RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2921
(305 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 = 297 bits (762), Expect = e-102
Identities = 127/196 (64%), Positives = 156/196 (79%), Gaps = 5/196 (2%)
Query: 1 DGGHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVITGSKGGSEMDT 60
DGGHRAV+F+R G+K+ V GEG HF +PW Q+P+IFD+R+RPRN+ TGSK ++
Sbjct: 6 DGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNIESTTGSK---DLQM 62
Query: 61 VVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELITQREL 120
V + +LF+ ++QLP+I+ LG DYDERVLPSI EVLKAVVAQF A ELITQRE
Sbjct: 63 VNITLRVLFR--PDASQLPRIYQNLGEDYDERVLPSIINEVLKAVVAQFTAEELITQREE 120
Query: 121 VSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQ 180
VS + E LTERAK FG+ILDD+SITHLTF KEFT+AVE KQVAQQEAE+A+F+VEKAEQ
Sbjct: 121 VSALIREALTERAKDFGIILDDVSITHLTFSKEFTKAVEAKQVAQQEAERAKFVVEKAEQ 180
Query: 181 SKQAAIISAEGDAQAA 196
KQAA+I AEG+A+AA
Sbjct: 181 EKQAAVIRAEGEAEAA 196
Score = 97.3 bits (243), Expect = 2e-24
Identities = 33/53 (62%), Positives = 43/53 (81%)
Query: 253 DGGHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVITGSK 305
DGGHRAV+F+R G+K+ V GEG HF +PW Q+P+IFD+R+RPRN+ TGSK
Sbjct: 6 DGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNIESTTGSK 58
>gnl|CDD|214581 smart00244, PHB, prohibitin homologues. prohibitin homologues.
Length = 160
Score = 100 bits (251), Expect = 5e-26
Identities = 38/163 (23%), Positives = 81/163 (49%), Gaps = 9/163 (5%)
Query: 1 DGGHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVITGSKGGSEMDT 60
G + +R + V+G G HF +P++ D+R++ +VP + +
Sbjct: 6 VGEGERGVVERLGRV-LRVLGPGLHFLIPFIDDVKKVDLRAQTDDVPPQETITKDNVKVS 64
Query: 61 VVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELIT-QRE 119
V + ++ + + L ++ +L D D V+ + L++V+ + EL+T QRE
Sbjct: 65 VDA--VVYYR---VLDPLRAVYRVL--DADYAVIEQLAQTTLRSVIGKRTLDELLTDQRE 117
Query: 120 LVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQ 162
+S+ + E+L E A+ +G+ ++D+ I + +E +A+E +Q
Sbjct: 118 KISENIREELNEAAEAWGIKVEDVEIKDIRLPEEIKEAMEAQQ 160
Score = 41.9 bits (99), Expect = 9e-05
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 253 DGGHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVIT 302
G + +R + V+G G HF +P++ D+R++ +VP
Sbjct: 6 VGEGERGVVERLGRV-LRVLGPGLHFLIPFIDDVKKVDLRAQTDDVPPQE 54
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 95.6 bits (238), Expect = 5e-23
Identities = 59/273 (21%), Positives = 113/273 (41%), Gaps = 36/273 (13%)
Query: 1 DGGHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPR--------NVPVITGS 52
+ F R+T G HF +P+ + +R R VIT
Sbjct: 27 GERGVVLRFGRYTRTLGE---PGLHFKIPFPEAIEEVVVRVDLRERTLDVGPPQEVITKD 83
Query: 53 KGGSEMDTVVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDAS 112
+D VV + +++ +++ V+ E L + L++V+ +
Sbjct: 84 NVIVSVDAVV--------QYRVTDPQKAVYN---VENAEAALRQLVQSALRSVIGRMTLD 132
Query: 113 ELITQREL-VSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKA 171
EL+T+R ++ K+ E L E A +G+ + D+ I + +E A+E + A+++
Sbjct: 133 ELLTERRAEINAKIREILDEAADPWGIKVVDVEIKDIDPPEEVQAAMEKQMAAERDKRAE 192
Query: 172 RFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAAESIAYQLSRSRQ 231
+ +AE QAAI+ AEG+A+AA +++++ EA I AE+ A ++ +
Sbjct: 193 ---ILEAEGEAQAAILRAEGEAEAAIILAEAEAEA-------EVIARAEADAAKI-IAAA 241
Query: 232 VSYLPSGNNILFNRSY--TSNEMDGGHRAVIFD 262
+ P+ L R G+ V+
Sbjct: 242 LREAPAAPQALAQRYLEELLEIALAGNSKVVVV 274
>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 = 89.7 bits (223), Expect = 8e-22
Identities = 51/179 (28%), Positives = 95/179 (53%), Gaps = 10/179 (5%)
Query: 3 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVI--TGSKGGSEMDT 60
G V+ RF G + V+G G HF +P++Q + D R + V V +K G ++
Sbjct: 6 GEVGVVT-RF-GKVSRVLGPGLHFKLPFIQTITVVDTRLQTLEVTVDITVLTKDGVPVNV 63
Query: 61 VVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELITQREL 120
V T+ ++ + + + + G + + +L + L+ V+A++ EL++ RE
Sbjct: 64 DV---TVQYR---VEDPAKLVANYTGEEDLQELLRPLVRSALREVIARYTLDELLSNREE 117
Query: 121 VSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAE 179
++Q+V E L E +++G+ ++D+ IT + E +A+E KQ A+QEAE+A +AE
Sbjct: 118 IAQEVKEALQEELEKYGLEIEDVQITDIDPPPEIAEAIEEKQAAEQEAEEAEIERAEAE 176
Score = 32.7 bits (75), Expect = 0.13
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 255 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSRPRNVPVI 301
G V+ RF G + V+G G HF +P++Q + D R + V V
Sbjct: 6 GEVGVVT-RF-GKVSRVLGPGLHFKLPFIQTITVVDTRLQTLEVTVD 50
>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 = 70.1 bits (172), Expect = 4e-15
Identities = 24/128 (18%), Positives = 56/128 (43%), Gaps = 7/128 (5%)
Query: 35 VIFDIRSRPRNVPVITGSKGGSEMDTVVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVL 94
I R P +K V + + ++ + + + +++ + DE L
Sbjct: 1 RIDLRRQTLDVPPQEVLTKDNV---PVRVDAVVQYR---VVDPVKALYN-VRDPEDEEAL 53
Query: 95 PSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEF 154
+ L++V+ + EL+ R+ ++ +V E L E ++G+ + D+ I + +E
Sbjct: 54 RQLAQSALRSVIGKMTLDELLEDRDEIAAEVREALQEDLDKYGIEVVDVRIKDIDPPEEV 113
Query: 155 TQAVELKQ 162
+A+E +Q
Sbjct: 114 QEAMEDRQ 121
>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 = 69.9 bits (172), Expect = 5e-14
Identities = 56/227 (24%), Positives = 100/227 (44%), Gaps = 39/227 (17%)
Query: 3 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIRSR---PRNVPVITGSKGGSEMD 59
G +AV+ RF + V G HF +P++Q+ FD R V+T K +D
Sbjct: 7 GEQAVVL-RFGEVVRVVTEPGLHFKLPFIQQVKKFDKRILTLDSDPQRVLTKDKKRLIVD 65
Query: 60 TVVLIPTLLFKKGSISNQLPKIFSMLGVDYDERV----LPSITTEVLKAVVAQFDASELI 115
K I++ P F V +ER L I L+A + EL+
Sbjct: 66 AYA--------KWRITD--PLRF-YQAVGGEERAAETRLDQIVNSALRAEFGKRTLIELV 114
Query: 116 -TQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAV------ELKQVAQQ-- 166
+R + +++ + E AK G+ + D+ I + +E +++V E +++A +
Sbjct: 115 SGERGELMEEIRRAVAEEAKELGIEVVDVRIKRIDLPEEVSESVYRRMRAERERIAAEFR 174
Query: 167 -----EAEKARFLVEK------AEQSKQAAIISAEGDAQAAQLISKS 202
EAE+ R ++ AE ++A I EGDA+AA++ +++
Sbjct: 175 AEGEEEAERIRADADRERTVILAEAYREAQEIRGEGDAEAARIYAEA 221
Score = 31.4 bits (72), Expect = 0.51
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 255 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVIFDIR-----SRPRNVP 299
G +AV+ RF + V G HF +P++Q+ FD R S P+ V
Sbjct: 7 GEQAVVL-RFGEVVRVVTEPGLHFKLPFIQQVKKFDKRILTLDSDPQRVL 55
>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 = 65.2 bits (160), Expect = 1e-12
Identities = 63/229 (27%), Positives = 111/229 (48%), Gaps = 37/229 (16%)
Query: 3 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVI-FDIRSRPRNVP---VITGSKGGSEM 58
R V+ R G + +G G HF +P++ R D+R + +VP VIT K
Sbjct: 4 YERGVVE-RL-GKYHRTLGPGLHFIIPFIDRIAYKVDLREQVLDVPPQEVIT--K----- 54
Query: 59 DTVVL-IPTLLFKKGSISNQLPKIFSMLGV-DYDERVLPSITTEVLKAVVAQFDASELIT 116
D V + + +L+ + + + P GV DY + T L++V+ + + EL++
Sbjct: 55 DNVTVRVDAVLYYR--VVD--PVKAV-YGVEDYRYAISQLAQTT-LRSVIGKMELDELLS 108
Query: 117 QRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVE 176
+RE ++ ++ E L E +GV ++ + I + +E +A+ KQ
Sbjct: 109 EREEINAELVEILDEATDPWGVKVERVEIKDIILPQEIQEAMA-KQA------------- 154
Query: 177 KAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLV--ELRRIEAAESIA 223
+AE+ K+A II AEG+ QAA L++++ +A +LR +E E IA
Sbjct: 155 EAEREKRAKIIEAEGERQAAILLAEAAKQAAINPAALQLRELETLEEIA 203
Score = 31.7 bits (73), Expect = 0.33
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 255 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVI-FDIRSRPRNVP---VIT 302
R V+ R G + +G G HF +P++ R D+R + +VP VIT
Sbjct: 4 YERGVVE-RL-GKYHRTLGPGLHFIIPFIDRIAYKVDLREQVLDVPPQEVIT 53
>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 = 51.6 bits (124), Expect = 1e-07
Identities = 35/115 (30%), Positives = 55/115 (47%), Gaps = 10/115 (8%)
Query: 101 VLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVEL 160
VL+A + + EL Q++ +++ V E+L E R+G + IT + E +A+
Sbjct: 92 VLRARIPKLTLDELFEQKDEIAKAVEEELREAMSRYGFEIVATLITDIDPDAEVKRAMNE 151
Query: 161 KQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRR 215
AQ++ A V KAE K I +AE DA+A +L G G E R+
Sbjct: 152 INAAQRQRVAA---VHKAEAEKIKDIKAAEADAEAKRL-------QGVGAAEQRQ 196
>gnl|CDD|239494 cd03400, Band_7_1, 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 = 124
Score = 42.4 bits (100), Expect = 3e-05
Identities = 18/88 (20%), Positives = 45/88 (51%), Gaps = 1/88 (1%)
Query: 76 NQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELI-TQRELVSQKVNEDLTERAK 134
N+ + S LG DY +++ +++ V ++ A ++ T+R+ + + ++L E
Sbjct: 37 NKAAAVHSKLGTDYARKIVRPTFRSLVREVTGRYTAEQIYSTKRKEIESAIKKELIEEFV 96
Query: 135 RFGVILDDISITHLTFGKEFTQAVELKQ 162
G+IL+++ + ++ + A+E K
Sbjct: 97 GDGLILEEVLLRNIKLPDQIADAIEAKL 124
>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 = 39.0 bits (91), Expect = 0.002
Identities = 29/131 (22%), Positives = 62/131 (47%), Gaps = 19/131 (14%)
Query: 111 ASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAV------ELKQVA 164
A + RE++++++++ + K G+ + D+ I + + E ++++ E +Q+A
Sbjct: 166 AMTITKGREILAREISQIANSQLKDIGIEVVDVRIKKINYSDELSESIYNRMRSEREQIA 225
Query: 165 QQ-------EAEKARFLVEK------AEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLV 211
+ +AE+ E +E + A II EGDA+AA++ S + + +
Sbjct: 226 RMHRSQGEEKAEEILGKAEYEVRKILSEAYRTARIIKGEGDAEAAKIYSDAYGKDPEFYS 285
Query: 212 ELRRIEAAESI 222
R +EA E
Sbjct: 286 FWRSLEAYEKS 296
>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 = 38.6 bits (90), Expect = 0.002
Identities = 58/254 (22%), Positives = 105/254 (41%), Gaps = 51/254 (20%)
Query: 3 GHRAVIFDRFTGIKNAVVGEGTHFFVPWVQ--RPVIFDIRS-RPRNVPVITGSKGGSEMD 59
GH V + R + + G G H +P++ + V +++ +NVP G+ GG
Sbjct: 11 GHVGVYY-RGGALLTSTSGPGFHLMLPFITTYKSVQVTLQTDEVKNVPC--GTSGG---- 63
Query: 60 TVVLIPTLLFKKGSISNQLPK--IFSML---GVDYDER-VLPSITTEVLKAVVAQFDAS- 112
V+I F + + N L ++ ++ DYD+ + I E+ QF +
Sbjct: 64 --VMI---YFDRIEVVNFLIPDSVYDIVKNYTADYDKTLIFNKIHHEL-----NQFCSVH 113
Query: 113 -------ELITQ-RELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVA 164
+L Q E + + +DLT A G+ + + +T + + EL
Sbjct: 114 TLQEVYIDLFDQIDENLKLALQKDLTRMAP--GLEIQAVRVTKPKIPEAIRRNYEL---- 167
Query: 165 QQEAEKARFL--------VEK-AEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRR 215
EAEK + L VEK AE ++ A+I AE AQ A+++ + +
Sbjct: 168 -MEAEKTKLLIAIQKQKVVEKEAETERKKAVIEAEKVAQVAKILFGQKVMEKETEKRISE 226
Query: 216 IEAAESIAYQLSRS 229
IE +A + +++
Sbjct: 227 IEDEAFLAREKAKA 240
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 38.3 bits (89), Expect = 0.004
Identities = 36/189 (19%), Positives = 65/189 (34%), Gaps = 18/189 (9%)
Query: 19 VVGEGTHFFVPWVQRPVIFDIRSRPRNVPVITG-SKGGSEMDTVVLIPTLLFKKGSISNQ 77
VV G +P Q + + V + +K G ++ K G
Sbjct: 63 VVRGGGAIVMPIFQTIERMSLTTIKLEVEIDNVYTKDGMPLNVEA---VAYVKIGDTFQD 119
Query: 78 LPKIFSMLGVDYD----ERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERA 133
+ G E++ L+AV+AQ EL R +Q V E + +
Sbjct: 120 IATAAERFGGKGSREDLEQLAEDTLEGALRAVLAQMTVEELNEDRLGFAQVVQEVVGDDL 179
Query: 134 KRFGVILDDISIT-------HLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAI 186
+ G++LD ++I + A+ +++AQ + + E K+ I
Sbjct: 180 SKMGLVLDSLAINDINDTSKENQDPNNYLDALGRRRIAQ---VLQDAEIAENEAEKETEI 236
Query: 187 ISAEGDAQA 195
AE + A
Sbjct: 237 AIAEANRDA 245
>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
Length = 334
Score = 37.8 bits (88), Expect = 0.005
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 6/63 (9%)
Query: 165 QQEAEKARFLVEK------AEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEA 218
Q+EAEK R + AE +Q I+ EGDA+AA+L + + ++ D +R + A
Sbjct: 243 QEEAEKLRATADYEVTRTLAEAERQGRIMRGEGDAEAAKLFADAFSQDPDFYAFIRSLRA 302
Query: 219 AES 221
E+
Sbjct: 303 YEN 305
>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 = 35.6 bits (83), Expect = 0.022
Identities = 55/236 (23%), Positives = 88/236 (37%), Gaps = 42/236 (17%)
Query: 5 RAVIFDRFTGIKNAVVGEGTHFFVPWVQRPVI------FDIRSRPRNVPVITGSKGGSEM 58
R V+ RF G + V G H+ +P+ V P V + G S M
Sbjct: 23 RGVVL-RF-GKYSRTVEPGLHWKLPYPIEVVEVVPVFQLRSVGIPVRVGSVRSVPGESLM 80
Query: 59 DT----VVLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASEL 114
T +V + + + IS+ P + + V E L ++ VV + ++
Sbjct: 81 LTGDENIVDVEFAVQYR--ISD--PYDY-LFNVRDPEGTLRQAAESAMREVVGRSTLDDV 135
Query: 115 IT-QRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARF 173
+T RE ++Q V E L + I I V L+ E + F
Sbjct: 136 LTEGREEIAQDVRELLQAILDAYKA---GIEI----------VGVNLQDADPPEEVQDAF 182
Query: 174 L-VEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAAESIAYQLSR 228
V KA Q ++ I E +A A +++ K+ EA R I+ AE AY+
Sbjct: 183 DDVNKARQDRERLI--NEAEAYANEVVPKARGEA------ARIIQEAE--AYKEEV 228
>gnl|CDD|216597 pfam01601, Corona_S2, Coronavirus S2 glycoprotein. The coronavirus
spike glycoprotein forms the characteristic 'corona'
after which the group is named. The Spike glycoprotein
is translated as a large polypeptide that is
subsequently cleaved to S1 pfam01600 and S2.
Length = 609
Score = 35.0 bits (81), Expect = 0.051
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 5/71 (7%)
Query: 72 GSISNQLPKIFSML-GVDYDERVLPSITTE--VLKAVVAQ--FDASELITQRELVSQKVN 126
G+IS+ + I+S L ++ D +V IT L A V+Q +E+ R+L QKVN
Sbjct: 301 GAISSSIQDIYSRLDALEADAQVDRLITGRLTALNAYVSQQLTRYTEVRASRQLAQQKVN 360
Query: 127 EDLTERAKRFG 137
E + ++KR+G
Sbjct: 361 ECVKSQSKRYG 371
>gnl|CDD|180481 PRK06231, PRK06231, F0F1 ATP synthase subunit B; Validated.
Length = 205
Score = 33.3 bits (76), Expect = 0.098
Identities = 28/107 (26%), Positives = 44/107 (41%), Gaps = 9/107 (8%)
Query: 152 KEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQL---ISKSLTEAGD 208
E QA ELKQ AQQ E A+ E A QA I + + +A QL + K +
Sbjct: 86 AEINQANELKQQAQQLLENAKQRHENALA--QAKEIIDQANYEALQLKSELEKEANRQAN 143
Query: 209 GLVELRRIEAAE---SIAYQL-SRSRQVSYLPSGNNILFNRSYTSNE 251
++ R E + + QL S +++ L + I ++
Sbjct: 144 LIIFQARQEIEKERRELKEQLQKESVELAMLAAEELIKKKVDREDDD 190
>gnl|CDD|220979 pfam11101, DUF2884, Protein of unknown function (DUF2884). Some
members in this bacterial family of proteins are
annotated as YggN which currently has no known function.
Length = 228
Score = 33.1 bits (76), Expect = 0.12
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 12/98 (12%)
Query: 73 SISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASE----LITQRELVSQKVNED 128
+ QLP++ + E V + + L V S L T + + +V++
Sbjct: 57 GLRAQLPEVAQLA----SEGV--ELANDALDEVATGLLGSAARAKLTTLMDELKARVDDS 110
Query: 129 LTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQ 166
+ F + S TF +EF QA+E Q+ QQ
Sbjct: 111 FYKGGDGFVLGAQAFSSLDDTFDEEFEQAIE--QLVQQ 146
>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 = 32.8 bits (75), Expect = 0.17
Identities = 56/265 (21%), Positives = 111/265 (41%), Gaps = 42/265 (15%)
Query: 5 RAVIFDRFTGIKNAVVGEGTHFFVPWVQR--PV-IFDIRSRPRNVPVITGSKGGSEMDTV 61
R V+ RF G + V G ++ P+++ PV + +R+ + ++TG + +
Sbjct: 9 RGVVL-RF-GKYHRTVDPGLNWKPPFIEEVYPVNVTAVRNLRKQGLMLTGD------ENI 60
Query: 62 VLIPTLLFKKGSISNQLPKIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELITQ-REL 120
V + + + I++ P + + V+ E L T L+ V+ +++T+ R
Sbjct: 61 VNVEMNVQYR--ITD--PYKY-LFSVENPEDSLRQATDSALRGVIGDSTMDDILTEGRSQ 115
Query: 121 VSQKVNEDLTE--RAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQ-------EAEK- 170
+ + E L E G+ + D++ +E +A + +A++ EAE
Sbjct: 116 IREDTKERLNEIIDNYDLGITVTDVNFQSARPPEEVKEAFDDVIIAREDEERYINEAEAY 175
Query: 171 -----------ARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAA 219
A+ ++E+A K+ I A+GD + +A D E +E
Sbjct: 176 ANEVVPKARGDAQRIIEEARGYKERRINRAKGDVARFTKLLAEYKKAPDVTRERLYLETM 235
Query: 220 ESIAYQLSRSRQVSYLP-SGNNILF 243
E + LS +R+V GNN+L+
Sbjct: 236 EKV---LSNTRKVLLDDKKGNNLLY 257
>gnl|CDD|218434 pfam05103, DivIVA, DivIVA protein. The Bacillus subtilis divIVA1
mutation causes misplacement of the septum during cell
division, resulting in the formation of small, circular,
anucleate mini-cells. Inactivation of divIVA produces a
mini-cell phenotype, whereas overproduction of DivIVA
results in a filamentation phenotype. These proteins
appear to contain coiled-coils.
Length = 131
Score = 31.5 bits (72), Expect = 0.19
Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 22/101 (21%)
Query: 123 QKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQSK 182
++ E L E+ + + + + + T + VAQ+ AE+ KA K
Sbjct: 45 KEEIERLEEKLEEYKELEETLQKTLV--------------VAQETAEEV-----KANAQK 85
Query: 183 QAAIISAEGDAQAAQLISKSLTEAGDGLVE---LRRIEAAE 220
+A +I E +A+A ++++ + EA E L+R
Sbjct: 86 EAELIIKEAEAKAERIVNDANEEAKKLATEYDELKRQSRLF 126
>gnl|CDD|235884 PRK06917, PRK06917, hypothetical protein; Provisional.
Length = 447
Score = 32.4 bits (74), Expect = 0.29
Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 7/87 (8%)
Query: 113 ELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKAR 172
L + + + + L + ++ +I D+ L G EF + KQ + A
Sbjct: 325 NLPEKAAEKGEYLIKGLQKVQQQSTII-GDVRGKGLLIGVEFVADKKTKQPFSKSQAVAS 383
Query: 173 FLVEKAEQS------KQAAIISAEGDA 193
L+ A ++ A EGDA
Sbjct: 384 ELISVAAKNGLLLYPAVAGQDGKEGDA 410
>gnl|CDD|191602 pfam06752, E_Pc_C, Enhancer of Polycomb C-terminus. This family
represents the C-terminus of eukaryotic enhancer of
polycomb proteins, which have roles in heterochromatin
formation. This family contains several conserved
motifs.
Length = 230
Score = 31.9 bits (72), Expect = 0.29
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 95 PSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVI 139
+ ++ L + AQF AS L+T +L+S K ED + A GV+
Sbjct: 41 QDLVSKTLDSASAQFAASALVTTPQLLSFKSKEDRVQIAGVNGVV 85
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 31.1 bits (71), Expect = 0.36
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 152 KEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLV 211
+ +A LK+ AQ + +E+A +QA+ I + +A Q+ + EA + L
Sbjct: 44 DDLAEAERLKEEAQALLAEYEQELEEAR--EQASEIIEQAKKEAEQIAEEIKAEAEEELE 101
Query: 212 ELRRIEAAES-IAYQLSR 228
R EAAE+ I + R
Sbjct: 102 --RIKEAAEAEIEAEKER 117
>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 = 30.6 bits (70), Expect = 0.44
Identities = 13/50 (26%), Positives = 24/50 (48%)
Query: 100 EVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLT 149
L+AVV E+ R+ +++V E + + G+ LD +I +T
Sbjct: 66 GHLRAVVGTMTVEEIYEDRDKFAEQVQEVVAPDLNKMGLELDSFTIKDIT 115
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 31.1 bits (70), Expect = 0.83
Identities = 28/120 (23%), Positives = 50/120 (41%), Gaps = 12/120 (10%)
Query: 104 AVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQV 163
A A+ A+ L Q+ +++V E+ AK +A L +
Sbjct: 98 AAAAKAKAAALAKQKREGTEEVTEEEKAAAKAKAA------------AAAKAKAAALAKQ 145
Query: 164 AQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAAESIA 223
++ E+ E+ ++ K A +A A+AA L + EAG+G E+ E A++ A
Sbjct: 146 KREGTEEVTEEEEETDKEKAKAKAAAAAKAKAAALAKQKAAEAGEGTEEVTEEEKAKAKA 205
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 31.3 bits (70), Expect = 0.84
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 152 KEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEG-DAQAAQLISKSLTEAGDGL 210
+E +A E K+ A+ EA+KA +KAE++K+A + +A+ A K EA
Sbjct: 1441 EEAKKADEAKKKAE-EAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKA 1499
Query: 211 VELRRIEAAESIAYQLSRSRQ 231
E ++ A+ A + ++ +
Sbjct: 1500 DEAKKAAEAKKKADEAKKAEE 1520
Score = 29.0 bits (64), Expect = 4.2
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 152 KEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKS 202
+E +A E K+ A++ +KA +KAE++K+AA + AA +
Sbjct: 1312 EEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAA 1362
>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 = 30.4 bits (69), Expect = 0.91
Identities = 26/109 (23%), Positives = 41/109 (37%), Gaps = 2/109 (1%)
Query: 108 QFDASELITQR--ELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQ 165
E + + VS ++ +L ER GV + + ITHL + E QA+ +Q A
Sbjct: 108 DPVNKETSLRGNSDEVSDELARELQERLAVAGVEVVEARITHLAYAPEIAQAMLQRQQAS 167
Query: 166 QEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELR 214
R +VE A + A+ E + + LV L
Sbjct: 168 AIIAARRKIVEGAVGMVEMALTRLEEREIVELDDERKAAMVSNLLVVLC 216
>gnl|CDD|226288 COG3765, WzzB, Chain length determinant protein [Cell envelope
biogenesis, outer membrane].
Length = 347
Score = 30.5 bits (69), Expect = 1.1
Identities = 20/135 (14%), Positives = 45/135 (33%), Gaps = 14/135 (10%)
Query: 99 TEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAV 158
+E + QF +S+ + + L + + LT +K +LD
Sbjct: 93 SEAYSEFIKQFSSSDSLREFWLQTDYYKQKLTGESKIDAALLD-----------RLI--N 139
Query: 159 ELKQVAQQEAEKARFLVE-KAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIE 217
+ V AE ++ A + A +Q +++ L + + LR +
Sbjct: 140 NISFKPGGFDLATNLTVSFTAETAEDAQDLLRGYIAFVSQKVAQELLDNLKDAIALRTRQ 199
Query: 218 AAESIAYQLSRSRQV 232
+ + Q ++
Sbjct: 200 LKDKLKRQEEVAKAQ 214
>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 438
Score = 30.6 bits (69), Expect = 1.1
Identities = 18/105 (17%), Positives = 34/105 (32%), Gaps = 6/105 (5%)
Query: 100 EVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVE 159
+ + Q D S ++ E ++ NE + L + + KE
Sbjct: 26 QARYKQIEQEDQSRILNTLEEFEKEANEKRAQYRSAKKKELSQLEEQLINQKKEQKNLFN 85
Query: 160 -----LKQVAQQEAEKARFLVEK-AEQSKQAAIISAEGDAQAAQL 198
+ Q E K L E+ K+ ++ E D + +L
Sbjct: 86 EQIKQFELALQDEIAKLEALELLNLEKDKELELLEKELDELSKEL 130
>gnl|CDD|173361 PTZ00066, PTZ00066, pyruvate kinase; Provisional.
Length = 513
Score = 30.1 bits (68), Expect = 1.4
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 161 KQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISK 201
V+ QEA AR VE AE II+ A+LISK
Sbjct: 391 TPVSVQEA-VARSAVETAEDINAKLIIALTETGNTARLISK 430
>gnl|CDD|235026 PRK02292, PRK02292, V-type ATP synthase subunit E; Provisional.
Length = 188
Score = 29.6 bits (67), Expect = 1.6
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 159 ELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIE 217
+++ A+ A + R AE ++A I AE +A A +++ EA + +LR E
Sbjct: 9 DIRDEARARASEIR-----AEADEEAEEIIAEAEADAEEILEDREAEAEREIEQLREQE 62
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 29.9 bits (67), Expect = 1.7
Identities = 14/54 (25%), Positives = 26/54 (48%)
Query: 153 EFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEA 206
E + +Q Q E + + +E+ +Q +QA +AE +A +K+ EA
Sbjct: 107 EKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEA 160
Score = 28.0 bits (62), Expect = 7.2
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 156 QAVELKQVAQQEAEKARFLVE---KAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVE 212
+A K A EA K + E KAE++ +AA A+ A+AA K+ EA +
Sbjct: 148 KAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAA-EEAKAKAEAAAAKKKAEAEAKAAAEK 206
Query: 213 LRRIEAAESIA 223
+ A++ A
Sbjct: 207 AKAEAEAKAKA 217
>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1,
2, 3, 4 family. These eukaryotic proteins recognize the
poly-A of mRNA and consists of four tandem RNA
recognition domains at the N-terminus (rrm: pfam00076)
followed by a PABP-specific domain (pfam00658) at the
C-terminus. The protein is involved in the transport of
mRNA's from the nucleus to the cytoplasm. There are four
paralogs in Homo sapiens which are expressed in testis
(GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ),
broadly expressed (SP:P11940_PABP1) and of unknown
tissue range (SP:Q15097_PABP2).
Length = 562
Score = 29.8 bits (67), Expect = 2.0
Identities = 25/117 (21%), Positives = 46/117 (39%), Gaps = 27/117 (23%)
Query: 89 YDERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVI--------- 139
Y + + PS+ + L+ + A+F E+ S V +D + R++ F +
Sbjct: 182 YVKNLDPSVNEDKLRELFAKFG--------EITSAAVMKDGSGRSRGFAFVNFEKHEDAA 233
Query: 140 -----LDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEG 191
++ I GK AQ+ AE+ L K E+ +Q + A+G
Sbjct: 234 KAVEEMNGKKIGLAKEGK-----KLYVGRAQKRAEREAELRRKFEELQQERKMKAQG 285
>gnl|CDD|111764 pfam02912, Phe_tRNA-synt_N, Aminoacyl tRNA synthetase class II,
N-terminal domain.
Length = 73
Score = 27.5 bits (62), Expect = 2.1
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 140 LDDISITHLTFGK--EFTQA--------VELKQVAQQEAEKARFLVEKAEQSKQAAIISA 189
L+ I + +L GK T+ E + +A+ VE+A + ++AA+ A
Sbjct: 9 LEAIRVKYL--GKKGPLTELLKGLGKLSPEERPKVGALINEAKEAVEEALEERKAALEEA 66
Query: 190 EGDAQAA 196
E +A+ A
Sbjct: 67 ELNARLA 73
>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
Length = 174
Score = 28.8 bits (65), Expect = 2.3
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 14/78 (17%)
Query: 159 ELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLI-------SKSL-TEAGDGL 210
+L Q AQQEAE+ R A+ +A I AE + QA + + + L E +
Sbjct: 79 KLAQ-AQQEAERIR-----ADAKARAEAIRAEIEKQAIEDMARLKQTAAADLSAEQERVI 132
Query: 211 VELRRIEAAESIAYQLSR 228
+LRR A +IA S+
Sbjct: 133 AQLRREAAELAIAKAESQ 150
>gnl|CDD|218110 pfam04489, DUF570, Protein of unknown function (DUF570). Protein
of unknown function, found in herpesvirus and
cytomegalovirus.
Length = 422
Score = 29.4 bits (66), Expect = 2.7
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 80 KIFSMLGVDYDERVLPSITTEVL-KAVVAQFDASELITQRE 119
K+ L + PS+TTE + +V QF EL+T R
Sbjct: 271 KLLGTLATVSCYQTPPSLTTENMPSYLVLQF---ELVTVRH 308
>gnl|CDD|184696 PRK14474, PRK14474, F0F1 ATP synthase subunit B; Provisional.
Length = 250
Score = 29.0 bits (65), Expect = 3.0
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 157 AVELKQVAQQEAEKARFLVEKAEQSKQAAIISA--EGDAQAAQLISKSLTEA 206
A + +Q A QEAE+ R + EQ + + + A D Q L++++ +
Sbjct: 48 AEQRQQEAGQEAERYRQKQQSLEQQRASFMAQAQEAADEQRQHLLNEAREDV 99
>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 = 29.0 bits (65), Expect = 3.2
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 156 QAVELKQVAQQEAEKARFLVEKAEQ-SKQAAIISAEGDAQA-AQLISK 201
QA E K A+Q AE +AE+ +K+ A AE +A+A A +K
Sbjct: 120 QAEEAK--AKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAK 165
Score = 28.6 bits (64), Expect = 4.7
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 156 QAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEA 206
QA E ++ Q+ AE+AR + + + A AE A+ A+ K EA
Sbjct: 76 QAEEAEK--QRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEA 124
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 28.9 bits (65), Expect = 3.7
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 159 ELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRR--- 215
EL +VA E+AR L+ ++ AE + + AQ + K EA +
Sbjct: 131 ELYRVAGLTPEQARKLL--------LKLLDAELEEEKAQRVKKIEEEADLEAERKAQNIL 182
Query: 216 IEAAESIAYQLSRSRQVSYLPSGNNILFNRS 246
+A + IA + + VS +P ++ + R
Sbjct: 183 AQAMQRIASETASDLSVSVVPIPSDAMKGRI 213
>gnl|CDD|177025 CHL00093, groEL, chaperonin GroEL.
Length = 529
Score = 28.5 bits (64), Expect = 5.0
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 161 KQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAG-DGLVELRRIEAA 219
+ V Q AE AR VE + Q A ISA D + +I+ ++ + G +G++ L E
Sbjct: 124 QYVVSQIAEYAR-PVEDIQAITQVASISAGNDEEVGSMIADAIEKVGREGVISL---EEG 179
Query: 220 ESIAYQL 226
+S +L
Sbjct: 180 KSTVTEL 186
>gnl|CDD|151656 pfam11214, Med2, Mediator complex subunit 2. This family of
mediator complex subunit 2 proteins is conserved in
fungi. Cyclin-dependent kinase CDK8 or Srb10 interacts
with and phosphorylates Med2. Post-translational
modifications of Mediator subunits are important for
regulation of gene expression.
Length = 99
Score = 27.0 bits (60), Expect = 5.1
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 122 SQKVNEDLTERAKRFGVILDDISITHLTFGKEFT-QAVELKQVAQQEAEKARFLVEKA 178
+ ++ + L E+ +F ILDD + L K + VE K+ ++E K + EK
Sbjct: 43 NNQLQKSLGEKITKFHSILDDT-ESKLNDTKWYVDTLVENKKKQEEEERKKKEEEEKK 99
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 28.2 bits (63), Expect = 5.2
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 152 KEFTQAVELKQVAQQEAEKARFLVEKAE--QSKQAAIISAEGDAQAAQL 198
KE A E K+ A++ A++A ++AE +K AA A+ +A+A +
Sbjct: 108 KERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRA 156
>gnl|CDD|237436 PRK13581, PRK13581, D-3-phosphoglycerate dehydrogenase;
Provisional.
Length = 526
Score = 28.5 bits (65), Expect = 5.6
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 9/55 (16%)
Query: 86 GVDYDERVLPSITTEVLKAVVAQFDASELITQRELVSQ-KVNEDLTERAKRFGVI 139
GV+ D + + E L ++ +DA LI R S KV ++ E AK VI
Sbjct: 22 GVEVDVK--TGLDKEELLEIIGDYDA--LIV-R---SATKVTAEVLEAAKNLKVI 68
>gnl|CDD|197803 smart00609, VIT, Vault protein Inter-alpha-Trypsin domain.
Length = 130
Score = 27.3 bits (61), Expect = 6.4
Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 122 SQKVNEDLTERAKRFGVILDDIS-ITHLTF---GKEFTQAVELKQVAQQEAEKARFLVEK 177
S+ VN + + F V L + I++ GK + ++ K+VAQ++ EKA
Sbjct: 37 SRVVNRAVPAQEVTFDVELPKTAFISNFAMTIDGKTYVGEIKEKEVAQKQYEKAV----- 91
Query: 178 AEQSKQAAIISAEG 191
Q K A ++ A G
Sbjct: 92 -SQGKTAGLVRASG 104
>gnl|CDD|203455 pfam06456, Arfaptin, Arfaptin-like domain. Arfaptin interacts with
ARF1, a small GTPase involved in vesicle budding at the
Golgi complex and immature secretory granules. The
structure of arfaptin shows that upon binding to a small
GTPase, arfaptin forms an elongated, crescent-shaped
dimer of three-helix coiled-coils. The N-terminal region
of ICA69 is similar to arfaptin.
Length = 229
Score = 27.7 bits (62), Expect = 6.5
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 8/76 (10%)
Query: 112 SELITQRELV--SQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQ-AVELKQVAQQE- 167
EL + E++ Q+ L + A+ + L D+S T G F KQ A E
Sbjct: 33 DELDAKLEVLRSIQRTYLGLVKLARNYSKRLYDLSQTQKELGDFFKDLGKHEKQQAAGEA 92
Query: 168 ----AEKARFLVEKAE 179
E RFL ++
Sbjct: 93 FTAFGETHRFLAKQGL 108
>gnl|CDD|217642 pfam03618, Kinase-PPPase, Kinase/pyrophosphorylase. This family of
regulatory proteins has ADP-dependent kinase and
inorganic phosphate-dependent pyrophosphorylase
activity.
Length = 255
Score = 27.8 bits (63), Expect = 6.6
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 86 GVDYDERVLPSITT-EVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDI 143
GV+++ P I T E L+ V+ + + + I LV ++ E L E A+ G+ D+
Sbjct: 25 GVEFEIHRFPFIRTEEKLEEVLEEINEEDGIVFYTLVDPELREILEEFAEALGIPCVDL 83
>gnl|CDD|171770 PRK12851, groEL, chaperonin GroEL; Reviewed.
Length = 541
Score = 27.8 bits (62), Expect = 7.7
Identities = 13/51 (25%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 162 QVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAG-DGLV 211
+E + V + Q A ISA GDA+ +L+++++ + G +G++
Sbjct: 125 AAVVEELKANARPVTTNAEIAQVATISANGDAEIGRLVAEAMEKVGNEGVI 175
>gnl|CDD|238659 cd01363, Motor_domain, Myosin and Kinesin motor domain. These
ATPases belong to the P-loop NTPase family and provide
the driving force in myosin and kinesin mediated
processes.
Length = 186
Score = 27.5 bits (61), Expect = 8.0
Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 22/135 (16%)
Query: 80 KIFSMLGVDYDERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVI 139
K ++M G ++P T+V+ + + R + +N E + R
Sbjct: 37 KTYTMEGKREGAGIIPRTVTDVIDLM------DKGNANRTTAATAMN----EHSSRSH-- 84
Query: 140 LDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQ-AAQL 198
S+ + FG + A +Q + LV+ A S++ AEG
Sbjct: 85 ----SVFRIHFGGKNALASATEQPKVGKIN----LVDLA-GSERIDFSGAEGSRLTETAN 135
Query: 199 ISKSLTEAGDGLVEL 213
I+KSL+ G+ + L
Sbjct: 136 INKSLSTLGNVISAL 150
>gnl|CDD|183683 PRK12686, PRK12686, carbamate kinase; Reviewed.
Length = 312
Score = 27.7 bits (62), Expect = 8.2
Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 10/94 (10%)
Query: 119 ELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVA--QQEAEKARFLVE 176
E ++++++ DL +IL + + F K Q ++ VA +Q + +F
Sbjct: 217 EKLAEQIDADLL-------IILTGVENVFINFNKPNQQKLDDITVAEAKQYIAEGQFAPG 269
Query: 177 KAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGL 210
+AAI E +I+ SL +A + L
Sbjct: 270 SMLPKVEAAIDFVESGEGKKAIIT-SLEQAKEAL 302
>gnl|CDD|236919 PRK11504, tynA, tyramine oxidase; Provisional.
Length = 647
Score = 27.9 bits (63), Expect = 8.5
Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 7/79 (8%)
Query: 153 EFTQAVELKQVAQQEAEKARF-LVEKAEQSKQAAIISAEGDA---QA-AQLISKSLTEAG 207
E AV + + E RF +E AE K + GD +A L ++ +
Sbjct: 23 EIEAAVAILRAEGLLGESTRFVSIELAEPPKAEVLAFDPGDPIDRRAFVVLYDRATGKTY 82
Query: 208 DGLVEL--RRIEAAESIAY 224
+ +V L + + E I
Sbjct: 83 EAVVSLTAGEVVSWEEIPG 101
>gnl|CDD|240650 cd12173, PGDH_4, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 27.4 bits (62), Expect = 9.0
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 11/62 (17%)
Query: 88 DYDERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAK------RFGVILD 141
+ V P ++ E L A++A DA LI + KV ++ E A R GV +D
Sbjct: 20 GIEVDVAPGLSEEELLAIIADADA--LIVRSAT---KVTAEVIEAAPRLKVIGRAGVGVD 74
Query: 142 DI 143
+I
Sbjct: 75 NI 76
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 0.379
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,795,620
Number of extensions: 1551315
Number of successful extensions: 1803
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1762
Number of HSP's successfully gapped: 104
Length of query: 305
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 208
Effective length of database: 6,635,264
Effective search space: 1380134912
Effective search space used: 1380134912
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 (26.6 bits)