RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 003801
(794 letters)
>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 = 470 bits (1212), Expect = e-159
Identities = 175/335 (52%), Positives = 234/335 (69%)
Query: 65 ESLDYEIAENDFFKEDWRTRGRNQMIQYIFMKWSLCFLIGLIVGLIGFLNNLAVENIAGT 124
ESLDYE+ END F+E+WR R + Q++QY F+KW +C LIG+ GL+ + +LAVEN+AG
Sbjct: 1 ESLDYEVIENDLFREEWRKRKKKQVLQYEFLKWIICLLIGIFTGLVAYFIDLAVENLAGL 60
Query: 125 KFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTATVAPVAAGSGIPEVKAYLNGVDA 184
KF+V N + + AFL + NLVL L A+++ A +AP AAGSGIPEVK YLNGV
Sbjct: 61 KFLVVKNYIEKGRLFTAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKI 120
Query: 185 PGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRF 244
P IL +TL++KI+G I +VS L +GK GPM+H GAC+A+ L QGGS L ++W R+
Sbjct: 121 PHILRLKTLLVKIVGVILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRY 180
Query: 245 FKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMASWWRSALLWRAFFTTAIVAILL 304
F+NDRD+RDFVTCG+AAG+AAAF APVGG+LF++EE+AS+W AL WR FF++ IV L
Sbjct: 181 FRNDRDKRDFVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTL 240
Query: 305 RAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVPLVLLLGVVGGILGSLYNFLLDK 364
F+ C SGKCGLFG GGLIM+D S Y ++ +L+GV+GG+LG+L+N L K
Sbjct: 241 NFFLSGCNSGKCGLFGPGGLIMFDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNHLNHK 300
Query: 365 VLRIYNFINEKGIAPKIFLACTISILTSCLLFGLP 399
V R IN KG K+ A +S++TS + F
Sbjct: 301 VTRFRKRINHKGKLLKVLEALLVSLVTSVVAFPQT 335
Score = 175 bits (447), Expect = 9e-48
Identities = 73/126 (57%), Positives = 98/126 (77%), Gaps = 3/126 (2%)
Query: 464 SSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGS---HSNLNHGLYA 520
++LIFFV + L+ ++GI P+GLF+P I+ GA+YGR VG+L+GS ++++ GLYA
Sbjct: 334 QTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVGILLGSYFGFTSIDPGLYA 393
Query: 521 VLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVADAFNGNIYDLIMKA 580
+LGAA+FLGG MRMTVSL VI+LELTNNL LP IMLVL+I+K V D FN IYD+I++
Sbjct: 394 LLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNEGIYDIIIQL 453
Query: 581 KGFPYL 586
KG P+L
Sbjct: 454 KGVPFL 459
>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 = 261 bits (668), Expect = 5e-79
Identities = 150/512 (29%), Positives = 245/512 (47%), Gaps = 96/512 (18%)
Query: 104 GLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTATV 163
G+ +GLI L ++ ++ K + ++ ++ + L+ A ++ V
Sbjct: 1 GIAIGLIAGLIDIIASWLSDLKEGYCNYII--------YVLLA---LLFAFIAVLLVKVV 49
Query: 164 APVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACV 223
AP AAGSGIPE+K L+G G L TL+IK +G + AV+S L +GK GP+VH CV
Sbjct: 50 APYAAGSGIPEIKTILSGFIIRGFLGKWTLLIKSVGLVLAVASGLSLGKEGPLVHIATCV 109
Query: 224 ASLLGQGGSKKYGLTWKWL-RFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMA 282
+++ + ++ +N+ RR+ ++ +AAG+A AF AP+GG+LF++EE++
Sbjct: 110 GNIIS-----------RLFPKYRRNEAKRREILSAAAAAGVAVAFGAPIGGVLFSLEEVS 158
Query: 283 SWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVP 342
++ LWR+FF A+VA ++ FGTG L++++V D +H ++
Sbjct: 159 YYFPLKTLWRSFF-CALVAAFTLKSLNP--------FGTGRLVLFEV-EYDRDWHYFELI 208
Query: 343 LVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTISILTSCLLFGLPWLA 402
+LLG+ GG+ G+ + K R K + ++++T+ + F P+
Sbjct: 209 PFILLGIFGGLYGAFFIKANIKWARFRKKSLLKRYP--VLEVLLVALITALISFPNPYTR 266
Query: 403 SC---------RPC-PSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTNDDAIRNL 452
C P D + C Y+ G Y L SL+
Sbjct: 267 LDMTELLELLFNECEPGDDNSLC-------CYRDPPAGDGVYKALWSLLLAL-------- 311
Query: 453 FSKDTDKEFQHSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHS 512
++ +T F ++GI PAG+FVP++ GA +GR VG+LV +
Sbjct: 312 -------------IIKLLLTIF-----TFGIKVPAGIFVPSMAVGALFGRIVGILVEQLA 353
Query: 513 NLNH-----------------GLYAVLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMI 555
GLYA++GAA+FLGG RMTVSL VI+ ELT L + +
Sbjct: 354 YSYPDSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNYILPL 413
Query: 556 MLVLLISKTVADAFN-GNIYDLIMKAKGFPYL 586
M+ +++SK VADA IYD + G+P+L
Sbjct: 414 MIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 445
>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 = 235 bits (601), Expect = 1e-70
Identities = 118/421 (28%), Positives = 187/421 (44%), Gaps = 79/421 (18%)
Query: 151 VLTLFASIVTATVAPVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLV 210
+ L A ++ AAGSGIPEV A L+GV G L R L++K +G++ + S +
Sbjct: 1 IGGLLAGLLVKRFPE-AAGSGIPEVIAALHGVK--GPLPLRVLLVKFLGTLLTLGSGGSL 57
Query: 211 GKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAP 270
G+ GP V GA + S LG+ R + DRR + G+AAGIAAAF AP
Sbjct: 58 GREGPSVQIGAAIGSGLGR-------------RLKLSRNDRRRLIAAGAAAGIAAAFNAP 104
Query: 271 VGGLLFAIEEMASWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVY 330
+ G+LFA+EE++ + L + + A++ R G
Sbjct: 105 LAGVLFALEELSRSFSYRALLPVLVASVVAALVSRLL--------------FGNEPLFEV 150
Query: 331 SADASYHLADVPLVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTISIL 390
+ L ++PL +LLG++ G+LG+L+ LL KV R++ + P I +L
Sbjct: 151 PSLPPLSLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLK---KLPPILRPALGGLL 207
Query: 391 TSCLLFGLPWLASCRPCPSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTNDDAIR 450
L LP + G GY L L+ N + ++
Sbjct: 208 VGLLGLFLPEV-------------------LGG--------GY--GLIQLLLNGSTLSL- 237
Query: 451 NLFSKDTDKEFQHSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGS 510
+L+ + + LS G AP G+F P++ GA+ GR +G+L+
Sbjct: 238 -------------LLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLPL 284
Query: 511 ---HSNLNHGLYAVLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVAD 567
+ G +A+LG A+FL G R ++ V++ ELT + LL +ML +LI+ V+
Sbjct: 285 LFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVSR 344
Query: 568 A 568
Sbjct: 345 L 345
Score = 39.8 bits (94), Expect = 0.004
Identities = 38/179 (21%), Positives = 61/179 (34%), Gaps = 22/179 (12%)
Query: 101 FLIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVT 160
L+G++ GL+G L V + + F I L +
Sbjct: 165 ILLGILCGLLGAL-------------FVRLLLKVERLFRRLKKLPPILRPALGGLLVGLL 211
Query: 161 ATVAPVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTG 220
P G G ++ LNG +L L++K++ + ++ S G P + G
Sbjct: 212 GLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIG 271
Query: 221 ACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIE 279
A + LLG L F F G AA +A RAP+ ++ E
Sbjct: 272 AALGRLLGLLLP---------LLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFE 321
>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 = 236 bits (605), Expect = 3e-70
Identities = 97/294 (32%), Positives = 160/294 (54%), Gaps = 3/294 (1%)
Query: 104 GLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTATV 163
GL++GL+ + + AVE+ + + + + +L + + ++VL L +S +
Sbjct: 1 GLLMGLVAVVLDYAVESSLDAGQWLLRR--IPGSYLLGYLMWVLWSVVLVLISSGICLYF 58
Query: 164 APVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACV 223
AP AAGSGIPEV AYLNGV P LS RTL+ K I I AV+S L +GK GP+VH GA +
Sbjct: 59 APQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKTISCICAVASGLPLGKEGPLVHLGAMI 118
Query: 224 ASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMAS 283
+ L QG S+ G + F+N RDRRDF+ G+AAG+A+AF AP+GGLLF +EE+++
Sbjct: 119 GAGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVST 178
Query: 284 WWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVPL 343
++ L WR FF + A +++ + + + + V+ +L +
Sbjct: 179 FFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSLTVFELHVPLNLYEFIP 238
Query: 344 VLLLGVVGGILGSLYNFLLDKVLR-IYNFINEKGIAPKIFLACTISILTSCLLF 396
+++GV+ G+L +L+ L LR + K ++ +++ S + +
Sbjct: 239 TVVIGVICGLLAALFVRLSIIFLRWRRRLLFRKTARYRVLEPVLFTLIYSTIHY 292
Score = 115 bits (291), Expect = 1e-27
Identities = 51/122 (41%), Positives = 81/122 (66%), Gaps = 11/122 (9%)
Query: 465 SMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLV-----------GSHSN 513
++L+F + F +S L++GI P G F+P++V GA+ GR VG+LV +
Sbjct: 295 TLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRIAVAGIGAESATLW 354
Query: 514 LNHGLYAVLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVADAFNGNI 573
+ G+YA++GAA+FLGG+ R+T S+CVI++ELT +L L +M+ +LI+K VADAF ++
Sbjct: 355 ADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAILIAKAVADAFCESL 414
Query: 574 YD 575
Y
Sbjct: 415 YH 416
>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 = 177 bits (452), Expect = 5e-49
Identities = 129/480 (26%), Positives = 202/480 (42%), Gaps = 85/480 (17%)
Query: 103 IGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTAT 162
IGL+ GL+ L L ++ + ++ AN + + I VL L A +
Sbjct: 1 IGLLAGLVAVLFRLGIDKL--GNLRLSLYDFAANNPPLLLVLPLIS-AVLGLLAGWLVKK 57
Query: 163 VAPVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGAC 222
AP A GSGIP+V+ L G+ +R L +K +G + A+ S L +G+ GP V GA
Sbjct: 58 FAPEAKGSGIPQVEGVLAGL--LPPNWWRVLPVKFVGGVLALGSGLSLGREGPSVQIGAA 115
Query: 223 VASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMA 282
+ GQG SK F + +RR + G+AAG+AAAF AP+ G+LF +EE+
Sbjct: 116 I----GQGVSKW---------FKTSPEERRQLIAAGAAAGLAAAFNAPLAGVLFVLEELR 162
Query: 283 SWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVP 342
+ L A + + R F FG G ++ L
Sbjct: 163 HSFSPLALLTALVASIAADFVSRLF-----------FGL-GPVLSIPPLPALP--LKSYW 208
Query: 343 LVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTISILTSCLLFGLPWLA 402
L+LLLG++ G+LG L+N L K +Y + + ++ L + LL
Sbjct: 209 LLLLLGIIAGLLGYLFNRSLLKSQDLYRKLKKLPRELRVLLPGLLIGPLGLLL------- 261
Query: 403 SCRPCPSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTNDDAIRNLFSKDTDKEFQ 462
P G+ LI + F
Sbjct: 262 -------------PEALGGGH---------------GLILSL------------AGGNFS 281
Query: 463 HSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNHGL---Y 519
S +L+ FV F ++LSYG AP G+F P + GA G G ++ + +
Sbjct: 282 ISLLLLIFVLRFIFTMLSYGSGAPGGIFAPMLALGALLGLLFGTILVQLGPIPISAPATF 341
Query: 520 AVLGAASFLGGSMRMTVSLCVIILELTNNL-LLLPMIMLVLLISKTVADAFNGN-IYDLI 577
A+ G A+F +R ++ +++ E+T N LLLP+ M+V L++ VAD G IY+ +
Sbjct: 342 AIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPL-MVVCLVAYLVADLLGGKPIYEAL 400
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 171 bits (436), Expect = 2e-46
Identities = 117/478 (24%), Positives = 185/478 (38%), Gaps = 83/478 (17%)
Query: 102 LIGLIVGLIGFLNNLAVENI-AGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVT 160
I +G+I L +A++ + + A G L L + A +V
Sbjct: 24 GIAAALGVIVGLFAVALDLALLLLGRLRGGLLSAAQAPGPWLLPLVPALGGLLVGALLV- 82
Query: 161 ATVAPVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTG 220
AP A GSGIP+ L+G +S R L +K++ ++ + S +G+ GP V G
Sbjct: 83 YKFAPEARGSGIPQAIEALHGRKGR--ISPRVLPVKLVATLLTIGSGASLGREGPSVQIG 140
Query: 221 ACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEE 280
A + SLLG+ + DRR + G+AAG+AAAF AP+ G LFAIE
Sbjct: 141 AAIGSLLGR-------------LLKLSREDRRILLAAGAAAGLAAAFNAPLAGALFAIEV 187
Query: 281 MASW-WRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLA 339
+ L A+VA+L+ GG L
Sbjct: 188 LYGRFLEYRALVPVLV-AAVVALLVAGLF-------------GGPHFLLPIVTTPHMSLW 233
Query: 340 DVPLVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTISILTSCLLFGLP 399
D+ L L+LG++ G+ G L + LL + R + + L + L P
Sbjct: 234 DLLLYLVLGIIAGLFGVLLSRLL-ALSRRFFRRLPLPPLLRPALGGLLVGA---LGLLFP 289
Query: 400 WLASCRPCPSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTNDDAIRNLFSKDTDK 459
+G + A
Sbjct: 290 E----------------VLGNGYGLIQLALAG---------------------------- 305
Query: 460 EFQHSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNH--- 516
E +L+ F+ ++LSYG AP G+F P++ GA+ G G L+G +
Sbjct: 306 EGGLLVLLLLFLLKLLATLLSYGSGAPGGIFAPSLFIGAALGLAFGALLGLLFPPSILEP 365
Query: 517 GLYAVLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVADAFNGNIY 574
GL+A+LG A+FL + R ++ V++LE+T N LL +++ LI+ V+ G
Sbjct: 366 GLFALLGMAAFLAATTRAPLTAIVLVLEMTGNYQLLLPLLIACLIAYLVSRLLGGRPI 423
>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 = 164 bits (418), Expect = 4e-44
Identities = 88/306 (28%), Positives = 152/306 (49%), Gaps = 23/306 (7%)
Query: 97 WSLCFLIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFA 156
W L+G+++ LI + AVE + +L + +L + + L LF+
Sbjct: 2 WLFLALLGILMALISIAMDFAVEKL--LNARRWLYSLLTGNSLLQYLVWVAYPVALVLFS 59
Query: 157 SIVTATVAPVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPM 216
++ ++P A GSGIPE+K L GV P L+F+TLV K+IG A+ S L +GK GP
Sbjct: 60 ALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLPLGKEGPF 119
Query: 217 VHTGACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLF 276
VH + VA+LL + + G ++N+ R + + A G+A F AP+GG+LF
Sbjct: 120 VHISSIVAALLSKLTTFFSG-------IYENESRRMEMLAAACAVGVACTFGAPIGGVLF 172
Query: 277 AIEEMASWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASY 336
+IE ++++ WR FF A R + T + + D +
Sbjct: 173 SIEVTSTYFAVRNYWRGFFAATCGAFTFRLLAVFFSDQE-----TITALFKTTFFVDFPF 227
Query: 337 HLADVPLVLLLGVVGGILGSLYNFLLDKVL------RIYNFINEKGIAPKIFLACTISIL 390
+ ++P+ LLG++ G+LG+L+ FL K++ R+++ +P ++ A +++L
Sbjct: 228 DVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKF--LKRSPLLYPAI-VALL 284
Query: 391 TSCLLF 396
T+ L F
Sbjct: 285 TAVLTF 290
Score = 99.6 bits (249), Expect = 3e-22
Identities = 52/133 (39%), Positives = 75/133 (56%), Gaps = 13/133 (9%)
Query: 465 SMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSH----------SNL 514
++ +F V F L+ L+ + PAG+F+P V GA+ GR VG ++ + +
Sbjct: 294 TLFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGISNPI 353
Query: 515 NHGLYAVLGAASFLGGSMRMTVSLCVIILELTNNL-LLLPMIMLVLLISKTVADAFNGNI 573
G YAV+GAA+F G TVS+ VII ELT + LLP+ ++ +LIS VA +I
Sbjct: 354 GPGGYAVVGAAAFSGAVTH-TVSVAVIIFELTGQISHLLPV-LIAVLISNAVAQFLQPSI 411
Query: 574 YDLIMKAKGFPYL 586
YD I+K K PYL
Sbjct: 412 YDSIIKIKKLPYL 424
>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 = 153 bits (389), Expect = 1e-40
Identities = 115/463 (24%), Positives = 182/463 (39%), Gaps = 85/463 (18%)
Query: 104 GLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTATV 163
G++ GL L L +E + F + A ++ +P V+ + +
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAGSLSPLYILL-VP--VIGGLLVGLLVRL 57
Query: 164 APVAAGSGIPEV-KAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGAC 222
A G GIPEV +A G G L R ++K + S + S VG+ GP+V GA
Sbjct: 58 LGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALTLGSGGSVGREGPIVQIGAA 114
Query: 223 VASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMA 282
+ S LG+ R + DRR V CG+AAGIAAAF AP+ G LFAIE +
Sbjct: 115 IGSWLGR-------------RLRLSRNDRRILVACGAAAGIAAAFNAPLAGALFAIEVLL 161
Query: 283 SWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVP 342
+ A L + A++ R LFG +Y L ++P
Sbjct: 162 GEYSVASLIPVLLASVAAALVSRL-----------LFGAEPAFGVPLYD---PLSLLELP 207
Query: 343 LVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTISILTSCLLFGLPWLA 402
L LLLG++ G++G L+ LL K+ R++ + P +L L LP
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIERLF----RRLPIPPWLRPALGGLLLGLLGLFLPQ-- 261
Query: 403 SCRPCPSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTNDDAIRNLFSKDTDKEFQ 462
G L
Sbjct: 262 ---------------------------VLGSGYGAILLALAGELSL-------------- 280
Query: 463 HSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNH---GLY 519
+L+ + + L+ G P G+F P++ GA+ G G+L+ + G Y
Sbjct: 281 -LLLLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPGLVASPGAY 339
Query: 520 AVLGAASFLGGSMRMTVSLCVIILELTNNLLLLPMIMLVLLIS 562
A++G A+ L +R ++ +++LELT + LL +ML ++I+
Sbjct: 340 ALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
Score = 36.4 bits (85), Expect = 0.056
Identities = 38/184 (20%), Positives = 63/184 (34%), Gaps = 30/184 (16%)
Query: 99 LCFLIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASI 158
L L+GL+ GL+G L + I F IP + +
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIERL-----------------FRRLPIPPWLRPALGGL 250
Query: 159 VTATVA---PVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGP 215
+ + P GSG + L G + +L L++K++ + + S G P
Sbjct: 251 LLGLLGLFLPQVLGSGYGAILLALAGELSLLLL-LLLLLLKLLATALTLGSGFPGGVFAP 309
Query: 216 MVHTGACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLL 275
+ GA + + G F + G AA +AA RAP+ +L
Sbjct: 310 SLFIGAALGAAFGLLLP---------ALFPGLVASPGAYALVGMAALLAAVLRAPLTAIL 360
Query: 276 FAIE 279
+E
Sbjct: 361 LVLE 364
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 129 bits (326), Expect = 6e-32
Identities = 116/474 (24%), Positives = 198/474 (41%), Gaps = 106/474 (22%)
Query: 102 LIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVTA 161
++G + GL+G LAV+ + + + L+ N +L + + +
Sbjct: 6 VVGTLTGLVGVAFELAVDWVQNQR--------------LGLLASVADNGLLLWIVAFLIS 51
Query: 162 TV------------APVAAGSGIPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLL 209
V AP A GSGIPE++ L G+ + +R L +K G + + S ++
Sbjct: 52 AVLAMIGYFLVRRFAPEAGGSGIPEIEGALEGLR--PVRWWRVLPVKFFGGLGTLGSGMV 109
Query: 210 VGKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFRA 269
+G+ GP V G + ++ R ++D R + G+AAG+AAAF A
Sbjct: 110 LGREGPTVQMGGNIGRMVLD-----------IFRL-RSDEARHTLLAAGAAAGLAAAFNA 157
Query: 270 PVGGLLFAIEEMASWWRSALL-WRAFFTTAIVA-ILLRAFIDICKSGKCGLFGTGGLIMY 327
P+ G+LF IEEM +R +L+ +A F I+A I+ R F G +I
Sbjct: 158 PLAGILFVIEEMRPQFRYSLISIKAVFIGVIMATIVFRLFN-----------GEQAVIEV 206
Query: 328 DVYSADASYHLADVPLVLLLGVVGGILGSLYNFLLDKVLRIYNFINEKGIAPKIFLACTI 387
+SA L + L LLLG++ GI G L+N LL + +++ ++ + + +
Sbjct: 207 GKFSAPP---LNTLWLFLLLGIIFGIFGVLFNKLLLRTQDLFDRLHGGNKKRWVLMGGAV 263
Query: 388 SILTSCLLFG-LPWLASCRPCPSDASEACPTIGRSGNYKKFQCAPGYYNDLASLIFNTND 446
L G L LA +G G + +LI
Sbjct: 264 -----GGLCGLLGLLAP------------AAVG--GGF--------------NLIPIA-- 288
Query: 447 DAIRNLFSKDTDKEFQHSSMLIFFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGM 506
F +L FV F ++L +G AP G+F P + G G GM
Sbjct: 289 ----------LAGNFSIGMLLFIFVARFITTLLCFGSGAPGGIFAPMLALGTLLGLAFGM 338
Query: 507 LVG---SHSNLNHGLYAVLGAASFLGGSMRMTVSLCVIILELTNN-LLLLPMIM 556
+ ++ G +A+ G + ++R ++ V++LE+T+N L+LP+I+
Sbjct: 339 VAAALFPQYHIEPGTFAIAGMGALFAATVRAPLTGIVLVLEMTDNYQLILPLII 392
>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 = 94.6 bits (236), Expect = 1e-20
Identities = 73/225 (32%), Positives = 100/225 (44%), Gaps = 33/225 (14%)
Query: 150 LVLTL--FASIV--TATVAPVAAGSGIPEVKAYL---NGVDAPGILSFRTLVIKIIGSIS 202
L+LT FA I T P AAGSGIP+V A L + +LS RT V KI+ ++
Sbjct: 30 LLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGKILLTLL 89
Query: 203 AVSSSLLVGKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAG 262
+ VG+ GP V GA V +G+ K GL+ R + G AAG
Sbjct: 90 GLLGGASVGREGPSVQIGAAVMLAIGRRLPKWGGLS------------ERGLILAGGAAG 137
Query: 263 IAAAFRAPVGGLLFAIEEMASWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTG 322
+AAAF P+ G++FAIEE++ R F +LL +G L G
Sbjct: 138 LAAAFNTPLAGIVFAIEELS---------RDFELRFSGLVLLAVIA----AGLVSLAVLG 184
Query: 323 GLIMYDVYSADASYHLADVPLVLLLGVVGGILGSLYNFLLDKVLR 367
+ V + LVL+ GVVGG+ G L+ LL +
Sbjct: 185 NYPYFGVAAVALPLG-EAWLLVLVCGVVGGLAGGLFARLLVALSS 228
Score = 51.1 bits (123), Expect = 1e-06
Identities = 31/98 (31%), Positives = 53/98 (54%), Gaps = 3/98 (3%)
Query: 469 FFVTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNHGLYAVLGAASFL 528
F + F ++LSY P GLF P++ GA G + L+GS S G +LG A+FL
Sbjct: 286 FGLLKFLATLLSYWSGIPGGLFAPSLAVGAGLGSLLAALLGSVS---QGALVLLGMAAFL 342
Query: 529 GGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVA 566
G + ++ VI++E+T + +L ++ L++ V+
Sbjct: 343 AGVTQAPLTAFVIVMEMTGDQQMLLPLLAAALLASGVS 380
>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 = 81.9 bits (203), Expect = 9e-19
Identities = 44/148 (29%), Positives = 60/148 (40%), Gaps = 58/148 (39%)
Query: 617 GNVVHVLRTTRHNGFPVIDENPLSETPILYGLILRAHLITLLKKKAFLPTPNPTVNDAFS 676
++ +L TT HNGFPV+D S P L G ILR+ L+ LK
Sbjct: 14 EDLESLLSTTSHNGFPVVDSTEES--PRLVGYILRSQLVVALKN---------------- 55
Query: 677 QFSAVDFAKRGSGNGDKIEDIELSEEEMEMYVDLHPFANASPYTVVETMSLAKALILFRE 736
Y+D SP+TV SL K LFR+
Sbjct: 56 ------------------------------YIDP------SPFTVSPRTSLEKVHQLFRK 79
Query: 737 VGLRHLLVIPKISNGSPVMGILTRHDFM 764
+GLRHLLV+ + ++GI+TR D +
Sbjct: 80 LGLRHLLVV----DEGRLVGIITRKDLL 103
>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 = 58.1 bits (141), Expect = 9e-09
Identities = 67/277 (24%), Positives = 101/277 (36%), Gaps = 63/277 (22%)
Query: 104 GLIVGLIGFLNNL---AVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVT 160
G+ GL G L L V+++A FG + SF ++ ++
Sbjct: 1 GVGAGLGGGLLTLLLHGVQHLA---------------FGYSEGSFLTGVAAVSPIRRALS 45
Query: 161 ATVAPVAAGSG----------IPEVKAYLNGVDAPGILSFRTLVIKIIGSISAVSSSLLV 210
TV + AG G + +K V + F +I AV + V
Sbjct: 46 LTVGGLIAGLGWYLLRRKGKKLVSIK---QAVRGKKRMPFWETII------HAVLQIVTV 96
Query: 211 GKAGPMVHTGAC--VASLLGQGGSKKYGLTWKWLRFFKNDRDRRDFVTCGSAAGIAAAFR 268
G P+ A V +LL Q S GLT DRR V C + AG+AA +
Sbjct: 97 GLGAPLGREVAPREVGALLAQRFSDWLGLT---------VADRRLLVACAAGAGLAAVYN 147
Query: 269 APVGGLLFAIEEMASWWRSALLWRAFFTTAIVAILLRAFIDICKSGKCGLFGTGGLIMYD 328
P+ G LFA+E +L R ++VA L + I + G +YD
Sbjct: 148 VPLAGALFALE---------ILLRTISLRSVVAALATSAIAAAVAS----LLKGDHPIYD 194
Query: 329 VYSADASYHLADVPLVLLLGVVGGILGSLYNFLLDKV 365
+ S L + LL G V G++ + + L
Sbjct: 195 IPPMQLSTPL--LIWALLAGPVLGVVAAGFRRLSQAA 229
Score = 40.7 bits (96), Expect = 0.003
Identities = 26/92 (28%), Positives = 50/92 (54%), Gaps = 8/92 (8%)
Query: 471 VTCFSLSVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSH-SNLNHGLYAVLGAASFLG 529
T +L +YG GL P++ GA G +G++ + L+ +A++GAA+FL
Sbjct: 291 ATLLALRAGAYG-----GLLTPSLALGALLGALLGIVWNALLPPLSIAAFALIGAAAFLA 345
Query: 530 GSMRMTVSLCVIILELT--NNLLLLPMIMLVL 559
+ + ++ +++LE T N L L+P+++ V
Sbjct: 346 ATQKAPLTALILVLEFTRQNPLFLIPLMLAVA 377
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 51.3 bits (123), Expect = 2e-06
Identities = 31/95 (32%), Positives = 46/95 (48%), Gaps = 15/95 (15%)
Query: 186 GILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRFF 245
G++ R + + S+ + S +G+ GPMV A ASL+G ++ F
Sbjct: 111 GVVPVRQSLWRSASSLLTIGSGGSIGREGPMVQLAALAASLVG-----------RFAHF- 158
Query: 246 KNDRDR-RDFVTCGSAAGIAAAFRAPVGGLLFAIE 279
D R R V CG+AAGI +A+ AP+ G F E
Sbjct: 159 --DPPRLRLLVACGAAAGITSAYNAPIAGAFFVAE 191
Score = 37.4 bits (87), Expect = 0.033
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 11/95 (11%)
Query: 477 SVLSYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNHG-----LYAVLGAASFLGGS 531
+ + G A G+F P + GA G G+ H+ YA++G +FL G+
Sbjct: 327 TAATAGSGAVGGVFTPTLFVGAVVGSLFGL--AMHALWPGHTSAPFAYAMVGMGAFLAGA 384
Query: 532 MRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVA 566
+ + ++I E+T L ++L L++S VA
Sbjct: 385 TQAPLMAILMIFEMT----LSYQVVLPLMVSCVVA 415
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 50.9 bits (122), Expect = 2e-06
Identities = 41/187 (21%), Positives = 81/187 (43%), Gaps = 29/187 (15%)
Query: 178 YLNGVDAPGILSFRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACVASLLGQGGSKKYGL 237
Y+ + G + ++K + S+ V+S +G+ G M+ A AS Q + +
Sbjct: 85 YMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQRFTPRQ-- 142
Query: 238 TWK-WLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMASWWRSALLWRAFFT 296
WK W + CG+AAG+A+A+ AP+ G LF E +L+
Sbjct: 143 EWKLW-------------IACGAAAGMASAYHAPLAGSLFIAE---------ILFGTLML 180
Query: 297 TAIVAILLRAFIDICKSGKCGLFGTGGLIMYDVYSADASYHLADVPLVLLLGVVGGILGS 356
++ +++ A + + + L ++Y+V + D L++ G++ G+ G
Sbjct: 181 ASLGPVVISAVVALLTT---NLLNGSDALLYNVQ-LSVTVQARDYALIISTGLLAGLCGP 236
Query: 357 LYNFLLD 363
L L++
Sbjct: 237 LLLTLMN 243
Score = 37.1 bits (86), Expect = 0.035
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 4/98 (4%)
Query: 473 CFSLSVL-SYGIVAPAGLFVPAIVTGASYGRFVGMLVGSHSNLNHG---LYAVLGAASFL 528
C L+VL S G AP G+F P + G + G G +G L + G A+ L
Sbjct: 304 CKLLAVLASSGSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEITLLLGLTGMATLL 363
Query: 529 GGSMRMTVSLCVIILELTNNLLLLPMIMLVLLISKTVA 566
+ + ++I E+T LLP +++ +I+ ++
Sbjct: 364 AATTHAPIMSTLMICEMTGEYQLLPGLLIACVIASVIS 401
>gnl|CDD|239984 cd04611, CBS_pair_PAS_GGDEF_DUF1_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with a PAS domain, a GGDEF
(DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain
downstream. PAS domains have been found to bind ligands,
and to act as sensors for light and oxygen in signal
transduction. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. 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 = 39.5 bits (93), Expect = 7e-04
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 717 SP-YTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
SP TV SL A L RE G+RHL+V+ +G + G+L++ D +
Sbjct: 64 SPLLTVPADTSLYDARQLMREHGIRHLVVVD--DDGELL-GLLSQTDLL 109
>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 = 36.8 bits (86), Expect = 0.002
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 713 FANASPYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
TV SL +AL L RE G+ L V+ + +G V GI+T D +
Sbjct: 4 IMTPDVVTVPPDTSLEEALELMRENGISRLPVVDE--DGKLV-GIVTLRDLL 52
Score = 28.3 bits (64), Expect = 1.9
Identities = 11/62 (17%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 599 VGDVVTAPLQLFHGIEKAGNVVHVLRTTRHNGFPVIDENPLSETPILYGLILRAHLITLL 658
V D++T + + ++R + PV+DE+ + G++ L+ L
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDED---GKLV--GIVTLRDLLRAL 55
Query: 659 KK 660
+
Sbjct: 56 LE 57
>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 = 40.3 bits (95), Expect = 0.003
Identities = 24/71 (33%), Positives = 31/71 (43%), Gaps = 15/71 (21%)
Query: 210 VGKAGPMVHTGACVASLLGQGGSKKYGLTWKWLRFFK-NDRDRRDFVTCGSAAGIAAAFR 268
G+ G V G +A G R FK + DRR + G AAG AA F
Sbjct: 95 AGREGTAVQMGGSLADAFG--------------RVFKLPEEDRRILLIAGIAAGFAAVFG 140
Query: 269 APVGGLLFAIE 279
P+ G +FA+E
Sbjct: 141 TPLAGAIFALE 151
>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 = 36.3 bits (84), Expect = 0.012
Identities = 30/146 (20%), Positives = 46/146 (31%), Gaps = 49/146 (33%)
Query: 619 VVHVLRTTRHNGFPVIDENPLSETPILYGLILRAHLITLLKKKAFLPTPNPTVNDAFSQF 678
+ ++ +G PV+D++ L G++ L+ L + P TV D
Sbjct: 15 ALRLMLEHGISGLPVVDDDG-----RLVGIVTERDLLRALAEG--GLDPLVTVGD----- 62
Query: 679 SAVDFAKRGSGNGDKIEDIELSEEEMEMYVDLHPFANASPYTVVETMSLAKALILFREVG 738
TV SL +A L E G
Sbjct: 63 ----------------------------------VMTRDVVTVSPDTSLEEAAELMLEHG 88
Query: 739 LRHLLVIPKISNGSPVMGILTRHDFM 764
+R L V+ G V GI+TR D +
Sbjct: 89 IRRLPVV--DDEGRLV-GIVTRSDIL 111
Score = 34.3 bits (79), Expect = 0.050
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
TV ++A+AL L E G+ L V + + ++GI+T D +
Sbjct: 3 VVTVSPDDTVAEALRLMLEHGISGLPV---VDDDGRLVGIVTERDLL 46
>gnl|CDD|240116 cd04803, CBS_pair_15, 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 = 35.7 bits (83), Expect = 0.021
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
T+ E SLA A L RE +RHL P ++ ++G+LT+ D +
Sbjct: 3 VVTLSEDDSLADAEELMREHRIRHL---PVVNEDGKLVGLLTQRDLL 46
>gnl|CDD|239973 cd04600, CBS_pair_HPP_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains
associated with the HPP motif domain. These proteins are
integral membrane proteins with four transmembrane
spanning helices. The function of these proteins is
uncertain, but they are thought to be transporters. 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 = 124
Score = 35.3 bits (82), Expect = 0.031
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFMPEHILALNPLLAR 777
TV SL +A L R + +P + ++GI+T+ D + P R
Sbjct: 4 VVTVTPDTSLEEAWALLRR---HRIKALPVVDGDRRLVGIVTQRDLL----RHARPDGRR 56
Query: 778 SRWKRLRIRFPP 789
RLR R P
Sbjct: 57 PLRGRLRGRDKP 68
>gnl|CDD|239961 cd04588, CBS_pair_CAP-ED_DUF294_assoc_arch, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the archaeal CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. 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 = 33.4 bits (77), Expect = 0.089
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 719 YTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHD 762
T+ E L A+ L + + L+V G PV GI+TR D
Sbjct: 66 ITIDEDEQLYDAIRLMNKHNVGRLIVT--DDEGRPV-GIITRTD 106
>gnl|CDD|239958 cd04585, CBS_pair_ACT_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin
is a product of fermentative metabolism in many
prokaryotic and eukaryotic microorganisms. They produce
acetoin as an external carbon storage compound and then
later reuse it as a carbon and energy source during
their stationary phase and sporulation. In addition
these CBS domains are associated with a downstream ACT
domain, which is linked to a wide range of metabolic
enzymes that are regulated by amino acid concentration.
Pairs of ACT domains bind specifically to a particular
amino acid leading to regulation of the linked enzyme.
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 = 122
Score = 33.0 bits (76), Expect = 0.17
Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)
Query: 717 SPYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDF---MPEHILALNP 773
+P TV SL +AL L +E +R L P + G V GI+T D P L+
Sbjct: 2 NPITVTPDTSLMEALKLMKENSIRRL---PVVDRGKLV-GIVTDRDLKLASPSKATTLDI 57
Query: 774 LLARSRWKRLRIR 786
++++
Sbjct: 58 WELYYLLSKIKVS 70
>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 = 30.2 bits (69), Expect = 0.31
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDF 763
TV +L +AL L RE G+R L V+ G V GI+TR D
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVVD--EEGRLV-GIVTRRDI 44
Score = 27.5 bits (62), Expect = 2.9
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 619 VVHVLRTTRHNGFPVIDENPLSETPILYGLILRAHLITLLK 659
+ +LR PV+DE L G++ R +I L
Sbjct: 14 ALELLRENGIRRLPVVDEE-----GRLVGIVTRRDIIKALA 49
>gnl|CDD|240003 cd04632, CBS_pair_19, 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 = 128
Score = 32.5 bits (74), Expect = 0.31
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 720 TVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHD 762
TV E S+ KA+ + RE G+ L P + + + GI+TRHD
Sbjct: 5 TVREDDSVGKAINVLREHGISRL---PVVDDNGKLTGIVTRHD 44
>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 33.9 bits (78), Expect = 0.34
Identities = 24/104 (23%), Positives = 40/104 (38%), Gaps = 6/104 (5%)
Query: 672 NDAFSQFSAVDFAKRGSGNGDKIEDIELSEEEMEMYVDLHPFANASPYTVVETMSLAKAL 731
N F+ F AKR D++ + SE + ++ TV S+ A
Sbjct: 116 NPEFADFFLRSLAKRLRDIADRLAEQGESEFILTRVGEVK---TLPAVTVSPQASIQDAA 172
Query: 732 ILFREVGLRHLLVIPKISNGSPVMGILTRHDFMPEHILALNPLL 775
++ G+ L+V+ S P++GI+TR D I
Sbjct: 173 RKMKDEGVSSLVVL-DDSG--PLLGIVTRKDLRSRVIADGRSKT 213
>gnl|CDD|233128 TIGR00792, gph, sugar (Glycoside-Pentoside-Hexuronide) transporter.
The Glycoside-Pentoside-Hexuronide (GPH):Cation
Symporter Family (TC 2.A.2) GPH:cation symporters
catalyze uptake of sugars in symport with a monovalent
cation (H+ or Na+). Members of this family includes
transporters for melibiose, lactose, raffinose,
glucuronides, pentosides and isoprimeverose. Mutants of
two groups of these symporters (the melibiose permeases
of enteric bacteria, and the lactose permease of
Streptococcus thermophilus) have been isolated in which
altered cation specificity is observed or in which sugar
transport is uncoupled from cation symport (i.e.,
uniport is catalyzed). The various members of the family
can use Na+, H+ or Li, Na+ or Li+, H+ or Li+, or only H+
as the symported cation. All of these proteins possess
twelve putative transmembrane a-helical spanners
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 437
Score = 33.4 bits (77), Expect = 0.46
Identities = 29/129 (22%), Positives = 52/129 (40%), Gaps = 23/129 (17%)
Query: 101 FLIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVT 160
F G+++ ++G+L F SN+ L + L+ N V L ++V
Sbjct: 290 FAGGILLMVLGYLIF----------FFAGSNLPLI--LVLIILAGFGQNFVTGLVWALVA 337
Query: 161 ATVAPVAAGSGIPEVKAYLNGVDAPGI-LSFRTLVIKIIGSISAVSSSLLVGKAGPMVHT 219
TV + + GV A G+ S RT V K+ +++ L++G G + +
Sbjct: 338 DTV----------DYGEWKTGVRAEGLVYSVRTFVRKLGQALAGFLVGLILGIIGYVANA 387
Query: 220 GACVASLLG 228
+L G
Sbjct: 388 AQSPITLNG 396
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 33.3 bits (77), Expect = 0.53
Identities = 13/39 (33%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 626 TRHNGFPVIDENPLSETPILYGLILRAHLITLLKKKAFL 664
+R+ +PV+DE+ + G+I R HL++ ++KK L
Sbjct: 276 SRYRSYPVVDEDG-----KVVGVISRYHLLSPVRKKVIL 309
>gnl|CDD|217334 pfam03041, Baculo_LEF-2, lef-2. The lef-2 gene (for late
expression factor 2) from baculovirus is required for
expression of late genes. This gene has been shown to be
specifically required for expression from the vp39 and
polh promoters. LEF-1 is a DNA primase and there is some
evidence to suggest that LEF-2 may bind to both DNA and
LEF-1.
Length = 164
Score = 31.9 bits (73), Expect = 0.57
Identities = 31/109 (28%), Positives = 34/109 (31%), Gaps = 33/109 (30%)
Query: 707 YVDLHPF--ANASPYTVVETMSLAKALILFREVGLR--HLLVIPK--------------- 747
VD F SPYTV E L R GLR +LL P
Sbjct: 21 LVDPFDFDWLVLSPYTVFEPGGL-----YVRVSGLRLYNLLKNPPTFEESPSVNFSKKSK 75
Query: 748 --------ISNGSPVMGILTRHDFMPEHI-LALNPLLARSRWKRLRIRF 787
V+ L + P I ALN L R R R R RF
Sbjct: 76 RNVCFKDCSGGRKSVIDKLRKLLNPPPCITKALNDLCVRPRGGRYRKRF 124
>gnl|CDD|240001 cd04630, CBS_pair_17, 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 = 114
Score = 30.7 bits (70), Expect = 1.1
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 719 YTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHD 762
T+ ++A+AL L +E G+ L+V + S GI+T D
Sbjct: 4 VTIDGLATVAEALQLMKEHGVSSLVVEKR--RESDAYGIVTMRD 45
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 31.4 bits (72), Expect = 1.7
Identities = 21/115 (18%), Positives = 40/115 (34%), Gaps = 22/115 (19%)
Query: 101 FLIGLIVGLIGFLNNLAVENIAGTKFVVTSNMMLANKFGMAFLSFSIPNLVLTLFASIVT 160
FL+G+++ IG F+ ++ L + L+ L L +++
Sbjct: 290 FLLGMLLAAIGL---------VLLFFLPPGSLWLF--LVLVVLAGIGLGLATLLPWAMLA 338
Query: 161 ATVAPVAAGSGIPEVKAYLNGVDAPGI-LSFRTLVIKIIGSISAVSSSLLVGKAG 214
V + + G GI S + K+ G++ LL+ AG
Sbjct: 339 DVV----------DYGEWKTGKRREGITFSLYSFADKLGGALGGAIVGLLLAFAG 383
>gnl|CDD|239792 cd04259, AAK_AK-DapDC, AAK_AK-DapDC: Amino Acid Kinase Superfamily
(AAK), AK-DapDC; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the bifunctional
enzyme AK - DAP decarboxylase (DapDC) found in some
bacteria. Aspartokinase is the first enzyme in the
aspartate metabolic pathway, catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. DapDC,
which is the lysA gene product, catalyzes the
decarboxylation of DAP to lysine.
Length = 295
Score = 31.4 bits (71), Expect = 1.8
Identities = 31/145 (21%), Positives = 52/145 (35%), Gaps = 20/145 (13%)
Query: 181 GVDAPGILS--FRTLVIKIIGSISAVSSSLLVGKAGPMVHTGACVASLLGQGGSKKYGLT 238
VDA +L+ L + + IS + + +A ++ G +++ LG + GL
Sbjct: 79 EVDADALLANDLAQLQ-RWLTGISLLKQASPRTRA-EVLALGELMSTRLGAAYLEAQGLK 136
Query: 239 WKWLRFFKNDRDRRDFVTCGSAAGIAAAFRAPVGGLLFAIEEMASWWRSALLWRAFFTTA 298
KWL D R+ +T G + L E + L +
Sbjct: 137 VKWL-------DARELLTATPTLGGE-----TMNYLSARCES----EYADALLQKRLADG 180
Query: 299 IVAILLRAFIDICKSGKCGLFGTGG 323
I+ + FI G+ L G GG
Sbjct: 181 AQLIITQGFIARNAHGETVLLGRGG 205
>gnl|CDD|240036 cd04680, Nudix_Hydrolase_21, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent cation,
such as Mg2+ or Mn2+, for their activity and contain a
highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability, thereby
serving as surveillance & "house-cleaning" enzymes.
Substrate specificity is used to define families within
the superfamily. Differences in substrate specificity
are determined by the N-terminal extension or by
residues in variable loop regions. Mechanistically,
substrate hydrolysis occurs by a nucleophilic
substitution reaction, with variation in the numbers and
roles of divalent cations required.
Length = 120
Score = 30.0 bits (68), Expect = 1.9
Identities = 21/72 (29%), Positives = 26/72 (36%), Gaps = 5/72 (6%)
Query: 6 PTEKMATAAAFENLNTAGVEGGQDPESLTVPLLSHQRSRSSISNSTSQVALVGADVCPIE 65
E A AA E L G+ E L V S S + V AD P+
Sbjct: 34 RGETFAEAARRELLEELGIRLAVVAELLGVYYHSASGSWDHVI-----VFRARADTQPVI 88
Query: 66 SLDYEIAENDFF 77
+EI+E FF
Sbjct: 89 RPSHEISEARFF 100
>gnl|CDD|239962 cd04589, CBS_pair_CAP-ED_DUF294_assoc_bac, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the bacterial CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. 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.
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 = 29.5 bits (67), Expect = 2.0
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFMPEHILALNPL 774
P V + S+ A L RE G LLV G P +GI+TR D + +L P
Sbjct: 3 PLIVDASTSIRDAARLMREHGADALLVRD----GDPRLGIVTRTDLLDAVLLDGLPS 55
>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 = 29.3 bits (66), Expect = 2.4
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 619 VVHVLRTTRHNGFPVIDEN 637
V+ +++ T H+GFPV+D
Sbjct: 16 VIKLIKETGHDGFPVVDNG 34
>gnl|CDD|224902 COG1991, COG1991, Uncharacterized conserved protein [Function
unknown].
Length = 131
Score = 29.7 bits (67), Expect = 2.5
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 6/70 (8%)
Query: 131 NMMLANKFGMAFLSFSIPNLVLTLFASIVTATVAPVAAGSGIPEVKA------YLNGVDA 184
++ + G L FS+ L + L ASI A V S E ++ A
Sbjct: 6 TKIILSNKGQISLEFSLLLLAIVLAASIAGAYVLISNFNSAAIEAYNAAKNAIWVYSNAA 65
Query: 185 PGILSFRTLV 194
LS T+V
Sbjct: 66 KDTLSNVTVV 75
>gnl|CDD|239988 cd04615, CBS_pair_2, 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 = 29.4 bits (66), Expect = 2.5
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
P VV +A+A+ G R +P + + ++GI+TR+D +
Sbjct: 3 PSCVVLNTDIARAVAEMYTSGSR---ALPVVDDKKRLVGIITRYDVL 46
>gnl|CDD|240113 cd04800, CBS_pair_CAP-ED_DUF294_PBI_assoc2, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. 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 = 29.4 bits (67), Expect = 2.6
Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 716 ASPYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFM 764
A P T+ ++ +AL+L E G+ HL V + +G V G+++ D +
Sbjct: 65 APPITIPPDATVFEALLLMLERGIHHLPV---VDDGRLV-GVISATDLL 109
>gnl|CDD|240011 cd04640, CBS_pair_27, 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 = 126
Score = 29.6 bits (67), Expect = 2.7
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 718 PYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDFMPEHIL 769
P + S+ +AL L + G+R LLV+ N +G++T D + E +
Sbjct: 3 PIVIPADTSIDEALELMIKHGVRLLLVVDSDDN---FIGVITAVDLLGEEPI 51
>gnl|CDD|239980 cd04607, CBS_pair_NTP_transferase_assoc, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domain associated with the NTP (Nucleotidyl
transferase) 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 = 113
Score = 29.0 bits (66), Expect = 3.3
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 714 ANASPYTVVETMSLAKALILFREVGLRHLLVIPKISNGSPVMGILTRHDF 763
N +P T S + L L RE +RH +P + V+G+ T D
Sbjct: 64 MNRNPITAKVGSSREEILALMRERSIRH---LPILDEEGRVVGLATLDDL 110
>gnl|CDD|130176 TIGR01106, ATPase-IIC_X-K, sodium or proton efflux -- potassium
uptake antiporter, P-type ATPase, alpha subunit. This
model describes the P-type ATPases responsible for the
exchange of either protons or sodium ions for potassium
ions across the plasma membranes of eukaryotes. Unlike
most other P-type ATPases, members of this subfamily
require a beta subunit for activity. This model
encompasses eukaryotes and consists of two functional
types, a Na/K antiporter found widely distributed in
eukaryotes and a H/K antiporter found only in
vertebrates. The Na+ or H+/K+ antiporter P-type ATPases
have been characterized as Type IIC based on a published
phylogenetic analysis. Sequences from Blastocladiella
emersonii (GP|6636502, GP|6636502 and PIR|T43025), C.
elegans (GP|2315419, GP|6671808 and PIR|T31763) and
Drosophila melanogaster (GP|7291424) score below trusted
cutoff, apparently due to long branch length (excessive
divergence from the last common ancestor) as evidenced
by a phylogenetic tree. Experimental evidence is needed
to determine whether these sequences represent ATPases
with conserved function. Aside from fragments, other
sequences between trusted and noise appear to be
bacterial ATPases of unclear lineage, but most likely
calcium pumps [Energy metabolism, ATP-proton motive
force interconversion].
Length = 997
Score = 30.9 bits (70), Expect = 3.3
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 57 VGADVCPIESLDYEIAENDFFKEDWRTRGRNQMI--QYIFMKWSLCFLIGLIVGLIGFL 113
+G D+ P SL YE AE+D K R ++++ + I M + IG+I L GF
Sbjct: 786 LGTDMVPAISLAYEKAESDIMKRQPRNPKTDKLVNERLISMAY---GQIGMIQALGGFF 841
>gnl|CDD|227821 COG5534, COG5534, Plasmid replication initiator protein [DNA
replication, recombination, and repair].
Length = 383
Score = 30.4 bits (68), Expect = 3.7
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 59 ADVCPIESLDYEIAENDFFKEDWRTRGRNQMIQYIF 94
D ++ L E+ D+ +E++R G ++ I
Sbjct: 177 TDARALKPLGEELILPDWLREEYRGVGDTALVLTID 212
>gnl|CDD|224234 COG1315, COG1315, Uncharacterized conserved protein [Function
unknown].
Length = 543
Score = 30.5 bits (69), Expect = 3.9
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 663 FLPTPNPTVNDAFSQFSAVDFAKRGSGNGDKIEDIELSEEEMEMYVDLH-PFANASPYTV 721
F P +N+A S + + + DK+ ++++SE+ ME ++ P +P T
Sbjct: 45 FQDIEKPRINNATSPYKMNAYFEISPAE-DKVYEVKISEDSMEATLESTVPGVEGAPVTK 103
Query: 722 VETMSLAKA 730
E ++ KA
Sbjct: 104 DEILNALKA 112
>gnl|CDD|222537 pfam14093, DUF4271, Domain of unknown function (DUF4271). This
family of integral membrane proteins is functionally
uncharacterized. This family of proteins is found in
bacteria. Proteins in this family are typically between
221 and 326 amino acids in length.
Length = 207
Score = 29.5 bits (67), Expect = 4.6
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 6/77 (7%)
Query: 433 YYNDLASLIFNTNDDAIRNLFSKDTDKEFQHSSMLIFFVTCFSLSVLSYGIVAPAGLFVP 492
+ D L F F +T KE + + +F TC LS+ Y + GL +
Sbjct: 26 RFKDFFLLKFR------DKYFIIETGKENRPFQLFLFLQTCLLLSLFIYLYLRDFGLELF 79
Query: 493 AIVTGASYGRFVGMLVG 509
V +G G +
Sbjct: 80 FSVQLIVFGLIFGGVFL 96
>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 = 28.7 bits (65), Expect = 4.8
Identities = 24/148 (16%), Positives = 43/148 (29%), Gaps = 48/148 (32%)
Query: 617 GNVVHVLRTTRHNGFPVIDENPLSETPILYGLILRAHLITLLKKKAFLPTPNPTVNDAFS 676
++ V+ + N FPV+D++ L G++ + +L
Sbjct: 13 NELLDVIAHSPENNFPVVDDDGR-----LVGIVSLDDIREILF----------------- 50
Query: 677 QFSAVDFAKRGSGNGDKIEDIELSEEEMEMYVDLHPFANASPYTVVETMSLAKALILFRE 736
+ + V P V SL AL F +
Sbjct: 51 ------------------------DPSLYDLVVASDIMTKPPVVVYPEDSLEDALKKFED 86
Query: 737 VGLRHLLVIPKISNGSPVMGILTRHDFM 764
L V+ ++GIL+R D +
Sbjct: 87 SDYEQLPVVDDDPGK--LLGILSRSDLL 112
>gnl|CDD|179591 PRK03545, PRK03545, putative arabinose transporter; Provisional.
Length = 390
Score = 29.5 bits (67), Expect = 8.6
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 14/60 (23%)
Query: 341 VPLVLLLGVVGGILGS-LYNFLLDKVLRIYNFINEKGIAPKIFLACTISILTSCLLFGLP 399
L+LLL GI+GS L++ L ++ P FL I++L CLL LP
Sbjct: 243 ATLLLLLFGGAGIIGSVLFSRLGNR-------------HPSGFLLIAIALLLVCLLLLLP 289
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
0.324 0.139 0.419
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: 41,539,563
Number of extensions: 4278919
Number of successful extensions: 6686
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6587
Number of HSP's successfully gapped: 179
Length of query: 794
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 689
Effective length of database: 6,280,432
Effective search space: 4327217648
Effective search space used: 4327217648
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 63 (27.9 bits)