RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 003966
(783 letters)
>gnl|CDD|239657 cd03685, ClC_6_like, ClC-6-like chloride channel proteins. This CD
includes ClC-6, ClC-7 and ClC-B, C, D in plants.
Proteins in this family are ubiquitous in eukarotes and
their functions are unclear. They are expressed in
intracellular organelles membranes. This family belongs
to the ClC superfamily of chloride ion channels, which
share the unique double-barreled architecture and
voltage-dependent gating mechanism. The gating is
conferred by the permeating anion itself, acting as the
gating charge. ClC chloride ion channel superfamily
perform a variety of functions including cellular
excitability regulation, cell volume regulation,
membrane potential stabilization, acidification of
intracellular organelles, signal transduction, and
transepithelial transport in animals.
Length = 466
Score = 550 bits (1420), Expect = 0.0
Identities = 193/337 (57%), Positives = 244/337 (72%)
Query: 57 ESLDYEINENDLFKHDWRSRSKVQVLQYIFLKWSLACLVGLLTGLIATLINLAVENIAGY 116
ESLDYE+ ENDLF+ +WR R K QVLQY FLKW + L+G+ TGL+A I+LAVEN+AG
Sbjct: 1 ESLDYEVIENDLFREEWRKRKKKQVLQYEFLKWIICLLIGIFTGLVAYFIDLAVENLAGL 60
Query: 117 KLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAVLCVCFAPTAAGPGIPEIKAYLNGVDT 176
K L V ++IEK R FL + G+N +L LVAA+L APTAAG GIPE+K YLNGV
Sbjct: 61 KFLVVKNYIEKGRLFTAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNGVKI 120
Query: 177 PNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRY 236
P++ TL+VKI+G I +V+ GL LGKEGP++HIG+CIA+ L QGG + R+ ++W RY
Sbjct: 121 PHILRLKTLLVKIVGVILSVSGGLALGKEGPMIHIGACIAAGLSQGGSTSLRLDFRWFRY 180
Query: 237 FNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVATWWRSALLWRTFFSTAVVVVVL 296
F NDRD+RD +TCG+++GV AAF APVGGVLFSLEEVA++W AL WRTFFS+ +V L
Sbjct: 181 FRNDRDKRDFVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTL 240
Query: 297 RAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMDIIPVTLIGIIGGILGGLYNHILHK 356
F+ C SGKCGLFG GGLIMFD S+ Y ++IP LIG+IGG+LG L+NH+ HK
Sbjct: 241 NFFLSGCNSGKCGLFGPGGLIMFDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNHLNHK 300
Query: 357 VLRLYNLINQKGKMHKLLLALSVSVFTSVCQYCLPFL 393
V R IN KGK+ K+L AL VS+ TSV + L
Sbjct: 301 VTRFRKRINHKGKLLKVLEALLVSLVTSVVAFPQTLL 337
Score = 218 bits (558), Expect = 3e-63
Identities = 83/127 (65%), Positives = 103/127 (81%), Gaps = 3/127 (2%)
Query: 455 PSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSY---TNIDQGLY 511
P ++LIFF+LY L TFGIAVPSGLF+P+IL+G+AYGRL+G+ +GSY T+ID GLY
Sbjct: 333 PQTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVGILLGSYFGFTSIDPGLY 392
Query: 512 AVLGAASLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGDSFNPSIYEIILE 571
A+LGAA+ + G MRMTVSL VI LELTNNL LP M+VL+IAK VGD FN IY+II++
Sbjct: 393 ALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVLMIAKWVGDYFNEGIYDIIIQ 452
Query: 572 LKGLPFL 578
LKG+PFL
Sbjct: 453 LKGVPFL 459
>gnl|CDD|239656 cd03684, ClC_3_like, ClC-3-like chloride channel proteins. This CD
includes ClC-3, ClC-4, ClC-5 and ClC-Y1. ClC-3 was
initially cloned from rat kidney. Expression of ClC-3
produces outwardly-rectifying Cl currents that are
inhibited by protein kinase C activation. It has been
suggested that ClC-3 may be a ubiquitous
swelling-activated Cl channel that has very similar
characteristics to those of native volume-regulated Cl
currents. The function of ClC-4 is unclear. Studies of
human ClC-4 have revealed that it gives rise to Cl
currents that rapidly activate at positive voltages, and
are sensitive to extracellular pH, with currents
decreasing when pH falls below 6.5. ClC-4 is broadly
distributed, especially in brain and heart. ClC-5 is
predominantly expressed in the kidney, but can be found
in the brain and liver. Mutations in the ClC-5 gene
cause certain hereditary diseases, including Dent's
disease, an X-chromosome linked syndrome characterised
by proteinuria, hypercalciuria, and kidney stones
(nephrolithiasis), leading to progressive renal failure.
These proteins belong to the ClC superfamily of
chloride ion channels, which share the unique
double-barreled architecture and voltage-dependent
gating mechanism. The gating is conferred by the
permeating anion itself, acting as the gating charge.
This domain is found in the eukaryotic halogen ion (Cl-
and I-) channel proteins, that perform a variety of
functions including cell volume regulation, the membrane
potential stabilization, transepithelial chloride
transport and charge compensation necessary for the
acidification of intracellular organelles.
Length = 445
Score = 285 bits (731), Expect = 3e-88
Identities = 156/516 (30%), Positives = 244/516 (47%), Gaps = 104/516 (20%)
Query: 96 GLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQG---FLYFTGVNFLLTLVAAVLC 152
G+ GLIA LI++ ++ K G ++ + + L +A +L
Sbjct: 1 GIAIGLIAGLIDIIASWLSDLKE--------------GYCNYIIYVLLALLFAFIAVLLV 46
Query: 153 VCFAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIG 212
AP AAG GIPEIK L+G G TL++K +G + AVA+GL LGKEGPLVHI
Sbjct: 47 KVVAPYAAGSGIPEIKTILSGFIIRGFLGKWTLLIKSVGLVLAVASGLSLGKEGPLVHIA 106
Query: 213 SCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEE 272
+C+ +++ R+ + +Y N+ RR++++ +++GV AF AP+GGVLFSLEE
Sbjct: 107 TCVGNIIS-------RL---FPKYRRNEAKRREILSAAAAAGVAVAFGAPIGGVLFSLEE 156
Query: 273 VATWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMD 332
V+ ++ LWR+FF V L++ FGTG L++F+V +H +
Sbjct: 157 VSYYFPLKTLWRSFFCALVAAFTLKSL---------NPFGTGRLVLFEV-EYDRDWHYFE 206
Query: 333 IIPVTLIGIIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVCQYCLPF 392
+IP L+GI GG+ G + K R K + +L L V++ T++ + P+
Sbjct: 207 LIPFILLGIFGGLYGAFFIKANIKWARFR--KKSLLKRYPVLEVLLVALITALISFPNPY 264
Query: 393 L------------ADCKACDPSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDA 440
+C+ D + C ++ +G Y L +LLL
Sbjct: 265 TRLDMTELLELLFNECEPGDDN--SLC-------CYRDPPAGDGVYKALWSLLLAL---- 311
Query: 441 VRNIFSSNTPTEFQPSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAM 500
I +L I TFGI VP+G+F+P + +G+ +GR++G+ +
Sbjct: 312 -------------------IIKLLLTI---FTFGIKVPAGIFVPSMAVGALFGRIVGILV 349
Query: 501 GSYTN-----------------IDQGLYAVLGAASLMAGSMRMTVSLCVIFLELTNNLLL 543
I GLYA++GAA+ + G RMTVSL VI ELT L
Sbjct: 350 EQLAYSYPDSIFFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNY 409
Query: 544 LPITMIVLLIAKTVGDSFNP-SIYEIILELKGLPFL 578
+ MI ++++K V D+ IY+ + L G PFL
Sbjct: 410 ILPLMIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 445
>gnl|CDD|238507 cd01036, ClC_euk, Chloride channel, ClC. These domains are found
in the eukaryotic halogen ion (Cl-, Br- and I-) channel
proteins that perform a variety of functions including
cell volume regulation, membrane potential
stabilization, charge compensation necessary for the
acidification of intracellular organelles, signal
transduction and transepithelial transport. They are
also involved in many pathophysiological processes and
are responsible for a number of human diseases. These
proteins belong to the ClC superfamily of chloride ion
channels, which share the unique double-barreled
architecture and voltage-dependent gating mechanism.
The gating is conferred by the permeating anion itself,
acting as the gating charge. Some proteins possess long
C-terminal cytoplasmic regions containing two CBS
(cystathionine beta synthase) domains of putative
regulatory function.
Length = 416
Score = 258 bits (662), Expect = 1e-78
Identities = 108/305 (35%), Positives = 165/305 (54%), Gaps = 10/305 (3%)
Query: 96 GLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAVLCVCF 155
GLL GL+A +++ AVE+ + YL G+L + + +L L+++ +C+ F
Sbjct: 1 GLLMGLVAVVLDYAVESSLDAG--QWLLRRIPGSYLLGYLMWVLWSVVLVLISSGICLYF 58
Query: 156 APTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSCI 215
AP AAG GIPE+ AYLNGV P TLI K I I AVA+GL LGKEGPLVH+G+ I
Sbjct: 59 APQAAGSGIPEVMAYLNGVHLPMYLSIRTLIAKTISCICAVASGLPLGKEGPLVHLGAMI 118
Query: 216 ASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVAT 275
+ L QG + F N RDRRD + G+++GV +AF AP+GG+LF LEEV+T
Sbjct: 119 GAGLLQGRSRTLGCHVHLFQLFRNPRDRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVST 178
Query: 276 WWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMDIIP 335
++ L WR FF+ V V++ + + + + + V + V ++ + IP
Sbjct: 179 FFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSLTVFELHVPLNLYEFIP 238
Query: 336 VTLIGIIGGILGGLY---NHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVCQY---C 389
+IG+I G+L L+ + I + R L+ +K +++L + ++ S Y
Sbjct: 239 TVVIGVICGLLAALFVRLSIIFLRWRR--RLLFRKTARYRVLEPVLFTLIYSTIHYAPTL 296
Query: 390 LPFLA 394
L FL
Sbjct: 297 LLFLL 301
Score = 125 bits (317), Expect = 5e-31
Identities = 47/122 (38%), Positives = 77/122 (63%), Gaps = 11/122 (9%)
Query: 457 SILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAM-----------GSYTN 505
++L+F ++Y + + FGIAVP G F+P +++G+A GRL+G+ + +
Sbjct: 295 TLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRIAVAGIGAESATLW 354
Query: 506 IDQGLYAVLGAASLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGDSFNPSI 565
D G+YA++GAA+ + G+ R+T S+CVI +ELT +L L M+ +LIAK V D+F S+
Sbjct: 355 ADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAILIAKAVADAFCESL 414
Query: 566 YE 567
Y
Sbjct: 415 YH 416
>gnl|CDD|216046 pfam00654, Voltage_CLC, Voltage gated chloride channel. This
family of ion channels contains 10 or 12 transmembrane
helices. Each protein forms a single pore. It has been
shown that some members of this family form homodimers.
In terms of primary structure, they are unrelated to
known cation channels or other types of anion channels.
Three ClC subfamilies are found in animals. ClC-1 is
involved in setting and restoring the resting membrane
potential of skeletal muscle, while other channels play
important parts in solute concentration mechanisms in
the kidney. These proteins contain two pfam00571
domains.
Length = 345
Score = 227 bits (582), Expect = 6e-68
Identities = 115/420 (27%), Positives = 189/420 (45%), Gaps = 79/420 (18%)
Query: 143 LLTLVAAVLCVCFAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDL 202
+ L+A +L F AAG GIPE+ A L+GV P L+VK +G++ + +G L
Sbjct: 1 IGGLLAGLLVKRFPE-AAGSGIPEVIAALHGVKGPLPL--RVLLVKFLGTLLTLGSGGSL 57
Query: 203 GKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAP 262
G+EGP V IG+ I S LG+ L+ NDR R LI G+++G+ AAF AP
Sbjct: 58 GREGPSVQIGAAIGSGLGR-----------RLKLSRNDR--RRLIAAGAAAGIAAAFNAP 104
Query: 263 VGGVLFSLEEVATWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVS 322
+ GVLF+LEE++ + L ++ V +V R LFG L F+V
Sbjct: 105 LAGVLFALEELSRSFSYRALLPVLVASVVAALVSRL-----------LFGNEPL--FEVP 151
Query: 323 NVPVRYHVMDIIPVTLIGIIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVF 382
++P ++++ L+GI+ G+LG L+ +L KV RL+ + + +L +
Sbjct: 152 SLPP-LSLLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKKL---PPILRPALGGLL 207
Query: 383 TSVCQYCLPFLADCKACDPSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDAVR 442
+ LP +L ++
Sbjct: 208 VGLLGLFLP----------------------------------------EVLGGGYGLIQ 227
Query: 443 NIFSSNTPTEFQPSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGS 502
+ + +T + +L+ +L + ++ G P G+F P + +G+A GRLLG+ +
Sbjct: 228 LLLNGSTLS---LLLLLLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLPL 284
Query: 503 Y---TNIDQGLYAVLGAASLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGD 559
G +A+LG A+ +AG R ++ V+ ELT + LL M+ +LIA V
Sbjct: 285 LFPGIAPSPGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVSR 344
Score = 39.8 bits (94), Expect = 0.004
Identities = 37/181 (20%), Positives = 66/181 (36%), Gaps = 22/181 (12%)
Query: 91 LACLVGLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAV 150
L L+G+L GL+ L +LL V + + + + LL + +
Sbjct: 163 LFILLGILCGLLGALFV---------RLLLKVERLFRRLKKLPPILRPALGGLLVGLLGL 213
Query: 151 LCVCFAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVH 210
F P G G I+ LNG + L++K++ + ++ +G G P +
Sbjct: 214 ----FLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLLKLLATALSLGSGAPGGIFAPSLF 269
Query: 211 IGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSL 270
IG+ + LLG P F G ++ + RAP+ ++
Sbjct: 270 IGAALGRLLGLLLPLLFPGIAPSPGAF---------ALLGMAAFLAGVTRAPLTAIVLVF 320
Query: 271 E 271
E
Sbjct: 321 E 321
>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 = 170 bits (434), Expect = 2e-46
Identities = 126/483 (26%), Positives = 207/483 (42%), Gaps = 87/483 (18%)
Query: 95 VGLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAVLCVC 154
+GLL GL+A L L ++ + +L L ++ +L L+A L
Sbjct: 1 IGLLAGLVAVLFRLGIDKLGNLRLSLYDFAANN---PPLLLVLPLISAVLGLLAGWLVKK 57
Query: 155 FAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSC 214
FAP A G GIP+++ L G L VK +G + A+ +GL LG+EGP V IG+
Sbjct: 58 FAPEAKGSGIPQVEGVLAG--LLPPNWWRVLPVKFVGGVLALGSGLSLGREGPSVQIGAA 115
Query: 215 IASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVA 274
I + + W + + +RR LI G+++G+ AAF AP+ GVLF LEE+
Sbjct: 116 IGQGVSK-----------WFK--TSPEERRQLIAAGAAAGLAAAFNAPLAGVLFVLEELR 162
Query: 275 TWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTG-GLIMFDVSNVPVRYHVMDI 333
+ L ++ V R F FG G L + + +P++ + + +
Sbjct: 163 HSFSPLALLTALVASIAADFVSRLF-----------FGLGPVLSIPPLPALPLKSYWLLL 211
Query: 334 IPVTLIGIIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVCQYCLPFL 393
+ +GII G+LG L+N L K LY + + + ++LL + +
Sbjct: 212 L----LGIIAGLLGYLFNRSLLKSQDLYRKLKKLPRELRVLLPGLLIGPLGL-------- 259
Query: 394 ADCKACDPSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDAVRNIFSSNTPTEF 453
PE G GH + ++ N
Sbjct: 260 --------LLPEA--LGG------------GHGL-------------ILSLAGGNFS--- 281
Query: 454 QPSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQGL--- 510
S +L+ F+L I ++++G P G+F P++ +G+ G L G + I
Sbjct: 282 -ISLLLLIFVLRFIFTMLSYGSGAPGGIFAPMLALGALLGLLFGTILVQLGPIPISAPAT 340
Query: 511 YAVLGAASLMAGSMRMTVSLCVIFLELTNNL-LLLPITMIVLLIAKTVGDSFN-PSIYEI 568
+A+ G A+ A +R ++ ++ E+T N LLLP+ M+V L+A V D IYE
Sbjct: 341 FAIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPL-MVVCLVAYLVADLLGGKPIYEA 399
Query: 569 ILE 571
+LE
Sbjct: 400 LLE 402
>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 = 160 bits (406), Expect = 6e-43
Identities = 106/463 (22%), Positives = 188/463 (40%), Gaps = 85/463 (18%)
Query: 96 GLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAVLCVCF 155
G+L+GL A L L +E + + + ++ V L + V
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAGSLSPLYILLVPVIGGLLVGLLVR---L 57
Query: 156 APTAAGPGIPE-IKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSC 214
A G GIPE I+A G +VK + S + +G +G+EGP+V IG+
Sbjct: 58 LGPARGHGIPEVIEAIALG---GGRLPLRVALVKFLASALTLGSGGSVGREGPIVQIGAA 114
Query: 215 IASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVA 274
I S LG+ LR + DRR L+ CG+++G+ AAF AP+ G LF++E +
Sbjct: 115 IGSWLGR-----------RLRL--SRNDRRILVACGAAAGIAAAFNAPLAGALFAIEVLL 161
Query: 275 TWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMDII 334
+ +++ V+L + S LFG F V ++++
Sbjct: 162 ---------GEYSVASLIPVLLASVAAALVSR--LLFGAEPA--FGVPLYDPL-SLLELP 207
Query: 335 PVTLIGIIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVCQYCLPFLA 394
L+G++ G++G L+ +L+K+ RL+ ++ + L + + LP +
Sbjct: 208 LYLLLGLLAGLVGVLFVRLLYKIERLF----RRLPIPPWLRPALGGLLLGLLGLFLPQV- 262
Query: 395 DCKACDPSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDAVRNIFSSNTPTEFQ 454
+G+ L L E
Sbjct: 263 --------------------------LGSGYGAILLAL-----------------AGELS 279
Query: 455 PSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSY---TNIDQGLY 511
+L+ +L + +T G P G+F P + +G+A G G+ + + G Y
Sbjct: 280 LLLLLLLLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPGLVASPGAY 339
Query: 512 AVLGAASLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIA 554
A++G A+L+A +R ++ ++ LELT + LL M+ ++IA
Sbjct: 340 ALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIA 382
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 159 bits (405), Expect = 3e-42
Identities = 122/527 (23%), Positives = 205/527 (38%), Gaps = 94/527 (17%)
Query: 68 LFKHDWRSRSKVQVLQYIFLKWSLACLVGLLTGLIATLINLAVENIAGYKLLAVVSFIEK 127
L + +++L + + +A +G++ GL A ++LA+ LL +
Sbjct: 2 LLRKRRPLARTMRLLIALAVLIGIAAALGVIVGLFAVALDLALL------LLGRLRGGLL 55
Query: 128 DRYLQGFLYFTGVNFLLTLVAAVLCVC----FAPTAAGPGIPEIKAYLNGVDTPNMFGAT 183
+ + + L ++ FAP A G GIP+ L+G
Sbjct: 56 SAAQAPGPWL--LPLVPALGGLLVGALLVYKFAPEARGSGIPQAIEALHGRKGRISP--R 111
Query: 184 TLIVKIIGSIGAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDR 243
L VK++ ++ + +G LG+EGP V IG+ I SLLG + L+ + DR
Sbjct: 112 VLPVKLVATLLTIGSGASLGREGPSVQIGAAIGSLLG-----------RLLKL--SREDR 158
Query: 244 RDLITCGSSSGVCAAFRAPVGGVLFSLEEVA-TWWRSALLWRTFFSTAVVVVVLRAFIEI 302
R L+ G+++G+ AAF AP+ G LF++E + + L + V ++V F
Sbjct: 159 RILLAAGAAAGLAAAFNAPLAGALFAIEVLYGRFLEYRALVPVLVAAVVALLVAGLF--- 215
Query: 303 CTSGKCGLFGTGGLIMFDVSNVPVRYHVMDIIPVTLIGIIGGILGGLYNHILHKVLRLYN 362
G + + P + D++ ++GII G+ G L + +L R +
Sbjct: 216 ----------GGPHFLLPIVTTP-HMSLWDLLLYLVLGIIAGLFGVLLSRLLALSRRFFR 264
Query: 363 LINQKGKMHKLLLALSVSVFTSVCQYCLPFLADCKACDPSFPETCPTNGRSGNFKQFNCP 422
+ + L L V + FPE G Q
Sbjct: 265 RLPLPPLLRPALGGLLVGALGLL-----------------FPEVL---GNGYGLIQLAL- 303
Query: 423 NGHYNDLATLLLTTNDDAVRNIFSSNTPTEFQPSSILIFFILYCILGLITFGIAVPSGLF 482
G L LLL F+L + L+++G P G+F
Sbjct: 304 AGEGGLLVLLLL---------------------------FLLKLLATLLSYGSGAPGGIF 336
Query: 483 LPIILMGSAYGRLLGMAMGSYT---NIDQGLYAVLGAASLMAGSMRMTVSLCVIFLELTN 539
P + +G+A G G +G ++ GL+A+LG A+ +A + R ++ V+ LE+T
Sbjct: 337 APSLFIGAALGLAFGALLGLLFPPSILEPGLFALLGMAAFLAATTRAPLTAIVLVLEMTG 396
Query: 540 NLLLLPITMIVLLIAKTVGDSFNP-SIYEIILELKGLPFLDAHPEPW 585
N LL +I LIA V IY +L +G P L
Sbjct: 397 NYQLLLPLLIACLIAYLVSRLLGGRPIYTQLLARRGAPILREERAEP 443
>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 = 148 bits (376), Expect = 1e-38
Identities = 92/312 (29%), Positives = 143/312 (45%), Gaps = 25/312 (8%)
Query: 89 WSLACLVGLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVA 148
W L+G+L LI+ ++ AVE + + L +L + L L +
Sbjct: 2 WLFLALLGILMALISIAMDFAVEKLLNARRWLYSLL--TGNSLLQYLVWVAYPVALVLFS 59
Query: 149 AVLCVCFAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPL 208
A+ C +P A G GIPE+K L GV P TL+ K+IG A+ +GL LGKEGP
Sbjct: 60 ALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLPLGKEGPF 119
Query: 209 VHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLF 268
VHI S +A+LL ++ + + N+ R +++ + GV F AP+GGVLF
Sbjct: 120 VHISSIVAALLS-------KLTTFFSGIYENESRRMEMLAAACAVGVACTFGAPIGGVLF 172
Query: 269 SLEEVATWWRSALLWRTFFS---TAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVP 325
S+E +T++ WR FF+ A +L F T + P
Sbjct: 173 SIEVTSTYFAVRNYWRGFFAATCGAFTFRLLAVFF------SDQETITALFKTTFFVDFP 226
Query: 326 VRYHVMDIIPVTLIGIIGGILGGLY---NHILHKVLRLYNLINQKGKMHKLLLALSVSVF 382
+ V ++ L+GII G+LG L+ + + + R L ++ K LL V++
Sbjct: 227 --FDVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKFLKRSPLLYPAIVALL 284
Query: 383 TSVCQYCLPFLA 394
T+V + PFL
Sbjct: 285 TAVLTF--PFLT 294
Score = 101 bits (253), Expect = 1e-22
Identities = 47/133 (35%), Positives = 80/133 (60%), Gaps = 13/133 (9%)
Query: 457 SILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLG----------MAMGSYTNI 506
++ +F ++ +L + + VP+G+F+P+ ++G+A GRL+G + G I
Sbjct: 294 TLFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGISNPI 353
Query: 507 DQGLYAVLGAASLMAGSMRMTVSLCVIFLELTNNL-LLLPITMIVLLIAKTVGDSFNPSI 565
G YAV+GAA+ +G++ TVS+ VI ELT + LLP+ +I +LI+ V PSI
Sbjct: 354 GPGGYAVVGAAAF-SGAVTHTVSVAVIIFELTGQISHLLPV-LIAVLISNAVAQFLQPSI 411
Query: 566 YEIILELKGLPFL 578
Y+ I+++K LP+L
Sbjct: 412 YDSIIKIKKLPYL 424
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 137 bits (348), Expect = 9e-35
Identities = 122/492 (24%), Positives = 212/492 (43%), Gaps = 90/492 (18%)
Query: 91 LACLVGLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNFLLTLVAAV 150
+A +VG LTGL+ LAV+ + +L + S D L ++ ++ +L ++
Sbjct: 3 MAAVVGTLTGLVGVAFELAVDWVQNQRLGLLASVA--DNGLLLWIVAFLISAVLAMIGYF 60
Query: 151 LCVCFAPTAAGPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVH 210
L FAP A G GIPEI+ L G+ L VK G +G + +G+ LG+EGP V
Sbjct: 61 LVRRFAPEAGGSGIPEIEGALEGLRPV--RWWRVLPVKFFGGLGTLGSGMVLGREGPTVQ 118
Query: 211 IGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSL 270
+G I ++ R +++ R L+ G+++G+ AAF AP+ G+LF +
Sbjct: 119 MGGNIGRMVL-----------DIFRLRSDEA-RHTLLAAGAAAGLAAAFNAPLAGILFVI 166
Query: 271 EEVATWWRSALL--WRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLI-MFDVSNVPVR 327
EE+ +R +L+ F + +V R F G +I + S P+
Sbjct: 167 EEMRPQFRYSLISIKAVFIGVIMATIVFRLFN-----------GEQAVIEVGKFSAPPL- 214
Query: 328 YHVMDIIPVTLI-GIIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVC 386
+ + + L+ GII GI G L+N +L + L++ ++ K +L+ +V +
Sbjct: 215 ----NTLWLFLLLGIIFGIFGVLFNKLLLRTQDLFDRLHGGNKKRWVLMGGAVGGLCGLL 270
Query: 387 QYCLPFLADCKACDPSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDAVRNIFS 446
P G + + +
Sbjct: 271 GLLAPAAVG-----------------GG-----------------------FNLIPIALA 290
Query: 447 SNTPTEFQPSSILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSY--- 503
N F +L F+ I L+ FG P G+F P++ +G+ G GM +
Sbjct: 291 GN----FSIGMLLFIFVARFITTLLCFGSGAPGGIFAPMLALGTLLGLAFGMVAAALFPQ 346
Query: 504 TNIDQGLYAVLGAASLMAGSMRMTVSLCVIFLELTNN-LLLLPITMIVL---LIAKTVGD 559
+I+ G +A+ G +L A ++R ++ V+ LE+T+N L+LP+ + L L+A+ +G
Sbjct: 347 YHIEPGTFAIAGMGALFAATVRAPLTGIVLVLEMTDNYQLILPLIITCLGATLLAQFLG- 405
Query: 560 SFNPSIYEIILE 571
IY +LE
Sbjct: 406 --GKPIYSALLE 415
>gnl|CDD|239964 cd04591, CBS_pair_EriC_assoc_euk_bac, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
eukaryotes and bacteria. These ion channels are proteins
with a seemingly simple task of allowing the passive
flow of chloride ions across biological membranes.
CIC-type chloride channels come from all kingdoms of
life, have several gene families, and can be gated by
voltage. The members of the CIC-type chloride channel
are double-barreled: two proteins forming homodimers at
a broad interface formed by four helices from each
protein. The two pores are not found at this interface,
but are completely contained within each subunit, as
deduced from the mutational analyses, unlike many other
channels, in which four or five identical or
structurally related subunits jointly form one pore. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Mutations of conserved residues within this domain in
CLC chloride channel family members have been associated
with classic Bartter syndrome, Osteopetrosis, Dent's
disease, idiopathic generalized epilepsy, and myotonia.
Length = 105
Score = 83.5 bits (207), Expect = 3e-19
Identities = 50/168 (29%), Positives = 66/168 (39%), Gaps = 63/168 (37%)
Query: 598 KPPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLA 657
P V+ L V + +L T+HNGFPV+D P L G ILR+ LV+A
Sbjct: 1 VPLVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEESP--------RLVGYILRSQLVVA 52
Query: 658 LKKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYIDLHPLTNTTPYT 717
LK YID +P+T
Sbjct: 53 LKN-------------------------------------------YID------PSPFT 63
Query: 718 VIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAF 765
V S+ K LFR++GLRHLLVV + +VGI+TR+DL
Sbjct: 64 VSPRTSLEKVHQLFRKLGLRHLLVVDE------GRLVGIITRKDLLKA 105
>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 = 89.6 bits (223), Expect = 5e-19
Identities = 61/228 (26%), Positives = 100/228 (43%), Gaps = 33/228 (14%)
Query: 139 GVNFLLTLVAAVLCVC----FAPTAAGPGIPEIKAYL---NGVDTPNMFGATTLIVKIIG 191
+ LLT L F P AAG GIP++ A L + + T + KI+
Sbjct: 27 WLPLLLTPAGFALIAWLTRRFFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGKILL 86
Query: 192 SIGAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGS 251
++ + G +G+EGP V IG+ + +G+ P KW L R LI G
Sbjct: 87 TLLGLLGGASVGREGPSVQIGAAVMLAIGRRLP-----KWGGLS-------ERGLILAGG 134
Query: 252 SSGVCAAFRAPVGGVLFSLEEVATWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLF 311
++G+ AAF P+ G++F++EE++ R F +V+L +G L
Sbjct: 135 AAGLAAAFNTPLAGIVFAIEELS---------RDFELRFSGLVLLAVIA----AGLVSLA 181
Query: 312 GTGGLIMFDVSNVPVRYHVMDIIPVTLIGIIGGILGGLYNHILHKVLR 359
G F V+ V + + V + G++GG+ GGL+ +L +
Sbjct: 182 VLGNYPYFGVAAVALPLG-EAWLLVLVCGVVGGLAGGLFARLLVALSS 228
Score = 40.3 bits (95), Expect = 0.004
Identities = 30/103 (29%), Positives = 53/103 (51%), Gaps = 3/103 (2%)
Query: 461 FFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQGLYAVLGAASLM 520
F +L + L+++ +P GLF P + +G+ G LL +GS + QG +LG A+ +
Sbjct: 286 FGLLKFLATLLSYWSGIPGGLFAPSLAVGAGLGSLLAALLGS---VSQGALVLLGMAAFL 342
Query: 521 AGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGDSFNP 563
AG + ++ VI +E+T + +L + L+A V P
Sbjct: 343 AGVTQAPLTAFVIVMEMTGDQQMLLPLLAAALLASGVSRLVCP 385
>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 = 59.6 bits (145), Expect = 2e-09
Identities = 77/394 (19%), Positives = 136/394 (34%), Gaps = 83/394 (21%)
Query: 161 GPGIPEIKAYLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSCIASLLG 220
G + IK V I+ + I V G LG+E +G+ +A
Sbjct: 64 GKKLVSIK---QAVRGKKRMPFWETIIHAVLQIVTVGLGAPLGREVAPREVGALLAQRFS 120
Query: 221 QGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVATWWRSA 280
WL DRR L+ C + +G+ A + P+ G LF+LE
Sbjct: 121 D-----------WLGL--TVADRRLLVACAAGAGLAAVYNVPLAGALFALE--------- 158
Query: 281 LLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMDIIPVTLIG 340
+L RT +VV + + I + G ++D+ + + ++ I L G
Sbjct: 159 ILLRTISLRSVVAALATSAIAAAVAS----LLKGDHPIYDIPPMQLSTPLL--IWALLAG 212
Query: 341 IIGGILGGLYNHILHKVLRLYNLINQKGKMHKLLLALSVSVFTSVCQYCLPFLADCKACD 400
+ G++ + + KGK L + +
Sbjct: 213 PVLGVVAAGFRRLSQAARAK----RPKGK-RILWQMPLAFLVIGLLSI------------ 255
Query: 401 PSFPETCPTNGRSGNFKQFNCPNGHYNDLATLLLTTNDDAVRNIFSSNTPTEFQPSSILI 460
FP+ NGR+ F+ T S +LI
Sbjct: 256 -FFPQI-LGNGRALAQLAFS------------------------------TTLTLSLLLI 283
Query: 461 FFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQ-GLYAVLGAASL 519
+L + L+ GL P + +G+ G LLG+ + +A++GAA+
Sbjct: 284 LLVLKIVATLLALRAGAYGGLLTPSLALGALLGALLGIVWNALLPPLSIAAFALIGAAAF 343
Query: 520 MAGSMRMTVSLCVIFLELT--NNLLLLPITMIVL 551
+A + + ++ ++ LE T N L L+P+ + V
Sbjct: 344 LAATQKAPLTALILVLEFTRQNPLFLIPLMLAVA 377
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 50.1 bits (120), Expect = 4e-06
Identities = 34/137 (24%), Positives = 61/137 (44%), Gaps = 10/137 (7%)
Query: 471 ITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSY---TNIDQGLYAVLGAASLMAGSMRMT 527
T G G+F P + +G+ G L G+AM + YA++G + +AG+ +
Sbjct: 329 ATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGHTSAPFAYAMVGMGAFLAGATQAP 388
Query: 528 VSLCVIFLELT-NNLLLLPITMIVLLIAKTVGDSFNP-SIYEIILELKGLPFLDAHPEPW 585
+ ++ E+T + ++LP M+ ++A + S+YEI L D
Sbjct: 389 LMAILMIFEMTLSYQVVLP-LMVSCVVAYFTARALGTTSMYEITLRRHQ----DEAERER 443
Query: 586 MRTLTVGELIDAKPPVI 602
+RT + ELI V+
Sbjct: 444 LRTTQMRELIQPAQTVV 460
Score = 42.0 bits (99), Expect = 0.001
Identities = 25/84 (29%), Positives = 45/84 (53%), Gaps = 13/84 (15%)
Query: 190 IGSIGAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITC 249
S+ + +G +G+EGP+V + + ASL+G+ +F+ R R L+ C
Sbjct: 123 ASSLLTIGSGGSIGREGPMVQLAALAASLVGR------------FAHFDPPRLRL-LVAC 169
Query: 250 GSSSGVCAAFRAPVGGVLFSLEEV 273
G+++G+ +A+ AP+ G F E V
Sbjct: 170 GAAAGITSAYNAPIAGAFFVAEIV 193
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 47.8 bits (114), Expect = 1e-05
Identities = 42/182 (23%), Positives = 80/182 (43%), Gaps = 29/182 (15%)
Query: 170 YLNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRI 229
Y+ + T F +VK + S+ V +G +G+EG ++ + + AS Q R
Sbjct: 85 YMEALQTDGQFDYAASLVKSLASLLVVTSGSAIGREGAMILLAALAASCFAQRF--TPRQ 142
Query: 230 KWQ-WLRYFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVATWWRSALLWRTFFS 288
+W+ W I CG+++G+ +A+ AP+ G LF E +L+ T
Sbjct: 143 EWKLW-------------IACGAAAGMASAYHAPLAGSLFIAE---------ILFGTLML 180
Query: 289 TAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDVSNVPVRYHVMDIIPVTLIGIIGGILGG 348
++ VV+ A + + T+ L ++++V + V D + G++ G+ G
Sbjct: 181 ASLGPVVISAVVALLTT---NLLNGSDALLYNV-QLSVTVQARDYALIISTGLLAGLCGP 236
Query: 349 LY 350
L
Sbjct: 237 LL 238
Score = 38.2 bits (89), Expect = 0.015
Identities = 34/118 (28%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 455 PSSILIFFILYCIL--GLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQG--- 509
P +LI I C L L + G P G+F P + +G A G L G ++G + +
Sbjct: 293 PLLMLIAGIFLCKLLAVLASSGSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEITL 352
Query: 510 LYAVLGAASLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGDSFNP-SIY 566
L + G A+L+A + + ++ E+T LLP +I +IA + + SIY
Sbjct: 353 LLGLTGMATLLAATTHAPIMSTLMICEMTGEYQLLPGLLIACVIASVISRTLRRDSIY 410
>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 = 42.4 bits (100), Expect = 8e-05
Identities = 33/164 (20%), Positives = 59/164 (35%), Gaps = 54/164 (32%)
Query: 599 PPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLAL 658
V+T+S + V++ + ++ +G PV+D+ L G++ L+ AL
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDD-----------DGRLVGIVTERDLLRAL 49
Query: 659 KKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYIDLHPLTNTTPYTV 718
EG ++ + + M TV
Sbjct: 50 A----------------------------EGGLDPLVTVGDVM----------TRDVVTV 71
Query: 719 IESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
S+ +A L + G+R L VV + G +VGI+TR D+
Sbjct: 72 SPDTSLEEAAELMLEHGIRRLPVV---DDEGR--LVGIVTRSDI 110
Score = 36.3 bits (84), Expect = 0.012
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAF 765
TV +VA+A+ L + G+ L VV + G +VGI+T +DL
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVV---DDDGR--LVGIVTERDLLRA 48
>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 = 43.3 bits (103), Expect = 4e-04
Identities = 44/161 (27%), Positives = 70/161 (43%), Gaps = 28/161 (17%)
Query: 203 GKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFN-NDRDRRDLITCGSSSGVCAAFRA 261
G+EG V +G +A G R F + DRR L+ G ++G A F
Sbjct: 96 GREGTAVQMGGSLADAFG--------------RVFKLPEEDRRILLIAGIAAGFAAVFGT 141
Query: 262 PVGGVLFSLEEVATWWRSALLWRTFFSTAVVVVVLRAFIEICTSGKCGLFGTGGLIMFDV 321
P+ G +F+LE + L R +S A++ ++ A + S GL T I+F
Sbjct: 142 PLAGAIFALEVLV-------LGRLRYS-ALIPCLVAAIVADWVSHALGLEHTHYHIVFIP 193
Query: 322 SNVPVRYHVMDIIPVTLIGIIGGILGGLYNHILHKVLRLYN 362
+ + + V L GII G+ G L+ +LH + +L
Sbjct: 194 T-----LDPLLFVKVILAGIIFGLAGRLFAELLHFLKKLLK 229
>gnl|CDD|239983 cd04610, CBS_pair_ParBc_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a ParBc (ParB-like nuclease) domain
downstream. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 107
Score = 38.2 bits (89), Expect = 0.002
Identities = 14/33 (42%), Positives = 22/33 (66%)
Query: 601 VITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVV 633
VIT+S V ++ +++ T H+GFPV+D G V
Sbjct: 4 VITVSPDNTVKDVIKLIKETGHDGFPVVDNGKV 36
>gnl|CDD|201313 pfam00571, CBS, CBS domain. CBS domains are small intracellular
modules that pair together to form a stable globular
domain. This family represents a single CBS domain.
Pairs of these domains have been termed a Bateman
domain. CBS domains have been shown to bind ligands with
an adenosyl group such as AMP, ATP and S-AdoMet. CBS
domains are found attached to a wide range of other
protein domains suggesting that CBS domains may play a
regulatory role making proteins sensitive to adenosyl
carrying ligands. The region containing the CBS domains
in Cystathionine-beta synthase is involved in regulation
by S-AdoMet. CBS domain pairs from AMPK bind AMP or ATP.
The CBS domains from IMPDH and the chloride channel CLC2
bind ATP.
Length = 57
Score = 36.0 bits (84), Expect = 0.004
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 712 NTTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLR 763
TV S+ +A+ L R+ G+ L VV + +VGI+T +DL
Sbjct: 6 TPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGK-----LVGIVTLRDLL 52
Score = 27.9 bits (63), Expect = 2.4
Identities = 14/70 (20%), Positives = 32/70 (45%), Gaps = 13/70 (18%)
Query: 591 VGELIDAKPPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLIL 650
V +++ P V+T+ + + ++++R + PV+DE +L G++
Sbjct: 1 VKDIM--TPDVVTVPPDTSLEEALELMRENGISRLPVVDED-----------GKLVGIVT 47
Query: 651 RAHLVLALKK 660
L+ AL +
Sbjct: 48 LRDLLRALLE 57
>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 = 35.6 bits (83), Expect = 0.015
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 10/57 (17%)
Query: 708 HPLTNTTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRA 764
PL TV S+ A L R+ G+RHL+VV + G ++G+L++ DL
Sbjct: 64 SPL-----LTVPADTSLYDARQLMREHGIRHLVVV---DDDGE--LLGLLSQTDLLQ 110
>gnl|CDD|214522 smart00116, CBS, Domain in cystathionine beta-synthase and other
proteins. Domain present in all 3 forms of cellular
life. Present in two copies in inosine monophosphate
dehydrogenase, of which one is disordered in the crystal
structure. A number of disease states are associated
with CBS-containing proteins including homocystinuria,
Becker's and Thomsen disease.
Length = 49
Score = 33.6 bits (78), Expect = 0.018
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 715 PYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
TV ++ +A+ L R+ G+R L VV + G +VGI+TR+D+
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVV---DEEGR--LVGIVTRRDI 44
Score = 27.9 bits (63), Expect = 2.1
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 600 PVITLSGIEKVSQIVDVLRNTTHNGFPVLDE 630
V+T+S + + +++LR PV+DE
Sbjct: 1 DVVTVSPDTTLEEALELLRENGIRRLPVVDE 31
>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 = 35.1 bits (81), Expect = 0.033
Identities = 32/167 (19%), Positives = 61/167 (36%), Gaps = 51/167 (30%)
Query: 599 PPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLAL 658
+T + + VS++ D++ + G PV+ + A EL G+I R ++
Sbjct: 1 REPVTCTPDDPVSKVWDLMLESGFTGLPVVQK-----------AGELIGIITRRDII--- 46
Query: 659 KKKWFLQEKRRTEEWEVREKFSWVELA-EREGKIEEVAVTSEEMEMYIDLHPLTNTTPYT 717
+ V + E + + + A + E M +T Y+
Sbjct: 47 -------------------RAGSVRTSVEDQQRTQTKASPTVEKIM--------STPVYS 79
Query: 718 VIESMSVAKA--MVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
V S+A A ++L +G +P +VGI+ R D+
Sbjct: 80 VTPDDSIATAVELMLEHDIGR-----LPVVNEKDQ--LVGIVDRHDV 119
>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 = 34.1 bits (79), Expect = 0.052
Identities = 31/164 (18%), Positives = 55/164 (33%), Gaps = 56/164 (34%)
Query: 599 PPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLAL 658
P V+T+ V +++ ++ H G+PV+D+G L G++ A +
Sbjct: 1 PDVVTVPVDLTVDEVLALMFGERHRGYPVVDDG------------RLVGIVTLADI---- 44
Query: 659 KKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYIDLHPLTNTTPYTV 718
RR V RE + V + + P T
Sbjct: 45 ---------RR------------VPAEGREATVLVGDVMTRD--------------PVTA 69
Query: 719 IESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
++ A+ + + L VV +VGI++R DL
Sbjct: 70 SPDETLRDALKRMAERDIGRLPVV-----DDSGRLVGIVSRSDL 108
>gnl|CDD|239958 cd04585, CBS_pair_ACT_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin
is a product of fermentative metabolism in many
prokaryotic and eukaryotic microorganisms. They produce
acetoin as an external carbon storage compound and then
later reuse it as a carbon and energy source during
their stationary phase and sporulation. In addition
these CBS domains are associated with a downstream ACT
domain, which is linked to a wide range of metabolic
enzymes that are regulated by amino acid concentration.
Pairs of ACT domains bind specifically to a particular
amino acid leading to regulation of the linked enzyme.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 122
Score = 34.2 bits (79), Expect = 0.057
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 6/51 (11%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLR 763
P TV S+ +A+ L ++ +R L VV + + +VGI+T +DL+
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDRGK------LVGIVTDRDLK 45
>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 = 32.6 bits (75), Expect = 0.16
Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 714 TPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLR 763
P V S S+ A L R+ G LLV P +GI+TR DL
Sbjct: 2 PPLIVDASTSIRDAARLMREHGADALLV------RDGDPRLGIVTRTDLL 45
>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 = 32.1 bits (74), Expect = 0.24
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 715 PYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
P V ES + + R+ +VV +Y G++T +D+
Sbjct: 66 PLFVPESTPLDDLLEEMRKERSHMAIVVDEYGG-----TAGLVTLEDI 108
>gnl|CDD|214589 smart00261, FU, Furin-like repeats.
Length = 45
Score = 30.6 bits (69), Expect = 0.27
Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 9/49 (18%)
Query: 383 TSVCQYCLPFLADCKACDPSFPETCPTNGRSGNFKQFN-----CPNGHY 426
C+ C P C C P+ C T+ + G F CP G Y
Sbjct: 1 DGECKPCHPE---CATCTGPGPDDC-TSCKHGFFLDGGKCVSECPPGTY 45
>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 = 31.9 bits (73), Expect = 0.41
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 717 TVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAF 765
TV+ S+A+ + L + GL L VV E +G V+G++T DL
Sbjct: 71 TVLSEESLAEVLKLLEEQGLDELAVV---EDSGQ--VIGLITEADLLRR 114
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 31.7 bits (72), Expect = 0.41
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 715 PYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAF 765
TV SV A++L + G+ + VV + +VGI+T +D+
Sbjct: 9 VITVKPDTSVRDALLLMSENGVSAVPVVDDGK------LVGIITERDILRA 53
>gnl|CDD|239957 cd04584, CBS_pair_ACT_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin is
a product of fermentative metabolism in many prokaryotic
and eukaryotic microorganisms. They produce acetoin as
an external carbon storage compound and then later reuse
it as a carbon and energy source during their stationary
phase and sporulation. In addition these CBS domains are
associated with a downstream ACT domain, which is linked
to a wide range of metabolic enzymes that are regulated
by amino acid concentration. Pairs of ACT domains bind
specifically to a particular amino acid leading to
regulation of the linked enzyme. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 121
Score = 31.8 bits (73), Expect = 0.46
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLR 763
T+ + ++A+A+ L R+ +RHL VV + G +VGI+T +DLR
Sbjct: 1 RDVVTITPTTTIAEALELMREHKIRHLPVV---DEEGR--LVGIVTDRDLR 46
>gnl|CDD|109527 pfam00474, SSF, Sodium:solute symporter family. Membership of this
family is supported by a significant blast score.
Length = 406
Score = 33.1 bits (76), Expect = 0.53
Identities = 22/131 (16%), Positives = 42/131 (32%), Gaps = 23/131 (17%)
Query: 457 SILIFFILYCILGLI--------TFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQ 508
S+L++F Y + ++ G+ + + L L Y G S+T+ Q
Sbjct: 92 SLLLYFFTYMSVQIVGGARLIELALGLNYYTAVLLLGALTA-IYTFFGGFLAVSWTDTIQ 150
Query: 509 GLYAVLGAASLMAGSMRMTVSLCVIFLELTN--------------NLLLLPITMIVLLIA 554
+ + G LM + ++L P+T + L
Sbjct: 151 AVLMLFGTIILMIIVFHEVGGYSSAVEKYMTADPNGVDLYTPDGLHILRDPLTGLSLWPG 210
Query: 555 KTVGDSFNPSI 565
+G + P I
Sbjct: 211 LVLGTTGLPHI 221
>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 = 31.5 bits (72), Expect = 0.60
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 715 PYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
T+ E S+A A L R+ +RHL VV +VG+LT++DL
Sbjct: 3 VVTLSEDDSLADAEELMREHRIRHLPVV-----NEDGKLVGLLTQRDL 45
>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 = 30.9 bits (71), Expect = 0.62
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
TV E V +A L R+ +R L VV + G +VGI++ DL
Sbjct: 66 RGVVTVTEDDDVDEAARLMREHQVRRLPVV---DDDGR--LVGIVSLGDL 110
>gnl|CDD|239996 cd04624, CBS_pair_11, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 31.0 bits (71), Expect = 0.70
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 717 TVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
TV VA+A L R+ +RH LVV K +VG+++ +DL
Sbjct: 69 TVDPDEPVAEAAKLMRKNNIRHHLVVDKGGE-----LVGVISIRDL 109
>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 = 31.1 bits (71), Expect = 0.79
Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL-RAFNILTAF 771
TV S+ +A L R+ ++ L VV + +VGI+T++DL R
Sbjct: 2 RDVVTVTPDTSLEEAWALLRRHRIKALPVV---DGDRR--LVGIVTQRDLLRHARPDGRR 56
Query: 772 PHLERSKSGQKH 783
P R + K
Sbjct: 57 PLRGRLRGRDKP 68
>gnl|CDD|240113 cd04800, CBS_pair_CAP-ED_DUF294_PBI_assoc2, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 30.5 bits (70), Expect = 0.87
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 715 PYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
P T+ +V +A++L + G+ HL VV +VG+++ DL
Sbjct: 67 PITIPPDATVFEALLLMLERGIHHLPVVDD------GRLVGVISATDL 108
>gnl|CDD|240001 cd04630, CBS_pair_17, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 114
Score = 30.7 bits (70), Expect = 0.96
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 716 YTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
T+ +VA+A+ L ++ G+ L+V + E S GI+T +D+
Sbjct: 4 VTIDGLATVAEALQLMKEHGVSSLVVEKRRE----SDAYGIVTMRDI 46
>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 = 29.8 bits (68), Expect = 1.6
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGV 750
TV +V +AM L + RHL VV + G+
Sbjct: 67 RNVITVTPDDTVDEAMALMTERRFRHLPVVDGGKLVGI 104
>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 31.6 bits (72), Expect = 2.0
Identities = 31/128 (24%), Positives = 47/128 (36%), Gaps = 19/128 (14%)
Query: 654 LVLALKKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYID------L 707
L L K F+Q E E + F LA+R I + E E +
Sbjct: 100 LCYLLPKSVFMQ--LMEENPEFADFFL-RSLAKRLRDIADRLAEQGESEFILTRVGEVKT 156
Query: 708 HPLTNTTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAFNI 767
P +P I A+ M G+ L+V+ P++GI+TR+DLR+ I
Sbjct: 157 LPAVTVSPQASI--QDAARKMKDE---GVSSLVVLDDSG-----PLLGIVTRKDLRSRVI 206
Query: 768 LTAFPHLE 775
+
Sbjct: 207 ADGRSKTQ 214
>gnl|CDD|225321 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 31.2 bits (71), Expect = 2.2
Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 10/63 (15%)
Query: 713 TTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDLRAFNILTAFP 772
T+ E + A+ L + + LLV ++ G VGI+TR D ILT
Sbjct: 242 KNVITINEDEDIYDAIRLMNKNNVGRLLVT---DSNGK--PVGIITRTD-----ILTRIA 291
Query: 773 HLE 775
LE
Sbjct: 292 GLE 294
>gnl|CDD|151203 pfam10710, DUF2512, Protein of unknown function (DUF2512).
Proteins in this family are predicted to be integral
membrane proteins, and many of them are annotated as
being YndM protein. They are all found in Firmicutes.
The true function is not known.
Length = 136
Score = 29.6 bits (67), Expect = 2.6
Identities = 11/35 (31%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 458 ILIFFILYCILGLITFGIAVPSGLFLPIILMGSAY 492
I+ +LY +LGL FG++ L + ++L +Y
Sbjct: 12 IMTLAVLYIVLGLF-FGVSFGDVLLISLVLTLVSY 45
>gnl|CDD|218505 pfam05216, UNC-50, UNC-50 family. Gmh1p from S. cerevisiae is
located in the Golgi membrane and interacts with ARF
exchange factors.
Length = 232
Score = 30.7 bits (70), Expect = 2.7
Identities = 25/109 (22%), Positives = 44/109 (40%), Gaps = 27/109 (24%)
Query: 461 FFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQGLYAV---LGAA 517
FF ++ +L ++ F LP+++ S +G + Y I G Y LG
Sbjct: 141 FFPIFVLLYVLQF-------FLLPLLIRDSFISLFVGNTL--YL-IALGYYFYITFLGYN 190
Query: 518 SLMAGSMRMTVSLCVIFLELTNNLLLLPITMIVLLIAKTVGDSFNPSIY 566
+L FL+ T LL PI ++ +L ++ FN + +
Sbjct: 191 ALP-------------FLKNTQ-FLLYPIPLLFILYLLSLLFGFNVARH 225
>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 = 29.6 bits (67), Expect = 2.8
Identities = 35/164 (21%), Positives = 58/164 (35%), Gaps = 24/164 (14%)
Query: 599 PPVITLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLAL 658
IT + + +S +LR +G PVLD G L + +E IL+ +
Sbjct: 1 KNPITCNADDTISDAARLLRENKISGAPVLDGGK-----LVGIVSE--SDILKLLVTHDP 53
Query: 659 KKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYIDLHPLTNTTPYTV 718
+L E +RE +W E + + M + T+
Sbjct: 54 SGNLWLPSPLELIELPLREFINWEETKR---ALTDAGKMKVRDIMTKKVI--------TI 102
Query: 719 IESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
S+ A L + ++ L VV +VGI+TR D+
Sbjct: 103 SPDASIEDAAELMVRHKIKRLPVVED------GRLVGIVTRGDI 140
>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 = 29.2 bits (66), Expect = 3.0
Identities = 22/86 (25%), Positives = 30/86 (34%), Gaps = 17/86 (19%)
Query: 603 TLSGIEKVSQIVDVLRNTTHNGFPVLDEGVVPPSGLANVATELHGLILRAHLVLALKKKW 662
TLS + + D L TT + FPV+D L GL+ R L+ AL +
Sbjct: 5 TLSPADTLDDAADALLATTQHEFPVVDG-----------DGHLVGLLTRDDLIRALAEG- 52
Query: 663 FLQEKRRTEEWEV-REKFSWVELAER 687
V R F V +
Sbjct: 53 ----GPDAPVRGVMRRDFPTVSPSAT 74
>gnl|CDD|239980 cd04607, CBS_pair_NTP_transferase_assoc, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domain associated with the NTP (Nucleotidyl
transferase) domain downstream. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 113
Score = 29.0 bits (66), Expect = 3.1
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 712 NTTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
N P T S + + L R+ +RHL ++ + G VVG+ T DL
Sbjct: 65 NRNPITAKVGSSREEILALMRERSIRHLPIL---DEEGR--VVGLATLDDL 110
>gnl|CDD|225121 COG2211, MelB, Na+/melibiose symporter and related transporters
[Carbohydrate transport and metabolism].
Length = 467
Score = 30.7 bits (70), Expect = 3.7
Identities = 16/81 (19%), Positives = 27/81 (33%), Gaps = 10/81 (12%)
Query: 135 LYFTGVNFLLTLVAAVLCVCFAPTAAGPGIP--------EIKAYLNGVD-TPNMFGATTL 185
LYFT + L+ L + T +P + + GV ++ T
Sbjct: 319 LYFTPAG-SVVLIVVALIIAGVGTGIANPLPWAMVADTVDYGEWKTGVRREGIVYSGMTF 377
Query: 186 IVKIIGSIGAVAAGLDLGKEG 206
K+ ++ G LG G
Sbjct: 378 FRKLGLALAGFIPGWILGAIG 398
>gnl|CDD|239792 cd04259, AAK_AK-DapDC, AAK_AK-DapDC: Amino Acid Kinase Superfamily
(AAK), AK-DapDC; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the bifunctional
enzyme AK - DAP decarboxylase (DapDC) found in some
bacteria. Aspartokinase is the first enzyme in the
aspartate metabolic pathway, catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. DapDC,
which is the lysA gene product, catalyzes the
decarboxylation of DAP to lysine.
Length = 295
Score = 30.2 bits (68), Expect = 4.2
Identities = 26/140 (18%), Positives = 52/140 (37%), Gaps = 22/140 (15%)
Query: 182 ATTLIVKIIGSIGAVAAGLDLGKEGP------LVHIGSCIASLLGQGGPDNHRIKWQWLR 235
A L+ + + G+ L K+ ++ +G +++ LG + +K +WL
Sbjct: 82 ADALLANDLAQLQRWLTGISLLKQASPRTRAEVLALGELMSTRLGAAYLEAQGLKVKWL- 140
Query: 236 YFNNDRDRRDLITCGSSSGVCAAFRAPVGGVLFSLEEVATWWRSALLWRTFFSTAVVVVV 295
D R+L+T + G G + L + L + + +++
Sbjct: 141 ------DARELLTATPTLG---------GETMNYLSARCESEYADALLQKRLADGAQLII 185
Query: 296 LRAFIEICTSGKCGLFGTGG 315
+ FI G+ L G GG
Sbjct: 186 TQGFIARNAHGETVLLGRGG 205
>gnl|CDD|179585 PRK03511, minC, septum formation inhibitor; Reviewed.
Length = 228
Score = 30.0 bits (68), Expect = 4.2
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 10/50 (20%)
Query: 570 LELKGLPFLDAHPEPWMRTLTVGELIDAKPPVITLSGIEKVSQIVDVLRN 619
+ELKG F TL+V L DA+P VI + +K++Q L+N
Sbjct: 6 IELKGSSF----------TLSVVHLHDAEPEVIRQALEDKIAQAPAFLKN 45
>gnl|CDD|219185 pfam06808, DctM, DctM-like transporters. This family contains a
diverse range of predicted transporter proteins.
Including the DctM subunit of the bacterial and archaeal
TRAP C4-dicarboxylate transport (Dct) system permease.
In general, C4-dicarboxylate transport systems allow
C4-dicarboxylates like succinate, fumarate, and malate
to be taken up. TRAP C4-dicarboxylate carriers are
secondary carriers that use an electrochemical H+
gradient as the driving force for transport. DctM is an
integral membrane protein that is one of the
constituents of TRAP carriers. Note that many family
members are hypothetical proteins.
Length = 412
Score = 30.3 bits (69), Expect = 4.2
Identities = 25/112 (22%), Positives = 45/112 (40%), Gaps = 17/112 (15%)
Query: 455 PSSILIFFILYCILGLITFGIAVPS-----GLFLPIILMGSAYGRL----LGMAMGSYTN 505
P+ +L F IL I GI P+ + +++ Y RL + A+
Sbjct: 214 PALLLPFIIL----IGILLGIFTPTEAGAYAVVYALLIGVLVYRRLTLEEVAAALLQTAR 269
Query: 506 IDQGLYAVLGAASLMAGSMRMT---VSLCVIFLELT-NNLLLLPITMIVLLI 553
+ +L AA + A + +T ++ L L LL L + ++LL+
Sbjct: 270 TTAAVLFILAAAGIFAWLLTLTGVPFAVSDWLLSLGGGKLLFLILVNLLLLV 321
>gnl|CDD|225407 COG2851, CitM, H+/citrate symporter [Energy production and
conversion].
Length = 433
Score = 30.4 bits (69), Expect = 4.8
Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 15/97 (15%)
Query: 458 ILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTNIDQGLYAVLGAA 517
+L+F IL+ FGI + SGLF P+I ++L + G + G AVL A
Sbjct: 63 MLMFAILF-------FGIMIDSGLFDPLI------RKILSIVKGDPVKVVIGT-AVLAAV 108
Query: 518 SLMAGSMRMTVSLCV-IFLELTNNLLLLPITMIVLLI 553
+ G T + + L L L + P + +L
Sbjct: 109 VSLDGDGATTFLITIPALLPLYKRLGMNPYLLALLAT 145
>gnl|CDD|219137 pfam06687, SUR7, SUR7/PalI family. This family consists of several
fungal-specific SUR7 proteins. Its activity regulates
expression of RVS161, a homologue of human endophilin,
suggesting a function for both in endocytosis. The
protein carries four transmembrane domains and is thus
likely to act as an anchoring protein for the eisosome
to the plasma membrane. Eisosomes are the immobile
protein complexes, that include the proteins Pil1 and
Lsp1, which co-localise with sites of protein and lipid
endocytosis at the plasma membrane. SUR7 protein may
play a role in sporulation. This family also includes
PalI which is part of a pH signal transduction cascade.
Based on the similarity of PalI to the yeast Rim9
meiotic signal transduction component it has been
suggested that PalI might be a membrane sensor for
ambient pH.
Length = 205
Score = 29.6 bits (67), Expect = 4.8
Identities = 19/102 (18%), Positives = 37/102 (36%), Gaps = 17/102 (16%)
Query: 84 YIFLKWSLA-CLVGLLTGLIATLINLAVENIAGYKLLAVVSFIEKDRYLQGFLYFTGVNF 142
Y ++ + L +IA ++ + + + + ++V+F+ + + F
Sbjct: 106 YYLSRFMFIVHPIALFFTVIALILAGILAHFSSPRRGSLVNFL-----------LSLLAF 154
Query: 143 LLTLVAAVLC-VCFAPTAAGPGIPEIKAYLNGVDTPNMFGAT 183
L TL+AA L F I A L P +F
Sbjct: 155 LFTLLAAALDTALFVKARNAFNSNGISASLG----PKLFAFG 192
>gnl|CDD|227529 COG5202, COG5202, Predicted membrane protein [Function unknown].
Length = 512
Score = 29.9 bits (67), Expect = 5.4
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 212 GSCIASLLGQGGPDNHRIKWQWLRYFNND 240
GSCI LG GPD+ + K +W R N D
Sbjct: 283 GSCILFGLGYNGPDSTQ-KIRWDRVRNID 310
>gnl|CDD|236573 PRK09567, nirA, ferredoxin-nitrite reductase; Reviewed.
Length = 593
Score = 30.0 bits (68), Expect = 5.5
Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 5/48 (10%)
Query: 125 IEKDRYLQGFLYFTGVNFLLTLVAAVLCVCFAPTAA---GPGIPEIKA 169
E+ RYL+GF G + A A AA GP IKA
Sbjct: 9 AEQKRYLEGF--AAGADAARATRGAAGGQTPAAPAAEPTGPDAIHIKA 54
>gnl|CDD|163494 TIGR03782, Bac_Flav_CT_J, Bacteroides conjugative transposon TraJ
protein. Members of this protein family are designated
TraM and are found in a proposed transfer region of a
class of conjugative transposon found in the Bacteroides
lineage. This family is related conjugation system
proteins in the Proteobacteria, including TrbL of
Agrobacterium Ti plasmids and VirB6 [Cellular processes,
DNA transformation].
Length = 322
Score = 29.7 bits (67), Expect = 5.9
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 441 VRNIFSSNTPTEFQPSSILI------FFILYCILGLITFGIAVPSGL 481
VR+ F FQ ++++I F I+ ILG I F I+V G
Sbjct: 164 VRDWFRELLELLFQAAALVIDTLRTFFLIVLSILGPIAFAISVYDGF 210
>gnl|CDD|220963 pfam11067, DUF2868, Protein of unknown function (DUF2868). Some
members in this family of proteins with unknown function
are annotated as putative membrane proteins. However,
this cannot be confirmed.
Length = 318
Score = 29.3 bits (66), Expect = 7.2
Identities = 17/90 (18%), Positives = 26/90 (28%), Gaps = 14/90 (15%)
Query: 194 GAVAAGLDLGKEGPLVHIGSCIASLLGQGGPDNHRIKWQWLRYFNNDRDRRDLITCGSSS 253
GA+ L+L P + D+ + Q L R +I
Sbjct: 213 GALLVALELDDALPW-------PAGGAASVADDREQRAQLLSELAAAPPARVVI------ 259
Query: 254 GVCAAFRAPVGGVLFSLEEVATWWRSALLW 283
A+ P G L L E+ + L
Sbjct: 260 -AVDAWEPPDRGTLRFLAELRRAAGATRLL 288
>gnl|CDD|132896 cd07056, BMC_PduK, 1,2-propanediol utilization protein K (PduK),
Bacterial Micro-Compartment (BMC) domain repeat 1l.
PduK proteins are homologs of the carboxysome shell
protein. They are encoded within the pdu operon and
might be required for the formation of the outer shell
of the bacterial pdu polyhedral organelles which are
involved in coenzyme B12-dependent degradation of
1,2-propanediol. Although it has been suggested that
PduK might form hexamers and further assemble into the
flat facets of the polyhedral outer shell of pdu
organelles at present no experimental evidence directly
supports this view.
Length = 77
Score = 27.4 bits (61), Expect = 7.8
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 171 LNGVDTPNMFGATTLIVKIIGSIGAVAAGLDLGKE 205
L G++ G T VKI G + AV A ++ GK+
Sbjct: 28 LLGLENTKGSGWMT--VKISGDVAAVNAAIEAGKQ 60
>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein. This
family is related to the ABC-2 membrane transporter
family pfam01061.
Length = 278
Score = 29.2 bits (66), Expect = 7.8
Identities = 22/122 (18%), Positives = 46/122 (37%), Gaps = 12/122 (9%)
Query: 457 SILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRL---LGMAMGSYTNIDQGLYAV 513
+L+ I I+ L+ FG+ +P G L ++L+ YG LG +GS + V
Sbjct: 147 DLLVGLIQLLIILLLLFGLGIPFGNLLLLLLLFLLYGLAYIALGALLGSLFKNSEAAILV 206
Query: 514 LGAASLMAGSMRMTVSLCVIFLELTNNLL-----LLPITMIVLLIAKTVGDSFNPSIYEI 568
+ L+ + L + L ++P + + + + + +
Sbjct: 207 ISILILLL----SGFFGGLFPLPNMPSFLQWIFSIIPFFAPIDGLLRIIYGDLAEILLSL 262
Query: 569 IL 570
I+
Sbjct: 263 II 264
>gnl|CDD|233156 TIGR00861, MIP, MIP family channel proteins. 1.A.8 The Major
Intrinsic Protein (MIP) FamilyThe MIP family is large
and diverse, possessing over 100 members that all form
transmembrane channels. These channel proteins function
in water, smallcarbohydrate (e.g., glycerol), urea, NH3,
CO2 and possibly ion transport by an energy independent
mechanism. They are found ubiquitously in bacteria,
archaeaand eukaryotes. The MIP family contains two major
groups of channels: aquaporins and glycerol
facilitators.The known aquaporins cluster loosely
together as do the known glycerol facilitators. MIP
family proteins are believed to form aqueous pores that
selectively allow passive transport of their solute(s)
across the membrane with minimal apparent recognition.
Aquaporins selectively transport water (but not
glycerol) while glycerol facilitators selectively
transport glycerol but not water. Some aquaporins can
transport NH3 and CO2. Glycerol facilitators function as
solute nonspecific channels, and may transport glycerol,
dihydroxyacetone, propanediol, urea and other small
neutral molecules in physiologically importantprocesses.
Some members of the family, including the yeast FPS
protein (TC #1.A.8.5.1) and tobacco NtTIPA may transport
both water and small solutes [Transport and binding
proteins, Unknown substrate].
Length = 216
Score = 28.8 bits (65), Expect = 8.6
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 458 ILIFFILYCILGLITFGIAVPSGLFLPIILMGSAYGRLLGMAMGSYTN 505
I ++ I VP G F P+ +G L+ ++MG YT
Sbjct: 130 IGTAILVLVIFATTDDRNRVPRGGFAPLA-IGLLVF-LIHLSMGPYTG 175
>gnl|CDD|216266 pfam01051, Rep_3, Initiator Replication protein. This protein is
an initiator of plasmid replication. RepB possesses
nicking-closing (topoisomerase I) like activity. It is
also able to perform a strand transfer reaction on ssDNA
that contains its target. This family also includes RepA
which is an E.coli protein involved in plasmid
replication. The RepA protein binds to DNA repeats that
flank the repA gene.
Length = 218
Score = 28.8 bits (65), Expect = 9.0
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 655 VLALKKKWFLQEKRRTEEWEVREKFSWVELAEREGKIEEVAVTSEEMEMYIDL 707
+ L KK F E + E+ WV +EGK+ E+ + + ++L
Sbjct: 69 LERLMKKDFEIEDEEEKGGEIINIVLWVGYIIKEGKV-ELEFSPDLKPYLLEL 120
>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 = 27.6 bits (62), Expect = 9.5
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 5/51 (9%)
Query: 712 NTTPYTVIESMSVAKAMVLFRQVGLRHLLVVPKYEAAGVSPVVGILTRQDL 762
P V +A+ L Q RHL VV + +G VVG+L L
Sbjct: 65 TPNPVCATSDTPVLEALHLMVQGKFRHLPVV---DKSG--QVVGLLDVTKL 110
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.139 0.420
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 40,987,696
Number of extensions: 4232904
Number of successful extensions: 5002
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4903
Number of HSP's successfully gapped: 169
Length of query: 783
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 678
Effective length of database: 6,280,432
Effective search space: 4258132896
Effective search space used: 4258132896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 63 (28.2 bits)