RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 046366
(128 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 = 102 bits (257), Expect = 7e-30
Identities = 44/85 (51%), Positives = 58/85 (68%), Gaps = 8/85 (9%)
Query: 52 RETPTSHVITLDIPRMKKDDVKIEVEENRVLR--------EEVEGEKWHRAERPFDKVWR 103
+ETP +HV D+P +KK+DVK+EVE+ RVLR EE +G+ WHR ER + R
Sbjct: 5 KETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSGRFVR 64
Query: 104 QFRMPMSADLDHVKAHLENGVLRIT 128
+FR+P +AD D VKA LENGVL +T
Sbjct: 65 RFRLPENADADEVKAFLENGVLTVT 89
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 85.0 bits (211), Expect = 1e-22
Identities = 32/82 (39%), Positives = 52/82 (63%), Gaps = 5/82 (6%)
Query: 52 RETPTSHVITLDIPRMKKDDVKIEVEENRVL-----REEVEGEKWHRAERPFDKVWRQFR 106
+E + V+ LD+P K +++K++VE+NRVL +E E + R+ER + R+F
Sbjct: 3 KEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEEEDDHGLRSERSYRSFSRKFV 62
Query: 107 MPMSADLDHVKAHLENGVLRIT 128
+P +AD D VKA L++GVL +T
Sbjct: 63 LPENADPDKVKASLKDGVLTVT 84
>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 = 77.6 bits (192), Expect = 6e-20
Identities = 35/83 (42%), Positives = 48/83 (57%), Gaps = 6/83 (7%)
Query: 52 RETPTSHVITLDIPRMKKDDVKIEVEENRVL------REEVEGEKWHRAERPFDKVWRQF 105
ET ++V+ D+P KK+D+K+EVE+ + EE E E + R ER + R F
Sbjct: 3 YETDDAYVVEADLPGFKKEDIKVEVEDGVLTISGEREEEEEEEENYLRRERSYGSFSRSF 62
Query: 106 RMPMSADLDHVKAHLENGVLRIT 128
R+P D D +KA LENGVL IT
Sbjct: 63 RLPEDVDPDKIKASLENGVLTIT 85
>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 = 62.6 bits (153), Expect = 3e-14
Identities = 30/80 (37%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 51 FRETPTSHVITLDIPRMKKDDVKIEVEENRVLREEVEGEKWHRA--ERPFDKVWRQFRMP 108
+ +T V+T+D+P +KK+D+K+EVE+N + + G++ ER + + R F +P
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNVL---TISGKREEEEERERSYGEFERSFELP 57
Query: 109 MSADLDHVKAHLENGVLRIT 128
D + KA LENGVL IT
Sbjct: 58 EDVDPEKSKASLENGVLEIT 77
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 62.8 bits (153), Expect = 1e-13
Identities = 36/127 (28%), Positives = 58/127 (45%), Gaps = 19/127 (14%)
Query: 21 LMNMASQVNALMLYTRSPFFDVMFPMTEDPFR------------ETPTSHVITLDIPRMK 68
M ++ + L SP FD +F + ET + IT ++P +
Sbjct: 3 FEAMRNRFDFFPLLRDSPGFDRLFREFGNLPESRPTGTPPVDIEETDDEYRITAELPGVD 62
Query: 69 KDDVKIEVEENRVL-------REEVEGEKWHRAERPFDKVWRQFRMPMSADLDHVKAHLE 121
K+D++I VE N + EE E E + R ER + + R FR+P D + +KA +
Sbjct: 63 KEDIEITVEGNTLTIRGEREEEEEEEEEGYLRRERAYGEFERTFRLPEKVDPEVIKAKYK 122
Query: 122 NGVLRIT 128
NG+L +T
Sbjct: 123 NGLLTVT 129
>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 = 53.6 bits (130), Expect = 1e-10
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 10/86 (11%)
Query: 52 RETPTSHVITLDIPRMKKDDVKIEVEEN----RVLREEVEGEK-----WHRAERPFDKVW 102
+ET +++ D+P KK+D+K++ ++ R+E + EK + R ER +
Sbjct: 6 KETDDEYIVEADLPGFKKEDIKLDYKDGYLTISAKRDESKDEKDKKGNYIRRERYYGSFS 65
Query: 103 RQFRMPMSADLDHVKAHLENGVLRIT 128
R F +P + D + +KA ENGVL+IT
Sbjct: 66 RSFYLP-NVDEEEIKAKYENGVLKIT 90
>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 = 47.1 bits (113), Expect = 4e-08
Identities = 31/82 (37%), Positives = 44/82 (53%), Gaps = 20/82 (24%)
Query: 58 HVITLDIPRMKKDDVKIEVEENRVL------REEVEGEKW-HR--AERPFDKVWRQFRMP 108
+ ITL + +DD++IEVE N++ EE E ++ HR A+R F+ R F +
Sbjct: 13 YRITLAVAGFSEDDLEIEVENNQLTVTGKKADEENEEREYLHRGIAKRAFE---RSFNLA 69
Query: 109 MSADLDHVK---AHLENGVLRI 127
DHVK A LENG+L I
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 = 36.0 bits (84), Expect = 6e-04
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 9/74 (12%)
Query: 60 ITLDIPRMKKDDVKIEVEENRVLREEVEGEKWHRAERPFDKVWRQF----RMPMSADLDH 115
+TLD+ K +++K++V +N++ VEG+ R + V R+F ++P D D
Sbjct: 11 VTLDVKGFKPEELKVKVSDNKL---VVEGKHEEREDE-HGYVSREFTRRYQLPEGVDPDS 66
Query: 116 VKAHL-ENGVLRIT 128
V + L +GVL I
Sbjct: 67 VTSSLSSDGVLTIE 80
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 32.9 bits (76), Expect = 0.006
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 7/52 (13%)
Query: 57 SHVITLDIPRMKKDDVKIEVEENRVLREEVEGEKWHRAERPFDKVWRQFRMP 108
+T +IP V ++VE+ V+ V G + + F + +R P
Sbjct: 21 KGELTREIP----PGVTVKVEKITVII--VSGIDKEKVGQ-FAALIGTYRAP 65
>gnl|CDD|237459 PRK13655, PRK13655, phosphoenolpyruvate carboxylase; Provisional.
Length = 494
Score = 28.0 bits (63), Expect = 1.6
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 11 AMLFLVMAATLMNMASQVNALMLYTRSPFFDVMFPMTED 49
L ++ N AL YT+ P F+V+ PMT
Sbjct: 97 RKLLAETLESIANSYDL--ALSFYTQ-PIFEVILPMTTS 132
>gnl|CDD|177062 CHL00140, rpl6, ribosomal protein L6; Validated.
Length = 178
Score = 26.8 bits (60), Expect = 3.0
Identities = 8/23 (34%), Positives = 12/23 (52%), Gaps = 4/23 (17%)
Query: 57 SHVITLDIPRMKKDDVKIEVEEN 79
SH + + IP + +EVE N
Sbjct: 110 SHPVKIKIP----PGISVEVENN 128
>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 = 26.6 bits (59), Expect = 4.2
Identities = 8/14 (57%), Positives = 14/14 (100%)
Query: 114 DHVKAHLENGVLRI 127
DH+K+HL+NG+++I
Sbjct: 19 DHIKSHLKNGMIQI 32
>gnl|CDD|239576 cd03496, SQR_TypeC_CybS, SQR catalyzes the oxidation of succinate
to fumarate coupled to the reduction of quinone to
quinol. Eukaryotic SQRs reduce high potential quinones
such as ubiquinone. SQR is also called succinate
dehydrogenase or Complex II, and is part of the citric
acid cycle and the aerobic respiratory chain. SQR is
composed of a flavoprotein catalytic subunit, an
iron-sulfur protein and one or two hydrophobic
transmembrane subunits. Members of this subfamily are
classified as Type C SQRs because they contain two
transmembrane subunits and one heme group. CybS and
CybL are the two transmembrane proteins of eukaryotic
SQRs. They contain heme and quinone binding sites. CybS
is the eukaryotic homolog of the bacterial SdhD
subunit. The two-electron oxidation of succinate in
the flavoprotein active site is coupled to the
two-electron reduction of quinone in the transmembrane
subunits via electron transport through FAD and three
iron-sulfur centers. The reversible reduction of
quinone is an essential feature of respiration,
allowing transfer of electrons between respiratory
complexes. Mutations in human Complex II result in
various physiological disorders including hereditary
paraganglioma and pheochromocytoma tumors. The gene
encoding for the SdhD subunit is classified as a tumor
suppressor gene.
Length = 104
Score = 25.3 bits (56), Expect = 6.4
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 6 RILAMAMLFLVMAATLMNMASQV 28
RILA+++L L AA S V
Sbjct: 11 RILAVSLLPLTPAAFFAPGLSPV 33
>gnl|CDD|221388 pfam12034, DUF3520, Domain of unknown function (DUF3520). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is about 180
amino acids in length. This domain is found associated
with pfam00092.
Length = 183
Score = 25.6 bits (57), Expect = 7.1
Identities = 11/30 (36%), Positives = 12/30 (40%), Gaps = 14/30 (46%)
Query: 70 DDVKIEVE--------------ENRVLREE 85
DVKI+VE ENR L E
Sbjct: 8 KDVKIQVEFNPAQVAEYRLIGYENRALARE 37
>gnl|CDD|131180 TIGR02125, CytB-hydogenase, Ni/Fe-hydrogenase, b-type cytochrome
subunit. This model describes a family of cytochrome b
proteins which appear to be specific for nickel-iron
hydrogenase complexes. Every genome which contains a
member of this family posesses a Ni/Fe hydrogenase
according to Genome Properties (GenProp0177), and most
are gene clustered with other hydrogenase components.
Some Ni/Fe hydrogenase-containing species lack a member
of this family but contain other CytB homologs
(pfam01292) which may substitute for it.
Length = 211
Score = 25.8 bits (57), Expect = 7.6
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 7/49 (14%)
Query: 1 LMAKSRILAMAMLFLVMAATLMNM----ASQVNALMLYTRSPFFDVMFP 45
L R + A F+++A L + + + Y R F D + P
Sbjct: 44 LQGYIRFVHFAAGFVLIAVLLFRVYLAFVGKDS---RYERFSFRDPLNP 89
>gnl|CDD|225265 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 26.0 bits (57), Expect = 7.8
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 72 VKIEVEENRVLREEVEGEKWHRAERPFDKVWRQFRMPMSAD 112
V E +E V + E K++ ER KVW + A
Sbjct: 48 VINEPKEIDVFFNDYELYKFYNGERI--KVWPVWEKIYEAK 86
>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 = 24.5 bits (54), Expect = 8.2
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 51 FRETPTSHVITLDIPR-MKKDDVKIEVEENRV 81
+ +T IT+ + KK DVK+E++ +
Sbjct: 5 WYQTLDEVTITIPLKGVTKKKDVKVEIKPRSL 36
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
0.325 0.135 0.396
Gapped
Lambda K H
0.267 0.0848 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,641,804
Number of extensions: 592011
Number of successful extensions: 971
Number of sequences better than 10.0: 1
Number of HSP's gapped: 959
Number of HSP's successfully gapped: 38
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.0 bits)