodeling pathways of
glycerophospholipid biosynthesis. These proteins
catalyze the incorporation of an acyl group from either
acylCoAs or acyl-acyl carrier proteins (acylACPs) into
acceptors such as glycerol 3-phosphate, dihydroxyacetone
phosphate or lyso-phosphatidic acid. Included in this
superfamily are LPLATs such as glycerol-3-phosphate
1-acyltransferase (GPAT, PlsB),
1-acyl-sn-glycerol-3-phosphate acyltransferase (AGPAT,
PlsC), lysophosphatidylcholine acyltransferase 1
(LPCAT-1), lysophosphatidylethanolamine acyltransferase
(LPEAT, also known as, MBOAT2, membrane-bound
O-acyltransferase domain-containing protein 2), lipid A
biosynthesis lauroyl/myristoyl acyltransferase,
2-acylglycerol O-acyltransferase (MGAT),
dihydroxyacetone phosphate acyltransferase (DHAPAT, also
known as 1 glycerol-3-phosphate O-acyltransferase 1) and
Tafazzin (the protein product of the Barth syndrome
(TAZ) gene).
Length = 187
Score = 35.5 bits (82), Expect = 0.011
Identities = 14/52 (26%), Positives = 25/52 (48%)
Query: 8 LGLINLGRNTRFSRSTFLSKLKSFLCRTEAPIVLFPEEETTNGKKGLLKFLP 59
LG ++ R++ S + L + L + + + +FPE T K L+F P
Sbjct: 73 LGAFSVDRDSPRSAAKSLKYVARLLSKPGSVVWIFPEGTRTRRDKRPLQFKP 124
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein;
Provisional.
Length = 433
Score = 31.6 bits (73), Expect = 0.26
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 52 KGLLKFLPVMKRAQNETDEDLMSRIEACI 80
LL LP M + + D+ + RIEA I
Sbjct: 347 GSLLGMLPGMGNMKAQLDDKELKRIEAII 375
>gnl|CDD|226636 COG4166, OppA, ABC-type oligopeptide transport system, periplasmic
component [Amino acid transport and metabolism].
Length = 562
Score = 31.2 bits (71), Expect = 0.39
Identities = 24/105 (22%), Positives = 36/105 (34%), Gaps = 17/105 (16%)
Query: 96 KYELEKRLVRALATQNSGARRYDSRMYAEAQRIREIF-PNIPLNAI-----------VRE 143
YEL RL L + A S+ A + + + L I
Sbjct: 386 GYELGGRLNLTL-KLLTSAGWKGSQHKNIATGLPFQWEKLLGLAKIGIKLVIREVKTQYT 444
Query: 144 LGRSHGNAELTISRLIAD----SSFQNLSFNSSSSFNQSPSPSSP 184
G+ ++ +S AD S F L F SSS+ N + +P
Sbjct: 445 KRLQSGDFDMILSGWGADYNDPSEFLRLFFTSSSADNNAAGYKNP 489
>gnl|CDD|153253 cd07991, LPLAT_LPCAT1-like, Lysophospholipid Acyltransferases
(LPLATs) of Glycerophospholipid Biosynthesis:
LPCAT1-like. Lysophospholipid acyltransferase (LPLAT)
superfamily member: acyltransferases of de novo and
remodeling pathways of glycerophospholipid biosynthesis
which catalyze the incorporation of an acyl group from
either acylCoAs or acyl-acyl carrier proteins (acylACPs)
into acceptors such as glycerol 3-phosphate,
dihydroxyacetone phosphate or lyso-phosphatidic acid.
Included in this subgroup are such LPLATs as
lysophosphatidylcholine acyltransferase 1 (LPCAT-1),
glycerol-3-phosphate acyltransferase 3 (GPAT3), and
similar sequences.
Length = 211
Score = 30.7 bits (70), Expect = 0.40
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 38 PIVLFPEEETTNGKKGLLKF 57
PI++FPE TTNG K L+ F
Sbjct: 99 PILIFPEGTTTNG-KALIMF 117
>gnl|CDD|239539 cd03455, SAV4209, SAV4209 is a Streptomyces avermitilis protein
with a hot dog fold that is similar to those of
(R)-specific enoyl-CoA hydratase, the peroxisomal
Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the
fatty acid synthase beta subunit. The alpha- and
gamma-proteobacterial members of this CD have, in
addition to a hot dog fold, an N-terminal extension.
Length = 123
Score = 29.2 bits (66), Expect = 0.67
Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 12/81 (14%)
Query: 97 YELEKRLVRALATQNSGARR------YDSRMYAEAQRIREIFPNIPL-NAIVRELGRSHG 149
L L + S A R +D R YA A +++ N P +V
Sbjct: 5 PRLSIPPDPTLLFRYSAATRDFHRIHHD-RDYARAVGYPDLYVNGPTLAGLVIRYVTDWA 63
Query: 150 NAELTISRLIADSSFQNLSFN 170
+ + +F+ +
Sbjct: 64 GPDARVKSF----AFRLGAPL 80
>gnl|CDD|162820 TIGR02356, adenyl_thiF, thiazole biosynthesis adenylyltransferase
ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF
family of proteins (pfam00899) include a number of
members encoded in the midst of thiamine biosynthetic
operons. This mix of known and putative ThiF proteins
shows a deep split in phylogenetic trees, with the
Escherichia. coli ThiF and the E. coli MoeB proteins
seemingly more closely related than E. coli ThiF and
Campylobacter (for example) ThiF. This model represents
the more widely distributed clade of ThiF proteins such
found in E. coli [Biosynthesis of cofactors, prosthetic
groups, and carriers, Thiamine].
Length = 202
Score = 29.6 bits (67), Expect = 1.0
Identities = 9/41 (21%), Positives = 19/41 (46%)
Query: 123 AEAQRIREIFPNIPLNAIVRELGRSHGNAELTISRLIADSS 163
AQR+RE+ +I + A+ + + + L+ D +
Sbjct: 79 VAAQRLRELNSDIQVTALKERVTAENLELLINNVDLVLDCT 119
>gnl|CDD|237563 PRK13928, PRK13928, rod shape-determining protein Mbl; Provisional.
Length = 336
Score = 29.1 bits (66), Expect = 1.8
Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 91 CTPSEKYELEKRLVRALATQNSGARR 116
C P+ +EKR VR A + +GA++
Sbjct: 101 CIPTGITSVEKRAVRE-AAEQAGAKK 125
>gnl|CDD|220401 pfam09786, CytochromB561_N, Cytochrome B561, N terminal. Members
of this family are found in the N terminal region of
cytochrome B561, as well as in various other putative
uncharacterized proteins.
Length = 559
Score = 29.0 bits (65), Expect = 2.2
Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 8/55 (14%)
Query: 167 LSFNSSSSFNQSPSPSSPSTPQFNASP---HNRMSAFAEK----KAQFIAEARRR 214
S SS QSPS SS P N+S + R S +A + K + +
Sbjct: 172 NKPASPSSSYQSPSYSSSLGP-VNSSGNRSNLRSSPWALRSSGDKKDITTDEKYL 225
>gnl|CDD|238878 cd01840, SGNH_hydrolase_yrhL_like, yrhL-like subfamily of
SGNH-hydrolases, a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases. Most members of
this sub-family appear to co-occur with N-terminal
acyltransferase domains. Might be involved in lipid
metabolism.
Length = 150
Score = 28.0 bits (63), Expect = 2.4
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 118 DSRMYAEAQRIREIFPNIPLNAIVRELGRSHGNA 151
DS M + ++EIFPNI ++A V GR A
Sbjct: 7 DSVMLDSSPALQEIFPNIQIDAKV---GRQMSEA 37
>gnl|CDD|236375 PRK09078, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 598
Score = 28.8 bits (65), Expect = 2.4
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 95 EKYELEKRLVRALATQNSGARRYDSRMYAEAQRIREIFPN 134
E EL+ + +A+ T S R +SR A A RE FP+
Sbjct: 517 ETLELDNLMAQAVVTMESAENRKESRG-AHA---REDFPD 552
>gnl|CDD|115385 pfam06723, MreB_Mbl, MreB/Mbl protein. This family consists of
bacterial MreB and Mbl proteins as well as two related
archaeal sequences. MreB is known to be a rod
shape-determining protein in bacteria and goes to make
up the bacterial cytoskeleton. Genes coding for MreB/Mbl
are only found in elongated bacteria, not in coccoid
forms. It has been speculated that constituents of the
eukaryotic cytoskeleton (tubulin, actin) may have
evolved from prokaryotic precursor proteins closely
related to today's bacterial proteins FtsZ and MreB/Mbl.
Length = 327
Score = 28.3 bits (64), Expect = 2.8
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 90 LCTPSEKYELEKRLVRALATQNSGARR 116
+C PS E+E+R V+ A +N+GAR
Sbjct: 98 ICVPSGITEVERRAVKE-AAKNAGARE 123
>gnl|CDD|232805 TIGR00065, ftsZ, cell division protein FtsZ. This family consists
of cell division protein FtsZ, a GTPase found in
bacteria, the chloroplast of plants, and in
archaebacteria. Structurally similar to tubulin, FtsZ
undergoes GTP-dependent polymerization into filaments
that form a cytoskeleton involved in septum synthesis
[Cellular processes, Cell division].
Length = 349
Score = 28.4 bits (64), Expect = 2.9
Identities = 19/74 (25%), Positives = 30/74 (40%)
Query: 96 KYELEKRLVRALATQNSGARRYDSRMYAEAQRIREIFPNIPLNAIVRELGRSHGNAELTI 155
K+E KR +A + D+ + ++ E+ PN+PLN + A I
Sbjct: 143 KFEGLKRRKKAEEGLERLKQAVDTLIVIPNDKLLEVVPNLPLNDAFKVADDVLVRAVKGI 202
Query: 156 SRLIADSSFQNLSF 169
S LI N+ F
Sbjct: 203 SELITKPGLINIDF 216
>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau;
Validated.
Length = 451
Score = 28.2 bits (63), Expect = 3.5
Identities = 18/84 (21%), Positives = 30/84 (35%), Gaps = 7/84 (8%)
Query: 125 AQRIRE-IFPNIPLNAIVRELGRSHGNAELTISRL---IADSSFQNLSF-NSSSSFNQSP 179
A+ I+ IF L ++ L R + T+S+L I +F L + S
Sbjct: 326 AKHIQLTIFEKTFLETVIIHLIRIY--QRPTLSQLVSQIKSPAFTQLRLESCPPQIKSSN 383
Query: 180 SPSSPSTPQFNASPHNRMSAFAEK 203
S + S+PQ +
Sbjct: 384 SQQTVSSPQPQPVAKLEQGSLLTA 407
>gnl|CDD|173868 cd08503, PBP2_NikA_DppA_OppA_like_17, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 460
Score = 27.9 bits (63), Expect = 4.0
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 98 ELEKRLVRALATQNSGARRYDSRMYAEAQRI 128
E + L A A + R+ +YAE Q+I
Sbjct: 407 EFDALLDAARAELDEAKRK---ELYAEMQQI 434
>gnl|CDD|233044 TIGR00600, rad2, DNA excision repair protein (rad2). All proteins
in this family for which functions are known are flap
endonucleases that generate the 3' incision next to DNA
damage as part of nucleotide excision repair. This
family is related to many other flap endonuclease
families including the fen1 family. This family is based
on the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 1034
Score = 28.3 bits (63), Expect = 4.1
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 161 DSSFQNLSFNSSSSFNQSPSPSSPSTPQFNASPHNRMSAFAEKKAQFI 208
D SF + SS+ Q PS S P+ + + S E + +
Sbjct: 657 DGSFIEVDSVSSTLELQVPSKSQPTDESEENAENKVASIEGEHRKEIE 704
>gnl|CDD|240276 PTZ00115, PTZ00115, 40S ribosomal protein S12; Provisional.
Length = 290
Score = 27.9 bits (62), Expect = 4.1
Identities = 23/88 (26%), Positives = 32/88 (36%), Gaps = 12/88 (13%)
Query: 128 IREIFPNIPLNAIVREL--GRSHGNAELTIS----RLIADSSFQNLSF------NSSSSF 175
NI LN I+ R + + S I SSF +L N SSF
Sbjct: 5 SVNRQSNIRLNFIIPTFACSRPPIGSSNSFSFRRFGSIPSSSFNSLRSGPSGEDNFPSSF 64
Query: 176 NQSPSPSSPSTPQFNASPHNRMSAFAEK 203
+ PSP S + S N + F+ +
Sbjct: 65 SSIPSPLSHFSKLPQPSNINAVRQFSTR 92
>gnl|CDD|214740 smart00602, VPS10, VPS10 domain.
Length = 612
Score = 28.1 bits (63), Expect = 4.4
Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 127 RIREIFPNIPLNAIVRELGRSHGNAELTISRLIADSSFQNLSFNSSSSFNQSPSPSSPST 186
+I EI + ++ + S N TI L+ F +S + SF + P P
Sbjct: 24 KIDEIEGV-IIETVISDFFNSSANKFKTI--LVKGYIF--ISSDEGKSFQKFTLPFPPLP 78
Query: 187 PQFNASPH 194
H
Sbjct: 79 SLLYHPKH 86
>gnl|CDD|219457 pfam07534, TLD, TLD. This domain is predicted to be an enzyme and
is often found associated with pfam01476.
Length = 136
Score = 26.8 bits (60), Expect = 4.9
Identities = 8/36 (22%), Positives = 11/36 (30%), Gaps = 2/36 (5%)
Query: 157 RLIADSSFQNLSFNSSSSFNQSPSPSSPSTPQFNAS 192
L DS + +F P S S +F
Sbjct: 95 ALWIDSDLEFGYSRHCGTFG--NPPLSGSQERFKIL 128
>gnl|CDD|240550 cd13145, MATE_like_5, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 440
Score = 27.6 bits (62), Expect = 5.1
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 8/29 (27%)
Query: 104 VRALATQNSGARRYDSRMYAEAQRIREIF 132
V ++A QN GA++YD R+RE +
Sbjct: 293 VLSIAGQNFGAKKYD--------RVRETY 313
>gnl|CDD|117609 pfam09043, Lys-AminoMut_A, D-Lysine 5,6-aminomutase alpha subunit.
Members of his family are involved in the 1,2
rearrangement of the terminal amino group of DL-lysine
and of L-beta-lysine, using adenosylcobalamin (AdoCbl)
and pyridoxal-5'-phosphate as cofactors. The structure
is predominantly a PLP-binding TIM barrel domain, with
several additional alpha-helices and beta-strands at the
N and C termini. These helices and strands form an
intertwined accessory clamp structure that wraps around
the sides of the TIM barrel and extends up toward the
Ado ligand of the Cbl cofactor, providing most of the
interactions observed between the protein and the Ado
ligand of the Cbl, suggesting that its role is mainly in
stabilising AdoCbl in the precatalytic resting state.
Length = 509
Score = 27.0 bits (60), Expect = 8.1
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 123 AEAQRIREIFPNIPL 137
A+AQ +REIFP PL
Sbjct: 351 AQAQMVREIFPKAPL 365
>gnl|CDD|238386 cd00757, ThiF_MoeB_HesA_family, ThiF_MoeB_HesA. Family of E1-like
enzymes involved in molybdopterin and thiamine
biosynthesis family. The common reaction mechanism
catalyzed by MoeB and ThiF, like other E1 enzymes,
begins with a nucleophilic attack of the C-terminal
carboxylate of MoaD and ThiS, respectively, on the
alpha-phosphate of an ATP molecule bound at the active
site of the activating enzymes, leading to the formation
of a high-energy acyladenylate intermediate and
subsequently to the formation of a thiocarboxylate at
the C termini of MoaD and ThiS. MoeB, as the MPT
synthase (MoaE/MoaD complex) sulfurase, is involved in
the biosynthesis of the molybdenum cofactor, a
derivative of the tricyclic pterin, molybdopterin (MPT).
ThiF catalyzes the adenylation of ThiS, as part of the
biosynthesis pathway of thiamin pyrophosphate (vitamin
B1). .
Length = 228
Score = 26.7 bits (60), Expect = 8.8
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 125 AQRIREIFPNIPLNAIVRELGRSHGNAELTISR--LIAD 161
A+R+R I P++ + A L NAE I+ L+ D
Sbjct: 81 AERLRAINPDVEIEAYNERLDAE--NAEELIAGYDLVLD 117
>gnl|CDD|214948 smart00975, Telomerase_RBD, Telomerase ribonucleoprotein complex
- RNA binding domain. Telomeres in most organisms are
comprised of tandem simple sequence repeats. The total
length of telomeric repeat sequence at each chromosome
end is determined in a balance of sequence loss and
sequence addition. One major influence on telomere
length is the enzyme telomerase. It is a reverse
transcriptase that adds these simple sequence repeats
to chromosome ends by copying a template sequence
within the RNA component of the enzyme. The RNA binding
domain of telomerase - TRBD - is made up of twelve
alpha helices and two short beta sheets. How telomerase
and associated regulatory factors physically interact
and function with each other to maintain appropriate
telomere length is poorly understood. It is known
however that TRBD is involved in formation of the
holoenzyme (which performs the telomere extension) in
addition to recognition and binding of RNA.
Length = 136
Score = 26.1 bits (58), Expect = 9.1
Identities = 10/53 (18%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 10 LINLGRNTRFSRSTFLSKLK----SFLCRTEAPIVLFPEEETTNGKKGLLKFL 58
++LGRN +FS + ++ +L ++ + E ++ L +F+
Sbjct: 35 FLSLGRNEKFSLQELMWGIRVSDIPWLAGSKTTTQRVSKSEHEKRQELLAQFV 87
>gnl|CDD|233820 TIGR02320, PEP_mutase, phosphoenolpyruvate phosphomutase. This
family consists of examples of phosphoenolpyruvate
phosphomutase, an enzyme that creates a C-P bond as the
first step in the biosynthesis of natural products
including antibiotics like bialaphos and
phosphonothricin in Streptomyces species,
phosphonate-modified molecules such as the
polysaccharide B of Bacteroides fragilis, the
phosphonolipids of Tetrahymena pyroformis, the
glycosylinositolphospholipids of Trypanosoma cruzi. This
gene generally occurs in prokaryotic organisms adjacent
to the gene for phosphonopyruvate decarboxylase (aepY).
Since the PEP phosphomutase reaction favors the
substrate PEP energetically, the decarboxylase is
required to drive the reaction in the direction of
phosphonate production. Most often an aminotansferase
(aepZ) is also present which leads to the production of
the most common phosphonate compound,
2-aminoethylphosphonate (AEP). A closely related enzyme,
phosphonopyruvate hydrolase from Variovorax sp. Pal2, is
excluded from this model.
Length = 285
Score = 26.9 bits (60), Expect = 9.3
Identities = 25/88 (28%), Positives = 34/88 (38%), Gaps = 26/88 (29%)
Query: 60 VMKRAQNETDEDLM--SRIEACIACEGRLSPTLCTPSEKYELEKRLVRALATQNSGA--- 114
K AQ T ED M +R+E+ I +E L RA A +GA
Sbjct: 143 AGKDAQ--TTEDFMIIARVESLIL--------------GKGMEDALKRAEAYAEAGADGI 186
Query: 115 ----RRYD-SRMYAEAQRIREIFPNIPL 137
R+ D + A+R R +P PL
Sbjct: 187 MIHSRKKDPDEILEFARRFRNHYPRTPL 214
>gnl|CDD|184630 PRK14334, PRK14334, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 440
Score = 27.1 bits (60), Expect = 9.4
Identities = 30/112 (26%), Positives = 46/112 (41%), Gaps = 19/112 (16%)
Query: 114 ARRYDSRMYAEAQRIREIFPNIP-----LNAIVRELGRSHGNAELTISRLIADSSFQNLS 168
AR Y Y E RI EI +P + IV G + + + T+S + +
Sbjct: 266 AREYRREKYLE--RIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSL------YDEVG 317
Query: 169 FNSSSSFNQSPSPSSPSTPQFNASPH----NRMSAFAEKKAQFIAEARRRAA 216
++S+ F SP P +PS F P R+ EK+ ++ RR A
Sbjct: 318 YDSAYMFIYSPRPGTPSYKHFQDLPREVKTERLQRLIEKQKEW--SYRRNAR 367
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific transcription-initiation
factor. RNA polymerase I-specific
transcription-initiation factor Rrn6 and Rrn7 represent
components of a multisubunit transcription factor
essential for the initiation of rDNA transcription by
Pol I. These proteins are found in fungi.
Length = 753
Score = 27.0 bits (60), Expect = 10.0
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 156 SRLIADSSFQNLSFNSSSSFNQSPSPSSPSTPQFNASPHNRMSAFAEKK 204
S+ S +L +SS +F+ S P S + S S +KK
Sbjct: 700 SQPPTSQSSSDLPPSSSQAFSLSDLPMQ-SQSESGLSGGRSASKKKKKK 747
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
0.317 0.130 0.365
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,925,422
Number of extensions: 1002847
Number of successful extensions: 1073
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1070
Number of HSP's successfully gapped: 48
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
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 (21.7 bits)
S2: 57 (25.7 bits)