RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9211
(226 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 = 214 bits (547), Expect = 7e-70
Identities = 86/199 (43%), Positives = 121/199 (60%), Gaps = 27/199 (13%)
Query: 1 MMRRLRRVNVDHYHVGWYQSSDVANFISLPLIESQFHYQISIEEAVVLIYDTQKTSRGFL 60
MMR LR VNVDH HVGWYQS+ + +F + LIE+Q++YQ +IEE+VVL+YD KTS+G L
Sbjct: 68 MMRLLREVNVDHNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQGSL 127
Query: 61 TLKAYRLTPQAIQMYKEGEFTPEALRAIKVGFENLLLEVPVKIRNSPLTNVLLSEVDGLV 120
+LKAYRL+ + +++YKEG+F+ E+LR + F N+ E+PV IRNS L N LLSE++
Sbjct: 128 SLKAYRLSEKFMELYKEGKFSTESLREANLTFSNIFEEIPVVIRNSHLVNALLSELEEDS 187
Query: 121 SPAEGN-NFLDLGTA--------------------------FQQQVVRQAQDKHRYQAKR 153
++ + + LDL T +Q+ + RQ ++ KR
Sbjct: 188 PSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKFNYYQRNLARQQAQIQQWLQKR 247
Query: 154 MQENQARAAKDEPPLPEED 172
EN R A+ E PLPEED
Sbjct: 248 KAENAQREARGEEPLPEED 266
>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 = 48.9 bits (117), Expect = 1e-07
Identities = 29/70 (41%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 1 MMRRLRRVNVDHYHVGWYQS-SDVANFISLPLIESQFHYQISIEEAVVLIYDTQKTSRGF 59
M L++VN D VGWY S D + F S + + YQ +VVLI D K+ +G
Sbjct: 65 MDEELKKVNKDLEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQGR 124
Query: 60 LTLKAYRLTP 69
L+L+A+RLTP
Sbjct: 125 LSLRAFRLTP 134
>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 = 36.3 bits (84), Expect = 0.005
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 1 MMRRLRRVNVDHYHVGWYQSSDVANFISLPLIESQFHYQ---ISIEEAVVLIYDTQKTS 56
++V VGWY N + ++ H Q IS E ++LI D S
Sbjct: 65 RYNLHKKVYPQEKIVGWYSIGS-NNSNEISKSDNSLHSQFSLISEENPLILILDPSLQS 122
>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 = 33.9 bits (78), Expect = 0.019
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 1 MMRRLRRVNVDHYHVGWYQS-SDVANFISLPLIESQFHYQISIEE 44
M+ L++VN D VGWY S ++S + +Q YQ I E
Sbjct: 73 MLEMLKKVNRDEEVVGWYHSHPGYGCWLSSVDVHTQELYQRMIPE 117
>gnl|CDD|181654 PRK09109, motC, flagellar motor protein; Reviewed.
Length = 246
Score = 30.3 bits (69), Expect = 0.58
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 90 VGFENLLLEVPV--KIRNSPLTNVLLSE--VDGLVSPAEGNN 127
V NLL +PV K+++ E V+GLV+ AEG N
Sbjct: 193 VASANLLF-LPVANKLKSIIHRQSRYREMLVEGLVAIAEGEN 233
>gnl|CDD|221989 pfam13224, DUF4032, Domain of unknown function (DUF4032). This
presumed domain is functionally uncharacterized. This
domain family is found in bacteria, and is approximately
170 amino acids in length. The family is found in
association with pfam06293.
Length = 165
Score = 28.7 bits (65), Expect = 1.7
Identities = 18/58 (31%), Positives = 23/58 (39%), Gaps = 17/58 (29%)
Query: 155 QENQAR----------AAKDEPPLPEED-----LNKIFRPI--PVPPRLSPMLMAAQV 195
QENQAR A D + EE L ++F P VP L L A++
Sbjct: 74 QENQARRLLNDLDSYRATTDGQDVDEEVAAHRWLTEVFEPTVRAVPRELRGKLEPAEL 131
>gnl|CDD|216269 pfam01056, Myc_N, Myc amino-terminal region. The myc family
belongs to the basic helix-loop-helix leucine zipper
class of transcription factors, see pfam00010. Myc forms
a heterodimer with Max, and this complex regulates cell
growth through direct activation of genes involved in
cell replication. Mutations in the C-terminal 20
residues of this domain cause unique changes in the
induction of apoptosis, transformation, and G2 arrest.
Length = 329
Score = 28.7 bits (64), Expect = 2.2
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 165 EPPLPEEDLNKIFRPIPVPPRLSP 188
+PP P ED+ K F +P PP LSP
Sbjct: 40 QPPAPSEDIWKKFELLPTPP-LSP 62
>gnl|CDD|214926 smart00942, PriCT_1, Primase C terminal 1 (PriCT-1). This alpha
helical domain is found at the C terminal of primases.
Length = 66
Score = 26.5 bits (59), Expect = 2.6
Identities = 9/25 (36%), Positives = 10/25 (40%), Gaps = 3/25 (12%)
Query: 156 ENQARAAKDEPPLPEEDLNKIFRPI 180
N A PPLPE +L K
Sbjct: 39 ANSANC---NPPLPERELEKTAESA 60
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 28.2 bits (64), Expect = 4.1
Identities = 14/35 (40%), Positives = 16/35 (45%), Gaps = 14/35 (40%)
Query: 79 EFTPEALRAI-------KVG-------FENLLLEV 99
EFT EAL AI K G E +LL+V
Sbjct: 344 EFTDEALEAIAKKAIERKTGARGLRSILEEILLDV 378
>gnl|CDD|236532 PRK09470, cpxA, two-component sensor protein; Provisional.
Length = 461
Score = 27.2 bits (61), Expect = 7.9
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 164 DEPPLPEEDLNKIFRP 179
D P +PEE+ +IFRP
Sbjct: 391 DGPGVPEEEREQIFRP 406
>gnl|CDD|238975 cd02017, TPP_E1_EcPDC_like, Thiamine pyrophosphate (TPP) family, E1
of E. coli PDC-like subfamily, TPP-binding module;
composed of proteins similar to the E1 component of the
Escherichia coli pyruvate dehydrogenase multienzyme
complex (PDC). PDC catalyzes the oxidative
decarboxylation of pyruvate and the subsequent
acetylation of coenzyme A to acetyl-CoA. The E1
component of PDC catalyzes the first step of the
multistep process, using TPP and a divalent cation as
cofactors. E. coli PDC is a homodimeric enzyme.
Length = 386
Score = 26.9 bits (60), Expect = 9.2
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 11/60 (18%)
Query: 131 LGTAFQQQVVRQAQDKHRYQAKRMQENQARAAKD--EPPLPEEDLNKIFRPIPVPPRLSP 188
LG A + + H +Q K+M E++ +A +D P+ +E L + P PP S
Sbjct: 322 LGAAGEGR-------NHAHQVKKMTEDELKALRDRFGIPVSDEQLEEG--PYYKPPEGSE 372
>gnl|CDD|226096 COG3566, COG3566, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 379
Score = 26.8 bits (59), Expect = 9.4
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 47 VLIYDTQKTSRGFLTLKAYRLTPQAIQMYKEGEFTPEALRAIKV 90
V + DT++T G+L + A R IQ Y E R I+V
Sbjct: 7 VTLTDTRRTKEGYLVVPA-RFARIGIQHYAAHELGLSDQRVIRV 49
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
0.319 0.132 0.373
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,607,320
Number of extensions: 1092026
Number of successful extensions: 1128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1125
Number of HSP's successfully gapped: 29
Length of query: 226
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 133
Effective length of database: 6,812,680
Effective search space: 906086440
Effective search space used: 906086440
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 (21.8 bits)
S2: 57 (25.8 bits)