RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 044197
(202 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 = 126 bits (319), Expect = 4e-38
Identities = 52/96 (54%), Positives = 69/96 (71%), Gaps = 4/96 (4%)
Query: 74 RADLMETPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAE 133
R D ETP AHV D+ G+KK++VK+EVE+ RVLR+SGERK E +G+ WHR E
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKE----EEKKGDDWHRVE 56
Query: 134 RTFGKFWRQFRMPMSADLDHIKAHMENGILRVTEPK 169
R+ G+F R+FR+P +AD D +KA +ENG+L VT PK
Sbjct: 57 RSSGRFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 104 bits (263), Expect = 2e-29
Identities = 40/108 (37%), Positives = 63/108 (58%), Gaps = 8/108 (7%)
Query: 76 DLMETPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAERT 135
D+ E A V+ LD+ G K + +K++VE+NRVL K E + R+ER+
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEE-------EDDHGLRSERS 53
Query: 136 FGKFWRQFRMPMSADLDHIKAHMENGILRVTEPKLAEEKKRQPKVINI 183
+ F R+F +P +AD D +KA +++G+L VT PKL +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 = 93.8 bits (234), Expect = 2e-25
Identities = 43/94 (45%), Positives = 62/94 (65%), Gaps = 6/94 (6%)
Query: 76 DLMETPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAERT 135
D+ ET A+V+ D+ G KK+++K+EVE+ VL +SGER+ +E E E + R ER+
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGERE-----EEEEEEENYLRRERS 54
Query: 136 FGKFWRQFRMPMSADLDHIKAHMENGILRVTEPK 169
+G F R FR+P D D IKA +ENG+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 = 85.5 bits (212), Expect = 2e-21
Identities = 50/165 (30%), Positives = 77/165 (46%), Gaps = 21/165 (12%)
Query: 20 LMNMASQANALMPYTQSPFFDMMFPMTEEPLRVLEQTPLTIAKGADHHQTLALARADLME 79
M ++ + SP FD +F + D+ E
Sbjct: 3 FEAMRNRFDFFPLLRDSPGFDRLFREFGNLPESRPTGTPPV---------------DIEE 47
Query: 80 TPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAERTFGKF 139
T + IT ++ G+ K++++I VE N L + GER+ +E E E + R ER +G+F
Sbjct: 48 TDDEYRITAELPGVDKEDIEITVEGN-TLTIRGEREE----EEEEEEEGYLRRERAYGEF 102
Query: 140 WRQFRMPMSADLDHIKAHMENGILRVTEPKLAEEKKRQPKVINID 184
R FR+P D + IKA +NG+L VT PK E+K+ PK I I+
Sbjct: 103 ERTFRLPEKVDPEVIKAKYKNGLLTVTLPKAEPEEKK-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 = 74.1 bits (183), Expect = 1e-17
Identities = 31/96 (32%), Positives = 57/96 (59%), Gaps = 4/96 (4%)
Query: 74 RADLMETPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAE 133
+ D+ ET +++ D+ G KK+++K++ ++ L +S +R + K+ + + R E
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKD--KKGNYIRRE 58
Query: 134 RTFGKFWRQFRMPMSADLDHIKAHMENGILRVTEPK 169
R +G F R F +P + D + IKA ENG+L++T PK
Sbjct: 59 RYYGSFSRSFYLP-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 = 66.8 bits (164), Expect = 4e-15
Identities = 33/91 (36%), Positives = 55/91 (60%), Gaps = 13/91 (14%)
Query: 79 ETPTAHVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAERTFGK 138
+T V+T+D+ G+KK+++K+EVE+N L +SG+R+ + ER++G+
Sbjct: 3 QTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEE------------ERERSYGE 49
Query: 139 FWRQFRMPMSADLDHIKAHMENGILRVTEPK 169
F R F +P D + KA +ENG+L +T PK
Sbjct: 50 FERSFELPEDVDPEKSKASLENGVLEITLPK 80
>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 = 6e-08
Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 20/88 (22%)
Query: 84 HVITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKW-HR--AERTFGKFW 140
+ ITL + G +D+++IEVE N L V+G++ + E ++ HR A+R F
Sbjct: 13 YRITLAVAGFSEDDLEIEVENN-QLTVTGKKADEE-----NEEREYLHRGIAKRAFE--- 63
Query: 141 RQFRMPMSADLDHIK---AHMENGILRV 165
R F + DH+K A +ENG+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 = 35.6 bits (83), Expect = 0.002
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 13/85 (15%)
Query: 86 ITLDILGMKKDNVKIEVEENRVLRVSGERKSNDYYKEGVEGEKWHRAERTFGKFWRQFRM 145
+TLD+ G K + +K++V +N+++ V G+ E E E + R F R++++
Sbjct: 11 VTLDVKGFKPEELKVKVSDNKLV-VEGKH-------EEREDEHGYV-SREFT---RRYQL 58
Query: 146 PMSADLDHIKAHM-ENGILRVTEPK 169
P D D + + + +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 = 16/32 (50%), Gaps = 4/32 (12%)
Query: 84 HVITLDILGMKKDNVKIEVEENRVLRVSGERK 115
+T +I V ++VE+ V+ VSG K
Sbjct: 22 GELTREI----PPGVTVKVEKITVIIVSGIDK 49
>gnl|CDD|177166 MTH00104, ND1, NADH dehydrogenase subunit 1; Provisional.
Length = 318
Score = 31.5 bits (72), Expect = 0.24
Identities = 29/83 (34%), Positives = 35/83 (42%), Gaps = 11/83 (13%)
Query: 4 PRILAMTMLFLVMAATL--MNMASQANALMPY-TQSPFFDMMFPMTEEPLRVLEQTPL-- 58
P +LA+ L LV L M + N + PY PF D M T+EPLR L +
Sbjct: 12 PILLAVAFLTLVERKVLGYMQLRKGPNIVGPYGLLQPFADAMKLFTKEPLRPLTSSTTMF 71
Query: 59 TIAKGADHHQTLALARADLMETP 81
IA LAL A M P
Sbjct: 72 IIAP------ILALTLALTMWIP 88
>gnl|CDD|232840 TIGR00129, fdhD_narQ, formate dehydrogenase family accessory
protein FdhD. FdhD in E. coli and NarQ in B. subtilis
are required for the activity of formate dehydrogenase.
The gene name in B. subtilis reflects the requirement of
the neighboring gene narA for nitrate assimilation, for
which NarQ is not required. In some species, the gene is
associated not with a known formate dehydrogenase but
with a related putative molybdopterin-binding
oxidoreductase. A reasonable hypothesis is that this
protein helps prepare a required cofactor for assembly
into the holoenzyme [Energy metabolism, Anaerobic,
Energy metabolism, Electron transport].
Length = 237
Score = 30.1 bits (68), Expect = 0.63
Identities = 24/119 (20%), Positives = 44/119 (36%), Gaps = 9/119 (7%)
Query: 49 PLRVLEQTPLTIAKGADHHQTLALARADLMETPTAHVITLDILGMKKDNVKIEVEENRVL 108
V + P+TI H L + +L E +++ I+ D IE+++N +
Sbjct: 2 EDEVAVEIPVTIVINGISHVVLMCSPKNLEEFAVGFLLSEGIINSPDDIEGIEIDDNINI 61
Query: 109 RVSGE--------RKSNDYYKEGVEGEKWHRAERTFGKFWRQFRMPMSADLDHIKAHME 159
V + K N G E+ +R + G R + ++D +ME
Sbjct: 62 EVQIDLSSRRFMILKENRTGCSGCGRERLNRIPKMVGPVKATERFDLE-EIDEALNYME 119
>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 = 29.2 bits (66), Expect = 0.69
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 116 SNDYYKEGVEGEKWHRAERTFGKFWR 141
Y +G KWH+ +FGK W+
Sbjct: 47 DLSYAFDGFLARKWHQGSESFGKQWQ 72
>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 = 28.7 bits (64), Expect = 2.5
Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 9/89 (10%)
Query: 6 ILAMTMLFLVMAATLMNMASQANALMPYT-QSPFFDMMFPMTEEPLRVLEQTPLTIAKGA 64
IL L +V+ TL M + + +P+F+ MF P +L L + G
Sbjct: 304 ILLCAALLVVLLGTLYPMVHKQLGWGSISVGAPYFNRMFLPIMTPFALLLGIGLLVRWGR 363
Query: 65 DHHQTLALARADLMETPTAHVITLDILGM 93
D R L+ V++ + G+
Sbjct: 364 D--------RTLLIRCGWIIVLSTLVAGL 384
>gnl|CDD|182924 PRK11043, PRK11043, putative transporter; Provisional.
Length = 401
Score = 27.9 bits (63), Expect = 4.3
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 6/38 (15%)
Query: 4 PRILAMTMLFLVMAATLMNMASQ----ANALMPYTQSP 37
P ++ + + F VMAA N A A AL P+ Q+
Sbjct: 294 PSLVPLLIPFCVMAA--ANGAIYPIVVAQALRPFPQAT 329
>gnl|CDD|184351 PRK13828, rimM, 16S rRNA-processing protein RimM; Provisional.
Length = 161
Score = 26.4 bits (59), Expect = 7.4
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 42 MFPMTEEPLRVLEQTPLTIAKGADHHQTLALARA 75
+ TE+PL + + 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
0.317 0.130 0.371
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: 10,192,330
Number of extensions: 948649
Number of successful extensions: 935
Number of sequences better than 10.0: 1
Number of HSP's gapped: 923
Number of HSP's successfully gapped: 31
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
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: 56 (25.5 bits)