RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6601
(459 letters)
>gnl|CDD|203134 pfam04968, CHORD, CHORD. CHORD represents a Zn binding domain.
Silencing of the C. elegans CHORD-containing gene
results in semisterility and embryo lethality,
suggesting an essential function of the wild-type gene
in nematode development.
Length = 65
Score = 109 bits (275), Expect = 1e-29
Identities = 36/63 (57%), Positives = 46/63 (73%)
Query: 84 GTKCKNNACKQSYEGPESLSTICVHHAGVPVFHEGLKFWSCCTKKTTEFSAFLEQEGCTH 143
GTKCKN C ++Y+GPE+ CV+H GVPVFHEG+K WSCC K+ +F FL+ GCT
Sbjct: 2 GTKCKNKGCGKTYKGPENDEEACVYHPGVPVFHEGMKGWSCCKKRVLDFDEFLKIPGCTT 61
Query: 144 GQH 146
G+H
Sbjct: 62 GKH 64
Score = 93.9 bits (234), Expect = 6e-24
Identities = 31/53 (58%), Positives = 39/53 (73%)
Query: 385 GTKCKNNACKQSYEGPESLSTICVHHAGVPVFHEGLKFWSCCTKKTTEFSAFL 437
GTKCKN C ++Y+GPE+ CV+H GVPVFHEG+K WSCC K+ +F FL
Sbjct: 2 GTKCKNKGCGKTYKGPENDEEACVYHPGVPVFHEGMKGWSCCKKRVLDFDEFL 54
>gnl|CDD|107238 cd06488, p23_melusin_like, p23_like domain similar to the
C-terminal (tail) domain of vertebrate Melusin and
related proteins. Melusin's tail domain interacts with
the cytoplasmic domain of beta1-A and beta1-D isoforms
of beta1 integrin, it does not bind other integrin beta
subunits. Melusin is a muscle-specific protein expressed
in skeletal and cardiac muscles but not in smooth muscle
or other tissues. It is needed for heart hypertrophy
following mechanical overload. The integrin-binding
portion of this domain appears to be sequestered in the
full length melusin protein, Ca2+ may modulate the
protein's conformation exposing this binding site. This
group includes Chordc1, also known as Chp-1, which is
conserved from vertebrates to humans. Mammalian Chordc1
interacts with the heat shock protein (HSP) Hsp90 and is
implicated in circadian and/or homeostatic mechanisms in
the brain. The N-terminal portions of proteins belonging
to this group contain two cysteine and histidine rich
domain (CHORD) domains.
Length = 87
Score = 77.0 bits (190), Expect = 1e-17
Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 3/73 (4%)
Query: 221 CRLDWFQTGSTVVVSIFGKKYDPLRSKVLLSPVRLKVDLYFPEEDGNYQQDIELRGMLAH 280
CR DW QTGS VVVS++ K +P S V + L + + F +Q DIEL G++
Sbjct: 1 CRHDWHQTGSHVVVSVYAKNSNPELSVVEANSTVLTIHIVFEGNK-EFQLDIELWGVI-- 57
Query: 281 TIQEILCSMMHTK 293
+++ +M+ TK
Sbjct: 58 DVEKSSVNMLPTK 70
Score = 56.2 bits (136), Expect = 3e-10
Identities = 20/32 (62%), Positives = 27/32 (84%)
Query: 153 IVNVDKSSVFMLGSKVEISLHKAEVGSWSKLD 184
+++V+KSSV ML +KVEI L KAE GSW+KL+
Sbjct: 56 VIDVEKSSVNMLPTKVEIKLRKAEPGSWAKLE 87
>gnl|CDD|107223 cd06466, p23_CS_SGT1_like, p23_like domain similar to the
C-terminal CHORD-SGT1 (CS) domain of Sgt1 (suppressor of
G2 allele of Skp1). Sgt1 interacts with multiple protein
complexes and has the features of a cochaperone. Human
(h) Sgt1 interacts with both Hsp70 and Hsp90, and has
been shown to bind Hsp90 through its CS domain.
Saccharomyces cerevisiae (Sc) Sgt1 is a subunit of both
core kinetochore and SCF (Skp1-Cul1-F-box) ubiquitin
ligase complexes. Sgt1 is required for pathogen
resistance in plants. ScSgt1 is needed for the G1/S and
G2/M cell-cycle transitions, and for assembly of the
core kinetochore complex (CBF3) via activation of Ctf13,
the F-box protein. Binding of Hsp82 (a yeast Hsp90
homologue) to ScSgt1, promotes the binding of Sgt1 to
Skp1 and of Skp1 to Ctf13. Some proteins in this group
have an SGT1-specific (SGS) domain at the extreme
C-terminus. The ScSgt1-SGS domain binds adenylate
cyclase. The hSgt1-SGS domain interacts with some S100
family proteins, and studies suggest that the
interaction of hSgt1 with Hsp90 and Hsp70 may be
regulated by S100A6 in a Ca2+ dependent fashion. This
group also includes the p23_like domains of Melusin and
NAD(P)H cytochrome b5 (NCB5) oxidoreductase (OR).
Melusin is a vertebrate protein which interacts with two
splice variants of beta1 integrin, and NCB5OR plays a
part in maintaining viable pancreatic beta cells.
Length = 84
Score = 54.5 bits (132), Expect = 1e-09
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 224 DWFQTGSTVVVSIFGKKYDPLRSKVLLSPVRLKVDLYFPEEDGNYQQDIELRG 276
DW+QT ++V V+I+ K D KV + L V + P YQ +++L G
Sbjct: 1 DWYQTDTSVTVTIYAKNVDKEDVKVEFNEQSLSVSIILPGGS-EYQLELDLFG 52
Score = 46.0 bits (110), Expect = 1e-06
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 142 THGQHVWFKKTI-----VNVDKSSVFMLGSKVEISLHKAEVGSWSKLD 184
++ + ++ ++S V +L +KVEI+L KAE GSW L+
Sbjct: 37 ILPGGSEYQLELDLFGPIDPEQSKVSVLPTKVEITLKKAEPGSWPSLE 84
>gnl|CDD|107239 cd06489, p23_CS_hSgt1_like, p23_like domain similar to the
C-terminal CS (CHORD-SGT1) domain of human (h) Sgt1 and
related proteins. hSgt1 is a co-chaperone which has been
shown to be elevated in HEp-2 cells as a result of
stress conditions such as heat shock. It interacts with
the heat shock proteins (HSPs) Hsp70 and Hsp90, and it
expression pattern is synchronized with these two Hsps.
The interaction with HSP90 has been shown to involve the
hSgt1_CS domain, and appears to be required for correct
kinetochore assembly and efficient cell division. Some
proteins in this subgroup contain a tetratricopeptide
repeat (TPR) HSP-binding domain N-terminal to this CS
domain, and most proteins in this subgroup contain a
Sgt1-specific (SGS) domain C-terminal to the CS domain.
The SGS domain interacts with some S100 family proteins.
Studies suggest that S100A6 modulates in a Ca2+
dependent manner the interactions of hSgt1 with Hsp90
and Hsp70. The yeast Sgt1 CS domain is not found in this
subgroup.
Length = 84
Score = 37.4 bits (87), Expect = 0.001
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 5/59 (8%)
Query: 224 DWFQTGSTVVVSIFGKKYDPLRSKVLLSPVRLKVDLYFPEEDGNYQQDIELRGMLAHTI 282
DW+QT S VV++I K P V L + P + D L+ L H I
Sbjct: 1 DWYQTESQVVITILIKNVKPEDVSVEFEKRELSATVKLPSGN-----DYSLKLHLLHPI 54
Score = 30.4 bits (69), Expect = 0.43
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 157 DKSSVFMLGSKVEISLHKAEVGSWSKLD 184
++SS +L +K+EI L K E WSKL+
Sbjct: 57 EQSSYKILSTKIEIKLKKTEAIRWSKLE 84
>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 = 36.4 bits (85), Expect = 0.003
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 221 CRLDWFQTGSTVVVSIFGKKYDPLRS-KVLLSPVRLKVDLYFPEEDGNYQQDIEL 274
R DW+QT V ++I K + KV + P LKV + P Y D EL
Sbjct: 1 PRYDWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKVSIKGPGGK-EYLLDGEL 54
Score = 28.7 bits (65), Expect = 1.2
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 154 VNVDKSSVFMLGSKVEISLHK 174
++ ++SS + +KVEI+L K
Sbjct: 58 IDPEESSWKIEDTKVEITLKK 78
>gnl|CDD|107220 cd06463, p23_like, Proteins containing this p23_like domain include
p23 and its Saccharomyces cerevisiae (Sc) homolog Sba1.
Both are co-chaperones for the heat shock protein (Hsp)
90. p23 binds Hsp90 and participates in the folding of
a number of Hsp90 clients, including the progesterone
receptor. p23 also has a passive chaperoning activity
and in addition may participate in prostaglandin
synthesis. Both p23 and Sba1p can regulate telomerase
activity. This group includes domains similar to the
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1). Sgt1 interacts with multiple
protein complexes and has the features of a
co-chaperone. Human (h) Sgt1 interacts with both Hsp70
and Hsp90, and has been shown to bind Hsp90 through its
CS domain. Saccharomyces cerevisiae (Sc) Sgt1 is a
subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. This group
also includes 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). hB-ind1 plays a role in the
signaling pathway mediated by the small GTPase Rac1,
NUDC is needed for nuclear movement, Melusin interacts
with two splice variants of beta1 integrin, and NCB5OR
plays a part in maintaining viable pancreatic beta
cells.
Length = 84
Score = 36.5 bits (85), Expect = 0.003
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 225 WFQTGSTVVVSIFGKKYDPLRSKVLLSPVRLKVDLYFPEEDGNYQQDIELRG 276
W+QT V ++I K KV +P L V + Y + EL G
Sbjct: 1 WYQTLDEVTITIPLKDVTKKDVKVEFTPKSLTVSVKGG-GGKEYLLEGELFG 51
Score = 33.8 bits (78), Expect = 0.023
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 154 VNVDKSSVFMLGSKVEISLHKAE-VGSWSKL 183
++ ++S + K+EI+L K E W +L
Sbjct: 53 IDPEESKWTVEDRKIEITLKKKEPGEWWPRL 83
>gnl|CDD|222239 pfam13581, HATPase_c_2, Histidine kinase-like ATPase domain.
Length = 125
Score = 31.8 bits (73), Expect = 0.27
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 204 TNEVQHALDTAEKGQVKCRLDWFQTGSTVVVSIFGKKYDPLR 245
TN V+HA +G V+ RL+ + V G +DPL
Sbjct: 41 TNAVEHAYREDPEGPVRVRLEIDGDRLVIEVRDSGPGFDPLP 82
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 30.5 bits (69), Expect = 1.7
Identities = 17/72 (23%), Positives = 25/72 (34%)
Query: 199 KEDTSTNEVQHALDTAEKGQVKCRLDWFQTGSTVVVSIFGKKYDPLRSKVLLSPVRLKVD 258
E A + K R +++Q VVV++F K V L V
Sbjct: 135 SVTAPPVEEADATPVVPPSKPKYRHEFYQKPEEVVVTVFAKGVPAENVNVDFGEQILSVV 194
Query: 259 LYFPEEDGNYQQ 270
+ P ED + Q
Sbjct: 195 IEVPGEDAYHLQ 206
Score = 30.1 bits (68), Expect = 2.1
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 143 HGQHVWFKKTIVNVDKSSVFMLGSKVEISLHKAEVGSWSKLD 184
H Q F K + DK +L +K+EI L KAE +W+ L+
Sbjct: 204 HLQPRLFGK--IIPDKCKYEVLSTKIEIRLAKAEPITWASLE 243
>gnl|CDD|129888 TIGR00806, rfc, RFC reduced folate carrier. The Reduced Folate
Carrier (RFC) Family (TC 2.A.48) Members of the RFC
family mediate the uptake of folate, reduce folate,
derivatives of reduced folate and the drug,
methotrexate. Proteins of the RFC family are so-far
restricted to animals. RFC proteins possess 12 putative
transmembrane a-helical spanners (TMSs) and evidence for
a 12 TMS topology has been published for the human RFC.
The RFC transporters appear to transport reduced folate
by an energy-dependent, pH-dependent, Na+-independent
mechanism. Folate:H+ symport, folate:OH- antiport and
folate:anion antiport mechanisms have been proposed, but
the energetic mechanism is not well defined [Transport
and binding proteins, Carbohydrates, organic alcohols,
and acids].
Length = 511
Score = 30.2 bits (68), Expect = 2.6
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 6 SHNPVKPPEPERYVPDKQSVQEVI----EVRAPEPKAMERPSKDTPMVEL 51
+ P E P ++SVQ + ++R P+P A + +D VE
Sbjct: 452 GTHQPLAPAQELRSPLEESVQAISLQDRDLRGPQPSAPQLLPED-GTVED 500
Score = 30.2 bits (68), Expect = 2.6
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 307 SHNPVKPPEPERYVPDKQSVQEVI----EVRAPEPKAMERPSKDTPMVEL 352
+ P E P ++SVQ + ++R P+P A + +D VE
Sbjct: 452 GTHQPLAPAQELRSPLEESVQAISLQDRDLRGPQPSAPQLLPED-GTVED 500
>gnl|CDD|131471 TIGR02418, acolac_catab, acetolactate synthase, catabolic.
Acetolactate synthase (EC 2.2.1.6) combines two
molecules of pyruvate to yield 2-acetolactate with the
release of CO2. This reaction may be involved in either
valine biosynthesis (biosynthetic) or conversion of
pyruvate to acetoin and possibly to 2,3-butanediol
(catabolic). The biosynthetic type, described by
TIGR00118, is also capable of forming
acetohydroxybutyrate from pyruvate and 2-oxobutyrate for
isoleucine biosynthesis. The family described here, part
of the same larger family of thiamine
pyrophosphate-dependent enzymes (pfam00205, pfam02776)
is the catabolic form, generally found associated with
in species with acetolactate decarboxylase and usually
found in the same operon. The model may not encompass
all catabolic acetolactate synthases, but rather one
particular clade in the larger TPP-dependent enzyme
family [Energy metabolism, Fermentation].
Length = 539
Score = 28.9 bits (65), Expect = 6.1
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 257 VDLYFPEEDGNYQQDIELRGMLAHTIQEILCSMMHTKAGPAAIK 300
+D+ + D NYQ D+EL G +A T+ + + + P A+
Sbjct: 292 IDVEPAQIDNNYQPDLELVGDIASTLDLLAERIPGYELPPDALA 335
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 28.9 bits (66), Expect = 6.3
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 237 FGKKYDPLRSKVL--LSPVRLKVDLYFPEEDGNYQQDIELRGMLAHTIQEI 285
K + LR ++L L+ V +D FPEED + D ++ L I E+
Sbjct: 151 LSKLINELREELLELLALVEAAID--FPEEDIEFLSDEKILEKLEELIAEL 199
>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only].
Length = 454
Score = 29.1 bits (66), Expect = 6.4
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 237 FGKKYDPLRSKVLLSPVRLKVDLYFPEEDGNYQQDIELRGMLAHTIQEI 285
+ + LR +L +++ ++ FPEED ++R L I E+
Sbjct: 153 LSQLINELREALLELLAQVEANIDFPEEDIEELVLEKIREKLEELIAEL 201
>gnl|CDD|107226 cd06469, p23_DYX1C1_like, p23_like domain found in proteins similar
to dyslexia susceptibility 1 (DYX1) candidate 1 (C1)
protein, DYX1C1. The human gene encoding this protein is
a positional candidate gene for developmental dyslexia
(DD), it is located on 15q21.3 by the DYX1 DD
susceptibility locus (15q15-21). Independent association
studies have reported conflicting results. However,
association of short-term memory, which plays a role in
DD, with a variant within the DYX1C1 gene has been
reported. Most proteins belonging to this group contain
a C-terminal tetratricopeptide repeat (TPR) protein
binding region.
Length = 78
Score = 26.5 bits (59), Expect = 7.6
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 157 DKSSVFMLGSKVEISLHKAEVGSWSKL 183
+KSS + + +L K E G W L
Sbjct: 51 EKSSAKIGNGVLVFTLVKKEPGIWEAL 77
>gnl|CDD|227422 COG5091, SGT1, Suppressor of G2 allele of skp1 and related proteins
[General function prediction only].
Length = 368
Score = 28.5 bits (63), Expect = 8.2
Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 2/92 (2%)
Query: 173 HKAEVGSWSKLDIPSL-TIANHGDEKDKEDTSTNEVQHALDTAEKGQVKCRLDWFQTGST 231
+K + S +K I + +I N GD + E +++ D+ +T T
Sbjct: 129 NKKQKDSTNKHTIKPVESIENRGDNNSSHSPISPLKIETAPQ-ESPKMEIAYDFSETSDT 187
Query: 232 VVVSIFGKKYDPLRSKVLLSPVRLKVDLYFPE 263
++ I+ + +L L +
Sbjct: 188 AIIFIYRPPVGDEQVSPVLEGNTLSISYQPRR 219
>gnl|CDD|234371 TIGR03839, termin_org_P1, adhesin P1. Members of this protein family
are the major adhesin of the Mycoplasma terminal
organelle. The protein is called adhesin P1, cytadhesin
P1, P140, attachment protein, and MgPa, with locus names
MG191 in Mycoplasma genitalium and MPN141 in M.
pneumoniae. A conserved C-terminal region is shared by
additional paralogs in M. pneumoniae and M.
gallisepticum, as well as by the member of this family
[Cell envelope, Surface structures, Cellular processes,
Pathogenesis].
Length = 1425
Score = 28.6 bits (63), Expect = 8.5
Identities = 13/68 (19%), Positives = 26/68 (38%)
Query: 292 TKAGPAAIKNGCTVSSHNPVKPPEPERYVPDKQSVQEVIEVRAPEPKAMERPSKDTPMVE 351
KAG ++ + T + + + P ++Y P+ S + S D+ V+
Sbjct: 1080 DKAGYSSRPDDSTTFNTSKILPEPFQKYKPNTSSGSTNSSPYLELTAPVNVTSLDSYYVQ 1139
Query: 352 LKPTISQN 359
L + N
Sbjct: 1140 LNNLLDPN 1147
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
0.315 0.132 0.398
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,286,897
Number of extensions: 2053924
Number of successful extensions: 1652
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1650
Number of HSP's successfully gapped: 27
Length of query: 459
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 359
Effective length of database: 6,502,202
Effective search space: 2334290518
Effective search space used: 2334290518
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: 61 (27.2 bits)