RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6111
(133 letters)
>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 = 71.8 bits (177), Expect = 3e-17
Identities = 25/52 (48%), Positives = 39/52 (75%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMAR 52
+++IY+DR KF++QV +V + DL MG+ + S+T+KDI D +GYL +LG A
Sbjct: 77 VEEIYEDRDKFAEQVQEVVAPDLNKMGLELDSFTIKDITDTDGYLNNLGDAE 128
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 61.4 bits (149), Expect = 4e-12
Identities = 37/126 (29%), Positives = 61/126 (48%), Gaps = 11/126 (8%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDD-------EGYLKSLGMART 53
++++ +DR F++ V +V DL MG+ + S + DI D YL +LG R
Sbjct: 157 VEELNEDRLGFAQVVQEVVGDDLSKMGLVLDSLAINDINDTSKENQDPNNYLDALGRRRI 216
Query: 54 AEVKRDARIGEAEAKKDARIKEAMAEEE----KMAARFVNDTEIAKAQRDFEIKKATYDA 109
A+V +DA I E EA+K+ I A A + ++ + A+ R+ +I A +A
Sbjct: 217 AQVLQDAEIAENEAEKETEIAIAEANRDAKLVELEVEQQPAGKTAEQTREVKIILAETEA 276
Query: 110 EVETKS 115
EV
Sbjct: 277 EVAAWK 282
>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 = 47.5 bits (114), Expect = 2e-07
Identities = 17/79 (21%), Positives = 40/79 (50%)
Query: 3 DIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDARI 62
++ +R++ + ++ ++ G+ V +KDI + +++ AE ++ A+I
Sbjct: 105 ELLSEREEINAELVEILDEATDPWGVKVERVEIKDIILPQEIQEAMAKQAEAEREKRAKI 164
Query: 63 GEAEAKKDARIKEAMAEEE 81
EAE ++ A I A A ++
Sbjct: 165 IEAEGERQAAILLAEAAKQ 183
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 45.7 bits (109), Expect = 6e-07
Identities = 17/99 (17%), Positives = 29/99 (29%), Gaps = 6/99 (6%)
Query: 4 IYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDARIG 63
D KK A +D V T+ +K D Y + L R DA
Sbjct: 34 FIDDVKKVDL----RAQTDDVPPQETITKDNVKVSVDAVVYYRVLDPLRAVYRVLDADYA 89
Query: 64 EAEAKKDARIKEAMAEEEKMAARFVNDTEIAKAQRDFEI 102
E ++ + ++ + D ++ E
Sbjct: 90 VIEQLAQTTLRSVIG--KRTLDELLTDQREKISENIREE 126
>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 = 41.2 bits (97), Expect = 2e-05
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMA 51
+ ++ +DR + + +V + DL GI VV +KDI E +++
Sbjct: 70 LDELLEDRDEIAAEVREALQEDLDKYGIEVVDVRIKDIDPPEEVQEAMEDR 120
>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 = 37.7 bits (88), Expect = 5e-04
Identities = 13/70 (18%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKR-D 59
+ ++ +R++ +++V + +L G+ + + DI +++ + AE + +
Sbjct: 108 LDELLSNREEIAQEVKEALQEELEKYGLEIEDVQITDIDPPPEIAEAIEEKQAAEQEAEE 167
Query: 60 ARIGEAEAKK 69
A I AEA+
Sbjct: 168 AEIERAEAEA 177
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 35.1 bits (81), Expect = 0.005
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 7/100 (7%)
Query: 4 IYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDARIG 63
+ + R + + ++ ++ GI VV +KDI E ++ AE + A I
Sbjct: 135 LTERRAEINAKIREILDEAADPWGIKVVDVEIKDIDPPEEVQAAMEKQMAAERDKRAEIL 194
Query: 64 EAEAKKDARIKEAMAEEEKMAARFVNDTEIAKAQRDFEIK 103
EAE + A I A E AA +A+A+ + E+
Sbjct: 195 EAEGEAQAAILRAEG--EAEAAII-----LAEAEAEAEVI 227
>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 = 32.5 bits (74), Expect = 0.045
Identities = 29/111 (26%), Positives = 48/111 (43%), Gaps = 7/111 (6%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDA 60
I K R+ ++++ Q+A+S L ++GI VV +K I + +S+ +E
Sbjct: 166 AMTITKGREILAREISQIANSQLKDIGIEVVDVRIKKINYSDELSESIYNRMRSER---- 221
Query: 61 RIGEAEAKKDARIKEAMAEEEKMAARFVNDTEIAKAQRDFEIKKATYDAEV 111
E A+ E AEE A + +++A R I K DAE
Sbjct: 222 ---EQIARMHRSQGEEKAEEILGKAEYEVRKILSEAYRTARIIKGEGDAEA 269
>gnl|CDD|235040 PRK02463, PRK02463, OxaA-like protein precursor; Provisional.
Length = 307
Score = 32.0 bits (73), Expect = 0.057
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 4/28 (14%)
Query: 72 RIKEAMAEEEKMAARFVNDTEIAKAQRD 99
R+K A +EEKMAA+ TE+ AQR+
Sbjct: 106 RLKNATTQEEKMAAQ----TELMAAQRE 129
>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 = 31.9 bits (73), Expect = 0.069
Identities = 23/101 (22%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 12 SKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDARIGEAEAKKDA 71
+K V + + G +V+ + DI D +++ A+ +R A + +AEA+K
Sbjct: 113 AKAVEEELREAMSRYGFEIVATLITDIDPDAEVKRAMNEINAAQRQRVAAVHKAEAEKIK 172
Query: 72 RIKEAMAEEEKMAARFVNDTEIAKAQRDFEIKKATYDAEVE 112
IK A A+ E + E ++A D E
Sbjct: 173 DIKAAEADAEAK---------RLQGVGAAEQRQAIADGLRE 204
>gnl|CDD|240439 PTZ00491, PTZ00491, major vault protein; Provisional.
Length = 850
Score = 28.1 bits (63), Expect = 1.4
Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 7/68 (10%)
Query: 54 AEVKRDARIGEAEAK-KDARIK------EAMAEEEKMAARFVNDTEIAKAQRDFEIKKAT 106
A + +AR+ EAEA+ + A ++ EA AE EK+ R + E +AQ + EI KA
Sbjct: 721 ALAEAEARLIEAEAEVEQAELRAKALRIEAEAELEKLRKRQELELEYEQAQNELEIAKAK 780
Query: 107 YDAEVETK 114
A++E
Sbjct: 781 ELADIEAT 788
>gnl|CDD|236035 PRK07508, PRK07508, aminodeoxychorismate synthase; Provisional.
Length = 378
Score = 28.1 bits (63), Expect = 1.5
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 39 RDDEGYLKSLGMARTAEVKRDARIGEAEAKKDARIKEAMAEEEKMAA 85
D EG++++ M TA R A +DAR++ A+ +EK A
Sbjct: 184 VDGEGWIETHPMKGTA--PRGA-----TPAEDARLRAALLNDEKNQA 223
>gnl|CDD|238975 cd02017, TPP_E1_EcPDC_like, Thiamine pyrophosphate (TPP) family, E1
of E. coli PDC-like subfamily, TPP-binding module;
composed of proteins similar to the E1 component of the
Escherichia coli pyruvate dehydrogenase multienzyme
complex (PDC). PDC catalyzes the oxidative
decarboxylation of pyruvate and the subsequent
acetylation of coenzyme A to acetyl-CoA. The E1
component of PDC catalyzes the first step of the
multistep process, using TPP and a divalent cation as
cofactors. E. coli PDC is a homodimeric enzyme.
Length = 386
Score = 27.7 bits (62), Expect = 1.9
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 90 DTEIAKAQR---DFEIKKATYDAEVETKSTPTIDVARRLKPY 128
D ++ R D A Y VE K PT+ +A+ +K Y
Sbjct: 279 DEDLWALNRGGHDPRKVYAAYKKAVEHKGKPTVILAKTIKGY 320
>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 = 26.7 bits (60), Expect = 3.1
Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 17/109 (15%)
Query: 7 DRKKFSKQVFQVASSDLVNMGITVVSYTLKDIRDDEGYLKSLGMARTAEVKRDAR----I 62
+R + +++ + + + +GI VV +K I E +S+ AE +R A
Sbjct: 117 ERGELMEEIRRAVAEEAKELGIEVVDVRIKRIDLPEEVSESVYRRMRAERERIAAEFRAE 176
Query: 63 GEAEAKKDARIKEAMAEEEKMAARFVNDTEI-AKAQRDFEIKKATYDAE 110
GE EA RI+ A A+ E+ T I A+A R+ + + DAE
Sbjct: 177 GEEEA---ERIR-ADADRER--------TVILAEAYREAQEIRGEGDAE 213
>gnl|CDD|187870 cd09739, Cas6_I-F, CRISPR/Cas system-associated RAMP superfamily
protein Cas6f. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas6f is an endoribonuclease that generates crRNA; This
family is specific for CRISPR/Cas system I-F subtype;
Possesses RRM fold; also known as Csy4 family.
Length = 185
Score = 26.8 bits (60), Expect = 3.2
Identities = 12/38 (31%), Positives = 16/38 (42%)
Query: 55 EVKRDARIGEAEAKKDARIKEAMAEEEKMAARFVNDTE 92
V R E + R+K EE+ AR + DTE
Sbjct: 97 TVSRVQAKSSPERLRRRRLKRGEETEEEARARDIPDTE 134
>gnl|CDD|236121 PRK07868, PRK07868, acyl-CoA synthetase; Validated.
Length = 994
Score = 27.0 bits (60), Expect = 3.6
Identities = 10/21 (47%), Positives = 15/21 (71%), Gaps = 3/21 (14%)
Query: 27 GITVVSYT---LKDIRDDEGY 44
G+TVVSYT L+++ DD +
Sbjct: 694 GVTVVSYTWAMLREVVDDPAF 714
>gnl|CDD|114591 pfam05873, Mt_ATP-synt_D, ATP synthase D chain, mitochondrial
(ATP5H). This family consists of several ATP synthase D
chain, mitochondrial (ATP5H) proteins. Subunit d has no
extensive hydrophobic sequences, and is not apparently
related to any subunit described in the simpler ATP
synthases in bacteria and chloroplasts.
Length = 160
Score = 26.4 bits (58), Expect = 3.9
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 54 AEVKRD-ARIGEAEAKKDARIKEAMAEEEKMAA 85
AE K D RI E + K RI+E E EK
Sbjct: 91 AEEKEDVKRIAEYKTKSADRIQEYEKELEKWKN 123
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 26.9 bits (60), Expect = 4.1
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 8/30 (26%)
Query: 58 RDARIGEAEAKKDARIKEAMAEEEKMAARF 87
D R GE + M+ EEKM RF
Sbjct: 69 VDRRFGENDPN--------MSPEEKMLERF 90
>gnl|CDD|223244 COG0166, Pgi, Glucose-6-phosphate isomerase [Carbohydrate
transport and metabolism].
Length = 446
Score = 25.7 bits (57), Expect = 8.1
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 1 MKDIYKDRKKFSKQVFQVASSDLVNMGI 28
+ ++ K K F+ V +D+VN+GI
Sbjct: 60 VDEVLKRMKAFADDVRSGKITDIVNIGI 87
>gnl|CDD|116541 pfam07931, CPT, Chloramphenicol phosphotransferase-like protein.
The members of this family are all similar to
chloramphenicol 3-O phosphotransferase (CPT) expressed
by Streptomyces venezuelae. Chloramphenicol (Cm) is a
metabolite produced by this bacterium that can inhibit
ribosomal peptidyl transferase activity and therefore
protein production. By transferring a phosphate group to
the C-3 hydroxyl group of Cm, CPT inactivates this
potentially lethal metabolite.
Length = 174
Score = 25.5 bits (56), Expect = 9.4
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 105 ATYDAEVETKSTPTIDVARRL 125
YD EV+T + ARR+
Sbjct: 149 VEYDLEVDTSHQTPEECARRI 169
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
0.312 0.126 0.326
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: 6,666,282
Number of extensions: 604814
Number of successful extensions: 714
Number of sequences better than 10.0: 1
Number of HSP's gapped: 681
Number of HSP's successfully gapped: 123
Length of query: 133
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 47
Effective length of database: 7,123,158
Effective search space: 334788426
Effective search space used: 334788426
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 (21.9 bits)
S2: 53 (24.2 bits)