RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6631
(704 letters)
>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 = 382 bits (983), Expect = e-126
Identities = 161/313 (51%), Positives = 208/313 (66%), Gaps = 50/313 (15%)
Query: 98 GALYKGVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTM 157
GA GVLFSIEVT+ YFA+RNYWRGFF A CGA FRLLAV+F ++ET+ A F T F +
Sbjct: 164 GAPIGGVLFSIEVTSTYFAVRNYWRGFFAATCGAFTFRLLAVFFSDQETITALFKTTFFV 223
Query: 158 DFPFDPQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVL 217
DFPFD QEL +FAL+G++CG GA +V+ HR+ V F R+N+ + FL+++ LYP IV L
Sbjct: 224 DFPFDVQELPIFALLGIICGLLGALFVFLHRKIVRFRRKNRLFSKFLKRSPLLYPAIVAL 283
Query: 218 LATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVS 277
L ++FP F++
Sbjct: 284 LTAVLTFP-------------------------------------------------FLT 294
Query: 278 LACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPI 337
L F++ ++ + +A T+PVP+G F+PVF IGAA GR++GEI+ + FP+GI G PI
Sbjct: 295 LFLFIVVKFVLTALAITLPVPAGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGI-SNPI 353
Query: 338 IPGGYATVGAAAFSGAVTHTISVSVIMFEMTGQITHIIPVMIAVLISNAVAALLQPSLYD 397
PGGYA VGAAAFSGAVTHT+SV+VI+FE+TGQI+H++PV+IAVLISNAVA LQPS+YD
Sbjct: 354 GPGGYAVVGAAAFSGAVTHTVSVAVIIFELTGQISHLLPVLIAVLISNAVAQFLQPSIYD 413
Query: 398 SIILIKKLPYLPD 410
SII IKKLPYLPD
Sbjct: 414 SIIKIKKLPYLPD 426
Score = 52.6 bits (127), Expect = 4e-07
Identities = 21/29 (72%), Positives = 25/29 (86%)
Query: 458 LVESSVAALLQPSLYDSIILIKKLPYLPD 486
L+ ++VA LQPS+YDSII IKKLPYLPD
Sbjct: 398 LISNAVAQFLQPSIYDSIIKIKKLPYLPD 426
>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 = 211 bits (538), Expect = 2e-61
Identities = 85/306 (27%), Positives = 129/306 (42%), Gaps = 58/306 (18%)
Query: 98 GALYKGVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETM-----RAFFP 152
GA G+LF +E + +F +R WR FF A+ A V ++ + E +
Sbjct: 163 GAPIGGLLFVLEEVSTFFPVRLAWRVFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSL 222
Query: 153 TNFTMDFPFDPQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYP 212
T F + P + E +IGV+CG A +V ++ + RR + R L P
Sbjct: 223 TVFELHVPLNLYEFIPTVVIGVICGLLAALFVRLSIIFLRWRRRLLF--RKTARYRVLEP 280
Query: 213 GIVVLLATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNT 272
+ L+ +++ +
Sbjct: 281 VLFTLIYSTIHY------------------------------------------------ 292
Query: 273 DVFVSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGK 332
+L F+L + S +A I VP G+FIP IGAA GR++G ++ GI
Sbjct: 293 --APTLLLFLLIYFWMSALAFGIAVPGGTFIPSLVIGAAIGRLVGLLVHRIAVAGIGAES 350
Query: 333 FIAPIIPGGYATVGAAAFSGAVT-HTISVSVIMFEMTGQITHIIPVMIAVLISNAVAALL 391
PG YA +GAAAF G T T S+ VIM E+TG + H++P+M+A+LI+ AVA
Sbjct: 351 ATLWADPGVYALIGAAAFLGGTTRLTFSICVIMMELTGDLHHLLPLMVAILIAKAVADAF 410
Query: 392 QPSLYD 397
SLY
Sbjct: 411 CESLYH 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 = 156 bits (397), Expect = 3e-42
Identities = 75/291 (25%), Positives = 117/291 (40%), Gaps = 59/291 (20%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTMDFPFD 162
GVLF++E + F+ R +V A V RLL F + P
Sbjct: 107 GVLFALEELSRSFSYRALLPVLVASVVAALVSRLLFGNE------PLFEVPSLP---PLS 157
Query: 163 PQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVLLATSV 222
EL +F L+G++CG GA +V + RR KK L P + LL +
Sbjct: 158 LLELPLFILLGILCGLLGALFVRLLLKVERLFRRLKK------LPPILRPALGGLLVGLL 211
Query: 223 SFP----LGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVSL 278
LG G + + L + +T + L
Sbjct: 212 GLFLPEVLGGG---------YGLIQLLLNG----------------------STLSLLLL 240
Query: 279 ACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPII 338
+L + + ++ P G F P IGAA GR++G ++ L FP
Sbjct: 241 LLLLLLKLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLPLLFPGI--------APS 292
Query: 339 PGGYATVGAAAFSGAVTHT-ISVSVIMFEMTGQITHIIPVMIAVLISNAVA 388
PG +A +G AAF VT ++ V++FE+TG + ++P+M+AVLI+ V+
Sbjct: 293 PGAFALLGMAAFLAGVTRAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVS 343
>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 = 150 bits (381), Expect = 3e-39
Identities = 97/325 (29%), Positives = 147/325 (45%), Gaps = 47/325 (14%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAF-FPTNFTMDFPF 161
GVLFS+E + YF ++ WR FF A+ A + L + T R F + D+ +
Sbjct: 149 GVLFSLEEVSYYFPLKTLWRSFFCALVAAFTLKSLNPF----GTGRLVLFEVEYDRDWHY 204
Query: 162 DPQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGI-----VV 216
EL F L+G+ G GA F++ N K F +K+ + V
Sbjct: 205 --FELIPFILLGIFGGLYGA----------FFIKANIKWARFRKKSLLKRYPVLEVLLVA 252
Query: 217 LLATSVSFPLGLGKYMAGDLNTHDQLSSLF-----SNFTWTKGHFTVEEQEVLKHWTTRN 271
L+ +SFP + L+ + L LF + +
Sbjct: 253 LITALISFPNPYTR-----LDMTELLELLFNECEPGDDNSLCCYRDPPAG-------DGV 300
Query: 272 TDVFVSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIG---EIIFLRFPDGI 328
SL ++ + +I I VP+G F+P +GA FGR++G E + +PD I
Sbjct: 301 YKALWSLLLALIIKLLLTIFTFGIKVPAGIFVPSMAVGALFGRIVGILVEQLAYSYPDSI 360
Query: 329 ---THGKFIAPIIPGGYATVGAAAFSGAVTH-TISVSVIMFEMTGQITHIIPVMIAVLIS 384
+ I PG YA VGAAAF G VT T+S+ VIMFE+TG + +I+P+MIAV++S
Sbjct: 361 FFACCTAGPSCITPGLYAMVGAAAFLGGVTRMTVSLVVIMFELTGALNYILPLMIAVMVS 420
Query: 385 NAVAALLQP-SLYDSIILIKKLPYL 408
VA + +YD+ I + P+L
Sbjct: 421 KWVADAIGKEGIYDAHIHLNGYPFL 445
>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 = 126 bits (320), Expect = 4e-31
Identities = 87/327 (26%), Positives = 129/327 (39%), Gaps = 87/327 (26%)
Query: 98 GALYKGVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTM 157
GA GVLFS+E ++ WR FF+++ N F P M
Sbjct: 204 GAPVGGVLFSLEEVASFWNQALTWRTFFSSMIVTFTLNFFLSG-CNSGKCGLFGPGGLIM 262
Query: 158 DFPFDPQ------ELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLY 211
+ EL F LIGV+ G GA + N K+ F + R +
Sbjct: 263 FDGSSTKYLYTYFELIPFMLIGVIGGLLGALFNH----------LNHKVTRF--RKRINH 310
Query: 212 PG---------IVVLLATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQE 262
G +V L+ + V+FP
Sbjct: 311 KGKLLKVLEALLVSLVTSVVAFP------------------------------------- 333
Query: 263 VLKHWTTRNTDVFVSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFL 322
+L F + Y + I VPSG FIP+ IGAA+GR++G I L
Sbjct: 334 -------------QTLLIFFVLYYFLACWTFGIAVPSGLFIPMILIGAAYGRLVG--ILL 378
Query: 323 RFPDGITHGKFIAPIIPGGYATVGAAAF-SGAVTHTISVSVIMFEMTGQITHIIPVMIAV 381
G T I PG YA +GAAAF G + T+S++VI+ E+T +T++ P+M+ +
Sbjct: 379 GSYFGFTS------IDPGLYALLGAAAFLGGVMRMTVSLTVILLELTNNLTYLPPIMLVL 432
Query: 382 LISNAVAALLQPSLYDSIILIKKLPYL 408
+I+ V +YD II +K +P+L
Sbjct: 433 MIAKWVGDYFNEGIYDIIIQLKGVPFL 459
>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 = 114 bits (288), Expect = 2e-27
Identities = 61/286 (21%), Positives = 104/286 (36%), Gaps = 57/286 (19%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTMDFPFD 162
G LF+IEV +++ + +V A V RLL A + P
Sbjct: 152 GALFAIEVLLGEYSVASLIPVLLASVAAALVSRLL---------FGAEPAFGVPLYDPLS 202
Query: 163 PQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGI--VVLLAT 220
EL ++ L+G++ G G +V R +++ +L P + ++L
Sbjct: 203 LLELPLYLLLGLLAGLVGVLFVRL---LYKIERLFRRLP----IPPWLRPALGGLLLGLL 255
Query: 221 SVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVSLAC 280
+ P LG G+ + + L
Sbjct: 256 GLFLPQVLGS-----------------------GYGAI-------LLALAGELSLLLLLL 285
Query: 281 FMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPIIPG 340
+L + + + P G F P IGAA G G ++ FP PG
Sbjct: 286 LLLLKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPALFPG--------LVASPG 337
Query: 341 GYATVGAAAFSGAVTHT-ISVSVIMFEMTGQITHIIPVMIAVLISN 385
YA VG AA AV ++ +++ E+TG + ++P+M+AV+I+
Sbjct: 338 AYALVGMAALLAAVLRAPLTAILLVLELTGDYSLLLPLMLAVVIAY 383
>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 = 97.2 bits (243), Expect = 1e-21
Identities = 65/305 (21%), Positives = 109/305 (35%), Gaps = 63/305 (20%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTMDFP-- 160
GVLF +E F+ ++ V RL FF + P
Sbjct: 153 GVLFVLEELRHSFSPLALLTALVASIAADFVSRL-------------FFGLGPVLSIPPL 199
Query: 161 --FDPQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVLL 218
+ + L+G++ G G + S +L + + R L + LL
Sbjct: 200 PALPLKSYWLLLLLGIIAGLLGYLFNRS----LLKSQ--DLYRKLKKLPRELRVLLPGLL 253
Query: 219 ATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVSL 278
PLGL L GH + + +SL
Sbjct: 254 ----IGPLGL------------LLPEALGG-----GHGLILSLA--------GGNFSISL 284
Query: 279 ACFMLYT-YIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPI 337
+ +IF++++ P G F P+ +GA G + G I+ P I
Sbjct: 285 LLLIFVLRFIFTMLSYGSGAPGGIFAPMLALGALLGLLFGTILVQLGP--------IPIS 336
Query: 338 IPGGYATVGAAAFSGAVTHT-ISVSVIMFEMTGQITHIIPVMIAVLISNAVAALLQ-PSL 395
P +A G AAF AV I+ +++ EMTG ++P+M+ L++ VA LL +
Sbjct: 337 APATFAIAGMAAFFAAVVRAPITAIILVTEMTGNFNLLLPLMVVCLVAYLVADLLGGKPI 396
Query: 396 YDSII 400
Y++++
Sbjct: 397 YEALL 401
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 94.3 bits (235), Expect = 2e-20
Identities = 68/317 (21%), Positives = 110/317 (34%), Gaps = 67/317 (21%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTMDFPFD 162
G LF+IEV R V A V LL F +F +
Sbjct: 180 GALFAIEV----LYGRFLEYRALVPVLVAAVVALL--------VAGLFGGPHFLLPIVTT 227
Query: 163 ----PQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQK---NRFLYPGIV 215
+L ++ ++G++ G G VL R F ++ L P +
Sbjct: 228 PHMSLWDLLLYLVLGIIAGLFG----------VLLSRLLALSRRFFRRLPLPPLLRPALG 277
Query: 216 VLLATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVF 275
LL ++ L +L +
Sbjct: 278 GLLVGALGLLFPEVLGNGYGLI----QLALAGEGGLL-------------------VLLL 314
Query: 276 VSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIA 335
+ L + ++++ P G F P IGAA G G ++ L FP I
Sbjct: 315 LFLLKL-----LATLLSYGSGAPGGIFAPSLFIGAALGLAFGALLGLLFPPSIL------ 363
Query: 336 PIIPGGYATVGAAAFSGAVTHT-ISVSVIMFEMTGQITHIIPVMIAVLISNAVAALLQP- 393
PG +A +G AAF A T ++ V++ EMTG ++P++IA LI+ V+ LL
Sbjct: 364 --EPGLFALLGMAAFLAATTRAPLTAIVLVLEMTGNYQLLLPLLIACLIAYLVSRLLGGR 421
Query: 394 SLYDSIILIKKLPYLPD 410
+Y ++ + P L +
Sbjct: 422 PIYTQLLARRGAPILRE 438
Score = 30.4 bits (69), Expect = 4.1
Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 17/91 (18%)
Query: 308 IGAAFGRMIGEIIFLRFPDGITHGKFIAPIIPGGYATVGAAAFSGAVTHT-ISVSVIMFE 366
IGAA G ++G ++ L D GAAA A + ++ ++ E
Sbjct: 139 IGAAIGSLLGRLLKLSREDRRI------------LLAAGAAAGLAAAFNAPLAGALFAIE 186
Query: 367 MTGQITH----IIPVMIAVLISNAVAALLQP 393
+ ++PV++A +++ VA L
Sbjct: 187 VLYGRFLEYRALVPVLVAAVVALLVAGLFGG 217
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 59.0 bits (143), Expect = 5e-09
Identities = 60/253 (23%), Positives = 97/253 (38%), Gaps = 61/253 (24%)
Query: 159 FPFD-PQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRF--LYPGIV 215
FP E+ +F +GV+CG F+R KN+F L +
Sbjct: 231 FPAVTGWEVLLFVALGVLCGAAAP----------QFLRL-----LDASKNQFKRLPVPLP 275
Query: 216 VLLATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLK-HWTTRNTDV 274
V LA LG + G + S++ W G+ V +L WT
Sbjct: 276 VRLA--------LGGLLVGVI-------SVWVPEVWGNGYSVV--NTILHAPWTW----- 313
Query: 275 FVSLACFMLYTYIFSIIASTIPVPSGS----FIPVFKIGAAFGRMIGEIIFLRFPDGITH 330
+L + + +IA+ SG+ F P +GA G + G + +P +
Sbjct: 314 -QALVAVL----VAKLIATAATAGSGAVGGVFTPTLFVGAVVGSLFGLAMHALWPGHTSA 368
Query: 331 GKFIAPIIPGGYATVGAAAFSGAVTHTISVSVIM-FEMTGQITHIIPVMIAVLISNAVAA 389
P YA VG AF T ++++M FEMT ++P+M++ +++ A
Sbjct: 369 --------PFAYAMVGMGAFLAGATQAPLMAILMIFEMTLSYQVVLPLMVSCVVAYFTAR 420
Query: 390 LLQP-SLYDSIIL 401
L S+Y I L
Sbjct: 421 ALGTTSMY-EITL 432
>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 = 56.1 bits (136), Expect = 3e-08
Identities = 46/234 (19%), Positives = 79/234 (33%), Gaps = 57/234 (24%)
Query: 171 LIGVVCGFGGAGY----VWSHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVLLATSVSFPL 226
+ GVV G G + V + F ++ L+ + L +
Sbjct: 207 VCGVVGGLAGGLFARLLVALSS------GLPGWVRRFRRRRPVLFAALCGLALALIGLVS 260
Query: 227 GLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVSLACFMLYTY 286
G + G L L L W L F+
Sbjct: 261 GGLTFGTGYLQARAALEG----------------GGGLPLWFG--------LLKFL---- 292
Query: 287 IFSIIASTIP-VPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPIIPGGYATV 345
+ + S +P G F P +GA G ++ + ++ G + +
Sbjct: 293 --ATLLSYWSGIPGGLFAPSLAVGAGLGSLLAAL-----LGSVSQGALVL---------L 336
Query: 346 GAAAFSGAVTHT-ISVSVIMFEMTGQITHIIPVMIAVLISNAVAALLQP-SLYD 397
G AAF VT ++ VI+ EMTG ++P++ A L+++ V+ L+ P LY
Sbjct: 337 GMAAFLAGVTQAPLTAFVIVMEMTGDQQMLLPLLAAALLASGVSRLVCPEPLYH 390
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 46.7 bits (111), Expect = 3e-05
Identities = 55/243 (22%), Positives = 92/243 (37%), Gaps = 57/243 (23%)
Query: 163 PQELTVFALIGVVCGFGGAGYVW----SHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVLL 218
++ + G++ G G + SHR F+ L
Sbjct: 218 ARDYALIISTGLLAGLCGPLLLTLMNASHR-------------GFVS------------L 252
Query: 219 ATSVSFPLGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFVSL 278
+ + L LG + G L SLF+ W G+ V Q L + L
Sbjct: 253 KLAPPWQLALGGLIVG-------LLSLFTPAVWGNGYSVV--QSFL------TAPPLLML 297
Query: 279 ACFMLYTYIFSIIAST-IPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPI 337
+ + +++AS+ P G F P +G A G + G + L PD G+ I +
Sbjct: 298 IAGIFLCKLLAVLASSGSGAPGGVFTPTLFVGLAIGMLYGRSLGLWLPD----GEEITLL 353
Query: 338 IPGGYATVGAAAFSGAVTHTISVSVIM-FEMTGQITHIIPVMIAVLISNAVAALLQPSLY 396
+ G A A TH +S +M EMTG+ + ++IA +I++ ++ L+
Sbjct: 354 L----GLTGMATLLAATTHAPIMSTLMICEMTGEYQLLPGLLIACVIASVISRTLRR--- 406
Query: 397 DSI 399
DSI
Sbjct: 407 DSI 409
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 42.6 bits (101), Expect = 6e-04
Identities = 28/106 (26%), Positives = 46/106 (43%), Gaps = 12/106 (11%)
Query: 297 VPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPIIPGGYATVGAAA-FSGAVT 355
P G F P+ +G G G + FP PG +A G A F+ V
Sbjct: 317 APGGIFAPMLALGTLLGLAFGMVAAALFPQYHIE--------PGTFAIAGMGALFAATVR 368
Query: 356 HTISVSVIMFEMTGQITHIIPVMIAVLISNAVAALL--QPSLYDSI 399
++ V++ EMT I+P++I L + +A L +P +Y ++
Sbjct: 369 APLTGIVLVLEMTDNYQLILPLIITCLGATLLAQFLGGKP-IYSAL 413
>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 = 40.7 bits (96), Expect = 0.002
Identities = 59/298 (19%), Positives = 104/298 (34%), Gaps = 80/298 (26%)
Query: 103 GVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTMDFPFD 162
G LF++E+ ++R+ A + + +
Sbjct: 152 GALFALEILLRTISLRS-----VVAALATSAIAAAVASLLKG------DHPIYDIPPMQL 200
Query: 163 PQELTVFA-LIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKNRFLYPGIVVLLAT- 220
L ++A L G V G AG+ R+ R + R L+ + L
Sbjct: 201 STPLLIWALLAGPVLGVVAAGF----RRLSQAARAKRPKGK-----RILWQMPLAFLVIG 251
Query: 221 --SVSFP--LGLGKYMAGDLNTHDQLSSLFSNFTWTKGHFTVEEQEVLKHWTTRNTDVFV 276
S+ FP LG G+ +A Q +T + +
Sbjct: 252 LLSIFFPQILGNGRALA---------------------------QLAF------STTLTL 278
Query: 277 SLACFMLYTYIFSIIASTIPVPSGSF----IPVFKIGAAFGRMIGEIIFLRFPDGITHGK 332
SL +L + I+A+ + + +G++ P +GA G ++G + P
Sbjct: 279 SLLLILL---VLKIVATLLALRAGAYGGLLTPSLALGALLGALLGIVWNALLP------- 328
Query: 333 FIAPIIPGGYATVGAAAFSGAVTHTISVSVIMF--EMTGQI-THIIPVMIAVLISNAV 387
I +A +GAAAF A T ++ ++ E T Q +IP+M+AV + AV
Sbjct: 329 -PLSI--AAFALIGAAAF-LAATQKAPLTALILVLEFTRQNPLFLIPLMLAVAGAVAV 382
>gnl|CDD|213779 TIGR03165, F1F0_chp_2, F1/F0 ATPase, Methanosarcina type, subunit
2. Members of this protein family are uncharacterized,
highly hydrophobic proteins encoded in the middle of
apparent F1/F0 ATPase operons. We note, however, that
this protein is both broadly and sparsely distributed.
It is found in about only about two percent of microbial
genomes sequenced, with the first ten examples found
coming from the Euryarchaeota, Chlorobia,
Betaproteobacteria, Deltaproteobacteria, and
Planctomycetes. In most of these species, surrounding
operon appears to represent a second F1/F0 ATPase
system, and the member proteins belong to subfamilies
with the same phylogenetic distribution as the current
protein family.
Length = 83
Score = 31.5 bits (72), Expect = 0.20
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 5/60 (8%)
Query: 82 KFPEGRAPLVVYEFLKGALYKGVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWF 141
K R P FL L + +I + Y R WR A+ G R+LAV
Sbjct: 27 KGLASRRP--ALLFLGSLL---LRTAIVLAGFYLLARGGWRRLLAALLGFFAARVLAVRL 81
>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 = 31.0 bits (71), Expect = 0.20
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 499 VEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVESSGKF 541
V+D M DV + + + + L++EN + P+V+ GK
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENG-ISRLPVVDEDGKL 42
Score = 28.3 bits (64), Expect = 1.8
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 423 VEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVF 456
V+D M DV + + + + L++EN R+
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLP 34
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 31.7 bits (72), Expect = 0.44
Identities = 27/115 (23%), Positives = 49/115 (42%), Gaps = 15/115 (13%)
Query: 423 VEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVE-SSVAALLQPSLYDSIILIKKL 481
V+D M +DV + + + RD L+ EN V P+V+ + ++ + D IL
Sbjct: 1 VKDIMTKDVITVKPDTSVRDALLLMSENGVSAV-PVVDDGKLVGII--TERD--ILRALA 55
Query: 482 PYLPDLLPSSSGIYNVYVEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVE 536
LLP V++ M + V + + + L+ E +R P+V+
Sbjct: 56 AGGKRLLP---------VKEVMTKPVVTVDPDTPLEEALELMVERHKIRRLPVVD 101
>gnl|CDD|179668 PRK03893, PRK03893, putative sialic acid transporter; Provisional.
Length = 496
Score = 32.7 bits (75), Expect = 0.65
Identities = 29/131 (22%), Positives = 57/131 (43%), Gaps = 29/131 (22%)
Query: 285 TYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLR--FPDGITHGKFIAPIIPGGY 342
Y+ S++ S + + IPVF IG A ++G ++F + GI+ + P + GGY
Sbjct: 343 AYVCSLLISQLLI-----IPVFAIGGANVWVLGLLLFFQQMLGQGISG---LLPKLIGGY 394
Query: 343 -------------ATVGA-----AAFSGA-VTHTISVSVIMFEMTGQITHIIPVMIAVLI 383
VGA A GA + + + + ++ +T ++ ++I + +
Sbjct: 395 FDTEQRAAGLGFTYNVGALGGALAPILGALIAQRLDLGTALASLSFSLTFVVILLIGLDM 454
Query: 384 SNAVAALLQPS 394
+ V L+P
Sbjct: 455 PSRVQRWLRPE 465
>gnl|CDD|223419 COG0342, SecD, Preprotein translocase subunit SecD [Intracellular
trafficking and secretion].
Length = 506
Score = 32.7 bits (75), Expect = 0.75
Identities = 23/131 (17%), Positives = 51/131 (38%), Gaps = 21/131 (16%)
Query: 272 TDVFVSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGE------IIFLRFP 325
+ + L ++ + S++ +T+ +P A IG +IF R
Sbjct: 371 AAIALGLNGVLILA-VLSLLGATLTLPGI---------AGIILTIGMAVDANVLIFERIR 420
Query: 326 DGITHGKFIAPIIPGGYATVGAAAFSGAVTHTISVSVIMFEMTGQI-----THIIPVMIA 380
+ + +GK + I G+ + T I+ +++ TG + T I+ ++ +
Sbjct: 421 EELRNGKSVLSAIDAGFKRAFSTILDSNATTLIAAAILFALGTGPVKGFAVTLILGILTS 480
Query: 381 VLISNAVAALL 391
+ + V LL
Sbjct: 481 MFTAIPVTRLL 491
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 31.6 bits (72), Expect = 1.3
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 540 KFEQMEIKRREERQRRPSRFEVTPAPDLLRGNP 572
K E+ E K REE ++ + ++L GNP
Sbjct: 155 KKERAEEKEREEEEKAAEEEKAREE-EILTGNP 186
>gnl|CDD|183671 PRK12672, PRK12672, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 118
Score = 29.3 bits (66), Expect = 2.7
Identities = 27/92 (29%), Positives = 35/92 (38%), Gaps = 23/92 (25%)
Query: 308 IGAAFGRMIGEIIFLRFPDGIT--HGKFIAPIIPGGYATVGA--AAFSGAVTHTISVSVI 363
IG F ++G I RFPD T HG T G A VTH +
Sbjct: 13 IGVTFN-LLGSIALHRFPDVYTRLHGATKC-------TTFGTIFAVL-AVVTHALY---- 59
Query: 364 MFEMTGQ------ITHIIPVMIAVLISNAVAA 389
+TG H +IA+L++N V A
Sbjct: 60 RLRLTGDPKYLQMALHSFVALIALLLTNPVGA 91
>gnl|CDD|227540 COG5215, KAP95, Karyopherin (importin) beta [Intracellular
trafficking and secretion].
Length = 858
Score = 30.7 bits (69), Expect = 3.6
Identities = 19/84 (22%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 397 DSIILIKKLPYLPDLLPSSSGIYNVYVEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVF 456
D +L + + DL + +N+Y + M V+ + + T+RDLK + L VF
Sbjct: 652 DRFVLNSAVGLVGDLANTLGTDFNIYADVLMSSLVQCLSSEATHRDLKPAI-----LSVF 706
Query: 457 PLVESSVAALLQPSLYDSIILIKK 480
+ ++ A + L ++L ++
Sbjct: 707 GDIALAIGANFESYLDMIMMLFQQ 730
>gnl|CDD|226559 COG4073, COG4073, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 198
Score = 29.8 bits (67), Expect = 3.8
Identities = 30/95 (31%), Positives = 41/95 (43%), Gaps = 17/95 (17%)
Query: 443 LKNLLKENRSLRVFPLVESS-VAALLQPSLYDSIILIKKLPYLPDLLPSSSGIYNVYVED 501
L+ L +EN LRV P VE+ + L PS Y S + + L + L P VYVE
Sbjct: 37 LRVLPEENGVLRVIPKVENGPYISTLDPSYYRSEVGARILRVVEKLRPD------VYVEL 90
Query: 502 FMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVE 536
R + + L E RS V PL++
Sbjct: 91 HCYRP----------ENYRKLTAERRSGGVPPLID 115
>gnl|CDD|233281 TIGR01129, secD, protein-export membrane protein SecD. Members of
this family are highly variable in length immediately
after the well-conserved motif LGLGLXGG at the
amino-terminal end of this model. Archaeal homologs are
not included in the seed and score between the trusted
and noise cutoffs. SecD from Mycobacterium tuberculosis
has a long Pro-rich insert [Protein fate, Protein and
peptide secretion and trafficking].
Length = 397
Score = 30.3 bits (69), Expect = 4.0
Identities = 27/121 (22%), Positives = 49/121 (40%), Gaps = 15/121 (12%)
Query: 278 LACFMLYTYIFSIIAS------TIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHG 331
+A L I I+A T+ +P + + + IG A + +I+ R + + G
Sbjct: 275 IAAIALVINIVLILAILSAFGATLTLPGIAGL-ILTIGMAVDANV--LIYERIKEELRLG 331
Query: 332 KFIAPIIPGGYATVGAAAFSGAVTHTISVSVIMFEMTGQI-----THIIPVMIAVLISNA 386
K + I G+ + F +T I+ ++ TG + T I + IA L +
Sbjct: 332 KSVQQAIEAGFERAFSTIFDANITTLIAALILYVFGTGPVKGFAVTLAIGI-IASLFTAL 390
Query: 387 V 387
V
Sbjct: 391 V 391
>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 = 28.7 bits (65), Expect = 4.3
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 499 VEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVESSGKF 541
V D M +V + + + DL L+ + + + +P+V+ GK
Sbjct: 62 VRDIMTTEVLTVSPDDSIVDLAQLMLKAKP-KRYPVVD-DGKL 102
>gnl|CDD|223911 COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].
Length = 1009
Score = 30.3 bits (69), Expect = 4.3
Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 26/128 (20%)
Query: 290 IIASTIPVPSGSFIPVFKIGAAFG------RMIGEI--IFLRFPDGITHGKFIAPIIPG- 340
I A +PV S + F + AFG + + I L D I + I + G
Sbjct: 358 IPALAVPV---SLLGTFAVMYAFGFSLNTLTLFALVLAIGLLVDDAIVVVENIERHMRGL 414
Query: 341 --------GYATVGAAAFSGAVTHTISVSV-IMF--EMTGQITH--IIPVMIAVLISNAV 387
+G A + + I+V + + F TG++ I + +A+L+S V
Sbjct: 415 PPREAAEKAMGEIGGAVIAITLV-LIAVFLPMAFMGGSTGELFRQFAITIAVAMLLSLLV 473
Query: 388 AALLQPSL 395
A L P+L
Sbjct: 474 ALTLTPAL 481
>gnl|CDD|216972 pfam02322, Cyto_ox_2, Cytochrome oxidase subunit II. This Family
consists of cytochrome bd type terminal oxidases that
catalyzes Quinol dependent, Na+ independent oxygen
uptake. Members of this family are integral membrane
proteins andi contain a protohaem IX centre B558. One
member of the family,cydB from Klebsiella pneumoniae, is
implicated in having an important role in micro-aerobic
nitrogen fixation in the enteric bacterium Klebsiella
pneumoniae.
Length = 327
Score = 29.8 bits (68), Expect = 4.5
Identities = 19/60 (31%), Positives = 24/60 (40%), Gaps = 9/60 (15%)
Query: 300 GSFIPVFKIGAAFGRMI-GEIIFLRFPDGITHGKFIAPIIP----GGYATVGAAAFSGAV 354
GS + F G A G ++ G + F G G F + P GG A V A GA
Sbjct: 121 GSLLAAFLQGVALGNLVQG----VPFDAGNYAGGFFDLLNPFALLGGLAVVALYALLGAT 176
>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 = 29.9 bits (68), Expect = 4.7
Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 15/85 (17%)
Query: 300 GSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIAPIIPGGYATVGAAAFSGAVTHTIS 359
G P+F IGA G + I+ L +A + G+ V F+GA ++
Sbjct: 298 GEVTPLFFIGATLGNALAPILGLPVS-------LLAAL---GFVAV----FAGATNTPLA 343
Query: 360 VSVIMFEMTGQITHIIPVMIAVLIS 384
++ E+ G + IA L++
Sbjct: 344 CIIMGIELFG-AENAPYFFIACLVA 367
>gnl|CDD|224239 COG1320, MnhG, Multisubunit Na+/H+ antiporter, MnhG subunit
[Inorganic ion transport and metabolism].
Length = 113
Score = 28.4 bits (64), Expect = 5.5
Identities = 26/108 (24%), Positives = 39/108 (36%), Gaps = 27/108 (25%)
Query: 287 IFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGIT--HGKFIAPIIPGGYAT 344
I II S I + G+ F + AA G LRFPD T H A +
Sbjct: 3 ILEIIVS-ILLLIGAL---FSLLAAIG-------LLRFPDVYTRLHAATKATTL------ 45
Query: 345 VGAAAFSGAVTHTISVSVIMFEMTGQI-THIIPVMIAVLISNAVAALL 391
GA + V + + G +I + + +L++ V A
Sbjct: 46 -------GAGLLLLGVIIYFLSLLGFFALKLILLALFILLTAPVGAHA 86
>gnl|CDD|240004 cd04633, CBS_pair_20, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 121
Score = 28.4 bits (64), Expect = 5.6
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 418 IYNVYVEDFMVRDVKYIWNNMTYRD-LKNLLKENRS 452
I N+ V D M R V I + + D +L+ N
Sbjct: 64 IRNLPVSDIMTRPVITIEPDTSVSDVASLMLENNIG 99
Score = 28.4 bits (64), Expect = 5.6
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 494 IYNVYVEDFMVRDVKYIWNNMTYRD-LKNLLKENRS 528
I N+ V D M R V I + + D +L+ N
Sbjct: 64 IRNLPVSDIMTRPVITIEPDTSVSDVASLMLENNIG 99
>gnl|CDD|220304 pfam09594, DUF2029, Protein of unknown function (DUF2029). This is
a putative transmembrane protein from bacteria. It is
likely to be conserved between Mycobacterium species.
Length = 240
Score = 29.2 bits (66), Expect = 6.6
Identities = 9/39 (23%), Positives = 14/39 (35%)
Query: 113 VYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFF 151
+Y +R WR A A L++ + R F
Sbjct: 118 LYLLLRRRWRALAAAAATAAALVALSLLVLGPSSWRYFL 156
>gnl|CDD|187823 cd09692, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily
protein Cas5. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas5 is a RAMP superfamily protein; Subunit of the
Cascade complex.
Length = 189
Score = 28.6 bits (64), Expect = 7.6
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 1/63 (1%)
Query: 148 RAFFPTNFTMDFPFDPQELTVFALIGVVCGFGGAGYVWSHRQYVLFMRRNKKMNAFLQKN 207
R + + +PF P T+ LIG V G+ Y + K + +Q
Sbjct: 13 RKPYTNTSKLTYPF-PPRTTLLGLIGAVLGYDKDEYYDLFEPVRGRLDLAKPVRKIMQVL 71
Query: 208 RFL 210
+FL
Sbjct: 72 KFL 74
>gnl|CDD|182513 PRK10519, PRK10519, hypothetical protein; Provisional.
Length = 151
Score = 28.4 bits (64), Expect = 8.7
Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 35/96 (36%)
Query: 331 GKFIAPI-----IPGGYATVGAAAF---SGAVTHTIS-----------VSVI---MFEMT 368
G P+ +PG ATV AA+ GAV S V+++ ++ M
Sbjct: 50 GHIFGPVMALFGLPGEAATVLLAAWMSMGGAVGVAASLFTAGALTGHHVTILLPAIYLMG 109
Query: 369 GQITHI-------------IPVMIAVLISNAVAALL 391
Q+ ++ P +IAV I NA+ A+L
Sbjct: 110 SQVQYMGRILGVAEVNAKYYPHLIAVCIINALLAML 145
>gnl|CDD|215124 PLN02195, PLN02195, cellulose synthase A.
Length = 977
Score = 29.2 bits (65), Expect = 8.9
Identities = 32/107 (29%), Positives = 41/107 (38%), Gaps = 26/107 (24%)
Query: 100 LYKGVLFSIEVTTVY------FAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPT 153
L+ G+ SI +T+V +I + WR V G L AV F M A T
Sbjct: 790 LFLGLFISIILTSVLELRWSGVSIEDLWRNEQFWVIGGVSAHLFAV-FQGFLKMLAGLDT 848
Query: 154 NFTM------DFPFD-------------PQELTVFALIGVVCGFGGA 181
NFT+ D F P L + L+GVV GF A
Sbjct: 849 NFTVTAKAADDTEFGELYMVKWTTLLIPPTSLLIINLVGVVAGFSDA 895
>gnl|CDD|224450 COG1533, SplB, DNA repair photolyase [DNA replication,
recombination, and repair].
Length = 297
Score = 28.9 bits (65), Expect = 9.4
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 327 GITHGKFIAPIIPG-----GYATVGAAAFSGA 353
GI G F+APIIPG + AAA +GA
Sbjct: 182 GIPVGLFVAPIIPGLNDEELERILEAAAEAGA 213
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases 2
CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 29.1 bits (66), Expect = 9.8
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 14/59 (23%)
Query: 601 PKKSILKKTNSFSLKNFSPMLTPNVT--------PYTTVTGAESRIRMAFE---AIFHK 648
P +S+L + L LT N+T TVT + I MA E + HK
Sbjct: 12 PGRSVLPSRSDVDLSTK---LTRNITLNIPLVSANMDTVTESRMAIAMAREGGIGVIHK 67
>gnl|CDD|233053 TIGR00613, reco, DNA repair protein RecO. All proteins in this
family for which functions are known are DNA binding
proteins that are involved in the initiation of
recombination or recombinational repair [DNA metabolism,
DNA replication, recombination, and repair].
Length = 241
Score = 28.8 bits (65), Expect = 9.8
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 246 FSNFTWTK--GHFTVEEQEVLKHWTTRNTDVFVSLACFMLYTYIFSIIASTIP 296
+F W K G T+ + E++ + +D+F+ YI +I +P
Sbjct: 53 LGDFVWYKRSGLSTLNQGELINSFEGIKSDLFLLAYAS----YIAELIDRLLP 101
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 0.138 0.422
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 36,970,161
Number of extensions: 3751420
Number of successful extensions: 3534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3492
Number of HSP's successfully gapped: 83
Length of query: 704
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 600
Effective length of database: 6,324,786
Effective search space: 3794871600
Effective search space used: 3794871600
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 (28.0 bits)