RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 006517
(642 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 = 405 bits (1044), Expect = e-136
Identities = 143/266 (53%), Positives = 179/266 (67%)
Query: 1 MGFVANTSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFG 60
F+ +NL L ++AA+L AYIAP AAGSGIPEVK YLNG+ IL TL VKI G
Sbjct: 76 TAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKIPHILRLKTLLVKIVG 135
Query: 61 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGA 120
I V+ G +GKEGPM+H GACIA L QGGS L +RW RYF+NDRD+RD +TCGA
Sbjct: 136 VILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRYFRNDRDKRDFVTCGA 195
Query: 121 AAGVAGAFRAPVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLF 180
AAGVA AF APVGGVLF+LEE AS+W AL WRTFF++ +V L F+ C SG+CGLF
Sbjct: 196 AAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTLNFFLSGCNSGKCGLF 255
Query: 181 GQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIF 240
G GGLIMFD +S K Y+ +L+ + +GVIGG+ G+ +N+L KV R IN +G +
Sbjct: 256 GPGGLIMFDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNHLNHKVTRFRKRINHKGKLL 315
Query: 241 KVLLVAAVSLLTSCCSYGLPWLSHCI 266
KVL VSL+TS ++ L +
Sbjct: 316 KVLEALLVSLVTSVVAFPQTLLIFFV 341
Score = 202 bits (516), Expect = 3e-58
Identities = 86/133 (64%), Positives = 103/133 (77%), Gaps = 3/133 (2%)
Query: 319 TSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLG---ALSD 375
TS TLL+FFV Y L T+GIAVPSGLFIP+IL GA+YGRLVG LLG +
Sbjct: 327 TSVVAFPQTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVGILLGSYFGFTS 386
Query: 376 LDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLISKTVADSFNQGV 435
+D GL+ALLGAA+FLGG MRMTVSL VILLELTNNL LP +MLVL+I+K V D FN+G+
Sbjct: 387 IDPGLYALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNEGI 446
Query: 436 YDQIVKLKGLPYL 448
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 = 281 bits (722), Expect = 3e-88
Identities = 154/470 (32%), Positives = 236/470 (50%), Gaps = 76/470 (16%)
Query: 3 FVANTSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSI 62
++ + L A +A +L +AP AAGSGIPE+K L+G L TL +K G +
Sbjct: 28 YIIYVLLALLFAFIAVLLVKVVAPYAAGSGIPEIKTILSGFIIRGFLGKWTLLIKSVGLV 87
Query: 63 FGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWL-RYFKNDRDRRDLITCGAA 121
VA+G +GKEGP+VH C+ N++ R +Y +N+ RR++++ AA
Sbjct: 88 LAVASGLSLGKEGPLVHIATCVGNIIS-----------RLFPKYRRNEAKRREILSAAAA 136
Query: 122 AGVAGAFRAPVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFG 181
AGVA AF AP+GGVLF+LEE + ++ LWR+FF V A L+ FG
Sbjct: 137 AGVAVAFGAPIGGVLFSLEEVSYYFPLKTLWRSFFCALVAAFTLKSL---------NPFG 187
Query: 182 QGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVL---RTYSIINERGP 238
G L++F+V ++ + +L+ I LG+ GG++G+F+ K + + +R P
Sbjct: 188 TGRLVLFEVEYDRD-WHYFELIPFILLGIFGGLYGAFFIKANIKWARFRKKSLL--KRYP 244
Query: 239 IFKVLLVAAVSLLTSCCSYGLPWLSHCIPCPSYLEADRCPTVG--RSGNYKNFQCPAGHY 296
+ +VLLVA L+T+ S+ P+ + L + C Y++ G Y
Sbjct: 245 VLEVLLVA---LITALISFPNPYTRLDMTELLELLFNECEPGDDNSLCCYRDPPAGDGVY 301
Query: 297 NDLASLFLNTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVI 356
L SL L + L I T+GI VP+G+F+P +
Sbjct: 302 KALWSLLLAL--------------------------IIKLLLTIFTFGIKVPAGIFVPSM 335
Query: 357 LAGASYGRLVGNLLGAL-----------------SDLDTGLFALLGAASFLGGTMRMTVS 399
GA +GR+VG L+ L S + GL+A++GAA+FLGG RMTVS
Sbjct: 336 AVGALFGRIVGILVEQLAYSYPDSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVS 395
Query: 400 LCVILLELTNNLLMLPLVMLVLLISKTVADSFN-QGVYDQIVKLKGLPYL 448
L VI+ ELT L + +M+ +++SK VAD+ +G+YD + L G P+L
Sbjct: 396 LVVIMFELTGALNYILPLMIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 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 = 233 bits (596), Expect = 5e-71
Identities = 126/421 (29%), Positives = 177/421 (42%), Gaps = 80/421 (19%)
Query: 12 GLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVV 71
+LA +L AA GSGIPEV A L+G+ L L VK G++ + +G +
Sbjct: 1 IGGLLAGLLVKRFPEAA-GSGIPEVIAALHGV--KGPLPLRVLLVKFLGTLLTLGSGGSL 57
Query: 72 GKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAP 131
G+EGP V GA I + LG R L+ +NDR R LI GAAAG+A AF AP
Sbjct: 58 GREGPSVQIGAAIGSGLG-----------RRLKLSRNDR--RRLIAAGAAAGIAAAFNAP 104
Query: 132 VGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVN 191
+ GVLFALEE + + L + V A+V R G LF L
Sbjct: 105 LAGVLFALEELSRSFSYRALLPVLVASVVAALVSRLLF-----GNEPLFEVPSLPPL--- 156
Query: 192 SAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLL 251
S +L I LG++ G+ G+ + L+ KV R + + + PI + L LL
Sbjct: 157 ------SLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKKLPPILRPALGG---LL 207
Query: 252 TSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAI 311
LP L I
Sbjct: 208 VGLLGLFLP-----------------------------------------EVLGGGYGLI 226
Query: 312 RNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLG 371
+ L + T L LL+ + ++ G P G+F P + GA+ GRL+G LL
Sbjct: 227 QLLLNGST---LSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLP 283
Query: 372 ALSD---LDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLISKTVA 428
L G FALLG A+FL G R ++ V++ ELT + +L +ML +LI+ V+
Sbjct: 284 LLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVS 343
Query: 429 D 429
Sbjct: 344 R 344
Score = 44.5 bits (106), Expect = 1e-04
Identities = 30/130 (23%), Positives = 45/130 (34%), Gaps = 9/130 (6%)
Query: 11 LGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFV 70
L L L P G G ++ LNG +L L +K+ + + +G
Sbjct: 201 PALGGLLVGLLGLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSGAP 260
Query: 71 VGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRA 130
G P + GA + LLG + F G AA +AG RA
Sbjct: 261 GGIFAPSLFIGAALGRLLGLLLPLLFPGIAPSPGAF---------ALLGMAAFLAGVTRA 311
Query: 131 PVGGVLFALE 140
P+ ++ E
Sbjct: 312 PLTAIVLVFE 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 = 229 bits (585), Expect = 1e-68
Identities = 89/258 (34%), Positives = 133/258 (51%), Gaps = 1/258 (0%)
Query: 1 MGFVANTSINLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFG 60
+G++ ++ L ++++ +C Y AP AAGSGIPEV AYLNG+ L+ TL K
Sbjct: 35 LGYLMWVLWSVVLVLISSGICLYFAPQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKTIS 94
Query: 61 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGA 120
I VA+G +GKEGP+VH GA I L QG S+ + F+N RDRRD + GA
Sbjct: 95 CICAVASGLPLGKEGPLVHLGAMIGAGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVAGA 154
Query: 121 AAGVAGAFRAPVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLF 180
AAGVA AF AP+GG+LF LEE ++++ L WR FF V A V++ + F
Sbjct: 155 AAGVASAFGAPIGGLLFVLEEVSTFFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDR 214
Query: 181 GQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLR-TYSIINERGPI 239
+ V + + + + +GVI G+ + + L LR ++ +
Sbjct: 215 SSAMFLSLTVFELHVPLNLYEFIPTVVIGVICGLLAALFVRLSIIFLRWRRRLLFRKTAR 274
Query: 240 FKVLLVAAVSLLTSCCSY 257
++VL +L+ S Y
Sbjct: 275 YRVLEPVLFTLIYSTIHY 292
Score = 121 bits (306), Expect = 8e-30
Identities = 57/135 (42%), Positives = 85/135 (62%), Gaps = 11/135 (8%)
Query: 314 LFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLL--- 370
LF+ S + TLL+F + + + + +GIAVP G FIP ++ GA+ GRLVG L+
Sbjct: 282 LFTLIYSTIHYAPTLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRI 341
Query: 371 --------GALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLL 422
A D G++AL+GAA+FLGGT R+T S+CVI++ELT +L L +M+ +L
Sbjct: 342 AVAGIGAESATLWADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAIL 401
Query: 423 ISKTVADSFNQGVYD 437
I+K VAD+F + +Y
Sbjct: 402 IAKAVADAFCESLYH 416
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 169 bits (430), Expect = 3e-46
Identities = 126/447 (28%), Positives = 189/447 (42%), Gaps = 81/447 (18%)
Query: 11 LGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFV 70
LG ++ A+L AP A GSGIP+ L+G ++P L VK+ ++ + +G
Sbjct: 72 LGGLLVGALLVYKFAPEARGSGIPQAIEALHGRK--GRISPRVLPVKLVATLLTIGSGAS 129
Query: 71 VGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRA 130
+G+EGP V GA I +LLG R L+ + DRR L+ GAAAG+A AF A
Sbjct: 130 LGREGPSVQIGAAIGSLLG-----------RLLK--LSREDRRILLAAGAAAGLAAAFNA 176
Query: 131 PVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDV 190
P+ G LFA+E L R A+V V++ + GLFG ++ V
Sbjct: 177 PLAGALFAIEV--------LYGRFLEYRALVPVLVAAVV---ALLVAGLFGGPHFLLPIV 225
Query: 191 NSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSL 250
+ S DLL + LG+I G+FG + L+ R R P+ +L A L
Sbjct: 226 TTPHMSLW--DLLLYLVLGIIAGLFGVLLSRLLALSRR----FFRRLPLPPLLRPALGGL 279
Query: 251 LTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDA 310
L P +G +
Sbjct: 280 LVGALGLLFPE-----------------VLGNGYGL------------IQLALAG----- 305
Query: 311 IRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVG--- 367
E L LL+ F+ +++YG P G+F P + GA+ G G
Sbjct: 306 -----------EGGLLVLLLLFLLKLLATLLSYGSGAPGGIFAPSLFIGAALGLAFGALL 354
Query: 368 NLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLISKTV 427
LL S L+ GLFALLG A+FL T R ++ V++LE+T N +L +++ LI+ V
Sbjct: 355 GLLFPPSILEPGLFALLGMAAFLAATTRAPLTAIVLVLEMTGNYQLLLPLLIACLIAYLV 414
Query: 428 AD-SFNQGVYDQIVKLKGLPYLEAHAE 453
+ + +Y Q++ +G P L
Sbjct: 415 SRLLGGRPIYTQLLARRGAPILREERA 441
>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 = 162 bits (413), Expect = 2e-44
Identities = 110/416 (26%), Positives = 161/416 (38%), Gaps = 83/416 (19%)
Query: 13 LAILAAILCAYIAPAAAGSGIPEV-KAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVV 71
+ L L + A G GIPEV +A G L VK S + +G V
Sbjct: 46 IGGLLVGLLVRLLGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALTLGSGGSV 102
Query: 72 GKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAP 131
G+EGP+V GA I + LG R LR + DRR L+ CGAAAG+A AF AP
Sbjct: 103 GREGPIVQIGAAIGSWLG-----------RRLRL--SRNDRRILVACGAAAGIAAAFNAP 149
Query: 132 VGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVN 191
+ G LFA+E +L + +++ V+L S LFG +
Sbjct: 150 LAGALFAIE---------VLLGEYSVASLIPVLLASVAAALVSR--LLFGAEPAFGVPLY 198
Query: 192 SAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLL 251
S +L + LG++ G+ G + L+ K+ R + R PI L A LL
Sbjct: 199 D---PLSLLELPLYLLLGLLAGLVGVLFVRLLYKIERLF----RRLPIPPWLRPALGGLL 251
Query: 252 TSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAI 311
LP + G L L
Sbjct: 252 LGLLGLFLPQVL------------------------------GSGYGAILLALAGE---- 277
Query: 312 RNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLG 371
L LL+ + +T G P G+F P + GA+ G G LL
Sbjct: 278 -----------LSLLLLLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLP 326
Query: 372 AL---SDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLMLPLVMLVLLIS 424
AL G +AL+G A+ L +R ++ +++LELT + +L +ML ++I+
Sbjct: 327 ALFPGLVASPGAYALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
Score = 39.9 bits (94), Expect = 0.003
Identities = 29/130 (22%), Positives = 43/130 (33%), Gaps = 10/130 (7%)
Query: 11 LGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFV 70
L L L P GSG + L G + +L L +K+ + + +GF
Sbjct: 245 PALGGLLLGLLGLFLPQVLGSGYGAILLALAGELSLLLLLLL-LLLKLLATALTLGSGFP 303
Query: 71 VGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRA 130
G P + GA + G + G AA +A RA
Sbjct: 304 GGVFAPSLFIGAALGAAFGLLLP---------ALFPGLVASPGAYALVGMAALLAAVLRA 354
Query: 131 PVGGVLFALE 140
P+ +L LE
Sbjct: 355 PLTAILLVLE 364
>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 = 161 bits (410), Expect = 9e-44
Identities = 115/439 (26%), Positives = 178/439 (40%), Gaps = 85/439 (19%)
Query: 9 INLGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAG 68
I+ L +LA L AP A GSGIP+V+ L G+ L VK G + + +G
Sbjct: 43 ISAVLGLLAGWLVKKFAPEAKGSGIPQVEGVLAGL--LPPNWWRVLPVKFVGGVLALGSG 100
Query: 69 FVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAF 128
+G+EGP V GA I + +W + + +RR LI GAAAG+A AF
Sbjct: 101 LSLGREGPSVQIGAAIGQGVS-----------KWFK--TSPEERRQLIAAGAAAGLAAAF 147
Query: 129 RAPVGGVLFALEEAASWWRSALLWRTFFTTAVVA-VVLRGFIEFCRSGRCGLFGQGGLIM 187
AP+ GVLF LEE + L T ++ A V R F FG G ++
Sbjct: 148 NAPLAGVLFVLEELRHSFSP-LALLTALVASIAADFVSRLF-----------FGLGPVLS 195
Query: 188 FDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAA 247
+ ++ LG+I G+ G +N + K Y + + +VLL
Sbjct: 196 I---PPLPALPLKSYWLLLLLGIIAGLLGYLFNRSLLKSQDLYRKLKKLPRELRVLLPGL 252
Query: 248 VSLLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTN 307
+ L P G+
Sbjct: 253 LIGPL------GLLL---------------PEALGGGH---------------------- 269
Query: 308 DDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVG 367
L S F +S LL+ FV + +++YG P G+F P++ GA G L G
Sbjct: 270 -----GLILSLAGGNFSISLLLLIFVLRFIFTMLSYGSGAPGGIFAPMLALGALLGLLFG 324
Query: 368 NLLGALSDLDTGL---FALLGAASFLGGTMRMTVSLCVILLELTNNL-LMLPLVMLVLLI 423
+L L + FA+ G A+F +R ++ +++ E+T N L+LPL M+V L+
Sbjct: 325 TILVQLGPIPISAPATFAIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPL-MVVCLV 383
Query: 424 SKTVADSFNQG-VYDQIVK 441
+ VAD +Y+ +++
Sbjct: 384 AYLVADLLGGKPIYEALLE 402
>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 = 143 bits (363), Expect = 3e-37
Identities = 71/250 (28%), Positives = 119/250 (47%), Gaps = 15/250 (6%)
Query: 11 LGLAILAAILCAYIAPAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFV 70
+ L + +A+ C YI+P A GSGIPE+K L G+ L TL K+ G + +G
Sbjct: 53 VALVLFSALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLP 112
Query: 71 VGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRA 130
+GKEGP VH + +A LL LT + ++N+ R +++ A GVA F A
Sbjct: 113 LGKEGPFVHISSIVAALLS-------KLTTFFSGIYENESRRMEMLAAACAVGVACTFGA 165
Query: 131 PVGGVLFALEEAASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDV 190
P+GGVLF++E ++++ WR FF A R + S + + +
Sbjct: 166 PIGGVLFSIEVTSTYFAVRNYWRGFFAATCGAFTFR-LLAVFFSDQETITA----LFKTT 220
Query: 191 NSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVL---RTYSIINERGPIFKVLLVAA 247
+ +L LG+I G+ G+ + +L K++ R + ++ +L A
Sbjct: 221 FFVDFPFDVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKFLKRSPLLYPAI 280
Query: 248 VSLLTSCCSY 257
V+LLT+ ++
Sbjct: 281 VALLTAVLTF 290
Score = 98.1 bits (245), Expect = 8e-22
Identities = 52/137 (37%), Positives = 79/137 (57%), Gaps = 13/137 (9%)
Query: 323 FHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL--------- 373
F TL +F V + L + + VP+G+F+PV + GA+ GRLVG ++ L
Sbjct: 290 FPFLTLFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGI 349
Query: 374 -SDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNL-LMLPLVMLVLLISKTVADSF 431
+ + G +A++GAA+F G TVS+ VI+ ELT + +LP V++ +LIS VA
Sbjct: 350 SNPIGPGGYAVVGAAAFSGAVTH-TVSVAVIIFELTGQISHLLP-VLIAVLISNAVAQFL 407
Query: 432 NQGVYDQIVKLKGLPYL 448
+YD I+K+K LPYL
Sbjct: 408 QPSIYDSIIKIKKLPYL 424
>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 = 127 bits (321), Expect = 7e-32
Identities = 110/444 (24%), Positives = 166/444 (37%), Gaps = 90/444 (20%)
Query: 7 TSINLGLAILAAI--LCAYI----APAAAGSGIPEVKAYL---NGIDAHSILAPSTLFVK 57
T L L + A L A++ P AAGSGIP+V A L + +L+ T K
Sbjct: 24 THPWLPLLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGK 83
Query: 58 IFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLIT 117
I ++ G+ G VG+EGP V GA + +G R L R LI
Sbjct: 84 ILLTLLGLLGGASVGREGPSVQIGAAVMLAIG-----------RRLP-KWGGLSERGLIL 131
Query: 118 CGAAAGVAGAFRAPVGGVLFALEE--AASWWRSALLWRTFFTTAVVAVVLRGFIEFCRSG 175
G AAG+A AF P+ G++FA+EE R + L AV+ G + G
Sbjct: 132 AGGAAGLAAAFNTPLAGIVFAIEELSRDFELRFSGLVLL-------AVIAAGLVSLAVLG 184
Query: 176 RCGLFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINE 235
FG A L V+ GV+GG+ G + L+ +
Sbjct: 185 NYPYFGVA---------AVALPLGEAWLLVLVCGVVGGLAGGLFARLLVALSSGLPGWVR 235
Query: 236 RGPIFKVLLVAAVS-LLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAG 294
R + +L AA+ L + SG
Sbjct: 236 RFRRRRPVLFAALCGLALALIGLV------------------------SGG--------- 262
Query: 295 HYNDLASLFLNTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIP 354
L T R G L F + + +++Y +P GLF P
Sbjct: 263 -------LTFGTGYLQARAALEGGGG------LPLWFGLLKFLATLLSYWSGIPGGLFAP 309
Query: 355 VILAGASYGRLVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNNLLML 414
+ GA G L+ LLG++ G LLG A+FL G + ++ VI++E+T + ML
Sbjct: 310 SLAVGAGLGSLLAALLGSV---SQGALVLLGMAAFLAGVTQAPLTAFVIVMEMTGDQQML 366
Query: 415 PLVMLVLLISKTVADSF-NQGVYD 437
++ L++ V+ + +Y
Sbjct: 367 LPLLAAALLASGVSRLVCPEPLYH 390
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 125 bits (316), Expect = 7e-31
Identities = 110/428 (25%), Positives = 182/428 (42%), Gaps = 95/428 (22%)
Query: 9 INLGLAILAAILCAYI--------APAAAGSGIPEVKAYLNGIDAHSILAPSTLFVKIFG 60
+ +A L + + A I AP A GSGIPE++ L G+ + L VK FG
Sbjct: 42 LLWIVAFLISAVLAMIGYFLVRRFAPEAGGSGIPEIEGALEGL--RPVRWWRVLPVKFFG 99
Query: 61 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDRRDLITCGA 120
+ + +G V+G+EGP V G I ++ R ++D R L+ GA
Sbjct: 100 GLGTLGSGMVLGREGPTVQMGGNIGRMVLD-----------IFR-LRSDEARHTLLAAGA 147
Query: 121 AAGVAGAFRAPVGGVLFALEEAASWWRSALL-WRTFFTTAVVA-VVLRGFIEFCRSGRCG 178
AAG+A AF AP+ G+LF +EE +R +L+ + F ++A +V R F
Sbjct: 148 AAGLAAAFNAPLAGILFVIEEMRPQFRYSLISIKAVFIGVIMATIVFRLFN--------- 198
Query: 179 LFGQGGLIMFDVNSAKNSYSSADLLAV---IFLGVIGGIFGSFYNYLVDKVLRTYSIINE 235
G+ +I +V +S+ L + + LG+I GIFG +N L+ + + ++
Sbjct: 199 --GEQAVI--EV----GKFSAPPLNTLWLFLLLGIIFGIFGVLFNKLLLRTQDLFDRLHG 250
Query: 236 RGPIFKVLLVAAVSLLTSCCSYGLPWLSHCIPCPSYLEADRCPTVGRSGNYKNFQCPAGH 295
VL+ AV C L L+ VG G
Sbjct: 251 GNKKRWVLMGGAVG---GLCGL-LGLLAP-------------AAVG-GG----------- 281
Query: 296 YNDLASLFLNTNDDAIRNLFSSGTSKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPV 355
+ I + F + LL FVA + ++ +G P G+F P+
Sbjct: 282 ------------FNLIPIALAG----NFSIGMLLFIFVARFITTLLCFGSGAPGGIFAPM 325
Query: 356 I----LAGASYGRLVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNN- 410
+ L G ++G + L ++ G FA+ G + T+R ++ V++LE+T+N
Sbjct: 326 LALGTLLGLAFGMVAAALFPQYH-IEPGTFAIAGMGALFAATVRAPLTGIVLVLEMTDNY 384
Query: 411 LLMLPLVM 418
L+LPL++
Sbjct: 385 QLILPLII 392
>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 = 87.7 bits (218), Expect = 6e-21
Identities = 43/159 (27%), Positives = 57/159 (35%), Gaps = 58/159 (36%)
Query: 468 PLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTK 527
++ V ++ L T HNGFPV+D +P L G +LRS L+V LK
Sbjct: 3 LVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEE--SPRLVGYILRSQLVVALK------ 54
Query: 528 QKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETM 587
+ SP+TV
Sbjct: 55 ----------------------------------------------NYIDPSPFTVSPRT 68
Query: 588 SLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
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 = 74.6 bits (184), Expect = 3e-14
Identities = 91/399 (22%), Positives = 136/399 (34%), Gaps = 87/399 (21%)
Query: 30 GSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLG 89
G + +K + + + I V G +G+E GA LL
Sbjct: 64 GKKLVSIK---QAVRGKKRMPFWETIIHAVLQIVTVGLGAPLGREVAPREVGA----LLA 116
Query: 90 QGGSKKYHLTWRWLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALEEAASWWRSA 149
Q S LT DRR L+ C A AG+A + P+ G LFALE
Sbjct: 117 QRFSDWLGLT---------VADRRLLVACAAGAGLAAVYNVPLAGALFALE--------- 158
Query: 150 LLWRTFFTTAVVAVVLRGFIEFCRSGRCGLFGQGGLIMFDVNSAKNSYSSA--DLLAVIF 207
+L RT +VVA + I + +G ++D+ + S LLA
Sbjct: 159 ILLRTISLRSVVAALATSAIAAAVAS----LLKGDHPIYDIPPMQLSTPLLIWALLAGPV 214
Query: 208 LGVIGGIFGSFYNYLVDKVLRTYSIINERGPIFKVLLVAAVSLLTSCCSYGLPWLSHCIP 267
LGV+ F K + I+ + L+ S P +
Sbjct: 215 LGVVAAGFRRLSQAARAKRPKGKRIL---------WQMPLAFLVIGLLSIFFPQI----- 260
Query: 268 CPSYLEADRCPTVGRSGNYKNFQCPAGHYNDLASLFLNTNDDAIRNLFSSGTSKEFHLST 327
G+ LA L +T LS
Sbjct: 261 -------------------------LGNGRALAQLAFSTT---------------LTLSL 280
Query: 328 LLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL-SDLDTGLFALLGA 386
LL+ V ++ GL P + GA G L+G + AL L FAL+GA
Sbjct: 281 LLILLVLKIVATLLALRAGAYGGLLTPSLALGALLGALLGIVWNALLPPLSIAAFALIGA 340
Query: 387 ASFLGGTMRMTVSLCVILLELTN-NLLMLPLVMLVLLIS 424
A+FL T + ++ +++LE T N L L +ML + +
Sbjct: 341 AAFLAATQKAPLTALILVLEFTRQNPLFLIPLMLAVAGA 379
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 52.4 bits (126), Expect = 4e-07
Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 15/81 (18%)
Query: 61 SIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFKNDRDR-RDLITCG 119
S+ + +G +G+EGPMV A A+L+G R+ + D R R L+ CG
Sbjct: 125 SLLTIGSGGSIGREGPMVQLAALAASLVG-----------RFAHF---DPPRLRLLVACG 170
Query: 120 AAAGVAGAFRAPVGGVLFALE 140
AAAG+ A+ AP+ G F E
Sbjct: 171 AAAGITSAYNAPIAGAFFVAE 191
Score = 34.0 bits (78), Expect = 0.31
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 341 ITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDTGL---FALLGAASFLGGTMRMT 397
T G G+F P + GA G L G + AL T +A++G +FL G +
Sbjct: 329 ATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGHTSAPFAYAMVGMGAFLAGATQAP 388
Query: 398 VSLCVILLELTNNLLMLPLVMLVLLISKTVA 428
+ +++ 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 = 48.7 bits (117), Expect = 5e-06
Identities = 33/93 (35%), Positives = 44/93 (47%), Gaps = 19/93 (20%)
Query: 49 LAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHLTWRWLRYFK- 107
+AP LF + +FG +AG +EG V G +A+ G R FK
Sbjct: 77 MAPLVLFGTVLTHLFGGSAG----REGTAVQMGGSLADAFG--------------RVFKL 118
Query: 108 NDRDRRDLITCGAAAGVAGAFRAPVGGVLFALE 140
+ 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 = 47.5 bits (113), Expect = 2e-05
Identities = 30/103 (29%), Positives = 45/103 (43%), Gaps = 16/103 (15%)
Query: 39 YLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLGQGGSKKYHL 98
Y+ + + VK S+ V +G +G+EG M+ A A+ Q + +
Sbjct: 85 YMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQRFTPRQE- 143
Query: 99 TWR-WLRYFKNDRDRRDLITCGAAAGVAGAFRAPVGGVLFALE 140
W+ W I CGAAAG+A A+ AP+ G LF E
Sbjct: 144 -WKLW-------------IACGAAAGMASAYHAPLAGSLFIAE 172
Score = 39.4 bits (92), Expect = 0.005
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)
Query: 344 GIAVPSGLFIPVILAGASYGRLVGNLLG---ALSDLDTGLFALLGAASFLGGTMRMTVSL 400
G P G+F P + G + G L G LG + T L L G A+ L T +
Sbjct: 314 GSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEITLLLGLTGMATLLAATTHAPIMS 373
Query: 401 CVILLELTNNLLMLPLVMLVLLISKTVA 428
+++ 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 = 2e-05
Identities = 36/159 (22%), Positives = 52/159 (32%), Gaps = 49/159 (30%)
Query: 468 PLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTK 527
++T S + V + + +G PV+D+ L G+V LL L
Sbjct: 2 DVVTVSPDDTVAEALRLMLEHGISGLPVVDD-----DGRLVGIVTERDLLRALAEGGLDP 56
Query: 528 QKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETM 587
T+ D+M R TV
Sbjct: 57 LVTV--GDVMTR---------------------------------------DVVTVSPDT 75
Query: 588 SLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
SL +AA L + +R L VV GR VGI+TR D +
Sbjct: 76 SLEEAAELMLEHGIRRLPVV-DDEGRL--VGIVTRSDIL 111
Score = 32.0 bits (73), Expect = 0.24
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 578 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
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 = 38.7 bits (91), Expect = 0.001
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 578 TSP-YTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
+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 = 0.001
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 575 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
I TV SL +A L R+ + L VV + G+ +VGI+T D +
Sbjct: 4 IMTPDVVTVPPDTSLEEALELMRENGISRLPVVDED-GK--LVGIVTLRDLL 52
Score = 31.0 bits (71), Expect = 0.20
Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 461 ASDVVSGPLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLL 520
D+++ ++T + + +R + PV+DE +L G+V LL L
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDE-----DGKLVGIVTLRDLLRAL 55
Query: 521 KG 522
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 = 0.009
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 578 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF---MPEHVLGLY 634
+P TV SL +A L ++ ++R L VV + G+ +VGI+T D P L
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDR--GK--LVGIVTDRDLKLASPSKATTLD 56
Query: 635 PH 636
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 = 0.014
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 578 TSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
+ 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 = 33.8 bits (78), Expect = 0.080
Identities = 33/149 (22%), Positives = 54/149 (36%), Gaps = 40/149 (26%)
Query: 481 IMHALRLTRHNGF---PVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQKTMTGSDIM 537
IM A ++ NGF PV+DE +L G++ T +DI+
Sbjct: 12 IMEAAKIMVRNGFRRLPVVDEGTG----KLVGII--------------------TATDIL 47
Query: 538 RRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETMSLAKAAVLFR 597
+ G G K + + + I + T+ S+ AA L
Sbjct: 48 KYL----------GGGEKFNKIKTGNGLEAINEPVRSIMTRNVITITPDDSIKDAAELML 97
Query: 598 QLALRHLCVVPKTPGRPPIVGILTRHDFM 626
+ + L VV G+ +VGI+T D +
Sbjct: 98 EKRVGGLPVVDDD-GK--LVGIVTERDLL 123
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 32.4 bits (74), Expect = 0.19
Identities = 32/166 (19%), Positives = 55/166 (33%), Gaps = 51/166 (30%)
Query: 462 SDVVSGPLITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLK 521
D+++ +IT V + + + + PV+D+ +L G++
Sbjct: 2 KDIMTKDVITVKPDTSVRDALLLMSENGVSAVPVVDDG------KLVGII---------- 45
Query: 522 GKKFTKQKTMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPY 581
T DI+R A L +KE +
Sbjct: 46 ----------TERDILRALAAGG-----------KRLLPVKE-----------VMTKPVV 73
Query: 582 TVVETMSLAKAAVLFRQLA-LRHLCVVPKTPGRPPIVGILTRHDFM 626
TV L +A L + +R L VV G+ +VGI+T D +
Sbjct: 74 TVDPDTPLEEALELMVERHKIRRLPVVDDDGGK--LVGIITLSDIL 117
>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 = 32.2 bits (74), Expect = 0.22
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 580 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
TV SL +A L R+ + +P G +VGI+T+ D +
Sbjct: 4 VVTVTPDTSLEEAWALLRR---HRIKALPVVDGDRRLVGIVTQRDLL 47
Score = 30.3 bits (69), Expect = 1.1
Identities = 18/68 (26%), Positives = 25/68 (36%), Gaps = 16/68 (23%)
Query: 483 HALRLTRHNGF---PVIDEPPLTPAPELCGLVLRSHLL--------VLLKGKKFTKQKTM 531
A L R + PV+D L G+V + LL L+G+ + K
Sbjct: 15 EAWALLRRHRIKALPVVDG-----DRRLVGIVTQRDLLRHARPDGRRPLRGRLRGRDKPE 69
Query: 532 TGSDIMRR 539
T DIM
Sbjct: 70 TVGDIMSP 77
>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 = 0.29
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 575 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 625
+ N +P T S + L R+ ++RHL ++ + GR +VG+ T D
Sbjct: 63 VMNRNPITAKVGSSREEILALMRERSIRHLPILDEE-GR--VVGLATLDDL 110
>gnl|CDD|219089 pfam06570, DUF1129, Protein of unknown function (DUF1129). This
family consists of several hypothetical bacterial
proteins of unknown function.
Length = 206
Score = 33.0 bits (76), Expect = 0.29
Identities = 12/75 (16%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 177 CGLFGQGGLIMFDVNSAKNSYSSADLLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINER 236
+ G L S + + + ++ ++GG+ + + + L+ S +R
Sbjct: 92 ALMNGIMALF-----SKNAQPAYSGITTLLLTSLVGGLAMYYMYRYLYRYLKDKS---KR 143
Query: 237 GPIFKVLLVAAVSLL 251
P +K LL+ ++++
Sbjct: 144 PPWWKSLLILVLAVV 158
>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 = 0.30
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 254 CCSYGLPWLSHCIPCP 269
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 = 0.30
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 580 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 625
TV +L +A L R+ +R L VV GR +VGI+TR D
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVV-DEEGR--LVGIVTRRDI 44
>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 = 30.5 bits (70), Expect = 0.68
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 580 PYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
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 = 0.69
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 470 ITFSGVEKVGNIMHALRLTRHNGFPVID 497
IT S V +++ ++ T H+GFPV+D
Sbjct: 5 ITVSPDNTVKDVIKLIKETGHDGFPVVD 32
>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 = 0.93
Identities = 28/157 (17%), Positives = 46/157 (29%), Gaps = 48/157 (30%)
Query: 470 ITFSGVEKVGNIMHALRLTRHNGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQK 529
+T + ++ + + N FPV+D+ L G+V + +L
Sbjct: 4 VTIPEDTPLNELLDVIAHSPENNFPVVDD-----DGRLVGIVSLDDIREILF-------- 50
Query: 530 TMTGSDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHPITNTSPYTVVETMSL 589
+ + V I P V SL
Sbjct: 51 ---------------------------------DPSLYDLVVASDIMTKPPVVVYPEDSL 77
Query: 590 AKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFM 626
A F L VV PG+ ++GIL+R D +
Sbjct: 78 EDALKKFEDSDYEQLPVVDDDPGK--LLGILSRSDLL 112
>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 = 30.6 bits (70), Expect = 0.93
Identities = 37/157 (23%), Positives = 58/157 (36%), Gaps = 43/157 (27%)
Query: 475 VEKVGNIMHALRLTRH-NGFPVIDEPPLTPAPELCGLVLRSHLLVLLKGKKFTKQKTMTG 533
V + +M L H +G PV+D L G+V +
Sbjct: 13 VAEAARLM----LDNHISGLPVVD-----DDGRLVGIV--------------------SE 43
Query: 534 SDIMRRFKAHDFAKAGSGKGVKLEDLDIKEEEMEMFVDLHP-----ITNTSPYTVVETMS 588
D++RR + + + L+ L EE FV H + TV E
Sbjct: 44 GDLLRRAELGTERR----RARWLDLLAGAEELAAAFVRSHGRKVADVMTRPVVTVGEDTP 99
Query: 589 LAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDF 625
LA+ A L + ++ + VV GR +VGI++R D
Sbjct: 100 LAEVAELMEEHRIKRVPVVRG--GR--LVGIVSRADL 132
>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 = 31.0 bits (71), Expect = 1.1
Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 1/80 (1%)
Query: 327 TLLVFFVAI-YCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGALSDLDTGLFALLG 385
L+ A+ L I + IPV+L G + G L+G L+ L + L G
Sbjct: 4 VLIALLSALSIVLMYIPFPPLKIDFSHIPVLLGAFLLGPVAGALIGLLTSLLSFLLFGGG 63
Query: 386 AASFLGGTMRMTVSLCVILL 405
+ +G + L+
Sbjct: 64 PFALVGPLANFLPRILFGLI 83
>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 = 1.9
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 575 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPK 609
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 = 2.0
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 575 ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILT 621
+ TV E + +AA L R+ +R L VV GR +VGI++
Sbjct: 63 VMTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDD-GR--LVGIVS 106
>gnl|CDD|226434 COG3920, COG3920, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 221
Score = 29.5 bits (67), Expect = 3.8
Identities = 17/55 (30%), Positives = 20/55 (36%), Gaps = 3/55 (5%)
Query: 357 LAGASYGR-LVGNLLGALSDLDTGLFALLGAASFLGGTMRMTVSLCVILLELTNN 410
ASY L NL + D L G FL V L +I+ EL N
Sbjct: 81 WDFASYLELLASNLFPSYGGKDIRLILDSGPNVFLD--PDTAVPLGLIVHELVTN 133
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 29.8 bits (68), Expect = 5.6
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 571 DLHP----ITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHD 624
D+ P + P TV SL +A L + ++ L VV + G+ +G+++ D
Sbjct: 65 DVKPQVRDLEIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEE-GKL--LGLVSLSD 119
>gnl|CDD|227029 COG4684, COG4684, Predicted membrane protein [Function unknown].
Length = 189
Score = 29.0 bits (65), Expect = 6.0
Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 7/61 (11%)
Query: 320 SKEFHLSTLLVFF---VAIYCLGIITYGI----AVPSGLFIPVILAGASYGRLVGNLLGA 372
K + +F I L YG P+ + IPVI+ YG VG +LG
Sbjct: 4 KKRSDTRQITIFGALMAVIIVLSSTGYGFWPLPIKPTIMHIPVIIGSIVYGPRVGAILGL 63
Query: 373 L 373
L
Sbjct: 64 L 64
>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 = 6.0
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 582 TVVETMSLAKAAVLF-RQLALRHLCVVPKTPGRPPIVGILTRHDFMPEHVLGLY 634
TV ++ F R L L VV GRP VG++ R M E + Y
Sbjct: 5 TVSPDTTVNDVLERFERDPDLSALAVVDD--GRP--VGLIMREALM-ELLSTPY 53
>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 = 6.4
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 16/74 (21%)
Query: 449 EAHAEPYMKNLVASDVVSGPLITFSG---VEKVGNIMHALRLTRHN--GFPVIDEPPLTP 503
+ H E ++NL SD+++ P+IT V V ++M +N G PV+D+
Sbjct: 57 DRHQERRIRNLPVSDIMTRPVITIEPDTSVSDVASLM-----LENNIGGLPVVDD----- 106
Query: 504 APELCGLVLRSHLL 517
+L G+V R+ +L
Sbjct: 107 -GKLVGIVTRTDIL 119
>gnl|CDD|226834 COG4399, COG4399, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 376
Score = 28.9 bits (65), Expect = 8.2
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 202 LLAVIFLGVIGGIFGSFYNYLVDKVL-RTYSIIN 234
L ++F+ VIGGI G N L K+L R Y I
Sbjct: 4 LFTLLFMIVIGGIIGGITNDLAIKMLFRPYKAIY 37
>gnl|CDD|188641 cd00954, NAL, N-Acetylneuraminic acid aldolase, also called
N-acetylneuraminate lyase (NAL). N-Acetylneuraminic
acid aldolase, also called N-acetylneuraminate lyase
(NAL), which catalyses the reversible aldol reaction of
N-acetyl-D-mannosamine and pyruvate to give
N-acetyl-D-neuraminic acid (D-sialic acid). It has a
widespread application as biocatalyst for the synthesis
of sialic acid and its derivatives. This enzyme has been
shown to be quite specific for pyruvate as the donor,
but flexible to a variety of D- and, to some extent,
L-hexoses and pentoses as acceptor substrates. NAL is
member of dihydrodipicolinate synthase family that
comprises several pyruvate-dependent class I aldolases.
Length = 288
Score = 28.8 bits (65), Expect = 9.4
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 202 LLAVIFLGVIGGIFGSFYNYLVDKVLRTYSIINER 236
LL+ + LG G I GS YN + + + N
Sbjct: 192 LLSALALGADGAI-GSTYNVNGKRYRKIFEAFNAG 225
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 0.433
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: 33,868,337
Number of extensions: 3510167
Number of successful extensions: 5483
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5410
Number of HSP's successfully gapped: 153
Length of query: 642
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 539
Effective length of database: 6,369,140
Effective search space: 3432966460
Effective search space used: 3432966460
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: 62 (27.5 bits)