RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2816
(83 letters)
>gnl|CDD|239497 cd03403, Band_7_stomatin_like, Band_7_stomatin_like: A subgroup
of the band 7 domain of flotillin (reggie) like
proteins similar to stomatin and podicin (two lipid
raft-associated integral membrane proteins). Individual
proteins of this band 7 domain family may cluster to
form membrane microdomains which may in turn recruit
multiprotein complexes. Stomatin is widely expressed
and, highly expressed in red blood cells. It localizes
predominantly to the plasma membrane and to
intracellular vesicles of the endocytic pathway, where
it is present in higher order homo-oligomeric complexes
(of between 9 and 12 monomers). Stomatin interacts
with and regulates members of the degenerin/epithelia
Na+ channel family in mechanosensory cells of
Caenorhabditis elegans and vertebrate neurons and, is
implicated in trafficking of Glut1 glucose
transporters. Prohibitin is a mitochondrial
inner-membrane protein hypothesized to act as a
chaperone for the stabilization of mitochondrial
proteins. Podicin localizes to the plasma membrane of
podocyte foot processes and, is found in higher order
oligomers. Podocin plays a role in regulating
glomerular permeability. Mutations in the podicin gene
give rise to autosomal recessive steroid resistant
nephritic syndrome. This group also contains proteins
similar to three Caenorhabditis elegans proteins:
UNC-1, UNC-24 and, MEC-2. Mutations in the unc-1 and
unc-24 genes result in abnormal motion and altered
patterns of sensitivity to volatile anesthetics. MEC-2
and UNC-24 proteins interact with MEC-4 which is part
of the degenerin channel complex required for response
to gentle body touch.
Length = 215
Score = 136 bits (346), Expect = 1e-42
Identities = 47/83 (56%), Positives = 60/83 (72%)
Query: 1 MGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND 60
+GKYHR L PGL+ +IP ID+I Y L+E +DVP Q IT DNVT+ +D VLY ++ D
Sbjct: 12 LGKYHRTLGPGLHFIIPFIDRIAYKVDLREQVLDVPPQEVITKDNVTVRVDAVLYYRVVD 71
Query: 61 PYLASYGVEDPEFAITQLAQTTM 83
P A YGVED +AI+QLAQTT+
Sbjct: 72 PVKAVYGVEDYRYAISQLAQTTL 94
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 83.9 bits (208), Expect = 2e-22
Identities = 40/84 (47%), Positives = 54/84 (64%), Gaps = 2/84 (2%)
Query: 1 MGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND 60
+G+ R+L PGL+ LIP ID +K L+ DVP Q IT DNV +S+D V+Y ++ D
Sbjct: 17 LGRVLRVLGPGLHFLIPFIDDVK-KVDLRAQTDDVPPQETITKDNVKVSVDAVVYYRVLD 75
Query: 61 PYLASYGVEDPEFA-ITQLAQTTM 83
P A Y V D ++A I QLAQTT+
Sbjct: 76 PLRAVYRVLDADYAVIEQLAQTTL 99
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 72.9 bits (179), Expect = 3e-17
Identities = 36/87 (41%), Positives = 52/87 (59%), Gaps = 5/87 (5%)
Query: 2 GKYHRIL-EPGLNILIPI---IDKIKYVQSLKEIAIDV-PQQSAITSDNVTLSIDGVLYL 56
G+Y R L EPGL+ IP I+++ L+E +DV P Q IT DNV +S+D V+
Sbjct: 36 GRYTRTLGEPGLHFKIPFPEAIEEVVVRVDLRERTLDVGPPQEVITKDNVIVSVDAVVQY 95
Query: 57 KINDPYLASYGVEDPEFAITQLAQTTM 83
++ DP A Y VE+ E A+ QL Q+ +
Sbjct: 96 RVTDPQKAVYNVENAEAALRQLVQSAL 122
>gnl|CDD|239024 cd02106, Band_7, The band 7 domain of flotillin (reggie) like
proteins. This group contains proteins similar to
stomatin, prohibitin, flotillin, HlfK/C and podicin.
Many of these band 7 domain-containing proteins are
lipid raft-associated. Individual proteins of this
band 7 domain family may cluster to form membrane
microdomains which may in turn recruit multiprotein
complexes. Microdomains formed from flotillin proteins
may in addition be dynamic units with their own
regulatory functions. Flotillins have been implicated
in signal transduction, vesicle trafficking,
cytoskeleton rearrangement and are known to interact
with a variety of proteins. Stomatin interacts with
and regulates members of the degenerin/epithelia Na+
channel family in mechanosensory cells of
Caenorhabditis elegans and vertebrate neurons and
participates in trafficking of Glut1 glucose
transporters. Prohibitin may act as a chaperone for the
stabilization of mitochondrial proteins. Prokaryotic
HflK/C plays a role in the decision between lysogenic
and lytic cycle growth during lambda phage infection.
Flotillins have been implicated in the progression of
prion disease, in the pathogenesis of neurodegenerative
diseases such as Parkinson's and Alzheimer's disease
and, in cancer invasion and metastasis. Mutations in
the podicin gene give rise to autosomal recessive
steroid resistant nephritic syndrome.
Length = 121
Score = 56.2 bits (136), Expect = 7e-12
Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 2/59 (3%)
Query: 27 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDP--EFAITQLAQTTM 83
L+ +DVP Q +T DNV + +D V+ ++ DP A Y V DP E A+ QLAQ+ +
Sbjct: 3 DLRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVVDPVKALYNVRDPEDEEALRQLAQSAL 61
>gnl|CDD|130988 TIGR01933, hflK, HflK protein. HflK and HflC are paralogs
encoded by tandem genes in Proteobacteria, spirochetes,
and some other bacterial lineages. The HflKC complex is
anchored in the membrane and exposed to the periplasm.
The complex is not active as a protease, but rather
binds to and appears to modulate the ATP-dependent
protease FtsH. The overall function of HflKC is not
fully described.//Regulation of FtsH by HflKC appears
to be negative (PMID:8947034,PMID:96367) [SS 8/27/03].
Length = 261
Score = 58.2 bits (141), Expect = 8e-12
Identities = 23/84 (27%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 2 GKYHRILEPGLNILIPIIDKIKYV--QSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIN 59
GKYHR ++PGLN P I+++ V +++ + +T D ++++ + +I
Sbjct: 16 GKYHRTVDPGLNWKPPFIEEVYPVNVTAVRNLRKQGL---MLTGDENIVNVEMNVQYRIT 72
Query: 60 DPYLASYGVEDPEFAITQLAQTTM 83
DPY + VE+PE ++ Q + +
Sbjct: 73 DPYKYLFSVENPEDSLRQATDSAL 96
>gnl|CDD|216327 pfam01145, Band_7, SPFH domain / Band 7 family. This family has
been called SPFH, Band 7 or PHB domain. Recent
phylogenetic analysis has shown this domain to be a
slipin or Stomatin-like integral membrane domain
conserved from protozoa to mammals.
Length = 177
Score = 55.5 bits (134), Expect = 3e-11
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 2 GKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDV-PQQSAITSDNVTLSIDGVLYLKIND 60
GK R+L PGL+ +P I I V + ++V + +T D V +++D + ++ D
Sbjct: 15 GKVSRVLGPGLHFKLPFIQTITVV-DTRLQTLEVTVDITVLTKDGVPVNVDVTVQYRVED 73
Query: 61 P---YLASYGVEDPEFAITQLAQTTM 83
P G ED + + L ++ +
Sbjct: 74 PAKLVANYTGEEDLQELLRPLVRSAL 99
>gnl|CDD|239498 cd03404, Band_7_HflK, Band_7_HflK: The band 7 domain of flotillin
(reggie) like proteins. This group includes proteins
similar to prokaryotic HlfK (High frequency of
lysogenization K). Although many members of the band 7
family are lipid raft associated, prokaryote plasma
membranes lack cholesterol and are unlikely to have
lipid raft domains. Individual proteins of this band 7
domain family may cluster to form membrane microdomains
which may in turn recruit multiprotein complexes.
Escherichia coli HflK is an integral membrane protein
which may localize to the plasma membrane. HflK
associates with another band 7 family member (HflC) to
form an HflKC complex. HflKC interacts with FtsH in a
large complex termed the FtsH holo-enzyme. FtsH is an
AAA ATP-dependent protease which exerts progressive
proteolysis against membrane-embedded and soluble
substrate proteins. HflKC can modulate the activity of
FtsH. HflKC plays a role in the decision between
lysogenic and lytic cycle growth during lambda phage
infection.
Length = 266
Score = 46.8 bits (112), Expect = 8e-08
Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 14/95 (14%)
Query: 2 GKYHRILEPGLNILIP-IIDKIKYV----QSLKEIAIDVPQQSAITSDNVTLSIDG---- 52
GKY R +EPGL+ +P I+ ++ V I + V ++ +++ L+ D
Sbjct: 30 GKYSRTVEPGLHWKLPYPIEVVEVVPVFQLRSVGIPVRVGSVRSVPGESLMLTGDENIVD 89
Query: 53 ----VLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
V Y +I+DPY + V DPE + Q A++ M
Sbjct: 90 VEFAVQY-RISDPYDYLFNVRDPEGTLRQAAESAM 123
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 39.0 bits (91), Expect = 6e-05
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 6 RILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND 60
+++ G I++PI I+ + SL I ++V + T D + L+++ V Y+KI D
Sbjct: 62 KVVRGGGAIVMPIFQTIERM-SLTTIKLEVEIDNVYTKDGMPLNVEAVAYVKIGD 115
>gnl|CDD|239501 cd03407, Band_7_4, A subgroup of the band 7 domain of flotillin
(reggie) like proteins. This subgroup contains proteins
similar to stomatin, prohibitin, flotillin, HlfK/C and
podicin. Many of these band 7 domain-containing
proteins are lipid raft-associated. Individual
proteins of this band 7 domain family may cluster to
form membrane microdomains which may in turn recruit
multiprotein complexes. Microdomains formed from
flotillin proteins may in addition be dynamic units
with their own regulatory functions. Flotillins have
been implicated in signal transduction, vesicle
trafficking, cytoskeleton rearrangement and are known
to interact with a variety of proteins. Stomatin
interacts with and regulates members of the
degenerin/epithelia Na+ channel family in
mechanosensory cells of Caenorhabditis elegans and
vertebrate neurons and participates in trafficking of
Glut1 glucose transporters. Prohibitin may act as a
chaperone for the stabilization of mitochondrial
proteins. Prokaryotic HflK/C plays a role in the
decision between lysogenic and lytic cycle growth
during lambda phage infection. Flotillins have been
implicated in the progression of prion disease, in the
pathogenesis of neurodegenerative diseases such as
Parkinson's and Alzheimer's disease and, in cancer
invasion and metastasis. Mutations in the podicin gene
give rise to autosomal recessive steroid resistant
nephritic syndrome.
Length = 262
Score = 38.9 bits (91), Expect = 7e-05
Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 7/75 (9%)
Query: 2 GKYHRILEPGLNILIPIIDKIKYVQSLK--EIAIDVPQQSAITSDNVTLSIDGVLYLKI- 58
GK+ ++ PG + +IP+++ + SL+ ++ + V T DNV +++ G + ++
Sbjct: 11 GKFFKVAWPGCHFVIPLVETVAGRLSLRVQQLDVRVE---TKTKDNVFVTVVGQIQYRVS 67
Query: 59 -NDPYLASYGVEDPE 72
+ A Y + +PE
Sbjct: 68 EENATDAFYKLGNPE 82
>gnl|CDD|239499 cd03405, Band_7_HflC, Band_7_HflC: The band 7 domain of flotillin
(reggie) like proteins. This group includes proteins
similar to prokaryotic HlfC (High frequency of
lysogenization C). Although many members of the band 7
family are lipid raft associated, prokaryote plasma
membranes lack cholesterol and are unlikely to have
lipid raft domains. Individual proteins of this band 7
domain family may cluster to form membrane microdomains
which may in turn recruit multiprotein complexes.
Escherichia coli HflC is an integral membrane protein
which may localize to the plasma membrane. HflC
associates with another band 7 family member (HflK) to
form an HflKC complex. HflKC interacts with FtsH in a
large complex termed the FtsH holo-enzyme. FtsH is an
AAA ATP-dependent protease which exerts progressive
proteolysis against membrane-embedded and soluble
substrate proteins. HflKC can modulate the activity of
FtsH. HflKC plays a role in the decision between
lysogenic and lytic cycle growth during lambda phage
infection.
Length = 242
Score = 37.5 bits (88), Expect = 2e-04
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 7 ILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDP--YLA 64
+ EPGL+ +P I ++K + + +D Q +T D L +D +I DP +
Sbjct: 22 VTEPGLHFKLPFIQQVKKF-DKRILTLDSDPQRVLTKDKKRLIVDAYAKWRITDPLRFYQ 80
Query: 65 SYGVEDPEFAITQLAQ 80
+ G + A T+L Q
Sbjct: 81 AVG-GEERAAETRLDQ 95
>gnl|CDD|239493 cd03399, Band_7_flotillin, Band_7_flotillin: a subgroup of the
band 7 domain of flotillin (reggie) like proteins. This
subgroup contains proteins similar to stomatin,
prohibitin, flotillin, HlfK/C and podicin. These two
proteins are lipid raft-associated. Individual
proteins of this band 7 domain family may cluster to
form membrane microdomains which may in turn recruit
multiprotein complexes. Microdomains formed from
flotillin proteins may in addition be dynamic units
with their own regulatory functions. Flotillins have
been implicated in signal transduction, vesicle
trafficking, cytoskeleton rearrangement and, interact
with a variety of proteins. Flotillins may play a role
in the progression of prion disease, in the
pathogenesis of neurodegenerative diseases such as
Parkinson's and Alzheimer's disease and, in cancer
invasion and metastasis.
Length = 128
Score = 31.0 bits (71), Expect = 0.025
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 27 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND 60
SL + + V ++ IT D V + + V +K+
Sbjct: 3 SLTSMVLRVGSEAVITRDGVRVDVTAVFQVKVGG 36
>gnl|CDD|233644 TIGR01932, hflC, HflC protein. HflK and HflC are paralogs encoded
by tandem genes in Proteobacteria, spirochetes, and some
other bacterial lineages. The HflKC complex is anchored
in the membrane and exposed to the periplasm. The
complex is not active as a protease, but rather binds to
and appears to modulate the ATP-dependent protease FtsH.
The overall function of HflKC is not fully described
[Protein fate, Degradation of proteins, peptides, and
glycopeptides, Regulatory functions, Protein
interactions].
Length = 317
Score = 30.1 bits (68), Expect = 0.071
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 3/77 (3%)
Query: 6 RILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND--PYL 63
+ EPGL+ IP I+ +K + K +D T + + ID + +I D Y
Sbjct: 46 LVYEPGLHFKIPFIEHVKIFDA-KIQTMDGRPDRIPTKEKKDIIIDTYIRWRIEDFKKYY 104
Query: 64 ASYGVEDPEFAITQLAQ 80
S G A + +
Sbjct: 105 LSTGGGTISAAEVLIKR 121
>gnl|CDD|236799 PRK10930, PRK10930, FtsH protease regulator HflK; Provisional.
Length = 419
Score = 29.0 bits (65), Expect = 0.18
Identities = 28/91 (30%), Positives = 46/91 (50%), Gaps = 22/91 (24%)
Query: 1 MGKYHRILEPGLNILIPIIDKIK--YVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKI 58
GK+ ++EPGLN ID++K V++++E+A +TSD + V+ +++
Sbjct: 111 FGKFSHLVEPGLNWKPTFIDEVKPVNVEAVRELA---ASGVMLTSD------ENVVRVEM 161
Query: 59 NDPYLASYGVEDPE---FAITQ----LAQTT 82
N Y V DPE F++T L Q T
Sbjct: 162 N----VQYRVTDPEKYLFSVTSPDDSLRQAT 188
>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
Length = 334
Score = 28.2 bits (63), Expect = 0.43
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 7 ILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND---PYL 63
+ PGL+ IP I+ +K + + + +D +T + L +D + +I+D YL
Sbjct: 47 VYAPGLHFKIPFIETVKMLDA-RIQTMDNQADRFVTKEKKDLIVDSYIKWRISDFSRYYL 105
Query: 64 ASYG 67
A+ G
Sbjct: 106 ATGG 109
>gnl|CDD|220833 pfam10646, Germane, Sporulation and spore germination. The GerMN
domain is a region of approximately 100 residues that
is found, duplicated, in the Bacillus GerM protein and
is implicated in both sporulation and spore
germination. The domain is found in a number of
different bacterial species both alone and in
association with other domains such as Amidase_3
pfam01520, Gmad1 and Gmad2. It is predicted to have a
novel alpha-beta fold.
Length = 116
Score = 25.4 bits (56), Expect = 2.6
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 42 TSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQT 81
T +V+L GV + ++ +L G E + QL T
Sbjct: 54 TKLSVSLKDGGVATVDLSSEFLDGGGSAAEELLLAQLVLT 93
>gnl|CDD|185688 cd02179, GH16_beta_GRP, beta-1,3-glucan recognition protein, member
of glycosyl hydrolase family 16. Beta-GRP
(beta-1,3-glucan recognition protein) is one of several
pattern recognition receptors (PRRs), also referred to
as biosensor proteins, that complexes with
pathogen-associated beta-1,3-glucans and then transduces
signals necessary for activation of an appropriate
innate immune response. They are present in insects and
lack all catalytic residues. This subgroup also contains
related proteins of unknown function that still contain
the active site. Their structures adopt a jelly roll
fold with a deep active site channel harboring the
catalytic residues, like those of other glycosyl
hydrolase family 16 members.
Length = 321
Score = 24.6 bits (54), Expect = 7.0
Identities = 11/42 (26%), Positives = 15/42 (35%)
Query: 42 TSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
D +TL +DG Y +I + A L T M
Sbjct: 210 KPDGITLMVDGEEYGEIEPGEGGYSEAANNPAASRWLGGTVM 251
>gnl|CDD|132626 TIGR03587, Pse_Me-ase, pseudaminic acid biosynthesis-associated
methylase. Members of this small clade are
methyltransferases of the pfam08241 family and are
observed within operons for the biosynthesis of
pseudaminic acid, a component of exopolysaccharide and
flagellin glycosyl modifications. Notable among these
genomes is Pseudomonas fluorescens PfO-1. Possibly one
of the two hydroxyl groups of pseudaminic acid, at
positions 4 and 8 is converted to a methoxy group by
this enzyme.
Length = 204
Score = 24.4 bits (53), Expect = 7.5
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 56 LKINDPYLASYGVEDPEFAITQLAQTT 82
LK P+ YGVE E+A+ +
Sbjct: 61 LKRLLPFKHIYGVEINEYAVEKAKAYL 87
>gnl|CDD|240090 cd04739, DHOD_like, Dihydroorotate dehydrogenase (DHOD) like
proteins. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
This subgroup has the conserved FMN binding site, but
lacks some catalytic residues and may therefore be
inactive.
Length = 325
Score = 24.1 bits (53), Expect = 9.2
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 42 TSDNVTLSID--GVLYLKINDPYLASYGVEDPEFAITQL---AQTTM 83
+ + L + +L ++ AS GV D E + L A M
Sbjct: 218 SPAEIRLPLRWIAILSGRVKASLAASGGVHDAEDVVKYLLAGADVVM 264
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
0.318 0.138 0.382
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,246,313
Number of extensions: 336997
Number of successful extensions: 312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 26
Length of query: 83
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 31
Effective length of database: 8,631,194
Effective search space: 267567014
Effective search space used: 267567014
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: 53 (24.2 bits)