RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 004220
(767 letters)
>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 = 308 bits (792), Expect = 3e-98
Identities = 152/449 (33%), Positives = 230/449 (51%), Gaps = 67/449 (14%)
Query: 99 GLLTGIGVVLFNKGVHEIRDFFWDGIPYGGASWLREKPIPAIWIRVVLVPACGGFIVSIL 158
G+L+G+G VLF + +++ + G+P A+ + ++LVP GG +V +L
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAG------SLSPLYILLVPVIGGLLVGLL 54
Query: 159 NQLRYALSLDDDDDDDVQQVQDKSYPPPHPQAQAKDDISVITVSSTTSLPTIYYDYLKIA 218
+L + P+ + I ++
Sbjct: 55 VRLL-----------------GPARGHGIPEV----------------IEAIALGGGRLP 81
Query: 219 F-QPLLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSLVAAGSAAG 277
L+K +A+ +TLG+G S+G EGP V+IG +I +G + LVA G+AAG
Sbjct: 82 LRVALVKFLASALTLGSGGSVGREGPIVQIGAAIGSWLGRRLRLSRNDRRILVACGAAAG 141
Query: 278 ISSGFNAAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAF 337
I++ FNA +AG FA+E ++ S A + V+L++V A++VS + G+EPAF
Sbjct: 142 IAAAFNAPLAGALFAIEVLLGEYSVA--------SLIPVLLASVAAALVSRLLFGAEPAF 193
Query: 338 KVPEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVMGG 397
VP YD S ELPLYLLLG+L GL+ + R + + L IP + P +GG
Sbjct: 194 GVPLYDPLSLLELPLYLLLGLLAGLVGVLFVRLLYKIERLFRRL----PIPPWLRPALGG 249
Query: 398 LAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLVG 457
L +GL+ L P++L G+ + + L L+ +LL L+ K++AT+L SG G
Sbjct: 250 LLLGLLGLFLPQVLGSGYGAILLALAG-----ELSLLLLLLLLLLKLLATALTLGSGFPG 304
Query: 458 GYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGVCQV 517
G +APSLFIGAA G A+G + VASP AY LVGMAA LA V +
Sbjct: 305 GVFAPSLFIGAALGAAFGLLLP----------ALFPGLVASPGAYALVGMAALLAAVLRA 354
Query: 518 PLTSVLLLFELTQDYRIVLPLLGAVGLSS 546
PLT++LL+ ELT DY ++LPL+ AV ++
Sbjct: 355 PLTAILLVLELTGDYSLLLPLMLAVVIAY 383
Score = 35.6 bits (83), Expect = 0.10
Identities = 42/202 (20%), Positives = 66/202 (32%), Gaps = 52/202 (25%)
Query: 97 LVGLLTGIGVVLFNKGVHEIRDFFWDGIPYGGASWLREKPIPAIWIRVVLVPACGGFIVS 156
L+GLL G+ VLF + +++I F R PIP PA GG ++
Sbjct: 211 LLGLLAGLVGVLFVRLLYKIERLF------------RRLPIPPWL-----RPALGGLLLG 253
Query: 157 ILNQLRYALSLDDDDDDDVQQVQDKSYPPPHPQAQAKDDISVITVSSTTSLPTIYYDYLK 216
+L P I + + L
Sbjct: 254 LL-----------------------GLFLPQVLGSGYGAILLALAGELSL--------LL 282
Query: 217 IAFQPLLKAVAACITLGTGNSLGPEGPSVEI----GKSIAKGVGNLFDRRPRRKVSLVAA 272
+ LLK +A +TLG+G G PS+ I G + + LF +
Sbjct: 283 LLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPGLVASPGAYALV 342
Query: 273 GSAAGISSGFNAAVAGCFFAVE 294
G AA +++ A + +E
Sbjct: 343 GMAALLAAVLRAPLTAILLVLE 364
>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 = 257 bits (658), Expect = 5e-79
Identities = 126/328 (38%), Positives = 190/328 (57%), Gaps = 25/328 (7%)
Query: 222 LLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSLVAAGSAAGISSG 281
L+K + +TLG+G SLG EGPSV+IG +I G+G + L+AAG+AAGI++
Sbjct: 41 LVKFLGTLLTLGSGGSLGREGPSVQIGAAIGSGLGRRLKLSRNDRRRLIAAGAAAGIAAA 100
Query: 282 FNAAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPE 341
FNA +AG FA+E + S + S +L V++++V+A++VS + G+EP F+VP
Sbjct: 101 FNAPLAGVLFALEEL----SRSFSYRALLP----VLVASVVAALVSRLLFGNEPLFEVPS 152
Query: 342 YDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVMGGLAVG 401
S ELPL++LLG+LCGL+ R +L + ++ +P + P +GGL VG
Sbjct: 153 LPPLSLLELPLFILLGILCGLLGALFVRL---LLKVERLFRRLKKLPPILRPALGGLLVG 209
Query: 402 LIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLVGGYYA 461
L+ L PE+L G+ + +LL + +LL L+ K++AT+L SG GG +A
Sbjct: 210 LLGLFLPEVLGGGYGLIQLLLNGSTL----SLLLLLLLLLLKLLATALSLGSGAPGGIFA 265
Query: 462 PSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGVCQVPLTS 521
PSLFIGAA G G + SP A+ L+GMAA LAGV + PLT+
Sbjct: 266 PSLFIGAALGRLLGLLLP----------LLFPGIAPSPGAFALLGMAAFLAGVTRAPLTA 315
Query: 522 VLLLFELTQDYRIVLPLLGAVGLSSWFT 549
++L+FELT Y ++LPL+ AV ++ +
Sbjct: 316 IVLVFELTGSYSLLLPLMLAVLIAYLVS 343
Score = 36.7 bits (86), Expect = 0.038
Identities = 45/255 (17%), Positives = 81/255 (31%), Gaps = 61/255 (23%)
Query: 78 IIGIDGHEVGNSGVIISSCLVGLLTGIGVVLFNKGVHEIRDFFWDGIPYGGASWLREKPI 137
+ + + + L+G+L G+ LF + + ++ F
Sbjct: 147 LFEVPSLPPLSLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKK------------ 194
Query: 138 PAIWIRVVLVPACGGFIVSILNQLRYALSLDDDDDDDVQQVQDKSYPPPHPQAQAKDDIS 197
+ +L PA GG +V +L P I
Sbjct: 195 ----LPPILRPALGGLLVGLL-----------------------GLFLPEVLGGGYGLIQ 227
Query: 198 VITVSSTTSLPTIYYDYLKIAFQPLLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGN 257
++ ST SL + LLK +A ++LG+G G PS+ IG ++ + +G
Sbjct: 228 LLLNGSTLSLLLLLLL-------LLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGL 280
Query: 258 LFDR---RPRRKVSLVAAGSAAGISSGF-NAAVAGCFFAVESVIWPSSAADSSASLAYTT 313
L A A +G A + E + S +
Sbjct: 281 LLPLLFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFE----------LTGSYSLLL 330
Query: 314 SMVILSAVIASVVSE 328
++L+ +IA +VS
Sbjct: 331 -PLMLAVLIAYLVSR 344
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 214 bits (546), Expect = 7e-62
Identities = 136/488 (27%), Positives = 218/488 (44%), Gaps = 66/488 (13%)
Query: 90 GVIISSCLVGLLTGIGVVLFNKGVHEIRDFFWDGIPYGGASWLREKPIPAIWIRVVLVPA 149
+I + +G++ G+ V + + L P W + LVPA
Sbjct: 21 VLIGIAAALGVIVGLFAVALDLA--------LLLLGRLRGGLLSAAQAPGPW-LLPLVPA 71
Query: 150 CGGFIVSILNQLRYALSLDDDDDDDVQQVQDKSYPPPHPQAQAKDDISVITVSSTTSLPT 209
GG +V L ++A P+A+ I
Sbjct: 72 LGGLLVGALLVYKFA-----------------------PEARGSGIPQAIEALHG----- 103
Query: 210 IYYDYLKIAFQPLLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSL 269
+K VA +T+G+G SLG EGPSV+IG +I +G L + L
Sbjct: 104 --RKGRISPRVLPVKLVATLLTIGSGASLGREGPSVQIGAAIGSLLGRLLKLSREDRRIL 161
Query: 270 VAAGSAAGISSGFNAAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEV 329
+AAG+AAG+++ FNA +AG FA+E V++ +L V+++AV+A +V+ +
Sbjct: 162 LAAGAAAGLAAAFNAPLAGALFAIE-VLYGRFL--EYRALVP----VLVAAVVALLVAGL 214
Query: 330 GLGSEPAFKVPEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPK 389
G + S +L LYL+LG++ GL + LSR LA+ + +P
Sbjct: 215 FGGPHFLLPIVTTPHMSLWDLLLYLVLGIIAGLFGVLLSRL----LALSRRFFRRLPLPP 270
Query: 390 AVFPVMGGLAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSL 449
+ P +GGL VG + L+FPE+L G+ + + L +LL L K++AT L
Sbjct: 271 LLRPALGGLLVGALGLLFPEVLGNGYGLIQLALAGE-----GGLLVLLLLFLLKLLATLL 325
Query: 450 CRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAA 509
SG GG +APSLFIGAA G+A+G + S P + L+GMAA
Sbjct: 326 SYGSGAPGGIFAPSLFIGAALGLAFGALLGLLFPPSIL----------EPGLFALLGMAA 375
Query: 510 TLAGVCQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSWFTSGQMRRRDVKETKVAVHANT 569
LA + PLT+++L+ E+T +Y+++LPLL A ++ S + R + +A
Sbjct: 376 FLAATTRAPLTAIVLVLEMTGNYQLLLPLLIACLIAYLV-SRLLGGRPIYTQLLARRGAP 434
Query: 570 NRKRQFEI 577
+ +
Sbjct: 435 ILREERAE 442
>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 = 203 bits (520), Expect = 2e-58
Identities = 95/318 (29%), Positives = 162/318 (50%), Gaps = 26/318 (8%)
Query: 222 LLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSLVAAGSAAGISSG 281
+K V + LG+G SLG EGPSV+IG +I +GV F P + L+AAG+AAG+++
Sbjct: 87 PVKFVGGVLALGSGLSLGREGPSVQIGAAIGQGVSKWFKTSPEERRQLIAAGAAAGLAAA 146
Query: 282 FNAAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPE 341
FNA +AG F +E + S + LA T +++++ A VS + G P +P
Sbjct: 147 FNAPLAGVLFVLEELR------HSFSPLALLT--ALVASIAADFVSRLFFGLGPVLSIPP 198
Query: 342 YDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVMGGLAVG 401
L LLLG++ GL+ +R +L D +K +P+ + ++ GL +G
Sbjct: 199 LPALPLKSYWLLLLLGIIAGLLGYLFNR---SLLKSQDLYRKLKKLPRELRVLLPGLLIG 255
Query: 402 LIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLVGGYYA 461
+ L+ PE L G + L + +LL + + + T L SG GG +A
Sbjct: 256 PLGLLLPEALGGGHGLILSLAGGNFSIS-----LLLLIFVLRFIFTMLSYGSGAPGGIFA 310
Query: 462 PSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGVCQVPLTS 521
P L +GA G+ +G + + + +++P + + GMAA A V + P+T+
Sbjct: 311 PMLALGALLGLLFGTIL----------VQLGPIPISAPATFAIAGMAAFFAAVVRAPITA 360
Query: 522 VLLLFELTQDYRIVLPLL 539
++L+ E+T ++ ++LPL+
Sbjct: 361 IILVTEMTGNFNLLLPLM 378
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 176 bits (449), Expect = 3e-47
Identities = 158/625 (25%), Positives = 266/625 (42%), Gaps = 123/625 (19%)
Query: 139 AIWIRVVLVPACGGFIVSILNQLRYALSLDDDDDDDVQQVQDKSYPPPHPQAQAKDDISV 198
++RV +PA GGF+ + L + K + +A A D V
Sbjct: 68 PWYVRVW-LPAAGGFLAGCVLLL-------------ANRGARKGGKTDYMEAVALGD-GV 112
Query: 199 ITVSSTTSLPTIYYDYLKIAFQPLLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNL 258
+ V + L ++ ++ +T+G+G S+G EGP V++ A VG
Sbjct: 113 VPVRQS-----------------LWRSASSLLTIGSGGSIGREGPMVQLAALAASLVGRF 155
Query: 259 FDRRPRRKVSLVAAGSAAGISSGFNAAVAGCFFAVESVIWPSSAADSSASLAYTTSM-VI 317
P R LVA G+AAGI+S +NA +AG FF E V+ S+A + ++
Sbjct: 156 AHFDPPRLRLLVACGAAAGITSAYNAPIAGAFFVAEIVL---------GSIAMESFGPLV 206
Query: 318 LSAVIASVVSEVGLGSEPAFKVPEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAI 377
+++V+A++V G +P +++P + + E+ L++ LGVLCG + R +L
Sbjct: 207 VASVVANIVMREFAGYQPPYEMPVFPAVTGWEVLLFVALGVLCGAAAPQFLR----LLDA 262
Query: 378 VDNLQKDNGIPKAVFPVMGGLAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLL 437
N K +P V +GGL VG+I++ PE+ G+ V+ +L + T L+
Sbjct: 263 SKNQFKRLPVPLPVRLALGGLLVGVISVWVPEVWGNGYSVVNTILHAPW-----TWQALV 317
Query: 438 QLVAAKIVATSLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVA 497
++ AK++AT+ SG VGG + P+LF+GA G +G ++ +
Sbjct: 318 AVLVAKLIATAATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGH----------TS 367
Query: 498 SPQAYGLVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPL-LGAVGLSSWFTSGQMRRR 556
+P AY +VGM A LAG Q PL ++L++FE+T Y++VLPL + V ++FT+ +
Sbjct: 368 APFAYAMVGMGAFLAGATQAPLMAILMIFEMTLSYQVVLPLMVSCV--VAYFTARALGTT 425
Query: 557 DVKETKVAVHANTNRKRQFEIYTSRTRGLSSSDLLAEEEPYAINLCEVESSLCIDDWNLE 616
+ E T R+ Q E R R +L+ + +
Sbjct: 426 SMYEI-------TLRRHQDEAERERLRTTQMRELIQPAQT-------------VVPPTAS 465
Query: 617 VEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V ++ RVF+ +Y+ V VD+D G + L DI
Sbjct: 466 VADMT-RVFLE--YPVKYLYV-----------------------VDDDGRFRGAVALKDI 499
Query: 677 EEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVV 736
+ T ++ TP+M L AL + ++PVV
Sbjct: 500 TSDLLDKRDTTDKTAADYAHTPFPL----------LTPDMPLGDALEHFMAFQGERLPVV 549
Query: 737 MEHIPGQRGQLVGLLDRESIILACR 761
L G++ + S++ A R
Sbjct: 550 E---SEASPTLAGVVYKTSLLDAYR 571
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 171 bits (436), Expect = 2e-46
Identities = 99/337 (29%), Positives = 161/337 (47%), Gaps = 48/337 (14%)
Query: 224 KAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRR-PRRKVSLVAAGSAAGISSGF 282
K TLG+G LG EGP+V++G +I + V ++F R + +L+AAG+AAG+++ F
Sbjct: 96 KFFGGLGTLGSGMVLGREGPTVQMGGNIGRMVLDIFRLRSDEARHTLLAAGAAAGLAAAF 155
Query: 283 NAAVAGCFFAVE--------SVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSE 334
NA +AG F +E S+I + V + ++A++V + G +
Sbjct: 156 NAPLAGILFVIEEMRPQFRYSLI--------------SIKAVFIGVIMATIVFRLFNGEQ 201
Query: 335 PAFKVPEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPV 394
+V ++ L L+LLLG++ G+ + ++ + D L N K + +
Sbjct: 202 AVIEVGKFSAPPLNTLWLFLLLGIIFGIFGVLFNKLLLRTQDLFDRLHGGN---KKRWVL 258
Query: 395 MGGLA---VGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCR 451
MGG GL+ L+ P + GF + I L + MLL + A+ + T LC
Sbjct: 259 MGGAVGGLCGLLGLLAPAAVGGGFNLIPIALAG-----NFSIGMLLFIFVARFITTLLCF 313
Query: 452 ASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATL 511
SG GG +AP L +G G+A+G A P H P + + GM A
Sbjct: 314 GSGAPGGIFAPMLALGTLLGLAFGM----VAAALFPQYH------IEPGTFAIAGMGALF 363
Query: 512 AGVCQVPLTSVLLLFELTQDYRIVLPL----LGAVGL 544
A + PLT ++L+ E+T +Y+++LPL LGA L
Sbjct: 364 AATVRAPLTGIVLVLEMTDNYQLILPLIITCLGATLL 400
>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 = 131 bits (333), Expect = 3e-33
Identities = 100/334 (29%), Positives = 154/334 (46%), Gaps = 42/334 (12%)
Query: 222 LLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRR-PRRKVSLVAAGSAAGISS 280
+ K + + L G S+G EGPSV+IG ++ +G + + L+ AG AAG+++
Sbjct: 81 VGKILLTLLGLLGGASVGREGPSVQIGAAVMLAIGRRLPKWGGLSERGLILAGGAAGLAA 140
Query: 281 GFNAAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGL-GSEPAFKV 339
FN +AG FA+E + S S ++L AVIA+ + + + G+ P F V
Sbjct: 141 AFNTPLAGIVFAIEEL---------SRDFELRFSGLVLLAVIAAGLVSLAVLGNYPYFGV 191
Query: 340 PEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVMG--- 396
L L+ GV+ GL +R ++A+ L + PV+
Sbjct: 192 AAVALPLGEAWLLVLVCGVVGGLAGGLFARL---LVALSSGLPGWVRRFRRRRPVLFAAL 248
Query: 397 -GLAVGLIALMFPEILYW-GFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASG 454
GLA+ LI L+ + + G+ LE + L K +AT L SG
Sbjct: 249 CGLALALIGLVSGGLTFGTGYLQARAALEGGGGL-------PLWFGLLKFLATLLSYWSG 301
Query: 455 LVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGV 514
+ GG +APSL +GA G +A +L S A L+GMAA LAGV
Sbjct: 302 IPGGLFAPSLAVGAGLG--------SLLAA--------LLGSVSQGALVLLGMAAFLAGV 345
Query: 515 CQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSWF 548
Q PLT+ +++ E+T D +++LPLL A L+S
Sbjct: 346 TQAPLTAFVIVMEMTGDQQMLLPLLAAALLASGV 379
>gnl|CDD|239965 cd04592, CBS_pair_EriC_assoc_euk, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
eukaryotes. 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 = 133
Score = 123 bits (310), Expect = 6e-33
Identities = 53/135 (39%), Positives = 73/135 (54%), Gaps = 14/135 (10%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T+Y+ V TT L EAL LML EKQSC ++VD+D+ L G+LTLGDI+ F KT+R +
Sbjct: 1 TKYIKVSPTTTLKEALNLMLDEKQSCVLVVDSDDFLEGILTLGDIQRFLF--TNKTTRVQ 58
Query: 692 K---------LLVSEMC---SADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEH 739
LVS +C + G C T TP+ +L +A LM+ GV Q+PVV
Sbjct: 59 PEDETKQTNTCLVSSVCTKGISYGGQECGLWTCTPDTDLTTAKKLMEAKGVKQLPVVKRG 118
Query: 740 IPGQRGQLVGLLDRE 754
+ +R +L
Sbjct: 119 VDRRRRGRRKVLGLL 133
>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 = 123 bits (312), Expect = 2e-30
Identities = 91/324 (28%), Positives = 146/324 (45%), Gaps = 36/324 (11%)
Query: 225 AVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSLVAAGSAAGISSGFNA 284
AV +T+G G LG E E+G +A+ + + LVA + AG+++ +N
Sbjct: 89 AVLQIVTVGLGAPLGREVAPREVGALLAQRFSDWLGLTVADRRLLVACAAGAGLAAVYNV 148
Query: 285 AVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPEYDF 344
+AG FA+E ++ S A+LA ++ IA+ V+ + G P + +P
Sbjct: 149 PLAGALFALEILLRTISLRSVVAALA--------TSAIAAAVASLLKGDHPIYDIPPMQL 200
Query: 345 RSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVM--GGLAVGL 402
S L LL G + G+++ R + A + K + M L +GL
Sbjct: 201 -STPLLIWALLAGPVLGVVAAGFRRLSQAARA----KRPKG---KRILWQMPLAFLVIGL 252
Query: 403 IALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLVGGYYAP 462
+++ FP+IL G + + LT +LL L+ KIVAT L +G GG P
Sbjct: 253 LSIFFPQILGNGRALAQLAFST-----TLTLSLLLILLVLKIVATLLALRAGAYGGLLTP 307
Query: 463 SLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGVCQVPLTSV 522
SL +GA G G N + S A+ L+G AA LA + PLT++
Sbjct: 308 SLALGALLGALLGIVWNALLPP------------LSIAAFALIGAAAFLAATQKAPLTAL 355
Query: 523 LLLFELT-QDYRIVLPLLGAVGLS 545
+L+ E T Q+ ++PL+ AV +
Sbjct: 356 ILVLEFTRQNPLFLIPLMLAVAGA 379
>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 = 105 bits (264), Expect = 4e-24
Identities = 85/353 (24%), Positives = 136/353 (38%), Gaps = 56/353 (15%)
Query: 219 FQPLLKAVAACI-TLGTGNSLGPEGPSVEIGKSIAKGVG-----------NLFD--RRPR 264
+ L+ +CI + +G LG EGP V +G I G+ +LF R PR
Sbjct: 85 IRTLIAKTISCICAVASGLPLGKEGPLVHLGAMIGAGLLQGRSRTLGCHVHLFQLFRNPR 144
Query: 265 RKVSLVAAGSAAGISSGFNAAVAGCFFAVE--SVIWPSSAADSSASLAYTTSMVILSAVI 322
+ + AG+AAG++S F A + G F +E S +P A A S ++
Sbjct: 145 DRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVSTFFPVRLAWRVF-FAALVSAFVIQIYN 203
Query: 323 ASVVSEVGLGSEPAFKVPEYDFRSPGELPLYL-------LLGVLCGLISLTLSRCTTYML 375
+ L A + +PL L ++GV+CGL++ R + L
Sbjct: 204 SFNSGFELLDRSSAMFL--SLTVFELHVPLNLYEFIPTVVIGVICGLLAALFVRLSIIFL 261
Query: 376 A-IVDNLQKDNGIPKAVFPVMGGLAVGLIALMFPEILYWGFENVDILLESRPFVKGLTAD 434
L + + + PV L L++ I Y
Sbjct: 262 RWRRRLLFRKTARYRVLEPV-------LFTLIYSTIHYAP-------------------- 294
Query: 435 MLLQLVAAKIVATSLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSIL 494
LL + ++L + GG + PSL IGAA G G ++ S
Sbjct: 295 TLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRIAVAGIGAE--SAT 352
Query: 495 EVASPQAYGLVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSW 547
A P Y L+G AA L G ++ + +++ ELT D +LPL+ A+ ++
Sbjct: 353 LWADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAILIAKA 405
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 102 bits (257), Expect = 3e-23
Identities = 99/377 (26%), Positives = 174/377 (46%), Gaps = 59/377 (15%)
Query: 208 PTIYYDYLKIAFQ-----PLLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLFDRR 262
PT Y + L+ Q L+K++A+ + + +G+++G EG + +A + F +R
Sbjct: 82 PTDYMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMI----LLAALAASCFAQR 137
Query: 263 --PRRKVSL-VAAGSAAGISSGFNAAVAGCFFAVESVIWPSSAADSSASLAYTTSM---- 315
PR++ L +A G+AAG++S ++A +AG F E + + T M
Sbjct: 138 FTPRQEWKLWIACGAAAGMASAYHAPLAGSLFIAE--------------ILFGTLMLASL 183
Query: 316 --VILSAVIASVVSEV-GLGSEPAFKVPEYDFRSPGELPLYLLLGVLCGLISLTLSRCTT 372
V++SAV+A + + + + V + L + G+L GL C
Sbjct: 184 GPVVISAVVALLTTNLLNGSDALLYNVQLSVTVQARDYALIISTGLLAGL-------CGP 236
Query: 373 YMLAIVDNLQKDNGIPKAVFP---VMGGLAVGLIALMFPEILYWGFENVDILLESRPFVK 429
+L +++ + K P +GGL VGL++L P + G+ V L + P +
Sbjct: 237 LLLTLMNASHRGFVSLKLAPPWQLALGGLIVGLLSLFTPAVWGNGYSVVQSFLTAPPLLM 296
Query: 430 GLTADMLLQLVAAKIVATSLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTI 489
+ L +L+A ++A+S SG GG + P+LF+G A GM YG+ + +
Sbjct: 297 LIAGIFLCKLLA--VLASS---GSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEI- 350
Query: 490 HFSILEVASPQAYGLVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSWFT 549
++L GL GMA LA P+ S L++ E+T +Y+++ LL A ++S
Sbjct: 351 --TLL-------LGLTGMATLLAATTHAPIMSTLMICEMTGEYQLLPGLLIACVIAS-VI 400
Query: 550 SGQMRRRDVKETKVAVH 566
S +RR + A H
Sbjct: 401 SRTLRRDSIYRQHTAEH 417
>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 = 98.4 bits (246), Expect = 1e-21
Identities = 89/366 (24%), Positives = 147/366 (40%), Gaps = 63/366 (17%)
Query: 222 LLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNLF---DRRPRRKVSLVAAGSAAGI 278
L+K+V + + +G SLG EGP V I + + LF R ++ +++A +AAG+
Sbjct: 80 LIKSVGLVLAVASGLSLGKEGPLVHIATCVGNIISRLFPKYRRNEAKRREILSAAAAAGV 139
Query: 279 SSGFNAAVAGCFFAVESV--------IWPS--SAADSSASLA----YTTSMVILSAVIAS 324
+ F A + G F++E V +W S A ++ +L + T ++L V
Sbjct: 140 AVAFGAPIGGVLFSLEEVSYYFPLKTLWRSFFCALVAAFTLKSLNPFGTGRLVLFEV--- 196
Query: 325 VVSEVGLGSEPAFKVPEYDFR-SPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDN-LQ 382
EYD EL ++LLG+ GL + L
Sbjct: 197 ----------------EYDRDWHYFELIPFILLGIFGGLYGAFFIKANIKWARFRKKSLL 240
Query: 383 KDNGIPKAVFPVMGGLAVGLIALMFP-------EILYW------GFENVDILLESRPFVK 429
K + + + L LI+ P E+L ++ + P
Sbjct: 241 KRYPVLEVLLVA---LITALISFPNPYTRLDMTELLELLFNECEPGDDNSLCCYRDPPAG 297
Query: 430 GLTADMLLQLVAA---KIVATSLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSN 486
L L+ A K++ T + G + PS+ +GA G G + +A S
Sbjct: 298 DGVYKALWSLLLALIIKLLLTIFTFGIKVPAGIFVPSMAVGALFGRIVGILVE-QLAYSY 356
Query: 487 PTIHFSILEVA-----SPQAYGLVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPLLGA 541
P F A +P Y +VG AA L GV ++ ++ V+++FELT +LPL+ A
Sbjct: 357 PDSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNYILPLMIA 416
Query: 542 VGLSSW 547
V +S W
Sbjct: 417 VMVSKW 422
>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 = 86.5 bits (215), Expect = 7e-18
Identities = 74/338 (21%), Positives = 124/338 (36%), Gaps = 52/338 (15%)
Query: 224 KAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGNL------FDRRPRRKVSLVAAGSAAG 277
K + LG+G LG EGP V I +A + L R++ ++AA A G
Sbjct: 99 KVIGLTCALGSGLPLGKEGPFVHISSIVAALLSKLTTFFSGIYENESRRMEMLAAACAVG 158
Query: 278 ISSGFNAAVAGCFFAVESV--------IWPSSAADSSASLAYTTSMVILSAVIASVVSEV 329
++ F A + G F++E W A T + +
Sbjct: 159 VACTFGAPIGGVLFSIEVTSTYFAVRNYWR-------GFFAATCGAFTFRLLAVFFSDQE 211
Query: 330 GLGSEPAFKVPEYDFRSPG--ELPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGI 387
+ + FK + ELP++ LLG++CGL+ ++ + +
Sbjct: 212 TITA--LFKTTFFVDFPFDVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKF 269
Query: 388 PKAVFPVMGGLAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVAT 447
K + ++AL+ + + PF+ L + K V T
Sbjct: 270 LKRSPLLY----PAIVALLTAVLTF-------------PFL------TLFLFIVVKFVLT 306
Query: 448 SLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGM 507
+L + G + P IGAA G G+ + + I I P Y +VG
Sbjct: 307 ALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEG---IRGGISNPIGPGGYAVVGA 363
Query: 508 AATLAGVCQVPLTSVLLLFELTQDYRIVLPLLGAVGLS 545
AA V ++ +++FELT +LP+L AV +S
Sbjct: 364 AAFSGAVTHT-VSVAVIIFELTGQISHLLPVLIAVLIS 400
>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 = 70.5 bits (173), Expect = 1e-14
Identities = 37/126 (29%), Positives = 61/126 (48%), Gaps = 15/126 (11%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
VTV + EAL LML S +VD+D L+G++T D+ A A+
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDL----LRALAEGGLDP 56
Query: 692 KLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
+ V ++ + D T +P+ +L A LM +G+ ++PVV + G+LVG++
Sbjct: 57 LVTVGDVMTRD------VVTVSPDTSLEEAAELMLEHGIRRLPVVDDE-----GRLVGIV 105
Query: 752 DRESII 757
R I+
Sbjct: 106 TRSDIL 111
Score = 50.5 bits (121), Expect = 1e-07
Identities = 23/62 (37%), Positives = 30/62 (48%)
Query: 615 LEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLG 674
L L V V +VM VTV T L EA LML +VD++ L+G++T
Sbjct: 49 LAEGGLDPLVTVGDVMTRDVVTVSPDTSLEEAAELMLEHGIRRLPVVDDEGRLVGIVTRS 108
Query: 675 DI 676
DI
Sbjct: 109 DI 110
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 60.6 bits (147), Expect = 4e-11
Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 17/133 (12%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQA 685
V ++M +TV T + +AL LM S A+ V +D L+G++T DI
Sbjct: 1 VKDIMTKDVITVKPDTSVRDALLLMSENGVS-AVPVVDDGKLVGIITERDILRAL----- 54
Query: 686 KTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILM-DRYGVNQVPVVMEHIPGQR 744
+ L V E+ + T P+ L AL LM +R+ + ++PVV +
Sbjct: 55 AAGGKRLLPVKEVMTKP------VVTVDPDTPLEEALELMVERHKIRRLPVVDD----DG 104
Query: 745 GQLVGLLDRESII 757
G+LVG++ I+
Sbjct: 105 GKLVGIITLSDIL 117
Score = 40.1 bits (94), Expect = 6e-04
Identities = 25/62 (40%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 617 VEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQ-SCAMIVDNDNI-LIGLLTLG 674
KR + V EVM VTV T L EAL LM+ + +VD+D L+G++TL
Sbjct: 55 AAGGKRLLPVKEVMTKPVVTVDPDTPLEEALELMVERHKIRRLPVVDDDGGKLVGIITLS 114
Query: 675 DI 676
DI
Sbjct: 115 DI 116
>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 = 65.4 bits (160), Expect = 4e-11
Identities = 86/349 (24%), Positives = 139/349 (39%), Gaps = 64/349 (18%)
Query: 222 LLKAVAACITLGTGNSLGPEGPSVEIGKSIAKGVGN------LFD-------RRPRRKVS 268
L+K V +++ G +LG EGP + IG IA G+ D R R K
Sbjct: 130 LVKIVGVILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRYFRNDRDKRD 189
Query: 269 LVAAGSAAGISSGFNAAVAGCFFAVESVI-WPSSAAD-----SSASLAYTTSMVILSAVI 322
V G+AAG+++ F A V G F++E V + + A SS + +T + LS
Sbjct: 190 FVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTLN-FFLSGCN 248
Query: 323 ASVVSEVGLGSEPAFKV--PEYDFRSPGELPLYLLLGVLCGLISLTLSRCTTYMLAIVDN 380
+ G G F +Y + EL ++L+GV+ GL L ++ V
Sbjct: 249 SGKCGLFGPGGLIMFDGSSTKYLYTYF-ELIPFMLIGVIGGL----LGALFNHLNHKVTR 303
Query: 381 LQKDNGIPKAVFPVMGGLAVGLI--ALMFPEILYWGFENVDILLESRPFVKGLTADMLLQ 438
+K + V+ L V L+ + FP+ L F +L
Sbjct: 304 FRKRINHKGKLLKVLEALLVSLVTSVVAFPQTL-LIF-------------------FVLY 343
Query: 439 LVAAKIVATSLCRASGLVGGYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVAS 498
A + SGL + P + IGA AYG+ I +
Sbjct: 344 YFLA-CWTFGIAVPSGL----FIPMILIGA----AYGRL--VGILLG----SYFGFTSID 388
Query: 499 PQAYGLVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSW 547
P Y L+G AA L GV ++ ++ ++L ELT + + P++ + ++ W
Sbjct: 389 PGLYALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKW 437
>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 = 69/311 (22%), Positives = 111/311 (35%), Gaps = 68/311 (21%)
Query: 235 GNSLGPEGPSVEIGKSIAKGVGNLFDRRPRRKVSLVAAGSAAGISSGFNAAVAGCFFAVE 294
G S G EG +V++G S+A G +F + L+ AG AAG ++ F +AG FA+E
Sbjct: 92 GGSAGREGTAVQMGGSLADAFGRVFKLPEEDRRILLIAGIAAGFAAVFGTPLAGAIFALE 151
Query: 295 ---------SVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPEYDFR 345
S + P A A++A VS A + +
Sbjct: 152 VLVLGRLRYSALIPCLVA----------------AIVADWVSH-------ALGLEHTHYH 188
Query: 346 SPGELPL-------YLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVF-PVMGG 397
L +L G++ GL + ++ ++ I P +GG
Sbjct: 189 IVFIPTLDPLLFVKVILAGIIFGLAGRLFAELLHFLKKLLKKR-----IKNPYLRPFVGG 243
Query: 398 LAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLVG 457
L + L+ + Y G + L F G + K++ T + +G G
Sbjct: 244 LLIILLVYLLGSRRYLG---LGTPLIEDSFFGG---TVYPYDWLLKLIFTVITLGAGFKG 297
Query: 458 GYYAPSLFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGVCQV 517
G P FIGA G A P + + +A+ +G A AG
Sbjct: 298 GEVTPLFFIGATLGNALA-----------PILGLPVSLLAA------LGFVAVFAGATNT 340
Query: 518 PLTSVLLLFEL 528
PL +++ EL
Sbjct: 341 PLACIIMGIEL 351
>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 = 56.6 bits (137), Expect = 8e-10
Identities = 38/120 (31%), Positives = 59/120 (49%), Gaps = 13/120 (10%)
Query: 640 TTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMC 699
TT L EA ++ K A++VD D ++G++TL D+ A + V E+
Sbjct: 9 TTPLREAAEQLIESKHGSALVVDRDGGVVGIITLPDLLR----ALEADEAGEPSAVDEVA 64
Query: 700 SADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
+ + T P+ L AL M G+ Q+PVV P GQ++GLL RE+++LA
Sbjct: 65 TPP-----LL-TVHPDEPLAHALDRMASRGLRQLPVVDRGNP---GQVLGLLTRENVLLA 115
>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 = 56.2 bits (136), Expect = 2e-09
Identities = 31/139 (22%), Positives = 57/139 (41%), Gaps = 28/139 (20%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-------------EEFSK 681
+TV L + + ++L K S +VDN+ ++G+++ GD+
Sbjct: 4 ITVKKDDTLRDVVEILLTGKISGVPVVDNEGRVVGIVSEGDLIRKIYKGKGLFYVTLLYS 63
Query: 682 YAQAKTSRSKKLL---VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVME 738
S+ KKLL V E+ + T + + +M + + ++PVV
Sbjct: 64 VIFLDESKIKKLLGKKVEEIMTKK------VITVDEDTTIEDVARIMSKKNIKRLPVV-- 115
Query: 739 HIPGQRGQLVGLLDRESII 757
G+LVG++ R II
Sbjct: 116 ----DDGKLVGIISRGDII 130
Score = 29.2 bits (66), Expect = 4.0
Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 610 IDDWNLEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIG 669
I ++++L + V E+M + +TV T + + +M + +VD D L+G
Sbjct: 65 IFLDESKIKKLLGKK-VEEIMTKKVITVDEDTTIEDVARIMSKKNIKRLPVVD-DGKLVG 122
Query: 670 LLTLGDI 676
+++ GDI
Sbjct: 123 IISRGDI 129
>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 = 53.3 bits (129), Expect = 2e-09
Identities = 21/51 (41%), Positives = 28/51 (54%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V ++M VTV T L EAL LM S +VD D L+G++TL D+
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDL 51
Score = 37.1 bits (87), Expect = 0.001
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
T P+ +L AL LM G++++PVV E G+LVG++ ++ A
Sbjct: 9 VVTVPPDTSLEEALELMRENGISRLPVVDED-----GKLVGIVTLRDLLRA 54
>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 = 54.9 bits (133), Expect = 3e-09
Identities = 40/121 (33%), Positives = 59/121 (48%), Gaps = 15/121 (12%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T+ TV TT + EA LM ++ SC +++D + L+G+ T DI AQ S
Sbjct: 1 TKPATVSPTTTVQEAAKLMREKRVSCVLVMDGNK-LVGIFTSKDI-ALRVVAQGLDPES- 57
Query: 692 KLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
LV + + + P AT + +L AL LM + +PVV + GQ+VGLL
Sbjct: 58 -TLVERVMTPN------PVCATSDTPVLEALHLMVQGKFRHLPVVDKS-----GQVVGLL 105
Query: 752 D 752
D
Sbjct: 106 D 106
Score = 35.3 bits (82), Expect = 0.025
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V VM V T ++EAL LM+ K +VD ++GLL + +
Sbjct: 60 VERVMTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKSGQVVGLLDVTKL 110
>gnl|CDD|239977 cd04604, CBS_pair_KpsF_GutQ_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with KpsF/GutQ domains in the API
[A5P (D-arabinose 5-phosphate) isomerase] protein.
These APIs catalyze the conversion of the pentose
pathway intermediate D-ribulose 5-phosphate into A5P, a
precursor of 3-deoxy-D-manno-octulosonate, which is an
integral carbohydrate component of various glycolipids
coating the surface of the outer membrane of
Gram-negative bacteria, including lipopolysaccharide and
many group 2 K-antigen capsules. 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 = 52.5 bits (127), Expect = 2e-08
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 17/117 (14%)
Query: 637 VLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEE-FSKYAQAKTSRSKKLLV 695
V T L +AL M + +VD D L+G+ T GD+ K T V
Sbjct: 7 VSPDTSLKDALLEMSRKGLGMTAVVDEDGRLVGIFTDGDLRRALEKGLDILTLP-----V 61
Query: 696 SEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLD 752
+++ + + P T P+ AL LM+ + +PVV ++ G+ VG+L
Sbjct: 62 ADVMTRN------PKTIDPDALAAEALELMEENKITALPVVDDN-----GRPVGVLH 107
Score = 43.2 bits (103), Expect = 4e-05
Identities = 18/63 (28%), Positives = 30/63 (47%)
Query: 614 NLEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTL 673
LE + V++VM T+ L EAL LM K + +VD++ +G+L +
Sbjct: 49 ALEKGLDILTLPVADVMTRNPKTIDPDALAAEALELMEENKITALPVVDDNGRPVGVLHI 108
Query: 674 GDI 676
D+
Sbjct: 109 HDL 111
>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 = 49.9 bits (120), Expect = 3e-07
Identities = 35/142 (24%), Positives = 57/142 (40%), Gaps = 34/142 (23%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI--------------- 676
T VTV T + EA LML S +VD+D L+G+++ GD+
Sbjct: 2 TDVVTVSPETSVAEAARLMLDNHISGLPVVDDDGRLVGIVSEGDLLRRAELGTERRRARW 61
Query: 677 -----EEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVN 731
A S +K V+++ + T + L LM+ + +
Sbjct: 62 LDLLAGAEELAAAFVRSHGRK--VADVMTRP------VVTVGEDTPLAEVAELMEEHRIK 113
Query: 732 QVPVVMEHIPGQRGQLVGLLDR 753
+VPVV + G+LVG++ R
Sbjct: 114 RVPVV------RGGRLVGIVSR 129
>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 = 48.0 bits (115), Expect = 7e-07
Identities = 35/125 (28%), Positives = 57/125 (45%), Gaps = 19/125 (15%)
Query: 633 RYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKK 692
V V +T + E L LM E+ +VD+ L+G++TL DI A+ +
Sbjct: 4 VTVPVDLT--VDEVLALMFGERHRGYPVVDDGR-LVGIVTLADIRR----VPAEGREATV 56
Query: 693 LLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLD 752
L+ M P TA+P+ L AL M + ++PVV + G+LVG++
Sbjct: 57 LVGDVMTRD-------PVTASPDETLRDALKRMAERDIGRLPVVDD-----SGRLVGIVS 104
Query: 753 RESII 757
R ++
Sbjct: 105 RSDLL 109
Score = 33.0 bits (76), Expect = 0.14
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 2/67 (2%)
Query: 610 IDDWNLEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIG 669
I E E V +VM VT L +AL M +VD+ L+G
Sbjct: 44 IRRVPAEGREATVLV--GDVMTRDPVTASPDETLRDALKRMAERDIGRLPVVDDSGRLVG 101
Query: 670 LLTLGDI 676
+++ D+
Sbjct: 102 IVSRSDL 108
>gnl|CDD|239986 cd04613, CBS_pair_SpoIVFB_EriC_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 114
Score = 46.8 bits (112), Expect = 2e-06
Identities = 32/128 (25%), Positives = 57/128 (44%), Gaps = 14/128 (10%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
VT+ T L E L ++ ++ +VD+D L+G+++L DI E S
Sbjct: 1 RDVVTIPEDTPLNELLDVIAHSPENNFPVVDDDGRLVGIVSLDDIREILF----DPSLYD 56
Query: 692 KLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
++ S++ + P P +L AL + Q+PVV + G+L+G+L
Sbjct: 57 LVVASDIMTKP------PVVVYPEDSLEDALKKFEDSDYEQLPVVDDD----PGKLLGIL 106
Query: 752 DRESIILA 759
R ++ A
Sbjct: 107 SRSDLLSA 114
>gnl|CDD|239995 cd04623, CBS_pair_10, 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 = 45.2 bits (108), Expect = 7e-06
Identities = 33/122 (27%), Positives = 53/122 (43%), Gaps = 18/122 (14%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
+TV + EA LM + ++VD+ L+G+ + DI K A S +
Sbjct: 4 ITVRPDATVAEAAKLMAEKNIGAVVVVDDGGRLVGIFSERDI--VRKVALRGAS-ALDTP 60
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRE 754
VSE+ + + T TP+ + A+ LM +PVV G+LVG++
Sbjct: 61 VSEIMTRN------VITVTPDDTVDEAMALMTERRFRHLPVVDG------GKLVGIV--- 105
Query: 755 SI 756
SI
Sbjct: 106 SI 107
>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 = 45.3 bits (108), Expect = 7e-06
Identities = 22/56 (39%), Positives = 33/56 (58%)
Query: 621 KRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
+R V V+EVM+T +TV T L EA +M+ K C +VD+ L+G++T D
Sbjct: 64 ERDVPVAEVMKTDVLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDF 119
Score = 36.9 bits (86), Expect = 0.007
Identities = 32/128 (25%), Positives = 55/128 (42%), Gaps = 16/128 (12%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-----EEFSKYAQAKTSR 689
VT+ L +A LM + +V+ D L+GLLT D+ S + ++
Sbjct: 4 VTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAALSSLSDNGEESLTK 63
Query: 690 SKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVG 749
+ + V+E+ D T TP+ L A +M + +PVV + +G LVG
Sbjct: 64 ERDVPVAEVMKTD------VLTVTPDTPLREAAEIMVENKIGCLPVVDD-----KGTLVG 112
Query: 750 LLDRESII 757
++ R +
Sbjct: 113 IITRSDFL 120
>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 = 44.9 bits (107), Expect = 8e-06
Identities = 20/97 (20%), Positives = 44/97 (45%), Gaps = 15/97 (15%)
Query: 661 VDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLS 720
VDN+ +G+++L D+ A + ++ ++ M A T +L
Sbjct: 31 VDNEGRYVGIISLADL-----RAIPTSQWAQTTVIQVMTPAAKLV-----TVLSEESLAE 80
Query: 721 ALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
L L++ G++++ VV + GQ++GL+ ++
Sbjct: 81 VLKLLEEQGLDELAVVEDS-----GQVIGLITEADLL 112
Score = 28.0 bits (63), Expect = 7.0
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEF 679
VTVL L E L L+ + +V++ +IGL+T D+
Sbjct: 70 VTVLSEESLAEVLKLLEEQGLDELAVVEDSGQVIGLITEADLLRR 114
>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 = 44.9 bits (107), Expect = 1e-05
Identities = 34/131 (25%), Positives = 53/131 (40%), Gaps = 29/131 (22%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-----------EEFS 680
VT+ TT + EAL LM K +VD + L+G++T D+ E
Sbjct: 1 RDVVTITPTTTIAEALELMREHKIRHLPVVDEEGRLVGIVTDRDLRDASPSPFTTLSEHE 60
Query: 681 KYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHI 740
Y K V E+ + D T P + A +LM + + +PVV
Sbjct: 61 LYLLLKMP------VKEIMTKD------VITVHPLDTVEEAALLMREHRIGCLPVV---- 104
Query: 741 PGQRGQLVGLL 751
+ G+LVG++
Sbjct: 105 --EDGRLVGII 113
Score = 35.7 bits (83), Expect = 0.020
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V E+M +TV + EA LM + C +V++ L+G++T D+
Sbjct: 69 VKEIMTKDVITVHPLDTVEEAALLMREHRIGCLPVVEDGR-LVGIITETDL 118
Score = 31.8 bits (73), Expect = 0.44
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 6/45 (13%)
Query: 711 TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL-DRE 754
T TP + AL LM + + +PVV + G+LVG++ DR+
Sbjct: 5 TITPTTTIAEALELMREHKIRHLPVV-----DEEGRLVGIVTDRD 44
>gnl|CDD|240113 cd04800, CBS_pair_CAP-ED_DUF294_PBI_assoc2, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 44.8 bits (107), Expect = 1e-05
Identities = 34/125 (27%), Positives = 57/125 (45%), Gaps = 33/125 (26%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
VT T + EA LM + S ++VD+ L+G++T D+ R++ +
Sbjct: 4 VTCSPDTTIREAARLMTEHRVSSLLVVDDGR-LVGIVTDRDL------------RNRVVA 50
Query: 695 --------VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQ 746
VSE+ +A P T P+ + AL+LM G++ +PVV G+
Sbjct: 51 EGLDPDTPVSEVMTAP------PITIPPDATVFEALLLMLERGIHHLPVV------DDGR 98
Query: 747 LVGLL 751
LVG++
Sbjct: 99 LVGVI 103
Score = 28.6 bits (65), Expect = 4.2
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
VSEVM +T+ + EAL LML +VD+ L+G+++ D+
Sbjct: 59 VSEVMTAPPITIPPDATVFEALLLMLERGIHHLPVVDDGR-LVGVISATDL 108
>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 = 48.0 bits (115), Expect = 1e-05
Identities = 25/83 (30%), Positives = 34/83 (40%)
Query: 623 RVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKY 682
+V V M VT L EA ++ K IVD+D L+GL+T DIE+ Y
Sbjct: 142 KVSVVMTMTEDLVTAPEGITLEEANEILHEHKIEKLPIVDDDGELVGLITRKDIEKARDY 201
Query: 683 AQAKTSRSKKLLVSEMCSADGET 705
A +LLV +
Sbjct: 202 PNASKDAQGRLLVGAAVGTREDD 224
Score = 34.9 bits (81), Expect = 0.17
Identities = 35/153 (22%), Positives = 61/153 (39%), Gaps = 22/153 (14%)
Query: 610 IDDWNLEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIG 669
I++ EV ++KR T VTV T + EAL L S + ++ +L G
Sbjct: 71 IEEQAEEVRKVKRF---ESGFITDPVTVSPDTTVAEALELKERYGISGVPVTEDGKLLGG 127
Query: 670 LLTLGDIEEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYG 729
L+ + K+ V + D TA + L A ++ +
Sbjct: 128 LVGIRT--------SRDIDFLSKVSVVMTMTED------LVTAPEGITLEEANEILHEHK 173
Query: 730 VNQVPVVMEHIPGQRGQLVGLLDRESIILACRF 762
+ ++P+V + G+LVGL+ R+ I A +
Sbjct: 174 IEKLPIVDD-----DGELVGLITRKDIEKARDY 201
>gnl|CDD|240010 cd04639, CBS_pair_26, 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 = 111
Score = 43.1 bits (102), Expect = 4e-05
Identities = 18/58 (31%), Positives = 25/58 (43%)
Query: 622 RRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEF 679
V VMR + TV + L L LM +VD L+GL+TL ++ E
Sbjct: 54 PDAPVRGVMRRDFPTVSPSATLDAVLRLMQQGGAPAVPVVDGSGRLVGLVTLENVGEL 111
Score = 33.4 bits (77), Expect = 0.085
Identities = 37/125 (29%), Positives = 54/125 (43%), Gaps = 17/125 (13%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T + T+ L +A +LA Q +VD D L+GLLT D+ +A
Sbjct: 1 THFETLSPADTLDDAADALLATTQHEFPVVDGDGHLVGLLTRDDL------IRALAEGGP 54
Query: 692 KLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
V + D P T +P+ L + L LM + G VPVV G+LVGL+
Sbjct: 55 DAPVRGVMRRD-----FP-TVSPSATLDAVLRLMQQGGAPAVPVVDG-----SGRLVGLV 103
Query: 752 DRESI 756
E++
Sbjct: 104 TLENV 108
>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 = 42.9 bits (102), Expect = 4e-05
Identities = 29/132 (21%), Positives = 53/132 (40%), Gaps = 32/132 (24%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
+ V +++AL + ++VD + L+G +T GDI R + LL
Sbjct: 5 LLVSPDASILDALRKIDKNALRIVLVVDENGRLLGTVTDGDI------------R-RALL 51
Query: 695 --------VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQ 746
VSE+ + + P TA + L LM + +P++ E G+
Sbjct: 52 KGLSLDDPVSEVMNRN------PITAKVGSSREEILALMRERSIRHLPILDEE-----GR 100
Query: 747 LVGLLDRESIIL 758
+VGL + ++
Sbjct: 101 VVGLATLDDLLS 112
Score = 35.2 bits (82), Expect = 0.026
Identities = 17/52 (32%), Positives = 25/52 (48%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIE 677
VSEVM +T + + E L LM I+D + ++GL TL D+
Sbjct: 60 VSEVMNRNPITAKVGSSREEILALMRERSIRHLPILDEEGRVVGLATLDDLL 111
>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 = 43.0 bits (102), Expect = 5e-05
Identities = 35/124 (28%), Positives = 60/124 (48%), Gaps = 20/124 (16%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
+TV T L+EAL LM +VD L+G++T D++ S ++A T +L
Sbjct: 4 ITVTPDTSLMEALKLMKENSIRRLPVVDRGK-LVGIVTDRDLKLASP-SKATTLDIWELY 61
Query: 695 -------VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQL 747
VS++ + D P T +P+ ++ A LM ++ +PVV +G+L
Sbjct: 62 YLLSKIKVSDIMTRD------PITVSPDASVEEAAELMLERKISGLPVV-----DDQGRL 110
Query: 748 VGLL 751
VG++
Sbjct: 111 VGII 114
Score = 36.1 bits (84), Expect = 0.015
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 616 EVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGD 675
E+ L ++ VS++M +TV + EA LML K S +VD+ L+G++T D
Sbjct: 59 ELYYLLSKIKVSDIMTRDPITVSPDASVEEAAELMLERKISGLPVVDDQGRLVGIITESD 118
Query: 676 I 676
+
Sbjct: 119 L 119
Score = 33.4 bits (77), Expect = 0.10
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 6/51 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
P T TP+ +L+ AL LM + ++PVV RG+LVG++ + LA
Sbjct: 3 PITVTPDTSLMEALKLMKENSIRRLPVV------DRGKLVGIVTDRDLKLA 47
>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 = 43.1 bits (102), Expect = 5e-05
Identities = 31/125 (24%), Positives = 57/125 (45%), Gaps = 15/125 (12%)
Query: 636 TVLMTTLLIEALTLMLAEKQ-SCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
TV T + +A+ LM + SC ++V+ L+G+ T DI + A K
Sbjct: 5 TVTPDTPVADAIALMSQQGDSSCVLVVEKGR-LLGIFTERDIVRLT--AIGKDLSDLP-- 59
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRE 754
+ E+ + V + ++ +AL L ++ + +PV+ + +GQL+GL+ E
Sbjct: 60 IGEVMTQP----VVTLQESEIQDIFTALSLFRQHQIRHLPVLDD-----QGQLIGLVTAE 110
Query: 755 SIILA 759
SI
Sbjct: 111 SIRQV 115
>gnl|CDD|129488 TIGR00393, kpsF, KpsF/GutQ family protein. This model describes a
number of closely related proteins with the
phosphosugar-binding domain SIS (Sugar ISomerase)
followed by two copies of the CBS (named after
Cystathionine Beta Synthase) domain. One is GutQ, a
protein of the glucitol operon. Another is KpsF, a
virulence factor involved in capsular polysialic acid
biosynthesis in some pathogenic strains of E. coli
[Energy metabolism, Sugars].
Length = 268
Score = 44.4 bits (105), Expect = 1e-04
Identities = 31/135 (22%), Positives = 60/135 (44%), Gaps = 19/135 (14%)
Query: 620 LKRRVF--VSEVMRTRYV-TVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
L R++ V ++M+T + + TT +AL M ++ A++ D +N L+G+ T GD+
Sbjct: 149 LGRKLLVKVKDLMQTTDLPLIAPTTSFKDALLEMSEKRLGSAIVCDENNQLVGVFTDGDL 208
Query: 677 EEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVV 736
+ S + + P T + LL AL ++R + + VV
Sbjct: 209 RRALLGGGSLKSEVRDFMTLG-----------PKTFKLDALLLEALEFLERRKITSLVVV 257
Query: 737 MEHIPGQRGQLVGLL 751
+H +++G+L
Sbjct: 258 DDH-----NKVLGVL 267
>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 = 41.8 bits (99), Expect = 1e-04
Identities = 35/115 (30%), Positives = 59/115 (51%), Gaps = 20/115 (17%)
Query: 643 LIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMCSAD 702
L EA+ LM +K ++VD DN L+G+++L +E+ Y +AK+ + ++ D
Sbjct: 13 LAEAIKLMRDKKVDSLLVVDKDNKLLGIVSLESLEQ--AYKEAKS-------LEDIMLED 63
Query: 703 GETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
T P+ +L L L+ + G VPVV + G+LVGL+ R S++
Sbjct: 64 ------VFTVQPDASLRDVLGLVLKRGPKYVPVV-----DEDGKLVGLITRSSLV 107
Score = 33.7 bits (78), Expect = 0.081
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLT 672
+ ++M TV L + L L+L +VD D L+GL+T
Sbjct: 56 LEDIMLEDVFTVQPDASLRDVLGLVLKRGPKYVPVVDEDGKLVGLIT 102
>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 = 41.0 bits (97), Expect = 2e-04
Identities = 33/129 (25%), Positives = 56/129 (43%), Gaps = 19/129 (14%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T+ +T T L EA + M + S ++VD+ L G++T DI A ++
Sbjct: 1 TQILTCPPDTSLAEAASRMRERRISSIVVVDDGRPL-GIVTERDILRLL--ASGPDLQTP 57
Query: 692 KLLVSEMCSADGETCCVP-CTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGL 750
V E+ S+ P T + +L A LM +G+ + VV G+L+GL
Sbjct: 58 ---VGEVMSS-------PLLTVPADTSLYDARQLMREHGIRHLVVV-----DDDGELLGL 102
Query: 751 LDRESIILA 759
L + ++
Sbjct: 103 LSQTDLLQN 111
Score = 34.5 bits (80), Expect = 0.047
Identities = 19/51 (37%), Positives = 28/51 (54%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V EVM + +TV T L +A LM ++VD+D L+GLL+ D+
Sbjct: 58 VGEVMSSPLLTVPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDL 108
>gnl|CDD|233350 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes IMP dehydrogenase, an enzyme of GMP
biosynthesis. This form contains two CBS domains. This
model describes a rather tightly conserved cluster of
IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 450
Score = 43.9 bits (104), Expect = 3e-04
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 626 VSEVM-RTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQ 684
VSEVM R +TV L EAL ++ + +VD + L+GL+T+ DI + K+
Sbjct: 145 VSEVMTREEVITVPEGIDLEEALKVLHEHRIEKLPVVDKNGELVGLITMKDIVKRRKFPH 204
Query: 685 AKTSRSKKLLV 695
A + +L+V
Sbjct: 205 ASKDENGRLIV 215
Score = 31.2 bits (71), Expect = 2.4
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
P T +P + L LM+R G++ +PVV + + LVG++
Sbjct: 90 PVTISPETTVADVLELMERKGISGIPVVEDGDMTGK--LVGII 130
>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 = 38.6 bits (91), Expect = 3e-04
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
VTV T L EAL L+ +VD + L+G++T DI
Sbjct: 3 VTVSPDTTLEEALELLRENGIRRLPVVDEEGRLVGIVTRRDI 44
Score = 35.2 bits (82), Expect = 0.006
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 711 TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
T +P+ L AL L+ G+ ++PVV + G+LVG++ R II
Sbjct: 4 TVSPDTTLEEALELLRENGIRRLPVV-----DEEGRLVGIVTRRDII 45
>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 = 40.7 bits (96), Expect = 4e-04
Identities = 34/134 (25%), Positives = 55/134 (41%), Gaps = 23/134 (17%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKT------- 687
VTV T L EA L+ + +VD D L+G++T D ++A+
Sbjct: 5 VTVTPDTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRD---LLRHARPDGRRPLRGR 61
Query: 688 --SRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRG 745
R K V ++ S T P+ + + L+ G + VPVV E
Sbjct: 62 LRGRDKPETVGDIMSPP------VVTVRPDTPIAELVPLLADGGHHHVPVVDED-----R 110
Query: 746 QLVGLLDRESIILA 759
+LVG++ + +I A
Sbjct: 111 RLVGIVTQTDLIAA 124
Score = 36.1 bits (84), Expect = 0.013
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 622 RRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
+ V ++M VTV T + E + L+ +VD D L+G++T D+
Sbjct: 67 KPETVGDIMSPPVVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDL 121
>gnl|CDD|240008 cd04637, CBS_pair_24, 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 = 40.4 bits (95), Expect = 4e-04
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 616 EVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGD 675
++ L RR ++M +TV T + EA L+L SC +VD + LIG++T D
Sbjct: 61 DLATLNRRA--HQIMTRDPITVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKD 118
Query: 676 IEEF 679
+ ++
Sbjct: 119 LLKY 122
Score = 28.5 bits (64), Expect = 5.8
Identities = 31/126 (24%), Positives = 56/126 (44%), Gaps = 18/126 (14%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-EEFSKYAQAKTSRS 690
TR VTV M L E + + + ++V DN L+G+++ D + S +
Sbjct: 1 TRVVTVEMDDRLEEVREI-FEKHKFHHLLVVEDNELVGVISDRDYLKAISPFLGTAGETE 59
Query: 691 KKLL-----VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRG 745
K L ++ + D P T +P+ + A L+ ++ +PVV E+ G
Sbjct: 60 KDLATLNRRAHQIMTRD------PITVSPDTPVDEASKLLLENSISCLPVVDEN-----G 108
Query: 746 QLVGLL 751
QL+G++
Sbjct: 109 QLIGII 114
>gnl|CDD|235148 PRK03655, PRK03655, putative ion channel protein; Provisional.
Length = 414
Score = 42.8 bits (101), Expect = 5e-04
Identities = 78/334 (23%), Positives = 134/334 (40%), Gaps = 55/334 (16%)
Query: 226 VAACITLGTGNSLGPEGPSVEIGKSIAKGVGN-LFDRRPRRKVSLVAAGSAAGISSGFNA 284
+A + L G SLGPE P + + ++A +G L R R +++A SA I + F
Sbjct: 105 LALILGLAGGVSLGPEHPIMTVNIALAVAIGARLLPRVNRMDWTILA--SAGTIGALFGT 162
Query: 285 AVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPEYDF 344
VA ++I+ + S+ + L A A ++ GL P F +P
Sbjct: 163 PVAA------ALIFSQTLNGSNEVPLWDRLFAPLMAAAAGALT-TGLFFHPHFSLP---- 211
Query: 345 RSPGELPLY-------LLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIPKAVFPVMGG 397
+ Y +L G + I++ + L + L P V + GG
Sbjct: 212 -----IAHYGQMEMTDILSGAIVAAIAIAAGMVAVWCLPRLHALMHRLKNPVLVLGI-GG 265
Query: 398 LAVGLIALMF-PEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLV 456
+G++ ++ P L+ G + + + + +A L K+ A + ASG
Sbjct: 266 FILGILGVIGGPLTLFKGLDEMQQM----AANQAFSASDYFLLAVVKLAALVVAAASGFR 321
Query: 457 GGYYAPSLFIGAATGM---AYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAG 513
GG P++F+G A G+ A+ + AI S + I+ V + + + MAA +
Sbjct: 322 GGRIFPAVFVGVALGLMLHAHVPAVPAAITVSCAIL--GIVLVVTRDGWLSLFMAAVV-- 377
Query: 514 VCQVPLTSVLLLFELTQDYRIVLPLLGAVGLSSW 547
VP T+ +LPLL V L +W
Sbjct: 378 ---VPDTT-------------LLPLLCIVMLPAW 395
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 42.9 bits (102), Expect = 6e-04
Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 626 VSEVM-RTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQ 684
VSEVM + R VTV T L EAL L+ + +VD++ L GL+T+ DIE+ ++
Sbjct: 149 VSEVMTKERLVTVPEGTTLEEALELLHEHRIEKLPVVDDNGRLKGLITVKDIEKAEEFPN 208
Query: 685 AKTSRSKKLLV 695
A +L V
Sbjct: 209 ACKDEQGRLRV 219
Score = 36.7 bits (86), Expect = 0.047
Identities = 21/43 (48%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
P T TP+ L AL LM RYG++ VPVV E+ G+LVG++
Sbjct: 97 PVTVTPDTTLAEALALMARYGISGVPVVDEN-----GKLVGII 134
Score = 36.3 bits (85), Expect = 0.063
Identities = 41/137 (29%), Positives = 60/137 (43%), Gaps = 26/137 (18%)
Query: 616 EVEELKRRVFVSEV-MRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLG 674
EV ++KR SE + T VTV T L EAL LM S +VD + L+G++T
Sbjct: 82 EVRKVKR----SESGVVTDPVTVTPDTTLAEALALMARYGISGVPVVDENGKLVGIITNR 137
Query: 675 DIEEFSKYAQAKTSRSKKLLVSE-MCSADGETCCVPCTATPNMNLLSALILMDRYGVNQV 733
D+ + +Q VSE M T L AL L+ + + ++
Sbjct: 138 DVRFETDLSQ---------PVSEVMTKER------LVTVPEGTTLEEALELLHEHRIEKL 182
Query: 734 PVVMEHIPGQRGQLVGL 750
PVV ++ G+L GL
Sbjct: 183 PVVDDN-----GRLKGL 194
>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 = 39.2 bits (92), Expect = 0.001
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V +M +T+ + +A LML ++ +VD+D L+G++T D+
Sbjct: 72 VRSIMTRNVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERDL 122
Score = 33.8 bits (78), Expect = 0.093
Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 19/124 (15%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDND-NILIGLLTLGDIEEF--SKYAQAKTSRSK 691
VTV TT ++EA +M+ +VD L+G++T DI ++ K
Sbjct: 4 VTVPPTTPIMEAAKIMVRNGFRRLPVVDEGTGKLVGIITATDILKYLGGGEKFNKIKTGN 63
Query: 692 KLL-----VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQ 746
L V + + + T TP+ ++ A LM V +PVV + G+
Sbjct: 64 GLEAINEPVRSIMTRN------VITITPDDSIKDAAELMLEKRVGGLPVVDDD-----GK 112
Query: 747 LVGL 750
LVG+
Sbjct: 113 LVGI 116
>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 = 38.6 bits (91), Expect = 0.001
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
VS++M T ++V E L +VD + L+G++T+ D+
Sbjct: 55 VSDIMDTDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRLVGIITVDDV 105
Score = 32.1 bits (74), Expect = 0.24
Identities = 22/118 (18%), Positives = 47/118 (39%), Gaps = 26/118 (22%)
Query: 645 EALTLMLAEKQ-----SCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMC 699
EAL + +VD + L+G+++L D+ + + M
Sbjct: 10 EALEYLRRNADDPETIYYIYVVDEEGRLLGVVSLRDL---------LLADPDTPVSDIM- 59
Query: 700 SADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
+T + + + + + L ++Y + +PVV E G+LVG++ + +I
Sbjct: 60 ----DTDVI--SVSADDDQEEVARLFEKYDLLALPVVDEE-----GRLVGIITVDDVI 106
>gnl|CDD|240115 cd04802, CBS_pair_3, 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 = 38.5 bits (90), Expect = 0.002
Identities = 31/123 (25%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
+TV T + EA +M E +IV ++ +G++T D+ K ++ + +++
Sbjct: 4 ITVDPDTTVYEAANIMT-ENNIGRLIVVDNEKPVGIITERDL---VKKVVSRNLKPREVP 59
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRE 754
V E+ S T PN +L A LM ++G+ ++PVV + +LVG++
Sbjct: 60 VGEVMSTP------LITIDPNASLNEAAKLMAKHGIKRLPVVDD------DELVGIVTTT 107
Query: 755 SII 757
I+
Sbjct: 108 DIV 110
Score = 29.3 bits (66), Expect = 2.6
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 622 RRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
R V V EVM T +T+ L EA LM +VD D+ L+G++T DI
Sbjct: 56 REVPVGEVMSTPLITIDPNASLNEAAKLMAKHGIKRLPVVD-DDELVGIVTTTDI 109
>gnl|CDD|240004 cd04633, CBS_pair_20, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 121
Score = 38.4 bits (90), Expect = 0.002
Identities = 28/121 (23%), Positives = 48/121 (39%), Gaps = 19/121 (15%)
Query: 643 LIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI------EEFSKYAQAKTSRSKKLLVS 696
+ A LML S + V L+G++T DI + + R + L VS
Sbjct: 12 VSHARRLMLDHDIS-RLPVIEGGKLVGIVTEKDIADALRSFRPLVRDRHQERRIRNLPVS 70
Query: 697 EMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESI 756
++ + T P+ ++ LM + +PVV G+LVG++ R I
Sbjct: 71 DIMTRP------VITIEPDTSVSDVASLMLENNIGGLPVV------DDGKLVGIVTRTDI 118
Query: 757 I 757
+
Sbjct: 119 L 119
Score = 32.6 bits (75), Expect = 0.20
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 622 RRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
R + VS++M +T+ T + + +LML + V +D L+G++T DI
Sbjct: 65 RNLPVSDIMTRPVITIEPDTSVSDVASLMLENNIG-GLPVVDDGKLVGIVTRTDI 118
>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 = 38.2 bits (90), Expect = 0.002
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 623 RVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V +VM VTV + EA LM + +VD+D L+G+++LGD+
Sbjct: 57 TTTVGDVMTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDDGRLVGIVSLGDL 110
Score = 37.9 bits (89), Expect = 0.003
Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 17/118 (14%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSC-AMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKL 693
VTV + EA LM + A+ V ++ L+G++T DI A+ + +
Sbjct: 4 VTVSPDDTIREAARLM--REHDVGALPVCENDRLVGIVTDRDIV-VRAVAEGRDPDTTT- 59
Query: 694 LVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
V ++ + T T + ++ A LM + V ++PVV G+LVG++
Sbjct: 60 -VGDVMTRGVVTV------TEDDDVDEAARLMREHQVRRLPVV-----DDDGRLVGIV 105
>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 = 37.9 bits (89), Expect = 0.003
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-EE 678
+ +++R + V +T L + L M E+ A++VD GL+TL DI EE
Sbjct: 59 LRDLLR-PPLFVPESTPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDILEE 111
>gnl|CDD|225321 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 40.0 bits (94), Expect = 0.003
Identities = 34/132 (25%), Positives = 59/132 (44%), Gaps = 18/132 (13%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQA 685
V +M + +TV L EA L + A +VD+D I +G++TL DI + A A
Sbjct: 174 VKNLMSKKLITVRPDDTLREAAKLFYEKGIRGAPVVDDDKI-VGIITLSDIAK----AIA 228
Query: 686 KTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRG 745
+ K VS+ + T + ++ A+ LM++ V ++ V G
Sbjct: 229 NGNLDAK--VSDYMRKN------VITINEDEDIYDAIRLMNKNNVGRLLVT-----DSNG 275
Query: 746 QLVGLLDRESII 757
+ VG++ R I+
Sbjct: 276 KPVGIITRTDIL 287
>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 = 37.7 bits (88), Expect = 0.003
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
P TA PN L AL LM + + +PVV + G G++
Sbjct: 68 PVTARPNDPLREALNLMHEHNIRTLPVVDDD-----GTPAGII 105
Score = 32.7 bits (75), Expect = 0.18
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 9/82 (10%)
Query: 597 YAINLCEVESSLCIDDWNLEVEELKRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQS 656
Y + +E + + D + V ++ R + VT L EAL LM
Sbjct: 40 YVLEYLGIEPPILLADVHPRVRDVINR---------KPVTARPNDPLREALNLMHEHNIR 90
Query: 657 CAMIVDNDNILIGLLTLGDIEE 678
+VD+D G++TL D+ E
Sbjct: 91 TLPVVDDDGTPAGIITLLDLAE 112
>gnl|CDD|239998 cd04626, CBS_pair_13, 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 = 111
Score = 37.4 bits (87), Expect = 0.004
Identities = 26/126 (20%), Positives = 51/126 (40%), Gaps = 17/126 (13%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T + T+ + EAL ML + ++ DN+ L G++T DI +
Sbjct: 1 TDFPTIDEDASIREALHEMLKYNTNEIIVKDNEEKLKGVVTFTDILDLD-----LFESFL 55
Query: 692 KLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
+ V + S D + AL +M + ++PVV ++ +L+G++
Sbjct: 56 EKKVFNIVSQD------VFYVNEEDTIDEALDIMREKQIGRLPVVDDN------KLIGVV 103
Query: 752 DRESII 757
+ I+
Sbjct: 104 RTKDIL 109
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 39.8 bits (94), Expect = 0.005
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
P T +P+ +L A LMD V +PVV + G+L+GL+
Sbjct: 78 PVTVSPDTSLKEAWNLMDENNVKTLPVV-----DEEGKLLGLV 115
Score = 36.7 bits (86), Expect = 0.050
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 626 VSEVMRTR-YVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
VS +M T VT L + +ML + +VD D ++G+++ +
Sbjct: 248 VSYIMTTEDLVTFSKDDYLEDVKEVMLKSRYRSYPVVDEDGKVVGVISRYHL 299
Score = 34.8 bits (81), Expect = 0.18
Identities = 17/51 (33%), Positives = 26/51 (50%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V ++ + VTV T L EA LM +VD + L+GL++L D+
Sbjct: 70 VRDLEIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEEGKLLGLVSLSDL 120
>gnl|CDD|239974 cd04601, CBS_pair_IMPDH, This cd contains two tandem repeats of the
cystathionine beta-synthase (CBS pair) domains in the
inosine 5' monophosphate dehydrogenase (IMPDH) protein.
IMPDH is an essential enzyme that catalyzes the first
step unique to GTP synthesis, playing a key role in the
regulation of cell proliferation and differentiation.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 110
Score = 37.1 bits (87), Expect = 0.005
Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 626 VSEVM--RTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEE 678
VSEVM TV T+L EAL L+ K +VD++ L GL+T+ DIE+
Sbjct: 56 VSEVMTPENLLTTVEGTSLE-EALELLHEHKIEKLPVVDDEGKLKGLITVKDIEK 109
Score = 34.4 bits (80), Expect = 0.037
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 5/43 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
P T +P+ + AL LM YG++ +PVV + G+LVG++
Sbjct: 4 PITVSPDATVAEALELMAEYGISGLPVVDDD-----GKLVGIV 41
Score = 34.4 bits (80), Expect = 0.049
Identities = 29/117 (24%), Positives = 48/117 (41%), Gaps = 21/117 (17%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIE-EFSKYAQAKTSRSKKL 693
+TV + EAL LM S +VD+D L+G++T D+ E + +
Sbjct: 5 ITVSPDATVAEALELMAEYGISGLPVVDDDGKLVGIVTNRDLRFETDLDKPVSEVMTPEN 64
Query: 694 LVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGL 750
L+ T +L AL L+ + + ++PVV + G+L GL
Sbjct: 65 LL---------------TTVEGTSLEEALELLHEHKIEKLPVVDDE-----GKLKGL 101
>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 = 36.7 bits (85), Expect = 0.008
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 20/118 (16%)
Query: 649 LMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMCSADGETCCV 708
LML + +V LIG++T DI + +TS + + + V
Sbjct: 18 LMLESGFTGLPVVQKAGELIGIITRRDI---IRAGSVRTSVE-----DQQRTQTKASPTV 69
Query: 709 -------PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
+ TP+ ++ +A+ LM + + ++PVV E + QLVG++DR ++ A
Sbjct: 70 EKIMSTPVYSVTPDDSIATAVELMLEHDIGRLPVVNE-----KDQLVGIVDRHDVLKA 122
>gnl|CDD|240355 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 38.8 bits (91), Expect = 0.010
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 626 VSEVMRTRY-VTVLMTTL-LIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYA 683
VSEVM R + V T + L EA ++ ++ IV+++ L+ L++ D+++ Y
Sbjct: 161 VSEVMTPREKLVVGNTPISLEEANEVLRESRKGKLPIVNDNGELVALVSRSDLKKNRGYP 220
Query: 684 QAKTSRSKKLLV 695
A + +LLV
Sbjct: 221 NASLDSNGQLLV 232
>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 = 36.5 bits (85), Expect = 0.010
Identities = 33/133 (24%), Positives = 61/133 (45%), Gaps = 24/133 (18%)
Query: 632 TRYVTV--LMTTLLIEALTLMLAEKQSCAMIV--DNDNILIGLLTLGDIEEFSKYAQAKT 687
VT+ L T + EAL LM E +++V ++ G++T+ DI K A+
Sbjct: 1 PNVVTIDGLAT--VAEALQLM-KEHGVSSLVVEKRRESDAYGIVTMRDI---LKKVVAEG 54
Query: 688 SRSKKLLVSEMCSADGETCCVPC-TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQ 746
++ V E+ + P + +P+M++ LM+R + + PVV + +
Sbjct: 55 RDPDRVNVYEIMTK-------PLISVSPDMDIKYCARLMERTNIRRAPVV------ENNE 101
Query: 747 LVGLLDRESIILA 759
L+G++ I LA
Sbjct: 102 LIGIISLTDIFLA 114
>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 38.5 bits (90), Expect = 0.013
Identities = 27/110 (24%), Positives = 48/110 (43%), Gaps = 20/110 (18%)
Query: 603 EVESSLCIDDWNLEVE------ELKRRVF---------VSEVMRTRYVTVLMTTLLIEAL 647
E SSL + D + + +L+ RV VSEVM + ++V L EA+
Sbjct: 178 EGVSSLVVLDDSGPLLGIVTRKDLRSRVIADGRSKTQKVSEVMTSPVISVDRGDFLFEAM 237
Query: 648 TLMLAEKQSCAMIVDNDNILIGLLTLGDI----EEFSKYAQAKTSRSKKL 693
+ML + + ++ +G+LTL DI + S + +R+ +
Sbjct: 238 LMMLRNRIKHLPVTEDGQP-LGILTLTDILRLFSQNSIVLVKRIARASSI 286
Score = 38.1 bits (89), Expect = 0.018
Identities = 33/132 (25%), Positives = 56/132 (42%), Gaps = 16/132 (12%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQA 685
V EV VTV + +A M E S +++D+ L+G++T D+ A
Sbjct: 151 VGEVKTLPAVTVSPQASIQDAARKMKDEGVSSLVVLDDSGPLLGIVTRKDLRSRV-IADG 209
Query: 686 KTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRG 745
RSK VSE+ ++ + L A+++M R + +PV + G
Sbjct: 210 ---RSKTQKVSEVMTSP------VISVDRGDFLFEAMLMMLRNRIKHLPVTED------G 254
Query: 746 QLVGLLDRESII 757
Q +G+L I+
Sbjct: 255 QPLGILTLTDIL 266
>gnl|CDD|239988 cd04615, CBS_pair_2, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 35.5 bits (82), Expect = 0.018
Identities = 24/122 (19%), Positives = 53/122 (43%), Gaps = 15/122 (12%)
Query: 636 TVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLLV 695
V++ T + A+ M +VD+ L+G++T + YA ++ K V
Sbjct: 5 CVVLNTDIARAVAEMYTSGSRALPVVDDKKRLVGIITR---YDVLSYA-LESEELKDAKV 60
Query: 696 SEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRES 755
E+ ++ T N ++ A LM ++++PV+ +G++ G++ +
Sbjct: 61 REVMNSP------VITIDANDSIAKARWLMSNNNISRLPVL-----DDKGKVGGIVTEDD 109
Query: 756 II 757
I+
Sbjct: 110 IL 111
>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 = 35.7 bits (83), Expect = 0.018
Identities = 30/118 (25%), Positives = 57/118 (48%), Gaps = 17/118 (14%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
+ V +T + +A LM E + A++V + + +G++T D+ + A
Sbjct: 4 LIVDASTSIRDAARLMR-EHGADALLVRDGDPRLGIVTRTDLLD----AVLLDGLPSSTP 58
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLD 752
V E+ + T P+ L +AL+LM R+ +++V VV E G++VG+L+
Sbjct: 59 VGEIATFP------LITVDPDDFLFNALLLMTRHRIHRV-VVRE-----GGEVVGVLE 104
>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 = 35.4 bits (82), Expect = 0.023
Identities = 27/124 (21%), Positives = 55/124 (44%), Gaps = 20/124 (16%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAK-TSRSKKL 693
+T+ L EA L A +VD+ + +G++TL DI A+ ++ K +
Sbjct: 4 ITLNPNATLREAARLFNTHHIHGAPVVDDGKL-VGIVTLSDIAH--AIARGLELAKVKDV 60
Query: 694 LVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDR 753
+ ++ + D + L A+ LM+++ V ++ V + G+ VG++ R
Sbjct: 61 MTKDVITIDE-----------DEQLYDAIRLMNKHNVGRLIVTDDE-----GRPVGIITR 104
Query: 754 ESII 757
I+
Sbjct: 105 TDIL 108
Score = 32.3 bits (74), Expect = 0.27
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V +VM +T+ L +A+ LM ++ D++ +G++T DI
Sbjct: 57 VKDVMTKDVITIDEDEQLYDAIRLMNKHNVGRLIVTDDEGRPVGIITRTDI 107
>gnl|CDD|239978 cd04605, CBS_pair_MET2_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the MET2 domain. Met2 is a key enzyme in
the biosynthesis of methionine. It encodes a homoserine
transacetylase involved in converting homoserine to
O-acetyl homoserine. 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 = 34.6 bits (80), Expect = 0.038
Identities = 30/122 (24%), Positives = 55/122 (45%), Gaps = 19/122 (15%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
VT+ + EA LM+ E + +VD D L+G++T DI +K K
Sbjct: 5 VTISEDASIKEAAKLMIEENINHLPVVDEDGRLVGIVTSWDI--------SKAVARDKKS 56
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRE 754
V ++ + + T TP+ + A M+R+ ++ +PVV +++G++ E
Sbjct: 57 VEDIMTRNVITA------TPDEPIDVAARKMERHNISALPVVDA-----ENRVIGIITSE 105
Query: 755 SI 756
I
Sbjct: 106 DI 107
>gnl|CDD|240013 cd04642, CBS_pair_29, 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 = 34.2 bits (79), Expect = 0.069
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 634 YVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
+T ++ L E +T ++A K +VD + IG++TL DI
Sbjct: 81 LITCTPSSTLKEVITKLVANKVHRVWVVDEEGKPIGVITLTDI 123
Score = 32.6 bits (75), Expect = 0.20
Identities = 11/46 (23%), Positives = 21/46 (45%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFS 680
V++ +++A LM S +VD LIG ++ D++
Sbjct: 4 VSIDSDERVLDAFKLMRKNNISGLPVVDEKGKLIGNISASDLKGLL 49
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system belong
to the larger ATP-Binding Cassette (ABC) transporter
superfamily. The characteristic feature of these
transporter is the obligatory coupling of ATP hydrolysis
to substrate translocation. The minimal configuration of
bacterial ABC transport system: an ATPase or ATP binding
subunit; An integral membrane protein; a hydrophilic
polypetpide, which likely functions as substrate binding
protein. Functionally, this transport system is involved
in osmoregulation. Under conditions of stress, the
organism recruits these transport system to accumulate
glycine betaine and other solutes which offer
osmo-protection. It has been demonstrated that glycine
betaine uptake is accompanied by symport with sodium
ions. The locus has been named variously as proU or
opuA. A gene library from L.lactis functionally
complements an E.coli proU mutant. The comlementing
locus is similar to a opuA locus in B.sutlis. This
clarifies the differences in nomenclature [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 363
Score = 36.0 bits (83), Expect = 0.075
Identities = 38/149 (25%), Positives = 58/149 (38%), Gaps = 29/149 (19%)
Query: 617 VEELKRRVFVSEVMRTRYVTVLMTTLLI---------EALTLMLAEKQSCAMIVDNDNIL 667
VEE +V +S+V + M T I AL LM E+ +VD N L
Sbjct: 226 VEEFIGKVDLSQVFDAERIAQRMNTGPITKTADKGPRSALQLMRDERVDSLYVVDRQNKL 285
Query: 668 IGLLTLGDIEEFSKYAQAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDR 727
+G++ + I K +R K + ++ D T L + + +
Sbjct: 286 VGVVDVESI---------KQARKKAQGLQDVLIDD------IYTVDAGTLLRETVRKVLK 330
Query: 728 YGVNQVPVVME--HIPG--QRGQLVGLLD 752
G+ +VPVV E + G RG LV L
Sbjct: 331 AGI-KVPVVDEDQRLVGIVTRGSLVDALY 358
>gnl|CDD|225148 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 35.3 bits (82), Expect = 0.11
Identities = 32/134 (23%), Positives = 56/134 (41%), Gaps = 26/134 (19%)
Query: 629 VMRTRYVTVLMTTLLIEALTLM-----LAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYA 683
+M T +VT+ + EAL + AE +VD L+G+++L D+
Sbjct: 137 IMTTEFVTLPEDVTVDEALDRIRERAEDAETIYYLYVVDEKGKLLGVVSLRDLL------ 190
Query: 684 QAKTSRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQ 743
T+ +LL M E V + + + L ++Y + VPVV E
Sbjct: 191 ---TAEPDELLKDLM-----EDDVV--SVLADDDQEEVARLFEKYDLLAVPVVDED---- 236
Query: 744 RGQLVGLLDRESII 757
+L+G++ + II
Sbjct: 237 -NRLIGIITIDDII 249
Score = 30.3 bits (69), Expect = 4.6
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 621 KRRVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
+ + ++M V+VL E L +VD DN LIG++T+ DI
Sbjct: 193 EPDELLKDLMEDDVVSVLADDDQEEVARLFEKYDLLAVPVVDEDNRLIGIITIDDI 248
>gnl|CDD|240000 cd04629, CBS_pair_16, 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 = 32.9 bits (76), Expect = 0.17
Identities = 29/132 (21%), Positives = 54/132 (40%), Gaps = 22/132 (16%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGD----IEEFSKYAQAKT 687
VT + EA+ +L K S +VD++ L+G L+ D + E S +
Sbjct: 1 RNPVTFTPDMSVTEAVEKLLKSKISGGPVVDDNGNLVGFLSEQDCLKQLLESSYHCDG-- 58
Query: 688 SRSKKLLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQL 747
V ++ + + T +P+ +++ LM + + PVV G+L
Sbjct: 59 ----VATVRDIMTTE------VLTVSPDDSIVDLAQLMLKAKPKRYPVV------DDGKL 102
Query: 748 VGLLDRESIILA 759
VG + R ++ A
Sbjct: 103 VGQISRRDVLRA 114
Score = 29.0 bits (66), Expect = 3.4
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V ++M T +TV +++ LML K +VD+ L+G ++ D+
Sbjct: 62 VRDIMTTEVLTVSPDDSIVDLAQLMLKAKPKRYPVVDDGK-LVGQISRRDV 111
>gnl|CDD|239987 cd04614, CBS_pair_1, 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 = 96
Score = 32.3 bits (74), Expect = 0.18
Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 5/58 (8%)
Query: 694 LVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
L + D TAT + M R + Q+P++ + +L+GLL
Sbjct: 36 LSGIITERDLIAKSEVVTATKRTTVSECAQKMKRNRIEQIPIINGN-----DKLIGLL 88
>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 = 32.6 bits (75), Expect = 0.20
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 711 TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDR 753
T P + A L+ RYG +PVV G++VG++ R
Sbjct: 6 TVRPEATIEEARELLLRYGHTALPVVEG------GRVVGIISR 42
>gnl|CDD|225778 COG3238, COG3238, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 150
Score = 33.0 bits (76), Expect = 0.21
Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 8/85 (9%)
Query: 284 AAVAGCFFAVESVIWPSSAADSSASLAYTTSMVILSAVIASVVSEVGLGSEPAFKVPEYD 343
A +AG +++ I + LA +L+++I+ +V V L K
Sbjct: 10 AILAGALLPLQAAI--------NGRLARYLGSPLLASLISFLVGTVLLLILLLIKQGHPG 61
Query: 344 FRSPGELPLYLLLGVLCGLISLTLS 368
+ P + +G L G I +T S
Sbjct: 62 LAAVASAPWWAWIGGLLGAIFVTSS 86
>gnl|CDD|236721 PRK10588, PRK10588, hypothetical protein; Provisional.
Length = 97
Score = 32.0 bits (73), Expect = 0.22
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 18/75 (24%)
Query: 257 NLFDRRPRRKVSLVAAGSAAGISSGFNAAVAGCFFAVESVIW-PSSAADSSASLAYTTSM 315
+ D+RP R +SLV A +AGC F W PS A ++SL +
Sbjct: 10 AVMDKRPLRALSLVMA-----------LLLAGCMF------WDPSRFAAKTSSLEIWHGL 52
Query: 316 VILSAVIASVVSEVG 330
+++ AV A V+ VG
Sbjct: 53 LLMWAVCAGVIHGVG 67
>gnl|CDD|239975 cd04602, CBS_pair_IMPDH_2, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the inosine 5' monophosphate dehydrogenase (IMPDH)
protein. IMPDH is an essential enzyme that catalyzes
the first step unique to GTP synthesis, playing a key
role in the regulation of cell proliferation and
differentiation. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown. Mutations of
conserved residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 114
Score = 32.2 bits (74), Expect = 0.24
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 626 VSEVMRTRYVTVLMTT--LLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIE 677
+SEVM R V V+ T L EA ++ K+ IV++D L+ L+T D++
Sbjct: 59 LSEVMTPREVLVVAPTGITLEEANEILRESKKGKLPIVNDDGELVALVTRSDLK 112
>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 = 32.7 bits (75), Expect = 0.31
Identities = 32/151 (21%), Positives = 62/151 (41%), Gaps = 41/151 (27%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI------------------ 676
+T + +A L+ K S A ++D L+G+++ DI
Sbjct: 4 ITCNADDTISDAARLLRENKISGAPVLDGGK-LVGIVSESDILKLLVTHDPSGNLWLPSP 62
Query: 677 --------EEFSKYAQAKTSRSK--KLLVSEMCSADGETCCVPCTATPNMNLLSALILMD 726
EF + + K + + K+ V ++ + T +P+ ++ A LM
Sbjct: 63 LELIELPLREFINWEETKRALTDAGKMKVRDIMTKK------VITISPDASIEDAAELMV 116
Query: 727 RYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
R+ + ++PVV + G+LVG++ R II
Sbjct: 117 RHKIKRLPVVED------GRLVGIVTRGDII 141
Score = 32.0 bits (73), Expect = 0.53
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 7/68 (10%)
Query: 615 LEVEELKR------RVFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILI 668
+ EE KR ++ V ++M + +T+ + +A LM+ K +V++ L+
Sbjct: 74 INWEETKRALTDAGKMKVRDIMTKKVITISPDASIEDAAELMVRHKIKRLPVVEDGR-LV 132
Query: 669 GLLTLGDI 676
G++T GDI
Sbjct: 133 GIVTRGDI 140
>gnl|CDD|239997 cd04625, CBS_pair_12, 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 = 32.0 bits (73), Expect = 0.32
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 711 TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
T P L A+ M + + VVME RG+LVGLL ++ A
Sbjct: 5 TVAPETLLSEAVATMAEQDLGSL-VVME-----RGELVGLLTFREVLQA 47
>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 = 31.8 bits (73), Expect = 0.36
Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 6/49 (12%)
Query: 711 TATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
+ P+ + A+ M YGV+Q+PVV + G++VG +D ++ A
Sbjct: 5 SVAPDDTVSQAIERMREYGVSQLPVVDD------GRVVGSIDESDLLDA 47
Score = 30.6 bits (70), Expect = 0.81
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
V EVM TV IE L+ +L A++VD +G++T D+
Sbjct: 59 VREVMGEPLPTVDPDAP-IEELSELLDRGNV-AVVVDEGGKFVGIITRADL 107
>gnl|CDD|236927 PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter
MhpT; Provisional.
Length = 406
Score = 33.4 bits (77), Expect = 0.51
Identities = 22/68 (32%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 254 GVGNLFDR-RPRRKVSLVAAGSAA-----GISSGFNAAVAGCFFAVESVIWPSSAADSSA 307
+G L DR RPRR V L+ AG A + F + F A V+ S + A
Sbjct: 274 LIGALMDRLRPRRVVLLIYAGILASLAALAAAPSFAGMLLAGFAAGLFVVGGQSVLYALA 333
Query: 308 SLAYTTSM 315
L Y T +
Sbjct: 334 PLFYPTQV 341
>gnl|CDD|181127 PRK07807, PRK07807, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 479
Score = 33.3 bits (77), Expect = 0.55
Identities = 19/47 (40%), Positives = 26/47 (55%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLT 672
V +VM T VT+ T EA L+ A + A +VD D L+G+LT
Sbjct: 150 VRDVMSTDLVTLPAGTDPREAFDLLEAARVKLAPVVDADGRLVGVLT 196
Score = 29.1 bits (66), Expect = 9.7
Identities = 29/119 (24%), Positives = 48/119 (40%), Gaps = 21/119 (17%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
VT+ + +AL L+ ++VD + +G++T D ++ Q
Sbjct: 100 VTLSPDDTVGDALALLPKRAHGAVVVVDEEGRPVGVVTEADCAGVDRFTQ---------- 149
Query: 695 VSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDR 753
V ++ S D T +P P A L++ V PVV G+LVG+L R
Sbjct: 150 VRDVMSTDLVT--LPAGTDPR----EAFDLLEAARVKLAPVVDAD-----GRLVGVLTR 197
>gnl|CDD|182814 PRK10892, PRK10892, D-arabinose 5-phosphate isomerase; Provisional.
Length = 326
Score = 32.8 bits (75), Expect = 0.66
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 11/65 (16%)
Query: 622 RRVF----------VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLL 671
RRVF +++VM + V L ++AL LM + + ++ D D+ L+G+L
Sbjct: 257 RRVFDMGIDLRQASIADVMTPGGIRVRPGILAVDALNLMQSRHITSVLVADGDH-LLGVL 315
Query: 672 TLGDI 676
+ D+
Sbjct: 316 HMHDL 320
>gnl|CDD|239999 cd04627, CBS_pair_14, 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 = 123
Score = 31.1 bits (71), Expect = 0.68
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
+ +++ LI+AL LM E S +VDN LIG +++ D+
Sbjct: 76 SDVISINGDQPLIDALHLMHNEGISSVAVVDNQGNLIGNISVTDV 120
>gnl|CDD|212031 cd06857, SLC5-6-like_sbd, Solute carrier families 5 and 6-like;
solute binding domain. This superfamily includes the
solute-binding domain of SLC5 proteins (also called the
sodium/glucose cotransporters or solute sodium
symporters), SLC6 proteins (also called the sodium- and
chloride-dependent neurotransmitter transporters or
Na+/Cl--dependent transporters), and
nucleobase-cation-symport-1 (NCS1) transporters. SLC5s
co-transport Na+ with sugars, amino acids, inorganic
ions or vitamins. SLC6s include Na+/Cl--dependent plasma
membrane transporters for the monoamine
neurotransmitters serotonin, dopamine, and
norepinephrine, and the amino acid neurotransmitters
GABA and glycine. NCS1s are essential components of
salvage pathways for nucleobases and related
metabolites; their known substrates include allantoin,
uracil, thiamine, and nicotinamide riboside. Members of
this superfamily are important in human physiology and
disease. They contain a functional core of 10
transmembrane helices (TMs): an inverted structural
repeat, TMs1-5 and TMs6-10; TMs numbered to conform to
the SLC6 Aquifex aeolicus LeuT.
Length = 413
Score = 32.6 bits (74), Expect = 0.80
Identities = 31/152 (20%), Positives = 49/152 (32%), Gaps = 9/152 (5%)
Query: 397 GLAVGLIALMFPEILYWGFENVDILLESRPFVKGLTADMLLQLVAAKIVATSLCRASGLV 456
G+AV + L + YWGF I+ + ++ +V A A + A LV
Sbjct: 188 GIAVAIGGLWVANLYYWGF-IQYIIQRTL--ADKSVSEAQKGIVFA---AFLMLIAPILV 241
Query: 457 GGYYAPS--LFIGAATGMAYGKFINFAIAQSNPTIHFSILEVASPQAYGLVGMAATLAGV 514
G + + + G + A A L + GLV A A V
Sbjct: 242 GLIGIAAYVITSDPQLMASLGNLPSAANADKAYPWLTQFLPGSVGVK-GLVFAALAAAIV 300
Query: 515 CQVPLTSVLLLFELTQDYRIVLPLLGAVGLSS 546
+ LT D V V +++
Sbjct: 301 SSLAAMLNSTATILTMDIYKVFTFKTGVIVTA 332
>gnl|CDD|215154 PLN02274, PLN02274, inosine-5'-monophosphate dehydrogenase.
Length = 505
Score = 32.3 bits (74), Expect = 0.92
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 622 RRVFVSEVMRTR--YVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIE-- 677
R +SEVM + VT L EA ++ K+ +V+ D L+ L+T D++
Sbjct: 161 RETKLSEVMTSDDDLVTAPAGIDLEEAEAVLKDSKKGKLPLVNEDGELVDLVTRTDVKRV 220
Query: 678 -EFSKYAQAKTSRSKKLLV 695
+ K + + KLLV
Sbjct: 221 KGYPKLGKPSVGKDGKLLV 239
>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 = 30.0 bits (68), Expect = 1.3
Identities = 30/131 (22%), Positives = 45/131 (34%), Gaps = 34/131 (25%)
Query: 632 TRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSK 691
T +TV L +AL LM +VD D +G +T
Sbjct: 1 TEPITVRPDDPLSDALGLMDDSDLRALTVVDADGQPLGFVT------------------- 41
Query: 692 KLLVSEMCSADGETCC------VPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRG 745
E A G CC T + + +L L M + ++ +P V E G
Sbjct: 42 ---RREAARASG-GCCGDHAEPFKVTVSVDDDLRIVLSRMFAHDMSWLPCVDED-----G 92
Query: 746 QLVGLLDRESI 756
+ VG + + SI
Sbjct: 93 RYVGEVTQRSI 103
>gnl|CDD|239996 cd04624, CBS_pair_11, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 29.1 bits (66), Expect = 2.6
Identities = 17/42 (40%), Positives = 22/42 (52%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI 676
VTV T + EA LM E ++VD D IG++T DI
Sbjct: 4 VTVDPDTSIREAAKLMAEENVGSVVVVDPDERPIGIVTERDI 45
>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 = 29.3 bits (66), Expect = 2.8
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESII 757
P T +P+ ++ A LM + +VPVV G+LVG++ I+
Sbjct: 62 PPTVSPDDDVKEAAKLMVENNIRRVPVV------DDGKLVGIVTVADIV 104
>gnl|CDD|218069 pfam04404, ERF, ERF superfamily. The DNA single-strand annealing
proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52,
function in RecA-dependent and RecA-independent DNA
recombination pathways. This family includes proteins
related to ERF.
Length = 158
Score = 29.6 bits (67), Expect = 3.4
Identities = 16/42 (38%), Positives = 18/42 (42%), Gaps = 9/42 (21%)
Query: 162 RYALS----LDDDDDDD-----VQQVQDKSYPPPHPQAQAKD 194
RYALS + DDDDD Q + K Q Q KD
Sbjct: 110 RYALSALFGIASDDDDDDNKGNGQSQRPKQKSVTQQQQQLKD 151
>gnl|CDD|153303 cd07619, BAR_Rich2, The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP
interacting with CIP4 homologs protein 2. BAR domains
are dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. RhoGAP interacting with CIP4 homologs protein
2 (Rich2) is a Rho GTPase activating protein that
interacts with CD317, a lipid raft-associated integral
membrane protein. It plays a role in actin cytoskeleton
organization and the maintenance of microvilli in
polarized epithelial cells. Rich2 contains an N-terminal
BAR domain followed by a GAP domain for Rho and Rac
GTPases and a C-terminal proline-rich domain. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 248
Score = 30.4 bits (68), Expect = 3.4
Identities = 35/128 (27%), Positives = 60/128 (46%), Gaps = 19/128 (14%)
Query: 504 LVGMAATLAGVCQVPLTSVLLLFELTQDYRIVLPL--LGAVGLSSWFTSGQMRRRDVKET 561
L+G L G + L L+LFEL + +V PL L V + + Q +R+ +
Sbjct: 78 LLGKMLKLCGETEDKLAQELILFELQIERDVVEPLYVLAEVEIPNI----QKQRKHL--A 131
Query: 562 KVAVHANTNRKRQFEIYTSRTRGLSS--------SDLLAEEEPYAINLCEV-ESSLCIDD 612
K+ + +++R R + +S++ GLSS +D L EE A N E+ L D
Sbjct: 132 KLVLDMDSSRTRWQQ--SSKSSGLSSNLQPTGAKADALREEMEEAANRMEICRDQLSADM 189
Query: 613 WNLEVEEL 620
++ +E+
Sbjct: 190 YSFVAKEI 197
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 30.3 bits (69), Expect = 3.6
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 12/56 (21%)
Query: 624 VFVSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI-EE 678
+FV E + L + L E+ A++VD + GL+TL DI EE
Sbjct: 282 LFVPETLS-----------LSDLLEEFREERTHMAIVVDEYGGVEGLVTLEDIIEE 326
>gnl|CDD|225979 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 30.2 bits (68), Expect = 4.3
Identities = 38/188 (20%), Positives = 77/188 (40%), Gaps = 31/188 (16%)
Query: 584 GLSSSDLLAEEEPYAINLCEVESSLCIDDWNLE--VEELKRRVFV--------SEVMRTR 633
G SS DL A L + +L ID +LE + E + + +++M
Sbjct: 202 GFSSEDLDAA-------LQRLGETLDIDRDDLERLLRETELQALRRRMGELTCADIMSRD 254
Query: 634 YVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKK- 692
VTV T + A L+ + ++D L+G++T D+ + ++ + + R +
Sbjct: 255 VVTVSTDTSIDHARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLKHARPSPFQRLRFLRP 314
Query: 693 -LLVSEMCSADGETCCVPCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLL 751
+ M + T P+ + + + G++ +PV+ G+LVG++
Sbjct: 315 PTVKGIMTTPVV-------TVRPDTPAVELVPRLADEGLHALPVLDAA-----GKLVGIV 362
Query: 752 DRESIILA 759
+ +I A
Sbjct: 363 SQTDLIAA 370
>gnl|CDD|239981 cd04608, CBS_pair_PALP_assoc, 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 = 124
Score = 28.8 bits (65), Expect = 4.5
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVME 738
P T P + A+ ++ G +Q+PVV E
Sbjct: 4 PVTVLPTVTCAEAIEILKEKGFDQLPVVDE 33
>gnl|CDD|131546 TIGR02493, PFLA, pyruvate formate-lyase 1-activating enzyme. An
iron-sulfur protein with a radical-SAM domain
(pfam04055). A single glycine residue in EC 2.3.1.54,
formate C-acetyltransferase (formate-pyruvate lyase), is
oxidized to the corresponding radical by transfer of H
from its CH2 to AdoMet with concomitant cleavage of the
latter. The reaction requires Fe2+. The first stage is
reduction of the AdoMet to give methionine and the
5'-deoxyadenosin-5-yl radical, which then abstracts a
hydrogen radical from the glycine residue [Energy
metabolism, Anaerobic, Protein fate, Protein
modification and repair].
Length = 235
Score = 29.6 bits (67), Expect = 4.7
Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 129 ASWLREKPIPAIWIRVVLVP 148
A +L ++ P IWIR VLVP
Sbjct: 149 AKYLAKRNKP-IWIRYVLVP 167
>gnl|CDD|180442 PRK06175, PRK06175, L-aspartate oxidase; Provisional.
Length = 433
Score = 30.0 bits (68), Expect = 5.3
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 637 VLMTTLLIEALT---LMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQA 685
+ LL + + + E I++NDN IG + L D ++ + Y++
Sbjct: 129 KVEKILLKKVKKRKNITIIENCYLVDIIENDNTCIGAICLKDNKQINIYSKV 180
>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 = 28.4 bits (64), Expect = 5.6
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDI--EEFSKYAQAKTSRSKK 692
+ + T + EAL LM+ ++VD+D+ IG++T D+ EE K Q +
Sbjct: 4 IVIPADTSIDEALELMIKHGVRLLLVVDSDDNFIGVITAVDLLGEEPIKRIQEGGISRSE 63
Query: 693 LLVS 696
L V+
Sbjct: 64 LTVA 67
>gnl|CDD|203106 pfam04854, DUF624, Protein of unknown function, DUF624. This
family includes several uncharacterized bacterial
proteins.
Length = 76
Score = 27.5 bits (62), Expect = 6.0
Identities = 17/75 (22%), Positives = 26/75 (34%), Gaps = 11/75 (14%)
Query: 350 LPLYLLLGVLCGLISLTLSRCTTYMLAIVDNLQKDNGIP---------KAVFPVMGGLAV 400
L L LL L GL + T + A++ + +P K F L +
Sbjct: 4 LNLLWLLFTLAGLPVFGIGPATAALFAVLRKWLRGEDVPLFKTFFQAFKKNFKRANLLGL 63
Query: 401 GLIALMFPEILYWGF 415
L+ + ILY
Sbjct: 64 ILLLIGL--ILYVDL 76
>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 = 28.0 bits (63), Expect = 6.9
Identities = 28/113 (24%), Positives = 45/113 (39%), Gaps = 30/113 (26%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEFSKYAQAKTSRSKKLL 694
V V T + +A+ + E +VD D L+G++ SR K LL
Sbjct: 4 VVVRENTSVYDAIVTLFLEDVGSLFVVDEDGDLVGVV----------------SR-KDLL 46
Query: 695 VSEMCSADGETCCVPC-----------TATPNMNLLSALILMDRYGVNQVPVV 736
+ + AD + VP T TP ++L A + + V+ +PVV
Sbjct: 47 KASIGGADLQK--VPVGVIMTRMPNITTTTPEESVLEAAKKLIEHQVDSLPVV 97
>gnl|CDD|239972 cd04599, CBS_pair_GGDEF_assoc2, 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 = 105
Score = 27.8 bits (62), Expect = 7.2
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 709 PCTATPNMNLLSALILMDRYGVNQVPVVMEHIPGQRGQLVGLLDRESIILA 759
T +P +LL A LM+ + ++PV+ E +LVG++ + +I L
Sbjct: 61 VVTISPEASLLEAKRLMEEKKIERLPVLRE------RKLVGIITKGTIALE 105
Score = 27.8 bits (62), Expect = 7.9
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 626 VSEVMRTRYVTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIE 677
V++ M VT+ L+EA LM +K ++ L+G++T G I
Sbjct: 53 VADAMTREVVTISPEASLLEAKRLMEEKKIERLPVLRERK-LVGIITKGTIA 103
>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 = 28.2 bits (63), Expect = 7.3
Identities = 12/45 (26%), Positives = 24/45 (53%)
Query: 635 VTVLMTTLLIEALTLMLAEKQSCAMIVDNDNILIGLLTLGDIEEF 679
+TV + +A+ ++ S +VD++ L G++T DI +F
Sbjct: 4 ITVREDDSVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDIVDF 48
>gnl|CDD|240014 cd04643, CBS_pair_30, 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 = 116
Score = 27.9 bits (63), Expect = 7.8
Identities = 20/101 (19%), Positives = 42/101 (41%), Gaps = 18/101 (17%)
Query: 660 IVDNDNILIGLLTLGDIEEFSKYAQAKT-SRSKKLLVSEMCSADGETCCVPCTATPNMNL 718
++D + +G ++L DI K + R L V ++ + D + ++
Sbjct: 29 VLDKEGKYVGTISLTDILWKLKGLENLDLERLVDLKVIDVMNTDVPVI------IDDADI 82
Query: 719 LSALILMDRYGVNQ--VPVVMEHIPGQRGQLVGLLDRESII 757
L L+ ++Q +PVV + G +G++ R I+
Sbjct: 83 EEILHLL----IDQPFLPVVDDD-----GIFIGIITRREIL 114
>gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional.
Length = 596
Score = 29.3 bits (65), Expect = 8.1
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 143 RVVLVPACGGFIVSILNQLRYALSLDDDD--DDDVQQV-QDKSYPP-PHPQAQAKDDISV 198
RV L GG I ++ NQL+ +LD D ++ +V +D YPP P +Q +V
Sbjct: 290 RVQLYQVPGGMISNLYNQLKEQNALDKMDAVHKEIPRVRKDLGYPPLVTPTSQVVGTQAV 349
Query: 199 ITVSSTTSLPTI 210
I V + TI
Sbjct: 350 INVLTGERYKTI 361
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
0.321 0.137 0.407
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: 38,925,409
Number of extensions: 3905268
Number of successful extensions: 4004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3867
Number of HSP's successfully gapped: 194
Length of query: 767
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 663
Effective length of database: 6,324,786
Effective search space: 4193333118
Effective search space used: 4193333118
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (27.9 bits)