RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10574
(232 letters)
>gnl|CDD|205505 pfam13325, MCRS_N, N-terminal region of micro-spherule protein.
This domain is found in plants and higher eukaryotes,
and is the N-terminal region of micro-spherule proteins
which repress the transactivation activities of Nrf1
(p45 nuclear factor-erythroid 2 (p45 NF-E2)-related
factor 1). In conjunction with DIPA the full-length
protein acts as a transcription repressor. The exact
function of the region is not known.
Length = 199
Score = 121 bits (306), Expect = 2e-34
Identities = 47/77 (61%), Positives = 64/77 (83%)
Query: 9 NLNRTNDIKAVHRGLKFSCKFTFNECLQRWFTLLYDPNLSRLAVQGMQNLHPEVVHNIQA 68
+ +TND++AVHRG+KFSC+FT E +RW+ LLYDP +SR+AV M+NLHPE V ++Q+
Sbjct: 13 GVEQTNDLRAVHRGVKFSCRFTLQEVQERWYALLYDPVISRIAVAAMRNLHPETVASVQS 72
Query: 69 KALFSNDEEELLGSIKS 85
KALFS +EE+LLG+IKS
Sbjct: 73 KALFSQEEEQLLGTIKS 89
>gnl|CDD|238017 cd00060, FHA, Forkhead associated domain (FHA); found in eukaryotic
and prokaryotic proteins. Putative nuclear signalling
domain. FHA domains may bind phosphothreonine,
phosphoserine and sometimes phosphotyrosine. In
eukaryotes, many FHA domain-containing proteins localize
to the nucleus, where they participate in establishing
or maintaining cell cycle checkpoints, DNA repair, or
transcriptional regulation. Members of the FHA family
include: Dun1, Rad53, Cds1, Mek1,
KAPP(kinase-associated protein phosphatase),and Ki-67 (a
human nuclear protein related to cell proliferation).
Length = 102
Score = 48.9 bits (117), Expect = 6e-08
Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 7/80 (8%)
Query: 145 YLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIR-MRNNGDFFIANEGKRPIYV 203
YL T+GR + + + +D VSRR A IR + G I +V
Sbjct: 17 YLDPGGTYTIGRDSDNCDIVLDDP------SVSRRHAVIRYDGDGGVVLIDLGSTNGTFV 70
Query: 204 DGRPIIASNKYKLNHNSIIE 223
+G+ + +L +I
Sbjct: 71 NGQRVSPGEPVRLRDGDVIR 90
>gnl|CDD|215951 pfam00498, FHA, FHA domain. The FHA (Forkhead-associated) domain
is a phosphopeptide binding motif.
Length = 67
Score = 47.6 bits (114), Expect = 8e-08
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 152 VTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEG-KRPIYVDGRPIIA 210
VT+GR DI L VSRR A IR G F++ + G +V+G+ +
Sbjct: 1 VTIGR---SPDCDIVLDDPS----VSRRHAEIRYDGGGRFYLEDLGSTNGTFVNGQRLG- 52
Query: 211 SNKYKLNHNSIIE 223
+L +I
Sbjct: 53 PEPVRLRDGDVIR 65
>gnl|CDD|214578 smart00240, FHA, Forkhead associated domain. Found in eukaryotic
and prokaryotic proteins. Putative nuclear signalling
domain.
Length = 52
Score = 42.6 bits (101), Expect = 3e-06
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 7/58 (12%)
Query: 152 VTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKR-PIYVDGRPI 208
VT+GRS+ D + +D +SRR A I G F++ + G +V+G+ I
Sbjct: 1 VTIGRSSEDCDIQLDGP------SISRRHAVIVYDGGGRFYLIDLGSTNGTFVNGKRI 52
>gnl|CDD|234178 TIGR03354, VI_FHA, type VI secretion system FHA domain protein.
Members of this protein family are FHA
(forkhead-associated) domain-containing proteins that
are part of type VI secretion loci in a considerable
number of bacteria, most of which are known pathogens.
Species include Pseudomonas aeruginosa PAO1, Aeromonas
hydrophila, Yersinia pestis, Burkholderia mallei, etc
[Protein fate, Protein and peptide secretion and
trafficking, Cellular processes, Pathogenesis].
Length = 396
Score = 42.7 bits (101), Expect = 6e-05
Identities = 22/82 (26%), Positives = 34/82 (41%), Gaps = 8/82 (9%)
Query: 139 RGRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGK 198
G A + T+GRS D D L P VS R A IR R +G + + +
Sbjct: 13 PGIAAQKTFGTNGGTIGRSE-----DCDWVLPDPERHVSGRHARIRYR-DGAYLLTDLST 66
Query: 199 RPIYVD--GRPIIASNKYKLNH 218
++++ G P+ N +L
Sbjct: 67 NGVFLNGSGSPLGRGNPVRLEQ 88
>gnl|CDD|173653 cd05105, PTKc_PDGFR_alpha, Catalytic domain of the Protein Tyrosine
Kinase, Platelet Derived Growth Factor Receptor alpha.
Protein Tyrosine Kinase (PTK) family; Platelet Derived
Growth Factor Receptor (PDGFR) alpha; catalytic (c)
domain. The PTKc family is part of a larger superfamily
that includes the catalytic domains of other kinases
such as protein serine/threonine kinases, RIO kinases,
and phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. PDGFR
alpha is a receptor tyr kinase (RTK) containing an
extracellular ligand-binding region with five
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. The binding to
its ligands, the PDGFs, leads to receptor dimerization,
trans phosphorylation and activation, and intracellular
signaling. PDGFR alpha forms homodimers or heterodimers
with PDGFR beta, depending on the nature of the PDGF
ligand. PDGF-AA, PDGF-AB, and PDGF-CC induce PDGFR alpha
homodimerization. PDGFR signaling plays many roles in
normal embryonic development and adult physiology. PDGFR
alpha signaling is important in the formation of lung
alveoli, intestinal villi, mesenchymal dermis, and hair
follicles, as well as in the development of
oligodendrocytes, retinal astrocytes, neural crest
cells, and testicular cells. Aberrant PDGFR alpha
expression is associated with some human cancers.
Mutations in PDGFR alpha have been found within a subset
of gastrointestinal stromal tumors (GISTs). An active
fusion protein FIP1L1-PDGFR alpha, derived from
interstitial deletion, is associated with idiopathic
hypereosinophilic syndrome (HES) and chronic
eosinophilic leukemia (CEL).
Length = 400
Score = 31.1 bits (70), Expect = 0.43
Identities = 24/85 (28%), Positives = 34/85 (40%)
Query: 140 GRAVRYLMKFRDVTLGRSTADHSVDIDLSLEGPAWKVSRRQACIRMRNNGDFFIANEGKR 199
G V YL K RD L R D+D+ PA + +R + N GD+ +
Sbjct: 126 GDLVNYLHKNRDNFLSRHPEKPKKDLDIFGINPADESTRSYVILSFENKGDYMDMKQADT 185
Query: 200 PIYVDGRPIIASNKYKLNHNSIIER 224
YV I ++KY S +R
Sbjct: 186 TQYVPMLEIKEASKYSDIQRSNYDR 210
>gnl|CDD|184340 PRK13809, PRK13809, orotate phosphoribosyltransferase; Provisional.
Length = 206
Score = 29.8 bits (67), Expect = 0.81
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 189 GDFFIANEGKRPIYVDGRPIIAS 211
G F +A+ + PIYVD R +I+S
Sbjct: 26 GKFILASGEETPIYVDMRLVISS 48
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 27.9 bits (63), Expect = 2.7
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 103 KELKKVEEEMKNWAVIVDHVTGSNTPELDKQTYAVLRGRAVRYLM 147
LK++ ++ +N +I+ TGS++ L K+ L GRA +
Sbjct: 77 DALKRLYDDGRNLRIIL---TGSSSLLLSKEIATSLAGRAEELEL 118
>gnl|CDD|224630 COG1716, COG1716, FOG: FHA domain [Signal transduction mechanisms].
Length = 191
Score = 28.0 bits (62), Expect = 3.0
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 176 VSRRQACIRMRNNGDFFIANEGKRPIYVDGRPIIASNKYKLNHNSII 222
VSRR A +R N F YV+G + + L +I
Sbjct: 108 VSRRHAELRREGNEVFLEDLGSTNGTYVNGEKVRQ--RVLLQDGDVI 152
>gnl|CDD|128983 smart00744, RINGv, The RING-variant domain is a C4HC3 zinc-finger
like motif found in a number of cellular and viral
proteins. Some of these proteins have been shown both
in vivo and in vitro to have ubiquitin E3 ligase
activity. The RING-variant domain is reminiscent of
both the RING and the PHD domains and may represent an
evolutionary intermediate. To describe this domain the
term PHD/LAP domain has been used in the past. Extended
description: The RING-variant (RINGv) domain contains a
C4HC3 zinc-finger-like motif similar to the PHD domain,
while some of the spacing between the Cys/His residues
follow a pattern somewhat closer to that found in the
RING domain. The RINGv domain, similar to the RING, PHD
and LIM domains, is thought to bind two zinc ions
co-ordinated by the highly conserved Cys and His
residues. RING variant domain: C-x (2) -C-x(10-45)-C-x
(1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to
a PHD: C-x(1-2) -C-x
(7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C
Classical RING domain: C-x (2) -C-x
(9-39)-C-x(1-3)-H-x(2-3)-C-x(2)-C-x(4-48) -C-x(2)-C.
Length = 49
Score = 25.7 bits (57), Expect = 3.9
Identities = 8/28 (28%), Positives = 11/28 (39%), Gaps = 11/28 (39%)
Query: 13 TNDIKAVHRGLKFSCKFTFNECLQRWFT 40
+K VH+ ECL+RW
Sbjct: 22 KGSLKYVHQ-----------ECLERWIN 38
>gnl|CDD|218352 pfam04962, KduI, KduI/IolB family. This family includes the 5-keto
4-deoxyuronate isomerase enzyme EC:5.3.1.17 that is
involved in pectin degradation. This family aldo
includes bacterial Myo-inositol catabolism (IolB)
proteins. The Bacillus subtilis inositol operon
(iolABCDEFGHIJ) is involved in myo-inositol catabolism.
Glucose repression of the iol operon induced by inositol
is exerted through catabolite repression mediated by
CcpA and the iol induction system mediated by IolR. The
exact function of IolB is unknown. Members of this
family possess a Cupin like structure.
Length = 261
Score = 27.6 bits (62), Expect = 6.0
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 91 RFIGFSLLILEKKELKKVEEEMKNWAVIVDHVTGSNTPELDKQTYAVLRGRA 142
++GFS+L L E ++E + V++ +TG T +T+ L GR
Sbjct: 25 GYVGFSVLRLAAGESLELETGDREVCVVL--LTGKATVSGGGETFEELGGRM 74
>gnl|CDD|198179 cd09925, SH2_SHC, Src homology 2 (SH2) domain found in SH2 adaptor
protein C (SHC). SHC is involved in a wide variety of
pathways including regulating proliferation,
angiogenesis, invasion and metastasis, and bone
metabolism. An adapter protein, SHC has been implicated
in Ras activation following the stimulation of a number
of different receptors, including growth factors
[insulin, epidermal growth factor (EGF), nerve growth
factor, and platelet derived growth factor (PDGF)],
cytokines [interleukins 2, 3, and 5], erythropoietin,
and granulocyte/macrophage colony-stimulating factor,
and antigens [T-cell and B-cell receptors]. SHC has been
shown to bind to tyrosine-phosphorylated receptors, and
receptor stimulation leads to tyrosine phosphorylation
of SHC. Upon phosphorylation, SHC interacts with another
adapter protein, Grb2, which binds to the Ras GTP/GDP
exchange factor mSOS which leads to Ras activation. SHC
is composed of an N-terminal domain that interacts with
proteins containing phosphorylated tyrosines, a
(glycine/proline)-rich collagen-homology domain that
contains the phosphorylated binding site, and a
C-terminal SH2 domain. SH2 has been shown to interact
with the tyrosine-phosphorylated receptors of EGF and
PDGF and with the tyrosine-phosphorylated C chain of the
T-cell receptor, providing one of the mechanisms of
T-cell-mediated Ras activation. In general SH2 domains
are involved in signal transduction. They typically
bind pTyr-containing ligands via two surface pockets, a
pTyr and hydrophobic binding pocket, allowing proteins
with SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 104
Score = 26.5 bits (59), Expect = 6.1
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 169 LEGPAW---KVSRRQACIRMRNNGDFFI 193
L G W K+SRR A ++ +GDF +
Sbjct: 4 LRGEPWYHGKMSRRDAESLLQTDGDFLV 31
>gnl|CDD|181886 PRK09471, oppB, oligopeptide transporter permease; Reviewed.
Length = 306
Score = 27.3 bits (61), Expect = 7.1
Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 8/50 (16%)
Query: 28 KFTFNECLQRWFTLLYDPNLS----RLA----VQGMQNLHPEVVHNIQAK 69
KF CL+ TL +S RLA G + L PEV+ NI+AK
Sbjct: 3 KFILRRCLEAIPTLFILITISFFMMRLAPGSPFTGERTLPPEVMANIEAK 52
>gnl|CDD|224234 COG1315, COG1315, Uncharacterized conserved protein [Function
unknown].
Length = 543
Score = 27.4 bits (61), Expect = 7.3
Identities = 15/77 (19%), Positives = 25/77 (32%), Gaps = 5/77 (6%)
Query: 60 PEVVHNIQAKALFSNDEEELLGSIKSPGYTLRFIGFSLLILEKK--ELKKVEEEMKNWAV 117
+ + LF D E+ + F + E K E+K E+ M+ A
Sbjct: 32 KSKLCSSSNIELFFQDIEKPR-INNATSPYKMNAYFEISPAEDKVYEVKISEDSME--AT 88
Query: 118 IVDHVTGSNTPELDKQT 134
+ V G + K
Sbjct: 89 LESTVPGVEGAPVTKDE 105
>gnl|CDD|234614 PRK00074, guaA, GMP synthase; Reviewed.
Length = 511
Score = 27.3 bits (62), Expect = 8.0
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 54 GMQNLHPEVVHNIQAKALFSN 74
G+Q HPEV H Q K L N
Sbjct: 165 GVQ-FHPEVTHTPQGKKLLEN 184
>gnl|CDD|238270 cd00484, PEPCK_ATP, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It catalyzes
the reversible decarboxylation and phosphorylation of
oxaloacetate to yield phosphoenolpyruvate and carbon
dioxide, using a nucleotide molecule (ATP) for the
phosphoryl transfer, and has a strict requirement for
divalent metal ions for activity. PEPCK's separate into
two phylogenetic groups based on their nucleotide
substrate specificity, this model describes the
ATP-dependent groups.
Length = 508
Score = 27.2 bits (61), Expect = 9.3
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 124 GSNTPELDKQTYAVLRGRAVRYL 146
G + ++T+ +LR RAV YL
Sbjct: 60 GKVNQPISEETFEILRERAVDYL 82
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.137 0.413
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,134,402
Number of extensions: 1156349
Number of successful extensions: 1024
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1020
Number of HSP's successfully gapped: 24
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
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)