RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 042495
(180 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 = 127 bits (320), Expect = 1e-38
Identities = 51/96 (53%), Positives = 71/96 (73%), Gaps = 4/96 (4%)
Query: 52 RADWMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAE 111
R DW ETP AHV D+PG+KK+++K+EVE+ RVLR+SGERK E +G+ WH+ E
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKE----EEKKGDDWHRVE 56
Query: 112 RTFGKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPK 147
R+ G+F R+FR+P + D + VKA ++NG+L VTVPK
Sbjct: 57 RSSGRFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 107 bits (270), Expect = 7e-31
Identities = 41/108 (37%), Positives = 63/108 (58%), Gaps = 8/108 (7%)
Query: 54 DWMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAERT 113
D E A V+ LD+PG K + +K++VE+NRVL K E + ++ER+
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEE-------EDDHGLRSERS 53
Query: 114 FGKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPKLAEEKKRQPKVINI 161
+ F R+F +P + D + VKA +K+G+L VTVPKL +K +P+ I I
Sbjct: 54 YRSFSRKFVLPENADPDKVKASLKDGVLTVTVPKLEPPEK-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 = 101 bits (253), Expect = 1e-28
Identities = 41/94 (43%), Positives = 64/94 (68%), Gaps = 6/94 (6%)
Query: 54 DWMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAERT 113
D ET A+V+ D+PG KK+++K+EVE+ VL +SGER+ +E E E + + ER+
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGERE-----EEEEEEENYLRRERS 54
Query: 114 FGKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPK 147
+G F R FR+P VD + +KA ++NG+L +T+PK
Sbjct: 55 YGSFSRSFRLPEDVDPDKIKASLENGVLTITLPK 88
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 88.2 bits (219), Expect = 9e-23
Identities = 51/152 (33%), Positives = 75/152 (49%), Gaps = 21/152 (13%)
Query: 11 YTQSPFFDMMFPMTEEPFRVLEQTPLTIAKGADHHQTLALARADWMETPTAHVITLDIPG 70
SP FD +F + D ET + IT ++PG
Sbjct: 16 LRDSPGFDRLFREFGNLPESRPTGTPPV---------------DIEETDDEYRITAELPG 60
Query: 71 MKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAERTFGKFWRQFRMPMSVDLE 130
+ K++++I VE N L + GER+ +E E E + + ER +G+F R FR+P VD E
Sbjct: 61 VDKEDIEITVEGN-TLTIRGEREE----EEEEEEEGYLRRERAYGEFERTFRLPEKVDPE 115
Query: 131 HVKAHMKNGILRVTVPKLAEEKKRQPKVINID 162
+KA KNG+L VT+PK E+K+ PK I I+
Sbjct: 116 VIKAKYKNGLLTVTLPKAEPEEKK-PKRIEIE 146
>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 = 78.0 bits (193), Expect = 2e-19
Identities = 36/93 (38%), Positives = 60/93 (64%), Gaps = 13/93 (13%)
Query: 55 WMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAERTF 114
W +T V+T+D+PG+KK+++K+EVE+N L +SG+R+ + + ER++
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEE------------ERERSY 47
Query: 115 GKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPK 147
G+F R F +P VD E KA ++NG+L +T+PK
Sbjct: 48 GEFERSFELPEDVDPEKSKASLENGVLEITLPK 80
>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 = 74.1 bits (183), Expect = 6e-18
Identities = 31/96 (32%), Positives = 59/96 (61%), Gaps = 4/96 (4%)
Query: 52 RADWMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAE 111
+ D ET +++ D+PG KK+++K++ ++ L +S +R + K+ + + + E
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKD--KKGNYIRRE 58
Query: 112 RTFGKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPK 147
R +G F R F +P +VD E +KA +NG+L++T+PK
Sbjct: 59 RYYGSFSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>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 = 48.3 bits (116), Expect = 4e-08
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 20/88 (22%)
Query: 62 HVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKW-HK--AERTFGKFW 118
+ ITL + G +D+++IEVE N L V+G++ + E ++ H+ A+R F
Sbjct: 13 YRITLAVAGFSEDDLEIEVENN-QLTVTGKKADEE-----NEEREYLHRGIAKRAFE--- 63
Query: 119 RQFRMPMSVDLEHVK---AHMKNGILRV 143
R F + +HVK A ++NG+L +
Sbjct: 64 RSFNLA-----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 = 39.4 bits (93), Expect = 7e-05
Identities = 24/85 (28%), Positives = 46/85 (54%), Gaps = 13/85 (15%)
Query: 64 ITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHKAERTFGKFWRQFRM 123
+TLD+ G K + +K++V +N+++ V G+ E E E + R F R++++
Sbjct: 11 VTLDVKGFKPEELKVKVSDNKLV-VEGKH-------EEREDEHGYV-SREFT---RRYQL 58
Query: 124 PMSVDLEHVKAHM-KNGILRVTVPK 147
P VD + V + + +G+L + PK
Sbjct: 59 PEGVDPDSVTSSLSSDGVLTIEAPK 83
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 29.9 bits (68), Expect = 0.18
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 62 HVITLDIPGMKKDNMKIEVEENRVLRVSGERK 93
+T +IP + ++VE+ V+ VSG K
Sbjct: 22 GELTREIP----PGVTVKVEKITVIIVSGIDK 49
>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 = 0.34
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 14 SPFFDMMFPMTEEPFRVLEQTPLTIAKGADHHQTLALARADWMETPTAHVITLDIPGMKK 73
+P+F+ MF PF +L L + G D +TL + R W+ + V L +P +
Sbjct: 335 APYFNRMFLPIMTPFALLLGIGLLVRWGRD--RTLLI-RCGWIIVLSTLVAGLMLPQQLR 391
Query: 74 DNMKI 78
+ +
Sbjct: 392 NKSAV 396
>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 = 28.7 bits (65), Expect = 0.52
Identities = 18/98 (18%), Positives = 38/98 (38%), Gaps = 23/98 (23%)
Query: 52 RADWMETPTAHVITLDIPG-MKKDNMKIEVEENRV-LRVSGERKSNDYYKEGVEGEKWHK 109
R DW +T IT+ + G KK ++K+E++ + + + G +GE +
Sbjct: 2 RYDWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKVSIKGPGGKEYLL----DGELFG- 56
Query: 110 AERTFGKFWRQFRMPMSVDLEHVKAHMKNGILRVTVPK 147
+D E +++ + +T+ K
Sbjct: 57 ----------------PIDPEESSWKIEDTKVEITLKK 78
>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 = 28.5 bits (64), Expect = 0.70
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 54 DWMETPTAHVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDY 97
DW +T + VIT+ I +K +++ +E E+ + NDY
Sbjct: 1 DWYQTESQVVITILIKNVKPEDVSVEFEKRELSATVKLPSGNDY 44
>gnl|CDD|240458 cd12878, SPRY2_RyR, SPRY domain 2 (SPRY2) of ryanodine receptor
(RyR). This SPRY domain (SPRY2) is the second of three
structural repeats in all three isoforms of the
ryanodine receptor (RyR), which are the major Ca2+
release channels in the membranes of sarcoplasmic
reticulum (SR). There are three RyR genes in mammals;
the skeletal RyR1, the cardiac RyR2 and the brain RyR3.
The three SPRY domains are located in the N-terminal
part of the cytoplasmic region of the RyRs, The SPRY2
domain has been shown to bind to the dihydropryidine
receptor (DHPR) II-III loop and the ASI region of RyR1.
Length = 133
Score = 28.0 bits (63), Expect = 1.7
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 94 SNDYYKEGVEGEKWHKAERTFGKFWR 119
Y +G KWH+ +FGK W+
Sbjct: 47 DLSYAFDGFLARKWHQGSESFGKQWQ 72
>gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase
subunit beta/beta'; Reviewed.
Length = 2890
Score = 27.2 bits (60), Expect = 5.8
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 138 NGILRVTVPKLAEEKKRQPKVINIDEESGNSSNEDI 173
NG+ RV V +L R P VI +EES S N+ I
Sbjct: 142 NGVERVVVNQL----HRSPGVIFKEEESSTSLNKLI 173
>gnl|CDD|218332 pfam04929, Herpes_DNAp_acc, Herpes DNA replication accessory
factor. Replicative DNA polymerases are capable of
polymerising tens of thousands of nucleotides without
dissociating from their DNA templates. The high
processivity of these polymerases is dependent upon
accessory proteins that bind to the catalytic subunit of
the polymerase or to the substrate. The Epstein-Barr
virus (EBV) BMRF1 protein is an essential component of
the viral DNA polymerase and is absolutely required for
lytic virus replication. BMRF1 is also a transactivator.
This family is predicted to have a UL42 like structure.
Length = 381
Score = 26.9 bits (60), Expect = 6.8
Identities = 6/17 (35%), Positives = 15/17 (88%)
Query: 130 EHVKAHMKNGILRVTVP 146
+H+K+H+KNG+++++
Sbjct: 19 DHIKSHLKNGMIQISGL 35
>gnl|CDD|224680 COG1766, fliF, Flagellar basal body M-ring protein [Cell motility
and secretion].
Length = 545
Score = 27.0 bits (60), Expect = 7.1
Identities = 9/46 (19%), Positives = 24/46 (52%)
Query: 62 HVITLDIPGMKKDNMKIEVEENRVLRVSGERKSNDYYKEGVEGEKW 107
H+++ +PG+K +N+ + + R+L S + +D ++ +
Sbjct: 196 HLVSSAVPGLKPENVTVVDQSGRLLSQSDDDSGSDAALSQLKLKSD 241
>gnl|CDD|184351 PRK13828, rimM, 16S rRNA-processing protein RimM; Provisional.
Length = 161
Score = 26.1 bits (58), Expect = 10.0
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 20 MFPMTEEPFRVLEQTPLTIAKGADHHQTLALARA 53
+ TE+P + + PLT GA T+ALAR
Sbjct: 7 LKSFTEDPLAIADYGPLTTEDGA-RSFTVALARP 39
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
0.316 0.130 0.378
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,101,835
Number of extensions: 825723
Number of successful extensions: 747
Number of sequences better than 10.0: 1
Number of HSP's gapped: 737
Number of HSP's successfully gapped: 25
Length of query: 180
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 89
Effective length of database: 6,901,388
Effective search space: 614223532
Effective search space used: 614223532
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 (21.6 bits)
S2: 56 (25.3 bits)