RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12101
(105 letters)
>gnl|CDD|203738 pfam07716, bZIP_2, Basic region leucine zipper.
Length = 54
Score = 45.7 bits (109), Expect = 3e-08
Identities = 16/41 (39%), Positives = 27/41 (65%)
Query: 7 QAVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRE 47
+A +RSR K + + +E ERV +L+ EN L +K++ L +E
Sbjct: 14 EAARRSREKKKQREEELEERVKELEEENAQLRQKVEQLEKE 54
>gnl|CDD|197664 smart00338, BRLZ, basic region leucin zipper.
Length = 65
Score = 39.5 bits (93), Expect = 1e-05
Identities = 17/51 (33%), Positives = 32/51 (62%)
Query: 7 QAVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLFLA 57
+A +RSR + + + +E +V +L+ EN+ L+++I+ L REL LK+
Sbjct: 15 EAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSELEE 65
>gnl|CDD|216687 pfam01763, Herpes_UL6, Herpesvirus UL6 like. This family consists
of various proteins from the herpesviridae that are
similar to herpes simplex virus type I UL6 virion
protein. UL6 is essential for cleavage and packaging of
the viral genome.
Length = 556
Score = 34.9 bits (81), Expect = 0.004
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 7 QAVKRSRVKSRIK-----TQETMERVNKLKTENDMLEEKIKILSRELS 49
QA ++S S K E + + LK EN+ L +K++ L ELS
Sbjct: 353 QAFRKSVSNSVNKCLEGQINEQFDTIEDLKEENEDLLKKLRELESELS 400
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 30.8 bits (71), Expect = 0.080
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 12/89 (13%)
Query: 2 AEPYLQAVKR--SRVKSRIKTQ--ETMERVNKLKTENDMLEEKIKILSREL-SFLKNLFL 56
A YL + + + +K + E ERV L E LE++++ L +L + L
Sbjct: 692 ALEYLNEQEALLKELAALLKAKPSELPERVEALLEELKELEKELEQLKAKLAAAAAGDLL 751
Query: 57 AHAGSTNGI-----DMDDIDLESL--LAD 78
A A NG+ ++ +D ++L LAD
Sbjct: 752 AQAKEVNGVKVLAAQVEGVDAKALRTLAD 780
>gnl|CDD|201054 pfam00170, bZIP_1, bZIP transcription factor. The Pfam entry
includes the basic region and the leucine zipper
region.
Length = 64
Score = 27.7 bits (62), Expect = 0.33
Identities = 15/45 (33%), Positives = 28/45 (62%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLK 52
A +RSR++ + +E E+V +L+ EN L +++ L +E + LK
Sbjct: 16 AARRSRLRKKAYIEELEEKVKELEAENKTLRSELERLKKECAKLK 60
>gnl|CDD|222417 pfam13851, GAS, Growth-arrest specific micro-tubule binding. This
family is the highly conserved central region of a
number of metazoan proteins referred to as growth-arrest
proteins. In mouse, Gas8 is predominantly a testicular
protein, whose expression is developmentally regulated
during puberty and spermatogenesis. In humans, it is
absent in infertile males who lack the ability to
generate gametes. The localisation of Gas8 in the
motility apparatus of post-meiotic gametocytes and
mature spermatozoa, together with the detection of Gas8
also in cilia at the apical surfaces of epithelial cells
lining the pulmonary bronchi and Fallopian tubes
suggests that the Gas8 protein may have a role in the
functioning of motile cellular appendages. Gas8 is a
microtubule-binding protein localised to regions of
dynein regulation in mammalian cells.
Length = 201
Score = 28.3 bits (64), Expect = 0.63
Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 13 RVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
+K+R+K E + + LK E+++LE++ + + RE L + F
Sbjct: 90 NLKARLKELE--KELKNLKWESEVLEQRFEKVERERDELYDKF 130
>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein.
Length = 312
Score = 27.9 bits (63), Expect = 0.84
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 18/68 (26%)
Query: 21 QETMERVNKLKTENDMLEEKIKILSRELSFLKNLF-------LAHAGSTNGIDMDD---I 70
+ T+ RV+ LE KI+ L EL+FLK + ++MD +
Sbjct: 114 EATLARVD--------LEMKIESLQEELAFLKKNHEEEVRELQSQIQGQVNVEMDAARKL 165
Query: 71 DLESLLAD 78
DL LA+
Sbjct: 166 DLTKALAE 173
>gnl|CDD|221805 pfam12848, ABC_tran_2, ABC transporter. This domain is related
to pfam00005.
Length = 85
Score = 26.8 bits (60), Expect = 1.0
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTEN 34
A K + +SRIK E MER+ K +
Sbjct: 54 ASKAKQAQSRIKALEKMERIEKPVEKK 80
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 27.4 bits (61), Expect = 1.5
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 14 VKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKN 53
+ RIK E E V +L+ EN L+ +++ L RE+ L++
Sbjct: 420 YEKRIKKLE--ETVERLEEENSELKRELEELKREIEKLES 457
>gnl|CDD|215543 PLN03028, PLN03028, pyrophosphate--fructose-6-phosphate
1-phosphotransferase; Provisional.
Length = 610
Score = 27.0 bits (60), Expect = 1.9
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 49 SFLKNLFLAHAGSTNGIDMDDIDLESLLADAVDT 82
F+K L H S + + I+ E LLA V+T
Sbjct: 365 PFIKKQLLLHPESDDSAQLSQIETEKLLAQLVET 398
>gnl|CDD|215018 smart01087, COG6, Conserved oligomeric complex COG6. COG6 is a
component of the conserved oligomeric golgi complex,
which is composed of eight different subunits and is
required for normal golgi morphology and localisation.
Length = 598
Score = 26.9 bits (60), Expect = 2.4
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 19 KTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLFL 56
+TQ+ + ++L+ E +LE K K+L +FL L
Sbjct: 61 QTQDLISEASELQEELALLELKKKLLD---AFLSKFTL 95
>gnl|CDD|226513 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain,
potential nuclease [General function prediction only].
Length = 290
Score = 26.4 bits (58), Expect = 2.6
Identities = 14/37 (37%), Positives = 22/37 (59%)
Query: 19 KTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
+ +E ER+ +L+ EN LEE +K L E+ LK +
Sbjct: 164 EYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRW 200
>gnl|CDD|203138 pfam04977, DivIC, Septum formation initiator. DivIC from B.
subtilis is necessary for both vegetative and
sporulation septum formation. These proteins are mainly
composed of an amino terminal coiled-coil.
Length = 80
Score = 25.6 bits (57), Expect = 2.8
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 7 QAVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFL 51
++ I + + KLK EN+ LE ++K L + ++
Sbjct: 15 GLSAYYQLNQEIAALQ--AELAKLKAENEELEAEVKDLKSDPDYI 57
>gnl|CDD|238766 cd01489, Uba2_SUMO, Ubiquitin activating enzyme (E1) subunit
UBA2. UBA2 is part of the heterodimeric activating
enzyme (E1), specific for the SUMO family of
ubiquitin-like proteins (Ubls). E1 enzymes are part of
a conjugation cascade to attach Ub or Ubls, covalently
to substrate proteins consisting of activating (E1),
conjugating (E2), and/or ligating (E3) enzymes. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. The
E1 also associates with E2 and promotes ubiquitin
transfer to the E2's catalytic cysteine.
Post-translational modification by SUMO family of
ubiquitin-like proteins (Ublps) is involved in cell
division, nuclear transport, the stress response and
signal transduction. UBA2 contains both the
nucleotide-binding motif involved in adenylation and
the catalytic cysteine involved in the thioester
intermediate and Ublp transfer to E2.
Length = 312
Score = 26.6 bits (59), Expect = 3.0
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 51 LKNLFLAHAGSTNGIDMDDIDLESL 75
LKNL L G + ID+D IDL +L
Sbjct: 15 LKNLVLTGFGEIHIIDLDTIDLSNL 39
>gnl|CDD|185748 cd09235, V_Alix, Middle V-domain of mammalian Alix and related
domains are dimerization and protein interaction
modules. This family contains the middle V-shaped (V)
domain of mammalian Alix (apoptosis-linked gene-2
interacting protein X) and related domains. It belongs
to the V_Alix_like superfamily which includes the
V-domains of Bro1 and Rim20 (also known as PalA) from
Saccharomyces cerevisiae, mammalian His-Domain type N23
protein tyrosine phosphatase (HD-PTP, also known as
PTPN23), and related domains. Alix, also known as
apoptosis-linked gene-2 interacting protein 1 (AIP1), is
part of the ESCRT (Endosomal Sorting Complexes Required
for Transport) system, and participates in membrane
remodeling processes, including the budding of enveloped
viruses, vesicle budding inside late endosomal
multivesicular bodies (MVBs), the abscission reactions
of mammalian cell division, and in apoptosis. The Alix
V-domain is a dimerization domain, and contains a
binding site, partially conserved in the V_Alix_like
superfamily, for the retroviral late assembly (L) domain
YPXnL motif. In addition to the V-domain, Alix also has
an N-terminal Bro1-like domain, which binds components
of the ESCRT-III complex, in particular CHMP4. The
Bro1-like domain of Alix can also bind to human
immunodeficiency virus type 1 (HIV-1) nucleocapsid. Alix
also has a C-terminal proline-rich region (PRR) that
binds multiple partners including Tsg101 (tumor
susceptibility gene 101, a component of ESCRT-1), and
the apoptotic protein ALG-2.
Length = 339
Score = 26.5 bits (59), Expect = 3.2
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 24 MERVNKLKTENDMLEEKIKILSRELSF-LKNLFLAHAGSTNGIDMDDIDLESL 75
ME+V +K E +++E ++K +F +K+ FL+ I+ + I +E L
Sbjct: 197 MEQVETIKAEREVIESELK----SATFDMKSKFLSALAQDGAINEEAISVEEL 245
>gnl|CDD|178226 PLN02617, PLN02617, imidazole glycerol phosphate synthase hisHF.
Length = 538
Score = 26.2 bits (58), Expect = 3.5
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 6/27 (22%)
Query: 63 NGIDMD------DIDLESLLADAVDTP 83
N ID D DI+L L++DAV P
Sbjct: 458 NCIDCDGQGKGFDIELVKLVSDAVTIP 484
>gnl|CDD|238761 cd01484, E1-2_like, Ubiquitin activating enzyme (E1), repeat
2-like. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets
them for degradation by the 26S proteasome. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and ubiquitin's
C-terminus. E1 also associates with E2 and promotes
ubiquitin transfer to the E2's catalytic cysteine. A
set of novel molecules with a structural similarity to
Ub, called Ub-like proteins (Ubls), have similar
conjugation cascades. In contrast to ubiquitin-E1,
which is a single-chain protein with a weakly conserved
two-fold repeat, many of the Ubls-E1are a heterodimer
where each subunit corresponds to one half of a
single-chain E1. This CD represents the family
homologous to the second repeat of Ub-E1.
Length = 234
Score = 26.0 bits (57), Expect = 3.7
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 51 LKNLFLAHAGSTNGIDMDDIDLESL 75
LKNL L G + IDMD ID+ +L
Sbjct: 15 LKNLALMGFGQIHVIDMDTIDVSNL 39
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 26.4 bits (58), Expect = 3.7
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 24 MERVNKLKTENDMLEEKIKILSRELS 49
+E + K+ TE + L+ KI IL LS
Sbjct: 155 LEDLEKILTEKEALQGKINILEMRLS 180
>gnl|CDD|238765 cd01488, Uba3_RUB, Ubiquitin activating enzyme (E1) subunit UBA3.
UBA3 is part of the heterodimeric activating enzyme
(E1), specific for the Rub family of ubiquitin-like
proteins (Ubls). E1 enzymes are part of a conjugation
cascade to attach Ub or Ubls, covalently to substrate
proteins. consisting of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes. E1 activates
ubiquitin(-like) by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. E1
also associates with E2 and promotes ubiquitin transfer
to the E2's catalytic cysteine. Post-translational
modification by Rub family of ubiquitin-like proteins
(Ublps) activates SCF ubiquitin ligases and is involved
in cell cycle control, signaling and embryogenesis.
UBA3 contains both the nucleotide-binding motif
involved in adenylation and the catalytic cysteine
involved in the thioester intermediate and Ublp
transfer to E2.
Length = 291
Score = 26.2 bits (58), Expect = 4.0
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 51 LKNLFLAHAGSTNGIDMDDIDLESL 75
LKNL L+ + + IDMD ID+ +L
Sbjct: 15 LKNLALSGFRNIHVIDMDTIDVSNL 39
>gnl|CDD|191675 pfam07047, OPA3, Optic atrophy 3 protein (OPA3). This family
consists of several optic atrophy 3 (OPA3) proteins.
OPA3 deficiency causes type III 3-methylglutaconic
aciduria (MGA) in humans. This disease manifests with
early bilateral optic atrophy, spasticity,
extrapyramidal dysfunction, ataxia, and cognitive
deficits, but normal longevity.
Length = 134
Score = 25.7 bits (57), Expect = 4.1
Identities = 8/36 (22%), Positives = 16/36 (44%)
Query: 9 VKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKIL 44
+R K K +E + + +L+ LE +I+
Sbjct: 96 YQRQSRKEAKKEEELQQELEELEARVGELELEIERQ 131
>gnl|CDD|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase
subunit A'' fusion protein; Provisional.
Length = 509
Score = 25.9 bits (57), Expect = 4.3
Identities = 8/39 (20%), Positives = 19/39 (48%)
Query: 18 IKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLFL 56
I+ + + ++KL + +++ I L + K L+L
Sbjct: 293 IEYDDILAAISKLTFKTVEIDDGIIRLKPQQPSFKKLYL 331
>gnl|CDD|220640 pfam10234, Cluap1, Clusterin-associated protein-1. This protein is
conserved from worms to humans. The protein of 413 amino
acids contains a central coiled-coil domain, possibly
the region that binds to clusterin. Cluap1 expression is
highest in the nucleus and gradually increases during
late S to G2/M phases of the cell cycle and returns to
the basal level in the G0/G1 phases. In addition, it is
upregulated in colon cancer tissues compared to
corresponding non-cancerous mucosa. It thus plays a
crucial role in the life of the cell.
Length = 269
Score = 25.7 bits (57), Expect = 4.6
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 13 RVKSRIKT-----QETMERVNKLKTENDMLEEKIKILSREL 48
+K IK Q+ ++ LK++ LE KI+ +EL
Sbjct: 168 ALKEAIKNLAARLQQLQAELDNLKSDEANLEAKIERKKQEL 208
>gnl|CDD|226400 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 25.4 bits (56), Expect = 5.5
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 19 KTQETMERVNKLKTENDMLEEKIKILSRELSFLKN 53
+ +E ++++L+ E D + +IK L +E++ LK
Sbjct: 60 QIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKE 94
>gnl|CDD|226256 COG3733, TynA, Cu2+-containing amine oxidase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 654
Score = 25.9 bits (57), Expect = 5.6
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 70 IDLESLLADAVDTPPSVPCTSSRSNYNSSSLSTP 103
+DLE +D P VP R+NY +
Sbjct: 203 VDLEKKKVVRIDDHPVVPLPMKRANYGRERIGKA 236
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 25.6 bits (57), Expect = 6.1
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 25 ERVNKLKTENDMLEEKIKILSRELSFLKN 53
ER+ L+ N LEE+I+ L +L L+
Sbjct: 1 ERLEALEERNSELEEQIRQLELKLRDLEA 29
>gnl|CDD|185746 cd08915, V_Alix_like, Protein-interacting V-domain of mammalian
Alix and related domains. This superfamily contains the
V-shaped (V) domain of mammalian Alix (apoptosis-linked
gene-2 interacting protein X), His-Domain type N23
protein tyrosine phosphatase (HD-PTP, also known as
PTPN23), Bro1 and Rim20 (also known as PalA) from
Saccharomyces cerevisiae, and related domains. Alix,
HD-PTP, Bro1, and Rim20 all interact with the ESCRT
(Endosomal Sorting Complexes Required for Transport)
system. Alix, also known as apoptosis-linked gene-2
interacting protein 1 (AIP1), participates in membrane
remodeling processes during the budding of enveloped
viruses, vesicle budding inside late endosomal
multivesicular bodies (MVBs), and the abscission
reactions of mammalian cell division. It also functions
in apoptosis. HD-PTP functions in cell migration and
endosomal trafficking, Bro1 in endosomal trafficking,
and Rim20 in the response to the external pH via the
Rim101 pathway. The Alix V-domain contains a binding
site, partially conserved in this superfamily, for the
retroviral late assembly (L) domain YPXnL motif. The
Alix V-domain is also a dimerization domain. Members of
this superfamily have an N-terminal Bro1-like domain,
which binds components of the ESCRT-III complex. The
Bro1-like domains of Alix and HD-PTP can also bind human
immunodeficiency virus type 1 (HIV-1) nucleocapsid. Many
members, including Alix, HD-PTP, and Bro1, also have a
proline-rich region (PRR), which binds multiple partners
in Alix, including Tsg101 (tumor susceptibility gene
101, a component of ESCRT-1) and the apoptotic protein
ALG-2. The C-terminal portion (V-domain and PRR) of Bro1
interacts with Doa4, a ubiquitin thiolesterase needed to
remove ubiquitin from MVB cargoes; it interacts with a
YPxL motif in Doa4s catalytic domain to stimulate its
deubiquitination activity. Rim20 may bind the ESCRT-III
subunit Snf7, bringing the protease Rim13 (a
YPxL-containing transcription factor) into proximity
with Rim101, and promoting the proteolytic activation of
Rim101. HD-PTP is encoded by the PTPN23 gene, a tumor
suppressor gene candidate often absent in human kidney,
breast, lung, and cervical tumors. HD-PTP has a
C-terminal catalytically inactive tyrosine phosphatase
domain.
Length = 342
Score = 25.4 bits (56), Expect = 6.7
Identities = 9/31 (29%), Positives = 16/31 (51%)
Query: 24 MERVNKLKTENDMLEEKIKILSRELSFLKNL 54
+ V K K + L ++I ++E S +KN
Sbjct: 256 LTYVEKTKKKQIELIKEIDAANQEFSQVKNS 286
>gnl|CDD|216607 pfam01617, Surface_Ag_2, Surface antigen. This family includes a
number of bacterial surface antigens expressed on the
surface of pathogens.
Length = 247
Score = 25.5 bits (56), Expect = 6.8
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 48 LSFLKNLFLAHAGSTNGIDMDD--IDLE 73
+ NLF G+ G MD ++LE
Sbjct: 61 FKYENNLFTGFGGAI-GYSMDGPRVELE 87
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 25.4 bits (56), Expect = 7.1
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 11/68 (16%)
Query: 15 KSRIKTQETMER-----VNKLKTENDMLEEKIKILS-RELSFLKNLFLAHAGSTNGIDMD 68
KSR+ TQE ER LK ND ++EK K+ S E ++ L GID D
Sbjct: 273 KSRVVTQEDDERSYHIFYQLLKGANDEMKEKYKLKSLEEYKYINPKCL----DVPGID-D 327
Query: 69 DIDLESLL 76
D E ++
Sbjct: 328 VKDFEEVM 335
>gnl|CDD|181449 PRK08491, PRK08491, NADH dehydrogenase subunit C; Provisional.
Length = 263
Score = 25.0 bits (55), Expect = 8.0
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 10 KRSRVKSRIKTQETMERVNKL 30
KR RVK +K +E ++ V+ L
Sbjct: 111 KRVRVKCFLKEKEALQSVSFL 131
>gnl|CDD|133384 cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the
MerR-like transcription regulators YyaN and YraB.
Putative helix-turn-helix (HTH) MerR-like transcription
regulators of Bacillus subtilis, YyaN and YraB, and
related proteins; N-terminal domain. Based on sequence
similarity, these proteins are predicted to function as
transcription regulators that mediate responses to
stress in eubacteria. They belong to the MerR
superfamily of transcription regulators that promote
transcription of various stress regulons by
reconfiguring the operator sequence located between the
-35 and -10 promoter elements. A typical MerR regulator
is comprised of distinct domains that harbor the
regulatory (effector-binding) site and the active
(DNA-binding) site. Their N-terminal domains are
homologous and contain a DNA-binding winged HTH motif,
while the C-terminal domains are often dissimilar and
bind specific coactivator molecules such as metal ions,
drugs, and organic substrates.
Length = 113
Score = 24.7 bits (55), Expect = 8.2
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 25 ERVNKLKTENDMLEEKIKILSRELSFLKN 53
ER+ L+ + LEE+I L L++L
Sbjct: 79 ERLELLEEHREELEEQIAELQETLAYLDY 107
>gnl|CDD|224988 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 25.0 bits (55), Expect = 8.6
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 11/44 (25%)
Query: 39 EKIKILS--RELSFLKNLFLAHAGSTNGIDMDDIDLESLLADAV 80
E + LS R+ +F +N G+ +++ L LLA AV
Sbjct: 100 ENVITLSDFRDRAFGEN---------YGVLINEGPLAGLLARAV 134
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 25.1 bits (55), Expect = 9.9
Identities = 12/47 (25%), Positives = 22/47 (46%)
Query: 7 QAVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKN 53
+ V K ++ E + ++ EN+ LEE+ KI R + L +
Sbjct: 287 EEVLSEIKALASKIKQVNEELTTVRQENEELEEEYKIKKRTVELLPD 333
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
0.310 0.125 0.332
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,045,505
Number of extensions: 425892
Number of successful extensions: 660
Number of sequences better than 10.0: 1
Number of HSP's gapped: 655
Number of HSP's successfully gapped: 114
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.2 bits)