RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043469
(104 letters)
>gnl|CDD|107221 cd06464, ACD_sHsps-like, Alpha-crystallin domain (ACD) of
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (ACD). sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps.
Length = 88
Score = 80.7 bits (200), Expect = 2e-21
Identities = 32/96 (33%), Positives = 45/96 (46%), Gaps = 8/96 (8%)
Query: 8 NVSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRRE 67
+V E YV+ ++PG DI+VEV+D LT+ + E Y RRE
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDGVLTISGEREEE--------EEEEENYLRRE 52
Query: 68 YGGEPYQIVWTLPTNVDKDTISAEFLNGLLQIIIPK 103
+ + LP +VD D I A NG+L I +PK
Sbjct: 53 RSYGSFSRSFRLPEDVDPDKIKASLENGVLTITLPK 88
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 76.6 bits (189), Expect = 2e-19
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 7/102 (6%)
Query: 2 EWSPRMNVSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSIS 61
+P +++ E Y +T E+PGV DI + V+ LT+ + E
Sbjct: 38 TGTPPVDIEETDDEYRITAELPGVDKEDIEITVEGNTLTIRGEREEE-------EEEEEE 90
Query: 62 AYHRREYGGEPYQIVWTLPTNVDKDTISAEFLNGLLQIIIPK 103
Y RRE ++ + LP VD + I A++ NGLL + +PK
Sbjct: 91 GYLRRERAYGEFERTFRLPEKVDPEVIKAKYKNGLLTVTLPK 132
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR).
Length = 80
Score = 71.5 bits (176), Expect = 4e-18
Identities = 29/95 (30%), Positives = 44/95 (46%), Gaps = 15/95 (15%)
Query: 9 VSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRREY 68
+ V+TV++PGV DI+VEV+D LT+ K E RE
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNVLTISGKREEE---------------EERER 45
Query: 69 GGEPYQIVWTLPTNVDKDTISAEFLNGLLQIIIPK 103
++ + LP +VD + A NG+L+I +PK
Sbjct: 46 SYGEFERSFELPEDVDPEKSKASLENGVLEITLPK 80
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 60.3 bits (147), Expect = 2e-13
Identities = 23/93 (24%), Positives = 45/93 (48%), Gaps = 17/93 (18%)
Query: 16 YVMTVEIPGVHVNDIRVEVDDRKLTVMAKH----STECWKVAGCSNGSISAYHRREYGGE 71
+V+ +++PG +++V+V+D ++ V KH + + S S + R+
Sbjct: 9 FVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEEEDDHGLRSERSYRS---FSRK----- 60
Query: 72 PYQIVWTLPTNVDKDTISAEFLNGLLQIIIPKL 104
+ LP N D D + A +G+L + +PKL
Sbjct: 61 -----FVLPENADPDKVKASLKDGVLTVTVPKL 88
>gnl|CDD|107228 cd06471, ACD_LpsHSP_like, Group of bacterial proteins containing an
alpha crystallin domain (ACD) similar to Lactobacillus
plantarum (Lp) small heat shock proteins (sHsp) HSP
18.5, HSP 18.55 and HSP 19.3. sHsps are molecular
chaperones that suppress protein aggregation and protect
against cell stress, and are generally active as large
oligomers consisting of multiple subunits. Transcription
of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is
regulated by a variety of stresses including heat, cold
and ethanol. Early growing L. plantarum cells contain
elevated levels of these mRNAs which rapidly fall of as
the cells enter stationary phase. Also belonging to this
group is Bifidobacterium breve (Bb) HSP20 and Oenococcus
oenis (syn. Leuconostoc oenos) (Oo) HSP18.
Transcription of the gene encoding BbHSP20 is strongly
induced following heat or osmotic shock, and that of the
gene encoding OoHSP18 following heat, ethanol or acid
shock. OoHSP18 is peripherally associated with the
cytoplasmic membrane.
Length = 93
Score = 56.3 bits (137), Expect = 6e-12
Identities = 32/96 (33%), Positives = 51/96 (53%), Gaps = 8/96 (8%)
Query: 9 VSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRRE- 67
+ E Y++ ++PG DI+++ D LT+ AK K G+ Y RRE
Sbjct: 5 IKETDDEYIVEADLPGFKKEDIKLDYKDGYLTISAKRDES--KDEKDKKGN---YIRRER 59
Query: 68 YGGEPYQIVWTLPTNVDKDTISAEFLNGLLQIIIPK 103
Y G + + LP NVD++ I A++ NG+L+I +PK
Sbjct: 60 YYGS-FSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>gnl|CDD|107229 cd06472, ACD_ScHsp26_like, Alpha crystallin domain (ACD) found in
Saccharomyces cerevisiae (Sc) small heat shock protein
(Hsp)26 and similar proteins. sHsps are molecular
chaperones that suppress protein aggregation and protect
against cell stress, and are generally active as large
oligomers consisting of multiple subunits. ScHsp26 is
temperature-regulated, it switches from an inactive to a
chaperone-active form upon elevation in temperature. It
associates into large 24-mers storage forms which upon
heat shock disassociate into dimers. These dimers
initiate the interaction with non-native substrate
proteins and re-assemble into large globular assemblies
having one monomer of substrate bound per dimer. This
group also contains Arabidopsis thaliana (Ath) Hsp15.7,
a peroxisomal matrix protein which can complement the
morphological phenotype of S. cerevisiae mutants
deficient in Hsps26. AthHsp15.7 is minimally expressed
under normal conditions and is strongly induced by heat
and oxidative stress. Also belonging to this group is
wheat HSP16.9 which differs in quaternary structure from
the shell-type particles of ScHsp26, it assembles as a
dodecameric double disc, with each disc organized as a
trimer of dimers.
Length = 92
Score = 51.9 bits (125), Expect = 3e-10
Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 8/99 (8%)
Query: 6 RMNVSELGSNYVMTVEIPGVHVNDIRVEVDD-RKLTVMAKHSTECWKVAGCSNGSISAYH 64
R++ E +V ++PGV D++VEV+D R L + S E K G +H
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRI----SGE-RKKEEEKKGD--DWH 53
Query: 65 RREYGGEPYQIVWTLPTNVDKDTISAEFLNGLLQIIIPK 103
R E + + LP N D D + A NG+L + +PK
Sbjct: 54 RVERSSGRFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|107247 cd06526, metazoan_ACD, Alpha-crystallin domain (ACD) of metazoan
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (ACD). sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps.
Length = 83
Score = 42.9 bits (102), Expect = 6e-07
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 15/96 (15%)
Query: 9 VSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRREY 68
V++ + +T+++ G +++V+V D KL V KH +G +S R Y
Sbjct: 2 VNDDDEKFQVTLDVKGFKPEELKVKVSDNKLVVEGKHEERE-----DEHGYVSREFTRRY 56
Query: 69 GGEPYQIVWTLPTNVDKDTISAEF-LNGLLQIIIPK 103
LP VD D++++ +G+L I PK
Sbjct: 57 ---------QLPEGVDPDSVTSSLSSDGVLTIEAPK 83
>gnl|CDD|107220 cd06463, p23_like, Proteins containing this p23_like domain include
p23 and its Saccharomyces cerevisiae (Sc) homolog Sba1.
Both are co-chaperones for the heat shock protein (Hsp)
90. p23 binds Hsp90 and participates in the folding of
a number of Hsp90 clients, including the progesterone
receptor. p23 also has a passive chaperoning activity
and in addition may participate in prostaglandin
synthesis. Both p23 and Sba1p can regulate telomerase
activity. This group includes domains similar to the
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1). Sgt1 interacts with multiple
protein complexes and has the features of a
co-chaperone. Human (h) Sgt1 interacts with both Hsp70
and Hsp90, and has been shown to bind Hsp90 through its
CS domain. Saccharomyces cerevisiae (Sc) Sgt1 is a
subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. This group
also includes the p23_like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR). hB-ind1 plays a role in the
signaling pathway mediated by the small GTPase Rac1,
NUDC is needed for nuclear movement, Melusin interacts
with two splice variants of beta1 integrin, and NCB5OR
plays a part in maintaining viable pancreatic beta
cells.
Length = 84
Score = 31.5 bits (72), Expect = 0.016
Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 22/87 (25%)
Query: 17 VMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRREYGGEPYQIV 76
+T+ + V D++VE + LTV K GG+ Y +
Sbjct: 9 TITIPLKDVTKKDVKVEFTPKSLTVSVKGG----------------------GGKEYLLE 46
Query: 77 WTLPTNVDKDTISAEFLNGLLQIIIPK 103
L +D + + ++I + K
Sbjct: 47 GELFGPIDPEESKWTVEDRKIEITLKK 73
>gnl|CDD|107227 cd06470, ACD_IbpA-B_like, Alpha-crystallin domain (ACD) found in
Escherichia coli inclusion body-associated proteins
IbpA and IbpB, and similar proteins. IbpA and IbpB are
16 kDa small heat shock proteins (sHsps). sHsps are
molecular chaperones that suppress protein aggregation
and protect against cell stress, and are generally
active as large oligomers consisting of multiple
subunits. IbpA and IbpB are produced during high-level
production of various heterologous proteins,
specifically human prorenin, renin and bovine
insulin-like growth factor 2 (bIGF-2), and are strongly
associated with inclusion bodies containing these
heterologous proteins. IbpA and IbpB work as an
integrated system to stabilize thermally aggregated
proteins in a disaggregation competent state. The
chaperone activity of IbpB is also significantly
elevated as the temperature increases from normal to
heat shock. The high temperature results in the
disassociation of 2-3-MDa IbpB oligomers into smaller
approximately 600-kDa structures. This elevated
activity seen under heat shock conditions is retained
for an extended period of time after the temperature is
returned to normal. IbpA also forms multimers.
Length = 90
Score = 29.0 bits (66), Expect = 0.15
Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 5 PRMNVSELG-SNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTE 48
P N+ + G +NY +T+ + G +D+ +EV++ +LTV K + E
Sbjct: 1 PPYNIEKTGENNYRITLAVAGFSEDDLEIEVENNQLTVTGKKADE 45
>gnl|CDD|217312 pfam03000, NPH3, NPH3 family. Phototropism of Arabidopsis thaliana
seedlings in response to a blue light source is
initiated by nonphototropic hypocotyl 1 (NPH1), a
light-activated serine-threonine protein kinase.
Mutations in NPH3 disrupt early signaling occurring
downstream of the NPH1 photoreceptor. The NPH3 gene
encodes a NPH1-interacting protein. NPH3 is a member of
a large protein family, apparently specific to higher
plants, and may function as an adapter or scaffold
protein to bring together the enzymatic components of a
NPH1-activated phosphorelay.
Length = 249
Score = 27.6 bits (62), Expect = 1.1
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 75 IVWTLPTNVDKDTISAEFLNGLLQIII 101
IV LP+ +K ++S FL LL+ I
Sbjct: 69 IVSLLPS--EKGSVSCSFLFKLLRAAI 93
>gnl|CDD|107237 cd06482, ACD_HspB10, Alpha crystallin domain (ACD) found in
mammalian small heat shock protein (sHsp) HspB10, also
known as sperm outer dense fiber protein (ODFP), and
similar proteins. sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Human (h) HspB10
occurs exclusively in the axoneme of sperm cells and
may have a cytoskeletal role.
Length = 87
Score = 26.0 bits (57), Expect = 2.5
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 7 MNVSELGSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKH 45
+ S SN + +V++ G + ++V+V D K+ V A+
Sbjct: 1 LAASCDSSNVLASVDVCGFEPDQVKVKVKDGKVQVSAER 39
>gnl|CDD|235190 PRK03991, PRK03991, threonyl-tRNA synthetase; Validated.
Length = 613
Score = 26.8 bits (60), Expect = 2.6
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 28 NDIRVEVDDRKLTV 41
IRV+VDDR ++
Sbjct: 525 AGIRVDVDDRDESL 538
>gnl|CDD|165425 PHA03154, PHA03154, hypothetical protein; Provisional.
Length = 304
Score = 26.2 bits (57), Expect = 3.7
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 66 REYGGEPYQIVWTLPTN---VDKDTISAEFLNGLLQIIIPKL 104
R Y + Y ++ L N VD + I AEF N +L ++PK
Sbjct: 3 RLYQPQRYSLISDLHKNFHYVDINVIKAEFKNVILDTVVPKF 44
>gnl|CDD|165374 PHA03092, PHA03092, semaphorin-like protein; Provisional.
Length = 134
Score = 25.7 bits (56), Expect = 3.9
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 14/64 (21%)
Query: 14 SNYVMTVEIPGVHVNDIRVEVDDRKLTVMAKHSTECWKVAGCSNGSISAYHRREYGGEPY 73
+NY+ T I+VE D + + +CWK+ G N +R +G PY
Sbjct: 60 TNYITT---------SIKVEDKDTLVCGTNNGNPKCWKIDGSDNTI-----KRSFGHRPY 105
Query: 74 QIVW 77
+I +
Sbjct: 106 RIYF 109
>gnl|CDD|107239 cd06489, p23_CS_hSgt1_like, p23_like domain similar to the
C-terminal CS (CHORD-SGT1) domain of human (h) Sgt1 and
related proteins. hSgt1 is a co-chaperone which has
been shown to be elevated in HEp-2 cells as a result of
stress conditions such as heat shock. It interacts with
the heat shock proteins (HSPs) Hsp70 and Hsp90, and it
expression pattern is synchronized with these two Hsps.
The interaction with HSP90 has been shown to involve
the hSgt1_CS domain, and appears to be required for
correct kinetochore assembly and efficient cell
division. Some proteins in this subgroup contain a
tetratricopeptide repeat (TPR) HSP-binding domain
N-terminal to this CS domain, and most proteins in this
subgroup contain a Sgt1-specific (SGS) domain
C-terminal to the CS domain. The SGS domain interacts
with some S100 family proteins. Studies suggest that
S100A6 modulates in a Ca2+ dependent manner the
interactions of hSgt1 with Hsp90 and Hsp70. The yeast
Sgt1 CS domain is not found in this subgroup.
Length = 84
Score = 25.0 bits (55), Expect = 4.0
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 14 SNYVMTVEIPGVHVNDIRVEVDDRKLTVMAK 44
S V+T+ I V D+ VE + R+L+ K
Sbjct: 7 SQVVITILIKNVKPEDVSVEFEKRELSATVK 37
>gnl|CDD|219122 pfam06650, DUF1162, Protein of unknown function (DUF1162). This
family represents a conserved region within several
hypothetical eukaryotic proteins. Family members might
be vacuolar protein sorting related-proteins.
Length = 271
Score = 25.7 bits (57), Expect = 5.7
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 2 EWSPRMNVSELGSNYVMTVEIPGVHVNDIRVEV 34
+WS N+S++G+ YV +RVE+
Sbjct: 171 KWSGPFNISDVGTTYVKLRRENSRQGL-LRVEI 202
>gnl|CDD|238283 cd00512, MM_CoA_mutase, Coenzyme B12-dependent-methylmalonyl
coenzyme A (CoA) mutase (MCM)-like family; contains
proteins similar to MCM, and the large subunit of
Streptomyces coenzyme B12-dependent isobutyryl-CoA
mutase (ICM). MCM catalyzes the isomerization of
methylmalonyl-CoA to succinyl-CoA. The reaction proceeds
via radical intermediates beginning with a
substrate-induced homolytic cleavage of the Co-C bond of
coenzyme B12 to produce cob(II)alamin and the
deoxyadenosyl radical. MCM plays an important role in
the conversion of propionyl-CoA to succinyl-CoA during
the degradation of propionate for the Krebs cycle. In
higher animals, MCM is involved in the breakdown of
odd-chain fatty acids, several amino acids, and
cholesterol. Methylobacterium extorquens MCM
participates in the glyoxylate regeneration pathway. In
M. extorquens, MCM forms a complex with MeaB; MeaB may
protect MCM from irreversible inactivation. In some
bacteria, MCM is involved in the reverse metabolic
reaction, the rearrangement of succinyl-CoA to
methylmalonyl-CoA. Examples include Propionbacterium
shermanni MCM during propionic acid fermentation, E.coli
MCM in a pathway for the conversion of succinate to
propionate and Streptomyces MCM in polyketide
biosynthesis. P. shermanni and Streptomyces
cinnamonensis MCMs are alpha/beta heterodimers, with
both subunits being homologous members of this family.
It has been shown for P. shermanni MCM that only the
alpha subunit binds coenzyme B12 and substrates. Human
MCM is a homodimer with two active sites. Mouse and
E.coli MCMs are also homodimers. ICM from S.
cinnamonensis is comprised of a large and a small
subunit. The holoenzyme appears to be an alpha2beta2
heterotetramer with up to 2 molecules of coenzyme B12
bound. The small subunit binds coenzyme B12. ICM
catalyzes the reversible rearrangement of n-butyryl-CoA
to isobutyryl-CoA (intermediates in fatty acid and
valine catabolism, which in S. cinnamonensis can be
converted to methylmalonyl-CoA and used in polyketide
synthesis). In humans, impaired activity of MCM results
in methylmalonic aciduria, a disorder of propionic acid
metabolism.
Length = 399
Score = 25.5 bits (56), Expect = 6.2
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 39 LTVMAKHSTECWKVAGCSNG-SISAYHRREYGGEPYQ-IVWTLPTNVD 84
L V+ C N SIS YH +E G P Q + +TL T ++
Sbjct: 136 LRVLGDIIEYCSANIPKWNPVSISGYHMQEAGATPVQELAYTLATGIE 183
>gnl|CDD|226686 COG4233, COG4233, Uncharacterized protein predicted to be
involved in C-type cytochrome biogenesis
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 273
Score = 25.1 bits (55), Expect = 7.9
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 69 GGEPYQIVWTLPTNVDKDTIS 89
G P QI W LP+ V +
Sbjct: 72 AGVPPQITWDLPSGVSLAEMH 92
>gnl|CDD|239652 cd03680, MM_CoA_mutase_ICM_like, Coenzyme
B12-dependent-methylmalonyl coenzyme A (CoA) mutase
(MCM) family, isobutyryl-CoA mutase (ICM)-like
subfamily; contains archaeal and bacterial proteins
similar to the large subunit of Streptomyces
cinnamonensis coenzyme B12-dependent ICM. ICM from S.
cinnamonensis is comprised of a large and a small
subunit. The holoenzyme appears to be an alpha2beta2
heterotetramer with up to 2 molecules of coenzyme B12
bound. The small subunit binds coenzyme B12. ICM
catalyzes the reversible rearrangement of n-butyryl-CoA
to isobutyryl-CoA, intermediates in fatty acid and
valine catabolism, which in S. cinnamonensis can be
converted to methylmalonyl-CoA and used in polyketide
synthesis.
Length = 538
Score = 24.9 bits (55), Expect = 9.0
Identities = 11/22 (50%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 59 SISAYHRREYGGEPYQ-IVWTL 79
SIS YH RE G Q + +TL
Sbjct: 226 SISGYHIREAGATAVQELAFTL 247
>gnl|CDD|140206 PTZ00179, PTZ00179, 60S ribosomal protein L9; Provisional.
Length = 189
Score = 24.9 bits (54), Expect = 9.0
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 19 TVEIPGVHVNDIRVEVDDRKLTVMAKHST 47
T+ IP D+ V V DR +TV K T
Sbjct: 8 TITIP----EDVTVSVKDRIVTVKGKRGT 32
>gnl|CDD|219788 pfam08314, Sec39, Secretory pathway protein Sec39. Mnaimneh et al
identified Sec39p as a protein involved in ER-Golgi
transport in a large scale promoter shut down analysis
of essential yeast genes. Kraynack et al. (2005) showed
that Sec39p (Dsl3p) is required for Golgi-ER retrograde
transport and is part of a very stable protein complex
that also includes Dsl1p (in mammals ZW10), Tip20p
(Rint-1) and the ER localized Q-SNARE proteins Ufe1p
(syntaxin-18), Sec20p and Use1p. This was confirmed in a
genome-wide analysis of protein complexes by Gavin et al
(2006).
Length = 675
Score = 25.1 bits (55), Expect = 9.6
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 81 TNVDKDTISAEFLNGLLQ 98
T + K+ I AE L LL+
Sbjct: 397 TRLSKEEIEAEILEALLE 414
>gnl|CDD|220926 pfam10988, DUF2807, Protein of unknown function (DUF2807). This
bacterial family of proteins shows structural
similarity to other pectin lyase families. Although
structures from this family align with
acetyl-transferases, there is no conservation of
catalytic residues found. It is likely that the
function is one of cell-adhesion. In PDB:3jx8, it is
interesting to note that the sequence of contains
several well defined sequence repeats, centred around
GSG motifs defining the tight beta turn between the two
sheets of the super-helix; there are 8 such repeats in
the C-terminal half of the protein, which could be
grouped into 4 repeats of two. It seems likely that
this family belongs to the superfamily of trimeric
autotransporter adhesins (TAAs), which are important
virulence factors in Gram-negative pathogens. In the
case of Parabacteroides distasonis, which is a
cmoponent of the normal distal human gut microbiota,
TAA-like complexes probably modulate adherence to the
host (information derived from TOPSAN).
Length = 181
Score = 24.8 bits (55), Expect = 10.0
Identities = 7/32 (21%), Positives = 12/32 (37%)
Query: 13 GSNYVMTVEIPGVHVNDIRVEVDDRKLTVMAK 44
G + +E ++ I EV L + K
Sbjct: 18 GDENSVVIEGDENLLDKIETEVKGGTLKIRLK 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
0.317 0.135 0.415
Gapped
Lambda K H
0.267 0.0810 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,159,229
Number of extensions: 409109
Number of successful extensions: 316
Number of sequences better than 10.0: 1
Number of HSP's gapped: 309
Number of HSP's successfully gapped: 32
Length of query: 104
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 35
Effective length of database: 7,877,176
Effective search space: 275701160
Effective search space used: 275701160
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 (21.7 bits)
S2: 53 (24.0 bits)