RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025484
(252 letters)
>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 = 54.9 bits (133), Expect = 4e-10
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 11/99 (11%)
Query: 150 DVGESEDDYMFRIALPGVKRDDDEFSCTVDPTGKILIKGVTTTGEKSVNKFSQVFEMQTQ 209
DV E++D Y+ LPG K++D V+ G + I G E+ + +
Sbjct: 1 DVYETDDAYVVEADLPGFKKED--IKVEVED-GVLTISGEREEEEEEEENY-------LR 50
Query: 210 NLTPAGPFSITINLPGPVDPQQFSANFGFDGILEGTVKK 248
G FS + LP VDP + A+ +G+L T+ K
Sbjct: 51 RERSYGSFSRSFRLPEDVDPDKIKASLE-NGVLTITLPK 88
>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 = 48.0 bits (115), Expect = 1e-07
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 18/96 (18%)
Query: 153 ESEDDYMFRIALPGVKRDDDEFSCTVDPTGKILIKGVTTTGEKSVNKFSQVFEMQTQNLT 212
+++D+ + + LPGVK++D V+ + I G E+ +
Sbjct: 3 QTDDEVVVTVDLPGVKKED--IKVEVED-NVLTISGKREEEEERERSY------------ 47
Query: 213 PAGPFSITINLPGPVDPQQFSANFGFDGILEGTVKK 248
G F + LP VDP++ A+ +G+LE T+ K
Sbjct: 48 --GEFERSFELPEDVDPEKSKASLE-NGVLEITLPK 80
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 38.1 bits (89), Expect = 0.001
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 10/103 (9%)
Query: 148 KADVGESEDDYMFRIALPGVKRDDDEFSCTVDPTGKILIKGVTTTGEKSVNKFSQVFEMQ 207
D+ E++D+Y LPGV ++D TV+ +T GE+ + + E
Sbjct: 42 PVDIEETDDEYRITAELPGVDKED--IEITVEG------NTLTIRGERE-EEEEEEEEGY 92
Query: 208 TQNLTPAGPFSITINLPGPVDPQQFSANFGFDGILEGTVKKQK 250
+ G F T LP VDP+ A + +G+L T+ K +
Sbjct: 93 LRRERAYGEFERTFRLPEKVDPEVIKAKYK-NGLLTVTLPKAE 134
>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 = 31.7 bits (73), Expect = 0.071
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 148 KADVGESEDDYMFRIALPGVKRDD 171
K D+ E++D+Y+ LPG K++D
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKED 25
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 28.7 bits (65), Expect = 0.87
Identities = 24/102 (23%), Positives = 44/102 (43%), Gaps = 12/102 (11%)
Query: 150 DVGESEDDYMFRIALPGVKRDDDEFSCTVDPTGKILIKGVTTTGEKSVNKFSQVFEMQTQ 209
D+ E +D ++ ++ +PG K ++ + D ++L+KG E+ + +
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVK-VED--NRVLVKG-KHEKEEEDDHGLRSERS--- 53
Query: 210 NLTPAGPFSITINLPGPVDPQQFSANFGFDGILEGTVKKQKH 251
FS LP DP + A+ DG+L TV K +
Sbjct: 54 ----YRSFSRKFVLPENADPDKVKASLK-DGVLTVTVPKLEP 90
>gnl|CDD|218251 pfam04762, IKI3, IKI3 family. Members of this family are
components of the elongator multi-subunit component of a
novel RNA polymerase II holoenzyme for transcriptional
elongation. This region contains WD40 like repeats.
Length = 903
Score = 29.6 bits (67), Expect = 1.7
Identities = 13/90 (14%), Positives = 33/90 (36%), Gaps = 8/90 (8%)
Query: 42 RHIDDIEESTDYVVHDIEESEDYVVHDIEESEDYVVHDVLPPSESI------PSVSEPRV 95
R + + +S V+ D + + V+ D++++E+ + V+ E I +
Sbjct: 475 RQLAFLNDSELLVLSDSDNITEIVLVDVDDTENPLSVSVITEIEGIVLILSSNDYKHVYI 534
Query: 96 H--GFEFIDASGPASIFIPSRPTKTEWAKL 123
+ + S + P W ++
Sbjct: 535 ETRDGKVLSLSAEGELSEIGFPQLCRWFRV 564
>gnl|CDD|185765 cd09242, BRO1_ScBro1_like, Protein-interacting, N-terminal,
Bro1-like domain of Saccharomyces cerevisiae Bro1 and
related proteins. This family contains the N-terminal,
Bro1-like domain of Saccharomyces cerevisiae Bro1 and
related proteins. It belongs to the BRO1_Alix_like
superfamily which also includes the Bro1-like domains of
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), RhoA-binding
proteins Rhophilin-1 and -2, Brox, Saccharomyces
cerevisiae Rim20 (also known as PalA), Ustilago maydis
Rim23 (also known as PalC), and related domains. Alix,
HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the
ESCRT (Endosomal Sorting Complexes Required for
Transport) system. Bro1 participates in endosomal
trafficking. Bro1-like domains are boomerang-shaped, and
part of the domain is a tetratricopeptide repeat
(TPR)-like structure. Bro1-like domains bind components
of the ESCRT-III complex: Snf7 in the case of Bro1. Snf7
binds to a conserved hydrophobic patch on the middle of
the concave side of the Bro1 domain. RIM20, and some
other members of the BRO1_Alix_like superfamily
including Alix, also have a V-shaped (V) domain. In the
case of Alix, the V-domain contains a binding site for
the retroviral late assembly (L) domain YPXnL motif,
which is partially conserved in the superfamily. The
Alix V-domain is also a dimerization domain. The
C-terminal portion (V-domain and proline rich-region) of
Bro1 interacts with Doa4, a protease that
deubiquitinates integral membrane proteins sorted into
the lumenal vesicles of late-endosomal multivesicular
bodies. It interacts with a YPxL motif in the Doa4
catalytic domain to stimulate its deubiquitination
activity.
Length = 348
Score = 29.2 bits (66), Expect = 1.8
Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 10/83 (12%)
Query: 19 NDEPSGSHGE-------STPTLASPTSQAKRHIDDIEESTDYVVHDIEESEDYVVHDIEE 71
E +G +GE + L Q ++ + D + +D V ++E
Sbjct: 253 ALEAAGKYGEAIAYLTQAESILKEANPQKLSLKASAGDAAYALNDDFKGQKDTVEEKLKE 312
Query: 72 SE---DYVVHDVLPPSESIPSVS 91
E D++ HD++P ++PS+
Sbjct: 313 LEKDNDFIYHDIVPSEVTLPSIK 335
>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 1001
Score = 29.2 bits (65), Expect = 2.4
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 15 MLESNDEPSGSHGESTPTLASPTSQAKRHIDDIEESTDYVVHDIE--ESEDYVVHDIEES 72
M+ S+DE S E + AS ++ +D E +D D+ ESE+ D E+
Sbjct: 924 MVGSDDESDESEEEVSEYEASSDDESDETDED--EESDESSEDLSEDESENDS-SDEEDG 980
Query: 73 EDY 75
ED+
Sbjct: 981 EDW 983
>gnl|CDD|220308 pfam09603, Fib_succ_major, Fibrobacter succinogenes major domain
(Fib_succ_major). This domain of about 175 to 200 amino
acids is found, in from one to five copies, in over 50
proteins in Fibrobacter succinogenes S85, an obligate
anaerobe of the rumen. Many members of this family have
an apparent lipoprotein signal sequence. Conserved
cysteine residues, suggestive of disulfide bond
formation, are also consistent with an extracytoplasmic
location for this domain. This domain can also be found
in small numbers of proteins in Chlorobium tepidum and
Bacteroides thetaiotaomicron.
Length = 181
Score = 28.5 bits (64), Expect = 2.7
Identities = 16/62 (25%), Positives = 20/62 (32%), Gaps = 13/62 (20%)
Query: 115 PTKTEWAKLRAAT----KSGFALTGVATLGQVGPHVGKADVGESEDDYMFRIALPGVKRD 170
P+ EW L +G L T K G + + F ALP RD
Sbjct: 77 PSDAEWQALEDYLGGEASAGGKLKATGT--------WKGPNGGATNSTGFN-ALPAGYRD 127
Query: 171 DD 172
D
Sbjct: 128 CD 129
>gnl|CDD|233544 TIGR01717, AMP-nucleosdse, AMP nucleosidase. This model represents
the AMP nucleosidase from proteobacteria but also
including a sequence from Corynebacterium, a
gram-positive organism. The species from E. coli has
been most well studied.
Length = 477
Score = 29.0 bits (65), Expect = 2.8
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 63 DYVVHDIEESEDYVVHDVLPPSESIPSVSE 92
DYV+ ED+V+ VLPP IP+++E
Sbjct: 310 DYVLAHAYLREDHVLDAVLPPDIPIPAIAE 339
>gnl|CDD|165216 PHA02889, PHA02889, hypothetical protein; Provisional.
Length = 241
Score = 28.5 bits (63), Expect = 2.8
Identities = 9/33 (27%), Positives = 21/33 (63%)
Query: 41 KRHIDDIEESTDYVVHDIEESEDYVVHDIEESE 73
K+ ID I++ D+++ + ++ + HDI+E +
Sbjct: 203 KKKIDKIDDIEDFILIKLHPDKEPLFHDIDEID 235
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 28.7 bits (64), Expect = 3.7
Identities = 21/96 (21%), Positives = 34/96 (35%), Gaps = 2/96 (2%)
Query: 10 TPESSMLESNDEPSGSHGES-TPTLASPTSQAKRHIDDIEESTDYVVHDIEESEDYVVHD 68
T S + + +G +S T T + S ++ + EE H+ E + + V +
Sbjct: 18 TTVESSQKRIQQNNGDKEDSSTSTSSLSVSAVEKTSNAKEEIQVDFQHNSESAVEEVEAE 77
Query: 69 IEESEDYVVHDVLPPSESIPSVSEPRVHGFEFIDAS 104
E + DVL S SI D S
Sbjct: 78 DEIEVEQNQSDVL-KSSSIVKEESISTDMDGIDDDS 112
>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 = 26.5 bits (59), Expect = 5.0
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 9/99 (9%)
Query: 150 DVGESEDDYMFRIALPGVKRDDDEFSCTVDPTGKILIKGVTTTGEKSVNKFSQVFEMQTQ 209
D E+ + ++F+ +PGVK++D + V+ + I G E+ E
Sbjct: 3 DWKETPEAHVFKADVPGVKKEDVKVE--VEDGRVLRISGERKKEEEKKGDDWHRVE---- 56
Query: 210 NLTPAGPFSITINLPGPVDPQQFSANFGFDGILEGTVKK 248
+G F LP D + A +G+L TV K
Sbjct: 57 --RSSGRFVRRFRLPENADADEVKAFLE-NGVLTVTVPK 92
>gnl|CDD|223310 COG0232, Dgt, dGTP triphosphohydrolase [Nucleotide transport and
metabolism].
Length = 412
Score = 27.7 bits (62), Expect = 5.9
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 31 PTLASPTSQAKRHIDDIEESTDYVVHDIEESEDYVVHDIEESEDYVVHD 79
S +Q DDI Y VHD+E+ + +E+ + +
Sbjct: 200 EVTRSLEAQIMDLADDI----AYSVHDLEDGLRKGLITLEDLIELPLLA 244
>gnl|CDD|223207 COG0129, IlvD, Dihydroxyacid dehydratase/phosphogluconate
dehydratase [Amino acid transport and metabolism /
Carbohydrate transport and metabolism].
Length = 575
Score = 27.5 bits (62), Expect = 7.2
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 145 HVGKADVGESEDDYMFRIALPGVKRDD 171
G A V +S++D + I +K D
Sbjct: 414 FEGPARVFDSQEDAIKAILDGELKAGD 440
>gnl|CDD|216192 pfam00920, ILVD_EDD, Dehydratase family.
Length = 521
Score = 27.4 bits (62), Expect = 8.9
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 145 HVGKADVGESEDDYMFRIALPGVKRDD 171
G A V +SE++ + I ++ D
Sbjct: 371 FEGPARVFDSEEEAIAAIDDGEIEPGD 397
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
0.311 0.131 0.376
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,824,132
Number of extensions: 1199543
Number of successful extensions: 769
Number of sequences better than 10.0: 1
Number of HSP's gapped: 766
Number of HSP's successfully gapped: 23
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
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 (21.8 bits)
S2: 58 (26.3 bits)