RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780958|ref|YP_003065371.1| HflK protein [Candidatus
Liberibacter asiaticus str. psy62]
(355 letters)
>gnl|CDD|48216 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 = 281 bits (721), Expect = 2e-76
Identities = 120/267 (44%), Positives = 166/267 (62%), Gaps = 5/267 (1%)
Query: 55 IILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMF-WPIDQVEIVKVIER 113
+I L+ YIV P ER V LRFGK V PGLH +PI+ VE+V V +
Sbjct: 1 LIAALLVILWLLSGFYIVQPGERGVVLRFGKYSRTVE-PGLHWKLPYPIEVVEVVPVFQL 59
Query: 114 QQKIGGRSASVG---SNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVS 170
+ L+LTGD+NIV + F+V Y ++DP YLFN+ +P TL+Q +
Sbjct: 60 RSVGIPVRVGSVRSVPGESLMLTGDENIVDVEFAVQYRISDPYDYLFNVRDPEGTLRQAA 119
Query: 171 ESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVA 230
ESAMREVVGR D+ R++IA +VR L+Q +D YK+GI I ++++DA PP EV
Sbjct: 120 ESAMREVVGRSTLDDVLTEGREEIAQDVRELLQAILDAYKAGIEIVGVNLQDADPPEEVQ 179
Query: 231 DAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRF 290
DAFD+V +A QD +R + E+ Y+N V+ ARGEA+ I + + AYK+ +I EAQGEA RF
Sbjct: 180 DAFDDVNKARQDRERLINEAEAYANEVVPKARGEAARIIQEAEAYKEEVIAEAQGEAARF 239
Query: 291 LSIYGQYVNAPTLLRKRIYLETMEGIL 317
S+ +Y AP + R+R+YLETME +L
Sbjct: 240 ESLLAEYKKAPDVTRERLYLETMEEVL 266
>gnl|CDD|30678 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 163 bits (414), Expect = 6e-41
Identities = 82/287 (28%), Positives = 135/287 (47%), Gaps = 8/287 (2%)
Query: 55 IILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQ 114
IILL+I F SI++V ER V LRFG+ + PGLH + +E V V
Sbjct: 7 IILLVILIVLLFSSIFVVKEGERGVVLRFGRYTRTLGEPGLHFKIPFPEAIEEVVVRVDL 66
Query: 115 QKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAM 174
+ R+ VG ++T D IV + V Y VTDP+ ++N+EN L+Q+ +SA+
Sbjct: 67 R---ERTLDVGP-PQEVITKDNVIVSVDAVVQYRVTDPQKAVYNVENAEAALRQLVQSAL 122
Query: 175 REVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFD 234
R V+GR ++ +R +I ++R ++ + D + GI + + I+D PP EV A +
Sbjct: 123 RSVIGRMTLDELLTERRAEINAKIREILDEAADPW--GIKVVDVEIKDIDPPEEVQAAME 180
Query: 235 EVQRAEQDEDRFVEESNKYSN--RVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLS 292
+ AE+D+ + E+ + + EA+ I + A + I + A +
Sbjct: 181 KQMAAERDKRAEILEAEGEAQAAILRAEGEAEAAIILAEAEAEAEVIARAEADAAKIIAA 240
Query: 293 IYGQYVNAPTLLRKRIYLETMEGILKKAKKVIIDKKQSVMPYLPLNE 339
+ AP L +R E +E L KV++ + L L E
Sbjct: 241 ALREAPAAPQALAQRYLEELLEIALAGNSKVVVVPNSAGGAILGLLE 287
>gnl|CDD|144658 pfam01145, Band_7, SPFH domain / Band 7 family. This family has
been called SPFH, Band 7 or PHB domain.
Length = 177
Score = 99.4 bits (248), Expect = 1e-21
Identities = 59/183 (32%), Positives = 90/183 (49%), Gaps = 15/183 (8%)
Query: 70 YIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNSG 129
IV P E V RFGK V PGLH I+ + +V + ++ +
Sbjct: 1 KIVPPGEVGVVTRFGKVS-RVLGPGLHFKLPFIETIYVVDTRLQTLEVTVQLE------- 52
Query: 130 LILTGDQNIVGLHFSVLYVVTDPRLYLFNL---ENPGETLKQVSESAMREVVGRRFAVDI 186
+LT D V + +V Y V DP + N ++ E L+ + SA+REV+ R ++
Sbjct: 53 -VLTKDGVPVTVDVTVQYRVEDPAKLVANYGGEDDLQELLRPLVRSALREVIARYTLDEL 111
Query: 187 FRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRF 246
S R++IA EV+ +Q+ +D Y GI I + I D PP E+A+A +E Q AEQ+ +
Sbjct: 112 L-SNREEIAQEVKEALQEELDKY--GIEIEDVQITDIDPPPEIAEAIEEKQAAEQEAEEA 168
Query: 247 VEE 249
E
Sbjct: 169 EIE 171
>gnl|CDD|48217 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 = 78.6 bits (194), Expect = 2e-15
Identities = 56/234 (23%), Positives = 100/234 (42%), Gaps = 20/234 (8%)
Query: 69 IYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNS 128
++IV E+AV LRFG+ V PGLH I QV+ +R + V
Sbjct: 1 LFIVDEGEQAVVLRFGEVVRVVTEPGLHFKLPFIQQVKKFD--KRILTLDSDPQRV---- 54
Query: 129 GLILTGDQNIVGLHFSVLYVVTDPRLYLFNLEN----PGETLKQVSESAMREVVGRRFAV 184
LT D+ + + + +TDP + + L Q+ SA+R G+R +
Sbjct: 55 ---LTKDKKRLIVDAYAKWRITDPLRFYQAVGGEERAAETRLDQIVNSALRAEFGKRTLI 111
Query: 185 DIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAE--QD 242
++ +R ++ E+R + + GI + + I+ P EV+++ RAE +
Sbjct: 112 ELVSGERGELMEEIRRAVAEEAKEL--GIEVVDVRIKRIDLPEEVSESVYRRMRAERERI 169
Query: 243 EDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQ 296
F E + + R+ A E + I + AY++ +G+A+ IY +
Sbjct: 170 AAEFRAEGEEEAERIRADADRERTVIL--AEAYREAQEIRGEGDAEA-ARIYAE 220
>gnl|CDD|48215 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 = 76.3 bits (188), Expect = 1e-14
Identities = 60/254 (23%), Positives = 109/254 (42%), Gaps = 43/254 (16%)
Query: 72 VHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNSGLI 131
V ER V R GK PGLH P KV R+Q + V +
Sbjct: 1 VPQYERGVVERLGKYHR-TLGPGLHF-IIPFIDRIAYKVDLREQVL-----DVPPQE--V 51
Query: 132 LTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAMREVVGRRFAVDIFRSQR 191
+T D V + + Y V DP ++ +E+ + Q++++ +R V+G+ ++ S+R
Sbjct: 52 ITKDNVTVRVDAVLYYRVVDPVKAVYGVEDYRYAISQLAQTTLRSVIGKMELDELL-SER 110
Query: 192 QQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRFVEESN 251
++I E+ ++ + D + G+ + + I+D P+E+ +A + AE+++ + E
Sbjct: 111 EEINAELVEILDEATDPW--GVKVERVEIKDIILPQEIQEAMAKQAEAEREKRAKIIE-- 166
Query: 252 KYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLLRKRIYLE 311
A GE R+++I A+ Q P L+ R LE
Sbjct: 167 ---------AEGE----RQAAIL-------LAEAAK--------QAAINPAALQLR-ELE 197
Query: 312 TMEGILKKAKKVII 325
T+E I K+A ++
Sbjct: 198 TLEEIAKEAASTVV 211
>gnl|CDD|48210 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 = 75.4 bits (185), Expect = 2e-14
Identities = 42/124 (33%), Positives = 68/124 (54%), Gaps = 5/124 (4%)
Query: 116 KIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPG--ETLKQVSESA 173
+I R ++ +LT D V + V Y V DP L+N+ +P E L+Q+++SA
Sbjct: 1 RIDLRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVVDPVKALYNVRDPEDEEALRQLAQSA 60
Query: 174 MREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAF 233
+R V+G+ +D R +IA EVR +Q+ +D Y GI + + I+D PP EV +A
Sbjct: 61 LRSVIGKM-TLDELLEDRDEIAAEVREALQEDLDKY--GIEVVDVRIKDIDPPEEVQEAM 117
Query: 234 DEVQ 237
++ Q
Sbjct: 118 EDRQ 121
>gnl|CDD|37831 KOG2620, KOG2620, KOG2620, Prohibitins and stomatins of the PID
superfamily [Energy production and conversion].
Length = 301
Score = 68.5 bits (167), Expect = 2e-12
Identities = 57/226 (25%), Positives = 90/226 (39%), Gaps = 16/226 (7%)
Query: 69 IYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQ-VEIVKVIERQQKIGGRSASVGSN 127
I V E AV RFGK + + PGLH + ID+ + + E + A
Sbjct: 9 IRFVPQQEAAVVERFGK-FHRILEPGLHFLPPVIDKIAYVHSLKEIAILDPKQEA----- 62
Query: 128 SGLILTGDQNIVGLHFSVLYVVTDPRLYL--FNLENPGETLKQVSESAMREVVGRRFAVD 185
+T D V + + Y V DP + +ENP ++Q++++ MR VG+
Sbjct: 63 ----ITKDNVFVQIDGVLYYRVVDPYADDASYGVENPEYAIQQLAQTTMRSEVGKLTLDK 118
Query: 186 IFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDR 245
+F +R + + I K M+ + G I D PP V A + AE+ +
Sbjct: 119 VFE-ERNSLNKSIVEAINKAMEAW--GYECLRYEIRDIEPPPSVKRAMNMQNEAERMKRA 175
Query: 246 FVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFL 291
+ ES + A GE +S + A GEA+ L
Sbjct: 176 AILESEGERIAQINRAEGEKESKILASEGIARQRQNIADGEAEAIL 221
>gnl|CDD|48213 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 = 55.2 bits (133), Expect = 3e-08
Identities = 51/206 (24%), Positives = 92/206 (44%), Gaps = 21/206 (10%)
Query: 68 SIYIVHPDERAVEL-RFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGS 126
S+Y V RAV R G K+ V+ GLH + I V R + I ++ GS
Sbjct: 1 SLYNVDGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNI---ESTTGS 57
Query: 127 NSGLILTGDQNIVGLHFSVLY---VVTDPRLYLFNLENPGET-LKQVSESAMREVVGRRF 182
D +V + VL+ PR+Y E+ E L + ++ VV +
Sbjct: 58 K-------DLQMVNITLRVLFRPDASQLPRIYQNLGEDYDERVLPSIINEVLKAVVAQFT 110
Query: 183 AVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQD 242
A ++ +QR++++ +R + + + GI+++ +SI + +E A + Q A+Q+
Sbjct: 111 AEELI-TQREEVSALIREALTERAKDF--GIILDDVSITHLTFSKEFTKAVEAKQVAQQE 167
Query: 243 EDR---FVEESNKYSNRVLGSARGEA 265
+R VE++ + + A GEA
Sbjct: 168 AERAKFVVEKAEQEKQAAVIRAEGEA 193
>gnl|CDD|37832 KOG2621, KOG2621, KOG2621, Prohibitins and stomatins of the PID
superfamily [Energy production and conversion].
Length = 288
Score = 51.8 bits (124), Expect = 3e-07
Identities = 39/192 (20%), Positives = 84/192 (43%), Gaps = 13/192 (6%)
Query: 54 YIILLLIGSFCAFQSIYIVHPDERAVELRFGK-PKNDVFLPGLHMMFWPIDQVEIVKVIE 112
++++L+ + + IV ERAV R G+ PGL ++ I+
Sbjct: 40 FLLVLMTFPISIWFCLKIVQEYERAVIFRLGRLRTGGARGPGL---------FFLLPCID 90
Query: 113 RQQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSES 172
+K+ R+ S ILT D + + V Y ++DP + + N+ + + ++++
Sbjct: 91 TFRKVDLRTQSFNVPPQEILTKDSVTISVDAVVYYRISDPIIAVNNVGDADNATRLLAQT 150
Query: 173 AMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADA 232
+R +G + +I S R+ IA E + + + + + G+ + + I+D P ++ A
Sbjct: 151 TLRNYLGTKTLSEIL-SSREVIAQEAQKALDEATEPW--GVKVERVEIKDVRLPAQLQRA 207
Query: 233 FDEVQRAEQDED 244
A ++
Sbjct: 208 MAAEAEATREAR 219
>gnl|CDD|38300 KOG3090, KOG3090, KOG3090, Prohibitin-like protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 290
Score = 49.6 bits (118), Expect = 1e-06
Identities = 53/220 (24%), Positives = 98/220 (44%), Gaps = 23/220 (10%)
Query: 55 IILLLIGSFCAFQSIYIVHPDERAVEL-RFGKPKNDVFLPGLHMMFWPIDQVEIVKVIER 113
+++ +G++ QS+Y V RA+ R G K+D++ G H ++ I V R
Sbjct: 24 LLIGGLGAYGVTQSLYNVDGGHRAIVFNRIGGIKDDIYPEGTHFRIPWFERPIIYDVRAR 83
Query: 114 QQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLY---VVTDPRLYLFNLENPGE-TLKQV 169
+ I S+ GS D +V + VL P +Y +N E L +
Sbjct: 84 PRLI---SSPTGSK-------DLQMVNIGLRVLSRPMADQLPEIYRTLGQNYDERVLPSI 133
Query: 170 SESAMREVVGRRFAVDIFRSQRQQIALEVR-NLIQKTMDYYKSGILINTISIEDASPPRE 228
++ VV + A + +QR+Q++ +R L ++ D+ I ++ +SI + + +E
Sbjct: 134 INEVLKAVVAQFNASQLI-TQREQVSRLIRKILTERAADF---NIALDDVSITELTFGKE 189
Query: 229 VADAFDEVQRAEQDEDR---FVEESNKYSNRVLGSARGEA 265
A + Q A Q+ R VE++ + + A+GEA
Sbjct: 190 FTAAIEAKQVAAQEAQRAKFIVEKAEQEKQSAIVRAQGEA 229
>gnl|CDD|33399 COG3599, DivIVA, Cell division initiation protein [Cell division
and chromosome partitioning].
Length = 212
Score = 37.3 bits (86), Expect = 0.006
Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 3/109 (2%)
Query: 184 VDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDE 243
+D +I L + I E+ E A+A D ++RA
Sbjct: 43 LDENEDLEDEIDELKEELKEAADAEDSQAIQQAETEAEELKQAAE-AEADDILKRASAQA 101
Query: 244 DRFVEESNKYSNRVLGSARG--EASHIRESSIAYKDRIIQEAQGEADRF 290
R ++ ++R L A+ E ++ + + R+ + + +
Sbjct: 102 QRVFGKAQYKADRYLEDAKIAQELEDLKRQAQVERQRLRSDIEAQLASA 150
Score = 27.7 bits (61), Expect = 5.2
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 237 QRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLS 292
+ A+ ++ + ++++ + + +A EA I + + A R+ +AQ +ADR+L
Sbjct: 62 EAADAEDSQAIQQAETEAEELKQAAEAEADDILKRASAQAQRVFGKAQYKADRYLE 117
>gnl|CDD|48214 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 = 31.4 bits (71), Expect = 0.37
Identities = 24/115 (20%), Positives = 48/115 (41%), Gaps = 14/115 (12%)
Query: 68 SIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSN 127
+++V P++ V + FG+ + GL P ++++ R +
Sbjct: 1 GLFVVEPNQARVLVLFGRYIGTIRRTGL-RWVNPF---------SSKKRVSLRVRNF--E 48
Query: 128 SGLILTGDQNIVGLHFSVLYV--VTDPRLYLFNLENPGETLKQVSESAMREVVGR 180
S + D N + + + V V D +FN+++ E + SESA+R V +
Sbjct: 49 SEKLKVNDANGNPIEIAAVIVWRVVDTAKAVFNVDDYEEFVHIQSESALRHVASQ 103
>gnl|CDD|38173 KOG2962, KOG2962, KOG2962, Prohibitin-related membrane protease
subunits [General function prediction only].
Length = 322
Score = 31.2 bits (70), Expect = 0.42
Identities = 34/194 (17%), Positives = 78/194 (40%), Gaps = 22/194 (11%)
Query: 54 YIILLLIGSFCAF--QSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVI 111
+++ I AF +++ + V R G + PG H+M I + V+V
Sbjct: 6 FLVAAAIALLVAFLSSAVHKIEEGHVGVYYRGGALLTSITGPGFHLMLPFITTYKSVQVT 65
Query: 112 ERQQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDP-RLYLFNLENP-------G 163
+ ++ ++ G++ G+++ D+ I ++F V D + Y + +
Sbjct: 66 LQTDEV--KNVPCGTSGGVLIYFDR-IEVVNFLRPDAVYDIVKNYTVDYDKTLIFNKIHH 122
Query: 164 ETLKQVSESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDA 223
E + S ++EV +D+F QI +++ +Q + G+ I + +
Sbjct: 123 ELNQFCSVHTLQEVY-----IDLF----DQIDENLKDALQADLTRMAPGLEIQAVRVTKP 173
Query: 224 SPPREVADAFDEVQ 237
P + F+ ++
Sbjct: 174 KIPEAIRRNFELME 187
>gnl|CDD|48212 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 = 30.3 bits (68), Expect = 0.81
Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 172 SAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVAD 231
S +REV GR A I+ ++R++I ++ + + G+++ + + + P ++AD
Sbjct: 61 SLVREVTGRYTAEQIYSTKRKEIESAIKKELIEEFV--GDGLILEEVLLRNIKLPDQIAD 118
Query: 232 AFD 234
A +
Sbjct: 119 AIE 121
>gnl|CDD|31055 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 29.8 bits (67), Expect = 1.2
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 227 REVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGE 286
++AD E +R +++ + E + L AR +AS I E + ++I +E + E
Sbjct: 40 AKIADDLAEAERLKEEAQALLAEYEQ----ELEEAREQASEIIEQAKKEAEQIAEEIKAE 95
Query: 287 ADRFL 291
A+ L
Sbjct: 96 AEEEL 100
>gnl|CDD|144982 pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase.
This family consists of various amine oxidases,
including maze polyamine oxidase (PAO) and various
flavin containing monoamine oxidases (MAO). The aligned
region includes the flavin binding site of these
enzymes. The family also contains phytoene
dehydrogenases and related enzymes. In vertebrates MAO
plays an important role regulating the intracellular
levels of amines via there oxidation; these include
various neurotransmitters, neurotoxins and trace amines.
In lower eukaryotes such as aspergillus and in bacteria
the main role of amine oxidases is to provide a source
of ammonium. PAOs in plants, bacteria and protozoa
oxidase spermidine and spermine to an aminobutyral,
diaminopropane and hydrogen peroxide and are involved in
the catabolism of polyamines. Other members of this
family include tryptophan 2-monooxygenase, putrescine
oxidase, corticosteroid binding proteins and
antibacterial glycoproteins.
Length = 444
Score = 29.8 bits (67), Expect = 1.2
Identities = 35/244 (14%), Positives = 72/244 (29%), Gaps = 32/244 (13%)
Query: 108 VKVIERQQKIGGRSASVGSNSGLILTGDQNIVG----LHFSVLYVVTDPRL--------- 154
V V+E + ++GGR +V + LI G Q G L +L + + L
Sbjct: 17 VTVLEARDRVGGRIRTVRFDGFLIELGAQWFHGAYPNLLNLLLELGLELGLLLFPFPGDD 76
Query: 155 -------------YLFNLENPGETLKQVSESAMREVVGRRFAVDIFRSQRQQIALEVRNL 201
+L P L + + + +A E+ L
Sbjct: 77 FVRLKYRGGPYPDVPGDLPPPLFLLLRSLLDLELSLEEPIRRALLLLVALLLLAPELLEL 136
Query: 202 IQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSA 261
+ S + + A F ++ + + + + +
Sbjct: 137 DLLSFSDLLSAAGFLELFLLLFRSLLAGALGFLPLELSARLALLSLRLFDLEDGGSVFPG 196
Query: 262 RGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLLRKRIYLETMEGILKKAK 321
G + ++I A G + V + T + + T++G + +A
Sbjct: 197 GGF-----TLPLGGLPQLIAAALGLLGGRVR-LNTRVRSITKEGDGVTVTTVDGEVIEAD 250
Query: 322 KVII 325
VI+
Sbjct: 251 AVIV 254
>gnl|CDD|30364 COG0014, ProA, Gamma-glutamyl phosphate reductase [Amino acid
transport and metabolism].
Length = 417
Score = 29.4 bits (66), Expect = 1.6
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 6/80 (7%)
Query: 228 EVADAFDEVQRAEQDEDRFVEESNKY--SNRVLGSARGEASHIRESSIAYKDRIIQEAQG 285
E + + +ED + E + +V+ S +HI + D II E
Sbjct: 292 EALALLPDAVKPATEED-WDTEYLDLILAVKVVDSLDEAIAHINTYGSGHSDAIITEDYA 350
Query: 286 EADRFLSIY---GQYVNAPT 302
A+RF++ YVNA T
Sbjct: 351 NAERFVNEVDSAAVYVNAST 370
>gnl|CDD|37351 KOG2140, KOG2140, KOG2140, Uncharacterized conserved protein
[General function prediction only].
Length = 739
Score = 29.2 bits (65), Expect = 1.9
Identities = 27/149 (18%), Positives = 54/149 (36%), Gaps = 16/149 (10%)
Query: 171 ESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVA 230
+ ++ ++ F + + + LE +L+++ +++S+ED P +
Sbjct: 331 DRRVQYMIETLFQIRKDKFKSHPAVLEELDLVEEEDQI------THSLSLEDEDDPEKEL 384
Query: 231 DAFDEVQRAEQDEDRFVEESNKYS---NRVLGSARGEASHIRESSIAYKDRIIQEAQGEA 287
F ++D + F E KY +LG+ E + S D E+ E
Sbjct: 385 GVF------KKDPN-FEENEEKYDAIKKEILGNEDSENEDDEDGSSEDDDEEEDESVEED 437
Query: 288 DRFLSIYGQYVNAPTLLRKRIYLETMEGI 316
+ L I R+ IYL +
Sbjct: 438 EEKLQIIDMTETNLVNFRRTIYLTIQSSL 466
>gnl|CDD|79360 cd01031, EriC, ClC chloride channel EriC. This domain is found in
the EriC chloride transporters that mediate the extreme
acid resistance response in eubacteria and archaea. This
response allows bacteria to survive in the acidic
environments by decarboxylation-linked proton
utilization. As shown for Escherichia coli EriC, these
channels can counterbalance the electric current
produced by the outwardly directed virtual proton pump
linked to amino acid decarboxylation. The EriC proteins
belong to the ClC superfamily of chloride ion channels,
which share a unique double-barreled architecture and
voltage-dependent gating mechanism. The
voltage-dependent gating is conferred by the permeating
anion itself, acting as the gating charge. In
Escherichia coli EriC, a glutamate residue that
protrudes into the pore is thought to participate in
gating by binding to a Cl- ion site within the
selectivity filter..
Length = 402
Score = 28.9 bits (65), Expect = 2.1
Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 3/70 (4%)
Query: 42 DLIPFFKSYGSVYIILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWP 101
L F + + ++L LI + + ++V + G P+ + L GL W
Sbjct: 25 SLYDFAANNPPLLLVLPLISAVLGLLAGWLVKKFAPEAK-GSGIPQVEGVLAGLLPPNWW 83
Query: 102 IDQVEIVKVI 111
+V VK +
Sbjct: 84 --RVLPVKFV 91
>gnl|CDD|36181 KOG0963, KOG0963, KOG0963, Transcription factor/CCAAT displacement
protein CDP1 [Transcription].
Length = 629
Score = 28.8 bits (64), Expect = 2.6
Identities = 17/111 (15%), Positives = 44/111 (39%), Gaps = 3/111 (2%)
Query: 239 AEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYV 298
+E R EE+ ++ + + +S + D + + ++ FL +Y + +
Sbjct: 38 SEISRKRLAEETREFKKNTPEDKLKMVNPLLKSYQSEIDNLTKRSKFAEAAFLDVYEKLI 97
Query: 299 NAPTLLRKRIYLETMEGILKKAKKVIIDKKQSVMPYLPLNEAFSRIQTKRE 349
AP L + +L K +K + ++ +N + ++T++
Sbjct: 98 EAPD---PVPLLASAAELLNKQQKASEENEELKEELEEVNNELADLKTQQV 145
>gnl|CDD|73396 cd04734, OYE_like_3_FMN, Old yellow enzyme (OYE)-related FMN
binding domain, group 3. Each monomer of OYE contains
FMN as a non-covalently bound cofactor, uses NADPH as a
reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Other members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase. One
member of this subgroup, the Sinorhizobium meliloti
stachydrine utilization protein stcD, has been idenified
as a putative N-methylproline demethylase..
Length = 343
Score = 28.2 bits (63), Expect = 3.1
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 14 RLSGSNGNGDGLPPFDVEAIIRYIKDKFDLIPFFK-SYGSVYIILLL 59
R+SG GL P + I + + LI + S GS Y +L L
Sbjct: 214 RISGDEDTEGGLSPDEALEIAARLAAE-GLIDYVNVSAGSYYTLLGL 259
>gnl|CDD|143806 pfam00015, MCPsignal, Methyl-accepting chemotaxis protein (MCP)
signaling domain. This domain is thought to transduce
the signal to CheA since it is highly conserved in very
diverse MCPs.
Length = 213
Score = 28.2 bits (63), Expect = 3.3
Identities = 23/128 (17%), Positives = 45/128 (35%), Gaps = 41/128 (32%)
Query: 179 GRRFAVDIFRSQRQQIALEVRNLIQKTMDYYK--SGILINTIS-IEDASPPR-------- 227
GR FAV +A EVR L +++ K ++ + D++
Sbjct: 74 GRGFAV---------VADEVRKLAERSAQAAKEIEALIEEIVKQTNDSTASIQQTRTEVE 124
Query: 228 ---------------------EVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEAS 266
E+AD E+ A ++ +++ N+ R+ + A+
Sbjct: 125 VGSTIVESTGEALKEIVDAVAEIADIVQEIAAASDEQSAGIDQVNQAVARIDQVTQQNAA 184
Query: 267 HIRESSIA 274
+ ES+ A
Sbjct: 185 LVEESAAA 192
>gnl|CDD|36306 KOG1090, KOG1090, KOG1090, Predicted dual-specificity phosphatase
[General function prediction only].
Length = 1732
Score = 27.8 bits (61), Expect = 4.9
Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 10/78 (12%)
Query: 181 RFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAE 240
F F R+ + ++++ + T +E PR D FDE+
Sbjct: 366 TFHKAAFLGFRKLTEMMFLSVLK--------SMYFQTFVLERG-LPRRKHDLFDELS-CF 415
Query: 241 QDEDRFVEESNKYSNRVL 258
++ D+ + + N S+ L
Sbjct: 416 KELDQLIFKQNSTSSESL 433
>gnl|CDD|36380 KOG1165, KOG1165, KOG1165, Casein kinase (serine/threonine/tyrosine
protein kinase) [Signal transduction mechanisms].
Length = 449
Score = 26.9 bits (59), Expect = 8.6
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 116 KIGGRSASVGSNSGLILTGDQNIVGLHFSV 145
K GRSA +SG + +VG H+ V
Sbjct: 3 KPSGRSAHSARSSGSSSSSGVLMVGPHYRV 32
>gnl|CDD|58155 cd03680, MM_CoA_mutase_ICM_like, Coenzyme
B12-dependent-methylmalonyl coenzyme A (CoA) mutase
(MCM) family, isobutyryl-CoA mutase (ICM)-like
subfamily; contains archaeal and bacterial proteins
similar to the large subunit of Streptomyces
cinnamonensis coenzyme B12-dependent ICM. ICM from S.
cinnamonensis is comprised of a large and a small
subunit. The holoenzyme appears to be an alpha2beta2
heterotetramer with up to 2 molecules of coenzyme B12
bound. The small subunit binds coenzyme B12. ICM
catalyzes the reversible rearrangement of n-butyryl-CoA
to isobutyryl-CoA, intermediates in fatty acid and
valine catabolism, which in S. cinnamonensis can be
converted to methylmalonyl-CoA and used in polyketide
synthesis..
Length = 538
Score = 26.7 bits (59), Expect = 9.5
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 220 IEDASPPREVADAFDEVQRAEQDEDRFVEESNKY 253
IED RE+ADA + Q+ + +R V NK+
Sbjct: 425 IEDGYFQREIADAAYKYQKEIESGERIVVGVNKF 458
>gnl|CDD|99783 cd06186, NOX_Duox_like_FAD_NADP, NADPH oxidase (NOX) catalyzes
the generation of reactive oxygen species (ROS) such as
superoxide and hydrogen peroxide. ROS were originally
identified as bactericidal agents in phagocytes, but
are now also implicated in cell signaling and
metabolism. NOX has a 6-alpha helix heme-binding
transmembrane domain fused to a flavoprotein with the
nucleotide binding domain located in the cytoplasm.
Duox enzymes link a peroxidase domain to the NOX domain
via a single transmembrane and EF-hand Ca2+ binding
sites. The flavoprotein module has a ferredoxin like
FAD/NADPH binding domain. In classical phagocytic NOX2,
electron transfer occurs from NADPH to FAD to the heme
of cytb to oxygen leading to superoxide formation..
Length = 210
Score = 26.9 bits (60), Expect = 9.7
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 71 IVHPDERAVELRFGKPKNDVFLPGLHM 97
+ PD + L KPK + PG H+
Sbjct: 5 ELLPDSDVIRLTIPKPKPFKWKPGQHV 31
>gnl|CDD|36519 KOG1305, KOG1305, KOG1305, Amino acid transporter protein [Amino
acid transport and metabolism].
Length = 411
Score = 26.7 bits (59), Expect = 9.7
Identities = 9/31 (29%), Positives = 22/31 (70%), Gaps = 2/31 (6%)
Query: 44 IPF-FKSYGSVY-IILLLIGSFCAFQSIYIV 72
+P+ FK+ G + I+L+++ +F + S+Y++
Sbjct: 27 MPYAFKTAGLLLGILLIVLSAFLSLLSLYLL 57
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.320 0.138 0.394
Gapped
Lambda K H
0.267 0.0633 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,325,291
Number of extensions: 231957
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 599
Number of HSP's successfully gapped: 38
Length of query: 355
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 260
Effective length of database: 4,210,882
Effective search space: 1094829320
Effective search space used: 1094829320
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: 58 (26.3 bits)