RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043940
(123 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 = 98.9 bits (247), Expect = 2e-28
Identities = 45/88 (51%), Positives = 63/88 (71%), Gaps = 4/88 (4%)
Query: 1 PTAHVIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFW 60
P AHV D+P +KK++VK+EVE+ RVLR+SGERK + E +G+ W R ER+ G+F
Sbjct: 8 PEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKE----EEKKGDDWHRVERSSGRFV 63
Query: 61 RQFKMPMSADLEHVKAHLENGALRIKVP 88
R+F++P +AD + VKA LENG L + VP
Sbjct: 64 RRFRLPENADADEVKAFLENGVLTVTVP 91
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 82.6 bits (205), Expect = 7e-22
Identities = 37/104 (35%), Positives = 61/104 (58%), Gaps = 8/104 (7%)
Query: 1 PTAHVIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFW 60
A V+ LD+P K +E+K++VE+NRVL K + E + R+ER++ F
Sbjct: 6 KDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEE-------EDDHGLRSERSYRSFS 58
Query: 61 RQFKMPMSADLEHVKAHLENGALRIKVPELAEEKRRQPKVISIN 104
R+F +P +AD + VKA L++G L + VP+L + ++P+ I I
Sbjct: 59 RKFVLPENADPDKVKASLKDGVLTVTVPKLEPPE-KKPRRIQIQ 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 = 71.0 bits (175), Expect = 1e-17
Identities = 37/86 (43%), Positives = 56/86 (65%), Gaps = 6/86 (6%)
Query: 3 AHVIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQ 62
A+V+ D+P KK+++K+EVE+ VL +SGER+ +E E E + R ER++G F R
Sbjct: 8 AYVVEADLPGFKKEDIKVEVEDG-VLTISGERE-----EEEEEEENYLRRERSYGSFSRS 61
Query: 63 FKMPMSADLEHVKAHLENGALRIKVP 88
F++P D + +KA LENG L I +P
Sbjct: 62 FRLPEDVDPDKIKASLENGVLTITLP 87
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 59.7 bits (145), Expect = 2e-12
Identities = 36/100 (36%), Positives = 59/100 (59%), Gaps = 6/100 (6%)
Query: 5 VIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQFK 64
I ++P + K++++I VE N L + GER+ +E E E + R ER +G+F R F+
Sbjct: 53 RITAELPGVDKEDIEITVEGN-TLTIRGEREE----EEEEEEEGYLRRERAYGEFERTFR 107
Query: 65 MPMSADLEHVKAHLENGALRIKVPELAEEKRRQPKVISIN 104
+P D E +KA +NG L + +P+ AE + ++PK I I
Sbjct: 108 LPEKVDPEVIKAKYKNGLLTVTLPK-AEPEEKKPKRIEIE 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 = 52.2 bits (126), Expect = 3e-10
Identities = 32/84 (38%), Positives = 52/84 (61%), Gaps = 13/84 (15%)
Query: 5 VIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQFK 64
V+ +D+P +KK+++K+EVE+N L +SG+R+ + + ER++G+F R F+
Sbjct: 9 VVTVDLPGVKKEDIKVEVEDNV-LTISGKREEE------------EERERSYGEFERSFE 55
Query: 65 MPMSADLEHVKAHLENGALRIKVP 88
+P D E KA LENG L I +P
Sbjct: 56 LPEDVDPEKSKASLENGVLEITLP 79
>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 = 51.7 bits (125), Expect = 5e-10
Identities = 27/86 (31%), Positives = 49/86 (56%), Gaps = 4/86 (4%)
Query: 3 AHVIALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQ 62
+++ D+P KK+++K++ ++ L +S +R K+ + + R ER +G F R
Sbjct: 11 EYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKD--KKGNYIRRERYYGSFSRS 67
Query: 63 FKMPMSADLEHVKAHLENGALRIKVP 88
F +P + D E +KA ENG L+I +P
Sbjct: 68 FYLP-NVDEEEIKAKYENGVLKITLP 92
>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 = 35.2 bits (82), Expect = 0.001
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 14/83 (16%)
Query: 6 IALDIPVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQFKM 65
I L + +D+++IEVE N L ++G++ ++ E ++ F R F +
Sbjct: 15 ITLAVAGFSEDDLEIEVENN-QLTVTGKKADEE-----NEEREYLHRGIAKRAFERSFNL 68
Query: 66 PMSADLEHVK---AHLENGALRI 85
+HVK A LENG L I
Sbjct: 69 A-----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 = 27.9 bits (63), Expect = 0.47
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 13/76 (17%)
Query: 14 KKDEVKIEVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQFKMPMSADLEH 73
K +E+K++V +N+++ + G+ + + V E F R++++P D +
Sbjct: 19 KPEELKVKVSDNKLV-VEGKHEEREDEHGYVSRE-----------FTRRYQLPEGVDPDS 66
Query: 74 VKAHL-ENGALRIKVP 88
V + L +G L I+ P
Sbjct: 67 VTSSLSSDGVLTIEAP 82
>gnl|CDD|235934 PRK07101, PRK07101, hypothetical protein; Provisional.
Length = 187
Score = 27.2 bits (61), Expect = 1.9
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 50 QRAERTFGKFWRQFKMPMSADLEHVKAHLENGALRIKV 87
QR ERT +F+ + A++ L+ G +R ++
Sbjct: 24 QRYERTLAEFYGKEAPFDLAEIIQPPTELQEGLVRCRI 61
>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 = 27.2 bits (60), Expect = 2.6
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 1 PTAHVIALDIPVMKKDEVKIEVEENRVLRMSGE 33
PT +V A+D+ V K VK E N +L+ + +
Sbjct: 235 PTVNVTAIDLSVTVKKPVKAN-EVNLLLQKAAQ 266
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 25.2 bits (56), Expect = 4.7
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 4 HVIALDIPVMKKDEVKIEVEENRVLRMSGERK 35
+ +IP V ++VE+ V+ +SG K
Sbjct: 22 GELTREIP----PGVTVKVEKITVIIVSGIDK 49
>gnl|CDD|185144 PRK15222, PRK15222, putative pilin structural protein SafD;
Provisional.
Length = 156
Score = 25.4 bits (55), Expect = 7.4
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 27 VLRMSGERKSDDYYKEGVEGEKWQ 50
VL +SG++ + + +EGE WQ
Sbjct: 84 VLLLSGQQDPRHHIQVRLEGEGWQ 107
>gnl|CDD|200253 TIGR03225, benzo_boxB, benzoyl-CoA oxygenase, B subunit. Members
of this protein family are BoxB, the B subunit of
benzoyl-CoA oxygenase. This oxygen-requiring enzyme acts
in an aerobic pathway of benzoate catabolism via
coenzyme A ligation [Energy metabolism, Other].
Length = 471
Score = 25.9 bits (57), Expect = 7.4
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 11 PVMKKDEVKIEVEENRVLRMSGERKSDDYYKEGVEG-EKWQRAERTFG 57
PV+ + KI E L ER DDY K+ G ++W + G
Sbjct: 335 PVLDVIDGKIVTREVPALTALNERLRDDYIKDVQAGVDRWNKIIEKHG 382
>gnl|CDD|226837 COG4403, LcnDR2, Lantibiotic modifying enzyme [Defense mechanisms].
Length = 963
Score = 25.9 bits (57), Expect = 7.8
Identities = 17/77 (22%), Positives = 26/77 (33%), Gaps = 11/77 (14%)
Query: 6 IALDIPVMKKDEVKI--EVEENRVLRMSGERKSDDYYKEGVEGEKWQRAERTFGKFWRQF 63
I L+ MK + E E+N +++ DY KE EG F +
Sbjct: 383 INLNTDEMKIVKEPYMFESEKNLPTFNGKDKELLDYIKEITEG---------FRNMYLLL 433
Query: 64 KMPMSADLEHVKAHLEN 80
+S E E+
Sbjct: 434 CSGISEIKEKNILAFED 450
>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 = 25.0 bits (55), Expect = 8.6
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 36 SDD--YYKEGVEGEKWQRAERTFGKFWR 61
SDD Y +G KW + +FGK W+
Sbjct: 45 SDDLSYAFDGFLARKWHQGSESFGKQWQ 72
>gnl|CDD|164494 CHL00090, apcD, allophycocyanin gamma subunit.
Length = 161
Score = 25.1 bits (55), Expect = 8.8
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 62 QFKMPMSADLEHVKAHLENGALRIKVPELAEEKRRQ------PKVISINEE---PVGNSS 112
+ + P +LE ++ +L+ G RI++ + + ++ ++ I+ E P GN+S
Sbjct: 14 ELRYPTIGELESIQDYLKTGEKRIRIATILRDNEKEIIQKASKQLFQIHPEYIAPGGNAS 73
Query: 113 G 113
G
Sbjct: 74 G 74
>gnl|CDD|140023 PRK13967, nrdF1, ribonucleotide-diphosphate reductase subunit
beta; Provisional.
Length = 322
Score = 25.5 bits (55), Expect = 9.1
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 44 VEGEKWQRAERTFGKFWRQFKMPMSADL 71
++ + Q ER G FW K+P+S DL
Sbjct: 18 LDAKDLQVWERLTGNFWLPEKIPLSNDL 45
>gnl|CDD|241331 cd13177, RanBD2_RanBP2_mammal-like, Ran-binding protein 2, Ran
binding domain repeats 2. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
human, chicken, frog, tunicates, sea urchins, ticks, sea
anemones, and sponges. RanBD repeats 2 is present in
this hierarchy.
Length = 117
Score = 25.0 bits (54), Expect = 9.9
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 65 MPMSADLEHVKAHLENGALRIKVPELAEE 93
M M+ D A LE A + K PELAEE
Sbjct: 80 MWMANDFSDGDAKLEQLAAKFKTPELAEE 108
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
0.312 0.130 0.365
Gapped
Lambda K H
0.267 0.0678 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,297,566
Number of extensions: 553629
Number of successful extensions: 439
Number of sequences better than 10.0: 1
Number of HSP's gapped: 431
Number of HSP's successfully gapped: 40
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.3 bits)