RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10761
(365 letters)
>gnl|CDD|239743 cd03774, MATH_SPOP, Speckle-type POZ protein (SPOP) family, MATH
domain; composed of proteins with similarity to human
SPOP. SPOP was isolated as a novel antigen recognized by
serum from a scleroderma patient, whose overexpression
in COS cells results in a discrete speckled pattern in
the nuclei. It contains an N-terminal MATH domain and a
C-terminal BTB (also called POZ) domain. Together with
Cul3, SPOP constitutes an ubiquitin E3 ligase which is
able to ubiquitinate the PcG protein BMI1, the variant
histone macroH2A1 and the death domain-associated
protein Daxx. Therefore, SPOP may be involved in the
regulation of these proteins and may play a role in
transcriptional regulation, apoptosis and X-chromosome
inactivation. Cul3 binds to the BTB domain of SPOP
whereas Daxx and the macroH2A1 nonhistone region have
been shown to bind to the MATH domain. Both MATH and BTB
domains are necessary for the nuclear speckled
accumulation of SPOP. There are many proteins, mostly
uncharacterized, containing both MATH and BTB domains
from C. elegans and plants which are excluded from this
family.
Length = 139
Score = 274 bits (703), Expect = 3e-93
Identities = 128/139 (92%), Positives = 134/139 (96%)
Query: 19 KVVKFSYMWTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLY 78
KVVKF YMWTI+NFSFCREEMGEV+KSSTFS+GANDKLKWCLRVNPKGLDEESKDYLSLY
Sbjct: 1 KVVKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLY 60
Query: 79 LLLVSCNKTEVRAKFKFSILNAKREETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDELN 138
LLLVSC K+EVRAKFKFSILNAK EETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDE N
Sbjct: 61 LLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEAN 120
Query: 139 GLLPEDKLTIFCEVSVVAD 157
GLLP+DKLT+FCEVSVV D
Sbjct: 121 GLLPDDKLTLFCEVSVVQD 139
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab) or
POZ (for Pox virus and Zinc finger) domain is present
near the N-terminus of a fraction of zinc finger
(pfam00096) proteins and in proteins that contain the
pfam01344 motif such as Kelch and a family of pox virus
proteins. The BTB/POZ domain mediates homomeric
dimerisation and in some instances heteromeric
dimerisation. The structure of the dimerised PLZF
BTB/POZ domain has been solved and consists of a tightly
intertwined homodimer. The central scaffolding of the
protein is made up of a cluster of alpha-helices flanked
by short beta-sheets at both the top and bottom of the
molecule. POZ domains from several zinc finger proteins
have been shown to mediate transcriptional repression
and to interact with components of histone deacetylase
co-repressor complexes including N-CoR and SMRT. The POZ
or BTB domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 108 bits (271), Expect = 4e-29
Identities = 43/105 (40%), Positives = 55/105 (52%), Gaps = 4/105 (3%)
Query: 181 LGALFEIQKFSDVTLYSAGQEFRAHKAILAAQSPVFMAMFEHEMEERKHNRVDIADVDAD 240
L L E + DVTL +EF AHKA+LAA SP F A+F E + + DV +
Sbjct: 1 LNELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFTGNKEVE----ITLEDVSPE 56
Query: 241 VLREMLRFIYTGRSTSLDKMADDLLAAADKYALERLKVMCEEALC 285
+L FIYTG+ ++ DDLLA ADK + L CEE L
Sbjct: 57 DFEALLEFIYTGKLEITEENVDDLLALADKLQIPALIDKCEEFLI 101
>gnl|CDD|238068 cd00121, MATH, MATH (meprin and TRAF-C homology) domain; an
independent folding unit with an eight-stranded
beta-sandwich structure found in meprins, TRAFs and
other proteins. Meprins comprise a class of
extracellular metalloproteases which are anchored to the
membrane and are capable of cleaving growth factors,
extracellular matrix proteins, and biologically active
peptides. TRAF molecules serve as adapter proteins that
link cell surface receptors of the Tumor Necrosis Factor
and 1nterleukin-1/Toll-like families to downstream
kinase cascades, which results in the activation of
transcription factors and the regulation of cell
survival, proliferation and stress responses in the
immune and inflammatory systems. Other members include
the ubiquitin ligases, TRIM37 and SPOP, and the
ubiquitin-specific proteases, HAUSP and Ubp21p. A large
number of uncharacterized members mostly from
lineage-specific expansions in C. elegans and rice
contain MATH and BTB domains, similar to SPOP. The MATH
domain has been shown to bind peptide/protein substrates
in TRAFs and HAUSP. It is possible that the MATH domain
in other members of this superfamily also interacts with
various protein substrates. The TRAF domain may also be
involved in the trimerization of TRAFs. Based on
homology, it is postulated that the MATH domain in
meprins may be involved in its tetramer assembly and
that the MATH domain, in general, may take part in
diverse modular arrangements defined by adjacent
multimerization domains.
Length = 126
Score = 104 bits (261), Expect = 2e-27
Identities = 50/134 (37%), Positives = 63/134 (47%), Gaps = 13/134 (9%)
Query: 23 FSYMWTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLLV 82
+ W I NFS E GE + S F G KW +R+ P G D ES DYLSLYL L
Sbjct: 1 GKHTWKIVNFS---ELEGESIYSPPFEVG---GYKWRIRIYPNG-DGESGDYLSLYLELD 53
Query: 83 SC----NKTEVRAKFKFSILNAKREETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDELN 138
K VRA+F ++N ++ + + +G WGF KFI D L D
Sbjct: 54 KGESDLEKWSVRAEFTLKLVNQNGGKSLSKSFTHVFFSEKGSGWGFPKFISWDDLEDS-- 111
Query: 139 GLLPEDKLTIFCEV 152
L +D LTI EV
Sbjct: 112 YYLVDDSLTIEVEV 125
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac. Domain
in Broad-Complex, Tramtrack and Bric a brac. Also known
as POZ (poxvirus and zinc finger) domain. Known to be a
protein-protein interaction motif found at the N-termini
of several C2H2-type transcription factors as well as
Shaw-type potassium channels. Known structure reveals a
tightly intertwined dimer formed via interactions
between N-terminal strand and helix structures. However
in a subset of BTB/POZ domains, these two secondary
structures appear to be missing. Be aware SMART predicts
BTB/POZ domains without the beta1- and alpha1-secondary
structures.
Length = 97
Score = 96.2 bits (240), Expect = 1e-24
Identities = 37/97 (38%), Positives = 56/97 (57%)
Query: 192 DVTLYSAGQEFRAHKAILAAQSPVFMAMFEHEMEERKHNRVDIADVDADVLREMLRFIYT 251
DVTL G++F AHKA+LAA SP F A+F + +E + + + DV + R +L F+YT
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYT 60
Query: 252 GRSTSLDKMADDLLAAADKYALERLKVMCEEALCTNL 288
G+ ++ ++LL AD + L +CEE L L
Sbjct: 61 GKLDLPEENVEELLELADYLQIPGLVELCEEFLLKLL 97
>gnl|CDD|214496 smart00061, MATH, meprin and TRAF homology.
Length = 95
Score = 61.2 bits (149), Expect = 5e-12
Identities = 26/106 (24%), Positives = 41/106 (38%), Gaps = 18/106 (16%)
Query: 27 WTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCNK 86
T N S R E GE S + + W L++ K +LSLYL
Sbjct: 4 HTFKNVS--RLEEGESYFSPSEEHF---NIPWRLKIYRKN------GFLSLYLHCEKEEC 52
Query: 87 TE----VRAKFKFSILNAKREETKAMESQRAYRFVQGKDWGFKKFI 128
+ A+F +++ K++ + + F + WGF KFI
Sbjct: 53 DSRKWSIEAEFTLKLVSQ---NGKSLSKKDKHVFEKPSGWGFSKFI 95
>gnl|CDD|216189 pfam00917, MATH, MATH domain. This motif has been called the
Meprin And TRAF-Homology (MATH) domain. This domain is
hugely expanded in the nematode C. elegans.
Length = 116
Score = 55.8 bits (135), Expect = 8e-10
Identities = 35/135 (25%), Positives = 56/135 (41%), Gaps = 28/135 (20%)
Query: 29 INNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCNKTE 88
I NFS +E GE +S + + W LR+ G +L LYL C K E
Sbjct: 1 IKNFSKIKE--GENYYTSPYEERFG--IPWRLRIYRNG------GFLGLYL---HCEKGE 47
Query: 89 --------VRAKFKFSILNAK-REETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDELNG 139
+ +F +++ + TK +S + F + +G+ KFI D L N
Sbjct: 48 KDELLGWSIETEFTLKLVSDNGKSLTKRNKS---HVFTKPTGYGWGKFISWDDL---END 101
Query: 140 LLPEDKLTIFCEVSV 154
+ +D + I EV +
Sbjct: 102 YVVDDTIIIEAEVKI 116
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 54.0 bits (130), Expect = 5e-08
Identities = 34/136 (25%), Positives = 66/136 (48%), Gaps = 6/136 (4%)
Query: 183 ALFEIQKFSDVTL--YSAGQEFRAHKAILAAQSPVFMAMFEHEMEERKHNRVDIADVDAD 240
FE+QKF D ++ + G + HK IL++ S F MF++ +E N +++ D D
Sbjct: 2 YSFELQKFCDESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKE---NEINLNI-DYD 57
Query: 241 VLREMLRFIYTGRSTSLDKMADDLLAAADKYALERLKVMCEEALCTNLSIENAAEILILA 300
E++++IYTG+ D+L+ A+ ++ L +C + + N +I +
Sbjct: 58 SFNEVIKYIYTGKINITSNNVKDILSIANYLIIDFLINLCINYIIKIIDDNNCIDIYRFS 117
Query: 301 DLHSADQLKTQAIEFI 316
+ +L + A +I
Sbjct: 118 FFYGCKKLYSAAYNYI 133
>gnl|CDD|239742 cd03773, MATH_TRIM37, Tripartite motif containing protein 37
(TRIM37) family, MATH domain; TRIM37 is a peroxisomal
protein and is a member of the tripartite motif (TRIM)
protein subfamily, also known as the
RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger
proteins. Mutations in the human TRIM37 gene (also known
as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism,
a rare growth disorder of prenatal onset characterized
by dysmorphic features, pericardial constriction and
hepatomegaly. TRIM37, similar to other TRIMs, contains a
cysteine-rich, zinc-binding RING-finger domain followed
by another cysteine-rich zinc-binding domain, the B-box,
and a coiled-coil domain. TRIM37 is autoubiquitinated in
a RING domain-dependent manner, indicating that it
functions as an ubiquitin E3 ligase. In addition to the
tripartite motif, TRIM37 also contains a MATH domain
C-terminal to the coiled-coil domain. The MATH domain of
TRIM37 has been shown to interact with the TRAF domain
of six known TRAFs in vitro, however, it is unclear
whether this is physiologically relevant. Eleven TRIM37
mutations have been associated with Mulibrey nanism so
far. One mutation, Gly322Val, is located in the MATH
domain and is the only mutation that does not affect the
length of the protein. It results in the incorrect
subcellular localization of TRIM37.
Length = 132
Score = 50.5 bits (121), Expect = 7e-08
Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 6/122 (4%)
Query: 28 TINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCNKT 87
T+ NFS R+ + + S D L W L+V P G E ++LS++L L S
Sbjct: 10 TLENFSTLRQS-ADPVYSDPL---NVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSGLGE 65
Query: 88 EVRAKFKFSILNAKREETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLT 147
+ +++ +++ + TK ++ + A F G+ WG+ +F R D L++E LLPE+
Sbjct: 66 ASKYEYRVEMVH-QANPTKNIKREFASDFEVGECWGYNRFFRLDLLINE-GYLLPENDTL 123
Query: 148 IF 149
I
Sbjct: 124 IL 125
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 49.2 bits (117), Expect = 2e-06
Identities = 32/108 (29%), Positives = 55/108 (50%), Gaps = 4/108 (3%)
Query: 176 RLADNLGALFEIQKFSDVTL-YSAGQEFRAHKAILAAQSPVFMAMFEHEMEERKH-NRVD 233
R+ N+ L + DV + G+E +AHK ILAA S F +F M R RV+
Sbjct: 11 RVVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVN 70
Query: 234 IADVDADVLREMLRFIYTGRSTSLDKMADDLLAAADKYALERLKVMCE 281
+ D D ++ +++++Y +S++ + D+L AD ++ L CE
Sbjct: 71 LQMFDKDAVKNIVQYLYNRHISSMNVI--DVLKCADYLLIDDLVTDCE 116
>gnl|CDD|239745 cd03776, MATH_TRAF6, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily,
TRAF domain, C-terminal MATH subdomain; composed of
proteins with similarity to human TRAF6, including the
Drosophila protein DTRAF2. TRAF molecules serve as
adapter proteins that link TNFRs and downstream kinase
cascades resulting in the activation of transcription
factors and the regulation of cell survival,
proliferation and stress responses. TRAF6 is the most
divergent in its TRAF domain among the mammalian TRAFs.
In addition to mediating TNFR family signaling, it is
also an essential signaling molecule of the
interleukin-1/Toll-like receptor superfamily. Whereas
other TRAF molecules display similar and overlapping
TNFR-binding specificities, TRAF6 binds completely
different sites on receptors such as CD40 and RANK.
TRAF6 serves as a molecular bridge between innate and
adaptive immunity and plays a central role in
osteoimmunology. DTRAF2, as an activator of nuclear
factor-kappaB, plays a pivotal role in Drosophila
development and innate immunity. TRAF6 contains a RING
finger domain, five zinc finger domains, and a TRAF
domain. The TRAF domain can be divided into a more
divergent N-terminal alpha helical region (TRAF-N), and
a highly conserved C-terminal MATH subdomain (TRAF-C)
with an eight-stranded beta-sandwich structure. TRAF-N
mediates trimerization while TRAF-C interacts with
receptors.
Length = 147
Score = 40.0 bits (94), Expect = 4e-04
Identities = 36/151 (23%), Positives = 57/151 (37%), Gaps = 28/151 (18%)
Query: 25 YMWTINNFSFCREEMGE----VLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLL 80
Y+W I NFS R M V+ S F K C R+N + +Y+SL++
Sbjct: 3 YVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPG-YKLCARLNLSLPEARCPNYISLFVH 61
Query: 81 LVSCNKTE--------VRAKFKFSILNAKREE---TKAMES-------QRAYRFVQGKDW 122
L+ + E + ++L+ + M S QR K +
Sbjct: 62 LM---QGENDSHLDWPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGF 118
Query: 123 GFKKFIRRDFLLDELNGLLPEDKLTIFCEVS 153
G+ +F + LL G + D L I EV+
Sbjct: 119 GYVEFAHIEDLLQR--GFVKNDTLLIKIEVN 147
>gnl|CDD|239744 cd03775, MATH_Ubp21p, Ubiquitin-specific protease 21 (Ubp21p)
family, MATH domain; composed of fungal proteins with
similarity to Ubp21p of fission yeast. Ubp21p is a
deubiquitinating enzyme that may be involved in the
regulation of the protein kinase Prp4p, which controls
the formation of active spliceosomes. Members of this
family are similar to human HAUSP
(Herpesvirus-associated ubiquitin-specific protease) in
that they contain an N-terminal MATH domain and a
C-terminal catalytic protease (C19 family) domain. HAUSP
is also an ubiquitin-specific protease that specifically
catalyzes the deubiquitylation of p53 and MDM2. The MATH
domain of HAUSP contains the binding site for p53 and
MDM2. Similarly, the MATH domain of members in this
family may be involved in substrate binding.
Length = 134
Score = 37.7 bits (88), Expect = 0.002
Identities = 34/139 (24%), Positives = 56/139 (40%), Gaps = 23/139 (16%)
Query: 23 FSYMWTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYL--- 79
S+ W I N+S E+ + + S F G +W + + P+G +S+YL
Sbjct: 1 QSFTWRIKNWS----ELEKKVHSPKFKCGG---FEWRILLFPQG--NSQTGGVSIYLEPH 51
Query: 80 -----LLVSCNKTEVRAKFKFSILNAKREETKAMESQRAYRFV-QGKDWGFKKFIRRDFL 133
V A+F I N + + + + +RF + KDWGF +FI L
Sbjct: 52 PEEEEKAPLDEDWSVCAQFALVISN-PGDPSIQLSNVAHHRFNAEDKDWGFTRFIELRKL 110
Query: 134 L----DELNGLLPEDKLTI 148
D+ + L +L I
Sbjct: 111 AHRTPDKPSPFLENGELNI 129
>gnl|CDD|239741 cd03772, MATH_HAUSP, Herpesvirus-associated ubiquitin-specific
protease (HAUSP, also known as USP7) family, N-terminal
MATH (TRAF-like) domain; composed of proteins similar to
human HAUSP, an enzyme that specifically catalyzes the
deubiquitylation of p53 and MDM2, hence playing an
important role in the p53-MDM2 pathway. It contains an
N-terminal TRAF-like domain and a C-terminal catalytic
protease (C19 family) domain. The tumor suppressor p53
protein is a transcription factor that responds to many
cellular stress signals and is regulated primarily
through ubiquitylation and subsequent degradation. MDM2
is a RING-finger E3 ubiquitin ligase that promotes p53
ubiquitinylation. p53 and MDM2 bind to the same site in
the N-terminal TRAF-like domain of HAUSP in a mutually
exclusive manner. HAUSP also interacts with the
Epstein-Barr nuclear antigen 1 (EBNA1) protein of the
Epstein-Barr virus (EBV), which efficiently immortalizes
infected cells predisposing the host to a variety of
cancers. EBNA1 plays several important roles in EBV
latent infection and cellular transformation. It binds
the same pocket as p53 in the HAUSP TRAF-like domain.
Through interactions with p53, MDM2 and EBNA1, HAUSP
plays a role in cell proliferation, apoptosis and
EBV-mediated immortalization.
Length = 137
Score = 36.7 bits (85), Expect = 0.005
Identities = 36/142 (25%), Positives = 54/142 (38%), Gaps = 18/142 (12%)
Query: 22 KFSYMWTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLL 81
FS+ T+ FS E + L F L W + V P+ + + S+ L
Sbjct: 4 TFSF--TVERFSRLSESV---LSPPCFVRN----LPWKIMVMPRNYPDRNPHQKSVGFFL 54
Query: 82 VSCNKTE------VRAKFKFSILNAKREETKAMESQRAYRFVQGKDWGFKKFIRRDFLLD 135
CN A+ I+N K +E F + DWGF F+ + D
Sbjct: 55 -QCNAESDSTSWSCHAQAVLRIINYKDDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTD 113
Query: 136 ELNGLLPEDKLTIFCEVSVVAD 157
G + +D +T+ EV V AD
Sbjct: 114 PEKGFIEDDTITL--EVYVQAD 133
>gnl|CDD|238168 cd00270, MATH_TRAF_C, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF domain,
C-terminal MATH subdomain; TRAF molecules serve as
adapter proteins that link cell surface TNFRs and
receptors of the interleukin-1/Toll-like family to
downstream kinase signaling cascades which results in
the activation of transcription factors and the
regulation of cell survival, proliferation and stress
responses in the immune and inflammatory systems. There
are at least six mammalian and three Drosophila
proteins containing TRAF domains. The mammalian TRAFs
display varying expression profiles, indicating
independent and cell type-specific regulation. They
display distinct, as well as overlapping functions and
interactions with receptors. Most TRAFs, except TRAF1,
share N-terminal homology and contain a RING domain,
multiple zinc finger domains, and a TRAF domain. TRAFs
form homo- and heterotrimers through its TRAF domain.
The TRAF domain can be divided into a more divergent
N-terminal alpha helical region (TRAF-N), and a highly
conserved C-terminal MATH subdomain (TRAF-C) with an
eight-stranded beta-sandwich structure. TRAF-N mediates
trimerization while TRAF-C interacts with receptors.
Length = 149
Score = 32.2 bits (74), Expect = 0.17
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 7/62 (11%)
Query: 25 YMWTINNFSFCREEMGE----VLKSSTFSAGAND-KLKWCLRVNPKGLDEESKDYLSLYL 79
+W I ++S +E VL S F KL CLR+ G +LSL++
Sbjct: 3 LIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKL--CLRLYLNGDGTGKGTHLSLFV 60
Query: 80 LL 81
+
Sbjct: 61 HV 62
>gnl|CDD|149006 pfam07707, BACK, BTB And C-terminal Kelch. This domain is found
associated with pfam00651 and pfam01344. The BACK domain
is found juxtaposed to the BTB domain; they are
separated by as little as two residues. This family
appears to be closely related to the BTB domain (Finn
RD, personal observation).
Length = 101
Score = 31.4 bits (72), Expect = 0.19
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 11/63 (17%)
Query: 296 ILILADLHSADQLKTQAIEFINTHATEVMDTVGWKQM-------ILSHPHLIA----EAF 344
I AD + ++L A+ FI + EV + + ++ +LS L E F
Sbjct: 4 IYRFADTYGCEELAEVALRFILKNFLEVSKSEEFLELSKEQLLELLSSDELNVPSEEEVF 63
Query: 345 RAL 347
A+
Sbjct: 64 EAV 66
>gnl|CDD|227409 COG5077, COG5077, Ubiquitin carboxyl-terminal hydrolase
[Posttranslational modification, protein turnover,
chaperones].
Length = 1089
Score = 33.7 bits (77), Expect = 0.19
Identities = 37/142 (26%), Positives = 60/142 (42%), Gaps = 16/142 (11%)
Query: 24 SYMWTINNFSFCREEMGEVLKSSTFSAGANDKLKWCLRVNPKG-LDEESKDYLSLY---L 79
S+ W + +S E+ + ++S FS G + W + + P+G YL L
Sbjct: 40 SFTWKVKRWS----ELAKKVESPPFSVGGH---TWKIILFPQGNNQCNVSVYLEYEPQEL 92
Query: 80 LLVSCNKTEVRAKFKFSILNAKREETKAMESQRAYRF-VQGKDWGFKKFIRRDFLLDELN 138
+ A+F F I N + T ++ +RF ++ DWGF FI + L++
Sbjct: 93 EETGGKYYDCCAQFAFDISN-PKYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSP 151
Query: 139 GLLP---EDKLTIFCEVSVVAD 157
G P E L I V V+ D
Sbjct: 152 GRPPFLEEGTLVITVYVRVLKD 173
>gnl|CDD|197943 smart00875, BACK, BTB And C-terminal Kelch. The BACK domain is
found juxtaposed to the BTB domain; they are separated
by as little as two residues.
Length = 101
Score = 30.4 bits (69), Expect = 0.41
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 295 EILILADLHSADQLKTQAIEFINTHATEVMDTVGWKQMILSHPHLIA 341
I AD H ++L +A+ FI + +EV + + + L L+
Sbjct: 3 GIRRFADAHGLEELAEKALRFILQNFSEVSSSEEFLE--LPLEQLLE 47
>gnl|CDD|235264 PRK04247, PRK04247, hypothetical protein; Provisional.
Length = 238
Score = 31.0 bits (71), Expect = 0.78
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 330 KQMILSHPHLIAEAFRALATQQIPPIGP 357
IL +P LI E FR LA + P G
Sbjct: 134 VDRILENPDLIEEGFRPLAREYPTPAGI 161
>gnl|CDD|224552 COG1637, COG1637, Predicted nuclease of the RecB family [DNA
replication, recombination, and repair].
Length = 253
Score = 30.0 bits (68), Expect = 1.6
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 330 KQMILSHPHLIAEAFRALATQQIPPIGP 357
+++I +P L+ E FR +A + IG
Sbjct: 135 QELIAENPQLLEEGFRPVAREYQTAIGK 162
>gnl|CDD|218459 pfam05137, PilN, Fimbrial assembly protein (PilN).
Length = 78
Score = 27.6 bits (62), Expect = 2.5
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 10/69 (14%)
Query: 133 LLDELNGLLPED-KLTIFCEVSVVADSVNISGQSNAAQFKVPDCRLADNLGALFEIQKFS 191
LLDEL LLP+ LT + +++ ISG + + R+A + L + F
Sbjct: 2 LLDELARLLPDGVWLT---SLKQDGNTLTISGVAESNA------RVAALMRNLEQSPLFE 52
Query: 192 DVTLYSAGQ 200
DV L S
Sbjct: 53 DVELVSIVA 61
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 29.6 bits (66), Expect = 2.7
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 34 FCREEMGEVLKSSTFSAGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVS--CNKTEVRA 91
CR E V+ +++ A D+ +W R G+ E +D L+S C K++
Sbjct: 102 LCRTETEAVVFTASSPADITDRRQWKGREEKVGIFYEGEDVRDEMEDLLSFKCPKSKCHR 161
Query: 92 KFKF 95
+
Sbjct: 162 RCGS 165
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 29.8 bits (67), Expect = 3.0
Identities = 25/116 (21%), Positives = 37/116 (31%), Gaps = 5/116 (4%)
Query: 253 RSTSLDKMADDLLAAADKYALERL--KVMCEE--ALCTNLSIENAAEILILADLHSADQL 308
R T L D ++AA +K + M L + +E AA I ADL
Sbjct: 601 RGTGLMGHNDIIVAAIEKAGVRTYSTDEMAFNLLGLASAEVVELAASSPITADLTGGLGE 660
Query: 309 KTQAIEFINTHATEVMDTVGWKQMILSHPHLIAEAFRALATQQIPPIGPPRKRVKQ 364
+ E+M+ + + PH IA PR +K
Sbjct: 661 VPLLKAELAALRRELMEAAEARDAVAEEPHTIAALPSPPRPFT-QTPPQPRANLKV 715
>gnl|CDD|145227 pfam01939, DUF91, Protein of unknown function DUF91. The function
of this prokaryotic protein is unknown.
Length = 228
Score = 28.6 bits (64), Expect = 4.3
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 332 MILSHPHLIAEAFRALATQQIPPIGP 357
+I HP LI E F+ + + G
Sbjct: 112 LIFEHPQLIEEGFKPVRREYQIAHGI 137
>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional.
Length = 981
Score = 29.0 bits (65), Expect = 4.8
Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 200 QEFRAHKAILAAQSPVFMAMFEHE--MEERKHNRVDIADVD-ADVLR----EMLRFIYTG 252
E R K + + Q FM M+ H + ++K+ I DV+ D LR + +R Y
Sbjct: 30 DELRLGKMVQSTQFDGFMPMWNHASCILKKKNQIKSIDDVEGIDSLRWEDQQKIR-KYVE 88
Query: 253 RSTSLDKMADDLLAAADKYALE 274
+ A D A++ +Y +E
Sbjct: 89 SGGTGTGTASDAAASSFEYGIE 110
>gnl|CDD|237009 PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed.
Length = 451
Score = 27.9 bits (63), Expect = 9.4
Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 2/53 (3%)
Query: 187 IQKFSD--VTLYSAGQEFRAHKAILAAQSPVFMAMFEHEMEERKHNRVDIADV 237
I K D + S G E A I+A PV ++F + V
Sbjct: 245 IDKSGDGYEIVLSNGGEIEADAVIVAVPHPVLPSLFVAPPAFALFKTIPSTSV 297
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
0.323 0.134 0.393
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,521,719
Number of extensions: 1789938
Number of successful extensions: 1544
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1533
Number of HSP's successfully gapped: 36
Length of query: 365
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 267
Effective length of database: 6,590,910
Effective search space: 1759772970
Effective search space used: 1759772970
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 (22.0 bits)
S2: 60 (26.9 bits)