RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043288
(156 letters)
>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 = 146 bits (370), Expect = 1e-46
Identities = 62/92 (67%), Positives = 77/92 (83%)
Query: 50 RMDWKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRG 109
R+DWKETPEAHVFK D+PG+ KEDVK+E+ED RVL+I+ +R E E K + WHRVERS G
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSG 60
Query: 110 KFLRRFRLPENGKIDQVRASIEDGVLTVTVPK 141
+F+RRFRLPEN D+V+A +E+GVLTVTVPK
Sbjct: 61 RFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 115 bits (290), Expect = 2e-34
Identities = 46/104 (44%), Positives = 70/104 (67%), Gaps = 3/104 (2%)
Query: 52 DWKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKF 111
D KE +A V K+D+PG E++K+++ED+RVL + E+E++++ R ERS F
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVL-VKGKH--EKEEEDDHGLRSERSYRSF 57
Query: 112 LRRFRLPENGKIDQVRASIEDGVLTVTVPKEEVKKPELKAIEIS 155
R+F LPEN D+V+AS++DGVLTVTVPK E + + + I+I
Sbjct: 58 SRKFVLPENADPDKVKASLKDGVLTVTVPKLEPPEKKPRRIQIQ 101
>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 = 97.6 bits (244), Expect = 2e-27
Identities = 46/90 (51%), Positives = 65/90 (72%), Gaps = 2/90 (2%)
Query: 52 DWKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKF 111
D ET +A+V + DLPG KED+K+E+ED VL I+ +R E E++ E + R ERS G F
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVED-GVLTISGEREEEEEEE-ENYLRRERSYGSF 58
Query: 112 LRRFRLPENGKIDQVRASIEDGVLTVTVPK 141
R FRLPE+ D+++AS+E+GVLT+T+PK
Sbjct: 59 SRSFRLPEDVDPDKIKASLENGVLTITLPK 88
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 85.5 bits (212), Expect = 5e-22
Identities = 45/140 (32%), Positives = 74/140 (52%), Gaps = 3/140 (2%)
Query: 16 LDPFSFDVWNPFKDFAFPSLSSRFPRETSAIVNTRMDWKETPEAHVFKVDLPGLTKEDVK 75
D F +P D F + + +D +ET + + +LPG+ KED++
Sbjct: 10 FDFFPLLRDSPGFDRLFREFGNLPESRPTGTP--PVDIEETDDEYRITAELPGVDKEDIE 67
Query: 76 LEIEDHRVLQITADRNVEREDKNETWHRVERSRGKFLRRFRLPENGKIDQVRASIEDGVL 135
+ +E L I +R E E++ E + R ER+ G+F R FRLPE + ++A ++G+L
Sbjct: 68 ITVEG-NTLTIRGEREEEEEEEEEGYLRRERAYGEFERTFRLPEKVDPEVIKAKYKNGLL 126
Query: 136 TVTVPKEEVKKPELKAIEIS 155
TVT+PK E ++ + K IEI
Sbjct: 127 TVTLPKAEPEEKKPKRIEIE 146
>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 = 79.4 bits (197), Expect = 3e-20
Identities = 38/94 (40%), Positives = 58/94 (61%), Gaps = 4/94 (4%)
Query: 50 RMDWKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRN--VEREDKNETWHRVERS 107
+ D KET + ++ + DLPG KED+KL+ +D L I+A R+ + +DK + R ER
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKDKKGNYIRRERY 60
Query: 108 RGKFLRRFRLPENGKIDQVRASIEDGVLTVTVPK 141
G F R F LP N ++++A E+GVL +T+PK
Sbjct: 61 YGSFSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>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 = 77.2 bits (191), Expect = 2e-19
Identities = 40/89 (44%), Positives = 56/89 (62%), Gaps = 9/89 (10%)
Query: 53 WKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKFL 112
W +T + V VDLPG+ KED+K+E+ED VL I+ R E E ERS G+F
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVED-NVLTISGKREEEEE--------RERSYGEFE 51
Query: 113 RRFRLPENGKIDQVRASIEDGVLTVTVPK 141
R F LPE+ ++ +AS+E+GVL +T+PK
Sbjct: 52 RSFELPEDVDPEKSKASLENGVLEITLPK 80
>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 = 47.5 bits (114), Expect = 4e-08
Identities = 24/80 (30%), Positives = 45/80 (56%), Gaps = 9/80 (11%)
Query: 63 KVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKFLRRFRLPENGK 122
+D+ G E++K+++ D++++ + + E++ + V R F RR++LPE
Sbjct: 12 TLDVKGFKPEELKVKVSDNKLV-VEG----KHEEREDEHGYVSRE---FTRRYQLPEGVD 63
Query: 123 IDQVRASI-EDGVLTVTVPK 141
D V +S+ DGVLT+ PK
Sbjct: 64 PDSVTSSLSSDGVLTIEAPK 83
>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 = 39.8 bits (94), Expect = 3e-05
Identities = 20/74 (27%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 64 VDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKFLRRFRLPENGKI 123
+ + G +++D+++E+E+ L +T + E ++ E HR ++ F R F L ++ K+
Sbjct: 17 LAVAGFSEDDLEIEVEN-NQLTVTGKKADEENEEREYLHR-GIAKRAFERSFNLADHVKV 74
Query: 124 DQVRASIEDGVLTV 137
A +E+G+LT+
Sbjct: 75 KG--AELENGLLTI 86
>gnl|CDD|107230 cd06475, ACD_HspB1_like, Alpha crystallin domain (ACD) found in
mammalian small (s)heat shock protein (Hsp)-27 (also
denoted HspB1 in human) 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. Hsp27 shows enhanced synthesis in response to
stress. It is a molecular chaperone which interacts with
a large number of different proteins. It is found in
many types of human cells including breast, uterus,
cervix, platelets and cancer cells. Hsp27 has diverse
cellular functions including, chaperoning, regulation of
actin polymerization, keratinocyte differentiation,
regulation of inflammatory pathways in keratinocytes,
and protection from oxidative stress through modulating
glutathione levels. It is also a subunit of
AUF1-containing protein complexes. It has been linked to
several transduction pathways regulating cellular
functions including differentiation, cell growth,
development, and apoptosis. Its activity can be
regulated by phosphorylation. Its unphosphorylated state
is a high molecular weight aggregated form (100-800kDa)
composed of up to 24 subunits, which forms as a result
of multiple interactions within the ACD, and is required
for chaperone function and resistance to oxidative
stress. Upon phosphorylation these large aggregates
rapidly disassociate to smaller oligomers and chaperone
activity is modified. High constitutive levels of Hsp27
have been detected in various cancer cells, in
particular those of carcinoma origin. Over-expression of
Hsp27 has a protective effect against various
diseases-processes, including Huntington's disease.
Mutations in Hsp27 have been associated with a form of
distal hereditary motor neuropathy type II and
Charcot-Marie-Tooth disease type 2.
Length = 86
Score = 31.4 bits (71), Expect = 0.050
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 16/98 (16%)
Query: 44 SAIVNTRMDWKETPEAHVFKVDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHR 103
S I T WK + +D+ E++ ++ +D V++IT ++ E++D++
Sbjct: 3 SEIRQTADRWKVS-------LDVNHFAPEELVVKTKDG-VVEITG-KHEEKQDEHGF--- 50
Query: 104 VERSRGKFLRRFRLPENGKIDQVRASIE-DGVLTVTVP 140
V R F R++ LP V +S+ DG+LTV P
Sbjct: 51 VSRC---FTRKYTLPPGVDPTAVTSSLSPDGILTVEAP 85
>gnl|CDD|107233 cd06478, ACD_HspB4-5-6, Alpha-crystallin domain found in
alphaA-crystallin (HspB4), alphaB-crystallin (HspB5),
and the small heat shock protein (sHsp) HspB6, also
known as Hsp20. sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Alpha crystallin, an
abundant protein in the mammalian lens, is a large (700
kDa) heteropolymer composed of HspB4 and HspB5,
generally in a molar ratio of HspB4:HspB5 of 3:1. Only
trace amounts of HspB4 are found in tissues other than
the lens. HspB5 on the other hand is also expressed
constitutively in other tissues including brain, heart,
and type I and type IIa skeletal muscle fibers, and in
several cancers including gliomas, renal cell
carcinomas, basal-like and metaplastic breast
carcinomas, and head and neck cancer. HspB5's functions
include effects on the apoptotic pathway and on
metastasis. Phosphorylation of HspB5 reduces its
oligomerization and anti-apoptotic activities. HspB5 is
protective in demyelinating disease such as multiple
sclerosis (MS), being a negative regulator of
inflammation. In early active MS lesions it is the most
abundant gene transcript and an autoantigen, the immune
response against it would disrupt its function and
worsen inflammation and demyelination. Given as therapy
for ongoing demyelinating disease it may counteract this
effect. It is an autoantigen in the pathogenesis of
various other inflammatory disorders including
Lens-associated uveitis (LAU), and Behcet's disease.
Mutations in HspB5 have been associated with diseases
including dominant cataract and desmin-related myopathy.
Mutations in HspB4 have been associated with Autosomal
Dominant Congenital Cataract (ADCC). HspB6 (Hsp20) is
ubiquitous and is involved in diverse functions
including regulation of glucose transport and
contraction of smooth muscle, in platelet aggregation,
in cardioprotection, and in the prevention of apoptosis.
It interacts with the universal scaffolding and adaptor
protein 14-3-3, and also with the proapoptotic protein
Bax.
Length = 83
Score = 28.6 bits (64), Expect = 0.40
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 111 FLRRFRLPENGKIDQVRASIE-DGVLTVTVPK 141
F RR+RLP + +S+ DGVLT++ P+
Sbjct: 52 FHRRYRLPPGVDPAAITSSLSADGVLTISGPR 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 = 28.4 bits (64), Expect = 0.62
Identities = 16/92 (17%), Positives = 37/92 (40%), Gaps = 18/92 (19%)
Query: 53 WKETPEAHVFKVDLPGLTKEDVKLEIEDHRV-LQITADRNVEREDKNETWHRVERSRGKF 111
W +T + + L +TK+DVK+E + + + E + E + +
Sbjct: 1 WYQTLDEVTITIPLKDVTKKDVKVEFTPKSLTVSVKGGGGKEYLLEGELFGPI------- 53
Query: 112 LRRFRLPENGKIDQVRASIEDGVLTVTVPKEE 143
++ + ++ED + +T+ K+E
Sbjct: 54 ----------DPEESKWTVEDRKIEITLKKKE 75
>gnl|CDD|107245 cd06497, ACD_alphaA-crystallin_HspB4, Alpha-crystallin domain found
in the small heat shock protein (sHsp) alphaA-crystallin
(HspB4, 20kDa). sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Alpha crystallin, an
abundant protein in the mammalian lens, is a large (700
kDa) heteropolymer composed of HspB4 and HspB5,
generally in a molar ratio of HspB4:HspB5 of 3:1. Only
trace amounts of HspB4 are found in tissues other than
the lens. HspB5 does not belong to this group. Mutations
inHspB4 have been associated with Autosomal Dominant
Congenital Cataract (ADCC). The chaperone-like functions
of HspB4 are considered important for maintaining lens
transparency and preventing cataract.
Length = 86
Score = 28.0 bits (62), Expect = 0.87
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 9/79 (11%)
Query: 64 VDLPGLTKEDVKLEIEDHRVLQITADRNVEREDKNETWHRVERSRGKFLRRFRLPENGKI 123
+D+ + ED+ +++ D V +I ++ ER+D + R +F RR+RLP N
Sbjct: 16 LDVKHFSPEDLTVKVLDDYV-EIHG-KHSERQDDHGYISR------EFHRRYRLPSNVDQ 67
Query: 124 DQVRASIE-DGVLTVTVPK 141
+ S+ DG+LT + PK
Sbjct: 68 SAITCSLSADGMLTFSGPK 86
>gnl|CDD|178050 PLN02431, PLN02431, ferredoxin--nitrite reductase.
Length = 587
Score = 28.2 bits (63), Expect = 2.2
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 102 HRVERSRGKFLRRFRLPENGKI--DQVR--ASI-----EDGVLTVT 138
HR + G+F+ R +LP NG Q R AS+ EDG VT
Sbjct: 128 HRRKHQYGRFMMRLKLP-NGVTTSAQTRYLASVIEKYGEDGCADVT 172
>gnl|CDD|237610 PRK14099, PRK14099, glycogen synthase; Provisional.
Length = 485
Score = 27.8 bits (62), Expect = 2.6
Identities = 19/84 (22%), Positives = 28/84 (33%), Gaps = 25/84 (29%)
Query: 15 ILDPFSFDVWNPFKDFAFPSLSSRFPRET-------SAIVNTRMDWKETPEAHVFKV--- 64
IL+ VWNP D +++ + ET A + R P+A + V
Sbjct: 247 ILNGIDTAVWNPATD---ELIAATYDVETLAARAANKAALQARFGLDPDPDALLLGVISR 303
Query: 65 ------------DLPGLTKEDVKL 76
LP L E +L
Sbjct: 304 LSWQKGLDLLLEALPTLLGEGAQL 327
>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 = 27.1 bits (61), Expect = 3.1
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 9/43 (20%)
Query: 123 IDQVRASIEDGVLTVTVPKE---------EVKKPELKAIEISG 156
+D++ ++ G L + + K V P L+ I +SG
Sbjct: 32 LDKIETEVKGGTLKIRLKKGIRNGKNIKVTVTYPNLEEISLSG 74
>gnl|CDD|237521 PRK13820, PRK13820, argininosuccinate synthase; Provisional.
Length = 394
Score = 27.2 bits (61), Expect = 3.5
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 4/28 (14%)
Query: 132 DGVLTVTV----PKEEVKKPELKAIEIS 155
D V+TVTV P+EE+K+ E KA ++
Sbjct: 29 DEVITVTVDVGQPEEEIKEAEEKAKKLG 56
>gnl|CDD|132381 TIGR03338, phnR_burk, phosphonate utilization associated
transcriptional regulator. This family of proteins are
members of the GntR family (pfam00392) containing an
N-terminal helix-turn-helix (HTH) motif. This clade is
found adjacent to or inside of operons for the
degradation of 2-aminoethylphosphonate (AEP) in
Polaromonas, Burkholderia, Ralstonia and
Verminephrobacter.
Length = 212
Score = 27.0 bits (60), Expect = 3.5
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 103 RVERSRGKFLRRFRLPENGKIDQVRASIEDGV---LTVTVPKEEVKKPELKAI 152
R E++RG F+R L E +I ++RA +++ V L + ++K LK +
Sbjct: 65 RNEKNRGVFVREISLAEADEIYELRAVLDEIVGRRLAARITPTQLK--VLKGL 115
>gnl|CDD|225191 COG2309, AmpS, Leucyl aminopeptidase (aminopeptidase T) [Amino acid
transport and metabolism].
Length = 385
Score = 27.3 bits (61), Expect = 4.3
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 67 PGLTKEDVKLEIEDHRVLQITADRNVER 94
G E ++L ED +V++I+A++ E
Sbjct: 252 QGTLIEGIRLTFEDGKVVEISAEKGEEV 279
>gnl|CDD|220619 pfam10182, Flo11, Flo11 domain. This presumed domain is found at
the N-terminus of the S. cerevisiae Flo11 protein.
Flo11 is required for diploid pseudohyphal formation
and haploid invasive growth. It belongs to a family of
proteins involved in invasive growth, cell-cell
adhesion, and mating, many of which can substitute for
each other under abnormal conditions.
Length = 152
Score = 26.6 bits (59), Expect = 4.6
Identities = 9/53 (16%), Positives = 21/53 (39%), Gaps = 5/53 (9%)
Query: 24 WNPFKDFAFPSLSSRFPRETSAIVNTRMDWKETPEAHVFKVDLPGLTKEDVKL 76
P D A + + P+ ++ + W +++KV + T+ + L
Sbjct: 2 GCPKLDLAQHAKNQGTPKADISVSDV--AWV---GDNLYKVTIHFQTQVSIPL 49
>gnl|CDD|178677 PLN03131, PLN03131, hypothetical protein; Provisional.
Length = 705
Score = 27.0 bits (59), Expect = 5.2
Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 5/33 (15%)
Query: 105 ERSRGKFLR-----RFRLPENGKIDQVRASIED 132
+R+R +L+ R RLP+N K+D++R I+D
Sbjct: 82 QRAREIYLKDWDQQRQRLPDNSKVDKIREFIKD 114
>gnl|CDD|227116 COG4775, COG4775, Outer membrane protein/protective antigen OMA87
[Cell envelope biogenesis, outer membrane].
Length = 766
Score = 26.5 bits (59), Expect = 6.4
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 121 GKIDQVRASIEDGVLTVTVPKEEVKKPELKAIEISG 156
G + VR E G L VTV ++P + ++ SG
Sbjct: 70 GYFEDVRVEREGGTLVVTV----KERPVINSVVFSG 101
>gnl|CDD|235406 PRK05321, PRK05321, nicotinate phosphoribosyltransferase;
Provisional.
Length = 400
Score = 26.3 bits (59), Expect = 7.2
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 111 FLRRFRLPENGKIDQVRASIEDGVLTVTV 139
+LR FRL +V SI+DG L + +
Sbjct: 88 WLRLFRLNP----YEVTVSIDDGQLDIRI 112
>gnl|CDD|223170 COG0092, RpsC, Ribosomal protein S3 [Translation, ribosomal
structure and biogenesis].
Length = 233
Score = 26.1 bits (58), Expect = 7.8
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 122 KIDQVRASIED--GVLTVTVPKEEVKKPELKA 151
I+++R +E G V + EEVKKPEL A
Sbjct: 72 NIEKLRKELEKLFGKENVQINIEEVKKPELDA 103
>gnl|CDD|234165 TIGR03303, OM_YaeT, outer membrane protein assembly complex, YaeT
protein. Members of this protein family are the YaeT
protein of the YaeT/YfiO complex for assembling proteins
into the outer membrane of Gram-negative bacteria. This
protein is similar in sequence and function to a
non-essential paralog, YtfM, that is also in the Omp85
family. Members of this family typically have five
tandem copies of the surface antigen variable number
repeat (pfam07244), followed by an outer membrane
beta-barrel domain (pfam01103), while the YtfM family
typically has a single pfam07244 repeat [Protein fate,
Protein and peptide secretion and trafficking].
Length = 741
Score = 26.4 bits (59), Expect = 8.5
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 126 VRASIEDGVLTVTVPKEEVKKPELKAIEISG 156
V+ E GVL + V KE +P + +I SG
Sbjct: 52 VKIEREGGVLVIKV-KE---RPIINSIVFSG 78
>gnl|CDD|226219 COG3695, COG3695, Predicted methylated DNA-protein cysteine
methyltransferase [DNA replication, recombination, and
repair].
Length = 103
Score = 25.4 bits (56), Expect = 8.9
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 101 WHRVERSRGKFLRRFRLPENGKIDQVRASIEDGVLTVTVPKEEVKK 146
WHRV S G R LP K Q + +GV + ++++
Sbjct: 57 WHRVVNSDG----RISLPGPDKQRQRELLLAEGVEFSDTGRIDLER 98
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
0.318 0.136 0.401
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,179,470
Number of extensions: 743291
Number of successful extensions: 794
Number of sequences better than 10.0: 1
Number of HSP's gapped: 784
Number of HSP's successfully gapped: 48
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
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: 55 (25.0 bits)