RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 039719
(186 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 = 110 bits (276), Expect = 7e-32
Identities = 45/92 (48%), Positives = 59/92 (64%), Gaps = 12/92 (13%)
Query: 74 RADWMETPTIHVITLDIPVMKKDNVKIEVEENRVLRVSGERKT------------EWTFG 121
R DW ETP HV D+P +KK++VK+EVE+ RVLR+SGERK E + G
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSG 60
Query: 122 KFWRQFRMHMSTDLDHIKAHTENGILRVTVPK 153
+F R+FR+ + D D +KA ENG+L VTVPK
Sbjct: 61 RFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 85.3 bits (212), Expect = 5e-22
Identities = 35/101 (34%), Positives = 54/101 (53%), Gaps = 10/101 (9%)
Query: 76 DWMETPTIHVITLDIPVMKKDNVKIEVEENRVLRVSGERK---------TEWTFGKFWRQ 126
D E V+ LD+P K + +K++VE+NRVL K +E ++ F R+
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEEEDDHGLRSERSYRSFSRK 60
Query: 127 FRMHMSTDLDHIKAHTENGILRVTVPKLAEEKKRQPEVINI 167
F + + D D +KA ++G+L VTVPKL +K +P I I
Sbjct: 61 FVLPENADPDKVKASLKDGVLTVTVPKLEPPEK-KPRRIQI 100
>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 = 75.7 bits (187), Expect = 2e-18
Identities = 36/89 (40%), Positives = 52/89 (58%), Gaps = 12/89 (13%)
Query: 76 DWMETPTIHVITLDIPVMKKDNVKIEVEENRVLRVSGERKT-----------EWTFGKFW 124
D ET +V+ D+P KK+++K+EVE+ VL +SGER+ E ++G F
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGEREEEEEEEENYLRRERSYGSFS 59
Query: 125 RQFRMHMSTDLDHIKAHTENGILRVTVPK 153
R FR+ D D IKA ENG+L +T+PK
Sbjct: 60 RSFRLPEDVDPDKIKASLENGVLTITLPK 88
>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 = 69.5 bits (171), Expect = 3e-16
Identities = 32/81 (39%), Positives = 53/81 (65%), Gaps = 5/81 (6%)
Query: 77 WMETPTIHVITLDIPVMKKDNVKIEVEENRVLRVSGERKT----EWTFGKFWRQFRMHMS 132
W +T V+T+D+P +KK+++K+EVE+N L +SG+R+ E ++G+F R F +
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEEERERSYGEFERSFELPED 59
Query: 133 TDLDHIKAHTENGILRVTVPK 153
D + KA ENG+L +T+PK
Sbjct: 60 VDPEKSKASLENGVLEITLPK 80
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 66.6 bits (163), Expect = 2e-14
Identities = 43/159 (27%), Positives = 69/159 (43%), Gaps = 29/159 (18%)
Query: 22 NMASQANALTPYTQSPFFDMMFPMTEESFRVLEQTPLTIAKGADHHQTLALARADWMETP 81
M ++ + SP FD +F + D ET
Sbjct: 5 AMRNRFDFFPLLRDSPGFDRLFREFGNLPESRPTGTPPV---------------DIEETD 49
Query: 82 TIHVITLDIPVMKKDNVKIEVEENRVLRVSGERKTEWT------------FGKFWRQFRM 129
+ IT ++P + K++++I VE N L + GER+ E +G+F R FR+
Sbjct: 50 DEYRITAELPGVDKEDIEITVEGN-TLTIRGEREEEEEEEEEGYLRRERAYGEFERTFRL 108
Query: 130 HMSTDLDHIKAHTENGILRVTVPKLAEEKKRQPEVINID 168
D + IKA +NG+L VT+PK E+K+ P+ I I+
Sbjct: 109 PEKVDPEVIKAKYKNGLLTVTLPKAEPEEKK-PKRIEIE 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 = 54.8 bits (133), Expect = 2e-10
Identities = 27/94 (28%), Positives = 49/94 (52%), Gaps = 16/94 (17%)
Query: 74 RADWMETPTIHVITLDIPVMKKDNVKIEVEENRVLRVSGERKT--------------EWT 119
+ D ET +++ D+P KK+++K++ ++ L +S +R E
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKDKKGNYIRRERY 60
Query: 120 FGKFWRQFRMHMSTDLDHIKAHTENGILRVTVPK 153
+G F R F + + D + IKA ENG+L++T+PK
Sbjct: 61 YGSFSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 36.4 bits (85), Expect = 8e-04
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 5/48 (10%)
Query: 84 HVITLDIPVMKKDNVKIEVEENRVLRVSGERKTEWT-FGKFWRQFRMH 130
+T +IP V ++VE+ V+ VSG K + F +R
Sbjct: 22 GELTREIP----PGVTVKVEKITVIIVSGIDKEKVGQFAALIGTYRAP 65
>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 = 36.4 bits (85), Expect = 0.001
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 14/77 (18%)
Query: 84 HVITLDIPVMKKDNVKIEVEENRVLRVSGERKTEWTFGKFW-------RQFRMHMSTDL- 135
+ ITL + +D+++IEVE N L V+G++ E + + R F S +L
Sbjct: 13 YRITLAVAGFSEDDLEIEVENN-QLTVTGKKADEENEEREYLHRGIAKRAFE--RSFNLA 69
Query: 136 DHIK---AHTENGILRV 149
DH+K A ENG+L +
Sbjct: 70 DHVKVKGAELENGLLTI 86
>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 = 31.0 bits (71), Expect = 0.085
Identities = 17/74 (22%), Positives = 40/74 (54%), Gaps = 7/74 (9%)
Query: 86 ITLDIPVMKKDNVKIEVEENRVLRVSGERKTEWTFG-----KFWRQFRMHMSTDLDHIKA 140
+TLD+ K + +K++V +N+++ V G+ + +F R++++ D D + +
Sbjct: 11 VTLDVKGFKPEELKVKVSDNKLV-VEGKHEEREDEHGYVSREFTRRYQLPEGVDPDSVTS 69
Query: 141 H-TENGILRVTVPK 153
+ +G+L + PK
Sbjct: 70 SLSSDGVLTIEAPK 83
>gnl|CDD|218355 pfam04969, CS, CS domain. The CS and CHORD (pfam04968) are fused
into a single polypeptide chain in metazoans but are
found in separate proteins in plants; this is thought to
be indicative of an interaction between CS and CHORD. It
has been suggested that the CS domain is a binding
module for HSP90, implying that CS domain-containing
proteins are involved in recruiting heat shock proteins
to multiprotein assemblies.
Length = 78
Score = 29.5 bits (67), Expect = 0.26
Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 74 RADWMETPTIHVITLDIP-VMKKDNVKIEVEENRV-LRVSGERKTEWTF-GKFWRQFRMH 130
R DW +T IT+ + V KK +VK+E++ + + + G E+ G+ +
Sbjct: 2 RYDWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKVSIKGPGGKEYLLDGELFG----- 56
Query: 131 MSTDLDHIKAHTENGILRVTVPK 153
D + E+ + +T+ K
Sbjct: 57 -PIDPEESSWKIEDTKVEITLKK 78
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 30.8 bits (70), Expect = 0.38
Identities = 19/54 (35%), Positives = 24/54 (44%), Gaps = 8/54 (14%)
Query: 2 AKPRILAMTMLFLVMAATLTNMASQANALTP-----YTQSPFFDMMFPMTEESF 50
AK I A+T LV AA L NA+ P T++ F +MM E F
Sbjct: 173 AKAGIAALT---LVAAAELGRYGVTVNAIAPAARTRMTETVFAEMMAKPEEGEF 223
>gnl|CDD|129451 TIGR00353, nrfE, c-type cytochrome biogenesis protein CcmF. The
product of this gene is required for the biogenesis of
C-type cytochromes. This gene is thought to have eleven
transmembrane helices. Disruption of this gene in
Paracoccus denitrificans, encoding a putative
transporter, results in formation of an unstable
apocytochrome c and deficiency in siderophore production
[Energy metabolism, Electron transport].
Length = 576
Score = 31.0 bits (70), Expect = 0.41
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 4/93 (4%)
Query: 6 ILAMTMLFLVMAATLTNMASQANALTPYT-QSPFFDMMFPMTEESFRVLEQTPLTIAKGA 64
IL L +V+ TL M + + +P+F+ MF F +L L + G
Sbjct: 304 ILLCAALLVVLLGTLYPMVHKQLGWGSISVGAPYFNRMFLPIMTPFALLLGIGLLVRWGR 363
Query: 65 DHHQTLALARADWMETPTIHVITLDIPVMKKDN 97
D +TL + R W+ + V L +P ++
Sbjct: 364 D--RTLLI-RCGWIIVLSTLVAGLMLPQQLRNK 393
>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 = 27.7 bits (62), Expect = 1.4
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 76 DWMETPTIHVITLDIPVMKKDNVKIEVEENRVL 108
DW +T + VIT+ I +K ++V +E E+ +
Sbjct: 1 DWYQTESQVVITILIKNVKPEDVSVEFEKRELS 33
>gnl|CDD|130595 TIGR01532, E4PD_g-proteo, erythrose-4-phosphate dehydrogenase.
This model represents the small clade of dehydrogenases
in gamma-proteobacteria which utilize NAD+ to oxidize
erythrose-4-phosphate (E4P) to 4-phospho-erythronate, a
precursor for the de novo synthesis of pyridoxine via
4-hydroxythreonine and D-1-deoxyxylulose. This enzyme
activity appears to have evolved from
glyceraldehyde-3-phosphate dehydrogenase, whose
substrate differs only in the lack of one carbon
relative to E4P. Accordingly, this model is very close
to the corresponding models for GAPDH, and those
sequences which hit above trusted here invariably hit
between trusted and noise to the GAPDH model
(TIGR01534). Similarly, it may be found that there are
species outside of the gamma proteobacteria which
synthesize pyridoxine and have more than one aparrent
GAPDH gene of which one may have E4PD activity - this
may necessitate a readjustment of these models.
Alternatively, some of the GAPDH enzymes may prove to be
bifunctional in certain species [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridoxine].
Length = 325
Score = 27.9 bits (62), Expect = 3.6
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 81 PTIHVITLDIPVMKKDNVKIEVEENRVLRVSGE 113
PT++V +D+ V K VK E N +L+ + +
Sbjct: 235 PTVNVTAIDLSVTVKKPVKAN-EVNLLLQKAAQ 266
>gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase
subunit beta/beta'; Reviewed.
Length = 2890
Score = 27.2 bits (60), Expect = 6.0
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 144 NGILRVTVPKLAEEKKRQPEVINIDEESCNSSNEDI 179
NG+ RV V +L R P VI +EES S N+ I
Sbjct: 142 NGVERVVVNQL----HRSPGVIFKEEESSTSLNKLI 173
>gnl|CDD|223027 PHA03262, PHA03262, Capsid triplex subunit 1; Provisional.
Length = 264
Score = 26.6 bits (59), Expect = 7.5
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 4 PRILAMTMLFLVMAATLTNMASQANALTPYTQSP 37
PR L +++ FL + A + A++ YT SP
Sbjct: 49 PRYLLVSLFFLAINAFNVSAATRTALAALYTSSP 82
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 0.129 0.373
Gapped
Lambda K H
0.267 0.0652 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,229,644
Number of extensions: 830219
Number of successful extensions: 805
Number of sequences better than 10.0: 1
Number of HSP's gapped: 793
Number of HSP's successfully gapped: 33
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
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: 56 (25.5 bits)