RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 003885
(789 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 = 509 bits (1312), Expect = e-174
Identities = 180/341 (52%), Positives = 232/341 (68%)
Query: 73 ESLDYEIVENELFKQDWRARRKVEIFQYVVFKWTLALLIGVLTGLAAVFCNFFVENIAGF 132
ESLDYE++EN+LF+++WR R+K ++ QY KW + LLIG+ TGL A F + VEN+AG
Sbjct: 1 ESLDYEVIENDLFREEWRKRKKKQVLQYEFLKWIICLLIGIFTGLVAYFIDLAVENLAGL 60
Query: 133 KLLLINNLMLNDRHFMGFVANTSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDA 192
K L++ N + R F F+ +NL L ++AA+L AYIAP AAGSGIPEVK YLNG+
Sbjct: 61 KFLVVKNYIEKGRLFTAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKI 120
Query: 193 HSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRY 252
IL TL VKI G I V+ G +GKEGPM+H GACIA L QGGS L +RW RY
Sbjct: 121 PHILRLKTLLVKIVGVILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRY 180
Query: 253 FKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVL 312
F+NDRD+RD +TCGAAAGVA AF APVGGVLF+LEE AS+W AL WRTFF++ +V L
Sbjct: 181 FRNDRDKRDFVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTL 240
Query: 313 RGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDK 372
F+ C SG+CGLFG GGLIMFD +S K Y+ +L+ + +GVIGG+ G+ +N+L K
Sbjct: 241 NFFLSGCNSGKCGLFGPGGLIMFDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNHLNHK 300
Query: 373 VLRTYSIINERGPIFKVLLVAAVSLLTSCCSYGLPWLSHCI 413
V R IN +G + KVL VSL+TS ++ L +
Sbjct: 301 VTRFRKRINHKGKLLKVLEALLVSLVTSVVAFPQTLLIFFV 341
Score = 204 bits (522), Expect = 4e-58
Identities = 86/133 (64%), Positives = 103/133 (77%), Gaps = 3/133 (2%)
Query: 466 TSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLG---ALSD 522
TS TLL+FFV Y L T+GIAVPSGLFIP+IL GA+YGRLVG LLG +
Sbjct: 327 TSVVAFPQTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVGILLGSYFGFTS 386
Query: 523 LDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLISKTVADSFNQGV 582
+D GL+ALLGAA+FLGG MRMTVSL VILLELTNNL LP +MLVL+I+K V D FN+G+
Sbjct: 387 IDPGLYALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNEGI 446
Query: 583 YDQIVKLKGLPYL 595
YD I++LKG+P+L
Sbjct: 447 YDIIIQLKGVPFL 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 = 292 bits (750), Expect = 6e-91
Identities = 160/508 (31%), Positives = 246/508 (48%), Gaps = 87/508 (17%)
Query: 112 GVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAAILCAYI 171
G+ GL A + ++ K N ++ + L A +A +L +
Sbjct: 1 GIAIGLIAGLIDIIASWLSDLKEGYCN-----------YIIYVLLALLFAFIAVLLVKVV 49
Query: 172 APAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACI 231
AP AAGSGIPE+K L+G L TL +K G + VA+G +GKEGP+VH C+
Sbjct: 50 APYAAGSGIPEIKTILSGFIIRGFLGKWTLLIKSVGLVLAVASGLSLGKEGPLVHIATCV 109
Query: 232 ANLLGQGGSKKYHLTWRWL-RYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAA 290
N++ R +Y +N+ RR++++ AAAGVA AF AP+GGVLF+LEE +
Sbjct: 110 GNIIS-----------RLFPKYRRNEAKRREILSAAAAAGVAVAFGAPIGGVLFSLEEVS 158
Query: 291 SWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSADLL 350
++ LWR+FF V A L+ FG G L++F+V ++ + +L+
Sbjct: 159 YYFPLKTLWRSFFCALVAAFTLKSL---------NPFGTGRLVLFEVEYDRD-WHYFELI 208
Query: 351 AVIFLGVIGGIFGSFYNYLVDKVL---RTYSIINERGPIFKVLLVAAVSLLTSCCSYGLP 407
I LG+ GG++G+F+ K + + +R P+ +VLLVA L+T+ S+ P
Sbjct: 209 PFILLGIFGGLYGAFFIKANIKWARFRKKSLL--KRYPVLEVLLVA---LITALISFPNP 263
Query: 408 WLSHCIPCPSYLEADRCPTVG--RSGNYKNFQCPAGHYNDLASLFLNTNDDAIRNLFSSG 465
+ + L + C Y++ G Y L SL L
Sbjct: 264 YTRLDMTELLELLFNECEPGDDNSLCCYRDPPAGDGVYKALWSLLLAL------------ 311
Query: 466 TSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL----- 520
+ L I T+GI VP+G+F+P + GA +GR+VG L+ L
Sbjct: 312 --------------IIKLLLTIFTFGIKVPAGIFVPSMAVGALFGRIVGILVEQLAYSYP 357
Query: 521 ------------SDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVL 568
S + GL+A++GAA+FLGG RMTVSL VI+ ELT L + +M+ +
Sbjct: 358 DSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNYILPLMIAV 417
Query: 569 LISKTVADSFN-QGVYDQIVKLKGLPYL 595
++SK VAD+ +G+YD + L G P+L
Sbjct: 418 MVSKWVADAIGKEGIYDAHIHLNGYPFL 445
>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 = 246 bits (631), Expect = 4e-74
Identities = 98/294 (33%), Positives = 149/294 (50%), Gaps = 3/294 (1%)
Query: 112 GVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAAILCAYI 171
G+L GL AV ++ VE+ L+ + + +G++ ++ L ++++ +C Y
Sbjct: 1 GLLMGLVAVVLDYAVESSLDAGQWLL--RRIPGSYLLGYLMWVLWSVVLVLISSGICLYF 58
Query: 172 APAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACI 231
AP AAGSGIPEV AYLNG+ L+ TL K I VA+G +GKEGP+VH GA I
Sbjct: 59 APQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKTISCICAVASGLPLGKEGPLVHLGAMI 118
Query: 232 ANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAAS 291
L QG S+ + F+N RDRRD + GAAAGVA AF AP+GG+LF LEE ++
Sbjct: 119 GAGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVST 178
Query: 292 WWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSADLLA 351
++ L WR FF V A V++ + F + V + + +
Sbjct: 179 FFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSLTVFELHVPLNLYEFIP 238
Query: 352 VIFLGVIGGIFGSFYNYLVDKVLR-TYSIINERGPIFKVLLVAAVSLLTSCCSY 404
+ +GVI G+ + + L LR ++ + ++VL +L+ S Y
Sbjct: 239 TVVIGVICGLLAALFVRLSIIFLRWRRRLLFRKTARYRVLEPVLFTLIYSTIHY 292
Score = 124 bits (314), Expect = 2e-30
Identities = 57/135 (42%), Positives = 85/135 (62%), Gaps = 11/135 (8%)
Query: 461 LFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLL--- 517
LF+ S + TLL+F + + + + +GIAVP G FIP ++ GA+ GRLVG L+
Sbjct: 282 LFTLIYSTIHYAPTLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRI 341
Query: 518 --------GALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLL 569
A D G++AL+GAA+FLGGT R+T S+CVI++ELT +L L +M+ +L
Sbjct: 342 AVAGIGAESATLWADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAIL 401
Query: 570 ISKTVADSFNQGVYD 584
I+K VAD+F + +Y
Sbjct: 402 IAKAVADAFCESLYH 416
>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 = 243 bits (622), Expect = 1e-73
Identities = 126/421 (29%), Positives = 177/421 (42%), Gaps = 80/421 (19%)
Query: 159 GLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVV 218
+LA +L AA GSGIPEV A L+G+ L L VK G++ + +G +
Sbjct: 1 IGGLLAGLLVKRFPEAA-GSGIPEVIAALHGV--KGPLPLRVLLVKFLGTLLTLGSGGSL 57
Query: 219 GKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAP 278
G+EGP V GA I + LG R L+ +NDR R LI GAAAG+A AF AP
Sbjct: 58 GREGPSVQIGAAIGSGLG-----------RRLKLSRNDR--RRLIAAGAAAGIAAAFNAP 104
Query: 279 VGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVN 338
+ GVLFALEE + + L + V A+V R G LF L
Sbjct: 105 LAGVLFALEELSRSFSYRALLPVLVASVVAALVSRLLF-----GNEPLFEVPSLPPL--- 156
Query: 339 SAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLL 398
S +L I LG++ G+ G+ + L+ KV R + + + PI + L LL
Sbjct: 157 ------SLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKKLPPILRPALGG---LL 207
Query: 399 TSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAI 458
LP L I
Sbjct: 208 VGLLGLFLP-----------------------------------------EVLGGGYGLI 226
Query: 459 RNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLG 518
+ L + T L LL+ + ++ G P G+F P + GA+ GRL+G LL
Sbjct: 227 QLLLNGST---LSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLP 283
Query: 519 ALSD---LDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLISKTVA 575
L G FALLG A+FL G R ++ V++ ELT + +L +ML +LI+ V+
Sbjct: 284 LLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVS 343
Query: 576 D 576
Sbjct: 344 R 344
Score = 51.0 bits (123), Expect = 1e-06
Identities = 37/183 (20%), Positives = 61/183 (33%), Gaps = 26/183 (14%)
Query: 107 LALLIGVLTGLAAVFCNFFVENIAGF--KLLLINNLMLNDRHFMGFVANTSINLGLAILA 164
L +L+G+L GL + + +L + ++ L L
Sbjct: 163 LFILLGILCGLLGALFVRLLLKVERLFRRLKKLPPILR---------------PALGGLL 207
Query: 165 AILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPM 224
L P G G ++ LNG +L L +K+ + + +G G P
Sbjct: 208 VGLLGLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSGAPGGIFAPS 267
Query: 225 VHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLF 284
+ GA + LLG + F G AA +AG RAP+ ++
Sbjct: 268 LFIGAALGRLLGLLLPLLFPGIAPSPGAF---------ALLGMAAFLAGVTRAPLTAIVL 318
Query: 285 ALE 287
E
Sbjct: 319 VFE 321
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 186 bits (474), Expect = 1e-51
Identities = 135/519 (26%), Positives = 207/519 (39%), Gaps = 90/519 (17%)
Query: 89 WRARRKVEIFQYVVFKW-TLALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHF 147
R + + +A +GV+ GL AV ++ L L+ +
Sbjct: 6 RRPLARTMRLLIALAVLIGIAAALGVIVGLFAVA----LDLALLLLGRLRGGLLSAAQAP 61
Query: 148 MGFVANTSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFG 207
++ LG ++ A+L AP A GSGIP+ L+G ++P L VK+
Sbjct: 62 GPWLLPLVPALGGLLVGALLVYKFAPEARGSGIPQAIEALHGRK--GRISPRVLPVKLVA 119
Query: 208 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGA 267
++ + +G +G+EGP V GA I +LLG R L+ + DRR L+ GA
Sbjct: 120 TLLTIGSGASLGREGPSVQIGAAIGSLLG-----------RLLK--LSREDRRILLAAGA 166
Query: 268 AAGVAGAFRAPVGGVLFALEEA--ASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCG 325
AAG+A AF AP+ G LFA+E AL+ AVVA+++ G
Sbjct: 167 AAGLAAAFNAPLAGALFAIEVLYGRFLEYRALV--PVLVAAVVALLVAGLF--------- 215
Query: 326 LFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGP 385
G L+ S DLL + LG+I G+FG + L+ R R P
Sbjct: 216 -GGPHFLL---PIVTTPHMSLWDLLLYLVLGIIAGLFGVLLSRLLALSRR----FFRRLP 267
Query: 386 IFKVLLVAAVSLLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYND 445
+ +L A LL P +G
Sbjct: 268 LPPLLRPALGGLLVGALGLLFPE-----------------VLGNGYGL------------ 298
Query: 446 LASLFLNTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILA 505
+ E L LL+ F+ +++YG P G+F P +
Sbjct: 299 IQLALAG----------------EGGLLVLLLLFLLKLLATLLSYGSGAPGGIFAPSLFI 342
Query: 506 GASYGRLVG---NLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLP 562
GA+ G G LL S L+ GLFALLG A+FL T R ++ V++LE+T N +L
Sbjct: 343 GAALGLAFGALLGLLFPPSILEPGLFALLGMAAFLAATTRAPLTAIVLVLEMTGNYQLLL 402
Query: 563 LVMLVLLISKTVAD-SFNQGVYDQIVKLKGLPYLEAHAE 600
+++ LI+ V+ + +Y Q++ +G P L
Sbjct: 403 PLLIACLIAYLVSRLLGGRPIYTQLLARRGAPILREERA 441
>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 = 178 bits (453), Expect = 4e-49
Identities = 124/484 (25%), Positives = 195/484 (40%), Gaps = 88/484 (18%)
Query: 111 IGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAAILCAY 170
IG+L GL AV ++ + +L L + + + I+ L +LA L
Sbjct: 1 IGLLAGLVAVLFRLGIDKLGNLRLSLYDFAAN---NPPLLLVLPLISAVLGLLAGWLVKK 57
Query: 171 IAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGAC 230
AP A GSGIP+V+ L G+ L VK G + + +G +G+EGP V GA
Sbjct: 58 FAPEAKGSGIPQVEGVLAGL--LPPNWWRVLPVKFVGGVLALGSGLSLGREGPSVQIGAA 115
Query: 231 IANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAA 290
I + +W + + +RR LI GAAAG+A AF AP+ GVLF LEE
Sbjct: 116 IGQGVS-----------KWFK--TSPEERRQLIAAGAAAGLAAAFNAPLAGVLFVLEELR 162
Query: 291 SWWRSALLWRTFFTTAVVA-VVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSADL 349
+ L T ++ A V R F FG G ++ +
Sbjct: 163 HSFSP-LALLTALVASIAADFVSRLF-----------FGLGPVLSI---PPLPALPLKSY 207
Query: 350 LAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLLTSCCSYGLPWL 409
++ LG+I G+ G +N + K Y + + +VLL + L
Sbjct: 208 WLLLLLGIIAGLLGYLFNRSLLKSQDLYRKLKKLPRELRVLLPGLLIGPL------GLLL 261
Query: 410 SHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAIRNLFSSGTSKE 469
P G+ L S
Sbjct: 262 ---------------PEALGGGH---------------------------GLILSLAGGN 279
Query: 470 FHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDTGL-- 527
F +S LL+ FV + +++YG P G+F P++ GA G L G +L L +
Sbjct: 280 FSISLLLLIFVLRFIFTMLSYGSGAPGGIFAPMLALGALLGLLFGTILVQLGPIPISAPA 339
Query: 528 -FALLGAASFLGGTMRMTVSLCVILLELTNNL-LMLPLVMLVLLISKTVADSFNQG-VYD 584
FA+ G A+F +R ++ +++ E+T N L+LPL M+V L++ VAD +Y+
Sbjct: 340 TFAIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPL-MVVCLVAYLVADLLGGKPIYE 398
Query: 585 QIVK 588
+++
Sbjct: 399 ALLE 402
Score = 33.3 bits (77), Expect = 0.52
Identities = 36/194 (18%), Positives = 57/194 (29%), Gaps = 28/194 (14%)
Query: 94 KVEIFQYVVFKWTLALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVAN 153
+ + Y + LL+G++ GL N + L L R
Sbjct: 201 ALPLKSYWLL-----LLLGIIAGLLGYLFNRSLLKS----QDLYRKLKKLPRELRVL--- 248
Query: 154 TSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVA 213
L L + P A G G + L G + L ++ ++
Sbjct: 249 ------LPGLLIGPLGLLLPEALGGGH-GLILSLAGGNFSISLLLLIFVLRFIFTMLSYG 301
Query: 214 AGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAG 273
+G G PM+ GA + L G L + G AA A
Sbjct: 302 SGAPGGIFAPMLALGALLGLLFGTIL---VQLGPIPISAPAT------FAIAGMAAFFAA 352
Query: 274 AFRAPVGGVLFALE 287
RAP+ ++ E
Sbjct: 353 VVRAPITAIILVTE 366
>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 = 176 bits (450), Expect = 7e-49
Identities = 118/464 (25%), Positives = 178/464 (38%), Gaps = 86/464 (18%)
Query: 112 GVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAAILCAYI 171
GVL+GL AV +E + + + ++ + GL + + +
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAGSLSPLYILLVPVIGGLLVGLLV---RL 57
Query: 172 APAAAGSGIPEV-KAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGAC 230
A G GIPEV +A G L VK S + +G VG+EGP+V GA
Sbjct: 58 LGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALTLGSGGSVGREGPIVQIGAA 114
Query: 231 IANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAA 290
I + LG R LR + DRR L+ CGAAAG+A AF AP+ G LFA+E
Sbjct: 115 IGSWLG-----------RRLRL--SRNDRRILVACGAAAGIAAAFNAPLAGALFAIE--- 158
Query: 291 SWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSADLL 350
+L + +++ V+L S LFG + S +L
Sbjct: 159 ------VLLGEYSVASLIPVLLASVAAALVSR--LLFGAEPAFGVPLYD---PLSLLELP 207
Query: 351 AVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLLTSCCSYGLPWLS 410
+ LG++ G+ G + L+ K+ R + R PI L A LL LP +
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIERLF----RRLPIPPWLRPALGGLLLGLLGLFLPQVL 263
Query: 411 HCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAIRNLFSSGTSKEF 470
G L L
Sbjct: 264 ------------------------------GSGYGAILLALAGE---------------L 278
Query: 471 HLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL---SDLDTGL 527
L LL+ + +T G P G+F P + GA+ G G LL AL G
Sbjct: 279 SLLLLLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPGLVASPGA 338
Query: 528 FALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLIS 571
+AL+G A+ L +R ++ +++LELT + +L +ML ++I+
Sbjct: 339 YALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
Score = 46.8 bits (112), Expect = 3e-05
Identities = 40/181 (22%), Positives = 58/181 (32%), Gaps = 24/181 (13%)
Query: 107 LALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAAI 166
L LL+G+L GL V + I R F + L L
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIE--------------RLFRRLPIPPWLRPALGGLLLG 253
Query: 167 LCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVH 226
L P GSG + L G + +L L +K+ + + +GF G P +
Sbjct: 254 LLGLFLPQVLGSGYGAILLALAGELSLLLLLLL-LLLKLLATALTLGSGFPGGVFAPSLF 312
Query: 227 TGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFAL 286
GA + G + G AA +A RAP+ +L L
Sbjct: 313 IGAALGAAFGLLLP---------ALFPGLVASPGAYALVGMAALLAAVLRAPLTAILLVL 363
Query: 287 E 287
E
Sbjct: 364 E 364
>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 = 160 bits (407), Expect = 1e-42
Identities = 81/303 (26%), Positives = 141/303 (46%), Gaps = 17/303 (5%)
Query: 105 WTLALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILA 164
W L+G+L L ++ +F VE + + L +L + ++ + + L + +
Sbjct: 2 WLFLALLGILMALISIAMDFAVEKLLNARRWLY--SLLTGNSLLQYLVWVAYPVALVLFS 59
Query: 165 AILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPM 224
A+ C YI+P A GSGIPE+K L G+ L TL K+ G + +G +GKEGP
Sbjct: 60 ALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLPLGKEGPF 119
Query: 225 VHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLF 284
VH + +A LL LT + ++N+ R +++ A GVA F AP+GGVLF
Sbjct: 120 VHISSIVAALLS-------KLTTFFSGIYENESRRMEMLAAACAVGVACTFGAPIGGVLF 172
Query: 285 ALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSY 344
++E ++++ WR FF A R + S + + + +
Sbjct: 173 SIEVTSTYFAVRNYWRGFFAATCGAFTFR-LLAVFFSDQETITA----LFKTTFFVDFPF 227
Query: 345 SSADLLAVIFLGVIGGIFGSFYNYLVDKVL---RTYSIINERGPIFKVLLVAAVSLLTSC 401
+L LG+I G+ G+ + +L K++ R + ++ +L A V+LLT+
Sbjct: 228 DVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKFLKRSPLLYPAIVALLTAV 287
Query: 402 CSY 404
++
Sbjct: 288 LTF 290
Score = 100 bits (251), Expect = 2e-22
Identities = 52/137 (37%), Positives = 79/137 (57%), Gaps = 13/137 (9%)
Query: 470 FHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL--------- 520
F TL +F V + L + + VP+G+F+PV + GA+ GRLVG ++ L
Sbjct: 290 FPFLTLFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGI 349
Query: 521 -SDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNL-LMLPLVMLVLLISKTVADSF 578
+ + G +A++GAA+F G TVS+ VI+ ELT + +LP V++ +LIS VA
Sbjct: 350 SNPIGPGGYAVVGAAAFSGAVTH-TVSVAVIIFELTGQISHLLP-VLIAVLISNAVAQFL 407
Query: 579 NQGVYDQIVKLKGLPYL 595
+YD I+K+K LPYL
Sbjct: 408 QPSIYDSIIKIKKLPYL 424
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 141 bits (358), Expect = 4e-36
Identities = 124/479 (25%), Positives = 205/479 (42%), Gaps = 109/479 (22%)
Query: 107 LALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDR-HFMGFVANTSINLGL-AILA 164
+A ++G LTGL V F+L + + + N R + VA+ + L + A L
Sbjct: 3 MAAVVGTLTGLVGV----------AFELAV--DWVQNQRLGLLASVADNGLLLWIVAFLI 50
Query: 165 AILCAYI--------APAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGF 216
+ + A I AP A GSGIPE++ L G+ + L VK FG + + +G
Sbjct: 51 SAVLAMIGYFLVRRFAPEAGGSGIPEIEGALEGL--RPVRWWRVLPVKFFGGLGTLGSGM 108
Query: 217 VVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFR 276
V+G+EGP V G I ++ R ++D R L+ GAAAG+A AF
Sbjct: 109 VLGREGPTVQMGGNIGRMVLD-----------IFR-LRSDEARHTLLAAGAAAGLAAAFN 156
Query: 277 APVGGVLFALEEAASWWRSALL-WRTFFTTAVVA-VVLRGFIEFCRSGRCGLFGQGGLIM 334
AP+ G+LF +EE +R +L+ + F ++A +V R F G+ +I
Sbjct: 157 APLAGILFVIEEMRPQFRYSLISIKAVFIGVIMATIVFRLFN-----------GEQAVI- 204
Query: 335 FDVNSAKNSYSSADLLAV---IFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLL 391
+V +S+ L + + LG+I GIFG +N L+ + + ++ VL+
Sbjct: 205 -EV----GKFSAPPLNTLWLFLLLGIIFGIFGVLFNKLLLRTQDLFDRLHGGNKKRWVLM 259
Query: 392 VAAVSLLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFL 451
AV C L L+ VG G
Sbjct: 260 GGAVG---GLCGL-LGLLAP-------------AAVG-GG-------------------- 281
Query: 452 NTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVI----LAGA 507
+ I + F + LL FVA + ++ +G P G+F P++ L G
Sbjct: 282 ---FNLIPIALAG----NFSIGMLLFIFVARFITTLLCFGSGAPGGIFAPMLALGTLLGL 334
Query: 508 SYGRLVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNN-LLMLPLVM 565
++G + L ++ G FA+ G + T+R ++ V++LE+T+N L+LPL++
Sbjct: 335 AFGMVAAALFPQYH-IEPGTFAIAGMGALFAATVRAPLTGIVLVLEMTDNYQLILPLII 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 = 133 bits (337), Expect = 1e-33
Identities = 110/444 (24%), Positives = 166/444 (37%), Gaps = 90/444 (20%)
Query: 154 TSINLGLAILAAI--LCAYI----APAAAGSGIPEVKAYL---NGIDAHSILAPSTLFVK 204
T L L + A L A++ P AAGSGIP+V A L + +L+ T K
Sbjct: 24 THPWLPLLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGK 83
Query: 205 IFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLIT 264
I ++ G+ G VG+EGP V GA + +G R L R LI
Sbjct: 84 ILLTLLGLLGGASVGREGPSVQIGAAVMLAIG-----------RRLP-KWGGLSERGLIL 131
Query: 265 CGAAAGVAGAFRAPVGGVLFALEE--AASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSG 322
G AAG+A AF P+ G++FA+EE R + L AV+ G + G
Sbjct: 132 AGGAAGLAAAFNTPLAGIVFAIEELSRDFELRFSGLVLL-------AVIAAGLVSLAVLG 184
Query: 323 RCGLFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINE 382
FG A L V+ GV+GG+ G + L+ +
Sbjct: 185 NYPYFGVA---------AVALPLGEAWLLVLVCGVVGGLAGGLFARLLVALSSGLPGWVR 235
Query: 383 RGPIFKVLLVAAVS-LLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAG 441
R + +L AA+ L + SG
Sbjct: 236 RFRRRRPVLFAALCGLALALIGLV------------------------SGG--------- 262
Query: 442 HYNDLASLFLNTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIP 501
L T R G L F + + +++Y +P GLF P
Sbjct: 263 -------LTFGTGYLQARAALEGGGG------LPLWFGLLKFLATLLSYWSGIPGGLFAP 309
Query: 502 VILAGASYGRLVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLML 561
+ GA G L+ LLG++ G LLG A+FL G + ++ VI++E+T + ML
Sbjct: 310 SLAVGAGLGSLLAALLGSV---SQGALVLLGMAAFLAGVTQAPLTAFVIVMEMTGDQQML 366
Query: 562 PLVMLVLLISKTVADSF-NQGVYD 584
++ L++ V+ + +Y
Sbjct: 367 LPLLAAALLASGVSRLVCPEPLYH 390
Score = 30.7 bits (70), Expect = 2.8
Identities = 41/208 (19%), Positives = 66/208 (31%), Gaps = 34/208 (16%)
Query: 105 WTLALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILA 164
W L L+ GV+ GLA F LL+ F +
Sbjct: 202 WLLVLVCGVVGGLAG----------GLFARLLVALSSGLPGWVRRFRRRRPVLFAALCGL 251
Query: 165 AILC--AYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEG 222
A+ G+G + +A L G L +K ++ +G G
Sbjct: 252 ALALIGLVSGGLTFGTGYLQARAALEG---GGGLPLWFGLLKFLATLLSYWSGIPGGLFA 308
Query: 223 PMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGV 282
P + GA + +LL L + L+ G AA +AG +AP+
Sbjct: 309 PSLAVGAGLGSLLA-------ALLG--------SVSQGALVLLGMAAFLAGVTQAPLTAF 353
Query: 283 LFALEEAASWWRSALLWRTFFTTAVVAV 310
+ +E + LL A++A
Sbjct: 354 VIVMEMTGD--QQMLLP--LLAAALLAS 377
>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 = 88.1 bits (219), Expect = 5e-21
Identities = 43/159 (27%), Positives = 57/159 (35%), Gaps = 58/159 (36%)
Query: 615 PLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTK 674
++ V ++ L T HNGFPV+D +P L G +LRS L+V LK
Sbjct: 3 LVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEE--SPRLVGYILRSQLVVALK------ 54
Query: 675 QKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETM 734
+ SP+TV
Sbjct: 55 ----------------------------------------------NYIDPSPFTVSPRT 68
Query: 735 SLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
SL K LFR+L LRHL VV +VGI+TR D +
Sbjct: 69 SLEKVHQLFRKLGLRHLLVV----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 = 79.3 bits (196), Expect = 1e-15
Identities = 92/403 (22%), Positives = 137/403 (33%), Gaps = 95/403 (23%)
Query: 177 GSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLG 236
G + +K + + + I V G +G+E GA LL
Sbjct: 64 GKKLVSIK---QAVRGKKRMPFWETIIHAVLQIVTVGLGAPLGREVAPREVGA----LLA 116
Query: 237 QGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAASWWRSA 296
Q S LT DRR L+ C A AG+A + P+ G LFALE
Sbjct: 117 QRFSDWLGLT---------VADRRLLVACAAGAGLAAVYNVPLAGALFALE--------- 158
Query: 297 LLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSA--DLLAVIF 354
+L RT +VVA + I + +G ++D+ + S LLA
Sbjct: 159 ILLRTISLRSVVAALATSAIAAAVAS----LLKGDHPIYDIPPMQLSTPLLIWALLAGPV 214
Query: 355 LGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLLTSCCSYGLPWLSHCIP 414
LGV+ F K + I+ + L+ S P +
Sbjct: 215 LGVVAAGFRRLSQAARAKRPKGKRIL---------WQMPLAFLVIGLLSIFFPQI----- 260
Query: 415 CPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAIRNLFSSGTSKEFHLST 474
GN + LA L +T L S L
Sbjct: 261 ---------------LGNGRA----------LAQLAFST------TLTLSLLLILLVLKI 289
Query: 475 LLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDT-----GLFA 529
+ A+ YG GL P + GA L+G LLG + + FA
Sbjct: 290 VATLL-ALRAGA---YG-----GLLTPSLALGA----LLGALLGIVWNALLPPLSIAAFA 336
Query: 530 LLGAASFLGGTMRMTVSLCVILLELTN-NLLMLPLVMLVLLIS 571
L+GAA+FL T + ++ +++LE T N L L +ML + +
Sbjct: 337 LIGAAAFLAATQKAPLTALILVLEFTRQNPLFLIPLMLAVAGA 379
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 54.0 bits (130), Expect = 2e-07
Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 15/81 (18%)
Query: 208 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDR-RDLITCG 266
S+ + +G +G+EGPMV A A+L+G R+ + D R R L+ CG
Sbjct: 125 SLLTIGSGGSIGREGPMVQLAALAASLVG-----------RFAHF---DPPRLRLLVACG 170
Query: 267 AAAGVAGAFRAPVGGVLFALE 287
AAAG+ A+ AP+ G F E
Sbjct: 171 AAAGITSAYNAPIAGAFFVAE 191
Score = 34.7 bits (80), Expect = 0.22
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 488 ITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDTGL---FALLGAASFLGGTMRMT 544
T G G+F P + GA G L G + AL T +A++G +FL G +
Sbjct: 329 ATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGHTSAPFAYAMVGMGAFLAGATQAP 388
Query: 545 VSLCVILLELTNNLLMLPLVMLVLLISKTVA 575
+ +++ E+T + V+L L++S VA
Sbjct: 389 LMAILMIFEMT----LSYQVVLPLMVSCVVA 415
>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 = 50.3 bits (121), Expect = 2e-06
Identities = 33/93 (35%), Positives = 44/93 (47%), Gaps = 19/93 (20%)
Query: 196 LAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFK- 254
+AP LF + +FG +AG +EG V G +A+ G R FK
Sbjct: 77 MAPLVLFGTVLTHLFGGSAG----REGTAVQMGGSLADAFG--------------RVFKL 118
Query: 255 NDRDRRDLITCGAAAGVAGAFRAPVGGVLFALE 287
+ DRR L+ G AAG A F P+ G +FALE
Sbjct: 119 PEEDRRILLIAGIAAGFAAVFGTPLAGAIFALE 151
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 48.6 bits (116), Expect = 8e-06
Identities = 30/103 (29%), Positives = 45/103 (43%), Gaps = 16/103 (15%)
Query: 186 YLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHL 245
Y+ + + VK S+ V +G +G+EG M+ A A+ Q + +
Sbjct: 85 YMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQRFTPRQE- 143
Query: 246 TWR-WLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALE 287
W+ W I CGAAAG+A A+ AP+ G LF E
Sbjct: 144 -WKLW-------------IACGAAAGMASAYHAPLAGSLFIAE 172
Score = 40.5 bits (95), Expect = 0.003
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)
Query: 491 GIAVPSGLFIPVILAGASYGRLVGNLLG---ALSDLDTGLFALLGAASFLGGTMRMTVSL 547
G P G+F P + G + G L G LG + T L L G A+ L T +
Sbjct: 314 GSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEITLLLGLTGMATLLAATTHAPIMS 373
Query: 548 CVILLELTNNLLMLPLVMLVLLISKTVA 575
+++ E+T +LP +++ +I+ ++
Sbjct: 374 TLMICEMTGEYQLLPGLLIACVIASVIS 401
>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 = 43.6 bits (103), Expect = 3e-05
Identities = 36/159 (22%), Positives = 52/159 (32%), Gaps = 49/159 (30%)
Query: 615 PLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTK 674
++T S + V + + +G PV+D+ L G+V LL L
Sbjct: 2 DVVTVSPDDTVAEALRLMLEHGISGLPVVDD-----DGRLVGIVTERDLLRALAEGGLDP 56
Query: 675 QKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETM 734
T+ D+M R TV
Sbjct: 57 LVTV--GDVMTR---------------------------------------DVVTVSPDT 75
Query: 735 SLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
SL +AA L + +R L VV GR VGI+TR D +
Sbjct: 76 SLEEAAELMLEHGIRRLPVV-DDEGRL--VGIVTRSDIL 111
Score = 32.0 bits (73), Expect = 0.30
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 725 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
TV ++A+A L + + L VV GR VGI+T D +
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVV-DDDGRL--VGIVTERDLL 46
>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 = 39.1 bits (92), Expect = 0.001
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 725 TSP-YTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
+SP TV SL A L R+ +RHL VV G +G+L++ D +
Sbjct: 63 SSPLLTVPADTSLYDARQLMREHGIRHLVVV-DDDGEL--LGLLSQTDLL 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 = 37.1 bits (87), Expect = 0.002
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 722 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
I TV SL +A L R+ + L VV + G+ +VGI+T D +
Sbjct: 4 IMTPDVVTVPPDTSLEEALELMRENGISRLPVVDED-GK--LVGIVTLRDLL 52
Score = 30.6 bits (70), Expect = 0.26
Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 608 ASDVVSGPLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLL 667
D+++ ++T + + +R + PV+DE +L G+V LL L
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDE-----DGKLVGIVTLRDLLRAL 55
Query: 668 KG 669
Sbjct: 56 LE 57
>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 = 36.5 bits (85), Expect = 0.011
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 725 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF---MPEHVLGLY 781
+P TV SL +A L ++ ++R L VV + G+ +VGI+T D P L
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDR--GK--LVGIVTDRDLKLASPSKATTLD 56
Query: 782 PH 783
Sbjct: 57 IW 58
>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 = 0.017
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 725 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
+ T+ E SLA A L R+ +RHL VV +VG+LT+ D +
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVV---NEDGKLVGLLTQRDLL 46
>gnl|CDD|240002 cd04631, CBS_pair_18, 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 = 125
Score = 33.4 bits (77), Expect = 0.12
Identities = 33/149 (22%), Positives = 54/149 (36%), Gaps = 40/149 (26%)
Query: 628 IMHALRLTRHNGF---PVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQKTMTGSDIM 684
IM A ++ NGF PV+DE +L G++ T +DI+
Sbjct: 12 IMEAAKIMVRNGFRRLPVVDEGTG----KLVGII--------------------TATDIL 47
Query: 685 RRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETMSLAKAAVLFR 744
+ G G K + + + I + T+ S+ AA L
Sbjct: 48 KYL----------GGGEKFNKIKTGNGLEAINEPVRSIMTRNVITITPDDSIKDAAELML 97
Query: 745 QLALRHLCVVPKTPGRPPIVGILTRHDFM 773
+ + L VV G+ +VGI+T D +
Sbjct: 98 EKRVGGLPVVDDD-GK--LVGIVTERDLL 123
>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 = 32.6 bits (75), Expect = 0.22
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 727 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
TV SL +A L R+ + +P G +VGI+T+ D +
Sbjct: 4 VVTVTPDTSLEEAWALLRR---HRIKALPVVDGDRRLVGIVTQRDLL 47
Score = 30.7 bits (70), Expect = 0.99
Identities = 18/68 (26%), Positives = 25/68 (36%), Gaps = 16/68 (23%)
Query: 630 HALRLTRHNGF---PVIDEPPLTPAPELCGLVLRSHLL--------VLLKGKKFTKQKTM 678
A L R + PV+D L G+V + LL L+G+ + K
Sbjct: 15 EAWALLRRHRIKALPVVDG-----DRRLVGIVTQRDLLRHARPDGRRPLRGRLRGRDKPE 69
Query: 679 TGSDIMRR 686
T DIM
Sbjct: 70 TVGDIMSP 77
>gnl|CDD|219089 pfam06570, DUF1129, Protein of unknown function (DUF1129). This
family consists of several hypothetical bacterial
proteins of unknown function.
Length = 206
Score = 33.4 bits (77), Expect = 0.27
Identities = 12/75 (16%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 324 CGLFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINER 383
+ G L S + + + ++ ++GG+ + + + L+ S +R
Sbjct: 92 ALMNGIMALF-----SKNAQPAYSGITTLLLTSLVGGLAMYYMYRYLYRYLKDKS---KR 143
Query: 384 GPIFKVLLVAAVSLL 398
P +K LL+ ++++
Sbjct: 144 PPWWKSLLILVLAVV 158
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 32.4 bits (74), Expect = 0.27
Identities = 32/166 (19%), Positives = 55/166 (33%), Gaps = 51/166 (30%)
Query: 609 SDVVSGPLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLK 668
D+++ +IT V + + + + PV+D+ +L G++
Sbjct: 2 KDIMTKDVITVKPDTSVRDALLLMSENGVSAVPVVDDG------KLVGII---------- 45
Query: 669 GKKFTKQKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPY 728
T DI+R A L +KE +
Sbjct: 46 ----------TERDILRALAAGG-----------KRLLPVKE-----------VMTKPVV 73
Query: 729 TVVETMSLAKAAVLFRQLA-LRHLCVVPKTPGRPPIVGILTRHDFM 773
TV L +A L + +R L VV G+ +VGI+T D +
Sbjct: 74 TVDPDTPLEEALELMVERHKIRRLPVVDDDGGK--LVGIITLSDIL 117
>gnl|CDD|201391 pfam00683, TB, TB domain. This domain is also known as the 8
cysteine domain. This family includes the hybrid
domains. This cysteine rich repeat is found in TGF
binding protein and fibrillin.
Length = 42
Score = 30.0 bits (68), Expect = 0.33
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 401 CCSYGLPWLSHCIPCP 416
CCS G W + C PCP
Sbjct: 17 CCSLGRAWGTPCEPCP 32
>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 = 0.39
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 727 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 772
TV +L +A L R+ +R L VV GR +VGI+TR D
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVV-DEEGR--LVGIVTRRDI 44
>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 = 31.7 bits (73), Expect = 0.44
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 722 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 772
+ N +P T S + L R+ ++RHL ++ + GR +VG+ T D
Sbjct: 63 VMNRNPITAKVGSSREEILALMRERSIRHLPILDEE-GR--VVGLATLDDL 110
>gnl|CDD|221791 pfam12822, DUF3816, Protein of unknown function (DUF3816). This
family of proteins is functionally uncharacterized but
are likely to be membrane transporters. This family of
proteins is found in bacteria and archaea. Proteins in
this family are typically between 177 and 208 amino
acids in length. A subset of this family is associated
with the TM1506 proteins. In this context, transport
through the channel is predicted to be regulated by the
TM1506 protein by either regulating redox potential or
modification of substrates.
Length = 168
Score = 32.6 bits (75), Expect = 0.46
Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 1/80 (1%)
Query: 474 TLLVFFVAI-YCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDTGLFALLG 532
L+ A+ L I + IPV+L G + G L+G L+ L + L G
Sbjct: 4 VLIALLSALSIVLMYIPFPPLKIDFSHIPVLLGAFLLGPVAGALIGLLTSLLSFLLFGGG 63
Query: 533 AASFLGGTMRMTVSLCVILL 552
+ +G + L+
Sbjct: 64 PFALVGPLANFLPRILFGLI 83
>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 = 30.9 bits (71), Expect = 0.69
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 727 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
P T+ ++ +A +L + + HL VV GR VG+++ D +
Sbjct: 67 PITIPPDATVFEALLLMLERGIHHLPVVDD--GRL--VGVISATDLL 109
>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 = 30.5 bits (69), Expect = 0.94
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 617 ITFSGVEKVGNIMHALRLTRHNGFPVID 644
IT S V +++ ++ T H+GFPV+D
Sbjct: 5 ITVSPDNTVKDVIKLIKETGHDGFPVVD 32
>gnl|CDD|239959 cd04586, CBS_pair_BON_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains
associated with the BON (bacterial OsmY and nodulation
domain) domain. BON is a putative phospholipid-binding
domain found in a family of osmotic shock protection
proteins. It is also found in some secretins and a group
of potential haemolysins. Its likely function is
attachment to phospholipid membranes. 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 = 135
Score = 31.0 bits (71), Expect = 1.1
Identities = 37/157 (23%), Positives = 58/157 (36%), Gaps = 43/157 (27%)
Query: 622 VEKVGNIMHALRLTRH-NGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQKTMTG 680
V + +M L H +G PV+D L G+V +
Sbjct: 13 VAEAARLM----LDNHISGLPVVD-----DDGRLVGIV--------------------SE 43
Query: 681 SDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHP-----ITNTSPYTVVETMS 735
D++RR + + + L+ L EE FV H + TV E
Sbjct: 44 GDLLRRAELGTERR----RARWLDLLAGAEELAAAFVRSHGRKVADVMTRPVVTVGEDTP 99
Query: 736 LAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 772
LA+ A L + ++ + VV GR +VGI++R D
Sbjct: 100 LAEVAELMEEHRIKRVPVVRG--GR--LVGIVSRADL 132
>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 = 30.2 bits (69), Expect = 1.4
Identities = 28/157 (17%), Positives = 46/157 (29%), Gaps = 48/157 (30%)
Query: 617 ITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQK 676
+T + ++ + + N FPV+D+ L G+V + +L
Sbjct: 4 VTIPEDTPLNELLDVIAHSPENNFPVVDD-----DGRLVGIVSLDDIREILF-------- 50
Query: 677 TMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETMSL 736
+ + V I P V SL
Sbjct: 51 ---------------------------------DPSLYDLVVASDIMTKPPVVVYPEDSL 77
Query: 737 AKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 773
A F L VV PG+ ++GIL+R D +
Sbjct: 78 EDALKKFEDSDYEQLPVVDDDPGK--LLGILSRSDLL 112
>gnl|CDD|239996 cd04624, CBS_pair_11, 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 = 112
Score = 29.5 bits (67), Expect = 2.3
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 722 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPK 756
I TV +A+AA L R+ +RH VV K
Sbjct: 62 IMTRDLVTVDPDEPVAEAAKLMRKNNIRHHLVVDK 96
>gnl|CDD|239994 cd04622, CBS_pair_9, 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 (67), Expect = 2.7
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 722 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILT 768
+ TV E + +AA L R+ +R L VV GR +VGI++
Sbjct: 63 VMTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDD-GR--LVGIVS 106
>gnl|CDD|227029 COG4684, COG4684, Predicted membrane protein [Function unknown].
Length = 189
Score = 29.8 bits (67), Expect = 3.5
Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 7/61 (11%)
Query: 467 SKEFHLSTLLVFF---VAIYCLGIITYGI----AVPSGLFIPVILAGASYGRLVGNLLGA 519
K + +F I L YG P+ + IPVI+ YG VG +LG
Sbjct: 4 KKRSDTRQITIFGALMAVIIVLSSTGYGFWPLPIKPTIMHIPVIIGSIVYGPRVGAILGL 63
Query: 520 L 520
L
Sbjct: 64 L 64
>gnl|CDD|219185 pfam06808, DctM, DctM-like transporters. This family contains a
diverse range of predicted transporter proteins.
Including the DctM subunit of the bacterial and archaeal
TRAP C4-dicarboxylate transport (Dct) system permease.
In general, C4-dicarboxylate transport systems allow
C4-dicarboxylates like succinate, fumarate, and malate
to be taken up. TRAP C4-dicarboxylate carriers are
secondary carriers that use an electrochemical H+
gradient as the driving force for transport. DctM is an
integral membrane protein that is one of the
constituents of TRAP carriers. Note that many family
members are hypothetical proteins.
Length = 412
Score = 30.7 bits (70), Expect = 3.6
Identities = 29/110 (26%), Positives = 45/110 (40%), Gaps = 19/110 (17%)
Query: 476 LVFFVAIYCLGIITYGIAVPS-----GLFIPVILAGASYGRL-VGNLLGALSDLDTG--- 526
L+ I L I GI P+ + +++ Y RL + + AL L T
Sbjct: 216 LLLPFII--LIGILLGIFTPTEAGAYAVVYALLIGVLVYRRLTLEEVAAAL--LQTARTT 271
Query: 527 --LFALLGAASFLGGTMRMT---VSLCVILLELT-NNLLMLPLVMLVLLI 570
+ +L AA + +T ++ LL L LL L LV L+LL+
Sbjct: 272 AAVLFILAAAGIFAWLLTLTGVPFAVSDWLLSLGGGKLLFLILVNLLLLV 321
>gnl|CDD|236315 PRK08633, PRK08633, 2-acyl-glycerophospho-ethanolamine
acyltransferase; Validated.
Length = 1146
Score = 30.3 bits (69), Expect = 5.9
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 11/72 (15%)
Query: 106 TLALLIGVLTGLAAVFCNFFVENIAGFKLLLINNLMLNDRHFMGFVANTSINLGLAILAA 165
L +IG L L F N F + G K+L+ N L + + + L + A
Sbjct: 4 NLLKIIGFLPLLLTQFLNAFNDL--GHKILIQNTL------IKAYDGSEQVILTAIVNAL 55
Query: 166 ILCAYI---APA 174
L ++ +PA
Sbjct: 56 FLLPFLLLSSPA 67
>gnl|CDD|226434 COG3920, COG3920, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 221
Score = 29.2 bits (66), Expect = 6.6
Identities = 17/55 (30%), Positives = 20/55 (36%), Gaps = 3/55 (5%)
Query: 504 LAGASYGR-LVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNN 557
ASY L NL + D L G FL V L +I+ EL N
Sbjct: 81 WDFASYLELLASNLFPSYGGKDIRLILDSGPNVFLD--PDTAVPLGLIVHELVTN 133
>gnl|CDD|239971 cd04598, CBS_pair_GGDEF_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
association with the GGDEF (DiGuanylate-Cyclase (DGC))
domain. 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 = 119
Score = 28.3 bits (64), Expect = 6.9
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 729 TVVETMSLAKAAVLF-RQLALRHLCVVPKTPGRPPIVGILTRHDFMPEHVLGLY 781
TV ++ F R L L VV GRP VG++ R M E + Y
Sbjct: 5 TVSPDTTVNDVLERFERDPDLSALAVVDD--GRP--VGLIMREALM-ELLSTPY 53
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 29.4 bits (67), Expect = 7.7
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 718 DLHP----ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHD 771
D+ P + P TV SL +A L + ++ L VV + G+ +G+++ D
Sbjct: 65 DVKPQVRDLEIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEE-GKL--LGLVSLSD 119
>gnl|CDD|129913 TIGR00833, actII, Transport protein. The
Resistance-Nodulation-Cell Division (RND) Superfamily-
MmpL sub family (TC 2.A.6.5)Characterized members of the
RND superfamily all probably catalyze substrate efflux
via an H+ antiport mechanism. These proteins are found
ubiquitously in bacteria, archaea and eukaryotes. This
sub-family includes the S. coelicolor ActII3 protein,
which may play a role in drug resistance, and the M.
tuberculosis MmpL7 protein, which catalyzes export of an
outer membrane lipid, phthiocerol dimycocerosate
[Transport and binding proteins, Unknown substrate].
Length = 910
Score = 29.6 bits (66), Expect = 9.5
Identities = 25/108 (23%), Positives = 41/108 (37%), Gaps = 12/108 (11%)
Query: 469 EFHLSTLLVFFVAIYCLGIITYGIAV--------PSGLFIPVILAGASYGRLVGNLLGAL 520
E H S L FV + LG+ Y + + P+G +I A S G ++ L
Sbjct: 800 ELHWSVLAGVFVLLVALGV-DYNMLLVSRIKEESPAGNRTGIIRALGSTGGVITA--AGL 856
Query: 521 SDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVL 568
+ AL A TV + ++L + +P + L+L
Sbjct: 857 V-FAGTMAALASAQLTAIAQFGFTVGVGILLDTFIVRSVTVPALTLLL 903
>gnl|CDD|240004 cd04633, CBS_pair_20, 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 = 121
Score = 28.0 bits (63), Expect = 9.5
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 16/74 (21%)
Query: 596 EAHAEPYMKNLVASDVVSGPLITFSG---VEKVGNIMHALRLTRHN--GFPVIDEPPLTP 650
+ H E ++NL SD+++ P+IT V V ++M +N G PV+D+
Sbjct: 57 DRHQERRIRNLPVSDIMTRPVITIEPDTSVSDVASLM-----LENNIGGLPVVDD----- 106
Query: 651 APELCGLVLRSHLL 664
+L G+V R+ +L
Sbjct: 107 -GKLVGIVTRTDIL 119
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
0.325 0.141 0.430
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: 41,576,968
Number of extensions: 4321576
Number of successful extensions: 6485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6399
Number of HSP's successfully gapped: 168
Length of query: 789
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 684
Effective length of database: 6,280,432
Effective search space: 4295815488
Effective search space used: 4295815488
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 (21.6 bits)
S2: 63 (27.9 bits)