RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031218
(163 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 = 165 bits (420), Expect = 5e-54
Identities = 71/92 (77%), Positives = 80/92 (86%)
Query: 56 RVDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSG 115
RVDWKETPEAHVFKAD+PG++KE+VKVEVED RVL+ISG+R E+E K D WHRVERSSG
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSG 60
Query: 116 MFSRRFRLPENAKMDRIKASMENGVLTVTVPK 147
F RRFRLPENA D +KA +ENGVLTVTVPK
Sbjct: 61 RFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 134 bits (339), Expect = 1e-41
Identities = 55/105 (52%), Positives = 70/105 (66%), Gaps = 4/105 (3%)
Query: 58 DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMF 117
D KE +A V K D+PG + EE+KV+VED+RVL EKE++ D R ERS F
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKH---EKEEEDDHGLRSERSYRSF 57
Query: 118 SRRFRLPENAKMDRIKASMENGVLTVTVPKAEEAKKAHVRAIQIS 162
SR+F LPENA D++KAS+++GVLTVTVPK E +K R IQI
Sbjct: 58 SRKFVLPENADPDKVKASLKDGVLTVTVPKLEPPEK-KPRRIQIQ 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 = 115 bits (290), Expect = 2e-34
Identities = 53/90 (58%), Positives = 70/90 (77%), Gaps = 2/90 (2%)
Query: 58 DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMF 117
D ET +A+V +ADLPG +KE++KVEVED VL ISG+R E+E++ + + R ERS G F
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGEREEEEEEE-ENYLRRERSYGSF 58
Query: 118 SRRFRLPENAKMDRIKASMENGVLTVTVPK 147
SR FRLPE+ D+IKAS+ENGVLT+T+PK
Sbjct: 59 SRSFRLPEDVDPDKIKASLENGVLTITLPK 88
>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 = 97.5 bits (244), Expect = 3e-27
Identities = 42/94 (44%), Positives = 60/94 (63%), Gaps = 4/94 (4%)
Query: 56 RVDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKE--DKSDTWHRVERS 113
+ D KET + ++ +ADLPG +KE++K++ +D L IS +R+ K+ DK + R ER
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKDKKGNYIRRERY 60
Query: 114 SGMFSRRFRLPENAKMDRIKASMENGVLTVTVPK 147
G FSR F LP N + IKA ENGVL +T+PK
Sbjct: 61 YGSFSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 97.8 bits (244), Expect = 1e-26
Identities = 45/105 (42%), Positives = 68/105 (64%), Gaps = 2/105 (1%)
Query: 57 VDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGM 116
VD +ET + + A+LPG+ KE++++ VE + + I G+R E+E++ + + R ER+ G
Sbjct: 43 VDIEETDDEYRITAELPGVDKEDIEITVEGNTLT-IRGEREEEEEEEEEGYLRRERAYGE 101
Query: 117 FSRRFRLPENAKMDRIKASMENGVLTVTVPKAE-EAKKAHVRAIQ 160
F R FRLPE + IKA +NG+LTVT+PKAE E KK I+
Sbjct: 102 FERTFRLPEKVDPEVIKAKYKNGLLTVTLPKAEPEEKKPKRIEIE 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 = 89.6 bits (223), Expect = 3e-24
Identities = 43/89 (48%), Positives = 58/89 (65%), Gaps = 9/89 (10%)
Query: 59 WKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFS 118
W +T + V DLPG++KE++KVEVED+ L ISG+R E+E ERS G F
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEEE--------RERSYGEFE 51
Query: 119 RRFRLPENAKMDRIKASMENGVLTVTVPK 147
R F LPE+ ++ 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 = 56.8 bits (138), Expect = 1e-11
Identities = 27/78 (34%), Positives = 47/78 (60%), Gaps = 9/78 (11%)
Query: 71 DLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMD 130
D+ G + EE+KV+V D++++ + G+ E++ D V R F+RR++LPE D
Sbjct: 14 DVKGFKPEELKVKVSDNKLV-VEGKH----EEREDEHGYVSRE---FTRRYQLPEGVDPD 65
Query: 131 RIKASM-ENGVLTVTVPK 147
+ +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 = 54.1 bits (131), Expect = 2e-10
Identities = 20/72 (27%), Positives = 44/72 (61%), Gaps = 4/72 (5%)
Query: 72 LPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMDR 131
+ G ++++++EVE++ L ++G++ E+ ++ + HR + F R F L ++ K+
Sbjct: 19 VAGFSEDDLEIEVENN-QLTVTGKKADEENEEREYLHR-GIAKRAFERSFNLADHVKVK- 75
Query: 132 IKASMENGVLTV 143
A +ENG+LT+
Sbjct: 76 -GAELENGLLTI 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 = 33.2 bits (76), Expect = 0.012
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 9/71 (12%)
Query: 78 EEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMDRIKASME 137
EE+ V+V D V +I G+ E++ D + R F RR+RLP I +S+
Sbjct: 21 EELSVKVLGDFV-EIHGKH----EERQDEHGFISRE---FHRRYRLPPGVDPAAITSSLS 72
Query: 138 -NGVLTVTVPK 147
+GVLT++ P+
Sbjct: 73 ADGVLTISGPR 83
>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 = 31.9 bits (72), Expect = 0.034
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 71 DLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMD 130
D+ E++ V+V DD V +I G+ + ++D S F RR+RLP N
Sbjct: 17 DVKHFSPEDLTVKVLDDYV-EIHGKHSERQDDHGYI-------SREFHRRYRLPSNVDQS 68
Query: 131 RIKASME-NGVLTVTVPK 147
I S+ +G+LT + PK
Sbjct: 69 AITCSLSADGMLTFSGPK 86
>gnl|CDD|184118 PRK13531, PRK13531, regulatory ATPase RavA; Provisional.
Length = 498
Score = 30.8 bits (70), Expect = 0.33
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 88 RVLQISGQRNIEKEDKSD-TWHRVERSSGMFSRR--FRLPEN 126
R+ I +R ++ +SD T V + GMFSR+ ++LP N
Sbjct: 315 RLGAIVQRRLQLQQQQSDKTALTVIKQGGMFSRKPHYQLPVN 356
>gnl|CDD|225463 COG2911, COG2911, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1278
Score = 30.8 bits (70), Expect = 0.34
Identities = 13/63 (20%), Positives = 21/63 (33%)
Query: 72 LPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMDR 131
LPGL E+V + +L + D++ ++S DR
Sbjct: 50 LPGLDIEKVSGSLRGGLLLGDVRYDRLGVADRAGQLLLALDLRCLWSPSALFRLRLLADR 109
Query: 132 IKA 134
I A
Sbjct: 110 ISA 112
>gnl|CDD|183223 PRK11597, PRK11597, heat shock chaperone IbpB; Provisional.
Length = 142
Score = 28.2 bits (63), Expect = 1.1
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 72 LPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMDR 131
L G R+E++ +++E R L + G E+ +K W + FS F L EN M+
Sbjct: 51 LAGFRQEDLDIQLEGTR-LTVKG--TPEQPEKEVKWLHQGLVNQPFSLSFTLAEN--MEV 105
Query: 132 IKASMENGVLTV----TVPKA 148
A+ NG+L + P+A
Sbjct: 106 SGATFVNGLLHIDLIRNEPEA 126
>gnl|CDD|222256 pfam13602, ADH_zinc_N_2, Zinc-binding dehydrogenase.
Length = 129
Score = 27.3 bits (61), Expect = 2.5
Identities = 12/81 (14%), Positives = 23/81 (28%), Gaps = 5/81 (6%)
Query: 78 EEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLPENAKMDRIKASME 137
+ R++ I G + + A + + +E
Sbjct: 37 RALLALKPGGRLVSIGGPDLLLSV--AAKAGGRGVRGVFLFPVSPGEAGADLAELAELVE 94
Query: 138 NGVLTVTVPKA---EEAKKAH 155
G L + + EEA +AH
Sbjct: 95 AGKLRPVIDRVFPLEEAAEAH 115
>gnl|CDD|236963 PRK11720, PRK11720, galactose-1-phosphate uridylyltransferase;
Provisional.
Length = 346
Score = 27.6 bits (62), Expect = 2.8
Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 9/51 (17%)
Query: 54 NTRV------DWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQRNI 98
NTRV D+ T +VF D L + DD + + R
Sbjct: 58 NTRVTGDVNPDYTGT---YVFTNDFAALMPDTPDAPESDDPLFRCQSARGT 105
>gnl|CDD|237416 PRK13532, PRK13532, nitrate reductase catalytic subunit;
Provisional.
Length = 830
Score = 27.9 bits (63), Expect = 2.9
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 5/25 (20%)
Query: 101 EDKSDTWHRVERSSGMFSRRFRLPE 125
E KSD W VE FS+RF+ E
Sbjct: 556 EAKSDLWQLVE-----FSKRFKTEE 575
>gnl|CDD|221813 pfam12860, PAS_7, PAS fold. The PAS fold corresponds to the
structural domain that has previously been defined as
PAS and PAC motifs. The PAS fold appears in archaea,
eubacteria and eukarya.
Length = 115
Score = 26.7 bits (60), Expect = 3.3
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 12/51 (23%)
Query: 46 PGEASAFVNTRVDWKETPEAHVFKADLPGLRKEEVKVEVEDDRVLQISGQR 96
PG+ A V R+ H F+ + P D RV++I G
Sbjct: 56 PGDVEAHVERRLAQARAGTPHRFERERP------------DGRVIEIRGNP 94
>gnl|CDD|187561 cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and
HSCARG (an NADPH sensor) like proteins, atypical (a)
SDRs. NmrA and HSCARG like proteins. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Atypical SDRs
are distinct from classical SDRs. Classical SDRs have an
TGXXX[AG]XG cofactor binding motif and a YXXXK active
site motif, with the Tyr residue of the active site
motif serving as a critical catalytic residue (Tyr-151,
human 15-hydroxyprostaglandin dehydrogenase numbering).
In addition to the Tyr and Lys, there is often an
upstream Ser and/or an Asn, contributing to the active
site; while substrate binding is in the C-terminal
region, which determines specificity. The standard
reaction mechanism is a 4-pro-S hydride transfer and
proton relay involving the conserved Tyr and Lys, a
water molecule stabilized by Asn, and nicotinamide. In
addition to the Rossmann fold core region typical of all
SDRs, extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P)-binding
motif and an altered active site motif (YXXXN). Fungal
type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif.
Length = 242
Score = 26.9 bits (60), Expect = 4.7
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 108 HRVE---RSSGMFSRRFRLP---ENAKMDRIKASMENGVLTVTVPKAEEAKKAHVRAIQI 161
VE R+SG+ + R EN ME+G LT+ +P + K + I
Sbjct: 124 AEVEEYIRASGLPATILRPAFFMENFLTPPAPQKMEDGTLTLVLPLDPDTKLPMIDVADI 183
>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 = 26.4 bits (59), Expect = 7.3
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 7/43 (16%)
Query: 46 PGEASAFVNTRVDWKETPE---AHVFKADLPGLRKEEVKVEVE 85
P EASA VN R+ +T E HV +A + VK E+
Sbjct: 307 PEEASATVNFRILPGDTVEEVLEHVKRA----IDDIAVKYELL 345
>gnl|CDD|150261 pfam09526, DUF2387, Probable metal-binding protein (DUF2387).
Members of this family are small proteins, about 70
residues in length, with a basic triplet near the
N-terminus and a probable metal-binding motif
CPXCX(18)CXXC. Members are found in various
proteobacteria.
Length = 61
Score = 24.8 bits (55), Expect = 7.3
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 15/58 (25%)
Query: 119 RRF----RLPENAKMDRIKASMENGVLTV-----------TVPKAEEAKKAHVRAIQI 161
+RF P+ + MD I+ ENGV V T E +A + I +
Sbjct: 3 KRFIAGAVCPKCSAMDTIRMWRENGVEYVECVSCGYTDQQTDEPVELKTRATEQVIGV 60
>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal
structure and biogenesis].
Length = 218
Score = 26.0 bits (58), Expect = 8.2
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 130 DRIKASMENGVLTVTVPKAEEAKKAHVRAIQISG 163
KA N L KA K H+ ++ G
Sbjct: 53 GDRKAKRVNKPLVGHFAKAGVKPKRHLAEFRVGG 86
>gnl|CDD|222702 pfam14350, Beta_protein, Beta protein. This family includes the
beta protein from Bacteriophage T4. Beta protein
prevents the gop protein from killing the bacterial host
cell.
Length = 344
Score = 26.2 bits (58), Expect = 8.7
Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 25 DPFRDFPLSASSFPSAVSSQFPGEASAFVNTRVDWK 60
P+R+ ++ +SFPS++ S P + + + R +W
Sbjct: 190 GPWRNVVVAGTSFPSSI-SGIPKDGNGELP-RTEWD 223
>gnl|CDD|225191 COG2309, AmpS, Leucyl aminopeptidase (aminopeptidase T) [Amino acid
transport and metabolism].
Length = 385
Score = 26.1 bits (58), Expect = 9.2
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 73 PGLRKEEVKVEVEDDRVLQISGQRN 97
G E +++ ED +V++IS ++
Sbjct: 252 QGTLIEGIRLTFEDGKVVEISAEKG 276
>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 = 25.2 bits (55), Expect = 9.6
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 71 DLPGLRKEEVKVEVEDDRVLQISGQRNIEKEDKSDTWHRVERSSGMFSRRFRLP 124
D+ G ++VKV+V+D +V Q+S E+E++ D + S + F LP
Sbjct: 15 DVCGFEPDQVKVKVKDGKV-QVSA----ERENRYDCLGSKKYSYMNICKEFSLP 63
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 0.131 0.380
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,216,312
Number of extensions: 725437
Number of successful extensions: 724
Number of sequences better than 10.0: 1
Number of HSP's gapped: 710
Number of HSP's successfully gapped: 45
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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: 55 (25.0 bits)