RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5654
(224 letters)
>gnl|CDD|99851 cd06148, Egl_like_exo, DEDDy 3'-5' exonuclease domain of Drosophila
Egalitarian (Egl) and similar proteins. The Egalitarian
(Egl) protein subfamily is composed of Drosophila Egl
and similar proteins. Egl is a component of an
mRNA-binding complex which is required for oocyte
specification. Egl contains a DEDDy-type DnaQ-like 3'-5'
exonuclease domain possessing three conserved sequence
motifs termed ExoI, ExoII and ExoIII, with a specific
YX(3)D pattern at ExoIII. The motifs are clustered
around the active site and contain four conserved acidic
residues that serve as ligands for the two metal ions
required for catalysis. The conservation of this
subfamily throughout eukaryotes suggests that its
members may be part of ancient RNA processing complexes
that are likely to participate in the regulated
processing of specific mRNAs. Some members of this
subfamily do not have a completely conserved YX(3)D
pattern at the ExoIII motif.
Length = 197
Score = 127 bits (320), Expect = 1e-36
Identities = 42/92 (45%), Positives = 62/92 (67%)
Query: 129 VEELMRNELVTFDCEGINPGIKGQITLFSLGLLSGQVYIFDLVTCPEVVGTGGLSKLLES 188
+ L + +++ DCEG+N G KG++ L + +GQ+Y+FD++ +V GL +LES
Sbjct: 4 IIHLKKQKVIGLDCEGVNLGRKGKLCLVQIATRTGQIYLFDILKLGSIVFINGLKDILES 63
Query: 189 ENVIKVIHDCRNDSILLYEQFGITLRNVFDTQ 220
+ ++KVIHDCR DS LY Q+GI L NVFDTQ
Sbjct: 64 KKILKVIHDCRRDSDALYHQYGIKLNNVFDTQ 95
>gnl|CDD|214681 smart00474, 35EXOc, 3'-5' exonuclease. 3\' -5' exonuclease
proofreading domain present in DNA polymerase I, Werner
syndrome helicase, RNase D and other enzymes.
Length = 172
Score = 74.3 bits (183), Expect = 1e-16
Identities = 30/107 (28%), Positives = 50/107 (46%), Gaps = 5/107 (4%)
Query: 118 VITNIKECSSVVEELMRNEL-VTFDCEGINPGIK-GQITLFSLGLLSGQVYIFDLVTCPE 175
V+T+ + ++E+L V D E G++ L + + +I D + +
Sbjct: 3 VVTDSETLEELLEKLRAAGGEVALDTETTGLDSYSGKLVLIQISVTGEGAFIIDPLALGD 62
Query: 176 VVGTGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQLL 222
+ L LLE E + KV H+ + D +L +FGI L N+FDT L
Sbjct: 63 DLE--ILKDLLEDETITKVGHNAKFDLHVLA-RFGIELENIFDTMLA 106
>gnl|CDD|176654 cd06142, RNaseD_exo, DEDDy 3'-5' exonuclease domain of Ribonuclease
D and similar proteins. Ribonuclease (RNase) D is a
bacterial enzyme involved in the maturation of small
stable RNAs and the 3' maturation of tRNA. It contains a
DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing
three conserved sequence motifs termed ExoI, ExoII and
ExoIII, with a specific YX(3)D pattern at ExoIII. These
motifs are clustered around the active site and contain
four conserved acidic residues that serve as ligands for
the two metal ions required for catalysis. In vivo,
RNase D only becomes essential upon removal of other
ribonucleases. Eukaryotic RNase D homologs include yeast
Rrp6p, human PM/Scl-100, and the Drosophila melanogaster
egalitarian protein.
Length = 178
Score = 69.1 bits (170), Expect = 1e-14
Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 13/99 (13%)
Query: 128 VVEELMRNELVTFDCEGINPGIKGQITLFS-LGLL----SGQVYIFDLVTCPEVVGTGGL 182
+ E L ++ D E + T + L L+ G+VY+ D + + L
Sbjct: 5 LCERLASAGVIAVDTEFM-----RLNTYYPRLCLIQISTGGEVYLIDPLAIGD---LSPL 56
Query: 183 SKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQL 221
+LL N++KV H R D LL FGI +N+FDTQ+
Sbjct: 57 KELLADPNIVKVFHAAREDLELLKRDFGILPQNLFDTQI 95
>gnl|CDD|216604 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease. This domain is
responsible for the 3'-5' exonuclease proofreading
activity of E. coli DNA polymerase I (polI) and other
enzymes, it catalyzes the hydrolysis of unpaired or
mismatched nucleotides. This domain consists of the
amino-terminal half of the Klenow fragment in E. coli
polI it is also found in the Werner syndrome helicase
(WRN), focus forming activity 1 protein (FFA-1) and
ribonuclease D (RNase D). Werner syndrome is a human
genetic disorder causing premature aging; the WRN
protein has helicase activity in the 3'-5' direction.
The FFA-1 protein is required for formation of a
replication foci and also has helicase activity; it is a
homologue of the WRN protein. RNase D is a 3'-5'
exonuclease involved in tRNA processing. Also found in
this family is the autoantigen PM/Scl thought to be
involved in polymyositis-scleroderma overlap syndrome.
Length = 172
Score = 65.4 bits (160), Expect = 2e-13
Identities = 33/106 (31%), Positives = 50/106 (47%), Gaps = 6/106 (5%)
Query: 119 ITNIKECSSVVEELMRNELVTFDCEGIN---PGIKGQITLFSLGLLSGQVYIFDLVTCPE 175
+T E ++EEL+ ++V D E + L + G YI D + +
Sbjct: 4 VTTEDELEDLIEELLNAKVVAVDTETTSLDTYSYTLVGCLIQISTGEG-AYIIDPLALGD 62
Query: 176 VVGTGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQL 221
+ GL +LLE N+ KV H+ + D +L FGI L N+FDT L
Sbjct: 63 DLE--GLKRLLEDPNITKVGHNAKFDLEVLARDFGIKLENLFDTML 106
>gnl|CDD|176653 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain of WRN and similar
proteins. WRN is a unique RecQ DNA helicase exhibiting
an exonuclease activity. It contains a DEDDy-type
DnaQ-like 3'-5' exonuclease domain possessing three
conserved sequence motifs termed ExoI, ExoII and ExoIII,
with a specific YX(3)D pattern at ExoIII. These motifs
are clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. Mutations in the
WRN gene cause Werner syndrome, an autosomal recessive
disorder associated with premature aging and increased
susceptibility to cancer and type II diabetes. WRN
interacts with key proteins involved in DNA replication,
recombination, and repair. It is believed to maintain
genomic stability and life span by participating in DNA
processes. WRN is stimulated by Ku70/80, an important
regulator of genomic stability.
Length = 170
Score = 51.8 bits (125), Expect = 2e-08
Identities = 29/108 (26%), Positives = 48/108 (44%), Gaps = 5/108 (4%)
Query: 119 ITNIKECSSVVEELMRNELVT-FDCEGINPGIKGQITLFSLGLLS--GQVYIFDLVTCPE 175
+ ++ V+EL+ E V FD E KG+ +L L+ + +F L +
Sbjct: 1 TDSAQDAEEAVKELLGKEKVVGFDTEWRPSFRKGKRNKVALLQLATESRCLLFQLAHMDK 60
Query: 176 VVGTGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQLLF 223
+ L +LLE +++KV + D+ L FGI +R V D L
Sbjct: 61 L--PPSLKQLLEDPSILKVGVGIKGDARKLARDFGIEVRGVVDLSHLA 106
>gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional.
Length = 880
Score = 53.6 bits (130), Expect = 2e-08
Identities = 28/109 (25%), Positives = 49/109 (44%), Gaps = 6/109 (5%)
Query: 117 KVITNIKECSSVVEELMRNELVTFDCE--GINPGIKGQITLFSLGLLSGQVYIFDLVTCP 174
+ I + +E + + +L L FD E ++P ++ ++ S + G+ L
Sbjct: 297 ETILDEEELEAWLAKLKAAGLFAFDTETTSLDP-MQAELVGLSFAVEPGEAAYIPLDQLD 355
Query: 175 EVVGTGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNV-FDTQLL 222
V L LLE + KV + + D +L ++GI LR + FDT L
Sbjct: 356 REV-LAALKPLLEDPAIKKVGQNLKYDLHVLA-RYGIELRGIAFDTMLA 402
>gnl|CDD|223426 COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and
biogenesis].
Length = 361
Score = 48.4 bits (116), Expect = 8e-07
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 182 LSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQL 221
L LL NV+K+ H R D +L FG+ +FDTQ+
Sbjct: 62 LVALLADPNVVKIFHAARFDLEVLLNLFGLLPTPLFDTQI 101
>gnl|CDD|130455 TIGR01388, rnd, ribonuclease D. This model describes ribonuclease
D, a 3'-exonuclease shown to act on tRNA both in vitro
and when overexpressed in vivo. Trusted members of this
family are restricted to the Proteobacteria; Aquifex,
Mycobacterial, and eukaryotic homologs are not
full-length homologs. Ribonuclease D is not essential in
E. coli and is deleterious when overexpressed. Its
precise biological role is still unknown [Transcription,
RNA processing].
Length = 367
Score = 44.0 bits (104), Expect = 2e-05
Identities = 31/110 (28%), Positives = 48/110 (43%), Gaps = 13/110 (11%)
Query: 118 VITNIKECSSVVEELMRNELVTFDCEGINPGIKGQITLF--SLGLLSGQVYIFD--LVTC 173
IT E ++V E + V D E + + F LGL+ QV + +
Sbjct: 1 WITTDDELATVCEAVRTFPFVALDTEFV------RERTFWPQLGLI--QVADGEQLALID 52
Query: 174 PEVVG-TGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQLL 222
P V+ L +LL E+V+KV+H D + FG + +FDTQ+
Sbjct: 53 PLVIIDWSPLKELLRDESVVKVLHAASEDLEVFLNLFGELPQPLFDTQIA 102
>gnl|CDD|176652 cd06140, DNA_polA_I_Bacillus_like_exo, inactive DEDDy 3'-5'
exonuclease domain of Bacillus stearothermophilus DNA
polymerase I and similar family-A DNA polymerases.
Bacillus stearothermophilus-like Polymerase I (Pol I), a
subgroup of the family-A DNA polymerases, contains an
inactive DnaQ-like 3'-5' exonuclease domain in the same
polypeptide chain as the polymerase region. The
exonuclease-like domain of these proteins possess the
same fold as the Klenow fragment (KF) of Escherichia
coli Pol I, but does not contain the four critical
metal-binding residues necessary for activity. The
function of this domain is unknown. It might act as a
spacer between the polymerase and the 5'-3' exonuclease
domains. Some members of this subgroup, such as those
from Bacillus sphaericus and Thermus aquaticus, are
thermostable DNA polymerases.
Length = 178
Score = 43.0 bits (102), Expect = 3e-05
Identities = 24/85 (28%), Positives = 32/85 (37%), Gaps = 6/85 (7%)
Query: 138 VTFDCEGINPGIKGQITLFSLGLLSGQVYIFDLVTCPEVVGTGGLSKLLESENVIKVIHD 197
+ + G N I +L G Y L L + LE E + KV HD
Sbjct: 8 LYVELLGENYH-TADIIGLALAN-GGGAYYIPLELALLD--LAALKEWLEDEKIPKVGHD 63
Query: 198 CRNDSILLYEQFGITLRNV-FDTQL 221
+ + L + GI L V FDT L
Sbjct: 64 AKRAYVALK-RHGIELAGVAFDTML 87
>gnl|CDD|176651 cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' exonuclease domain
of Escherichia coli DNA polymerase I and similar
bacterial family-A DNA polymerases. Escherichia
coli-like Polymerase I (Pol I), a subgroup of family-A
DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5'
exonuclease domain in the same polypeptide chain as the
polymerase domain. The exonuclease domain contains three
conserved sequence motifs termed ExoI, ExoII and ExoIII,
with a specific YX(3)D pattern at ExoIII. These motifs
are clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. The 3'-5'
exonuclease domain of DNA polymerases has a fundamental
role in reducing polymerase errors and is involved in
proofreading activity. E. coli DNA Pol I is involved in
genome replication but is not the main replicating
enzyme. It is also implicated in DNA repair.
Length = 193
Score = 39.8 bits (94), Expect = 4e-04
Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 17/104 (16%)
Query: 131 ELMRNELVTFDCE--GINPGIKGQITLFSLGLLSGQVYIFDLVTCPEVVGTGGLSK---- 184
EL + ++ FD E ++P + ++ S + G+ Y L G L +
Sbjct: 1 ELEKAKVFAFDTETTSLDPM-QAELVGISFAVEPGEAYYIPL---GHDYGGEQLPREEVL 56
Query: 185 -----LLESENVIKVIHDCRNDSILLYEQFGITLRNV-FDTQLL 222
LLE ++ KV + + D +L GI LR FDT L
Sbjct: 57 AALKPLLEDPSIKKVGQNLKFDLHVLANH-GIELRGPAFDTMLA 99
>gnl|CDD|176650 cd06129, RNaseD_like, DEDDy 3'-5' exonuclease domain of RNase D,
WRN, and similar proteins. The RNase D-like group is
composed of RNase D, WRN, and similar proteins. They
contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease
domain that contains three conserved sequence motifs
termed ExoI, ExoII and ExoIII, with a specific YX(3)D
pattern at ExoIII. These motifs are clustered around the
active site and contain four conserved acidic residues
that serve as ligands for the two metal ions required
for catalysis. RNase D is involved in the 3'-end
processing of tRNA precursors. RNase D-like proteins in
eukaryotes include yeast Rrp6p, human PM/Scl-100 and
Drosophila melanogaster egalitarian (Egl) protein. WRN
is a unique DNA helicase possessing exonuclease
activity. Mutation in the WRN gene is implicated in
Werner syndrome, a disease associated with premature
aging and increased predisposition to cancer. Yeast
Rrp6p and the human Polymyositis/scleroderma autoantigen
100kDa (PM/Scl-100) are exosome-associated proteins
involved in the degradation and processing of precursors
to stable RNAs. Egl is a component of an mRNA-binding
complex which is required for oocyte specification. The
Egl subfamily does not possess a completely conserved
YX(3)D pattern at the ExoIII motif.
Length = 161
Score = 36.7 bits (85), Expect = 0.003
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 6/102 (5%)
Query: 124 ECSSVVEEL-MRNELVTFDCEGINPGIK--GQITLFSLGLLSGQVYIFDLVTCPEVVGTG 180
SS+ E+L M +++ FD E PG + G++ L L + + Y+FD V
Sbjct: 1 ALSSLCEDLSMDGDVIAFDMEWP-PGRRYYGEVALIQLCVSEEKCYLFD--PLSLSVDWQ 57
Query: 181 GLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQLL 222
GL LLE+ +++K +H D L FG L+ +FDT +
Sbjct: 58 GLKMLLENPSIVKALHGIEGDLWKLLRDFGEKLQRLFDTTIA 99
>gnl|CDD|176656 cd09018, DEDDy_polA_RNaseD_like_exo, DEDDy 3'-5' exonuclease domain
of family-A DNA polymerases, RNase D, WRN, and similar
proteins. DEDDy exonucleases, part of the DnaQ-like (or
DEDD) exonuclease superfamily, catalyze the excision of
nucleoside monophosphates at the DNA or RNA termini in
the 3'-5' direction. They contain four invariant acidic
residues in three conserved sequence motifs termed ExoI,
ExoII and ExoIII. DEDDy exonucleases are classified as
such because of the presence of a specific YX(3)D
pattern at ExoIII. The four conserved acidic residues
serve as ligands for the two metal ions required for
catalysis. This family of DEDDy exonucleases includes
the proofreading domains of family A DNA polymerases, as
well as RNases such as RNase D and yeast Rrp6p. The
Egalitarian (Egl) and Bacillus-like DNA Polymerase I
subfamilies do not possess a completely conserved YX(3)D
pattern at the ExoIII motif. In addition, the
Bacillus-like DNA polymerase I subfamily has inactive
3'-5' exonuclease domains which do not possess the
metal-binding residues necessary for activity.
Length = 150
Score = 36.8 bits (85), Expect = 0.003
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 2/74 (2%)
Query: 149 IKGQITLFSLGLLSGQVYIFDLVTCPEVVGTGGLSKLLESENVIKVIHDCRNDSILLYEQ 208
I + L L + G + + + + L LLE E +KV + + D +L
Sbjct: 14 ISANLVLIQLAIEPGVAALIPVAH--DYLALELLKPLLEDEKALKVGQNLKYDRGILLNY 71
Query: 209 FGITLRNVFDTQLL 222
F FDT L
Sbjct: 72 FIELRGIAFDTMLE 85
>gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase
domains [DNA replication, recombination, and repair].
Length = 593
Score = 37.2 bits (87), Expect = 0.005
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 4/106 (3%)
Query: 119 ITNIKECSSVVEELMRNELVTFDCE--GINPGIKGQITLFSLGLLSGQVYIFDLVTCPEV 176
IT++ ++ + +L + FD E G++P + S+ YI L ++
Sbjct: 6 ITDLAVLNAWLTKLNAAANIAFDTETDGLDPHG-ADLVGLSVASEEEAAYIPLLHGPEQL 64
Query: 177 VGTGGLSKLLESENVIKVIHDCRNDSILLYEQFGITLRNVFDTQLL 222
L LLE E + KV + + D +L GI FDT L
Sbjct: 65 NVLAALKPLLEDEGIKKVGQNLKYDYKVLANL-GIEPGVAFDTMLA 109
>gnl|CDD|99850 cd06147, Rrp6p_like_exo, DEDDy 3'-5' exonuclease domain of yeast
Rrp6p, human polymyositis/scleroderma autoantigen
100kDa, and similar proteins. Yeast Rrp6p and its human
homolog, the polymyositis/scleroderma autoantigen 100kDa
(PM/Scl-100), are exosome-associated proteins involved
in the degradation and processing of precursors to
stable RNAs. Both proteins contain a DEDDy-type
DnaQ-like 3'-5' exonuclease domain possessing three
conserved sequence motifs termed ExoI, ExoII and ExoIII,
with a specific YX(3)D pattern at ExoIII. The motifs are
clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. PM/Scl-100, an
autoantigen present in the nucleolar compartment of the
cell, reacts with autoantibodies produced by about 50%
of patients with polymyositis-scleroderma overlap
syndrome.
Length = 192
Score = 34.5 bits (80), Expect = 0.024
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 190 NVIKVIHDCRNDSILLYEQFGITLRNVFDT 219
N++KV H +D I L FG+ + N+FDT
Sbjct: 77 NILKVFHGADSDIIWLQRDFGLYVVNLFDT 106
>gnl|CDD|217456 pfam03254, XG_FTase, Xyloglucan fucosyltransferase. Plant cell
walls are crucial for development, signal transduction,
and disease resistance in plants. Cell walls are made of
cellulose, hemicelluloses, and pectins. Xyloglucan (XG),
the principal load-bearing hemicellulose of
dicotyledonous plants, has a terminal fucosyl residue.
This fucosyltransferase adds this residue.
Length = 473
Score = 34.5 bits (80), Expect = 0.031
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 32 GKVLKNNAINLTQIPLSPPESKANLTHSSPPAS-LA---QNQTFKQRFNSLVLKT 82
G +LKN IN + + PP +L H L +Q+ ++ L+LK+
Sbjct: 185 GNMLKNKVINSSSVSSLPPFLYLHLDHDYTDHDKLFFCDDDQSLLRKVPWLILKS 239
>gnl|CDD|140351 PTZ00330, PTZ00330, acetyltransferase; Provisional.
Length = 147
Score = 29.4 bits (66), Expect = 0.79
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 166 YIFDLVTCPEVVGTG-G---LSKLLE---SENVIKVIHDCRNDSILLYEQFG 210
+I D+V P G G G +S L E S KVI DC D + Y++ G
Sbjct: 84 HIEDVVVDPSYRGQGLGRALISDLCEIARSSGCYKVILDCTEDMVAFYKKLG 135
>gnl|CDD|162730 TIGR02148, Fibro_Slime, fibro-slime domain. This model represents
a conserved region of about 90 amino acids, shared in at
least 4 distinct large putative proteins from the slime
mold Dictyostelium discoideum and 10 proteins from the
rumen bacterium Fibrobacter succinogenes, and in no
other species so far. We propose here the name
fibro-slime domain.
Length = 90
Score = 28.4 bits (64), Expect = 1.0
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 135 NELVTFDCEGINPGIKGQITLFSLGLLSGQVYIFDLVTC 173
N+LV D G +P + G + L +LGL G+ Y FD+ C
Sbjct: 36 NKLVV-DIGGQHPAVPGAVDLDTLGLKEGKTYPFDIFYC 73
>gnl|CDD|237349 PRK13321, PRK13321, pantothenate kinase; Reviewed.
Length = 256
Score = 29.5 bits (67), Expect = 1.3
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 7/40 (17%)
Query: 174 PEVVGTGGLSKLLESENVIKVIHDCRNDSIL-----LYEQ 208
P V+ TGG + L+ E+ + D +L LY+
Sbjct: 216 PRVIATGGFASLIAKES--RCFDHVDPDLLLEGLRILYQM 253
>gnl|CDD|234000 TIGR02760, TraI_TIGR, conjugative transfer relaxase protein TraI.
This protein is a component of the relaxosome complex. In
the process of conjugative plasmid transfer the
realaxosome binds to the plasmid at the oriT (origin of
transfer) site. The relaxase protein TraI mediates the
single-strand nicking and ATP-dependent unwinding
(relaxation, helicase activity) of the plasmid molecule.
These two activities reside in separate domains of the
protein.
Length = 1960
Score = 29.5 bits (66), Expect = 1.9
Identities = 14/80 (17%), Positives = 32/80 (40%), Gaps = 4/80 (5%)
Query: 62 PASLAQNQTFKQRFNSLVLKTIAQNTEKDQR-YPSSNGGYVANNSDNF---KTKVLQNTK 117
A++ + + +Q L +A NTEK ++ P + ++ + +NT
Sbjct: 1219 NAAMPEIASDEQGLQKHDLAKLAVNTEKPKKAQPDATVTLYREIVKDYLSRTPEFRENTL 1278
Query: 118 VITNIKECSSVVEELMRNEL 137
+I + + + +R L
Sbjct: 1279 IIAHTNNDRTGIYPFIREGL 1298
>gnl|CDD|217365 pfam03097, BRO1, BRO1-like domain. This domain is found in a
number proteins including Rhophilin and BRO1. It is
known to have a role in endosomal targeting. ESCRT-III
subunit Snf7 binds to a conserved hydrophobic patch in
the BRO1 domain that is required for protein complex
formation and for the protein-sorting function of BRO1.
Length = 374
Score = 28.8 bits (65), Expect = 2.1
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 3/73 (4%)
Query: 10 SNTVKLVDNITHTNSSSPEQANGKVLKNNAINLTQIP---LSPPESKANLTHSSPPASLA 66
S++ +L++++ E+ N+ I ++P PP A L PP L
Sbjct: 279 SSSSELLEDLKGLKDRIKEKLKEAEKDNDFIYHEEVPDEVSLPPIKPAPLVKPIPPNELT 338
Query: 67 QNQTFKQRFNSLV 79
++ F LV
Sbjct: 339 ESVKGPDLFKKLV 351
>gnl|CDD|183484 PRK12379, PRK12379, propionate/acetate kinase; Provisional.
Length = 396
Score = 28.2 bits (63), Expect = 4.1
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 80 LKTIAQNTEKDQRYPSSN--GGYVANNSDNFKTKVLQNTKVITNIKECSS 127
LK IA EK S G +A+ F V+ +VI NI+ S
Sbjct: 64 LKAIAFELEKRNLNDSVALIGHRIAHGGSIFTESVIITDEVIDNIRRVSP 113
>gnl|CDD|237347 PRK13318, PRK13318, pantothenate kinase; Reviewed.
Length = 258
Score = 27.0 bits (61), Expect = 7.3
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 174 PEVVGTGGLSKLLESE-NVIKVI 195
P+V+ TGGL+ L E + I ++
Sbjct: 216 PKVIATGGLAPLFAEESDTIDIV 238
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
0.314 0.131 0.365
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,657,283
Number of extensions: 952508
Number of successful extensions: 538
Number of sequences better than 10.0: 1
Number of HSP's gapped: 534
Number of HSP's successfully gapped: 30
Length of query: 224
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 131
Effective length of database: 6,812,680
Effective search space: 892461080
Effective search space used: 892461080
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: 42 (22.0 bits)
S2: 57 (25.8 bits)