RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9748
(1359 letters)
>gnl|CDD|239656 cd03684, ClC_3_like, ClC-3-like chloride channel proteins. This CD
includes ClC-3, ClC-4, ClC-5 and ClC-Y1. ClC-3 was
initially cloned from rat kidney. Expression of ClC-3
produces outwardly-rectifying Cl currents that are
inhibited by protein kinase C activation. It has been
suggested that ClC-3 may be a ubiquitous
swelling-activated Cl channel that has very similar
characteristics to those of native volume-regulated Cl
currents. The function of ClC-4 is unclear. Studies of
human ClC-4 have revealed that it gives rise to Cl
currents that rapidly activate at positive voltages, and
are sensitive to extracellular pH, with currents
decreasing when pH falls below 6.5. ClC-4 is broadly
distributed, especially in brain and heart. ClC-5 is
predominantly expressed in the kidney, but can be found
in the brain and liver. Mutations in the ClC-5 gene
cause certain hereditary diseases, including Dent's
disease, an X-chromosome linked syndrome characterised
by proteinuria, hypercalciuria, and kidney stones
(nephrolithiasis), leading to progressive renal failure.
These proteins belong to the ClC superfamily of
chloride ion channels, which share the unique
double-barreled architecture and voltage-dependent
gating mechanism. The gating is conferred by the
permeating anion itself, acting as the gating charge.
This domain is found in the eukaryotic halogen ion (Cl-
and I-) channel proteins, that perform a variety of
functions including cell volume regulation, the membrane
potential stabilization, transepithelial chloride
transport and charge compensation necessary for the
acidification of intracellular organelles.
Length = 445
Score = 282 bits (725), Expect = 3e-84
Identities = 119/198 (60%), Positives = 139/198 (70%), Gaps = 42/198 (21%)
Query: 97 AEVMGSNKEGFMAYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFII 156
A + KEG+ Y+ ++ ALLFA +A LV++ APYA GSGIPEIKTILSGFII
Sbjct: 15 ASWLSDLKEGY----CNYIIYVLLALLFAFIAVLLVKVVAPYAAGSGIPEIKTILSGFII 70
Query: 157 RGYLGKWTLIIKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREI 216
RG+LGKWTL+IKSVG++LAV++GLSLGKEGP+VHIA+C+GNI+S LFPKY RNEAK+REI
Sbjct: 71 RGFLGKWTLLIKSVGLVLAVASGLSLGKEGPLVHIATCVGNIISRLFPKYRRNEAKRREI 130
Query: 217 LSAAAAAGVSVAFGAPIGGVLFSLEEVSFFLFFRIFHLEMEGRRRRGRPRLRWVDMIHND 276
LSAAAAAGV+VAFGAPIGGVLFSLE
Sbjct: 131 LSAAAAAGVAVAFGAPIGGVLFSLE----------------------------------- 155
Query: 277 IEKEVSYYFPLKTLWRSF 294
EVSYYFPLKTLWRSF
Sbjct: 156 ---EVSYYFPLKTLWRSF 170
Score = 146 bits (372), Expect = 2e-37
Identities = 78/188 (41%), Positives = 99/188 (52%), Gaps = 33/188 (17%)
Query: 633 FFECFAFSDYVINHNATSTSNPTTSEAGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCG 692
F EC D S AG GVY A+W L++ L++KL+LT+FTFGIKVP G
Sbjct: 277 FNECEPGDDN-------SLCCYRDPPAGDGVYKALWSLLLALIIKLLLTIFTFGIKVPAG 329
Query: 693 RLYL------ALFEQNKQGTYLSFYF--IYFSVSLVVIMFELTGGVRYIVPLM------A 738
+++ ALF G + + +S + T G I P + A
Sbjct: 330 -IFVPSMAVGALF-----GRIVGILVEQLAYSYPDSIFFACCTAGPSCITPGLYAMVGAA 383
Query: 739 AAMASKWHKKLKTLFRLSLVVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDAHI 798
A + T +SLVVIMFELTG + YI+PLM A M SKWV DA+GK+GIYDAHI
Sbjct: 384 AFLGGV------TRMTVSLVVIMFELTGALNYILPLMIAVMVSKWVADAIGKEGIYDAHI 437
Query: 799 MLNAYPFL 806
LN YPFL
Sbjct: 438 HLNGYPFL 445
Score = 106 bits (266), Expect = 6e-24
Identities = 40/52 (76%), Positives = 44/52 (84%)
Query: 1286 VSLVVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDAHIMLNAYPFL 1337
VSLVVIMFELTG + YI+PLM A M SKWV DA+GK+GIYDAHI LN YPFL
Sbjct: 394 VSLVVIMFELTGALNYILPLMIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 445
Score = 61.9 bits (151), Expect = 1e-09
Identities = 23/50 (46%), Positives = 31/50 (62%), Gaps = 4/50 (8%)
Query: 401 AEVMGSNKEGFMAYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPE 450
A + KEG+ Y+ ++ ALLFA +A LV++ APYA GSGIPE
Sbjct: 15 ASWLSDLKEGY----CNYIIYVLLALLFAFIAVLLVKVVAPYAAGSGIPE 60
Score = 38.7 bits (91), Expect = 0.019
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 7 LAGSVAGIIDIGSSWMSDLKYGLCP 31
G +AG+IDI +SW+SDLK G C
Sbjct: 3 AIGLIAGLIDIIASWLSDLKEGYCN 27
Score = 38.7 bits (91), Expect = 0.019
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 314 LAGSVAGIIDIGSSWMSDLKYGLCP 338
G +AG+IDI +SW+SDLK G C
Sbjct: 3 AIGLIAGLIDIIASWLSDLKEGYCN 27
>gnl|CDD|238507 cd01036, ClC_euk, Chloride channel, ClC. These domains are found
in the eukaryotic halogen ion (Cl-, Br- and I-) channel
proteins that perform a variety of functions including
cell volume regulation, membrane potential
stabilization, charge compensation necessary for the
acidification of intracellular organelles, signal
transduction and transepithelial transport. They are
also involved in many pathophysiological processes and
are responsible for a number of human diseases. These
proteins belong to the ClC superfamily of chloride ion
channels, which share the unique double-barreled
architecture and voltage-dependent gating mechanism.
The gating is conferred by the permeating anion itself,
acting as the gating charge. Some proteins possess long
C-terminal cytoplasmic regions containing two CBS
(cystathionine beta synthase) domains of putative
regulatory function.
Length = 416
Score = 192 bits (489), Expect = 4e-53
Identities = 72/218 (33%), Positives = 105/218 (48%), Gaps = 35/218 (16%)
Query: 110 YTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKS 169
Y L Y+ ++ W+++ +++G+ FAP A GSGIPE+ L+G + YL TLI K+
Sbjct: 33 YLLGYLMWVLWSVVLVLISSGICLYFAPQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKT 92
Query: 170 VGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYG----------RNEAKKREILSA 219
+ + AV++GL LGKEGP+VH+ + IG L + RN +R+ L A
Sbjct: 93 ISCICAVASGLPLGKEGPLVHLGAMIGAGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVA 152
Query: 220 AAAAGVSVAFGAPIGGVLFSLEEVS-----------FF------LFFRIFHLEMEGRRRR 262
AAAGV+ AFGAPIGG+LF LEEVS FF +I++ G
Sbjct: 153 GAAAGVASAFGAPIGGLLFVLEEVSTFFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELL 212
Query: 263 GRPRLRWVDMIHNDIEKEVSYYFPLKTLWRSFPFSIYI 300
R + + E V F ++ I
Sbjct: 213 D--RSSAMFLSLTVFELHVPLNLY------EFIPTVVI 242
Score = 66.6 bits (163), Expect = 3e-11
Identities = 35/145 (24%), Positives = 55/145 (37%), Gaps = 37/145 (25%)
Query: 667 VWLLMITLVLKLVLTVFTFGIKVPC-------------GRLYLALFEQNKQGTYLSFYFI 713
L++ L++ ++ FGI VP GRL L ++ I
Sbjct: 293 APTLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVH------RIAVAGI 346
Query: 714 YFSVSLVVIM---FELTGGVRYIVPLMAAAMASKWHKKLKTLFRLSLVVIMFELTGGVRY 770
+ + + L G AAA T S+ VIM ELTG + +
Sbjct: 347 GAESATLWADPGVYALIG---------AAAFLGG-----TTRLTFSICVIMMELTGDLHH 392
Query: 771 IVPLMAAAMASKWVGDALGKQGIYD 795
++PLM A + +K V DA + +Y
Sbjct: 393 LLPLMVAILIAKAVADAFC-ESLYH 416
Score = 58.1 bits (141), Expect = 2e-08
Identities = 17/41 (41%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 1286 VSLVVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYD 1326
S+ VIM ELTG + +++PLM A + +K V DA + +Y
Sbjct: 377 FSICVIMMELTGDLHHLLPLMVAILIAKAVADAFC-ESLYH 416
Score = 51.6 bits (124), Expect = 2e-06
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 414 YTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEALT 453
Y L Y+ ++ W+++ +++G+ FAP A GSGIPE +
Sbjct: 33 YLLGYLMWVLWSVVLVLISSGICLYFAPQAAGSGIPEVMA 72
>gnl|CDD|239657 cd03685, ClC_6_like, ClC-6-like chloride channel proteins. This CD
includes ClC-6, ClC-7 and ClC-B, C, D in plants.
Proteins in this family are ubiquitous in eukarotes and
their functions are unclear. They are expressed in
intracellular organelles membranes. This family belongs
to the ClC superfamily of chloride ion channels, which
share the unique double-barreled architecture and
voltage-dependent gating mechanism. The gating is
conferred by the permeating anion itself, acting as the
gating charge. ClC chloride ion channel superfamily
perform a variety of functions including cellular
excitability regulation, cell volume regulation,
membrane potential stabilization, acidification of
intracellular organelles, signal transduction, and
transepithelial transport in animals.
Length = 466
Score = 159 bits (404), Expect = 2e-41
Identities = 72/153 (47%), Positives = 97/153 (63%), Gaps = 17/153 (11%)
Query: 117 FIAWA---LLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIM 173
F+ + L+ +AA LV AP A GSGIPE+K L+G I L TL++K VG++
Sbjct: 78 FLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKIPHILRLKTLLVKIVGVI 137
Query: 174 LAVSAGLSLGKEGPMVHIASCIGNILS----------YLFPKYGRNEAKKREILSAAAAA 223
L+VS GL+LGKEGPM+HI +CI LS + + +Y RN+ KR+ ++ AAA
Sbjct: 138 LSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRYFRNDRDKRDFVTCGAAA 197
Query: 224 GVSVAFGAPIGGVLFSLEEVSFF----LFFRIF 252
GV+ AFGAP+GGVLFSLEEV+ F L +R F
Sbjct: 198 GVAAAFGAPVGGVLFSLEEVASFWNQALTWRTF 230
Score = 72.3 bits (178), Expect = 6e-13
Identities = 51/151 (33%), Positives = 64/151 (42%), Gaps = 35/151 (23%)
Query: 667 VWLLMITLVLKLVLTVFTFGIKVP---------CGRLYLALFEQNKQGTYLSFYFIYFSV 717
L+I VL L +TFGI VP G Y L G L YF
Sbjct: 333 PQTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLV-----GILLGSYFG--FT 385
Query: 718 SLVVIMFELTGGVRYIVPLMAAAMASKWHKKLKTLFR--LSLVVIMFELTGGVRYIVPLM 775
S+ ++ L G AAA L + R +SL VI+ ELT + Y+ P+M
Sbjct: 386 SIDPGLYALLG---------AAAF-------LGGVMRMTVSLTVILLELTNNLTYLPPIM 429
Query: 776 AAAMASKWVGDALGKQGIYDAHIMLNAYPFL 806
M +KWVGD + GIYD I L PFL
Sbjct: 430 LVLMIAKWVGDYFNE-GIYDIIIQLKGVPFL 459
Score = 66.9 bits (164), Expect = 3e-11
Identities = 26/52 (50%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 1286 VSLVVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDAHIMLNAYPFL 1337
VSL VI+ ELT + Y+ P+M M +KWVGD + GIYD I L PFL
Sbjct: 409 VSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNE-GIYDIIIQLKGVPFL 459
Score = 36.5 bits (85), Expect = 0.11
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 421 FIAWA---LLFASLAAGLVRMFAPYACGSGIPE 450
F+ + L+ +AA LV AP A GSGIPE
Sbjct: 78 FLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPE 110
>gnl|CDD|239655 cd03683, ClC_1_like, ClC-1-like chloride channel proteins. This CD
includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1
is expressed in skeletal muscle and its mutation leads
to both recessively and dominantly-inherited forms of
muscle stiffness or myotonia. ClC-K is exclusively
expressed in kidney. Similarly, mutation of ClC-K leads
to nephrogenic diabetes insipidus in mice and Bartter's
syndrome in human. These proteins belong to the ClC
superfamily of chloride ion channels, which share the
unique double-barreled architecture and
voltage-dependent gating mechanism. The gating is
conferred by the permeating anion itself, acting as the
gating charge. This domain is found in the eukaryotic
halogen ion (Cl-, Br- and I-) channel proteins, that
perform a variety of functions including cell volume
regulation, regulation of intracelluar chloride
concentration, membrane potential stabilization, charge
compensation necessary for the acidification of
intracellular organelles and transepithelial chloride
transport.
Length = 426
Score = 151 bits (384), Expect = 4e-39
Identities = 60/136 (44%), Positives = 88/136 (64%), Gaps = 3/136 (2%)
Query: 109 AYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIK 168
L+Y+ ++A+ + +A + +P A GSGIPE+KTIL G ++ YL TL+ K
Sbjct: 40 NSLLQYLVWVAYPVALVLFSALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAK 99
Query: 169 SVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYG---RNEAKKREILSAAAAAGV 225
+G+ A+ +GL LGKEGP VHI+S + +LS L + NE+++ E+L+AA A GV
Sbjct: 100 VIGLTCALGSGLPLGKEGPFVHISSIVAALLSKLTTFFSGIYENESRRMEMLAAACAVGV 159
Query: 226 SVAFGAPIGGVLFSLE 241
+ FGAPIGGVLFS+E
Sbjct: 160 ACTFGAPIGGVLFSIE 175
Score = 46.5 bits (111), Expect = 7e-05
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 1283 TRDVSLVVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDAHIMLNAYPFL 1337
T VS+ VI+FELTG + +++P++ A + S V L IYD+ I + P+L
Sbjct: 371 THTVSVAVIIFELTGQISHLLPVLIAVLISNAVAQFLQP-SIYDSIIKIKKLPYL 424
Score = 44.2 bits (105), Expect = 4e-04
Identities = 39/158 (24%), Positives = 59/158 (37%), Gaps = 49/158 (31%)
Query: 670 LMITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVSLVV-------- 721
L + +V+K VLT + VP G F V+
Sbjct: 295 LFLFIVVKFVLTALAITLPVPAG---------------------IFMPVFVIGAALGRLV 333
Query: 722 --IMFEL------TGGVRYIVP-----LMAAAMASKWHKKLKTLFRLSLVVIMFELTGGV 768
IM L G I P + AAA + +S+ VI+FELTG +
Sbjct: 334 GEIMAVLFPEGIRGGISNPIGPGGYAVVGAAAFSGA------VTHTVSVAVIIFELTGQI 387
Query: 769 RYIVPLMAAAMASKWVGDALGKQGIYDAHIMLNAYPFL 806
+++P++ A + S V L IYD+ I + P+L
Sbjct: 388 SHLLPVLIAVLISNAVAQFLQP-SIYDSIIKIKKLPYL 424
Score = 40.7 bits (96), Expect = 0.005
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 413 AYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEALT 453
L+Y+ ++A+ + +A + +P A GSGIPE T
Sbjct: 40 NSLLQYLVWVAYPVALVLFSALFCKYISPQAVGSGIPEMKT 80
>gnl|CDD|216046 pfam00654, Voltage_CLC, Voltage gated chloride channel. This
family of ion channels contains 10 or 12 transmembrane
helices. Each protein forms a single pore. It has been
shown that some members of this family form homodimers.
In terms of primary structure, they are unrelated to
known cation channels or other types of anion channels.
Three ClC subfamilies are found in animals. ClC-1 is
involved in setting and restoring the resting membrane
potential of skeletal muscle, while other channels play
important parts in solute concentration mechanisms in
the kidney. These proteins contain two pfam00571
domains.
Length = 345
Score = 133 bits (338), Expect = 7e-34
Identities = 51/130 (39%), Positives = 75/130 (57%), Gaps = 6/130 (4%)
Query: 123 LFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIMLAVSAGLSL 182
+ LA LV+ F A GSGIPE+ L G +G L L++K +G +L + +G SL
Sbjct: 1 IGGLLAGLLVKRFPEAA-GSGIPEVIAALHGV--KGPLPLRVLLVKFLGTLLTLGSGGSL 57
Query: 183 GKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEE 242
G+EGP V I + IG+ L + +R +++A AAAG++ AF AP+ GVLF+LEE
Sbjct: 58 GREGPSVQIGAAIGSGLGRRL---KLSRNDRRRLIAAGAAAGIAAAFNAPLAGVLFALEE 114
Query: 243 VSFFLFFRIF 252
+S +R
Sbjct: 115 LSRSFSYRAL 124
Score = 60.6 bits (148), Expect = 2e-09
Identities = 37/194 (19%), Positives = 59/194 (30%), Gaps = 60/194 (30%)
Query: 611 WSGWLCVLLVGLVTDKFIGCCNFFECFAFSDYVINHNATSTSNPTTSEAGPGVYTAVWLL 670
L L GL+ +G F G ++ LL
Sbjct: 195 LPPILRPALGGLL----VGLLGLF----------LPEVLGGGYGLIQLLLNGSTLSLLLL 240
Query: 671 MITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVSLVV--------- 721
++ L+LKL+ T + G P G F+ SL +
Sbjct: 241 LLLLLLKLLATALSLGSGAPGG---------------------IFAPSLFIGAALGRLLG 279
Query: 722 IMFELTGGVRYIVP--LMAAAMASKWHKKLKTLF----R--LSLVVIMFELTGGVRYIVP 773
++ L P MA+ R L+ +V++FELTG ++P
Sbjct: 280 LLLPLLFPGIAPSPGAFALLGMAA--------FLAGVTRAPLTAIVLVFELTGSYSLLLP 331
Query: 774 LMAAAMASKWVGDA 787
LM A + + V
Sbjct: 332 LMLAVLIAYLVSRL 345
Score = 51.8 bits (125), Expect = 1e-06
Identities = 27/123 (21%), Positives = 47/123 (38%), Gaps = 1/123 (0%)
Query: 120 WALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIMLAVSAG 179
L GL+ +F P G G I+ +L+G + L L++K + L++ +G
Sbjct: 199 LRPALGGLLVGLLGLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSG 258
Query: 180 LSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAF-GAPIGGVLF 238
G P + I + +G +L L P A + A AP+ ++
Sbjct: 259 APGGIFAPSLFIGAALGRLLGLLLPLLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVL 318
Query: 239 SLE 241
E
Sbjct: 319 VFE 321
Score = 46.0 bits (110), Expect = 8e-05
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 1286 VSLVVIMFELTGGVRYIVPLMAAAMASKWVGDA 1318
++ +V++FELTG ++PLM A + + V
Sbjct: 313 LTAIVLVFELTGSYSLLLPLMLAVLIAYLVSRL 345
>gnl|CDD|238504 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 = 115 bits (290), Expect = 4e-27
Identities = 52/133 (39%), Positives = 77/133 (57%), Gaps = 11/133 (8%)
Query: 117 FIAWALLFASLAAG------LVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSV 170
+L A LV+ FAP A GSGIP+++ +L+G L +K V
Sbjct: 34 PPLLLVLPLISAVLGLLAGWLVKKFAPEAKGSGIPQVEGVLAGL--LPPNWWRVLPVKFV 91
Query: 171 GIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFG 230
G +LA+ +GLSLG+EGP V I + IG +S F + ++R++++A AAAG++ AF
Sbjct: 92 GGVLALGSGLSLGREGPSVQIGAAIGQGVSKWFK---TSPEERRQLIAAGAAAGLAAAFN 148
Query: 231 APIGGVLFSLEEV 243
AP+ GVLF LEE+
Sbjct: 149 APLAGVLFVLEEL 161
Score = 47.5 bits (114), Expect = 4e-05
Identities = 34/142 (23%), Positives = 58/142 (40%), Gaps = 32/142 (22%)
Query: 665 TAVWLLMITLVLKLVLTVFTFGIKVPCGRLY--LALFEQNKQGTYLSFYFIYFSVSLVVI 722
++ LL++ VL+ + T+ ++G P G LAL G L L
Sbjct: 280 FSISLLLLIFVLRFIFTMLSYGSGAPGGIFAPMLAL------GALLG--------LLFGT 325
Query: 723 MFELTGGVRYIVP--LMAAAMASKWHKKLKTLF----RLSL--VVIMFELTGGVRYIVPL 774
+ G + P A MA+ F R + ++++ E+TG ++PL
Sbjct: 326 ILVQLGPIPISAPATFAIAGMAA--------FFAAVVRAPITAIILVTEMTGNFNLLLPL 377
Query: 775 MAAAMASKWVGDALGKQGIYDA 796
M + + V D LG + IY+A
Sbjct: 378 MVVCLVAYLVADLLGGKPIYEA 399
Score = 39.8 bits (94), Expect = 0.008
Identities = 13/39 (33%), Positives = 24/39 (61%)
Query: 1289 VVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDA 1327
++++ E+TG ++PLM + + V D LG + IY+A
Sbjct: 361 IILVTEMTGNFNLLLPLMVVCLVAYLVADLLGGKPIYEA 399
Score = 31.4 bits (72), Expect = 3.8
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 6/36 (16%)
Query: 421 FIAWALLFASLAAG------LVRMFAPYACGSGIPE 450
+L A LV+ FAP A GSGIP+
Sbjct: 34 PPLLLVLPLISAVLGLLAGWLVKKFAPEAKGSGIPQ 69
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 112 bits (283), Expect = 5e-26
Identities = 49/139 (35%), Positives = 71/139 (51%), Gaps = 7/139 (5%)
Query: 109 AYTLEYVFFIAWALLFASLAAG--LVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLI 166
A + + L G LV FAP A GSGIP+ L G R + L
Sbjct: 57 AAQAPGPWLLPLVPALGGLLVGALLVYKFAPEARGSGIPQAIEALHGRKGR--ISPRVLP 114
Query: 167 IKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVS 226
+K V +L + +G SLG+EGP V I + IG++L L + +R +L+A AAAG++
Sbjct: 115 VKLVATLLTIGSGASLGREGPSVQIGAAIGSLLGRLLKL---SREDRRILLAAGAAAGLA 171
Query: 227 VAFGAPIGGVLFSLEEVSF 245
AF AP+ G LF++E +
Sbjct: 172 AAFNAPLAGALFAIEVLYG 190
Score = 51.6 bits (124), Expect = 2e-06
Identities = 36/148 (24%), Positives = 62/148 (41%), Gaps = 19/148 (12%)
Query: 659 AGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYF--IYFS 716
AG G + LL +LKL+ T+ ++G P G +LF G L F +
Sbjct: 304 AGEGGLLVLLLL---FLLKLLATLLSYGSGAPGGIFAPSLF----IGAALGLAFGALLGL 356
Query: 717 VSLVVIMFELTGGVRYIVPLMAAAMASKWHKKLKTLFRLSLVVIMFELTGGVRYIVPLMA 776
+ I + + MAA +A+ L + +V++ E+TG + ++PL+
Sbjct: 357 LFPPSI----LEPGLFALLGMAAFLAATTRAPL------TAIVLVLEMTGNYQLLLPLLI 406
Query: 777 AAMASKWVGDALGKQGIYDAHIMLNAYP 804
A + + V LG + IY + P
Sbjct: 407 ACLIAYLVSRLLGGRPIYTQLLARRGAP 434
Score = 43.9 bits (104), Expect = 6e-04
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 1289 VVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYDAHIMLNAYP 1335
+V++ E+TG + ++PL+ A + + V LG + IY + P
Sbjct: 388 IVLVLEMTGNYQLLLPLLIACLIAYLVSRLLGGRPIYTQLLARRGAP 434
Score = 39.6 bits (93), Expect = 0.010
Identities = 22/125 (17%), Positives = 43/125 (34%), Gaps = 2/125 (1%)
Query: 118 IAWALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIMLAVS 177
L G + + P G+G I+ L+G L ++K + +L+
Sbjct: 270 PLLRPALGGLLVGALGLLFPEVLGNGYGLIQLALAGEGGLLVLL-LLFLLKLLATLLSYG 328
Query: 178 AGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGV-SVAFGAPIGGV 236
+G G P + I + +G L + + + A + AP+ +
Sbjct: 329 SGAPGGIFAPSLFIGAALGLAFGALLGLLFPPSILEPGLFALLGMAAFLAATTRAPLTAI 388
Query: 237 LFSLE 241
+ LE
Sbjct: 389 VLVLE 393
>gnl|CDD|238233 cd00400, Voltage_gated_ClC, CLC voltage-gated chloride channel. The
ClC chloride channels catalyse the selective flow of Cl-
ions across cell membranes, thereby regulating
electrical excitation in skeletal muscle and the flow of
salt and water across epithelial barriers. This domain
is found in the halogen ions (Cl-, Br- and I-) transport
proteins of the ClC family. The ClC channels are found
in all three kingdoms of life and perform a variety of
functions including cellular excitability regulation,
cell volume regulation, membrane potential
stabilization, acidification of intracellular
organelles, signal transduction, transepithelial
transport in animals, and the extreme acid resistance
response in eubacteria. They lack any structural or
sequence similarity to other known ion channels and
exhibit unique properties of ion permeation and gating.
Unlike cation-selective ion channels, which form
oligomers containing a single pore along the axis of
symmetry, the ClC channels form two-pore homodimers with
one pore per subunit without axial symmetry. Although
lacking the typical voltage-sensor found in cation
channels, all studied ClC channels are gated (opened and
closed) by transmembrane voltage. The gating is
conferred by the permeating ion itself, acting as the
gating charge. In addition, eukaryotic and some
prokaryotic ClC channels have two additional C-terminal
CBS (cystathionine beta synthase) domains of putative
regulatory function.
Length = 383
Score = 106 bits (268), Expect = 2e-24
Identities = 43/137 (31%), Positives = 69/137 (50%), Gaps = 7/137 (5%)
Query: 117 FIAWALLFASLAAGLVRMFAPYACGSGIPE-IKTILSGFIIRGYLGKWTLIIKSVGIMLA 175
+I + L GL+ A G GIPE I+ I G G L ++K + L
Sbjct: 39 YILLVPVIGGLLVGLLVRLLGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALT 95
Query: 176 VSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAPIGG 235
+ +G S+G+EGP+V I + IG+ L + RN+ +R +++ AAAG++ AF AP+ G
Sbjct: 96 LGSGGSVGREGPIVQIGAAIGSWLGRRL-RLSRND--RRILVACGAAAGIAAAFNAPLAG 152
Query: 236 VLFSLEEVSFFLFFRIF 252
LF++E +
Sbjct: 153 ALFAIEVLLGEYSVASL 169
Score = 47.2 bits (113), Expect = 4e-05
Identities = 33/119 (27%), Positives = 55/119 (46%), Gaps = 16/119 (13%)
Query: 665 TAVWLLMITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVSLVVIMF 724
++ LL++ L+LKL+ T T G P G +LF G L F +L +
Sbjct: 278 LSLLLLLLLLLLKLLATALTLGSGFPGGVFAPSLF----IGAALGAAFGLLLPALFPGLV 333
Query: 725 ELTGGVRYIVPLMAAAMASKWHKKLKTLFR--LSLVVIMFELTGGVRYIVPLMAAAMAS 781
G Y + MAA +A+ + R L+ ++++ ELTG ++PLM A + +
Sbjct: 334 ASPGA--YALVGMAALLAA--------VLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
Score = 41.0 bits (97), Expect = 0.003
Identities = 31/126 (24%), Positives = 47/126 (37%), Gaps = 8/126 (6%)
Query: 120 WALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIMLAVSAG 179
L GL+ +F P GSG I L+G + L L++K + L + +G
Sbjct: 243 LRPALGGLLLGLLGLFLPQVLGSGYGAILLALAGELSLLLLL-LLLLLKLLATALTLGSG 301
Query: 180 LSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAA----AAGVSVAFGAPIGG 235
G P + I + +G L P A A AA ++ AP+
Sbjct: 302 FPGGVFAPSLFIGAALGAAFGLLLPALFPGLV---ASPGAYALVGMAALLAAVLRAPLTA 358
Query: 236 VLFSLE 241
+L LE
Sbjct: 359 ILLVLE 364
Score = 33.7 bits (78), Expect = 0.67
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 1286 VSLVVIMFELTGGVRYIVPLMAAAMAS 1312
++ ++++ ELTG ++PLM A + +
Sbjct: 356 LTAILLVLELTGDYSLLLPLMLAVVIA 382
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 104 bits (261), Expect = 3e-23
Identities = 47/132 (35%), Positives = 70/132 (53%), Gaps = 10/132 (7%)
Query: 117 FIAWAL------LFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSV 170
+ W + + A + LVR FAP A GSGIPEI+ L G +R L +K
Sbjct: 41 LLLWIVAFLISAVLAMIGYFLVRRFAPEAGGSGIPEIEGALEG--LRPVRWWRVLPVKFF 98
Query: 171 GIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFG 230
G + + +G+ LG+EGP V + IG ++ +F +L+A AAAG++ AF
Sbjct: 99 GGLGTLGSGMVLGREGPTVQMGGNIGRMVLDIFRLRSDEAR--HTLLAAGAAAGLAAAFN 156
Query: 231 APIGGVLFSLEE 242
AP+ G+LF +EE
Sbjct: 157 APLAGILFVIEE 168
Score = 37.2 bits (87), Expect = 0.058
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 9/48 (18%)
Query: 421 FIAWAL------LFASLAAGLVRMFAPYACGSGIPE---ALTHPHSLH 459
+ W + + A + LVR FAP A GSGIPE AL +
Sbjct: 41 LLLWIVAFLISAVLAMIGYFLVRRFAPEAGGSGIPEIEGALEGLRPVR 88
>gnl|CDD|238506 cd01034, EriC_like, ClC chloride channel family. These protein
sequences, closely related to the ClC Eric family, are
putative halogen ion (Cl-, Br- and I-) transport
proteins found in eubacteria. They belong to the ClC
superfamily of chloride ion channels, which share a
unique double-barreled architecture and
voltage-dependent gating mechanism. This superfamily
lacks any structural or sequence similarity to other
known ion channels and exhibit unique properties of ion
permeation and gating. The voltage-dependent gating is
conferred by the permeating anion itself, acting as the
gating charge.
Length = 390
Score = 85.0 bits (211), Expect = 3e-17
Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 7/139 (5%)
Query: 118 IAWALLFASLA--AGLVRMFAPYACGSGIPEIKTIL---SGFIIRGYLGKWTLIIKSVGI 172
+ L A A A L R F P A GSGIP++ L S R L T + K +
Sbjct: 28 LPLLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGKILLT 87
Query: 173 MLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAP 232
+L + G S+G+EGP V I + + + PK +R ++ A AAG++ AF P
Sbjct: 88 LLGLLGGASVGREGPSVQIGAAVMLAIGRRLPK--WGGLSERGLILAGGAAGLAAAFNTP 145
Query: 233 IGGVLFSLEEVSFFLFFRI 251
+ G++F++EE+S R
Sbjct: 146 LAGIVFAIEELSRDFELRF 164
Score = 35.7 bits (83), Expect = 0.19
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 758 VVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYD 795
VI+ E+TG + ++PL+AAA+ + V + + +Y
Sbjct: 353 FVIVMEMTGDQQMLLPLLAAALLASGVSRLVCPEPLYH 390
Score = 35.7 bits (83), Expect = 0.19
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 1289 VVIMFELTGGVRYIVPLMAAAMASKWVGDALGKQGIYD 1326
VI+ E+TG + ++PL+AAA+ + V + + +Y
Sbjct: 353 FVIVMEMTGDQQMLLPLLAAALLASGVSRLVCPEPLYH 390
Score = 34.5 bits (80), Expect = 0.37
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 422 IAWALLFASLA--AGLVRMFAPYACGSGIPE---ALTHPHSLHSDPL 463
+ L A A A L R F P A GSGIP+ AL P + L
Sbjct: 28 LPLLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRL 74
>gnl|CDD|239964 cd04591, CBS_pair_EriC_assoc_euk_bac, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
eukaryotes and bacteria. These ion channels are proteins
with a seemingly simple task of allowing the passive
flow of chloride ions across biological membranes.
CIC-type chloride channels come from all kingdoms of
life, have several gene families, and can be gated by
voltage. The members of the CIC-type chloride channel
are double-barreled: two proteins forming homodimers at
a broad interface formed by four helices from each
protein. The two pores are not found at this interface,
but are completely contained within each subunit, as
deduced from the mutational analyses, unlike many other
channels, in which four or five identical or
structurally related subunits jointly form one pore. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Mutations of conserved residues within this domain in
CLC chloride channel family members have been associated
with classic Bartter syndrome, Osteopetrosis, Dent's
disease, idiopathic generalized epilepsy, and myotonia.
Length = 105
Score = 70.4 bits (173), Expect = 2e-14
Identities = 36/110 (32%), Positives = 49/110 (44%), Gaps = 38/110 (34%)
Query: 828 DPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRE-SQYLVGFVLRRDLNLAIANAKRTL 886
PL VL + MTV+D+E+LL T HNGFPVV S E S LVG++LR L +A
Sbjct: 1 VPLVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEESPRLVGYILRSQLVVA-------- 52
Query: 887 EGLRGDSIVRFVQNDTQPQPLPGAPPILRLDKILDMAPITITDQTPMETV 936
L +D +P T++ +T +E V
Sbjct: 53 -----------------------------LKNYIDPSPFTVSPRTSLEKV 73
Score = 38.0 bits (89), Expect = 0.004
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 11/64 (17%)
Query: 967 VQNDTQPQPLPGAPPILR------LDKILDMAPITITDQTPMETVVDMYKK---RSISVT 1017
V + + L G ILR L +D +P T++ +T +E V +++K R + V
Sbjct: 31 VDSTEESPRLVGY--ILRSQLVVALKNYIDPSPFTVSPRTSLEKVHQLFRKLGLRHLLVV 88
Query: 1018 NGQK 1021
+ +
Sbjct: 89 DEGR 92
>gnl|CDD|238505 cd01033, ClC_like, Putative ClC chloride channel. Clc proteins are
putative halogen ion (Cl-, Br- and I-) transporters
found in eubacteria. They belong to the ClC superfamily
of halogen ion channels, which share a unique
double-barreled architecture and voltage-dependent
gating mechanism. This superfamily lacks any structural
or sequence similarity to other known ion channels and
exhibit unique properties of ion permeation and gating.
The voltage-dependent gating is conferred by the
permeating anion itself, acting as the gating charge.
Length = 388
Score = 51.1 bits (123), Expect = 2e-06
Identities = 38/152 (25%), Positives = 62/152 (40%), Gaps = 10/152 (6%)
Query: 90 LLQWLTWAEVMGSNKEGFMAYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEIKT 149
+Q L + GS G A + +L L AGL + G + IK
Sbjct: 17 GVQHLAFGYSEGSFLTGVAAVSPIRRAL---SLTVGGLIAGLG-WYLLRRKGKKLVSIKQ 72
Query: 150 ILSGFIIRGYLGKWTLIIKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRN 209
+ G + W II +V ++ V G LG+E + + + S G
Sbjct: 73 AVRGKKRMPF---WETIIHAVLQIVTVGLGAPLGREVAPREVGALLAQRFSDWL---GLT 126
Query: 210 EAKKREILSAAAAAGVSVAFGAPIGGVLFSLE 241
A +R +++ AA AG++ + P+ G LF+LE
Sbjct: 127 VADRRLLVACAAGAGLAAVYNVPLAGALFALE 158
Score = 43.1 bits (102), Expect = 7e-04
Identities = 34/134 (25%), Positives = 55/134 (41%), Gaps = 22/134 (16%)
Query: 118 IAWALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIMLAVS 177
I W + A L GL+ +F P G+G + S + L L++K V +LA+
Sbjct: 239 ILWQMPLAFLVIGLLSIFFPQILGNGRALAQLAFSTTLTLSLLL-ILLVLKIVATLLALR 297
Query: 178 AGLSLGKEGPMVHIASCIGNIL----SYLFPKYGRNEAKKREILSAAAAAGV------SV 227
AG G P + + + +G +L + L P LS AA A + +
Sbjct: 298 AGAYGGLLTPSLALGALLGALLGIVWNALLP-----------PLSIAAFALIGAAAFLAA 346
Query: 228 AFGAPIGGVLFSLE 241
AP+ ++ LE
Sbjct: 347 TQKAPLTALILVLE 360
>gnl|CDD|239983 cd04610, CBS_pair_ParBc_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a ParBc (ParB-like nuclease) domain
downstream. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 107
Score = 44.7 bits (106), Expect = 2e-05
Identities = 20/38 (52%), Positives = 26/38 (68%), Gaps = 3/38 (7%)
Query: 838 MTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
TV+DV L+KET H+GFPVV + + +VG V RDL
Sbjct: 11 NTVKDVIKLIKETGHDGFPVVDNGK---VVGIVSARDL 45
>gnl|CDD|217459 pfam03258, Baculo_FP, Baculovirus FP protein. The FP protein is
missing in baculovirus (Few Polyhedra) mutants.
Length = 214
Score = 47.4 bits (113), Expect = 2e-05
Identities = 30/101 (29%), Positives = 49/101 (48%), Gaps = 27/101 (26%)
Query: 1066 IVVRLSNTSVRDKWTTASRSKQLYKEKIYIN-------------EH--LTKANQDLLFKA 1110
IVV+L++ + +W T SR +L + I+ EH L K +D L
Sbjct: 92 IVVKLTDAATAREWQTRSREVRLKNYDLDIDYDGPVKIFVAASPEHKQLLKKTRDALLPH 151
Query: 1111 KKLKEANGYKFVWVRDCK--IMIRKNESSRIYVIRNVRDLE 1149
YK+V + CK +M+R+NE S+IY+++N D+
Sbjct: 152 --------YKYVSL--CKNGVMVRRNEKSKIYIVKNENDIY 182
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 47.4 bits (113), Expect = 4e-05
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 7/78 (8%)
Query: 168 KSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYL--FPKYGRNEAKKREILSAAAAAGV 225
+S +L + +G S+G+EGPMV +A+ +++ F + R +++ AAAG+
Sbjct: 121 RSASSLLTIGSGGSIGREGPMVQLAALAASLVGRFAHFDP-----PRLRLLVACGAAAGI 175
Query: 226 SVAFGAPIGGVLFSLEEV 243
+ A+ API G F E V
Sbjct: 176 TSAYNAPIAGAFFVAEIV 193
Score = 33.2 bits (76), Expect = 1.2
Identities = 31/145 (21%), Positives = 58/145 (40%), Gaps = 33/145 (22%)
Query: 660 GPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCG----RLYL-----ALFEQNKQGTYLSF 710
P + A+ + LV KL+ T T G G L++ +LF +
Sbjct: 309 APWTWQALVAV---LVAKLIATAATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGH 365
Query: 711 YFIYFSVSLVVIMFELTGGVRYIVPLMAAAMASKWHKKLKTLFRLSLVVIMFELTGGVRY 770
F+ ++V + L G + PLMA ++++FE+T +
Sbjct: 366 TSAPFAYAMVGMGAFLAGATQ--APLMA-------------------ILMIFEMTLSYQV 404
Query: 771 IVPLMAAAMASKWVGDALGKQGIYD 795
++PLM + + + + ALG +Y+
Sbjct: 405 VLPLMVSCVVAYFTARALGTTSMYE 429
>gnl|CDD|214522 smart00116, CBS, Domain in cystathionine beta-synthase and other
proteins. Domain present in all 3 forms of cellular
life. Present in two copies in inosine monophosphate
dehydrogenase, of which one is disordered in the crystal
structure. A number of disease states are associated
with CBS-containing proteins including homocystinuria,
Becker's and Thomsen disease.
Length = 49
Score = 40.2 bits (95), Expect = 1e-04
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 832 VLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIA 880
V T+++ LL+E PVV LVG V RRD+ A+A
Sbjct: 3 VTVSPDTTLEEALELLRENGIRRLPVVDEE--GRLVGIVTRRDIIKALA 49
>gnl|CDD|239067 cd02205, CBS_pair, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 40.9 bits (96), Expect = 5e-04
Identities = 23/72 (31%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 827 SDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIANAKRTL 886
D ++V TV + L+ E +G PVV + LVG V RDL A+A
Sbjct: 1 RDVVTV--SPDDTVAEALRLMLEHGISGLPVV--DDDGRLVGIVTERDLLRALAEGGLDP 56
Query: 887 EGLRGDSIVRFV 898
GD + R V
Sbjct: 57 LVTVGDVMTRDV 68
Score = 29.7 bits (67), Expect = 3.6
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 7/68 (10%)
Query: 808 SKEEFASTALASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLV 867
++ DVM D ++V S +++ L+ E PVV + LV
Sbjct: 50 AEGGLDPLVTVGDVMTR---DVVTVSPDTS--LEEAAELMLEHGIRRLPVV--DDEGRLV 102
Query: 868 GFVLRRDL 875
G V R D+
Sbjct: 103 GIVTRSDI 110
>gnl|CDD|239654 cd03682, ClC_sycA_like, ClC sycA-like chloride channel proteins.
This ClC family presents in bacteria, where it
facilitates acid resistance in acidic soil. Mutation of
this gene (sycA) in Rhizobium tropici CIAT899 causes
serious deficiencies in nodule development, nodulation
competitiveness, and N2 fixation on Phaseolus vulgaris
plants, due to its reduced ability for acid resistance.
This family is part of the ClC chloride channel
superfamiy. These proteins catalyse the selective flow
of Cl- ions across cell membranes and Cl-/H+ exchange
transport. These proteins share two characteristics that
are apparently inherent to the entire ClC chloride
channel superfamily: a unique double-barreled
architecture and voltage-dependent gating mechanism. The
gating is conferred by the permeating anion itself,
acting as the gating charge.
Length = 378
Score = 43.3 bits (103), Expect = 6e-04
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 179 GLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLF 238
G S G+EG V + + + +F E +R +L A AAG + FG P+ G +F
Sbjct: 92 GGSAGREGTAVQMGGSLADAFGRVFK---LPEEDRRILLIAGIAAGFAAVFGTPLAGAIF 148
Query: 239 SLE 241
+LE
Sbjct: 149 ALE 151
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 43.2 bits (102), Expect = 8e-04
Identities = 26/80 (32%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 166 IIKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAKKREILSAAAAAGV 225
++KS+ +L V++G ++G+EG M+ +A+ + + F R E K ++ AAAG+
Sbjct: 101 LVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQRFTP--RQEWKL--WIACGAAAGM 156
Query: 226 SVAFGAPIGGVLFSLEEVSF 245
+ A+ AP+ G LF + E+ F
Sbjct: 157 ASAYHAPLAGSLF-IAEILF 175
>gnl|CDD|201313 pfam00571, CBS, CBS domain. CBS domains are small intracellular
modules that pair together to form a stable globular
domain. This family represents a single CBS domain.
Pairs of these domains have been termed a Bateman
domain. CBS domains have been shown to bind ligands with
an adenosyl group such as AMP, ATP and S-AdoMet. CBS
domains are found attached to a wide range of other
protein domains suggesting that CBS domains may play a
regulatory role making proteins sensitive to adenosyl
carrying ligands. The region containing the CBS domains
in Cystathionine-beta synthase is involved in regulation
by S-AdoMet. CBS domain pairs from AMPK bind AMP or ATP.
The CBS domains from IMPDH and the chloride channel CLC2
bind ATP.
Length = 57
Score = 38.3 bits (90), Expect = 0.001
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 818 ASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNL 877
D+M P D ++V ++++ L++E + PVV E LVG V RDL
Sbjct: 1 VKDIMTP---DVVTV--PPDTSLEEALELMRENGISRLPVV--DEDGKLVGIVTLRDLLR 53
Query: 878 AIAN 881
A+
Sbjct: 54 ALLE 57
>gnl|CDD|226594 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 41.6 bits (98), Expect = 0.003
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 9/69 (13%)
Query: 817 LASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLN 876
D+M P + S L ++ TV+D L+++T H+ FPVV S +VG V RD
Sbjct: 189 TVEDIMTP--LEDTSYLR-ETDTVEDWLDLVEKTGHSRFPVV--NRSMKVVGVVTMRD-- 241
Query: 877 LAIANAKRT 885
+ + K +
Sbjct: 242 --VLDKKPS 248
>gnl|CDD|239985 cd04612, CBS_pair_SpoIVFB_EriC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 111
Score = 37.2 bits (87), Expect = 0.009
Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 837 SMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIANAKRT 885
+TV +V L+ H G+PVV LVG V D+ A +
Sbjct: 9 DLTVDEVLALMFGERHRGYPVVDDGR---LVGIVTLADIRRVPAEGREA 54
>gnl|CDD|239969 cd04596, CBS_pair_DRTGG_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 108
Score = 36.8 bits (86), Expect = 0.011
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 836 DSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIANAKRT 885
+ TV+D L KET H+ FPVV E +VG V +D +A
Sbjct: 9 TTDTVKDWHELNKETGHSRFPVV--DEKNKVVGIVTSKD----VAGKDPD 52
>gnl|CDD|239968 cd04595, CBS_pair_DHH_polyA_Pol_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with an upstream DHH domain which
performs a phosphoesterase function and a downstream
polyA polymerase domain. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 35.7 bits (83), Expect = 0.030
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 9/64 (14%)
Query: 838 MTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIANAKRTLEGLRGDSIVRF 897
T+++ LL H PVV E +VG + RRD+ A+ + GL + +
Sbjct: 11 ATIEEARELLLRYGHTALPVV---EGGRVVGIISRRDVEKALRH------GLGHAPVKDY 61
Query: 898 VQND 901
+ D
Sbjct: 62 MSTD 65
>gnl|CDD|239974 cd04601, CBS_pair_IMPDH, This cd contains two tandem repeats of the
cystathionine beta-synthase (CBS pair) domains in the
inosine 5' monophosphate dehydrogenase (IMPDH) protein.
IMPDH is an essential enzyme that catalyzes the first
step unique to GTP synthesis, playing a key role in the
regulation of cell proliferation and differentiation.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 110
Score = 35.5 bits (83), Expect = 0.035
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 827 SDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
DP++V + D TV + L+ E +G PVV + LVG V RDL
Sbjct: 2 RDPITV-SPD-ATVAEALELMAEYGISGLPVV--DDDGKLVGIVTNRDL 46
>gnl|CDD|240006 cd04635, CBS_pair_22, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 35.1 bits (81), Expect = 0.053
Identities = 25/116 (21%), Positives = 47/116 (40%), Gaps = 29/116 (25%)
Query: 820 DVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAI 879
+ + DP+S V L+ E+ G PVV +++ L+G + RRD+
Sbjct: 2 EPVTCTPDDPVSK----------VWDLMLESGFTGLPVV--QKAGELIGIITRRDI---- 45
Query: 880 ANAKRTLEGLRGDSIVRFVQNDTQPQPLPGAPPILRLDKILDMAPITITDQTPMET 935
+R S+ V++ + Q A P ++KI+ ++T + T
Sbjct: 46 ---------IRAGSVRTSVEDQQRTQTK--ASP--TVEKIMSTPVYSVTPDDSIAT 88
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 35.1 bits (81), Expect = 0.055
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 821 VMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
V D ++V +V+D L+ E + PVV + LVG + RD+
Sbjct: 1 VKDIMTKDVITVK--PDTSVRDALLLMSENGVSAVPVV---DDGKLVGIITERDI 50
Score = 29.0 bits (65), Expect = 6.0
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 5/68 (7%)
Query: 808 SKEEFASTALASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLV 867
+VM P+ + D+ +++ L+ E VV + LV
Sbjct: 54 LAAGGKRLLPVKEVMTK----PVVTVDPDT-PLEEALELMVERHKIRRLPVVDDDGGKLV 108
Query: 868 GFVLRRDL 875
G + D+
Sbjct: 109 GIITLSDI 116
>gnl|CDD|239986 cd04613, CBS_pair_SpoIVFB_EriC_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 114
Score = 32.9 bits (76), Expect = 0.25
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 810 EEFASTALASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGF 869
+ASD+M P+ V +DS+ D +++++ PVV + L G
Sbjct: 52 PSLYDLVVASDIMTK---PPVVVYPEDSLE--DALKKFEDSDYEQLPVVDDDPGKLL-GI 105
Query: 870 VLRRDL 875
+ R DL
Sbjct: 106 LSRSDL 111
>gnl|CDD|240009 cd04638, CBS_pair_25, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 106
Score = 31.2 bits (71), Expect = 0.88
Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 839 TVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
T DV LLKE + +G PVV ++S LVG + R+DL
Sbjct: 11 TRDDVLELLKEYKVSGVPVV--KKSGELVGIITRKDL 45
>gnl|CDD|217327 pfam03030, H_PPase, Inorganic H+ pyrophosphatase. The H+
pyrophosphatase is an transmembrane proton pump involved
in establishing the H+ electrochemical potential
difference between the vacuole lumen and the cell
cytosol. Vacuolar-type H(+)-translocating inorganic
pyrophosphatases have long been considered to be
restricted to plants and to a few species of
photo-trophic bacteria. However, in recent
investigations, these pyrophosphatases have been found
in organisms as disparate as thermophilic Archaea and
parasitic protists.
Length = 669
Score = 33.2 bits (77), Expect = 1.2
Identities = 32/107 (29%), Positives = 49/107 (45%), Gaps = 12/107 (11%)
Query: 153 GFIIRGYLGKWTLIIKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYLFPKYGRNEAK 212
F+ R Y T+ I ++LAV G LG G + IA +G +LS L G A
Sbjct: 38 AFLKRQYK---TIAI--FAVVLAVLLGFLLGTLGWLTAIAFLLGALLSALAGYIGMRVAT 92
Query: 213 KREILSAAAA-----AGVSVAF--GAPIGGVLFSLEEVSFFLFFRIF 252
+ + +A AA + VAF GA +G ++ L + L + +F
Sbjct: 93 RANVRTAEAARKGLGKALKVAFRGGAVMGLLVVGLGLLGLSLLYLLF 139
>gnl|CDD|233190 TIGR00926, 2A1704, Peptide:H+ symporter (also transports b-lactam
antibiotics, the antitumor agent, bestatin, and various
protease inhibitors). [Transport and binding proteins,
Amino acids, peptides and amines].
Length = 641
Score = 33.2 bits (76), Expect = 1.2
Identities = 27/95 (28%), Positives = 37/95 (38%), Gaps = 10/95 (10%)
Query: 706 TYLSFYFIYF---SVSLVVIMFELTGGVRYIVPLMAAAMASKWHKKLKTLFRLSLV---V 759
T L Y + F + ++ + Y+ PL+ A +A W K KT+ LSLV
Sbjct: 8 TILVLYLLNFLGWNEDTATNIYHTFTYLCYLTPLIGALIADSWLGKFKTILYLSLVYVVG 67
Query: 760 IMFELTGGVRYIV-PLMAAAMASKWVGDALGKQGI 793
G V + PL A VG AL G
Sbjct: 68 HALASLGAVPSLGHPLHD---ALSLVGLALIALGT 99
>gnl|CDD|227253 COG4916, COG4916, Uncharacterized protein containing a TIR
(Toll-Interleukin 1-resistance) domain [Function
unknown].
Length = 329
Score = 32.3 bits (73), Expect = 1.9
Identities = 18/77 (23%), Positives = 23/77 (29%), Gaps = 6/77 (7%)
Query: 845 TLLKETEHNGFPVVVSRESQYLVGFVLRRDLNLAIANAKRTLEGLRGDSIVRFVQNDTQP 904
LL+E H VV S E G + + + GL RF
Sbjct: 158 ILLREPIHATVTVVDSSEKPVDSGISFAGEARNLVEQVQTEHSGLDIP-TRRFYDLLVAH 216
Query: 905 QPLPGAPPILRLDKILD 921
PG+ L LD
Sbjct: 217 PLYPGS-----LVSTLD 228
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 32.1 bits (74), Expect = 2.2
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 827 SDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
+DP++V T D T+ + L+ +G PVV E+ LVG + RD+
Sbjct: 95 TDPVTV-TPD-TTLAEALALMARYGISGVPVV--DENGKLVGIITNRDV 139
>gnl|CDD|239963 cd04590, CBS_pair_CorC_HlyC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the CorC_HlyC domain. CorC_HlyC
is a transporter associated domain. This small domain is
found in Na+/H+ antiporters, in proteins involved in
magnesium and cobalt efflux, and in association with
some proteins of unknown function. The function of the
CorC_HlyC domain is uncertain but it might be involved
in modulating transport of ion substrates. CBS is a
small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
The second CBS domain in this CD is degenerate.
Length = 111
Score = 30.2 bits (69), Expect = 2.6
Identities = 11/40 (27%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 837 SMTVQDVETLLKETEHNGFPVVVSRES-QYLVGFVLRRDL 875
T++++ L+ E+ H+ FPV ++G V +DL
Sbjct: 9 DDTLEEILELIAESGHSRFPVY--DGDLDNIIGVVHVKDL 46
>gnl|CDD|218705 pfam05702, Herpes_UL49_5, Herpesvirus UL49.5 envelope/tegument
protein. UL49.5 protein consists of 98 amino acids with
a calculated molecular mass of 10,155 Da. It contains
putative signal peptide and transmembrane domains but
lacks a consensus sequence for N glycosylation. UL49.5
protein is an O-glycosylated structural component of the
viral envelope.
Length = 98
Score = 29.8 bits (67), Expect = 2.6
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 218 SAAAAAGVSVAFGAPIGGVLF---------SLEEVSFFLFFRIFHLEMEGRR 260
+A +A GVS+AF VLF +L ++ FR+F M R
Sbjct: 47 AACSARGVSIAFS-SGASVLFYISLLAVIVALLAGAYNACFRLFTASMFRSR 97
>gnl|CDD|236904 PRK11387, PRK11387, S-methylmethionine transporter; Provisional.
Length = 471
Score = 31.7 bits (72), Expect = 2.9
Identities = 28/75 (37%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 91 LQWLTWAEVMGSN--KEGF-MAYTLEYVFFIAWALLFASLAAGL----VRMFAPYACGSG 143
L WLTW +GS+ GF M Y V W LLF +L GL R FA
Sbjct: 100 LYWLTWTVALGSSLTAAGFCMQYWFPQVPVWPWCLLFCALIFGLNVVSTRFFAEGEFWFS 159
Query: 144 IPEIKTILSGFIIRG 158
+ ++ TIL+ FI+ G
Sbjct: 160 LIKVVTILA-FIVLG 173
>gnl|CDD|215154 PLN02274, PLN02274, inosine-5'-monophosphate dehydrogenase.
Length = 505
Score = 31.6 bits (72), Expect = 3.3
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 819 SDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFVLRRDL 875
S+VM D V + +++ E +LK+++ P+V E LV V R D+
Sbjct: 166 SEVMTS---DDDLVTAPAGIDLEEAEAVLKDSKKGKLPLV--NEDGELVDLVTRTDV 217
>gnl|CDD|219524 pfam07698, 7TM-7TMR_HD, 7TM receptor with intracellular HD
hydrolase. These bacterial 7TM receptor proteins have
an intracellular pfam01966. This entry corresponds to
the 7 helix transmembrane domain. These proteins also
contain an N-terminal extracellular domain.
Length = 189
Score = 30.6 bits (70), Expect = 3.4
Identities = 26/124 (20%), Positives = 46/124 (37%), Gaps = 23/124 (18%)
Query: 667 VWLLMITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVSLVVIMFEL 726
L + LVL L+ + + R L ++NK L + +SL++
Sbjct: 3 PLLGLFLLVLLLLGVLLLYLR-----RFRPELRKRNK---KLLLLSLILILSLLLAKLIS 54
Query: 727 TGGVRYIVPLMAAAMASKWHKKLKTLF--RLSLVV-------IMFELTGGVRYIVPLMAA 777
+ Y+VPL AA M L L RL+LVV + + +++ +
Sbjct: 55 LISIPYLVPLAAAPML------LAILLGSRLALVVSVLLALLLGLMFGNNLEFLLYALLG 108
Query: 778 AMAS 781
+
Sbjct: 109 GLVG 112
>gnl|CDD|239975 cd04602, CBS_pair_IMPDH_2, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the inosine 5' monophosphate dehydrogenase (IMPDH)
protein. IMPDH is an essential enzyme that catalyzes
the first step unique to GTP synthesis, playing a key
role in the regulation of cell proliferation and
differentiation. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown. Mutations of
conserved residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 114
Score = 29.9 bits (68), Expect = 3.4
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 5/50 (10%)
Query: 828 DPLSVLTQDSMTVQDVETLLKETEHNGFPV--VVSRESQYLVGFVLRRDL 875
DP SVL+ D TV DV + ++ +G PV + L+G V RD+
Sbjct: 3 DP-SVLSPDH-TVADVLEIKEKKGFSGIPVTEDGKSGGK-LLGIVTSRDI 49
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 31.5 bits (72), Expect = 3.5
Identities = 23/112 (20%), Positives = 44/112 (39%), Gaps = 17/112 (15%)
Query: 811 EFASTALASDVMQPKHSDPLSVLTQDSMTVQDVETLLKETEHNGFPVVVSRESQYLVGFV 870
+ ++M P+ + L TV+++ L+ E+ H+ P V + ++G V
Sbjct: 202 DLDDR-TVREIMTPRTD--IVALDLTD-TVEELIELILESGHSRIP-VYDGDLDNIIGIV 256
Query: 871 LRRDLNLAIANAKRTLEGLRGDSIVRFVQNDTQPQPLPGAPPILRLDKILDM 922
+DL A+ + + L +VR P P L L +L+
Sbjct: 257 HVKDLLRALLDGQSD---LDLRVLVR---------PPLFVPETLSLSDLLEE 296
>gnl|CDD|217401 pfam03169, OPT, OPT oligopeptide transporter protein. The OPT
family of oligopeptide transporters is distinct from the
ABC pfam00005 and PTR pfam00854 transporter families.
OPT transporters were first recognised in fungi (Candida
albicans and Schizosaccharomyces pombe), but this
alignment also includes orthologues from Arabidopsis
thaliana. OPT transporters are thought to have 12-14
transmembrane domains and contain the following motif:
SPYxEVRxxVxxxDDP.
Length = 619
Score = 31.1 bits (71), Expect = 5.0
Identities = 25/143 (17%), Positives = 46/143 (32%), Gaps = 19/143 (13%)
Query: 91 LQWLTWAEVMGSNKEGFMAYTLEYVFF---IAWALLFASLAAGLVRMFAPYACGSGIPEI 147
L L A + FF +AW + GL + G +
Sbjct: 483 LNLLNQAYGCTGAQGDSWTCPAPQAFFSAAVAW-GVIGGKRFGLPYYALLWGFLVGA--V 539
Query: 148 KTILSGFIIRGYLGKWTLIIKSVGIMLAVSAGLSLGK-EGPMVHIASCIGNILSYLFPKY 206
+L L+ K + LA + ++G P + A +G + +Y +
Sbjct: 540 APVLD-----------WLLHKRLPRSLAFAGAGTIGPYLPPSLTSAILVGGLFNYYVRRR 588
Query: 207 GRNEAKKREILSAAA-AAGVSVA 228
+ +K + AA AG ++
Sbjct: 589 RKAWWRKYNYVLAAGLIAGEALM 611
>gnl|CDD|227120 COG4781, COG4781, Membrane domain of membrane-anchored
glycerophosphoryl diester phosphodiesterase [Energy
production and conversion].
Length = 340
Score = 30.8 bits (70), Expect = 5.2
Identities = 26/144 (18%), Positives = 55/144 (38%), Gaps = 20/144 (13%)
Query: 661 PGVYTAVWLLMITLVLKLVL-TVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVSL 719
++ ++L++ +L L V T I +P + G +L F+
Sbjct: 124 QLLFFVFYILLLIPFARLGLSIVLTNKIYIP--EFITEELMKTTWGWWLLILFL------ 175
Query: 720 VVIMFELTGGVRYIVPLM-------AAAMASKWHKKLKTLFRLSLVVIMFELTGGVRYIV 772
++F ++ + + +PL+ A+ W K K +F L+ + + L + +
Sbjct: 176 -ALIFYISVRLIFALPLIILDQLTVREAIRESWKKTKKNVFFLAWKLFLILLKIILLLSL 234
Query: 773 PLMAAAMASKWV---GDALGKQGI 793
+ +A V G+AL I
Sbjct: 235 IISGILLAQDLVDKIGEALIVAII 258
>gnl|CDD|130218 TIGR01148, mtrC, N5-methyltetrahydromethanopterin:coenzyme M
methyltransferase subunit C. This model describes
N5-methyltetrahydromethanopterin: coenzyme M
methyltransferase subunit C in methanogenic archaea.
This methyltranferase is membrane-associated enzyme
complex that uses methyl-transfer reaction to drive
sodium-ion pump. Archaea have evolved energy-yielding
pathways marked by one-carbon biochemistry featuring
novel cofactors and enzymes. This transferase is
involved in the transfer of 'methyl' group from
N5-methyltetrahydromethanopterin to coenzyme M. In an
accompanying reaction, methane is produced by
two-electron reduction of the methyl moiety in
methyl-coenzyme M by another enzyme methyl-coenzyme M
reductase [Energy metabolism, Other].
Length = 265
Score = 30.5 bits (69), Expect = 5.7
Identities = 35/136 (25%), Positives = 46/136 (33%), Gaps = 40/136 (29%)
Query: 117 FIAWA-LLFASLA--------AGLVRMFAPYACGSGIPEIKTILSGFIIRGYLGKWTLII 167
F A L L A VR A Y G+G+P I G +
Sbjct: 36 FFPPAGPLIGGLGAICATVWGADAVRRVASYGLGTGVPSI----------GMMS------ 79
Query: 168 KSVGIMLAVSAGLSLGKEGPMVH---IASCIGNILSYLFPKYGRNEAKKR---------E 215
+GI LA AGL+LG P + IA + I+ + + E
Sbjct: 80 LGMGI-LAAVAGLALGGNTPAIAAPIIALVVAAIIGGVVGVLANKVIGMKIPIMERCMTE 138
Query: 216 ILSAAAAA--GVSVAF 229
I A A G+SVA
Sbjct: 139 ISCAGTLALLGLSVAI 154
>gnl|CDD|201894 pfam01630, Glyco_hydro_56, Hyaluronidase.
Length = 339
Score = 30.8 bits (70), Expect = 5.8
Identities = 8/33 (24%), Positives = 12/33 (36%)
Query: 64 PLQQHQQHFYYDILNNYEDVNKPGGVLLQWLTW 96
L H DI + D + G ++ W W
Sbjct: 82 SLTAHLAKAKKDIEHYIPDPDFNGLAVIDWEEW 114
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 30.8 bits (70), Expect = 6.1
Identities = 20/103 (19%), Positives = 37/103 (35%), Gaps = 12/103 (11%)
Query: 106 GFMAYTLEYVFFIAW------ALLFASLAAGLVRMFAPYACGSGIPEIKTILSGFIIRGY 159
G + + V LL+ + GL+ + S + + + F G
Sbjct: 473 GLLLGFINRVRSGDIKGAILPQLLWLLIILGLL-LLILGYKWSVPELLGMVGAMFGAFGI 531
Query: 160 LGKWTLIIKSVGIMLAVSAGLSLGKEGPMVHIASCIGNILSYL 202
LG L++ VG++L + S + ++LSYL
Sbjct: 532 LG---LLV--VGLILVPGLVAIGQGILGFEGVLSLLSDVLSYL 569
>gnl|CDD|131901 TIGR02854, spore_II_GA, sigma-E processing peptidase SpoIIGA.
Members of this protein family are the stage II
sporulation protein SpoIIGA. This protein acts as an
activating protease for Sigma-E, one of several
specialized sigma factors of the sporulation process in
Bacillus subtilis and related endospore-forming bacteria
[Cellular processes, Sporulation and germination].
Length = 288
Score = 30.0 bits (68), Expect = 8.0
Identities = 31/124 (25%), Positives = 40/124 (32%), Gaps = 23/124 (18%)
Query: 117 FIAWALLFASLAAGL--VRMFAPYACGSGIPEIKTILSGFIIRGYLGK--WTLIIKSVGI 172
W LL A+L L + MF P A P K + S II G +K + +
Sbjct: 31 VSQWRLLLAALIGSLYVLFMFTPKASFFTSPIAKLLYSFLIIFIAFGPKSLRFFLKLLFL 90
Query: 173 MLAVS---AG---------------LSLGKEGPMVHIAS-CIGNILSYLFPKYGRNEAKK 213
VS G L G V IG + Y F K + +
Sbjct: 91 FYFVSFATGGGLFALHFFLATNEPALFNAFIGDGVSWKFILIGFPILYYFVKRRMDAIRD 150
Query: 214 REIL 217
R IL
Sbjct: 151 RAIL 154
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 30.4 bits (69), Expect = 8.5
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 2/67 (2%)
Query: 659 AGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTY--LSFYFIYFS 716
A P A LL+ L L L+ + G Y AL ++ + L + I
Sbjct: 38 ASPVRKRAWLLLIGILALILLSVRGQVLLNDWNGPFYNALARRDLAAFWQQLQVFAIIAG 97
Query: 717 VSLVVIM 723
+ +++ +
Sbjct: 98 LLVLLNV 104
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 30.3 bits (69), Expect = 9.2
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 18/75 (24%)
Query: 662 GVYTAVWLLMIT---LVLKLVLTVFTFGIKVPCGRLYLALFEQNKQGTYLSFYFIYFSVS 718
G+Y AVW ++ ++LK VLT + L+ + S +Y+ +
Sbjct: 44 GLYRAVWRASVSDLFIILKAVLTSALVSL------LFFSTRT----DLPRSVVLVYWLLL 93
Query: 719 LVVIMFELTGGVRYI 733
V+I G R +
Sbjct: 94 FVLI-----GASRLL 103
>gnl|CDD|185014 PRK15054, PRK15054, nitrate reductase 2 subunit delta; Provisional.
Length = 231
Score = 29.5 bits (66), Expect = 9.6
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 350 WSSNETSF-EDTGNCSQPKPLQQHQQHFHYDILNNYEDVN 388
W + F ED PL Q+Q+ F D+ Y D++
Sbjct: 187 WEEEQVKFIEDNATACDSSPLNQYQRRFSQDVAPQYVDIS 226
>gnl|CDD|236246 PRK08344, PRK08344, V-type ATP synthase subunit K; Validated.
Length = 157
Score = 29.0 bits (65), Expect = 9.8
Identities = 20/71 (28%), Positives = 26/71 (36%), Gaps = 10/71 (14%)
Query: 118 IAWALLFASLAAGLVRMFAPYA----CGSGIPEI-----KTILSGFIIRGYLGKWTLIIK 168
A ALL A L GL + + C SGI + KT I+ Y I
Sbjct: 87 KALALLGAGLLVGLAELLSAIPQGIICASGIGALPRTPGKTFTQTIILAAYAELMG-IFG 145
Query: 169 SVGIMLAVSAG 179
V +L +S
Sbjct: 146 LVFAILGLSLI 156
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
0.322 0.137 0.423
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 70,341,129
Number of extensions: 7106079
Number of successful extensions: 6578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6522
Number of HSP's successfully gapped: 143
Length of query: 1359
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1250
Effective length of database: 6,103,016
Effective search space: 7628770000
Effective search space used: 7628770000
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 (21.9 bits)
S2: 65 (28.6 bits)