RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9118
(293 letters)
>gnl|CDD|239500 cd03406, Band_7_3, 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 = 280
Score = 425 bits (1094), Expect = e-152
Identities = 181/228 (79%), Positives = 206/228 (90%)
Query: 65 FNYSFHKIEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQVTLQTDEVKNVPCGT 124
+ + HKIEEGHVGVY+RGGALL++ SGPGFH M+PFITT++ VQVTLQTDEVKNVPCGT
Sbjct: 1 LSSALHKIEEGHVGVYYRGGALLTSTSGPGFHLMLPFITTYKSVQVTLQTDEVKNVPCGT 60
Query: 125 SGGVMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYI 184
SGGVMIYFDRIEVVN L SVYDIVKNYTADYDK LIFNK+HHELNQFCS+H L EVYI
Sbjct: 61 SGGVMIYFDRIEVVNFLIPDSVYDIVKNYTADYDKTLIFNKIHHELNQFCSVHTLQEVYI 120
Query: 185 DLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQ 244
DLFDQIDENLK ALQ++L MAPGL IQAVRVTKPKIPE IR+NYELMEAEKTKLLI+IQ
Sbjct: 121 DLFDQIDENLKLALQKDLTRMAPGLEIQAVRVTKPKIPEAIRRNYELMEAEKTKLLIAIQ 180
Query: 245 HQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
QKVVEK+AETERK+AVIEAEK AQ+AKI + QKVME+E+++R+++IE
Sbjct: 181 KQKVVEKEAETERKKAVIEAEKVAQVAKILFGQKVMEKETEKRISEIE 228
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 98.5 bits (246), Expect = 2e-25
Identities = 45/166 (27%), Positives = 73/166 (43%), Gaps = 7/166 (4%)
Query: 68 SFHKIEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQVTLQTDEVKNVPCGTSGG 127
+ + EG GV R G +L + GPG H +IPFI + V + QTD+V T
Sbjct: 2 AIKVVGEGERGVVERLGRVL-RVLGPGLHFLIPFIDDVKKVDLRAQTDDVPPQETITKDN 60
Query: 128 VMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYIDLF 187
V + D VV + + + + ADY A+I L L E+ D
Sbjct: 61 VKVSVDA--VVYYRVLDPLRAVYRVLDADY--AVIEQLAQTTLRSVIGKRTLDELLTDQR 116
Query: 188 DQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELME 233
++I EN++ L A G+ ++ V + ++PE I++ E +
Sbjct: 117 EKISENIREELNEAAE--AWGIKVEDVEIKDIRLPEEIKEAMEAQQ 160
>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 = 74.3 bits (183), Expect = 3e-16
Identities = 55/193 (28%), Positives = 84/193 (43%), Gaps = 18/193 (9%)
Query: 70 HKIEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQVTLQTDEVKN-VPCGTSGGV 128
+ G VGV R G + S + GPG H +PFI T V LQT EV + T GV
Sbjct: 1 TIVPPGEVGVVTRFGKV-SRVLGPGLHFKLPFIQTITVVDTRLQTLEVTVDITVLTKDGV 59
Query: 129 MIYFDRIEVVNVLSVSSVYDIVKNYT-ADYDKALIFNKVHHELNQFCSIHNLHEVYIDLF 187
+ ++V V +V NYT + + L+ V L + + + L E+ +
Sbjct: 60 PV---NVDVTVQYRVEDPAKLVANYTGEEDLQELLRPLVRSALREVIARYTLDELLSNR- 115
Query: 188 DQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQK 247
++I + +K ALQ EL + GL I+ V++T P I + E +A Q+
Sbjct: 116 EEIAQEVKEALQEELEKY--GLEIEDVQITDIDPPPEIAEAIEEKQA---------AEQE 164
Query: 248 VVEKDAETERKRA 260
E + E A
Sbjct: 165 AEEAEIERAEAEA 177
>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 = 48.5 bits (116), Expect = 2e-07
Identities = 26/120 (21%), Positives = 46/120 (38%), Gaps = 6/120 (5%)
Query: 111 TLQTDEVKNVPCGTSGGVMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHEL 170
QT +V T V + R++ V V + N D+ + L
Sbjct: 5 RRQTLDVPPQEVLTKDNVPV---RVDAVVQYRVVDPVKALYNVRDPEDEEALRQLAQSAL 61
Query: 171 NQFCSIHNLHEVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYE 230
L E+ D D+I ++ ALQ +L++ G+ + VR+ PE +++ E
Sbjct: 62 RSVIGKMTLDELLED-RDEIAAEVREALQEDLDKY--GIEVVDVRIKDIDPPEEVQEAME 118
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 50.1 bits (120), Expect = 4e-07
Identities = 55/251 (21%), Positives = 94/251 (37%), Gaps = 26/251 (10%)
Query: 51 LLVGIVSLFSLLLVFNYSFHKIEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQV 110
L++ I+ L L+++ S ++EG GV R G T+ PG H IPF V V
Sbjct: 3 LILIIILLVILIVLLFSSIFVVKEGERGVVLRFGRYTRTLGEPGLHFKIPFPEAIEEVVV 62
Query: 111 TLQTDEV-----KNVPCGTSGGVMIYFDRIEVVNVLSVSS--VYDIVKNYTA-DYDKALI 162
+ E T V+ V+V +V V D K + +A +
Sbjct: 63 RVDLRERTLDVGPPQEVITKDNVI--------VSVDAVVQYRVTDPQKAVYNVENAEAAL 114
Query: 163 FNKVHHELNQFCSIHNLHEVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIP 222
V L L E+ + +I+ ++ L + G+ + V + P
Sbjct: 115 RQLVQSALRSVIGRMTLDELLTERRAEINAKIREILDEAADPW--GIKVVDVEIKDIDPP 172
Query: 223 ETIRKNYEL-MEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQ-YEQKVM 280
E ++ E M AE+ K +++E + E + E E EA I + + +
Sbjct: 173 EEVQAAMEKQMAAERDKR------AEILEAEGEAQAAILRAEGEAEAAIILAEAEAEAEV 226
Query: 281 EQESKQRVAKI 291
++ AKI
Sbjct: 227 IARAEADAAKI 237
>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 = 47.2 bits (113), Expect = 3e-06
Identities = 47/219 (21%), Positives = 89/219 (40%), Gaps = 33/219 (15%)
Query: 72 IEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQVTLQTDEVKNVPCGTSGGVMIY 131
++EG V R G ++ ++ PG H +PFI + + T + T +
Sbjct: 4 VDEGEQAVVLRFGEVVRVVTEPGLHFKLPFIQQVKKFDKRILTLDSDPQRVLTKDKKRLI 63
Query: 132 FD-----RIEVVNVLSVSSVYDIVKNYTA-----DYDKALIFNKVHHELNQFCSIHNLHE 181
D RI D ++ Y A + + V+ L L E
Sbjct: 64 VDAYAKWRIT-----------DPLRFYQAVGGEERAAETRLDQIVNSALRAEFGKRTLIE 112
Query: 182 VYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKN-YELMEAEKTKLL 240
+ ++ E ++ A+ E E+ G+ + VR+ + +PE + ++ Y M AE+ +
Sbjct: 113 LVSGERGELMEEIRRAVAEEAKEL--GIEVVDVRIKRIDLPEEVSESVYRRMRAERER-- 168
Query: 241 ISIQH-----QKVVEKDAETERKRAVI--EAEKEAQIAK 272
I+ + ++ A+ +R+R VI EA +EAQ +
Sbjct: 169 IAAEFRAEGEEEAERIRADADRERTVILAEAYREAQEIR 207
>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 = 44.4 bits (105), Expect = 3e-05
Identities = 56/275 (20%), Positives = 97/275 (35%), Gaps = 42/275 (15%)
Query: 53 VGIVSLFSLLLVFNYSFHKIEEGHVGVYFRGGALLST------ISGPGFHAMIPFITTFR 106
+GIV + L++V F I+EG G+ R G +L + PG H IPFI +
Sbjct: 4 IGIVVIVLLIVVLFQPFFIIKEGERGIITRFGKILKDNNHHVLVYEPGLHFKIPFIEHVK 63
Query: 107 HVQVTLQT--DEVKNVPCGTSGGVMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFN 164
+QT +P T I D + Y T + LI
Sbjct: 64 IFDAKIQTMDGRPDRIP--TKEKKDIIIDTYIRWRIEDFKKYYLSTGGGTISAAEVLIKR 121
Query: 165 KVHHELNQFCSIHNLHEVYIDLFDQID---------------------ENLKTALQRELN 203
K+ L + L E+ DQ+D + L RE++
Sbjct: 122 KIDDRLRSEIGVLGLKEIVRSSNDQLDTLVSKLALNRGGKINKIAMTITKGREILAREIS 181
Query: 204 EMAP------GLFIQAVRVTKPKIPETIRKN-YELMEAEKTKLLISIQHQKVVEKDAETE 256
++A G+ + VR+ K + + ++ Y M +E+ I + + + E
Sbjct: 182 QIANSQLKDIGIEVVDVRIKKINYSDELSESIYNRMRSERE----QIARMHRSQGEEKAE 237
Query: 257 RKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKI 291
E E +++ ++++ E AKI
Sbjct: 238 EILGKAEYEVRKILSEAYRTARIIKGEGDAEAAKI 272
>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 = 42.9 bits (102), Expect = 6e-05
Identities = 52/233 (22%), Positives = 88/233 (37%), Gaps = 41/233 (17%)
Query: 72 IEEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQVT-LQTDEVKNVPCGTSGGVMI 130
+ + GV R G T+ GPG H +IPFI + Q +V T V +
Sbjct: 1 VPQYERGVVERLGKYHRTL-GPGLHFIIPFIDRIAYKVDLREQVLDVPPQEVITKDNVTV 59
Query: 131 YFDRI---EVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYI--- 184
D + VV+ V +VY + DY A+ +L Q L V
Sbjct: 60 RVDAVLYYRVVDP--VKAVYGV-----EDYRYAIS------QLAQT----TLRSVIGKME 102
Query: 185 --DLF---DQIDENLKTALQRELNEMAP-GLFIQAVRVTKPKIPETIRKNYEL-MEAEKT 237
+L ++I+ L L P G+ ++ V + +P+ I++ EAE+
Sbjct: 103 LDELLSEREEINAELVEILDE---ATDPWGVKVERVEIKDIILPQEIQEAMAKQAEAERE 159
Query: 238 KLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAK 290
K K++E + E + + EA K+A I + + +E +
Sbjct: 160 KR------AKIIEAEGERQAAILLAEAAKQAAINPAALQLRELETLEEIAKEA 206
>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
Length = 334
Score = 38.6 bits (90), Expect = 0.003
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 55 IVSLFSLLLVFNYSFHKIEEGHVGVYFRGGALL------STISGPGFHAMIPFITTFRHV 108
I + +L+V S ++EG G+ R G +L + PG H IPFI T + +
Sbjct: 6 IAIIIIVLVVLYMSVFVVKEGERGIVLRFGKVLRDDDNKPLVYAPGLHFKIPFIETVKML 65
Query: 109 QVTLQT 114
+QT
Sbjct: 66 DARIQT 71
>gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated.
Length = 319
Score = 31.9 bits (72), Expect = 0.41
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 182 VYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAE---KTK 238
V +D D I+ AL + L E +PG ++ + ++P TIR + +E + +
Sbjct: 117 VIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHE 176
Query: 239 LLISIQHQKVVEKDAE 254
L + Q V E+ A+
Sbjct: 177 ALAWLLAQGVSERAAQ 192
>gnl|CDD|211667 TIGR01530, nadN, NAD pyrophosphatase/5'-nucleotidase NadN. This
model describes NadN of Haemophilus influenzae and a
small number of close homologs in pathogenic,
Gram-negative bacteria. NadN is a periplasmic enzyme
that cleaves NAD (nicotinamide adenine dinucleotide) to
NMN (nicotinamide mononucleotide) and AMP. The NMN must
be converted by a 5'-nucleotidase to nicotinamide
riboside for import. NadN belongs a large family of
5'-nucleotidases and has NMN 5'-nucleotidase activity
for NMN, AMP, etc [Transport and binding proteins,
Other, Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridine nucleotides].
Length = 545
Score = 31.9 bits (72), Expect = 0.42
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 226 RKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIE---AEKEAQIAKI 273
K YEL E+ K L +++ K + D + ++IE +EK+ +I
Sbjct: 295 GKWYELTGDERKKALDTLKSMKSISLDDHDAKTDSLIEKYKSEKDRLAQEI 345
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 31.2 bits (71), Expect = 0.52
Identities = 15/69 (21%), Positives = 32/69 (46%), Gaps = 12/69 (17%)
Query: 226 RKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEA------QIAKIQYEQKV 279
+ E ++ ++ LL +++A+ ER+R + EA +EA ++ EQ
Sbjct: 63 EEKNEELDQQREVLL------TKAKEEAQAERQRLLDEAREEADEIREKWQEALRREQAA 116
Query: 280 MEQESKQRV 288
+ E ++R
Sbjct: 117 LSDELRRRT 125
>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207). This
family is found in eukaryotes; it has several conserved
tryptophan residues. The function is not known.
Length = 261
Score = 31.2 bits (71), Expect = 0.57
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 244 QHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQ---KVMEQESKQRVAKI 291
+ QK++E+ + ER++ EAE ++AK +YE+ + +Q +KQR K
Sbjct: 103 KLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKH 153
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 31.3 bits (72), Expect = 0.59
Identities = 10/36 (27%), Positives = 26/36 (72%)
Query: 250 EKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESK 285
+K+AE +K A++EA++E + ++E+++ E+ ++
Sbjct: 48 KKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNE 83
>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 = 30.3 bits (69), Expect = 0.90
Identities = 24/95 (25%), Positives = 37/95 (38%), Gaps = 9/95 (9%)
Query: 68 SFHKIEEGHVGVYF-RGGALLSTISGPGFHAMIPFITTFRHVQVTLQTDEVKNVPCGTSG 126
S + ++ GH V F RGG + + G G H IP+ V + + G+
Sbjct: 1 SLYNVDGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNI-ESTTGSKD 59
Query: 127 GVMIYFDRIEVVNVLS---VSSVYDIVKNYTADYD 158
M+ + VL S + I +N DYD
Sbjct: 60 LQMVNI----TLRVLFRPDASQLPRIYQNLGEDYD 90
>gnl|CDD|151803 pfam11362, DUF3161, Protein of unknown function (DUF3161). This
eukaryotic family of proteins has no known function.
Length = 90
Score = 28.7 bits (64), Expect = 1.1
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 103 TTFRHVQVTLQTDEVKNVPCGTSGGVMIYFDRIEVVN 139
T +QV QT V+ + T G YF ++V+N
Sbjct: 54 TLQDGLQVFGQTGNVRKIAALTRYGCNSYFKLVKVIN 90
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 30.2 bits (68), Expect = 1.2
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 243 IQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
Q Q+ K AE +RK+ + +E Q + ++++ + E K+R+A E
Sbjct: 67 QQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLE-KERLAAQE 115
>gnl|CDD|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 200 amino acids in length. This
domain is found associated with pfam00013, pfam01966.
This domain has a single completely conserved residue A
that may be functionally important.
Length = 201
Score = 29.8 bits (68), Expect = 1.2
Identities = 10/36 (27%), Positives = 25/36 (69%)
Query: 250 EKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESK 285
+K+AE +K A++EA++E + + E+++ E+ ++
Sbjct: 44 KKEAEALKKEALLEAKEEIHKLRAEAERELKERRNE 79
>gnl|CDD|218688 pfam05680, ATP-synt_E, ATP synthase E chain. This family consists
of several ATP synthase E chain sequences which are
components of the CF(0) subunit.
Length = 83
Score = 28.2 bits (63), Expect = 1.3
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 244 QHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQK 278
+K EK E E + +IE K A K Q +Q+
Sbjct: 31 SLKKKEEKIREYEAQEKLIEKAKAAYAKKKQAKQE 65
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 30.4 bits (69), Expect = 1.3
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 5/69 (7%)
Query: 225 IRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQES 284
IR E +EA L +HQ V + ER + I+ + E + K + +E
Sbjct: 357 IRSELEEVEAR-LDALTG-KHQDV---QRKYERLKQKIKEQLERDLEKNNERLAAIREEK 411
Query: 285 KQRVAKIEG 293
++ A IE
Sbjct: 412 DRQKAAIEE 420
>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 = 29.8 bits (68), Expect = 1.3
Identities = 51/267 (19%), Positives = 97/267 (36%), Gaps = 61/267 (22%)
Query: 55 IVSLFSLLLVFNYSFHKIEEGHVGVYFRGGALLSTISGPGFHAMIPF-ITTFRHVQVTLQ 113
+++ ++L F+ ++ G GV R G S PG H +P+ I V V
Sbjct: 1 LIAALLVILWLLSGFYIVQPGERGVVLRFGKY-SRTVEPGLHWKLPYPIEVVEVVPVFQL 59
Query: 114 TDE-----VKNVPCGTSGGVMIYFDRIEVVNVLSVS-SVYDIVKNYTADYDKALIFNKVH 167
V +V +M+ D N++ V +V + + +FN
Sbjct: 60 RSVGIPVRVGSVRSVPGESLMLTGDE----NIVDVEFAVQYRISD-----PYDYLFNVRD 110
Query: 168 HE----------LNQFCSIHNLHEVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVT 217
E + + L +V + ++I ++++ LQ L+ G+ I V +
Sbjct: 111 PEGTLRQAAESAMREVVGRSTLDDVLTEGREEIAQDVRELLQAILDAYKAGIEIVGVNLQ 170
Query: 218 KPKIPETIRKNYELMEAEKTKLLISIQHQKVVE--KD---AETERKRAVIEAEKEAQ--I 270
PE +V + D A +R+R + EAE A +
Sbjct: 171 DADPPE-----------------------EVQDAFDDVNKARQDRERLINEAEAYANEVV 207
Query: 271 AKIQYEQKVMEQESK----QRVAKIEG 293
K + E + QE++ + +A+ +G
Sbjct: 208 PKARGEAARIIQEAEAYKEEVIAEAQG 234
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 30.0 bits (68), Expect = 1.7
Identities = 38/238 (15%), Positives = 77/238 (32%), Gaps = 23/238 (9%)
Query: 69 FHKIEEGHVGVYFRGGALLSTISGPGFH-------AMIPFITTFRHVQVTLQTDEVKNVP 121
+EE + +++S+++ IP + +
Sbjct: 47 VDYLEEEDPTLRDPQISVVSSVTKLSKGPKDEPKQVKIPRQSGLSEEVAEAEAKATSVAA 106
Query: 122 CGTSGGVMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHELNQFCSIHNLHE 181
T+ E+V L + + + + L+ + ++L NL +
Sbjct: 107 EATTPK-----SIQELVEALEELLEELLKETASDPVVQELV--SIFNDLIDSIKEDNLKD 159
Query: 182 VYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLI 241
L E L L ++L E+ + R K K E + K E + A
Sbjct: 160 DLESLIASAKEEL-DQLSKKLAELKAEEEEELERALKEKREELLSKLEEELLARLESKEA 218
Query: 242 SIQHQKVVEKDAETERKRAV--------IEAEKEAQIAKIQYEQKVMEQESKQRVAKI 291
+++ Q +E + E E R +E + EA K++ E + E ++ K
Sbjct: 219 ALEKQLRLEFEREKEELRKKYEEKLRQELERQAEAHEQKLKNELALQAIELQREFNKE 276
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.1 bits (67), Expect = 1.7
Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 212 QAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIA 271
+ V K K E +K EL +AE+ + + E E K+ EA+K +
Sbjct: 1633 KKVEQLKKKEAEEKKKAEELKKAEEENKI-----KAAEEAKKAEEDKKKAEEAKKAEEDE 1687
Query: 272 KIQYEQKVMEQESKQRVAKIE 292
K E E E ++ +++
Sbjct: 1688 KKAAEALKKEAEEAKKAEELK 1708
Score = 29.3 bits (65), Expect = 3.2
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 218 KPKIPETIRKNYELMEAEKTKLLISIQHQKVVE-KDAETERKRAVIEAEKEAQIAKIQYE 276
K ++ E +AE+ K + + +K E K AE E K EA+KEA+ K + E
Sbjct: 1688 KKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAE 1747
Query: 277 QKVMEQESKQRVAKIE 292
+ ++E K+++A ++
Sbjct: 1748 EAKKDEEEKKKIAHLK 1763
Score = 28.6 bits (63), Expect = 5.0
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQ 282
E +K E +AE+ K + +K E E K+ EA+K+A AK + E+
Sbjct: 1287 EEKKKADEAKKAEEKKKADEAK-KKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAA 1345
Query: 283 ESKQRVAK 290
E+ + A+
Sbjct: 1346 EAAKAEAE 1353
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 29.5 bits (67), Expect = 2.2
Identities = 11/36 (30%), Positives = 26/36 (72%)
Query: 250 EKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESK 285
+K+AET +K A++EA++E + + E+++ E+ ++
Sbjct: 42 KKEAETLKKEALLEAKEEVHKLRAELERELKERRNE 77
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 29.0 bits (65), Expect = 3.0
Identities = 13/67 (19%), Positives = 28/67 (41%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQ 282
+ E+ + K + K++ + E E E +EA+ A+I EQ + E+
Sbjct: 244 DAKLVELEVEQQPAGKTAEQTREVKIILAETEAEVAAWKAETRREAEQAEILAEQAIQEE 303
Query: 283 ESKQRVA 289
+++
Sbjct: 304 KAQAEQE 310
>gnl|CDD|220818 pfam10595, UPF0564, Uncharacterized protein family UPF0564. This
family of proteins has no known function. However, one
of the members is annotated as an EF-hand family
protein.
Length = 349
Score = 28.6 bits (64), Expect = 3.5
Identities = 19/101 (18%), Positives = 51/101 (50%)
Query: 192 ENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEK 251
E+ K++ + L++ + ++ T+ K+P + +K L++ +T+ ++ +K
Sbjct: 235 ESHKSSSRTYLDQENISAGEENLKPTRRKLPPSTKKWESLVKFLRTERKEKEAKEQQEKK 294
Query: 252 DAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
+ E +K+ A K Q + + +++E K+++AK+
Sbjct: 295 ELEQRKKKKKEMAPKVKQRFEANDPAQKLQEERKEQLAKLR 335
>gnl|CDD|214613 smart00315, RGS, Regulator of G protein signalling domain. RGS
family members are GTPase-activating proteins for
heterotrimeric G-protein alpha-subunits.
Length = 118
Score = 27.6 bits (62), Expect = 3.6
Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 15/87 (17%)
Query: 147 YDIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYIDLFDQIDENLKTALQRELNEMA 206
+ V+ + D K ++F S + EV +D + E ++ L E E
Sbjct: 31 WLAVEEFKKAEDDEERIAKAREIYDKFLSPNAPKEVNLD--SDLREKIEENL--ESEEPP 86
Query: 207 PGLFIQAVRVTKPKIPETIRKNYELME 233
P LF +A R YEL+E
Sbjct: 87 PDLFDEAQREV-----------YELLE 102
>gnl|CDD|184061 PRK13454, PRK13454, F0F1 ATP synthase subunit B'; Provisional.
Length = 181
Score = 28.3 bits (63), Expect = 4.1
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 6/49 (12%)
Query: 244 QHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
+ Q++V AET RA I+AE + IAK E ES++R+A+I
Sbjct: 98 EAQRIV---AET---RAEIQAELDVAIAKADAEIAAKAAESEKRIAEIR 140
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 28.1 bits (63), Expect = 4.4
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 246 QKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKI 291
+ E+ E E +R I+A+ + K ++K + QE + AK
Sbjct: 151 EATHERLKEREIRRKKIQAKARKRKEKK--KEKELTQEERLAEAKE 194
>gnl|CDD|221648 pfam12579, DUF3755, Protein of unknown function (DUF3755). This
domain family is found in eukaryotes, and is
approximately 40 amino acids in length. There is a
single completely conserved residue N that may be
functionally important.
Length = 35
Score = 25.3 bits (56), Expect = 4.6
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 184 IDLFDQIDENLKTALQRELNEMAPGLFIQ 212
IDLF + +N+ L ++ EM PG+ Q
Sbjct: 9 IDLFCRTRDNILAILN-DMREM-PGIMSQ 35
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 28.5 bits (65), Expect = 4.8
Identities = 11/29 (37%), Positives = 20/29 (68%), Gaps = 5/29 (17%)
Query: 148 DIVKNYTADYDKALIFNKVHHELNQFCSI 176
+I++ Y +YD F+KV+ +L+ FCS+
Sbjct: 688 EILEAY-ENYD----FHKVYQKLHNFCSV 711
>gnl|CDD|169691 PRK09173, PRK09173, F0F1 ATP synthase subunit B; Validated.
Length = 159
Score = 27.8 bits (62), Expect = 4.9
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 253 AETERKRAVIEAEKEAQ--IAKIQYEQKVMEQESKQR 287
AE +RKR EAEKEA +A + E + + E+K++
Sbjct: 57 AEYQRKRK--EAEKEAADIVAAAEREAEALTAEAKRK 91
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 28.3 bits (64), Expect = 5.1
Identities = 26/108 (24%), Positives = 48/108 (44%), Gaps = 7/108 (6%)
Query: 189 QIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKV 248
+I E L T+ ++ E+ P F+ + P++ + EL E E + L +
Sbjct: 354 KIAEKLHTSKRKVRREVLP--FLSIIFKHNPELAARLAAFLELTEEEI-EFLTGSKKATK 410
Query: 249 VEK----DAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
K AE +R+ E +K+A K + E++ E+E K+ + E
Sbjct: 411 KIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEE 458
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 28.4 bits (64), Expect = 5.7
Identities = 8/47 (17%), Positives = 20/47 (42%)
Query: 244 QHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAK 290
+ + + ERK+ + K + A+ + +K ++ + AK
Sbjct: 398 EEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAK 444
>gnl|CDD|240439 PTZ00491, PTZ00491, major vault protein; Provisional.
Length = 850
Score = 28.4 bits (64), Expect = 6.0
Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 16/74 (21%)
Query: 233 EAEKTKLL--------ISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYE-QKVM--- 280
E ++TKLL + Q E AE E + IEAE E + A+++ + ++
Sbjct: 695 EEQRTKLLELQAESAAVESSGQSRAEALAEAEARL--IEAEAEVEQAELRAKALRIEAEA 752
Query: 281 --EQESKQRVAKIE 292
E+ K++ ++E
Sbjct: 753 ELEKLRKRQELELE 766
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 28.0 bits (62), Expect = 6.1
Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 227 KNYELMEAEKTKLLISIQHQKVVEKD-----AETERKRAVIEAEKEAQIAKIQYEQKVME 281
E + E+ + + +K E AE + +A EA+K+A+ A E+ +
Sbjct: 127 AQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAK 186
Query: 282 QESKQRVAKIE 292
E+ K E
Sbjct: 187 AEAAAAKKKAE 197
>gnl|CDD|153414 cd07960, Anticodon_Ia_Ile_BEm, Anticodon-binding domain of
bacterial and eukaryotic mitochondrial isoleucyl tRNA
synthetases. This domain is found in isoleucyl tRNA
synthetases (IleRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain, and recognizes and specifically
binds to the tRNA anticodon. This family includes
bacterial and eukaryotic mitochondrial members. IleRS
catalyzes the transfer of isoleucine to the 3'-end of
its tRNA.
Length = 180
Score = 27.5 bits (62), Expect = 6.7
Identities = 12/38 (31%), Positives = 23/38 (60%), Gaps = 6/38 (15%)
Query: 148 DIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYID 185
++ + Y +Y+ F+KV+ LN FC++ +L Y+D
Sbjct: 59 EVREAY-ENYE----FHKVYQALNNFCTV-DLSAFYLD 90
>gnl|CDD|184697 PRK14475, PRK14475, F0F1 ATP synthase subunit B; Provisional.
Length = 167
Score = 27.2 bits (60), Expect = 7.0
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 7/88 (7%)
Query: 206 APGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAE 265
P A+ KI + + L E LL ++ ++ E ER+ A + A
Sbjct: 31 LPKALAGALDAYAAKIQAELDEAQRL-REEAQALLADVKAER-----EEAERQAAAMLAA 84
Query: 266 KEAQIAKIQYEQKV-MEQESKQRVAKIE 292
+A +++ E K +E++ K+R E
Sbjct: 85 AKADARRMEAEAKEKLEEQIKRRAEMAE 112
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 27.9 bits (62), Expect = 7.3
Identities = 15/70 (21%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQ 282
I + K ++ + I+ +EK+ E ++ + + KE + K + EQ++ E
Sbjct: 497 FIIEQAKTFYGEFKEEINVLIEKLSALEKELE-QKNEHLEKLLKEQEKLKKELEQEMEEL 555
Query: 283 ESKQRVAKIE 292
+ ++R K+E
Sbjct: 556 KERERNKKLE 565
>gnl|CDD|205436 pfam13256, DUF4047, Domain of unknown function (DUF4047). This
presumed domain is functionally uncharacterized. This
domain family is found in bacteria, and is approximately
130 amino acids in length. There are two conserved
sequence motifs: TEA and FPKT.
Length = 123
Score = 26.8 bits (59), Expect = 7.4
Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 14/82 (17%)
Query: 211 IQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKR----AVIEAEK 266
+QA T P+TI L E K QH+KV+ + E +K ++ E+
Sbjct: 15 VQASISTAIVFPKTI---DTLKEQAK-------QHEKVILHEYEGMKKEVKATSIEVLEQ 64
Query: 267 EAQIAKIQYEQKVMEQESKQRV 288
K Q E+ +E+E+ Q++
Sbjct: 65 RLVSWKEQREKVAVEREALQKI 86
>gnl|CDD|217478 pfam03294, Pox_Rap94, RNA polymerase-associated transcription
specificity factor, Rap94.
Length = 796
Score = 27.8 bits (62), Expect = 7.8
Identities = 12/68 (17%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 135 IEVVNVLSVSSVYDIVKNYTADYDKALIFNKVHHELNQ--FCSIHNLHEVYIDLFDQIDE 192
+E ++ +I+ N D+ K +I N + L F S + L +++ +L ++
Sbjct: 238 LEETGKTYKNNFSEIINNSLLDWGKYIIPNLKNKHLYSYIFLSNYFLCDLFPELINEKSA 297
Query: 193 NLKTALQR 200
+
Sbjct: 298 VFYDLILS 305
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 27.5 bits (61), Expect = 8.8
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 233 EAEKTKLLISIQHQKVVE---KDAETERK-RAVIEAEKEAQIAKIQYEQKVMEQESKQRV 288
AE + +K E K AE E K +A EA+K+A AK + E + + +
Sbjct: 129 AAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAK 188
Query: 289 AKIE 292
AK E
Sbjct: 189 AKAE 192
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 27.4 bits (61), Expect = 9.0
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEK---EAQIAKIQYEQKV 279
+ R EL E E+T L + + ++ E+ E+K +E E E + A + E++
Sbjct: 20 DMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELEEENRRLEEEAAASEEERER 79
Query: 280 MEQESKQRVAKIE 292
+E E + A++
Sbjct: 80 LEAEVDEATAEVA 92
>gnl|CDD|224265 COG1346, LrgB, Putative effector of murein hydrolase [Cell
envelope biogenesis, outer membrane].
Length = 230
Score = 27.2 bits (61), Expect = 9.9
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 51 LLVGIVSLFSLLLVFNYSFHKIEEGHVGVYFRGGALLSTISGP 93
LLV V L + LL+F S+ Y +GG ++ + GP
Sbjct: 36 LLVATVLLIAFLLLFGISYE--------DYMKGGQWINFLLGP 70
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 27.6 bits (62), Expect = 10.0
Identities = 12/44 (27%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 250 EKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIEG 293
EKD ++ + +E E +A+++ E +E++ K A I+G
Sbjct: 427 EKDEASKERLEDLEKE----LAELEEEYADLEEQWKAEKAAIQG 466
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
0.319 0.135 0.371
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,683,048
Number of extensions: 1432762
Number of successful extensions: 2052
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1985
Number of HSP's successfully gapped: 140
Length of query: 293
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 197
Effective length of database: 6,679,618
Effective search space: 1315884746
Effective search space used: 1315884746
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.5 bits)