RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16696
(296 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 = 259 bits (665), Expect = 2e-87
Identities = 102/208 (49%), Positives = 136/208 (65%), Gaps = 5/208 (2%)
Query: 74 QAWVVERMGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGV 133
+ VVER+GKYHR L PGL+ +IP ID+I Y L+E +DVP Q IT DNVT+ +D V
Sbjct: 5 ERGVVERLGKYHRTLGPGLHFIIPFIDRIAYKVDLREQVLDVPPQEVITKDNVTVRVDAV 64
Query: 134 LYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRERESLNESIVHAINNA 193
LY ++ DP A YGVED +AI+QLAQTT+RS +GK+ LD++ ERE +N +V ++ A
Sbjct: 65 LYYRVVDPVKAVYGVEDYRYAISQLAQTTLRSVIGKMELDELLSEREEINAELVEILDEA 124
Query: 194 SEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADINVAEGKRQA 253
++ WG+ R EI+DI LP + EAM Q EAER+KRA I+E+EG R A I +AE +QA
Sbjct: 125 TDPWGVKVERVEIKDIILPQEIQEAMAKQAEAEREKRAKIIEAEGERQAAILLAEAAKQA 184
Query: 254 KILEAAKYLCKLLIKRAAILESEGIRAA 281
I AA L ++ LE AA
Sbjct: 185 AINPAA-----LQLRELETLEEIAKEAA 207
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 152 bits (386), Expect = 2e-44
Identities = 86/214 (40%), Positives = 126/214 (58%), Gaps = 6/214 (2%)
Query: 74 QAWVVERMGKYHRIL-EPGLNILIPI---IDKIKYVQSLKEIAIDV-PQQSAITSDNVTL 128
+ VV R G+Y R L EPGL+ IP I+++ L+E +DV P Q IT DNV +
Sbjct: 28 ERGVVLRFGRYTRTLGEPGLHFKIPFPEAIEEVVVRVDLRERTLDVGPPQEVITKDNVIV 87
Query: 129 SIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRERES-LNESIV 187
S+D V+ ++ DP A Y VE+ E A+ QL Q+ +RS +G+++LD++ ER + +N I
Sbjct: 88 SVDAVVQYRVTDPQKAVYNVENAEAALRQLVQSALRSVIGRMTLDELLTERRAEINAKIR 147
Query: 188 HAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADINVA 247
++ A++ WGI + EI+DI P V AM+ Q+ AER KRA ILE+EG A I A
Sbjct: 148 EILDEAADPWGIKVVDVEIKDIDPPEEVQAAMEKQMAAERDKRAEILEAEGEAQAAILRA 207
Query: 248 EGKRQAKILEAAKYLCKLLIKRAAILESEGIRAA 281
EG+ +A I+ A +I RA ++ I AA
Sbjct: 208 EGEAEAAIILAEAEAEAEVIARAEADAAKIIAAA 241
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 140 bits (354), Expect = 3e-41
Identities = 71/152 (46%), Positives = 100/152 (65%), Gaps = 3/152 (1%)
Query: 74 QAWVVERMGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGV 133
+ VVER+G+ R+L PGL+ LIP ID +K L+ DVP Q IT DNV +S+D V
Sbjct: 10 ERGVVERLGRVLRVLGPGLHFLIPFIDDVK-KVDLRAQTDDVPPQETITKDNVKVSVDAV 68
Query: 134 LYLKINDPYLASYGVEDPEFA-ITQLAQTTMRSELGKISLDKVFR-ERESLNESIVHAIN 191
+Y ++ DP A Y V D ++A I QLAQTT+RS +GK +LD++ +RE ++E+I +N
Sbjct: 69 VYYRVLDPLRAVYRVLDADYAVIEQLAQTTLRSVIGKRTLDELLTDQREKISENIREELN 128
Query: 192 NASEAWGITCLRYEIRDIKLPSRVNEAMQMQV 223
A+EAWGI EI+DI+LP + EAM+ Q
Sbjct: 129 EAAEAWGIKVEDVEIKDIRLPEEIKEAMEAQQ 160
>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 = 105 bits (264), Expect = 2e-28
Identities = 42/119 (35%), Positives = 69/119 (57%), Gaps = 2/119 (1%)
Query: 107 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDP--EFAITQLAQTTMR 164
L+ +DVP Q +T DNV + +D V+ ++ DP A Y V DP E A+ QLAQ+ +R
Sbjct: 3 DLRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVVDPVKALYNVRDPEDEEALRQLAQSALR 62
Query: 165 SELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQV 223
S +GK++LD++ +R+ + + A+ + +GI + I+DI P V EAM+ +
Sbjct: 63 SVIGKMTLDELLEDRDEIAAEVREALQEDLDKYGIEVVDVRIKDIDPPEEVQEAMEDRQ 121
>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 = 104 bits (262), Expect = 2e-27
Identities = 43/166 (25%), Positives = 82/166 (49%), Gaps = 5/166 (3%)
Query: 74 QAWVVERMGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDV-PQQSAITSDNVTLSIDG 132
+ VV R GK R+L PGL+ +P I I V + ++V + +T D V +++D
Sbjct: 7 EVGVVTRFGKVSRVLGPGLHFKLPFIQTITVV-DTRLQTLEVTVDITVLTKDGVPVNVDV 65
Query: 133 VLYLKINDP---YLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRERESLNESIVHA 189
+ ++ DP G ED + + L ++ +R + + +LD++ RE + + + A
Sbjct: 66 TVQYRVEDPAKLVANYTGEEDLQELLRPLVRSALREVIARYTLDELLSNREEIAQEVKEA 125
Query: 190 INNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILE 235
+ E +G+ +I DI P + EA++ + AE++ A +E
Sbjct: 126 LQEELEKYGLEIEDVQITDIDPPPEIAEAIEEKQAAEQEAEEAEIE 171
>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 = 84.4 bits (209), Expect = 3e-19
Identities = 54/206 (26%), Positives = 92/206 (44%), Gaps = 14/206 (6%)
Query: 77 VVERMGKYHRILEPGLNILIPIIDKIKYV--QSLKEIAIDVPQQSAITSDNVTLSIDGVL 134
VV R GKYHR ++PGLN P I+++ V +++ + +T D ++++ +
Sbjct: 11 VVLRFGKYHRTVDPGLNWKPPFIEEVYPVNVTAVRNLRKQGL---MLTGDENIVNVEMNV 67
Query: 135 YLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRE-RESLNESIVHAINNA 193
+I DPY + VE+PE ++ Q + +R +G ++D + E R + E +N
Sbjct: 68 QYRITDPYKYLFSVENPEDSLRQATDSALRGVIGDSTMDDILTEGRSQIREDTKERLNEI 127
Query: 194 SEAW--GITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADINVAEGKR 251
+ + GIT + + P V EA + A + I E+E + A G
Sbjct: 128 IDNYDLGITVTDVNFQSARPPEEVKEAFDDVIIAREDEERYINEAEAYANEVVPKARGDA 187
Query: 252 QAKILEAAKYLCKLLIKRAAILESEG 277
Q I EA Y K I ++G
Sbjct: 188 QRIIEEARGY------KERRINRAKG 207
>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 = 81.8 bits (203), Expect = 2e-18
Identities = 59/212 (27%), Positives = 102/212 (48%), Gaps = 15/212 (7%)
Query: 73 TQAWVVERMGK-YHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSID 131
+ VV R G+ + EPGL+ +P I ++K + + +D Q +T D L +D
Sbjct: 7 GEQAVVLRFGEVVRVVTEPGLHFKLPFIQQVKKF-DKRILTLDSDPQRVLTKDKKRLIVD 65
Query: 132 GVLYLKINDP--YLASYGVEDPEFAITQLAQ---TTMRSELGKISLDKVFR-ERESLNES 185
+I DP + + G + A T+L Q + +R+E GK +L ++ ER L E
Sbjct: 66 AYAKWRITDPLRFYQAVG-GEERAAETRLDQIVNSALRAEFGKRTLIELVSGERGELMEE 124
Query: 186 IVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADIN 245
I A+ ++ GI + I+ I LP V+E++ ++ AER++ AA +EG A+
Sbjct: 125 IRRAVAEEAKELGIEVVDVRIKRIDLPEEVSESVYRRMRAERERIAAEFRAEGEEEAERI 184
Query: 246 VAEGKRQAKILEAAKYLCKLLIKRAAILESEG 277
A+ R+ ++ A Y + A + EG
Sbjct: 185 RADADRERTVILAEAY------REAQEIRGEG 210
>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 = 75.9 bits (187), Expect = 4e-16
Identities = 48/185 (25%), Positives = 97/185 (52%), Gaps = 3/185 (1%)
Query: 74 QAWVVERMGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGV 133
Q ++ER GK+ ++ PG + +IP+++ + SL+ +DV + T DNV +++ G
Sbjct: 3 QVAIIERFGKFFKVAWPGCHFVIPLVETVAGRLSLRVQQLDV-RVETKTKDNVFVTVVGQ 61
Query: 134 LYLKI--NDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRERESLNESIVHAIN 191
+ ++ + A Y + +PE I +R+ + K++LD++F +++ + +++ +
Sbjct: 62 IQYRVSEENATDAFYKLGNPEEQIQSYVFDVLRARIPKLTLDELFEQKDEIAKAVEEELR 121
Query: 192 NASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADINVAEGKR 251
A +G + I DI + V AM A+R++ AA+ ++E + DI AE
Sbjct: 122 EAMSRYGFEIVATLITDIDPDAEVKRAMNEINAAQRQRVAAVHKAEAEKIKDIKAAEADA 181
Query: 252 QAKIL 256
+AK L
Sbjct: 182 EAKRL 186
>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 = 68.4 bits (168), Expect = 2e-13
Identities = 63/218 (28%), Positives = 103/218 (47%), Gaps = 25/218 (11%)
Query: 77 VVERMGKYHRILEPGLNILIP-IIDKIKYV----QSLKEIAIDVPQQSAITSDNVTLSID 131
VV R GKY R +EPGL+ +P I+ ++ V I + V ++ +++ L+ D
Sbjct: 25 VVLRFGKYSRTVEPGLHWKLPYPIEVVEVVPVFQLRSVGIPVRVGSVRSVPGESLMLTGD 84
Query: 132 G--------VLYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRE-RESL 182
V Y +I+DPY + V DPE + Q A++ MR +G+ +LD V E RE +
Sbjct: 85 ENIVDVEFAVQY-RISDPYDYLFNVRDPEGTLRQAAESAMREVVGRSTLDDVLTEGREEI 143
Query: 183 NESI---VHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGI 239
+ + + AI +A +A GI + ++D P V +A +A + + I E+E
Sbjct: 144 AQDVRELLQAILDAYKA-GIEIVGVNLQDADPPEEVQDAFDDVNKARQDRERLINEAEAY 202
Query: 240 RAADINVAEGKRQAKILEAAKYLCKLLIKRAAILESEG 277
+ A G+ I EA Y K I E++G
Sbjct: 203 ANEVVPKARGEAARIIQEAEAY------KEEVIAEAQG 234
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 49.8 bits (119), Expect = 8e-07
Identities = 51/233 (21%), Positives = 101/233 (43%), Gaps = 23/233 (9%)
Query: 86 RILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDP---- 141
+++ G I++PI I+ + SL I ++V + T D + L+++ V Y+KI D
Sbjct: 62 KVVRGGGAIVMPIFQTIERM-SLTTIKLEVEIDNVYTKDGMPLNVEAVAYVKIGDTFQDI 120
Query: 142 --YLASYGVEDPEFAITQLAQTT----MRSELGKISLDKVFRERESLNESIVHAINNASE 195
+G + + QLA+ T +R+ L +++++++ +R + + + +
Sbjct: 121 ATAAERFGGKGSREDLEQLAEDTLEGALRAVLAQMTVEELNEDRLGFAQVVQEVVGDDLS 180
Query: 196 AWGITCLRYEIRDIKLPSRVNEAMQMQVEA-------ERKKRAAILESEGIRAADINVAE 248
G+ I DI S+ N+ ++A + + A I E+E + +I +AE
Sbjct: 181 KMGLVLDSLAINDINDTSKENQDPNNYLDALGRRRIAQVLQDAEIAENEAEKETEIAIAE 240
Query: 249 GKRQAKILEAAKYLCKLLIKRAAILESEGIRAA-----DINVAEGKRQAKILE 296
R AK++E E + I A AE +R+A+ E
Sbjct: 241 ANRDAKLVELEVEQQPAGKTAEQTREVKIILAETEAEVAAWKAETRREAEQAE 293
>gnl|CDD|236799 PRK10930, PRK10930, FtsH protease regulator HflK; Provisional.
Length = 419
Score = 49.1 bits (117), Expect = 1e-06
Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 35/230 (15%)
Query: 77 VVERMGKYHRILEPGLNILIPIIDKIK--YVQSLKEIAIDVPQQSAITSDNVTLSIDGVL 134
VV R GK+ ++EPGLN ID++K V++++E+A +TSD + ++ +
Sbjct: 107 VVTRFGKFSHLVEPGLNWKPTFIDEVKPVNVEAVRELA---ASGVMLTSDENVVRVEMNV 163
Query: 135 YLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRE---------RESLNES 185
++ DP + V P+ ++ Q + +R +GK ++D++ E + L E+
Sbjct: 164 QYRVTDPEKYLFSVTSPDDSLRQATDSALRGVIGKYTMDRILTEGRTVIRSDTQRELEET 223
Query: 186 IVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADIN 245
I GIT L + + P V A + A ++ I E+E
Sbjct: 224 I------RPYDMGITLLDVNFQAARPPEEVKAAFDDAIAARENEQQYIREAEAYTNEVQP 277
Query: 246 VAEGKRQAKILEAAKYLCKLLIKRAAILESEGIRAADINVAEGKRQAKIL 295
A G+ Q +ILE A+ K ILE++G E R AK+L
Sbjct: 278 RANGQAQ-RILEEAR-----AYKAQTILEAQG---------EVARFAKLL 312
>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
Length = 334
Score = 49.0 bits (117), Expect = 1e-06
Identities = 63/253 (24%), Positives = 107/253 (42%), Gaps = 70/253 (27%)
Query: 77 VVERMGKYHR-------ILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLS 129
+V R GK R + PGL+ IP I+ +K + + + +D +T + L
Sbjct: 30 IVLRFGKVLRDDDNKPLVYAPGLHFKIPFIETVKMLDA-RIQTMDNQADRFVTKEKKDLI 88
Query: 130 IDGVLYLKIND---PYLASYG--VEDPEFAITQLAQTTMRSELGKISLDKVFRE------ 178
+D + +I+D YLA+ G + E + + +RSE+G++ + + +
Sbjct: 89 VDSYIKWRISDFSRYYLATGGGDISQAEVLLKRKFSDRLRSEIGRLDVKDIVTDSRGRLT 148
Query: 179 ---RESLNESIV------------HAINNASE-------------------AWGITCLRY 204
R++LN AI +A+E A GI +
Sbjct: 149 LDVRDALNSGSAGTEDEVATPAADDAIASAAERVEAETKGKVPVINPNSMAALGIEVVDV 208
Query: 205 EIRDIKLPSRVNEAMQMQVEAERKKRA------AILESEGIRA-ADINV----AEGKRQA 253
I+ I LP+ V++A+ ++ AER+ A E+E +RA AD V AE +RQ
Sbjct: 209 RIKQINLPTEVSDAIYNRMRAEREAVARRHRSQGQEEAEKLRATADYEVTRTLAEAERQG 268
Query: 254 KIL------EAAK 260
+I+ EAAK
Sbjct: 269 RIMRGEGDAEAAK 281
>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 = 47.5 bits (113), Expect = 4e-06
Identities = 51/232 (21%), Positives = 88/232 (37%), Gaps = 44/232 (18%)
Query: 86 RILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIND--PYL 143
+ EPGL+ IP I+ +K + K +D T + + ID + +I D Y
Sbjct: 46 LVYEPGLHFKIPFIEHVKIFDA-KIQTMDGRPDRIPTKEKKDIIIDTYIRWRIEDFKKYY 104
Query: 144 ASYGVEDPEFAITQLAQ---TTMRSELGKISLDKVFRE---------------------- 178
S G A + + +RSE+G + L ++ R
Sbjct: 105 LSTGGGTISAAEVLIKRKIDDRLRSEIGVLGLKEIVRSSNDQLDTLVSKLALNRGGKINK 164
Query: 179 --------RESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKR 230
RE L I N+ + GI + I+ I ++E++ ++ +ER++
Sbjct: 165 IAMTITKGREILAREISQIANSQLKDIGIEVVDVRIKKINYSDELSESIYNRMRSEREQI 224
Query: 231 AAILESEGI-RAADINVAEGKRQAKILEAAKYLCKLLIKRAAILESEGIRAA 281
A + S+G +A +I KIL A + A I++ EG A
Sbjct: 225 ARMHRSQGEEKAEEILGKAEYEVRKILSEAY-------RTARIIKGEGDAEA 269
>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 = 34.8 bits (81), Expect = 0.014
Identities = 21/113 (18%), Positives = 52/113 (46%), Gaps = 9/113 (7%)
Query: 107 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKIN--DPYLASYG---VEDPEFAITQLAQT 161
SL + + V ++ IT D V + + V +K+ + +A+ + E I +L +
Sbjct: 3 SLTSMVLRVGSEAVITRDGVRVDVTAVFQVKVGGTEEAIATAAERFLGKSEEEIEELVKE 62
Query: 162 TM----RSELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIK 210
+ R+ +G +++++++ +R+ E + + G+ + I+DI
Sbjct: 63 VLEGHLRAVVGTMTVEEIYEDRDKFAEQVQEVVAPDLNKMGLELDSFTIKDIT 115
>gnl|CDD|173721 cd05632, STKc_GRK5, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 5. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK5
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK5 is widely expressed in many tissues.
It associates with the membrane though an N-terminal
PIP2 binding domain and also binds phospholipids via its
C-terminus. GRK5 deficiency is associated with early
Alzheimer's disease in humans and mouse models. GRK5
also plays a crucial role in the pathogenesis of
sporadic Parkinson's disease. It participates in the
regulation and desensitization of PDGFRbeta, a receptor
tyrosine kinase involved in a variety of downstream
cellular effects including cell growth, chemotaxis,
apoptosis, and angiogenesis. GRK5 also regulates
Toll-like receptor 4, which is involved in innate and
adaptive immunity.
Length = 285
Score = 31.1 bits (70), Expect = 0.62
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 15/73 (20%)
Query: 197 WGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAILESEGIRAADINVAEGKRQAKIL 256
WG+ CL YE+ + + P R + + E +R+ +LE+E + + AK
Sbjct: 185 WGLGCLIYEMIEGQSPFRGRKEKVKREEVDRR----VLETEEVYS-----------AKFS 229
Query: 257 EAAKYLCKLLIKR 269
E AK +CK+L+ +
Sbjct: 230 EEAKSICKMLLTK 242
>gnl|CDD|205599 pfam13421, Band_7_1, SPFH domain-Band 7 family.
Length = 211
Score = 30.3 bits (69), Expect = 0.93
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 182 LNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAM 219
L E + IN +G+ + I +I LP V +A+
Sbjct: 166 LGELLRENINPEFAEYGLELTEFYIENISLPEEVEKAL 203
>gnl|CDD|236032 PRK07495, PRK07495, 4-aminobutyrate aminotransferase; Provisional.
Length = 425
Score = 30.5 bits (69), Expect = 1.1
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 11/61 (18%)
Query: 211 LPSRVNEA------MQMQVEAERKKRAAILESEGIR----AADINVAE-GKRQAKILEAA 259
L R N A M Q+ A+R + A I + EG R AA I V G R +++ A
Sbjct: 6 LTDRRNAAISRGVGMTTQIYADRAENAEIWDKEGRRYIDFAAGIAVVNTGHRHPRVIAAV 65
Query: 260 K 260
K
Sbjct: 66 K 66
>gnl|CDD|241212 cd12768, RRM2_SRSF9, RNA recognition motif 2 in vertebrate
serine/arginine-rich splicing factor 9 (SRSF9). This
subgroup corresponds to the RRM2 of SRSF9, also termed
pre-mRNA-splicing factor SRp30C, an essential splicing
regulatory serine/arginine (SR) protein that has been
implicated in the activity of many elements that control
splice site selection, the alternative splicing of the
glucocorticoid receptor beta in neutrophils and in the
gonadotropin-releasing hormone pre-mRNA. SRSF9 can also
interact with other proteins implicated in alternative
splicing, including YB-1, rSLM-1, rSLM-2, E4-ORF4,
Nop30, and p32. SRSF9 contains two N-terminal RNA
recognition motifs (RRMs), also termed RBDs (RNA binding
domains) or RNPs (ribonucleoprotein domains), followed
by an unusually short C-terminal RS domains rich in
serine-arginine dipeptides. .
Length = 76
Score = 27.3 bits (60), Expect = 2.3
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 149 EDPEFAITQLAQTTMRSELGKISLDKVFRER 179
ED E+A+ +L T RS G+ S +V ER
Sbjct: 46 EDMEYALRKLDDTKFRSHEGETSYIRVMPER 76
>gnl|CDD|182567 PRK10581, PRK10581, geranyltranstransferase; Provisional.
Length = 299
Score = 29.4 bits (66), Expect = 2.4
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 9 ALLSVAEARAKSLDLVAKALETKDGRSAASLSIA 42
ALL + +AR K+ DL+ A ++ D +A SL +
Sbjct: 252 ALLGLEQARKKARDLIDDARQSLDQLAAQSLDTS 285
>gnl|CDD|239496 cd03402, Band_7_2, 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 = 219
Score = 28.1 bits (63), Expect = 4.5
Identities = 22/121 (18%), Positives = 48/121 (39%), Gaps = 4/121 (3%)
Query: 74 QAWVVERMGKYH-RILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDG 132
QA V+ G+Y I GL + P K + SL+ + + ++ + I
Sbjct: 9 QARVLVLFGRYIGTIRRTGLRWVNPFSSKKRV--SLRVRNFESEKLKVNDANGNPIEIAA 66
Query: 133 VLYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVFRERESLNESIVHAINN 192
V+ ++ D A + V+D E + +++ +R + D +E+ +++
Sbjct: 67 VIVWRVVDTAKAVFNVDDYEEFVHIQSESALRHVASQYPYDD-PVNKETSLRGNSDEVSD 125
Query: 193 A 193
Sbjct: 126 E 126
>gnl|CDD|238221 cd00375, Urease_alpha, Urease alpha-subunit; Urease is a
nickel-dependent metalloenzyme that catalyzes the
hydrolysis of urea to form ammonia and carbon dioxide.
Nickel-dependent ureases are found in bacteria, fungi
and plants. Their primary role is to allow the use of
external and internally generated urea as a nitrogen
source. The enzyme consists of 3 subunits, alpha, beta
and gamma, which can be fused and present on a single
protein chain and which in turn forms multimers, mainly
trimers. The large alpha subunit is the catalytic domain
containing an active site with a bi-nickel center
complexed by a carbamylated lysine. The beta and gamma
subunits play a role in subunit association to form the
higher order trimers.
Length = 567
Score = 27.7 bits (62), Expect = 9.1
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 263 CKLLIKRAAILESEGIRAADINVAEGK 289
L+I A I++ GI ADI + +G+
Sbjct: 65 LDLVITNALIIDYTGIYKADIGIKDGR 91
>gnl|CDD|173759 cd08219, STKc_Nek3, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 3. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 3 (Nek3) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek3 subfamily is
one of a family of 11 different Neks (Nek1-11) that are
involved in cell cycle control. The Nek family is part
of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. Nek3 is primarily
localized in the cytoplasm and shows no cell
cycle-dependent changes in its activity. It is present
in the axons of neurons and affects morphogenesis and
polarity through its regulation of microtubule
acetylation. Nek3 modulates the signaling of the
prolactin receptor through its activation of Vav2 and
contributes to prolactin-mediated motility of breast
cancer cells.
Length = 255
Score = 27.2 bits (60), Expect = 9.9
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 191 NNASEAWGITCLRYEIRDIKLPSRVN 216
NN S+ W + C+ YE+ +K P + N
Sbjct: 178 NNKSDIWSLGCILYELCTLKHPFQAN 203
>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 = 26.5 bits (59), Expect = 9.9
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 122 TSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQT 161
T +V+L GV + ++ +L G E + QL T
Sbjct: 54 TKLSVSLKDGGVATVDLSSEFLDGGGSAAEELLLAQLVLT 93
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 0.130 0.346
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: 14,653,711
Number of extensions: 1419019
Number of successful extensions: 1555
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1521
Number of HSP's successfully gapped: 41
Length of query: 296
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 200
Effective length of database: 6,679,618
Effective search space: 1335923600
Effective search space used: 1335923600
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: 59 (26.5 bits)