RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5086
(124 letters)
>gnl|CDD|239495 cd03401, Band_7_prohibitin, Band_7_prohibitin. A subgroup of the
band 7 domain of flotillin (reggie) like proteins. This
subgroup group includes proteins similar to prohibitin
(a lipid raft-associated integral membrane protein).
Individual proteins of this band 7 domain family may
cluster to form membrane microdomains which may in turn
recruit multiprotein complexes. These microdomains in
addition to being stable scaffolds may also be also
dynamic units with their own regulatory functions.
Prohibitin is a mitochondrial inner-membrane protein
which may act as a chaperone for the stabilization of
mitochondrial proteins. Human prohibitin forms a
heter-oligomeric complex with Bap-37 (prohibitin 2, a
band 7 domain carrying homologue). This complex may
protect non-assembled membrane proteins against
proteolysis by the m-AAA protease. Prohibitin and Bap-37
yeast homologues have been implicated in yeast longevity
and, in the maintenance of mitochondrial morphology.
Length = 196
Score = 156 bits (397), Expect = 7e-50
Identities = 55/81 (67%), Positives = 72/81 (88%)
Query: 40 SMFTVEGGHRAIMFSRIGGVQNNVFAEGLHFRLPWFQYPIIYDIRSRPRKISSPTGSKDL 99
S++ V+GGHRA++F+R GGV++ V+ EGLHFR+PWFQ PII+D+R+RPR I S TGSKDL
Sbjct: 1 SLYNVDGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNIESTTGSKDL 60
Query: 100 QMVNISLRVLARPDASKLPKM 120
QMVNI+LRVL RPDAS+LP++
Sbjct: 61 QMVNITLRVLFRPDASQLPRI 81
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 61.1 bits (149), Expect = 7e-13
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 40 SMFTVEGGHRAIMFSRIGGVQNNVFAEGLHFRLPWFQYPIIYDIRSRPRKI-SSPTGSKD 98
+ V G + R+G V + GLHF +P+ D+R++ + T +KD
Sbjct: 1 AAIKVVGEGERGVVERLGRVLRVL-GPGLHFLIPFIDDVKKVDLRAQTDDVPPQETITKD 59
Query: 99 LQMVNISLRVLAR 111
V++ V R
Sbjct: 60 NVKVSVDAVVYYR 72
>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 = 47.4 bits (113), Expect = 1e-07
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 4/77 (5%)
Query: 42 FTVEGGHRAIMFSRIGGVQNNVFAEGLHFRLPWFQYPIIYDIRSRPRKIS--SPTGSKDL 99
V G ++ G + V GLHF+LP+ Q + D R + +++ +KD
Sbjct: 1 TIVPPGEVGVVTRF--GKVSRVLGPGLHFKLPFIQTITVVDTRLQTLEVTVDITVLTKDG 58
Query: 100 QMVNISLRVLARPDASK 116
VN+ + V R +
Sbjct: 59 VPVNVDVTVQYRVEDPA 75
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 43.6 bits (103), Expect = 5e-06
Identities = 23/102 (22%), Positives = 41/102 (40%), Gaps = 12/102 (11%)
Query: 20 VGVGLKLAALAGAAAYGVSQSMFTVEGGHRAIM--FSRIGGVQNNVFAEGLHFRLPWFQY 77
+ + L + L S S+F V+ G R ++ F R GLHF++P+ +
Sbjct: 1 LLLILIIILLVILIVLLFS-SIFVVKEGERGVVLRFGRYTRTLGE---PGLHFKIPFPEA 56
Query: 78 PIIYDIRSRPRKISSPTG------SKDLQMVNISLRVLARPD 113
+R R+ + G +KD +V++ V R
Sbjct: 57 IEEVVVRVDLRERTLDVGPPQEVITKDNVIVSVDAVVQYRVT 98
>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 = 39.1 bits (92), Expect = 2e-04
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 41 MFTVEGGHRAIMFSRIGGVQNNVFAEGLHFRLPWFQYPIIYDIR 84
+F V+ G +A++ R G V V GLHF+LP+ Q +D R
Sbjct: 1 LFIVDEGEQAVVL-RFGEVVRVVTEPGLHFKLPFIQQVKKFDKR 43
>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 = 35.2 bits (81), Expect = 0.004
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 12/79 (15%)
Query: 39 QSMFTVEGGHRAIM--FSRIGGVQNN---VFAEGLHFRLPWFQYPIIYDIR-----SRPR 88
Q F ++ G R I+ F +I N+ V+ GLHF++P+ ++ I+D + RP
Sbjct: 18 QPFFIIKEGERGIITRFGKILKDNNHHVLVYEPGLHFKIPFIEHVKIFDAKIQTMDGRPD 77
Query: 89 KISSPTGSKDLQMVNISLR 107
+I PT K +++ +R
Sbjct: 78 RI--PTKEKKDIIIDTYIR 94
>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
Length = 334
Score = 32.8 bits (75), Expect = 0.025
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 40 SMFTVEGGHRAIMFSRIGGVQNN------VFAEGLHFRLPWFQYPIIYDIR 84
S+F V+ G R I+ R G V + V+A GLHF++P+ + + D R
Sbjct: 19 SVFVVKEGERGIVL-RFGKVLRDDDNKPLVYAPGLHFKIPFIETVKMLDAR 68
>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 = 28.9 bits (65), Expect = 0.45
Identities = 7/39 (17%), Positives = 9/39 (23%)
Query: 79 IIYDIRSRPRKISSPTGSKDLQMVNISLRVLARPDASKL 117
I R +KD V + V R
Sbjct: 1 RIDLRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVVDPVK 39
>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 = 28.7 bits (65), Expect = 0.74
Identities = 20/102 (19%), Positives = 34/102 (33%), Gaps = 27/102 (26%)
Query: 26 LAALAGAAAYGVSQSMFTVEGGHRAIM-----FSRIGGVQNNVFAEGLHFRLPW------ 74
L A + +S + V+ G R ++ +SR GLH++LP+
Sbjct: 1 LIAALLVILWLLS-GFYIVQPGERGVVLRFGKYSRTVE-------PGLHWKLPYPIEVVE 52
Query: 75 ---FQYPIIYDIRSRPRKISSPTGSK-----DLQMVNISLRV 108
I R + S G D +V++ V
Sbjct: 53 VVPVFQLRSVGIPVRVGSVRSVPGESLMLTGDENIVDVEFAV 94
>gnl|CDD|139564 PRK13425, PRK13425, F0F1 ATP synthase subunit gamma; Provisional.
Length = 291
Score = 28.6 bits (64), Expect = 0.81
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 78 PIIYDIRSRPRKISSPTG-SKDLQMVNIS-LR------VLARPDASKLPKML 121
P + DIR R + + S +K ++MV + LR ++ARP A+KL +ML
Sbjct: 2 PTLKDIRVRIKGVKSTQQVTKAMKMVAAAKLRRAQERAIMARPYAAKLKEML 53
>gnl|CDD|220949 pfam11028, DUF2723, Protein of unknown function (DUF2723). This
family is conserved in bacteria. The function is not
known.
Length = 177
Score = 26.0 bits (58), Expect = 5.0
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 9 FAGRFGKGPKGVGVGLKLAALAGAAAYGVSQS 40
+ + + + AAL GA A+ S S
Sbjct: 65 LLRKEEELSTSEKIAILGAALVGALAFAFSDS 96
>gnl|CDD|212109 cd10797, GH57N_APU_like_1, N-terminal putative catalytic domain of
mainly uncharacterized prokaryotic proteins similar to
archaeal thermoactive amylopullulanases; glycoside
hydrolase family 57 (GH57). This subfamily of mainly
uncharacterized bacterial proteins, shows high sequence
homology to GH57 archaeal thermoactive amylopullulanases
(APU, E.C 3.2.1.1/41). Thermoactive APUs are type II
pullulanases with both pullulanolytic and amylolytic
activities. They have an acid pH optimum and the
presence of Ca2+ might increase their activity,
thermostability, and substrate affinity.
Length = 327
Score = 26.1 bits (58), Expect = 6.1
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 8 DFAGRFGKGPKGVGV---GLKLAALAGAAAYGVSQSMFTVEGGHRAIMFSRIGG 58
DF RFG+ P+G+ + + L L A G+ FT+ +A IGG
Sbjct: 134 DFERRFGRAPEGMWLPETAVDLETLEALADEGIK---FTILAPWQAKRVRPIGG 184
>gnl|CDD|179663 PRK03858, PRK03858, DNA polymerase IV; Validated.
Length = 396
Score = 25.7 bits (57), Expect = 7.2
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 17 PKGVGVGLKLAALAGAAAYGVSQSMFTVEGGHRA 50
P VG G+ LAA A AYGV +M GG +A
Sbjct: 30 PVIVGGGVVLAASYEAKAYGVRTAM----GGRQA 59
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
0.323 0.139 0.417
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: 6,301,656
Number of extensions: 562581
Number of successful extensions: 505
Number of sequences better than 10.0: 1
Number of HSP's gapped: 504
Number of HSP's successfully gapped: 26
Length of query: 124
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 39
Effective length of database: 7,167,512
Effective search space: 279532968
Effective search space used: 279532968
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)