RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031266
(162 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 = 161 bits (409), Expect = 2e-52
Identities = 69/92 (75%), Positives = 78/92 (84%)
Query: 55 RVDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSG 114
RVDWKETPEAHVFKAD+PG++KE+VKVEVED RVL+ISG+R E E K D WHR ERSSG
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSG 60
Query: 115 MFSRRFRLPENVKMDQIKASMENGVLTVTVPK 146
F RRFRLPEN D++KA +ENGVLTVTVPK
Sbjct: 61 RFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 129 bits (327), Expect = 9e-40
Identities = 50/105 (47%), Positives = 70/105 (66%), Gaps = 4/105 (3%)
Query: 57 DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMF 116
D KE +A V K D+PG + EE+KV+VED+RVL E+E+++D R ERS F
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKH---EKEEEDDHGLRSERSYRSF 57
Query: 117 SRRFRLPENVKMDQIKASMENGVLTVTVPKVEEARKANAKAIEIS 161
SR+F LPEN D++KAS+++GVLTVTVPK+E + + I+I
Sbjct: 58 SRKFVLPENADPDKVKASLKDGVLTVTVPKLEPP-EKKPRRIQIQ 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 = 114 bits (289), Expect = 3e-34
Identities = 54/90 (60%), Positives = 70/90 (77%), Gaps = 2/90 (2%)
Query: 57 DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMF 116
D ET +A+V +ADLPG +KE++KVEVED VL ISG+R E E++ + + R ERS G F
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGEREEEEEEE-ENYLRRERSYGSF 58
Query: 117 SRRFRLPENVKMDQIKASMENGVLTVTVPK 146
SR FRLPE+V D+IKAS+ENGVLT+T+PK
Sbjct: 59 SRSFRLPEDVDPDKIKASLENGVLTITLPK 88
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 101 bits (253), Expect = 4e-28
Identities = 50/141 (35%), Positives = 74/141 (52%), Gaps = 4/141 (2%)
Query: 21 LDVWDPFRDFPLPSGYSSALSSQFPPETSAVVNARVDWKETPEAHVFKADLPGLRKEEVK 80
D + RD P + + VD +ET + + A+LPG+ KE+++
Sbjct: 10 FDFFPLLRDSPGFDRLFREFGNLPESRPTGTP--PVDIEETDDEYRITAELPGVDKEDIE 67
Query: 81 VEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMDQIKASMENGVL 140
+ VE + + I G+R E E++ + + R ER+ G F R FRLPE V + IKA +NG+L
Sbjct: 68 ITVEGNTLT-IRGEREEEEEEEEEGYLRRERAYGEFERTFRLPEKVDPEVIKAKYKNGLL 126
Query: 141 TVTVPKVEEARKANAKAIEIS 161
TVT+PK E K K IEI
Sbjct: 127 TVTLPKAEPEEK-KPKRIEIE 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 = 99.5 bits (249), Expect = 5e-28
Identities = 42/94 (44%), Positives = 61/94 (64%), Gaps = 4/94 (4%)
Query: 55 RVDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGI--EREDKNDTWHRWERS 112
+ D KET + ++ +ADLPG +KE++K++ +D L IS +R + +DK + R ER
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKDKKGNYIRRERY 60
Query: 113 SGMFSRRFRLPENVKMDQIKASMENGVLTVTVPK 146
G FSR F LP NV ++IKA ENGVL +T+PK
Sbjct: 61 YGSFSRSFYLP-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 = 92.3 bits (230), Expect = 2e-25
Identities = 44/89 (49%), Positives = 58/89 (65%), Gaps = 9/89 (10%)
Query: 58 WKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFS 117
W +T + V DLPG++KE++KVEVED+ L ISG+R E E ERS G F
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEEER--------ERSYGEFE 51
Query: 118 RRFRLPENVKMDQIKASMENGVLTVTVPK 146
R F LPE+V ++ KAS+ENGVL +T+PK
Sbjct: 52 RSFELPEDVDPEKSKASLENGVLEITLPK 80
>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 = 58.7 bits (143), Expect = 3e-12
Identities = 27/78 (34%), Positives = 47/78 (60%), Gaps = 9/78 (11%)
Query: 70 DLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMD 129
D+ G + EE+KV+V D++++ + G+ E++ D R F+RR++LPE V D
Sbjct: 14 DVKGFKPEELKVKVSDNKLV-VEGKH----EEREDEHGYVSRE---FTRRYQLPEGVDPD 65
Query: 130 QIKASM-ENGVLTVTVPK 146
+ +S+ +GVLT+ PK
Sbjct: 66 SVTSSLSSDGVLTIEAPK 83
>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 = 54.8 bits (133), Expect = 1e-10
Identities = 22/73 (30%), Positives = 45/73 (61%), Gaps = 6/73 (8%)
Query: 71 LPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTW-HRWERSSGMFSRRFRLPENVKMD 129
+ G ++++++EVE++ L ++G++ E E++ + HR + F R F L ++VK+
Sbjct: 19 VAGFSEDDLEIEVENN-QLTVTGKKADE-ENEEREYLHR-GIAKRAFERSFNLADHVKVK 75
Query: 130 QIKASMENGVLTV 142
A +ENG+LT+
Sbjct: 76 G--AELENGLLTI 86
>gnl|CDD|107245 cd06497, ACD_alphaA-crystallin_HspB4, Alpha-crystallin domain found
in the small heat shock protein (sHsp) alphaA-crystallin
(HspB4, 20kDa). sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Alpha crystallin, an
abundant protein in the mammalian lens, is a large (700
kDa) heteropolymer composed of HspB4 and HspB5,
generally in a molar ratio of HspB4:HspB5 of 3:1. Only
trace amounts of HspB4 are found in tissues other than
the lens. HspB5 does not belong to this group. Mutations
inHspB4 have been associated with Autosomal Dominant
Congenital Cataract (ADCC). The chaperone-like functions
of HspB4 are considered important for maintaining lens
transparency and preventing cataract.
Length = 86
Score = 37.7 bits (87), Expect = 3e-04
Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 9/78 (11%)
Query: 70 DLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMD 129
D+ E++ V+V DD V +I G+ ER+D + R F RR+RLP NV
Sbjct: 17 DVKHFSPEDLTVKVLDDYV-EIHGKHS-ERQDDHGYISR------EFHRRYRLPSNVDQS 68
Query: 130 QIKASME-NGVLTVTVPK 146
I S+ +G+LT + PK
Sbjct: 69 AITCSLSADGMLTFSGPK 86
>gnl|CDD|107233 cd06478, ACD_HspB4-5-6, Alpha-crystallin domain found in
alphaA-crystallin (HspB4), alphaB-crystallin (HspB5),
and the small heat shock protein (sHsp) HspB6, also
known as Hsp20. sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Alpha crystallin, an
abundant protein in the mammalian lens, is a large (700
kDa) heteropolymer composed of HspB4 and HspB5,
generally in a molar ratio of HspB4:HspB5 of 3:1. Only
trace amounts of HspB4 are found in tissues other than
the lens. HspB5 on the other hand is also expressed
constitutively in other tissues including brain, heart,
and type I and type IIa skeletal muscle fibers, and in
several cancers including gliomas, renal cell
carcinomas, basal-like and metaplastic breast
carcinomas, and head and neck cancer. HspB5's functions
include effects on the apoptotic pathway and on
metastasis. Phosphorylation of HspB5 reduces its
oligomerization and anti-apoptotic activities. HspB5 is
protective in demyelinating disease such as multiple
sclerosis (MS), being a negative regulator of
inflammation. In early active MS lesions it is the most
abundant gene transcript and an autoantigen, the immune
response against it would disrupt its function and
worsen inflammation and demyelination. Given as therapy
for ongoing demyelinating disease it may counteract this
effect. It is an autoantigen in the pathogenesis of
various other inflammatory disorders including
Lens-associated uveitis (LAU), and Behcet's disease.
Mutations in HspB5 have been associated with diseases
including dominant cataract and desmin-related myopathy.
Mutations in HspB4 have been associated with Autosomal
Dominant Congenital Cataract (ADCC). HspB6 (Hsp20) is
ubiquitous and is involved in diverse functions
including regulation of glucose transport and
contraction of smooth muscle, in platelet aggregation,
in cardioprotection, and in the prevention of apoptosis.
It interacts with the universal scaffolding and adaptor
protein 14-3-3, and also with the proapoptotic protein
Bax.
Length = 83
Score = 36.3 bits (84), Expect = 7e-04
Identities = 26/71 (36%), Positives = 40/71 (56%), Gaps = 9/71 (12%)
Query: 77 EEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMDQIKASME 136
EE+ V+V D V +I G+ ER+D++ R F RR+RLP V I +S+
Sbjct: 21 EELSVKVLGDFV-EIHGKHE-ERQDEHGFISR------EFHRRYRLPPGVDPAAITSSLS 72
Query: 137 -NGVLTVTVPK 146
+GVLT++ P+
Sbjct: 73 ADGVLTISGPR 83
>gnl|CDD|107230 cd06475, ACD_HspB1_like, Alpha crystallin domain (ACD) found in
mammalian small (s)heat shock protein (Hsp)-27 (also
denoted HspB1 in human) 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. Hsp27 shows enhanced synthesis in response to
stress. It is a molecular chaperone which interacts with
a large number of different proteins. It is found in
many types of human cells including breast, uterus,
cervix, platelets and cancer cells. Hsp27 has diverse
cellular functions including, chaperoning, regulation of
actin polymerization, keratinocyte differentiation,
regulation of inflammatory pathways in keratinocytes,
and protection from oxidative stress through modulating
glutathione levels. It is also a subunit of
AUF1-containing protein complexes. It has been linked to
several transduction pathways regulating cellular
functions including differentiation, cell growth,
development, and apoptosis. Its activity can be
regulated by phosphorylation. Its unphosphorylated state
is a high molecular weight aggregated form (100-800kDa)
composed of up to 24 subunits, which forms as a result
of multiple interactions within the ACD, and is required
for chaperone function and resistance to oxidative
stress. Upon phosphorylation these large aggregates
rapidly disassociate to smaller oligomers and chaperone
activity is modified. High constitutive levels of Hsp27
have been detected in various cancer cells, in
particular those of carcinoma origin. Over-expression of
Hsp27 has a protective effect against various
diseases-processes, including Huntington's disease.
Mutations in Hsp27 have been associated with a form of
distal hereditary motor neuropathy type II and
Charcot-Marie-Tooth disease type 2.
Length = 86
Score = 33.3 bits (76), Expect = 0.011
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 9/77 (11%)
Query: 70 DLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMD 129
D+ EE+ V+ +D V++I+G+ E++D++ R F+R++ LP V
Sbjct: 17 DVNHFAPEELVVKTKDG-VVEITGKHE-EKQDEHGFVSR------CFTRKYTLPPGVDPT 68
Query: 130 QIKASME-NGVLTVTVP 145
+ +S+ +G+LTV P
Sbjct: 69 AVTSSLSPDGILTVEAP 85
>gnl|CDD|107246 cd06498, ACD_alphaB-crystallin_HspB5, Alpha-crystallin domain found
in the small heat shock protein (sHsp) alphaB-crystallin
(HspB5, 20kDa). sHsps are molecular chaperones that
suppress protein aggregation and protect against cell
stress, and are generally active as large oligomers
consisting of multiple subunits. Alpha crystallin, an
abundant protein in the mammalian lens, is a large (700
kDa) heteropolymer composed of HspB4 and HspB5,
generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4
does not belong to this group. HspB5 shows increased
synthesis in response to stress. HspB5 is also expressed
constitutively in other tissues including brain, heart,
and type I and type IIa skeletal muscle fibers, and in
several cancers including gliomas, renal cell
carcinomas, basal-like and metaplastic breast
carcinomas, and head and neck cancer. Its functions
include effects on the apoptotic pathway and on
metastasis. Phosphorylation of HspB5 reduces its
oligomerization and anti-apoptotic activities. HspB5 is
protective in demyelinating disease such as multiple
sclerosis (MS), being a negative regulator of
inflammation. In early active MS lesions it is the most
abundant gene transcript and an autoantigen, the immune
response against it would disrupt its function and
worsen inflammation and demyelination. Given as therapy
for ongoing demyelinating disease it may counteract this
effect. It is an autoantigen in the pathogenesis of
various other inflammatory disorders including
Lens-associated uveitis (LAU), and Behcet's disease.
Mutations in HspB5 have been associated with diseases
including dominant cataract and desmin-related myopathy.
Length = 84
Score = 33.1 bits (75), Expect = 0.013
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 70 DLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMD 129
D+ EE+KV+V D ++I G+ ER+D++ R F R++R+P +V
Sbjct: 14 DVKHFSPEELKVKVLGD-FIEIHGKHE-ERQDEHGFISR------EFQRKYRIPADVDPL 65
Query: 130 QIKASME-NGVLTVTVPK 146
I +S+ +GVLTV P+
Sbjct: 66 TITSSLSPDGVLTVCGPR 83
>gnl|CDD|107236 cd06481, ACD_HspB9_like, Alpha crystallin domain (ACD) found in
mammalian small heat shock protein (sHsp) HspB9 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. Human (h) HspB9 is
expressed exclusively in the normal testis and in
various tumor samples and is a cancer/testis antigen.
hHspB9 interacts with TCTEL1 (T-complex testis
expressed protein -1), a subunit of dynein. hHspB9 and
TCTEL1 are co-expressed in similar cells within the
testis and in tumor cells. Included in this group is
Xenopus Hsp30, a developmentally-regulated
heat-inducible molecular chaperone.
Length = 87
Score = 32.0 bits (73), Expect = 0.027
Identities = 25/88 (28%), Positives = 44/88 (50%), Gaps = 5/88 (5%)
Query: 59 KETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSR 118
K+ E K D+ G E++ V V D R L ++G+R + ED+ ++ + F R
Sbjct: 3 KDGKEGFSLKLDVRGFSPEDLSVRV-DGRKLVVTGKREKKNEDEKGSFSYEYQE---FVR 58
Query: 119 RFRLPENVKMDQIKASM-ENGVLTVTVP 145
+LPE+V + + S+ +G L + P
Sbjct: 59 EAQLPEHVDPEAVTCSLSPSGHLHIRAP 86
>gnl|CDD|236963 PRK11720, PRK11720, galactose-1-phosphate uridylyltransferase;
Provisional.
Length = 346
Score = 31.8 bits (73), Expect = 0.11
Identities = 14/53 (26%), Positives = 19/53 (35%), Gaps = 9/53 (16%)
Query: 53 NARV------DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRGIER 99
N RV D+ T +VF D L + DD + + RG R
Sbjct: 58 NTRVTGDVNPDYTGT---YVFTNDFAALMPDTPDAPESDDPLFRCQSARGTSR 107
>gnl|CDD|107237 cd06482, ACD_HspB10, Alpha crystallin domain (ACD) found in
mammalian small heat shock protein (sHsp) HspB10, also
known as sperm outer dense fiber protein (ODFP), 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. Human (h) HspB10 occurs
exclusively in the axoneme of sperm cells and may have a
cytoskeletal role.
Length = 87
Score = 29.1 bits (65), Expect = 0.35
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 70 DLPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMD 129
D+ G ++VKV+V+D +V Q+S ERE++ D + S + F LP V
Sbjct: 15 DVCGFEPDQVKVKVKDGKV-QVSA----ERENRYDCLGSKKYSYMNICKEFSLPPGVDEK 69
Query: 130 QIKASMENGVLTVTVPKVEEA 150
+ S G +V K+E
Sbjct: 70 DVTYSYGLG----SVVKIETP 86
>gnl|CDD|234296 TIGR03653, arch_L6P, archaeal ribosomal protein L6P. Members of
this protein family are the archaeal ribosomal protein
L6P. The top-scoring proteins not selected by this model
are eukaryotic cytosolic ribosomal protein L9. Bacterial
ribosomal protein L6 scores lower and is described by a
distinct model [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 170
Score = 29.6 bits (67), Expect = 0.51
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 118 RRFRLPENVKMDQIKASMENGVLTVTVPKVEEARKANAKAIEIS 161
+PE V ++E ++TV PK E R+ IEIS
Sbjct: 2 EEIEIPEGVS-----VTIEGNIVTVKGPKGEVTRELWYPGIEIS 40
>gnl|CDD|183223 PRK11597, PRK11597, heat shock chaperone IbpB; Provisional.
Length = 142
Score = 27.8 bits (62), Expect = 1.5
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 71 LPGLRKEEVKVEVEDDRVLQISGQRGIEREDKNDTWHRWERSSGMFSRRFRLPENVKMDQ 130
L G R+E++ +++E R L + G E+ +K W + FS F L EN+++
Sbjct: 51 LAGFRQEDLDIQLEGTR-LTVKGTP--EQPEKEVKWLHQGLVNQPFSLSFTLAENMEVSG 107
Query: 131 IKASMENGVLTVT-VPKVEEARKANAKAIE 159
A+ NG+L + + EA AI
Sbjct: 108 --ATFVNGLLHIDLIRNEPEAIAPQRIAIS 135
>gnl|CDD|184118 PRK13531, PRK13531, regulatory ATPase RavA; Provisional.
Length = 498
Score = 28.4 bits (64), Expect = 2.0
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 87 RVLQISGQRGIEREDKND-TWHRWERSSGMFSRR--FRLPENVKMDQI 131
R+ I +R ++ ++D T + GMFSR+ ++LP N+ +
Sbjct: 315 RLGAIVQRRLQLQQQQSDKTALTVIKQGGMFSRKPHYQLPVNLTASTL 362
>gnl|CDD|185214 PRK15314, PRK15314, outer membrane protein RatB; Provisional.
Length = 2435
Score = 27.9 bits (61), Expect = 3.0
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 6/50 (12%)
Query: 101 DKNDTWHRWERSSGMFS------RRFRLPENVKMDQIKASMENGVLTVTV 144
+ N+TW+ W R M+ R LP + + NG LT T+
Sbjct: 1766 ENNETWYTWSRYPNMYQDTASPCDRLGLPTVNDLQTLYTDYPNGALTTTL 1815
>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional.
Length = 600
Score = 27.3 bits (62), Expect = 4.2
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 68 KADLPGLRKEEVKVEVED------DRVLQISGQRGI 97
K DLP E VK E+ED + +S + GI
Sbjct: 135 KIDLPAADPERVKQEIEDVIGIDASDAVLVSAKTGI 170
>gnl|CDD|215493 PLN02910, PLN02910, polygalacturonate
4-alpha-galacturonosyltransferase.
Length = 657
Score = 27.2 bits (60), Expect = 4.2
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 33 PSGYSSALSSQFPPETSAVVNARVDWKETPEAHVF 67
PS Y A+ S TS VVN+ V + P+ HVF
Sbjct: 343 PSLYHYAIFSDNVLATSVVVNSTVLHAKEPQKHVF 377
>gnl|CDD|193549 cd05674, M20_yscS, M20 Peptidase, carboxypeptidase yscS. Peptidase
M20 family, yscS (GlyX-carboxypeptidase, CPS1,
carboxypeptidase S, carboxypeptidase a, carboxypeptidase
yscS, glycine carboxypeptidase)-like subfamily. This
group mostly contains proteins that have been
uncharacterized to date, but also includes vacuolar
proteins involved in nitrogen metabolism which are
essential for use of certain peptides that are sole
nitrogen sources. YscS releases a C-terminal amino acid
from a peptide that has glycine as the penultimate
residue. It is synthesized as one polypeptide chain
precursor which yields two active precursor molecules
after carbohydrate modification in the secretory
pathway. The proteolytically unprocessed forms are
associated with the membrane, whereas the mature forms
of the enzyme are soluble. Enzymes in this subfamily
may also cleave intracellularly generated peptides in
order to recycle amino acids for protein synthesis.
Length = 441
Score = 27.1 bits (61), Expect = 4.5
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 45 PPETSAVVNARVDWKETPE---AHVFKADLPGLRKEEVKVEVE 84
P E SA VN R+ +T E HV +A + VK E+
Sbjct: 307 PEEASATVNFRILPGDTVEEVLEHVKRA----IDDIAVKYELL 345
>gnl|CDD|235496 PRK05518, rpl6p, 50S ribosomal protein L6P; Reviewed.
Length = 180
Score = 26.7 bits (60), Expect = 4.7
Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 5/47 (10%)
Query: 115 MFSRRFRLPENVKMDQIKASMENGVLTVTVPKVEEARKANAKAIEIS 161
+PE V +E V+TV PK E R + IS
Sbjct: 5 YIREEIEIPEGVT-----VEIEGLVVTVKGPKGELTRDFWYPGVTIS 46
>gnl|CDD|225191 COG2309, AmpS, Leucyl aminopeptidase (aminopeptidase T) [Amino acid
transport and metabolism].
Length = 385
Score = 26.9 bits (60), Expect = 5.0
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 72 PGLRKEEVKVEVEDDRVLQISGQRG 96
G E +++ ED +V++IS ++G
Sbjct: 252 QGTLIEGIRLTFEDGKVVEISAEKG 276
>gnl|CDD|205230 pfam13049, DUF3910, Protein of unknown function (DUF3910). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are approximately 100 amino acids in
length.
Length = 93
Score = 26.0 bits (57), Expect = 5.2
Identities = 8/20 (40%), Positives = 15/20 (75%)
Query: 52 VNARVDWKETPEAHVFKADL 71
+ A+VDW TP+ +++K D+
Sbjct: 3 LQAKVDWIGTPKPYIYKDDV 22
>gnl|CDD|238624 cd01299, Met_dep_hydrolase_A, Metallo-dependent hydrolases,
subgroup A is part of the superfamily of
metallo-dependent hydrolases, a large group of proteins
that show conservation in their 3-dimensional fold (TIM
barrel) and in details of their active site. The vast
majority of the members have a conserved metal binding
site, involving four histidines and one aspartic acid
residue. In the common reaction mechanism, the metal ion
(or ions) deprotonate a water molecule for a
nucleophilic attack on the substrate. The function of
this subgroup is unknown.
Length = 342
Score = 26.9 bits (60), Expect = 5.9
Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 15/48 (31%)
Query: 124 ENVKM--DQIKASMENGVLTVTVPK-------------VEEARKANAK 156
E ++ DQIK GVL+ P V+EA KA
Sbjct: 128 EQLRRGADQIKIMATGGVLSPGDPPPDTQFSEEELRAIVDEAHKAGLY 175
>gnl|CDD|206677 cd01890, LepA, LepA also known as Elongation Factor 4 (EF4). LepA
(also known as elongation factor 4, EF4) belongs to the
GTPase family and exhibits significant homology to the
translation factors EF-G and EF-Tu, indicating its
possible involvement in translation and association with
the ribosome. LepA is ubiquitous in bacteria and
eukaryota (e.g. yeast GUF1p), but is missing from
archaea. This pattern of phyletic distribution suggests
that LepA evolved through a duplication of the EF-G gene
in bacteria, followed by early transfer into the
eukaryotic lineage, most likely from the
promitochondrial endosymbiont. Yeast GUF1p is not
essential and mutant cells did not reveal any marked
phenotype.
Length = 179
Score = 26.0 bits (58), Expect = 8.3
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 68 KADLPGLRKEEVKVEVED------DRVLQISGQRGI 97
K DLP + VK E+ED + +S + G+
Sbjct: 128 KIDLPAADPDRVKQEIEDVLGLDASEAILVSAKTGL 163
>gnl|CDD|176810 cd08976, BaFpgNei_N_4, Uncharacterized bacterial subgroup of the
N-terminal domain of Fpg (formamidopyrimidine-DNA
glycosylase, MutM)_Nei (endonuclease VIII)
base-excision repair DNA glycosylases. This family is
an uncharacterized bacterial subgroup of the FpgNei_N
domain superfamily. DNA glycosylases maintain genome
integrity by recognizing base lesions created by
ionizing radiation, alkylating or oxidizing agents, and
endogenous reactive oxygen species. They initiate the
base-excision repair process, which is completed with
the help of enzymes such as phosphodiesterases, AP
endonucleases, DNA polymerases and DNA ligases. DNA
glycosylases cleave the N-glycosyl bond between the
sugar and the damaged base, creating an AP
(apurinic/apyrimidinic) site. Most FpgNei DNA
glycosylases use their N-terminal proline residue as
the key catalytic nucleophile, and the reaction
proceeds via a Schiff base intermediate. This
N-terminal proline is conserved in this family.
Escherichia coli Fpg prefers 8-oxo-7,8-dihydroguanine
(8-oxoG) and oxidized purines and Escherichia coli Nei
recognizes oxidized pyrimidines. However, neither
Escherichia coli Fpg or Nei belong to this family. In
addition to this BaFpgNei_N_4 domain, most enzymes
belonging to this family contain a helix-two turn-helix
(H2TH) domain and a zinc-finger motif.
Length = 117
Score = 25.4 bits (56), Expect = 8.9
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 60 ETPEAHVFKADLPG--LRKEEVKVEVEDDRVLQ 90
E PE V K L L ++ V+VEV DD++L
Sbjct: 2 ELPEVEVQKQYLERTSLHRKIVEVEVGDDKILG 34
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 0.132 0.391
Gapped
Lambda K H
0.267 0.0622 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,351,741
Number of extensions: 747983
Number of successful extensions: 805
Number of sequences better than 10.0: 1
Number of HSP's gapped: 791
Number of HSP's successfully gapped: 40
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
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: 55 (25.2 bits)