RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9217
(90 letters)
>gnl|CDD|163696 cd08065, MPN_eIF3h, Mpr1p, Pad1p N-terminal (MPN) domains without
catalytic isopeptidase activity, found in eIF2h.
Eukaryotic translation initiation factor 3 (eIF3)
subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma;
eIF3-p40) is an evolutionarily non-conserved subunit of
the functional core that comprises eIF3a, eIF3b, eIF3c,
eIF3e, eIF3f, and eIF3h, and contains the MPN domain.
However, it lacks the canonical JAMM motif, and
therefore does not show catalytic isopeptidase
activity.Together with eIF3e and eIF3f, eIF3h
stabilizes the eIF3 complex. Results suggest that eIF3h
regulates cell growth and viability, and that
over-expression of the gene may provide growth
advantage to prostate, breast, and liver cancer cells.
For example, EIF3h gene amplification is common in
late-stage prostate cancer suggesting that it may be
functionally involved in the progression of the
disease. It has been shown that coamplification of MYC,
a well characterized oncogene involved in cell growth,
differentiation, and apoptosis, and EIF3h in patients
with non-small cell lung cancer (NSCLC) improves
survival if treated with the Epidermal Growth Factor
Receptor Tyrosine Kinase Inhibitor (EGFR-TKI),
Gefitinib. Plant eIF3h is implicated in translation of
specific mRNAs.
Length = 266
Score = 92.3 bits (230), Expect = 1e-24
Identities = 32/58 (55%), Positives = 40/58 (68%), Gaps = 3/58 (5%)
Query: 18 YVQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFPKNYDESVDE 75
VQ+DGL V+KI+KHC EE E+ QG LLGL V LE+TNCFPFPK+ ++ D
Sbjct: 2 SVQIDGLVVLKIIKHCKEELP---ELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDR 56
>gnl|CDD|216478 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin protease. Members
of this family are found in proteasome regulatory
subunits, eukaryotic initiation factor 3 (eIF3)
subunits and regulators of transcription factors. This
family is also known as the MPN domain and PAD-1-like
domain, JABP1 domain or JAMM domain. These are
metalloenzymes that function as the ubiquitin
isopeptidase/ deubiquitinase in the ubiquitin-based
signaling and protein turnover pathways in eukaryotes.
Versions of the domain in prokaryotic cognates of the
ubiquitin-modification pathway are predicted to have a
similar role.
Length = 117
Score = 43.9 bits (104), Expect = 4e-07
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 19 VQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNR-LEITNCFPFPKNYDE 71
V + L ++KIV H + EV G LLG + +R +E+TN F P++ E
Sbjct: 5 VVIHPLVLLKIVDHARRGGKSGEEVM-GVLLGTLEGDRVIEVTNSFALPQSETE 57
>gnl|CDD|163688 cd08057, MPN_euk_non_mb, Mpr1p, Pad1p N-terminal (MPN) domains
without catalytic isopeptidase activity (non
metal-binding); eukaryotic. This family contains MPN
(also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains
variants lacking key residues in the JAB1/MPN/Mov34
metalloenzyme (JAMM) motif and are unable to coordinate
a metal ion. Comparisons of key catalytic and metal
binding residues explain why the MPN-containing
proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the
translation initiation factor 3 subunits f and h do not
show catalytic isopeptidase activity. It has been
proposed that the MPN domain in these proteins has a
primarily structural function. Rpn7 is known to be
critical for the integrity of the 26S proteasome
complex by establishing a correct lid structure. It is
necessary for the incorporation/anchoring of Rpn3 and
Rpn12 to the lid and essential for viability and normal
mitosis. CSN6 is a highly conserved protein complex
with diverse functions, including several important
intracellular pathways such as the ubiquitin/proteasome
system, DNA repair, cell cycle, developmental changes,
and some aspects of immune responses. It cleaves
ubiquitin-like protein Nedd8 (neural precursor cell
expressed, developmentally downregulated 8)) in the
cullin 1 in cells. EIF3f s a potent inhibitor of HIV-1
replication as well as an important negative regulator
of cell growth and proliferation. EIF3h regulates cell
growth and viability, and that over-expression of the
gene may provide growth advantage to prostate, breast,
and liver cancer cells.
Length = 157
Score = 44.0 bits (104), Expect = 6e-07
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 19 VQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFPKNYDESVDEGCY 78
VQ+ L ++ I H + I+ G LLG V +++E+TN F P +DE +E +
Sbjct: 1 VQLHPLVLLNISDH-YTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELP--FDEE-EESIF 56
Query: 79 EDSETLSR 86
D+E L +
Sbjct: 57 IDTEYLEK 64
>gnl|CDD|214573 smart00232, JAB_MPN, JAB/MPN domain. Domain in Jun kinase
activation domain binding protein and proteasomal
subunits. Domain at Mpr1p and Pad1p N-termini. Domain
of unknown function.
Length = 135
Score = 42.0 bits (99), Expect = 3e-06
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 18 YVQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFPK-NYDESVDE 75
V++ L + I+KH EV G LLG +R E+ F P D+SV E
Sbjct: 1 EVKVHPLVPLNILKHA--IRDGPEEVC-GVLLGKSNKDRPEVKEVFAVPNEPQDDSVQE 56
>gnl|CDD|163695 cd08064, MPN_eIF3f, Mpr1p, Pad1p N-terminal (MPN) domains without
catalytic isopeptidase activity, found in eIF3f.
Eukaryotic translation initiation factor 3 (eIF3)
subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic
translation initiation factor 3, subunit 5 epsilon,
47kDa; Mov34/MPN/PAD-1 family protein) is an
evolutionarily non-conserved subunit of the functional
core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f,
and eIF3h, and contains the MPN domain. However, it
lacks the canonical JAMM motif, and therefore does not
show catalytic isopeptidase activity. It has been shown
that eIF3f mRNA expression is significantly decreased
in many human tumors including pancreatic cancer and
melanoma. EIF3f is a potent inhibitor of HIV-1
replication; it mediates restriction of HIV-1
expression through several factors including the
serine/arginine-rich (SR) protein 9G8, and
cyclin-dependent kinase 11 (CDK11). EIF3f
phosphorylation by CDK11 is important in regulating its
function in translation and apoptosis. It enhances its
association with the core eIF3 subunits during
apoptosis, suggesting that eIF3f may inhibit
translation by increasing the binding to the eIF3
complex during apoptosis. Thus, eIF3f may be an
important negative regulator of cell growth and
proliferation.
Length = 265
Score = 38.3 bits (90), Expect = 1e-04
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 24 LAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFPKNYDESVDE 75
+ + I+ +E E G LLG + +EITNCF P N ES D+
Sbjct: 6 VVLFSILDS-YERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHN--ESEDQ 54
>gnl|CDD|163700 cd08069, MPN_RPN11_CSN5, Mov34/MPN/PAD-1 family: proteasomal
regulatory protein Rpn11 and signalosome complex
subunit CSN5. This family contains proteasomal
regulatory protein Rpn11 (26S proteasome regulatory
subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit
of the 19S-proteasome; regulatory particle number 11)
and signalosomal CSN5 (COP9 signalosome complex subunit
5; COP9 complex homolog subunit 5; c-Jun activation
domain-binding protein-1; CSN5/JAB1; JAB1). COP9
signalosome (CSN) and the proteasome lid are paralogous
complexes and their respective subunits CSN5 and Rpn11
are most closely related between the two complexes,
both containing the conserved JAMM (JAB1/MPN/Mov34
metalloenzyme) motif involved in zinc ion coordination
and providing the active site for isopeptidase
activity. Rpn11 is responsible for substrate
deubiquitination during proteasomal degradation. It is
essential for maintaining a correct cell cycle and
normal mitochondrial morphology and physiology;
mutations in Rpn11 cause cell cycle and mitochondrial
defects, temperature sensitivity and sensitivity to DNA
damaging reagents such as UV. It has been shown that
the C-terminal region of Rpn11 is involved in the
regulation of the mitochondrial fission and tubulation
processes. CSN5, one of the eight subunits of CSN, is
critical for nuclear export and the degradation of
several tumor suppressor proteins, including p53, p27,
and Smad4. Its MPN+ domain is critical for the physical
interaction of RUNX3 and Jab1. It has been suggested
that the direct interaction of CSN5/JAB1 with p27
provides p27 with a leucine-rich nuclear export signal
(NES), which is required for binding to chromosomal
region maintenance 1 (CRM1), and facilitates nuclear
export. The over-expression of CSN5/JAB1 also has been
implicated in cancer initiation and progression,
including cancer of the lung, pancreas, mouth, thyroid,
and breast, suggesting that the oncogenic activity of
CSN5 is associated with the down-regulation of RUNX3.
Length = 268
Score = 38.4 bits (90), Expect = 1e-04
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 19 VQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFP 66
V + LA++K++KH + IEV G +LG V D + + + F P
Sbjct: 12 VYISSLALLKMLKHA--RAGGPIEV-MGLMLGKVDDYTIIVVDVFALP 56
>gnl|CDD|235937 PRK07111, PRK07111, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 735
Score = 28.0 bits (63), Expect = 0.62
Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 6/27 (22%)
Query: 16 ISYVQMDG------LAVMKIVKHCHEE 36
ISYV++DG A IVK
Sbjct: 643 ISYVELDGDPSKNVEAFEIIVKAMKNT 669
>gnl|CDD|163693 cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN) domains
without catalytic isopeptidase activity, found in 19S
proteasomal subunits Rpn7 and Rpn8. This family
includes lid subunits of the 26 S proteasome regulatory
particles, Rpn7 (PSMD7; proteasome 26S non-ATPase
subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S
non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be
critical for the integrity of the 26 S proteasome
complex by establishing a correct lid structure. It is
necessary for the incorporation/anchoring of Rpn3 and
Rpn12 to the lid and essential for viability and normal
mitosis. Rpn7 and Rpn8 are ATP-independent components
of the 19S regulator subunit, and contain the MPN
structural motif on its N-terminal region. However,
while they show a typical MPN metalloprotease fold,
they lack the canonical JAMM motif, and therefore do
not show catalytic isopeptidase activity. It is
suggested that Rpn7 function is primarily structural.
Length = 280
Score = 25.2 bits (56), Expect = 5.9
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 46 GALLGLVVDNRLEITNCF--PF 65
G LLG L++TN F PF
Sbjct: 30 GVLLGSWKKGVLDVTNSFAVPF 51
>gnl|CDD|183173 PRK11519, PRK11519, tyrosine kinase; Provisional.
Length = 719
Score = 25.1 bits (55), Expect = 6.9
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 30 VKHCHEESTNNIEVAQGALLGLVVDNR---LEITNCF 63
VK T + E+ G L+G V++ R + IT F
Sbjct: 5 VKQHAAPVTGSDEIDIGRLVGTVIEARWWVIGITAVF 41
>gnl|CDD|165282 PHA02978, PHA02978, hypothetical protein; Provisional.
Length = 135
Score = 24.5 bits (53), Expect = 7.1
Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 12/87 (13%)
Query: 6 VSRVQIDESPISYVQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRL-------E 58
+ ++ D+ I+Y+ +K + CH +I G LLGL + +
Sbjct: 5 IEELEHDKDIINYIDK-----IKDLCSCHTMFPASINFIMGKLLGLRDKIEIIGMFRLNK 59
Query: 59 ITNCFPFPKNYDESVDEGCYEDSETLS 85
I NC K+ DE + Y D + +S
Sbjct: 60 INNCIHHIKSGDEIIIYFSYADPDGIS 86
>gnl|CDD|215645 PLN03246, PLN03246, 26S proteasome regulatory subunit;
Provisional.
Length = 303
Score = 24.7 bits (54), Expect = 8.6
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 15 PISYVQMDGLAVMKIVKHCHEESTNNIEVAQGALLGLVVDNRLEITNCFPFPKNYDE 71
I V + L ++ IV H + + + + G LLG R+++TN F P D+
Sbjct: 4 GIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDD 60
>gnl|CDD|163694 cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) domains without
catalytic isopeptidase activity, found in COP9
signalosome complex subunit 6. CSN6 (COP9 signalosome
subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one
of the eight subunits of COP9 signalosome, a highly
conserved protein complex with diverse functions,
including several important intracellular pathways such
as the ubiquitin/proteasome system, DNA repair, cell
cycle, developmental changes, and some aspects of
immune responses. CSN6 is an MPN-domain protein that
directly interacts with the MPN+-domain subunit CSN5.
It is cleaved during apoptosis by activated caspases.
CSN6 processing occurs in CSN/CRL (cullin-RING Ub
ligase) complexes and is followed by the cleavage of
Rbx1, the direct interaction partner of CSN6. CSN6
cleavage enhances CSN-mediated deneddylating activity
(i.e. cleavage of ubiquitin-like protein Nedd8 (neural
precursor cell expressed, developmentally downregulated
8)) in the cullin 1 in cells. The cleavage of Rbx1 and
increased deneddylation of cullins inactivate CRLs and
presumably stabilize pro-apoptotic factors for final
apoptotic steps. While CSN6 shows a typical MPN
metalloprotease fold, it lacks the canonical JAMM
motif, and therefore does not show catalytic
isopeptidase activity.
Length = 288
Score = 24.5 bits (54), Expect = 9.4
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 24 LAVMKI----VKHCHEESTNNIEVAQGALLGLVVDNRLEITNCF 63
L ++ I +H + + V GALLG +EI N F
Sbjct: 8 LVILNISDHITRHRAQSQSEPPRVV-GALLGQQDGREIEIENSF 50
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
0.315 0.132 0.377
Gapped
Lambda K H
0.267 0.0758 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,192,967
Number of extensions: 318313
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 201
Number of HSP's successfully gapped: 13
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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 (21.6 bits)
S2: 53 (24.1 bits)