RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 003732
(799 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 = 506 bits (1306), Expect = e-173
Identities = 187/338 (55%), Positives = 236/338 (69%), Gaps = 2/338 (0%)
Query: 44 ESLDYEVIENYAYREEQAQRGKLYVGYSVVVKWFFALLIGIGTGLAAVFINISVENFAGW 103
ESLDYEVIEN +REE +R K V +KW LLIGI TGL A FI+++VEN AG
Sbjct: 1 ESLDYEVIENDLFREEWRKRKKKQVLQYEFLKWIICLLIGIFTGLVAYFIDLAVENLAGL 60
Query: 104 KFSLTFSIIQKS-YFAGFLVYILINLILVFSSVYIITKFAPAAAGSGIPEIKGYLNGVDI 162
KF + + I+K F FLVY+ +NL+LV + ++ AP AAGSGIPE+KGYLNGV I
Sbjct: 61 KFLVVKNYIEKGRLFTAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKI 120
Query: 163 HGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIASLLGQGGSTKYHLRYRWLQV 222
IL +TL+ KI G I SV GGLALGKEGP++H GACIA+ L QGGST L +RW +
Sbjct: 121 PHILRLKTLLVKIVGVILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRY 180
Query: 223 FRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTSWWRSQLMWRVFFTSAIVAVVV 282
FR+DRD+RD VTCG AAGVAAAF APVGGVLF+LEEV S+W L WR FF+S IV +
Sbjct: 181 FRNDRDKRDFVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTL 240
Query: 283 RSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELLPMAVIGVIGGLLGALFNQLTLY 342
+ C SGKCG FG GG I++D S + Y++ EL+P +IGVIGGLLGALFN L
Sbjct: 241 NFFLSGCNSGKCGLFGPGGLIMFDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNHLNHK 300
Query: 343 MTSWRRNYLHKKGNRVKIIEACVISVITSVISFGLPLL 380
+T +R+ H KG +K++EA ++S++TSV++F LL
Sbjct: 301 VTRFRKRINH-KGKLLKVLEALLVSLVTSVVAFPQTLL 337
Score = 206 bits (526), Expect = 1e-58
Identities = 75/127 (59%), Positives = 100/127 (78%)
Query: 447 AQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLNIEEGTY 506
Q+LL F V++Y LA TFGIAVP+G F+P I+IG+ YGRLVG+ + +++ +I+ G Y
Sbjct: 333 PQTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVGILLGSYFGFTSIDPGLY 392
Query: 507 ALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLISKAVGDAFSEGLYEEQAH 566
ALLGAA+FLGG MRMTVSL VI++E+TNNL +LP IMLVL+I+K VGD F+EG+Y+
Sbjct: 393 ALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNEGIYDIIIQ 452
Query: 567 LRGVPLL 573
L+GVP L
Sbjct: 453 LKGVPFL 459
>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 = 358 bits (922), Expect = e-116
Identities = 122/298 (40%), Positives = 171/298 (57%), Gaps = 1/298 (0%)
Query: 83 GIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSVYIITKFA 142
G+ GL AV ++ +VE+ L I SY G+L+++L +++LV S I FA
Sbjct: 1 GLLMGLVAVVLDYAVESSLDAGQWLLRRI-PGSYLLGYLMWVLWSVVLVLISSGICLYFA 59
Query: 143 PAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIA 202
P AAGSGIPE+ YLNGV + L RTLI K I +V GL LGKEGPLVH GA I
Sbjct: 60 PQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKTISCICAVASGLPLGKEGPLVHLGAMIG 119
Query: 203 SLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTSW 262
+ L QG S Q+FR+ RDRRD + G AAGVA+AF AP+GG+LF LEEV+++
Sbjct: 120 AGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVSTF 179
Query: 263 WRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELLPM 322
+ +L WRVFF + + A V++ + + S F+ + + + E +P
Sbjct: 180 FPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSLTVFELHVPLNLYEFIPT 239
Query: 323 AVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISVITSVISFGLPLL 380
VIGVI GLL ALF +L++ WRR L +K R +++E + ++I S I + LL
Sbjct: 240 VVIGVICGLLAALFVRLSIIFLRWRRRLLFRKTARYRVLEPVLFTLIYSTIHYAPTLL 297
Score = 159 bits (403), Expect = 3e-42
Identities = 57/124 (45%), Positives = 83/124 (66%), Gaps = 8/124 (6%)
Query: 447 AQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYK--------K 498
A +LL FL++++ ++ + FGIAVP G F+P ++IG+ GRLVG+ V
Sbjct: 293 APTLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRIAVAGIGAESAT 352
Query: 499 LNIEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLISKAVGDAFSE 558
L + G YAL+GAA+FLGG+ R+T S+CVIM+E+T +L L +M+ +LI+KAV DAF E
Sbjct: 353 LWADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAILIAKAVADAFCE 412
Query: 559 GLYE 562
LY
Sbjct: 413 SLYH 416
>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 = 321 bits (824), Expect = e-102
Identities = 168/515 (32%), Positives = 259/515 (50%), Gaps = 94/515 (18%)
Query: 83 GIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSVYIITKFA 142
GI GL A I+I + K + +++Y+L+ L+ F +V ++ A
Sbjct: 1 GIAIGLIAGLIDIIASWLSDLKEG----------YCNYIIYVLLALLFAFIAVLLVKVVA 50
Query: 143 PAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIA 202
P AAGSGIPEIK L+G I G L TL+ K G + +V GL+LGKEGPLVH C+
Sbjct: 51 PYAAGSGIPEIKTILSGFIIRGFLGKWTLLIKSVGLVLAVASGLSLGKEGPLVHIATCVG 110
Query: 203 SLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTSW 262
+++ ++ +YR R++ RR++++ AAGVA AF AP+GGVLF+LEEV+ +
Sbjct: 111 NII-----SRLFPKYR-----RNEAKRREILSAAAAAGVAVAFGAPIGGVLFSLEEVSYY 160
Query: 263 WRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELLPM 322
+ + +WR FF A+VA ++ FG+G +++++ + D+ + EL+P
Sbjct: 161 FPLKTLWRSFF-CALVAAFTLKSL--------NPFGTGRLVLFEVEYDR-DWHYFELIPF 210
Query: 323 AVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISVITSVISFGLPLLRK 382
++G+ GGL GA F + + +R+ L K+ ++E ++++IT++ISF P R
Sbjct: 211 ILLGIFGGLYGAFFIKANIKWARFRKKSLLKRYP---VLEVLLVALITALISFPNPYTRL 267
Query: 383 C---------SPCPESDLDSGIECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNTQDDAI 433
+ C D +S PP G Y +
Sbjct: 268 DMTELLELLFNECEPGDDNSLCCYRDPPAGDGVYKALW---------------------- 305
Query: 434 RNLFSAKTIHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVV 493
SLL L++ L + TFGI VPAG FVP + +G+ +GR+VG+ V
Sbjct: 306 ---------------SLLLALIIKLLLTIFTFGIKVPAGIFVPSMAVGALFGRIVGILVE 350
Query: 494 NFYKKLN--------------IEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFL 539
I G YA++GAA+FLGG RMTVSL VIM E+T L ++
Sbjct: 351 QLAYSYPDSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNYI 410
Query: 540 PLIMLVLLISKAVGDAFS-EGLYEEQAHLRGVPLL 573
+M+ +++SK V DA EG+Y+ HL G P L
Sbjct: 411 LPLMIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 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 = 254 bits (652), Expect = 7e-78
Identities = 119/427 (27%), Positives = 180/427 (42%), Gaps = 82/427 (19%)
Query: 129 ILVFSSVYIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLAL 188
I + ++ +F AA GSGIPE+ L+GV G L R L+ K G++ ++G G +L
Sbjct: 1 IGGLLAGLLVKRFPEAA-GSGIPEVIAALHGV--KGPLPLRVLLVKFLGTLLTLGSGGSL 57
Query: 189 GKEGPLVHTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAP 248
G+EGP V GA I S LG R L++ R DRR L+ G AAG+AAAF AP
Sbjct: 58 GREGPSVQIGAAIGSGLG-----------RRLKLSR--NDRRRLIAAGAAAGIAAAFNAP 104
Query: 249 VGGVLFALEEVTSWWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDIS 308
+ GVLFALEE++ + + + V S + A+V R G F
Sbjct: 105 LAGVLFALEELSRSFSYRALLPVLVASVVAALVSRLLFGN-----EPLFEVPSLPPL--- 156
Query: 309 DGQEDYSFEELLPMAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISV 368
S EL ++G++ GLLGALF +L L + R I+ + +
Sbjct: 157 ------SLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKKLP----PILRPALGGL 206
Query: 369 ITSVISFGLPLLRKCSPCPESDLDSGIECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNT 428
+ ++ LP
Sbjct: 207 LVGLLGLFLPE---------------------------------------------VLGG 221
Query: 429 QDDAIRNLFSAKTIHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLV 488
I+ L + T S LL L++ ++ G P G F P + IG+ GRL+
Sbjct: 222 GYGLIQLLLNGST---LSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLL 278
Query: 489 GMFVVNFYKKLNIEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLI 548
G+ + + + G +ALLG A+FL G R ++ V++ E+T + L +ML +LI
Sbjct: 279 GLLLPLLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLI 338
Query: 549 SKAVGDA 555
+ V
Sbjct: 339 AYLVSRL 345
Score = 50.2 bits (121), Expect = 2e-06
Identities = 39/182 (21%), Positives = 63/182 (34%), Gaps = 21/182 (11%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSV 135
+L+GI GL F +++ + + ++ L V
Sbjct: 161 LPLFILLGILCGLLGAL------------FVRLLLKVERLFRRLKKLPPILRPALGGLLV 208
Query: 136 YIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLV 195
++ F P G G I+ LNG + +LL L+ K+ + S+G G G P +
Sbjct: 209 GLLGLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSL 268
Query: 196 HTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFA 255
GA + LLG L G AA +A RAP+ ++
Sbjct: 269 FIGAALGRLLGLLLP---------LLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLV 319
Query: 256 LE 257
E
Sbjct: 320 FE 321
>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 = 213 bits (544), Expect = 6e-62
Identities = 110/469 (23%), Positives = 185/469 (39%), Gaps = 89/469 (18%)
Query: 83 GIGTGLAAVFINISVENFAGWKFSLTFSII-QKSYFAGFLVYILINLILVFSSVYIITKF 141
G+ +GL AV + +E F + S +++ + + L+ V ++ +
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAGSLSPLYILLVPVIGGLL---VGLLVRL 57
Query: 142 APAAAGSGIPE-IKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGAC 200
A G GIPE I+ G G L R + K S ++G G ++G+EGP+V GA
Sbjct: 58 LGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALTLGSGGSVGREGPIVQIGAA 114
Query: 201 IASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVT 260
I S LG R L++ S DRR LV CG AAG+AAAF AP+ G LFA+E +
Sbjct: 115 IGSWLG-----------RRLRL--SRNDRRILVACGAAAGIAAAFNAPLAGALFAIEVLL 161
Query: 261 SWWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELL 320
+ ++++ V++ S S F + + S EL
Sbjct: 162 GE---------YSVASLIPVLLASVAAALVSRLLFGAEPA-FGV----PLYDPLSLLELP 207
Query: 321 PMAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISVITSVISFGLPLL 380
++G++ GL+G LF +L + R + + + ++ ++ LP +
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIERLFR-----RLPIPPWLRPALGGLLLGLLGLFLPQV 262
Query: 381 RKCSPCPESDLDSGIECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNTQDDAIRNLFSAK 440
L SG
Sbjct: 263 ----------LGSGYG---------------------------------------AILLA 273
Query: 441 TIHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLN 500
E S LL L++ +T G P G F P + IG+ G G+ + + L
Sbjct: 274 LAGELSLLLLLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPGLV 333
Query: 501 IEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLIS 549
G YAL+G A+ L +R ++ ++++E+T + L +ML ++I+
Sbjct: 334 ASPGAYALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
Score = 42.2 bits (100), Expect = 0.001
Identities = 40/182 (21%), Positives = 65/182 (35%), Gaps = 23/182 (12%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSV 135
LL+G+ GL V F I++ F + + L +
Sbjct: 206 LPLYLLLGLLAGLVGVL------------FVRLLYKIER-LFRRLPIPPWLRPALGGLLL 252
Query: 136 YIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLV 195
++ F P GSG I L G ++ +LL L+ K+ + ++G G G P +
Sbjct: 253 GLLGLFLPQVLGSGYGAILLALAG-ELSLLLLLLLLLLKLLATALTLGSGFPGGVFAPSL 311
Query: 196 HTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFA 255
GA + + G + + G AA +AA RAP+ +L
Sbjct: 312 FIGAALGAAFGLLLPALFPGLVASPGAY---------ALVGMAALLAAVLRAPLTAILLV 362
Query: 256 LE 257
LE
Sbjct: 363 LE 364
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 201 bits (514), Expect = 3e-57
Identities = 123/504 (24%), Positives = 204/504 (40%), Gaps = 86/504 (17%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSV 135
A +G+ GL AV +++++ + L + +L+ ++ L +
Sbjct: 23 IGIAAALGVIVGLFAVALDLALLLLGRLRGGLLSAA---QAPGPWLLPLVPALGGLLVGA 79
Query: 136 YIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLV 195
++ KFAP A GSGIP+ L+G G + R L K+ ++ ++G G +LG+EGP V
Sbjct: 80 LLVYKFAPEARGSGIPQAIEALHGRK--GRISPRVLPVKLVATLLTIGSGASLGREGPSV 137
Query: 196 HTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFA 255
GA I SLLG R L++ S DRR L+ G AAG+AAAF AP+ G LFA
Sbjct: 138 QIGAAIGSLLG-----------RLLKL--SREDRRILLAAGAAAGLAAAFNAPLAGALFA 184
Query: 256 LEEVTSWWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYS 315
+E L R A+V V+V + + +G FG F++ I S
Sbjct: 185 IEV--------LYGRFLEYRALVPVLVAAVVALLVAGL---FGGPHFLL-PIVTTP-HMS 231
Query: 316 FEELLPMAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISVITSVISF 375
+LL V+G+I GL G L ++L + R ++ ++ ++
Sbjct: 232 LWDLLLYLVLGIIAGLFGVLLSRLLALSRRFFRRL--PLPPLLRPALGGLLVGALGLLF- 288
Query: 376 GLPLLRKCSPCPESDLDSGIECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNTQDDAIRN 435
P + Y L +
Sbjct: 289 ------------------------PEVLGNGY------------GLIQLALAG------- 305
Query: 436 LFSAKTIHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNF 495
E LL ++ ++++G P G F P + IG+ G G +
Sbjct: 306 --------EGGLLVLLLLFLLKLLATLLSYGSGAPGGIFAPSLFIGAALGLAFGALLGLL 357
Query: 496 YKKLNIEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLISKAVGDA 555
+ +E G +ALLG A+FL + R ++ V+++E+T N + L +++ LI+ V
Sbjct: 358 FPPSILEPGLFALLGMAAFLAATTRAPLTAIVLVLEMTGNYQLLLPLLIACLIAYLVSRL 417
Query: 556 FS-EGLYEEQAHLRGVPLLESRPK 578
+Y + RG P+L
Sbjct: 418 LGGRPIYTQLLARRGAPILREERA 441
Score = 45.4 bits (108), Expect = 9e-05
Identities = 47/230 (20%), Positives = 80/230 (34%), Gaps = 29/230 (12%)
Query: 62 QRGKLYVGYSVVVKWF---FALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFA 118
L + + + + L++GI GL V ++ + + L + +
Sbjct: 218 PHFLLPIVTTPHMSLWDLLLYLVLGIIAGLFGVLLSRLLALSRRFFRRLPLPPLLRPALG 277
Query: 119 GFLVYILINLILVFSSVYIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGS 178
G LV L L P G+G I+ L G + ++L + K+ +
Sbjct: 278 GLLVGALGLLF-------------PEVLGNGYGLIQLALAG-EGGLLVLLLLFLLKLLAT 323
Query: 179 IGSVGGGLALGKEGPLVHTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCA 238
+ S G G G P + GA + G L + L+ G A
Sbjct: 324 LLSYGSGAPGGIFAPSLFIGAALGLAFGA-------LLGLLFPPSILEPGLFALL--GMA 374
Query: 239 AGVAAAFRAPVGGVLFALEEVTSWWRSQLMWRVFFTSAIVAVVVRSAMGW 288
A +AA RAP+ ++ LE + QL+ + I +V R G
Sbjct: 375 AFLAATTRAPLTAIVLVLEMTGN---YQLLLPLLIACLIAYLVSRLLGGR 421
>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 = 186 bits (474), Expect = 6e-52
Identities = 127/483 (26%), Positives = 200/483 (41%), Gaps = 87/483 (18%)
Query: 82 IGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSVYIITKF 141
IG+ GL AV + ++ + SL + LV LI+ +L + +++ KF
Sbjct: 1 IGLLAGLVAVLFRLGIDKLGNLRLSL--YDFAANNPPLLLVLPLISAVLGLLAGWLVKKF 58
Query: 142 APAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACI 201
AP A GSGIP+++G L G+ +R L K G + ++G GL+LG+EGP V GA I
Sbjct: 59 APEAKGSGIPQVEGVLAGL--LPPNWWRVLPVKFVGGVLALGSGLSLGREGPSVQIGAAI 116
Query: 202 ASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTS 261
+ +W S +RR L+ G AAG+AAAF AP+ GVLF LEE+
Sbjct: 117 GQGVS-----------KWF--KTSPEERRQLIAAGAAAGLAAAFNAPLAGVLFVLEELRH 163
Query: 262 WWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELLP 321
+ L ++I A V FG G + S+ LL
Sbjct: 164 SFSP-LALLTALVASIAADFVSRLF----------FGLGPVLSIPPLPALPLKSYWLLL- 211
Query: 322 MAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACVISVITSVISFGLPLLR 381
++G+I GLLG LFN+ L R L K ++++ + ++ + LP
Sbjct: 212 --LLGIIAGLLGYLFNRSLLKSQDLYRK-LKKLPRELRVL---LPGLLIGPLGLLLPEA- 264
Query: 382 KCSPCPESDLDSGIECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNTQDDAIRNLFSAKT 441
L G + L FS
Sbjct: 265 ---------LGGG------------------------HGLILSLAGGN-------FSISL 284
Query: 442 IHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLNI 501
+ LL F++ F ++++G P G F P + +G+ G L G +V
Sbjct: 285 L-------LLIFVLRF-IFTMLSYGSGAPGGIFAPMLALGALLGLLFGTILVQLGPIPIS 336
Query: 502 EEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLK-FLPLIMLVLLISKAVGDAF-SEG 559
T+A+ G A+F +R ++ +++ E+T N LPL M+V L++ V D +
Sbjct: 337 APATFAIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPL-MVVCLVAYLVADLLGGKP 395
Query: 560 LYE 562
+YE
Sbjct: 396 IYE 398
Score = 34.4 bits (80), Expect = 0.21
Identities = 40/182 (21%), Positives = 60/182 (32%), Gaps = 23/182 (12%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSV 135
W LL+GI GL N S+ L L +LI + +
Sbjct: 208 WLL-LLLGIIAGLLGYLFNRSLLKSQDLYRKLK---KLPRELRVLLPGLLIGPLGLLL-- 261
Query: 136 YIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLV 195
P A G G + L G + LL + + ++ S G G G P++
Sbjct: 262 -------PEALGGGH-GLILSLAGGNFSISLLLLIFVLRFIFTMLSYGSGAPGGIFAPML 313
Query: 196 HTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFA 255
GA + L G + + + S G AA AA RAP+ ++
Sbjct: 314 ALGALLGLLFGT-------ILVQLGPIPISAPA--TFAIAGMAAFFAAVVRAPITAIILV 364
Query: 256 LE 257
E
Sbjct: 365 TE 366
>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 = 175 bits (445), Expect = 1e-47
Identities = 89/302 (29%), Positives = 150/302 (49%), Gaps = 15/302 (4%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSV 135
W F L+GI L ++ ++ +VE +S++ + +LV++ + LV S
Sbjct: 2 WLFLALLGILMALISIAMDFAVEKL-LNARRWLYSLLTGNSLLQYLVWVAYPVALVLFSA 60
Query: 136 YIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLV 195
+P A GSGIPE+K L GV + L F+TL+ K+ G ++G GL LGKEGP V
Sbjct: 61 LFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLPLGKEGPFV 120
Query: 196 HTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFA 255
H + +A+LL L + ++ ++ R +++ CA GVA F AP+GGVLF+
Sbjct: 121 HISSIVAALLS-------KLTTFFSGIYENESRRMEMLAAACAVGVACTFGAPIGGVLFS 173
Query: 256 LEEVTSWWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYS 315
+E ++++ + WR FF + A R + + F +
Sbjct: 174 IEVTSTYFAVRNYWRGFFAATCGAFTFRLLAVFFSD---QETITALF--KTTFFVDFPFD 228
Query: 316 FEELLPMAVIGVIGGLLGALFNQLTLYMTSWRRNY--LHKKGNRVKIIEACVISVITSVI 373
+EL A++G+I GLLGALF L + +RR K R ++ +++++T+V+
Sbjct: 229 VQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKFLKRSPLLYPAIVALLTAVL 288
Query: 374 SF 375
+F
Sbjct: 289 TF 290
Score = 82.3 bits (204), Expect = 2e-16
Identities = 44/136 (32%), Positives = 71/136 (52%), Gaps = 8/136 (5%)
Query: 445 YSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVG--MFV-----VNFYK 497
+ +L F+V+ + L + + VPAG F+P +IG+ GRLVG M V +
Sbjct: 290 FPFLTLFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGI 349
Query: 498 KLNIEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLISKAVGDAFS 557
I G YA++GAA+F G TVS+ VI+ E+T + L +++ +LIS AV
Sbjct: 350 SNPIGPGGYAVVGAAAFSGAVTH-TVSVAVIIFELTGQISHLLPVLIAVLISNAVAQFLQ 408
Query: 558 EGLYEEQAHLRGVPLL 573
+Y+ ++ +P L
Sbjct: 409 PSIYDSIIKIKKLPYL 424
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 137 bits (347), Expect = 1e-34
Identities = 84/275 (30%), Positives = 134/275 (48%), Gaps = 37/275 (13%)
Query: 77 FFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSVY 136
F A ++G TGL V ++V+ + L + + + ++V LI+ +L +
Sbjct: 2 FMAAVVGTLTGLVGVAFELAVDWVQNQRLGL-LASVADNGLLLWIVAFLISAVLAMIGYF 60
Query: 137 IITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVH 196
++ +FAP A GSGIPEI+G L G+ + +R L K FG +G++G G+ LG+EGP V
Sbjct: 61 LVRRFAPEAGGSGIPEIEGALEGL--RPVRWWRVLPVKFFGGLGTLGSGMVLGREGPTVQ 118
Query: 197 TGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFAL 256
G I ++ ++ RSD R L+ G AAG+AAAF AP+ G+LF +
Sbjct: 119 MGGNIGRMVLD-----------IFRL-RSDEARHTLLAAGAAAGLAAAFNAPLAGILFVI 166
Query: 257 EEVTSWWRSQLM-WRVFFTSAIVA-VVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDY 314
EE+ +R L+ + F I+A +V R G I ++ +
Sbjct: 167 EEMRPQFRYSLISIKAVFIGVIMATIVFRLFNG-----------EQAVI--EV----GKF 209
Query: 315 SFEEL--LPM-AVIGVIGGLLGALFNQLTLYMTSW 346
S L L + ++G+I G+ G LFN+L L
Sbjct: 210 SAPPLNTLWLFLLLGIIFGIFGVLFNKLLLRTQDL 244
Score = 48.7 bits (117), Expect = 8e-06
Identities = 29/101 (28%), Positives = 53/101 (52%), Gaps = 1/101 (0%)
Query: 444 EYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLNIEE 503
+S LL V + ++ FG P G F P + +G+ G GM + + +IE
Sbjct: 292 NFSIGMLLFIFVARFITTLLCFGSGAPGGIFAPMLALGTLLGLAFGMVAAALFPQYHIEP 351
Query: 504 GTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKF-LPLIM 543
GT+A+ G + ++R ++ V+++E+T+N + LPLI+
Sbjct: 352 GTFAIAGMGALFAATVRAPLTGIVLVLEMTDNYQLILPLII 392
Score = 30.2 bits (69), Expect = 4.8
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 319 LLPMAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKI--IEACVISVITSVISFG 376
L AV+G + GL+G F ++ + R L + + I A +IS + ++I +
Sbjct: 1 LFMAAVVGTLTGLVGVAFELAVDWVQNQRLGLLASVADNGLLLWIVAFLISAVLAMIGYF 60
Query: 377 L 377
L
Sbjct: 61 L 61
>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 = 111 bits (280), Expect = 3e-26
Identities = 68/269 (25%), Positives = 111/269 (41%), Gaps = 45/269 (16%)
Query: 87 GLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLILVFSSVYIITKFAPAAA 146
GL A+ A +L + + L+ ++ +F P AA
Sbjct: 1 GLVALLFA----KLADLALALFQRLTATHPWLPLLLTPAG----FALIAWLTRRFFPGAA 52
Query: 147 GSGIPEIKGYL---NGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIAS 203
GSGIP++ L + +L RT +GKI ++ + GG ++G+EGP V GA +
Sbjct: 53 GSGIPQVIAALELPSAAARRRLLSLRTAVGKILLTLLGLLGGASVGREGPSVQIGAAVML 112
Query: 204 LLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTSW- 262
+G R L R L+ G AAG+AAAF P+ G++FA+EE++
Sbjct: 113 AIG-----------RRLP-KWGGLSERGLILAGGAAGLAAAFNTPLAGIVFAIEELSRDF 160
Query: 263 ---WRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEEL 319
+ ++ V + V+ G++ G + G E
Sbjct: 161 ELRFSGLVLLAVIAAGLVSLAVL------------GNYPYFGVAAVALPLG------EAW 202
Query: 320 LPMAVIGVIGGLLGALFNQLTLYMTSWRR 348
L + V GV+GGL G LF +L + ++S
Sbjct: 203 LLVLVCGVVGGLAGGLFARLLVALSSGLP 231
Score = 41.1 bits (97), Expect = 0.002
Identities = 29/126 (23%), Positives = 59/126 (46%), Gaps = 7/126 (5%)
Query: 437 FSAKTIHEYSAQSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFY 496
A+ E L F ++ + ++++ +P G F P + +G+ G L+ + +
Sbjct: 270 LQARAALEGGGGLPLWFGLLKFLATLLSYWSGIPGGLFAPSLAVGAGLGSLLAALLGS-- 327
Query: 497 KKLNIEEGTYALLGAASFLGGSMRMTVSLCVIMVEITNNLKFLPLIMLVLLISKAVGDAF 556
+ +G LLG A+FL G + ++ VI++E+T + + L ++ L++ V
Sbjct: 328 ----VSQGALVLLGMAAFLAGVTQAPLTAFVIVMEMTGDQQMLLPLLAAALLASGVSRLV 383
Query: 557 S-EGLY 561
E LY
Sbjct: 384 CPEPLY 389
>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 = 95.4 bits (238), Expect = 2e-23
Identities = 55/161 (34%), Positives = 70/161 (43%), Gaps = 58/161 (36%)
Query: 592 AQKVVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDF 651
VV LP + V D+ S+L T HNGFPV+D + RLV G +LRS L+V L++
Sbjct: 1 VPLVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEESPRLV-GYILRSQLVVALKN---- 55
Query: 652 QHSPLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYV 711
YID PF
Sbjct: 56 ----------------------------------------------YIDPSPF------T 63
Query: 712 VPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
V SL KV+ LFR+LGLRH+ VV R++G+ITRKDLL
Sbjct: 64 VSPRTSLEKVHQLFRKLGLRHLLVV-DEGRLVGIITRKDLL 103
>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 = 63.0 bits (154), Expect = 2e-10
Identities = 79/325 (24%), Positives = 126/325 (38%), Gaps = 73/325 (22%)
Query: 78 FALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYF---AGFLVYILINLILVFSS 134
ALLIG+ G A+ S++ ++ + + + F AG L+
Sbjct: 1 LALLIGLLVGSASALFLWSLDWATEFREAHPWLL----PFLPLAGLLI------------ 44
Query: 135 VYIITKFA-PAAAGSG--IPEIKGYLNGVDIHGI--LLFRTLIGKIFGSIGSVGGGLALG 189
Y+ KF + G+ I EI G G+ + +LF T++ +FG GS G
Sbjct: 45 GYLYQKFGKNSEKGNNLIIEEIHGPEEGIPLRMAPLVLFGTVLTHLFG--GSAG------ 96
Query: 190 KEGPLVHTGACIASLLGQGGSTKYHLRYRWLQVFRSDR-DRRDLVTCGCAAGVAAAFRAP 248
+EG V G +A G+ VF+ DRR L+ G AAG AA F P
Sbjct: 97 REGTAVQMGGSLADAFGR--------------VFKLPEEDRRILLIAGIAAGFAAVFGTP 142
Query: 249 VGGVLFALEEVTSWWRSQLMWRVF---FTSAIVAVVVRSAMGWCKSGKCGHFGSGGFIIW 305
+ G +FAL EV R L + +AIVA V A+G + H+
Sbjct: 143 LAGAIFAL-EVLVLGR--LRYSALIPCLVAAIVADWVSHALGLEHT----HYHIVFIPTL 195
Query: 306 DISDGQEDYSFEELLPMAVIGVIGGLLGALFNQLTLYMTSWRRNYLHKKGNRVKIIEACV 365
D + + + G+I GL G LF +L ++ + + R + +
Sbjct: 196 DP---------LLFVKVILAGIIFGLAGRLFAELLHFLKKLLKKRIKNPYLRP-FVGGLL 245
Query: 366 ISVITSVISF------GLPLLRKCS 384
I ++ ++ G PL+
Sbjct: 246 IILLVYLLGSRRYLGLGTPLIEDSF 270
>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 = 63.1 bits (154), Expect = 2e-10
Identities = 57/214 (26%), Positives = 84/214 (39%), Gaps = 40/214 (18%)
Query: 168 FRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIASLLGQGGSTKYHLRYRWLQVFRSDR 227
F I I +VG G LG+E GA LL Q S WL + +
Sbjct: 82 FWETIIHAVLQIVTVGLGAPLGREVAPREVGA----LLAQRFS-------DWLGL--TVA 128
Query: 228 DRRDLVTCGCAAGVAAAFRAPVGGVLFALEE--VTSWWRSQLMWRVFFTSAIVAVVVRSA 285
DRR LV C AG+AA + P+ G LFALE T RS + ++ +A V S
Sbjct: 129 DRRLLVACAAGAGLAAVYNVPLAGALFALEILLRTISLRSVV---AALATSAIAAAVAS- 184
Query: 286 MGWCKSGKCGHFGSGGFIIWDISDGQEDYSFEELLPMAVIGVIGGLLGALFNQLTLYMTS 345
G I+DI S L+ + G + G++ A F +L+ +
Sbjct: 185 -----------LLKGDHPIYDIP--PMQLSTPLLIWALLAGPVLGVVAAGFRRLSQAARA 231
Query: 346 WRRNYLHKKGNRVKIIEACVI-SVITSVISFGLP 378
R KG +I+ + ++ ++S P
Sbjct: 232 KRP-----KG--KRILWQMPLAFLVIGLLSIFFP 258
Score = 46.5 bits (111), Expect = 4e-05
Identities = 29/106 (27%), Positives = 53/106 (50%), Gaps = 4/106 (3%)
Query: 449 SLLTFLVMFYTLAV-VTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLNIEEGTYA 507
SLL L++ +A + G P + +G+ G L+G+ L+I +A
Sbjct: 279 SLLLILLVLKIVATLLALRAGAYGGLLTPSLALGALLGALLGIVWNALLPPLSI--AAFA 336
Query: 508 LLGAASFLGGSMRMTVSLCVIMVEITN-NLKFLPLIMLVLLISKAV 552
L+GAA+FL + + ++ ++++E T N FL +ML + + AV
Sbjct: 337 LIGAAAFLAATQKAPLTALILVLEFTRQNPLFLIPLMLAVAGAVAV 382
>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 = 56.7 bits (137), Expect = 7e-10
Identities = 31/160 (19%), Positives = 54/160 (33%), Gaps = 49/160 (30%)
Query: 593 QKVVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQ 652
+ VV++ VA+ + ++ + +G PV+D ++G+V LL L
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGR----LVGIVTERDLLRALAEGGL-- 54
Query: 653 HSPLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVV 712
D + D M V
Sbjct: 55 ---------------------------------DPLVTVGDVM----------TRDVVTV 71
Query: 713 PEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
D SL + L + G+R + VV R++G++TR D+L
Sbjct: 72 SPDTSLEEAAELMLEHGIRRLPVVDDEGRLVGIVTRSDIL 111
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 58.2 bits (141), Expect = 1e-08
Identities = 42/159 (26%), Positives = 66/159 (41%), Gaps = 27/159 (16%)
Query: 178 SIGSVGGGLALGKEGPLVHTGACIASLLGQGGSTKYHLRYRWLQVFRSDRDRRDLVTCGC 237
S+ ++G G ++G+EGP+V A ASL+G R+ F R R LV CG
Sbjct: 125 SLLTIGSGGSIGREGPMVQLAALAASLVG-----------RFAH-FDPPRLRL-LVACGA 171
Query: 238 AAGVAAAFRAPVGGVLFALEEVTSWWRSQLMWRVFFTSAIVAVVVRSAMGWCKSGKCGHF 297
AAG+ +A+ AP+ G F E V + + S + +V+R G+ + F
Sbjct: 172 AAGITSAYNAPIAGAFFVAEIVLGSIAMESFGPLVVASVVANIVMREFAGYQPPYEMPVF 231
Query: 298 GSGGFIIWDISDGQEDYSFEELLPMAVIGVIGGLLGALF 336
+ E+L +GV+ G F
Sbjct: 232 --------------PAVTGWEVLLFVALGVLCGAAAPQF 256
Score = 37.0 bits (86), Expect = 0.044
Identities = 35/161 (21%), Positives = 67/161 (41%), Gaps = 22/161 (13%)
Query: 448 QSLLTFLVMFYTLAVVTFGIAVPAGQFVPGIMIGSTYGRLVGMFVVNFYKKLNIEEGTYA 507
Q+L+ LV T G G F P + +G+ G L G+ + + YA
Sbjct: 314 QALVAVLVAKLIATAATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGHTSAPFAYA 373
Query: 508 LLGAASFLGGSMRMTVSLCVIMV-EITNNLKFLPLIMLVLLIS--------KAVGDAFSE 558
++G +FL G+ + + + ++M+ E+T ++L L++S +A+G +
Sbjct: 374 MVGMGAFLAGATQAPL-MAILMIFEMT----LSYQVVLPLMVSCVVAYFTARALG---TT 425
Query: 559 GLYEEQAHLRGVPLLESRPKYKMRQMTAKEACG-AQKVVSL 598
+YE + + ++R +E AQ VV
Sbjct: 426 SMYEITLRRHQ----DEAERERLRTTQMRELIQPAQTVVPP 462
Score = 32.0 bits (73), Expect = 1.6
Identities = 12/47 (25%), Positives = 26/47 (55%)
Query: 705 LNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDL 751
+ P+ VVP S++ + +F + +++++VV R G + KD+
Sbjct: 453 IQPAQTVVPPTASVADMTRVFLEYPVKYLYVVDDDGRFRGAVALKDI 499
>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 = 50.6 bits (122), Expect = 2e-08
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 704 FLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+ P VP D SL + L R+ G+ + VV +++G++T +DLL
Sbjct: 4 IMTPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLL 52
Score = 33.3 bits (77), Expect = 0.030
Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 594 KVVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLL 642
VV++P + + + ++R N + PV+D +G+ ++G+V LL
Sbjct: 8 DVVTVPPDTSLEEALELMRENGISRLPVVD--EDGK--LVGIVTLRDLL 52
>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 = 47.2 bits (113), Expect = 1e-06
Identities = 17/42 (40%), Positives = 25/42 (59%)
Query: 712 VPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLI 753
VP D SL L R+ G+RH+ VV ++GL+++ DLL
Sbjct: 69 VPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDLLQ 110
>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 = 42.9 bits (102), Expect = 1e-05
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
V D +L + L R+ G+R + VV R++G++TR+D++
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVVDEEGRLVGIVTRRDII 45
Score = 36.0 bits (84), Expect = 0.003
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 595 VVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQ 646
VV++ + + + +LR N PV+D G ++G+V R ++ L
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVVDE--EGR--LVGIVTRRDIIKALA 49
>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 = 44.5 bits (106), Expect = 2e-05
Identities = 31/149 (20%), Positives = 59/149 (39%), Gaps = 28/149 (18%)
Query: 604 VADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHSPLPCDTRGG 663
VA+ ++ N +G PV+D ++G+V LL + + + +
Sbjct: 13 VAEAARLMLDNHISGLPVVDDDGR----LVGIVSEGDLLRRAELGTERRRARWL----DL 64
Query: 664 SKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYN 723
+ FV+ S G + D+ + V ED L++V
Sbjct: 65 LAGAEELAAAFVR---SHGRKVADV----------------MTRPVVTVGEDTPLAEVAE 105
Query: 724 LFRQLGLRHIFVVPRASRVIGLITRKDLL 752
L + ++ + VV R R++G+++R DLL
Sbjct: 106 LMEEHRIKRVPVV-RGGRLVGIVSRADLL 133
>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 = 43.0 bits (102), Expect = 6e-05
Identities = 30/149 (20%), Positives = 60/149 (40%), Gaps = 39/149 (26%)
Query: 604 VADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHSPLPCDTRGG 663
+ + ++LR ++ PV+D G+R ++G+V + LL +H+ D R
Sbjct: 13 LEEAWALLRRHRIKALPVVD----GDRRLVGIVTQRDLL---------RHARP--DGRRP 57
Query: 664 SKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYN 723
+ K ++ DI ++P V D ++++
Sbjct: 58 LRGRL--------RGRDKPETVGDI----------------MSPPVVTVRPDTPIAELVP 93
Query: 724 LFRQLGLRHIFVVPRASRVIGLITRKDLL 752
L G H+ VV R++G++T+ DL+
Sbjct: 94 LLADGGHHHVPVVDEDRRLVGIVTQTDLI 122
Score = 36.1 bits (84), Expect = 0.014
Identities = 14/42 (33%), Positives = 26/42 (61%)
Query: 712 VPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLI 753
V D SL + + L R+ ++ + VV R++G++T++DLL
Sbjct: 7 VTPDTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLR 48
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 44.8 bits (106), Expect = 2e-04
Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 14/102 (13%)
Query: 156 YLNGVDIHGILLFRTLIGKIFGSIGSVGGGLALGKEGPLVHTGACIASLLGQGGSTKYHL 215
Y+ + G + + K S+ V G A+G+EG ++ A AS Q ++
Sbjct: 85 YMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQ----RFTP 140
Query: 216 RYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALE 257
R W + + CG AAG+A+A+ AP+ G LF E
Sbjct: 141 RQEW----------KLWIACGAAAGMASAYHAPLAGSLFIAE 172
>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 = 41.3 bits (98), Expect = 2e-04
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 706 NPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLI 753
N +P S ++ L R+ +RH+ ++ RV+GL T DLL
Sbjct: 65 NRNPITAKVGSSREEILALMRERSIRHLPILDEEGRVVGLATLDDLLS 112
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 126
Score = 40.3 bits (95), Expect = 5e-04
Identities = 17/44 (38%), Positives = 24/44 (54%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
P V+P D S+ + L + G+R + VV IG+IT DLL
Sbjct: 3 PIVIPADTSIDEALELMIKHGVRLLLVVDSDDNFIGVITAVDLL 46
>gnl|CDD|239963 cd04590, CBS_pair_CorC_HlyC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the CorC_HlyC domain. CorC_HlyC
is a transporter associated domain. This small domain is
found in Na+/H+ antiporters, in proteins involved in
magnesium and cobalt efflux, and in association with
some proteins of unknown function. The function of the
CorC_HlyC domain is uncertain but it might be involved
in modulating transport of ion substrates. CBS is a
small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
The second CBS domain in this CD is degenerate.
Length = 111
Score = 38.6 bits (91), Expect = 0.001
Identities = 31/158 (19%), Positives = 51/158 (32%), Gaps = 51/158 (32%)
Query: 595 VVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHS 654
+V+L + +++ ++ + H+ FPV D + +IG+V LL L
Sbjct: 3 IVALDADDTLEEILELIAESGHSRFPVYDGDLDN---IIGVVHVKDLLRAL--------- 50
Query: 655 PLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPE 714
+ E +DL L P P VPE
Sbjct: 51 --------------------------------------AEGEEDLDLRDLLRP-PLFVPE 71
Query: 715 DMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
L + R+ VV GL+T +D+L
Sbjct: 72 STPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDIL 109
>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 = 38.7 bits (91), Expect = 0.002
Identities = 33/156 (21%), Positives = 54/156 (34%), Gaps = 53/156 (33%)
Query: 602 IKVADVVSILRTNKH-NGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHSPLPCDT 660
V DV+ + + V+D R +GL++R L+ LL
Sbjct: 10 TTVNDVLERFERDPDLSALAVVDDGR-----PVGLIMREALMELL--------------- 49
Query: 661 RGGSKPISHS-FSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLS 719
S P + + + KP S ++P P +V D L
Sbjct: 50 ---STPYGRALYGK--KPVSE-----------------------VMDPDPLIVEADTPLE 81
Query: 720 KVYNLFRQLGLRHI---FVVPRASRVIGLITRKDLL 752
+V L +++ F+V R +G+ T KDLL
Sbjct: 82 EVSRLATGRDSQNLYDGFIVTEEGRYLGIGTVKDLL 117
>gnl|CDD|239985 cd04612, CBS_pair_SpoIVFB_EriC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 111
Score = 38.0 bits (89), Expect = 0.002
Identities = 28/158 (17%), Positives = 56/158 (35%), Gaps = 51/158 (32%)
Query: 595 VVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHS 654
VV++P + V +V++++ +H G+PV+D +G ++G+V + +
Sbjct: 3 VVTVPVDLTVDEVLALMFGERHRGYPVVD---DGR--LVGIVTLADIR------------ 45
Query: 655 PLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPE 714
P + L D M P
Sbjct: 46 ---------RVPAEGR---------------EATVLVGDVM----------TRDPVTASP 71
Query: 715 DMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
D +L + + + VV + R++G+++R DLL
Sbjct: 72 DETLRDALKRMAERDIGRLPVVDDSGRLVGIVSRSDLL 109
Score = 31.0 bits (71), Expect = 0.71
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRH-IFVVPRASRVIGLITRKDLL-IEDGEDSTTV 762
P VP D+++ +V L G RH + V R++G++T D+ + TV
Sbjct: 1 PDVVTVPVDLTVDEVLALM--FGERHRGYPVVDDGRLVGIVTLADIRRVPAEGREATV 56
>gnl|CDD|240009 cd04638, CBS_pair_25, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 106
Score = 37.7 bits (88), Expect = 0.003
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 719 SKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGED 758
V L ++ + + VV ++ ++G+ITRKDLL E+
Sbjct: 13 DDVLELLKEYKVSGVPVVKKSGELVGIITRKDLLRNPEEE 52
Score = 29.3 bits (66), Expect = 2.9
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 700 DLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDL 751
L + P V D + + L + +R + VV +++G++T D+
Sbjct: 53 QLALLMTRDPPTVSPDDDVKEAAKLMVENNIRRVPVV-DDGKLVGIVTVADI 103
>gnl|CDD|239966 cd04593, CBS_pair_EriC_assoc_bac_arch, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
bacteria and archaea. 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 = 115
Score = 37.7 bits (88), Expect = 0.004
Identities = 23/97 (23%), Positives = 37/97 (38%), Gaps = 11/97 (11%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL-----IEDGEDSTT 761
P P V+ L + + VV R V+G+IT DLL E GE S
Sbjct: 1 PPPPVLSATTPLREAAEQLIESKHGSALVVDRDGGVVGIITLPDLLRALEADEAGEPSAV 60
Query: 762 VELQSTSVRAQRRDKSL------LTRNTEAELPLLNG 792
E+ + + D+ L + +LP+++
Sbjct: 61 DEVATPPLLTVHPDEPLAHALDRMASRGLRQLPVVDR 97
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 37.5 bits (87), Expect = 0.004
Identities = 22/98 (22%), Positives = 40/98 (40%), Gaps = 12/98 (12%)
Query: 705 LNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDL---LIEDGEDSTT 761
+ V D S+ L + G+ + VV +++G+IT +D+ L G+
Sbjct: 5 MTKDVITVKPDTSVRDALLLMSENGVSAVPVV-DDGKLVGIITERDILRALAAGGKRLLP 63
Query: 762 VELQSTSVRAQRRDKSLLTRNTEAELPLLNGLLVEDHN 799
V+ T K ++T + + L L+VE H
Sbjct: 64 VKEVMT--------KPVVTVDPDTPLEEALELMVERHK 93
Score = 32.1 bits (73), Expect = 0.33
Identities = 23/152 (15%), Positives = 47/152 (30%), Gaps = 53/152 (34%)
Query: 603 KVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHSPLPCDTRG 662
V D + ++ N + PV+D +LV G++ +L
Sbjct: 17 SVRDALLLMSENGVSAVPVVD----DGKLV-GIITERDIL-------------------- 51
Query: 663 GSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVY 722
+ + L + ++ + V D L +
Sbjct: 52 ----------RALAAGGKRLLPVKEV----------------MTKPVVTVDPDTPLEEAL 85
Query: 723 NLFRQL-GLRHIFVVPR-ASRVIGLITRKDLL 752
L + +R + VV +++G+IT D+L
Sbjct: 86 ELMVERHKIRRLPVVDDDGGKLVGIITLSDIL 117
>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 = 37.6 bits (88), Expect = 0.004
Identities = 16/46 (34%), Positives = 27/46 (58%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+ ED SL+ L R+ +RH+ VV +++GL+T++DLL
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLL 46
>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 = 36.3 bits (85), Expect = 0.009
Identities = 12/48 (25%), Positives = 22/48 (45%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIE 754
V ED + + L R+ +R + VV R++G+++ DL
Sbjct: 66 RGVVTVTEDDDVDEAARLMREHQVRRLPVVDDDGRLVGIVSLGDLARA 113
>gnl|CDD|240006 cd04635, CBS_pair_22, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 36.3 bits (84), Expect = 0.012
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 15/80 (18%)
Query: 713 PEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL--------IEDGE-----DS 759
P+D +SKV++L + G + VV +A +IG+ITR+D++ +ED + S
Sbjct: 8 PDDP-VSKVWDLMLESGFTGLPVVQKAGELIGIITRRDIIRAGSVRTSVEDQQRTQTKAS 66
Query: 760 TTVE-LQSTSVRAQRRDKSL 778
TVE + ST V + D S+
Sbjct: 67 PTVEKIMSTPVYSVTPDDSI 86
>gnl|CDD|239956 cd04583, CBS_pair_ABC_OpuCA_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with the ABC transporter OpuCA.
OpuCA is the ATP binding component of a bacterial solute
transporter that serves a protective role to cells
growing in a hyperosmolar environment but the function
of the CBS domains in OpuCA remains unknown. In the
related ABC transporter, OpuA, the tandem CBS domains
have been shown to function as sensors for ionic
strength, whereby they control the transport activity
through an electronic switching mechanism. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. They are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
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 = 109
Score = 36.0 bits (84), Expect = 0.013
Identities = 17/70 (24%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 683 LSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRV 742
+S++ + + + + L + + V D SL V L + G +++ VV ++
Sbjct: 41 VSLESLEQAYKEAK---SLEDIMLEDVFTVQPDASLRDVLGLVLKRGPKYVPVVDEDGKL 97
Query: 743 IGLITRKDLL 752
+GLITR L+
Sbjct: 98 VGLITRSSLV 107
>gnl|CDD|240003 cd04632, CBS_pair_19, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 128
Score = 35.9 bits (83), Expect = 0.019
Identities = 14/41 (34%), Positives = 25/41 (60%)
Query: 712 VPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
V ED S+ K N+ R+ G+ + VV ++ G++TR D++
Sbjct: 6 VREDDSVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDIV 46
>gnl|CDD|240114 cd04801, CBS_pair_M50_like, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
association with the metalloprotease peptidase M50. 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 = 35.3 bits (82), Expect = 0.021
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 683 LSIDDIHLSSDDMEMYIDLGPFLNPSPYVVP--EDMSLSKVYNLFRQLGLRHIFVVPRAS 740
+S+ D+ + + P+ +V + SL++V L + GL + VV +
Sbjct: 41 ISLADLRAIPTSQWAQTTVIQVMTPAAKLVTVLSEESLAEVLKLLEEQGLDELAVVEDSG 100
Query: 741 RVIGLITRKDLL 752
+VIGLIT DLL
Sbjct: 101 QVIGLITEADLL 112
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 37.9 bits (89), Expect = 0.022
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 9/67 (13%)
Query: 685 IDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIG 744
I+D+ D+E P V D SL + +NL + ++ + VV +++G
Sbjct: 63 IEDVKPQVRDLE---------IDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEEGKLLG 113
Query: 745 LITRKDL 751
L++ DL
Sbjct: 114 LVSLSDL 120
>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 = 34.9 bits (81), Expect = 0.031
Identities = 16/57 (28%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVE 763
+P V D SL + L ++ +R + VV R +++G++T +DL + +TT++
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDRG-KLVGIVTDRDLKLASPSKATTLD 56
Score = 29.5 bits (67), Expect = 2.7
Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 12/80 (15%)
Query: 677 PASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIF-- 734
P+ + L I +++ +++ + P V D S+ + +L L
Sbjct: 49 PSKATTLDIWELYYLLSKIKVSD----IMTRDPITVSPDASVEEA----AELMLERKISG 100
Query: 735 --VVPRASRVIGLITRKDLL 752
VV R++G+IT DL
Sbjct: 101 LPVVDDQGRLVGIITESDLF 120
>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 = 34.7 bits (80), Expect = 0.035
Identities = 28/160 (17%), Positives = 56/160 (35%), Gaps = 56/160 (35%)
Query: 593 QKVVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQ 652
+ V+++ V DV+ +++ H+GFPV+D+ + V+G+V LL
Sbjct: 2 RDVITVSPDNTVKDVIKLIKETGHDGFPVVDNGK-----VVGIVSARDLLG--------- 47
Query: 653 HSPLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVV 712
K + E +S D V
Sbjct: 48 ------------KDPDETVEEI---------------MSKDL---------------VVA 65
Query: 713 PEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+M + + + G+ + VV + ++G+IT D++
Sbjct: 66 VPEMDIMDAARVMFRTGISKLPVVDENNNLVGIITNTDVI 105
Score = 28.5 bits (64), Expect = 4.2
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 710 YVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVE 763
V D ++ V L ++ G F V +V+G+++ +DLL +D TVE
Sbjct: 5 ITVSPDNTVKDVIKLIKETG-HDGFPVVDNGKVVGIVSARDLLGKD--PDETVE 55
>gnl|CDD|240005 cd04634, CBS_pair_21, 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 = 143
Score = 35.4 bits (82), Expect = 0.036
Identities = 35/159 (22%), Positives = 67/159 (42%), Gaps = 19/159 (11%)
Query: 594 KVVSLPRIIKVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQH 653
++ ++D +LR NK +G PV+D G +LV G+V S +L LL + +
Sbjct: 2 NPITCNADDTISDAARLLRENKISGAPVLD----GGKLV-GIVSESDILKLLVTHDPSGN 56
Query: 654 SPLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVP 713
LP P+ EF+ +K ++ D ++ + +
Sbjct: 57 LWLPSPLELIELPL----REFINWEETKR-ALTDA-GKMKVRDI-------MTKKVITIS 103
Query: 714 EDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
D S+ L + ++ + VV R++G++TR D++
Sbjct: 104 PDASIEDAAELMVRHKIKRLPVV-EDGRLVGIVTRGDII 141
>gnl|CDD|239969 cd04596, CBS_pair_DRTGG_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 108
Score = 33.7 bits (78), Expect = 0.069
Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVE 763
+ ++ + L ++ G VV ++V+G++T KD + + TT+E
Sbjct: 4 TGYLTTTDTVKDWHELNKETGHSRFPVVDEKNKVVGIVTSKD--VAGKDPDTTIE 56
>gnl|CDD|239979 cd04606, CBS_pair_Mg_transporter, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domain in the magnesium transporter, MgtE. MgtE and its
homologs are found in eubacteria, archaebacteria, and
eukaryota. Members of this family transport Mg2+ or
other divalent cations into the cell via two highly
conserved aspartates. 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 = 109
Score = 33.6 bits (78), Expect = 0.091
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 711 VVPEDMSLSKVYNLFRQLGLRH-----IFVVPRASRVIGLITRKDLLIEDGEDSTTVE 763
V ED ++ + R+ I+VV R++G+++ +DLL+ D T V
Sbjct: 1 AVREDWTVGEALEYLRRNADDPETIYYIYVVDEEGRLLGVVSLRDLLLAD--PDTPVS 56
Score = 28.2 bits (64), Expect = 6.0
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 683 LSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRV 742
+S+ D+ L +D D+ ++ V D +V LF + L + VV R+
Sbjct: 41 VSLRDL-LLADPDTPVSDI---MDTDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRL 96
Query: 743 IGLITRKDLL 752
+G+IT D++
Sbjct: 97 VGIITVDDVI 106
>gnl|CDD|239955 cd04582, CBS_pair_ABC_OpuCA_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with the ABC transporter OpuCA.
OpuCA is the ATP binding component of a bacterial solute
transporter that serves a protective role to cells
growing in a hyperosmolar environment but the function
of the CBS domains in OpuCA remains unknown. In the
related ABC transporter, OpuA, the tandem CBS domains
have been shown to function as sensors for ionic
strength, whereby they control the transport activity
through an electronic switching mechanism. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. They are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
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 = 106
Score = 33.1 bits (76), Expect = 0.11
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDL 751
V P D LS L LR + VV + +G +TR++
Sbjct: 2 EPITVRP-DDPLSDALGLMDDSDLRALTVVDADGQPLGFVTRREA 45
>gnl|CDD|182657 PRK10698, PRK10698, phage shock protein PspA; Provisional.
Length = 222
Score = 34.7 bits (80), Expect = 0.13
Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 751 LLIEDGEDSTTVELQSTSVRAQRRDKSLLTRNTEAE 786
L+I++ ED T VE++STS RA K L R +AE
Sbjct: 31 LMIQEMED-TLVEVRSTSARALAEKKQLTRRIEQAE 65
>gnl|CDD|240007 cd04636, CBS_pair_23, 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 = 132
Score = 33.5 bits (77), Expect = 0.13
Identities = 31/150 (20%), Positives = 55/150 (36%), Gaps = 30/150 (20%)
Query: 603 KVADVVSILRTNKHNGFPVIDHSRNGERLVIGLVLRSHLLVLLQSKVDFQHSPLPCDTRG 662
+ DVV IL T K +G PV+D E V+G+V L+ R
Sbjct: 11 TLRDVVEILLTGKISGVPVVD----NEGRVVGIVSEGDLI------------------RK 48
Query: 663 GSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVY 722
K + + S L E+ + V ED ++ V
Sbjct: 49 IYKGKGLFYVTLLYSVIFLDESKIKKLLGKKVEEI-------MTKKVITVDEDTTIEDVA 101
Query: 723 NLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+ + ++ + VV +++G+I+R D++
Sbjct: 102 RIMSKKNIKRLPVV-DDGKLVGIISRGDII 130
>gnl|CDD|239968 cd04595, CBS_pair_DHH_polyA_Pol_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with an upstream DHH domain which
performs a phosphoesterase function and a downstream
polyA polymerase domain. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 32.2 bits (74), Expect = 0.25
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 711 VVPEDMSLSKVYNLFRQLGLRHIFVVPRAS--RVIGLITRKDLL 752
VP D LS+V L + I VP R++G++TR DLL
Sbjct: 68 TVPPDTPLSEVQELMVE---HDIGRVPVVEDGRLVGIVTRTDLL 108
>gnl|CDD|239962 cd04589, CBS_pair_CAP-ED_DUF294_assoc_bac, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the bacterial CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
CBS domains usually come in tandem repeats, which
associate to form a so-called Bateman domain or a CBS
pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 31.8 bits (73), Expect = 0.33
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL---IEDGEDSTT 761
P +V S+ L R+ G + V R +G++TR DLL + DG S+T
Sbjct: 3 PLIVDASTSIRDAARLMREHGADALLVRDGDPR-LGIVTRTDLLDAVLLDGLPSST 57
>gnl|CDD|239992 cd04620, CBS_pair_7, 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 = 115
Score = 31.2 bits (71), Expect = 0.59
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 723 NLFRQLGLRHIFVVPRASRVIGLIT 747
+LFRQ +RH+ V+ ++IGL+T
Sbjct: 84 SLFRQHQIRHLPVLDDQGQLIGLVT 108
>gnl|CDD|239976 cd04603, CBS_pair_KefB_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the KefB (Kef-type K+ transport systems)
domain which is involved in inorganic ion transport and
metabolism. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 111
Score = 31.3 bits (71), Expect = 0.66
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 5/62 (8%)
Query: 708 SPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVELQST 767
V + L + + +LG R + VV ++V+G +T DLL D ++
Sbjct: 2 QTVSVNCENPLREAIKMINELGARAVVVVDEENKVLGQVTLSDLLEIGPND-----YETL 56
Query: 768 SV 769
V
Sbjct: 57 KV 58
>gnl|CDD|239970 cd04597, CBS_pair_DRTGG_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 113
Score = 30.8 bits (70), Expect = 0.73
Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 9/67 (13%)
Query: 685 IDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIG 744
+ D+H D+ +N P + L + NL + +R + VV G
Sbjct: 53 LADVHPRVRDV---------INRKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAG 103
Query: 745 LITRKDL 751
+IT DL
Sbjct: 104 IITLLDL 110
>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 = 30.7 bits (70), Expect = 0.79
Identities = 13/46 (28%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIE 754
V P++ +++ L R+ +RH VV + ++G+I+ +DL+ E
Sbjct: 68 VTVDPDE-PVAEAAKLMRKNNIRHHLVVDKGGELVGVISIRDLVRE 112
>gnl|CDD|239957 cd04584, CBS_pair_ACT_assoc, 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 = 121
Score = 31.0 bits (71), Expect = 0.81
Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 711 VVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVELQSTSVR 770
+ P ++++ L R+ +RH+ VV R++G++T +DL TT+ +
Sbjct: 6 ITPTT-TIAEALELMREHKIRHLPVVDEEGRLVGIVTDRDLRDASPSPFTTLSEHELYLL 64
Query: 771 AQRRDKSLLTRN 782
+ K ++T++
Sbjct: 65 LKMPVKEIMTKD 76
>gnl|CDD|216801 pfam01943, Polysacc_synt, Polysaccharide biosynthesis protein.
Members of this family are integral membrane proteins.
Many members of the family are implicated in production
of polysaccharide. The family includes RfbX part of the
O antigen biosynthesis operon. The family includes SpoVB
from Bacillus subtilis, which is involved in spore
cortex biosynthesis.
Length = 272
Score = 32.3 bits (74), Expect = 0.82
Identities = 22/123 (17%), Positives = 40/123 (32%), Gaps = 12/123 (9%)
Query: 64 GKLYVGYSVVVKWFFALLIGIGTGLAAV-FINISVENFAGWKFSLTFSIIQKSYFAGFLV 122
G ++V F + +G A V I ++ K S S + L+
Sbjct: 36 GLYSFALAIVG--LFVIFADLGLNAALVREIARYRDDE---KSSKYISNVLLGKLLLSLI 90
Query: 123 YILINLILVF------SSVYIITKFAPAAAGSGIPEIKGYLNGVDIHGILLFRTLIGKIF 176
++LI LI F + + +I A G++ + +I K+
Sbjct: 91 FLLILLIAAFLGLPDLAVILLILALAILLLPGVSQFFSWLFQGLEKMKYIAISMIIEKLG 150
Query: 177 GSI 179
I
Sbjct: 151 SLI 153
>gnl|CDD|239982 cd04609, CBS_pair_PALP_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the pyridoxal-phosphate (PALP) dependent
enzyme domain upstream. The vitamin B6 complex
comprises pyridoxine, pyridoxal, and pyridoxamine, as
well as the 5'-phosphate esters of pyridoxal (PALP) and
pyridoxamine, the last two being the biologically active
coenzyme derivatives. The members of the PALP family
are principally involved in the biosynthesis of amino
acids and amino acid-derived metabolites, but they are
also found in the biosynthetic pathways of amino sugars
and other amine-containing compounds. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 110
Score = 30.6 bits (70), Expect = 0.89
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 710 YVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGED 758
V P+D ++S+ R+ G+ + VV RV+G I DLL E
Sbjct: 5 SVAPDD-TVSQAIERMREYGVSQLPVV-DDGRVVGSIDESDLLDALIEG 51
>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 = 30.3 bits (69), Expect = 1.5
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLI 753
+ + D S+ L + + + VV +++G++T +DLL
Sbjct: 78 RNVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERDLLK 124
>gnl|CDD|225321 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 31.6 bits (72), Expect = 1.6
Identities = 10/46 (21%), Positives = 20/46 (43%)
Query: 707 PSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+ + ED + L + + + V + +G+ITR D+L
Sbjct: 242 KNVITINEDEDIYDAIRLMNKNNVGRLLVTDSNGKPVGIITRTDIL 287
>gnl|CDD|240001 cd04630, CBS_pair_17, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 114
Score = 29.9 bits (68), Expect = 1.8
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 712 VPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
V DM + L + +R VV + +IG+I+ D+
Sbjct: 73 VSPDMDIKYCARLMERTNIRRAPVV-ENNELIGIISLTDIF 112
>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein. Members of this
protein family belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria). Proteins in this
family average over 1400 amino acids in length
[Hypothetical proteins, Conserved].
Length = 1353
Score = 31.7 bits (72), Expect = 2.0
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 204 LLGQGGSTKYHLRYRWLQVFRSDRDRRDL-VTCGCAAGVAAA 244
LL G + + Y WL+ R + D + +T G +A+
Sbjct: 72 LLLGGVNHDERVGYLWLEFGRVEDDGNEHYLTIGAGLRASAS 113
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 31.5 bits (72), Expect = 2.0
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 687 DIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLI 746
D+ + D + +DL + P P VPE +SLS + FR+ VV V GL+
Sbjct: 260 DLLRALLDGQSDLDLRVLVRP-PLFVPETLSLSDLLEEFREERTHMAIVVDEYGGVEGLV 318
Query: 747 TRKDLL------IEDGEDSTTVELQ 765
T +D++ I D D E
Sbjct: 319 TLEDIIEEIVGEIPDEHDEDEEEDI 343
>gnl|CDD|225148 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 31.5 bits (72), Expect = 2.0
Identities = 10/54 (18%), Positives = 30/54 (55%), Gaps = 5/54 (9%)
Query: 710 YVVPEDMSLSKVYNLFRQLGLR-----HIFVVPRASRVIGLITRKDLLIEDGED 758
+PED+++ + + R+ +++VV +++G+++ +DLL + ++
Sbjct: 143 VTLPEDVTVDEALDRIRERAEDAETIYYLYVVDEKGKLLGVVSLRDLLTAEPDE 196
Score = 29.2 bits (66), Expect = 9.7
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 683 LSIDDIHLSSDDMEMYIDLGPFLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRV 742
+S+ D+ + D L + V D +V LF + L + VV +R+
Sbjct: 184 VSLRDLLTAEPDEL----LKDLMEDDVVSVLADDDQEEVARLFEKYDLLAVPVVDEDNRL 239
Query: 743 IGLITRKDLL----IEDGED 758
IG+IT D++ E ED
Sbjct: 240 IGIITIDDIIDVIEEEATED 259
>gnl|CDD|217914 pfam04129, Vps52, Vps52 / Sac2 family. Vps52 complexes with Vps53
and Vps54 to form a multi- subunit complex involved in
regulating membrane trafficking events.
Length = 511
Score = 31.2 bits (71), Expect = 2.3
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 105 FSLTFSIIQKSYFAGFLVYILINLILVFSSVYIITKFAPAAAGSGIPEIKGYLNGVDI 162
F+ T S+ K Y + + I V + +I K AA G+P + Y N V I
Sbjct: 327 FAKTLSVALK-YLEQLISDC-YDAIGVLLCIRLINKLQLIAARRGVPALDSYWNSVLI 382
>gnl|CDD|240113 cd04800, CBS_pair_CAP-ED_DUF294_PBI_assoc2, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 29.0 bits (66), Expect = 3.0
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
P +P D ++ + L + G+ H+ VV R++G+I+ DLL
Sbjct: 67 PITIPPDATVFEALLLMLERGIHHLPVV-DDGRLVGVISATDLL 109
>gnl|CDD|226594 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 30.8 bits (70), Expect = 3.2
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLIEDGEDSTTVE 763
+ E ++ +L + G VV R+ +V+G++T +D+L D + STT+E
Sbjct: 200 TSYLRETDTVEDWLDLVEKTGHSRFPVVNRSMKVVGVVTMRDVL--DKKPSTTIE 252
>gnl|CDD|239989 cd04617, CBS_pair_4, 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 = 118
Score = 29.2 bits (66), Expect = 3.2
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 709 PYVVPEDMSLSK-VYNLFRQ-LGLRHIFVVPRASRVIGLITRKDLL 752
P VV E+ S+ + LF + +G +FVV ++G+++RKDLL
Sbjct: 3 PVVVRENTSVYDAIVTLFLEDVG--SLFVVDEDGDLVGVVSRKDLL 46
>gnl|CDD|218735 pfam05760, IER, Immediate early response protein (IER). This
family consists of several eukaryotic immediate early
response (IER) 2 and 5 proteins. The role of IER5 is
unclear although it play an important role in mediating
the cellular response to mitogenic signals. Again,
little is known about the function of IER2 although it
is thought to play a role in mediating the cellular
responses to a variety of extracellular signals.
Length = 272
Score = 30.3 bits (68), Expect = 3.5
Identities = 12/78 (15%), Positives = 17/78 (21%), Gaps = 1/78 (1%)
Query: 652 QHSPLPCDTRGGSKPISHSFSEFVKPASSKGLSIDDIHLSSDDMEMYIDLGPFLNPSPYV 711
H PC G + + S + D P
Sbjct: 153 LHQDCPCQAEDGQPAPPAVCKRKRRSSGYGSDSGEASGFVPCKRARREDFEPESGGES-E 211
Query: 712 VPEDMSLSKVYNLFRQLG 729
E+M + NL G
Sbjct: 212 DAEEMETGNISNLISIFG 229
>gnl|CDD|239960 cd04587, CBS_pair_CAP-ED_DUF294_PBI_assoc, 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 = 113
Score = 28.7 bits (65), Expect = 3.9
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 704 FLNPSPYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLIT 747
+ P+P D + + +L Q RH+ VV ++ +V+GL+
Sbjct: 63 VMTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKSGQVVGLLD 106
>gnl|CDD|222537 pfam14093, DUF4271, Domain of unknown function (DUF4271). This
family of integral membrane proteins is functionally
uncharacterized. This family of proteins is found in
bacteria. Proteins in this family are typically between
221 and 326 amino acids in length.
Length = 207
Score = 29.5 bits (67), Expect = 4.7
Identities = 14/55 (25%), Positives = 23/55 (41%)
Query: 76 WFFALLIGIGTGLAAVFINISVENFAGWKFSLTFSIIQKSYFAGFLVYILINLIL 130
F L L ++FI + + +F F I+ F G ++IL+ IL
Sbjct: 50 PFQLFLFLQTCLLLSLFIYLYLRDFGLELFFSVQLIVFGLIFGGVFLFILLKYIL 104
>gnl|CDD|220960 pfam11060, DUF2861, Protein of unknown function (DUF2861). This
bacterial family of proteins has no known function.
Length = 256
Score = 29.7 bits (67), Expect = 4.8
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 1 MLSNHLQNGFETAKLVWSQIPNSEEAEH 28
+L HL F + VW PN EH
Sbjct: 15 LLEGHLTQMFHSLVEVWQTEPNKNLKEH 42
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases 2
CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 29.5 bits (67), Expect = 6.8
Identities = 11/45 (24%), Positives = 22/45 (48%)
Query: 709 PYVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLLI 753
PE ++L + + + + + +V ++GLITRKD+
Sbjct: 153 LVTAPEGITLEEANEILHEHKIEKLPIVDDDGELVGLITRKDIEK 197
>gnl|CDD|224671 COG1757, NhaC, Na+/H+ antiporter [Energy production and
conversion].
Length = 485
Score = 29.6 bits (67), Expect = 7.2
Identities = 23/105 (21%), Positives = 33/105 (31%), Gaps = 6/105 (5%)
Query: 65 KLYVGYSVVVKWFFALLIGIGTGLA-AVFINISVENFAGWKFSLTFSIIQKSYFAGFLVY 123
+ + + V +L + A+ I I V F + I F G L
Sbjct: 23 AVILSLGIGVLVGGLILAFLNLPAHVALIIAIIVALFIARGLGFNYKDIIILIFLGLLGA 82
Query: 124 ILINLILVFSSVYIITKFAPAAAGSGIPEIKGYLNGVDIHGILLF 168
+ LIL+ I A A SGI Y I + F
Sbjct: 83 LTALLILLG-----IGAAIAAWAASGIVPALVYYGLKLISPSIFF 122
>gnl|CDD|225757 COG3216, COG3216, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 184
Score = 28.9 bits (65), Expect = 8.6
Identities = 34/161 (21%), Positives = 54/161 (33%), Gaps = 26/161 (16%)
Query: 215 LRYRWLQVFRSDRDRRDLVTCGCAAGVAAAFRAPVGGVLFALEEVTSWW-RSQLMWR--- 270
RY + ++ R V G AAGV AAF P G+ + V + R L+
Sbjct: 29 GRYLYKRILRLLATPHS-VAAGVAAGVFAAF-FPFFGLHMIIAAVLAIVLRGNLVAAALG 86
Query: 271 VFFTSAIVAVVVRSAMGWCKSGKCGHF--------GSGGFIIWDISDGQ-EDYSFEELLP 321
+ + + + W + + G + + W + L P
Sbjct: 87 TWLANPLTMPFI-----WGATYELGAWLLQRPAQSVGPVHLTWMWQSLELSSLWGPVLKP 141
Query: 322 MAVIGVIGGLLGAL-FNQLTLYMTSW-----RRNYLHKKGN 356
M V V G +G L F LT Y + RR+ +
Sbjct: 142 MLVGAVPAGAIGGLLFYGLTRYSVTRFRERRRRSLAERAAL 182
>gnl|CDD|217036 pfam02442, L1R_F9L, Lipid membrane protein of large eukaryotic DNA
viruses. The four families of large eukaryotic DNA
viruses, Poxviridae, Asfarviridae, Iridoviridae, and
Phycodnaviridae, referred to collectively as
nucleocytoplasmic large DNA viruses or NCLDV, have all
been shown to have a lipid membrane, in spite of the
major differences in virion structure. The paralogous
genes L1R and F9L encode membrane proteins that have a
conserved domain architecture, with a single, C-terminal
transmembrane helix, and an N-terminal,
multiple-disulfide-bonded domain. The conservation of
the myristoylated, disulfide-bonded protein L1R/F9L in
most of the NCLDV correlates with the conservation of
the thiol-disulfide oxidoreductase E10R which, in
vaccinia virus, is required for the formation of
disulfide bonds in L1R and F9L.
Length = 203
Score = 28.8 bits (65), Expect = 9.3
Identities = 24/149 (16%), Positives = 50/149 (33%), Gaps = 30/149 (20%)
Query: 336 FNQLTLYMTSWRRNYLHKKGNRVKI-IEACVISVITSVISFGLPLLRKCSPCPESDLDSG 394
++ + ++ + N + I I A V +T +I + C + + +
Sbjct: 72 LKEVLNNLPQEQKAAVATAANEIGIDINAVVKDFVTELI-------QTCKA--SAVVTNS 122
Query: 395 I--------ECPRPPGMYGNYVNFYCSKDKEYNDLATIFFNTQDDAIRNLFSAKTIHE-- 444
I EC P G+ + ++ + + N A+ N + + I
Sbjct: 123 IDVQNIDIGECYAPGGVI---TDL------QFVNSGSAEANCGLKAVSNALTKRDIVVPI 173
Query: 445 -YSAQSLLTFLVMFYTLAVVTFGIAVPAG 472
AQ+ T L +AV+ I +
Sbjct: 174 SQKAQAKATGLDWLIIIAVIIIIIGLIGV 202
>gnl|CDD|239961 cd04588, CBS_pair_CAP-ED_DUF294_assoc_arch, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the archaeal CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 110
Score = 27.7 bits (62), Expect = 9.5
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 710 YVVPEDMSLSKVYNLFRQLGLRHIFVVPRASRVIGLITRKDLL 752
+ ED L L + + + V R +G+ITR D+L
Sbjct: 66 ITIDEDEQLYDAIRLMNKHNVGRLIVTDDEGRPVGIITRTDIL 108
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
0.323 0.140 0.417
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: 41,553,568
Number of extensions: 4262245
Number of successful extensions: 5005
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4909
Number of HSP's successfully gapped: 226
Length of query: 799
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 694
Effective length of database: 6,280,432
Effective search space: 4358619808
Effective search space used: 4358619808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (27.9 bits)