RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13217
(422 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 = 135 bits (343), Expect = 2e-35
Identities = 66/255 (25%), Positives = 114/255 (44%), Gaps = 12/255 (4%)
Query: 46 QTLDFSVKQSKLSNYFQGGQSSLVGFY--VLRWAMVVLTGVMVGVIHFIMHAGVTFGSSL 103
++LD+ V ++ L + L+W + +L G+ G++ + + V + L
Sbjct: 1 ESLDYEVIENDLFREEWRKRKKKQVLQYEFLKWIICLLIGIFTGLVAYFIDLAVENLAGL 60
Query: 104 KVQWLE-VITDGFPQDVWRTYLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNG 162
K ++ I G ++ +L G N++ + +A L + A A+G + V YLNG
Sbjct: 61 KFLVVKNYIEKG---RLFTAFLVYLGLNLVLVLVAALLVAYIAPTAAGSGIPEVKGYLNG 117
Query: 163 SRIKKFFTIRTVLVKMCSTTAMMCTATPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFR 222
+I ++T+LVK+ + G EGP+IHIGA + + T R
Sbjct: 118 VKIPHILRLKTLLVKIVGVILSVSGGLALGKEGPMIHIGACIAAG--LSQGG---STSLR 172
Query: 223 -TAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVG 281
Y + ++RD CG AAGV+A FGAP GG+ +LEE +F++ + R
Sbjct: 173 LDFRWFRYFRNDRDKRDFVTCGAAAGVAAAFGAPVGGVLFSLEEVASFWNQALTWRTFFS 232
Query: 282 SFLAKFISDILEQSF 296
S + F +
Sbjct: 233 SMIVTFTLNFFLSGC 247
>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 = 104 bits (262), Expect = 1e-24
Identities = 63/216 (29%), Positives = 102/216 (47%), Gaps = 18/216 (8%)
Query: 105 VQWLEVITDGFPQDVWRTYLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNGSR 164
+ + + P YL ++++ + I+ +CL+FA +A+G + VMAYLNG
Sbjct: 19 LDAGQWLLRRIPGSYLLGYLMWVLWSVVLVLISSGICLYFAPQAAGSGIPEVMAYLNGVH 78
Query: 165 IKKFFTIRTVLVKMCSTTAMMCTATPGGMEGPIIHIGAAVGNIAP-----IVIAKLPLPT 219
+ + +IRT++ K S + + P G EGP++H+GA +G + + L
Sbjct: 79 LPMYLSIRTLIAKTISCICAVASGLPLGKEGPLVHLGAMIGAGLLQGRSRTLGCHVHLFQ 138
Query: 220 KFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLV 279
FR + +RRD V G AAGV++ FGAP GG+ LEE +TFF + R+
Sbjct: 139 LFR---------NPRDRRDFLVAGAAAGVASAFGAPIGGLLFVLEEVSTFFPVRLAWRVF 189
Query: 280 VGSFLAKFISDILEQSFVESELEP---GEMFYKLVP 312
+ ++ F+ I SF MF L
Sbjct: 190 FAALVSAFVIQIY-NSFNSGFELLDRSSAMFLSLTV 224
>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 = 92.6 bits (231), Expect = 1e-20
Identities = 57/211 (27%), Positives = 89/211 (42%), Gaps = 24/211 (11%)
Query: 82 TGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLGIACALC 141
G++ G++ + G+ +L++ + + P L L + + +A L
Sbjct: 1 IGLLAGLVAVLFRLGIDKLGNLRLSLYDFAANNPPL-----LLVLPLISAVLGLLAGWLV 55
Query: 142 LFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLVKMCSTTAMMCTATPGGMEGPIIHIG 201
FA EA G + V L G ++ R + VK + + G EGP + IG
Sbjct: 56 KKFAPEAKGSGIPQVEGVLAGLLPPNWW--RVLPVKFVGGVLALGSGLSLGREGPSVQIG 113
Query: 202 AAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAPFGGIFL 261
AA+G ++K F+T+P ERR L G AAG++A F AP G+
Sbjct: 114 AAIGQG----VSK-----WFKTSPE--------ERRQLIAAGAAAGLAAAFNAPLAGVLF 156
Query: 262 ALEETTTFFSAEMLPRLVVGSFLAKFISDIL 292
LEE FS L +V S A F+S +
Sbjct: 157 VLEELRHSFSPLALLTALVASIAADFVSRLF 187
Score = 44.8 bits (107), Expect = 5e-05
Identities = 52/229 (22%), Positives = 90/229 (39%), Gaps = 53/229 (23%)
Query: 76 WAMVVLTGVMVGVIHFIMHAGVTFGSS-LKVQWLEVITDGFPQDVWRTYLGLAGFNMIFL 134
W +++L G++ G++ G F S LK Q L Y L
Sbjct: 208 WLLLLL-GIIAGLL------GYLFNRSLLKSQDL--------------YRKLKKLPRELR 246
Query: 135 GIACALCLFFAM----EASGGNVSGVMAYLNGSRIKKFFTIRTVL----VKMCSTTAMMC 186
+ L + EA GG +++ G+ F+I +L ++ T
Sbjct: 247 VLLPGLLIGPLGLLLPEALGGGHGLILSLAGGN-----FSISLLLLIFVLRFIFTMLSYG 301
Query: 187 TATPGGMEGPIIHIGAAVGNI-APIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVA 245
+ PGG+ P++ +GA +G + I++ P+P +S ++ G+A
Sbjct: 302 SGAPGGIFAPMLALGALLGLLFGTILVQLGPIP--------------ISAPATFAIAGMA 347
Query: 246 AGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISDILEQ 294
A +A AP I L E T F +LP +VV +A ++D+L
Sbjct: 348 AFFAAVVRAPITAIILVTEMTGNFNL--LLPLMVV-CLVAYLVADLLGG 393
>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 = 88.4 bits (220), Expect = 2e-19
Identities = 49/161 (30%), Positives = 73/161 (45%), Gaps = 20/161 (12%)
Query: 132 IFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLVKMCSTTAMMCTATPG 191
I +A L F A G V+A L+G + R +LVK T + +
Sbjct: 1 IGGLLAGLLVKRFPEAAGSGIPE-VIAALHGVKGPLPL--RVLLVKFLGTLLTLGSGGSL 57
Query: 192 GMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAG 251
G EGP + IGAA+G+ L + + + + +RR L G AAG++A
Sbjct: 58 GREGPSVQIGAAIGSG---------LGRRLKLSRN--------DRRRLIAAGAAAGIAAA 100
Query: 252 FGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISDIL 292
F AP G+ ALEE + FS L ++V S +A +S +L
Sbjct: 101 FNAPLAGVLFALEELSRSFSYRALLPVLVASVVAALVSRLL 141
Score = 56.0 bits (136), Expect = 1e-08
Identities = 49/234 (20%), Positives = 88/234 (37%), Gaps = 31/234 (13%)
Query: 57 LSNYFQGGQSSLVGFYVLRWAMVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFP 116
N SL +L + +L G++ G+ G F L +E +
Sbjct: 142 FGNEPLFEVPSLPPLSLLELPLFILLGILCGL------LGALFVRLL--LKVERLFRRLK 193
Query: 117 QDVWRTYLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLV 176
+ G+ L F E GG + LNGS + + +L+
Sbjct: 194 KLPPI-------LRPALGGLLVGLLGLFLPEVLGGGYGLIQLLLNGSTLSLLLLLLLLLL 246
Query: 177 KMCSTTAMMCTATPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSER 236
K+ +T + + PGG+ P + IGAA+G + +++ L P + + A
Sbjct: 247 KLLATALSLGSGAPGGIFAPSLFIGAALGRLLGLLLP-LLFPGIAPSPGAFA-------- 297
Query: 237 RDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISD 290
+ G+AA ++ AP I L E T ++ +L L++ +A +S
Sbjct: 298 ----LLGMAAFLAGVTRAPLTAIVLVFELTGSY---SLLLPLMLAVLIAYLVSR 344
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 76.6 bits (189), Expect = 3e-15
Identities = 50/243 (20%), Positives = 96/243 (39%), Gaps = 31/243 (12%)
Query: 57 LSNYFQGGQSSLVGFYVLRWAMVVLTGVMVGVIHFIMHAGVTFGSSLKVQW-LEVITDGF 115
L ++ + + + +GVI + + L + +++
Sbjct: 3 LRKRRPLARTMRLLIALAVL---IGIAAALGVIVGLFAVALDLALLLLGRLRGGLLSAAQ 59
Query: 116 PQDVWRTYLGLAGFNMIFLGIACALCLF-FAMEASGGNVSGVMAYLNGSRIKKFFTIRTV 174
W L A + + AL ++ FA EA G + + L+G + + + R +
Sbjct: 60 APGPWLLPLVPA----LGGLLVGALLVYKFAPEARGSGIPQAIEALHGRKGR--ISPRVL 113
Query: 175 LVKMCSTTAMMCTATPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVS 234
VK+ +T + + G EGP + IGAA+G+ ++ +L + S
Sbjct: 114 PVKLVATLLTIGSGASLGREGPSVQIGAAIGS----LLGRL-----LKL--------SRE 156
Query: 235 ERRDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISDILEQ 294
+RR L G AAG++A F AP G A+E + + R +V +A ++ ++
Sbjct: 157 DRRILLAAGAAAGLAAAFNAPLAGALFAIEV---LYGRFLEYRALVPVLVAAVVALLVAG 213
Query: 295 SFV 297
F
Sbjct: 214 LFG 216
Score = 37.7 bits (88), Expect = 0.011
Identities = 35/164 (21%), Positives = 58/164 (35%), Gaps = 25/164 (15%)
Query: 131 MIFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVL----VKMCSTTAMMC 186
G+ E G + L G + +L +K+ +T
Sbjct: 274 PALGGLLVGALGLLFPEVLGNGYGLIQLALAGE-----GGLLVLLLLFLLKLLATLLSYG 328
Query: 187 TATPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAA 246
+ PGG+ P + IGAA+G + L P A + G+AA
Sbjct: 329 SGAPGGIFAPSLFIGAALGLAF-GALLGLLFPPSILEPGLFA------------LLGMAA 375
Query: 247 GVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISD 290
++A AP I L LE T + ++L L++ +A +S
Sbjct: 376 FLAATTRAPLTAIVLVLEMTGNY---QLLLPLLIACLIAYLVSR 416
>gnl|CDD|239656 cd03684, ClC_3_like, ClC-3-like chloride channel proteins. This CD
includes ClC-3, ClC-4, ClC-5 and ClC-Y1. ClC-3 was
initially cloned from rat kidney. Expression of ClC-3
produces outwardly-rectifying Cl currents that are
inhibited by protein kinase C activation. It has been
suggested that ClC-3 may be a ubiquitous
swelling-activated Cl channel that has very similar
characteristics to those of native volume-regulated Cl
currents. The function of ClC-4 is unclear. Studies of
human ClC-4 have revealed that it gives rise to Cl
currents that rapidly activate at positive voltages, and
are sensitive to extracellular pH, with currents
decreasing when pH falls below 6.5. ClC-4 is broadly
distributed, especially in brain and heart. ClC-5 is
predominantly expressed in the kidney, but can be found
in the brain and liver. Mutations in the ClC-5 gene
cause certain hereditary diseases, including Dent's
disease, an X-chromosome linked syndrome characterised
by proteinuria, hypercalciuria, and kidney stones
(nephrolithiasis), leading to progressive renal failure.
These proteins belong to the ClC superfamily of
chloride ion channels, which share the unique
double-barreled architecture and voltage-dependent
gating mechanism. The gating is conferred by the
permeating anion itself, acting as the gating charge.
This domain is found in the eukaryotic halogen ion (Cl-
and I-) channel proteins, that perform a variety of
functions including cell volume regulation, the membrane
potential stabilization, transepithelial chloride
transport and charge compensation necessary for the
acidification of intracellular organelles.
Length = 445
Score = 76.5 bits (189), Expect = 4e-15
Identities = 52/170 (30%), Positives = 81/170 (47%), Gaps = 27/170 (15%)
Query: 123 YLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLVKMCSTT 182
Y+ LA ++F IA L A A+G + + L+G I+ F T+L+K S
Sbjct: 31 YVLLA---LLFAFIAVLLVKVVAPYAAGSGIPEIKTILSGFIIRGFLGKWTLLIK--SVG 85
Query: 183 AMMCTATPG---GMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDL 239
++ A+ G G EGP++HI VGNI + K Y + ++RR++
Sbjct: 86 LVLAVAS-GLSLGKEGPLVHIATCVGNIISRLFPK--------------YRRNEAKRREI 130
Query: 240 SVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFIS 289
AAGV+ FGAP GG+ +LEE + +F + L R SF ++
Sbjct: 131 LSAAAAAGVAVAFGAPIGGVLFSLEEVSYYFPLKTLWR----SFFCALVA 176
>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 = 75.0 bits (185), Expect = 1e-14
Identities = 48/196 (24%), Positives = 87/196 (44%), Gaps = 15/196 (7%)
Query: 76 WAMVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLG 135
W + L G+++ +I M V + + +WL + YL + + +
Sbjct: 2 WLFLALLGILMALISIAMDFAVEKLLNAR-RWL---YSLLTGNSLLQYLVWVAYPVALVL 57
Query: 136 IACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLVKMCSTTAMMCTATPGGMEG 195
+ C + + +A G + + L G + ++ T +T++ K+ T + + P G EG
Sbjct: 58 FSALFCKYISPQAVGSGIPEMKTILRGVVLPEYLTFKTLVAKVIGLTCALGSGLPLGKEG 117
Query: 196 PIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAP 255
P +HI + V L +K T S Y N S R ++ A GV+ FGAP
Sbjct: 118 PFVHISSIVAA----------LLSKLTTFFSGIYENE-SRRMEMLAAACAVGVACTFGAP 166
Query: 256 FGGIFLALEETTTFFS 271
GG+ ++E T+T+F+
Sbjct: 167 IGGVLFSIEVTSTYFA 182
>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 = 70.3 bits (173), Expect = 3e-13
Identities = 49/212 (23%), Positives = 81/212 (38%), Gaps = 28/212 (13%)
Query: 83 GVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLGIACALCL 142
GV+ G+ + + +L L L ++ + +
Sbjct: 1 GVLSGLGAVLFRLLIELLQNLLFGGLPGELAAGSLSPLYILLVPVIGGLLVGLL-----V 55
Query: 143 FFAMEASGGNVSGVM--AYLNGSRIKKFFTIRTVLVKMCSTTAMMCTATPGGMEGPIIHI 200
A G + V+ L G R+ +R LVK ++ + + G EGPI+ I
Sbjct: 56 RLLGPARGHGIPEVIEAIALGGGRLP----LRVALVKFLASALTLGSGGSVGREGPIVQI 111
Query: 201 GAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAPFGGIF 260
GAA+G+ + +L L +RR L CG AAG++A F AP G
Sbjct: 112 GAAIGSW---LGRRLRLSRN--------------DRRILVACGAAAGIAAAFNAPLAGAL 154
Query: 261 LALEETTTFFSAEMLPRLVVGSFLAKFISDIL 292
A+E +S L +++ S A +S +L
Sbjct: 155 FAIEVLLGEYSVASLIPVLLASVAAALVSRLL 186
Score = 41.0 bits (97), Expect = 8e-04
Identities = 46/209 (22%), Positives = 78/209 (37%), Gaps = 46/209 (22%)
Query: 64 GQSSLVGFYVLRWAMVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQ----DV 119
G +L + +L G++ G+ GV F V+ L I F +
Sbjct: 194 GVPLYDPLSLLELPLYLLLGLLAGL------VGVLF-----VRLLYKIERLFRRLPIPPW 242
Query: 120 WRTYLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRT----VL 175
R LG G+ L F + G ++ L G ++ +L
Sbjct: 243 LRPALG---------GLLLGLLGLFLPQVLGSGYGAILLALAGE-----LSLLLLLLLLL 288
Query: 176 VKMCSTTAMMCTATPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSE 235
+K+ +T + + PGG+ P + IGAA+G +++ L P + + A
Sbjct: 289 LKLLATALTLGSGFPGGVFAPSLFIGAALGAAFGLLLPAL-FPGLVASPGAYA------- 340
Query: 236 RRDLSVCGVAAGVSAGFGAPFGGIFLALE 264
+ G+AA ++A AP I L LE
Sbjct: 341 -----LVGMAALLAAVLRAPLTAILLVLE 364
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 57.2 bits (139), Expect = 6e-09
Identities = 43/192 (22%), Positives = 70/192 (36%), Gaps = 30/192 (15%)
Query: 78 MVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLGIA 137
M + G + G++ V + + ++ L + ++ + + I
Sbjct: 3 MAAVVGTLTGLVGVAFELAVDWVQNQRLGLL----ASVADNGLLLWIVAFLISAVLAMIG 58
Query: 138 CALCLFFAMEASGGNVSGVMAYLNGSRIKKFFTIRTVLVK----MCSTTAMMCTATPGGM 193
L FA EA G + + L G R R + VK + + + M G
Sbjct: 59 YFLVRRFAPEAGGSGIPEIEGALEGLR--PVRWWRVLPVKFFGGLGTLGSGMVL----GR 112
Query: 194 EGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFG 253
EGP + +G GNI +V+ L + R L G AAG++A F
Sbjct: 113 EGPTVQMG---GNIGRMVLDIFRLRSD-------------EARHTLLAAGAAAGLAAAFN 156
Query: 254 APFGGIFLALEE 265
AP GI +EE
Sbjct: 157 APLAGILFVIEE 168
Score = 35.6 bits (83), Expect = 0.041
Identities = 56/241 (23%), Positives = 94/241 (39%), Gaps = 48/241 (19%)
Query: 76 WAMVVLTGVMVGVIHFIMHAGVTFGSSL-KVQWLEVITDGFPQDVWRTYLGLAGFNMIFL 134
W ++L G++ G+ GV F L + Q L D + ++ + G +
Sbjct: 218 WLFLLL-GIIFGIF------GVLFNKLLLRTQDL---FDRLHGGNKKRWVLMGGA----V 263
Query: 135 GIACALCLFFAMEASGGNVSGVMAYLNG----SRIKKFFTIRTVLVKMCSTTAMMCTATP 190
G C L A A GG + + L G + F R + +C + P
Sbjct: 264 GGLCGLLGLLAPAAVGGGFNLIPIALAGNFSIGMLLFIFVARFITTLLC-----FGSGAP 318
Query: 191 GGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSA 250
GG+ P++ +G +G +V A L P E ++ G+ A +A
Sbjct: 319 GGIFAPMLALGTLLGLAFGMVAAAL--------FPQY-----HIEPGTFAIAGMGALFAA 365
Query: 251 GFGAPFGGIFLALEETTTFFSAEMLPRLV---VGSFLAKFI------SDILEQSFVESEL 301
AP GI L LE T + +LP ++ + LA+F+ S +LE++ + E
Sbjct: 366 TVRAPLTGIVLVLEMTDNYQL--ILPLIITCLGATLLAQFLGGKPIYSALLERTLAKQEA 423
Query: 302 E 302
E
Sbjct: 424 E 424
>gnl|CDD|238506 cd01034, EriC_like, ClC chloride channel family. These protein
sequences, closely related to the ClC Eric family, are
putative halogen ion (Cl-, Br- and I-) transport
proteins found in eubacteria. They belong to the ClC
superfamily of chloride ion channels, which share a
unique double-barreled architecture and
voltage-dependent gating mechanism. This superfamily
lacks any structural or sequence similarity to other
known ion channels and exhibit unique properties of ion
permeation and gating. The voltage-dependent gating is
conferred by the permeating anion itself, acting as the
gating charge.
Length = 390
Score = 52.6 bits (127), Expect = 2e-07
Identities = 36/125 (28%), Positives = 54/125 (43%), Gaps = 19/125 (15%)
Query: 144 FAMEASGGNVSGVMAYL---NGSRIKKFFTIRTVLVKMCSTTAMMCTATPGGMEGPIIHI 200
F A+G + V+A L + + ++ ++RT + K+ T + G EGP + I
Sbjct: 47 FFPGAAGSGIPQVIAALELPSAAARRRLLSLRTAVGKILLTLLGLLGGASVGREGPSVQI 106
Query: 201 GAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAGFGAPFGGIF 260
GAAV L +SER L + G AAG++A F P GI
Sbjct: 107 GAAV---------------MLAIGRRLPKWGGLSER-GLILAGGAAGLAAAFNTPLAGIV 150
Query: 261 LALEE 265
A+EE
Sbjct: 151 FAIEE 155
Score = 41.4 bits (98), Expect = 6e-04
Identities = 50/221 (22%), Positives = 80/221 (36%), Gaps = 49/221 (22%)
Query: 76 WAMVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLG 135
W +V++ GV+ G+ AG F L L + G P V R +
Sbjct: 202 WLLVLVCGVVGGL------AGGLFARLL--VAL---SSGLPGWVRR----FRRRRPVLFA 246
Query: 136 IACALCLFFAMEASGGNVSGVMAYLNGSRIKK-------FFTIRTVLVKMCSTTAMMCTA 188
C L L A G VSG + + G + + L+K +T +
Sbjct: 247 ALCGLAL-----ALIGLVSGGLTFGTGYLQARAALEGGGGLPLWFGLLKFLATLLSYWSG 301
Query: 189 TPGGMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGV 248
PGG+ P + +GA +G+ LA L + L + G+AA +
Sbjct: 302 IPGGLFAPSLAVGAGLGS-------------------LLAALLGSVSQGALVLLGMAAFL 342
Query: 249 SAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFIS 289
+ AP + +E T +ML L+ + LA +S
Sbjct: 343 AGVTQAPLTAFVIVMEMTGD---QQMLLPLLAAALLASGVS 380
>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 = 39.1 bits (92), Expect = 0.004
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 22/104 (21%)
Query: 192 GMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAG 251
G EG + +G ++ + ++ F+ +RR L + G+AAG +A
Sbjct: 96 GREGTAVQMGGSLAD----AFGRV-----FKLPEE--------DRRILLIAGIAAGFAAV 138
Query: 252 FGAPFGGIFLALEETT---TFFSAEMLPRLVVGSFLAKFISDIL 292
FG P G ALE +SA ++P L V + +A ++S L
Sbjct: 139 FGTPLAGAIFALEVLVLGRLRYSA-LIPCL-VAAIVADWVSHAL 180
Score = 30.6 bits (70), Expect = 1.7
Identities = 31/116 (26%), Positives = 42/116 (36%), Gaps = 26/116 (22%)
Query: 175 LVKMCSTTAMMCTATPGGMEGPIIHIGAAVGN-IAPIVIAKLPLPTKFRTAPSLAYLNSV 233
L+K+ T + GG P+ IGA +GN +API L LP LA L
Sbjct: 281 LLKLIFTVITLGAGFKGGEVTPLFFIGATLGNALAPI----LGLPVSL-----LAAL--- 328
Query: 234 SERRDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFIS 289
G A + P I + +E F AE P + +A S
Sbjct: 329 ---------GFVAVFAGATNTPLACIIMGIE----LFGAENAPYFFIACLVAYLFS 371
>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 = 33.4 bits (77), Expect = 0.19
Identities = 17/61 (27%), Positives = 29/61 (47%)
Query: 232 SVSERRDLSVCGVAAGVSAGFGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFISDI 291
+V++RR L C AG++A + P G ALE S + + S +A ++ +
Sbjct: 126 TVADRRLLVACAAGAGLAAVYNVPLAGALFALEILLRTISLRSVVAALATSAIAAAVASL 185
Query: 292 L 292
L
Sbjct: 186 L 186
>gnl|CDD|215911 pfam00421, PSII, Photosystem II protein.
Length = 432
Score = 32.8 bits (75), Expect = 0.33
Identities = 20/82 (24%), Positives = 29/82 (35%), Gaps = 6/82 (7%)
Query: 76 WAMVVLTGVMVGVIHFIMHAGVTFGS-SLKVQWLEVITDGFP--QDVWRTYLGLA---GF 129
W + + GV H I A + G + V+ D W L L G
Sbjct: 73 WVIDTEPYFVPGVEHLISSAVLGSGGLFHALIGPWVLWDSLEFFGRTWEDKLDLPKILGI 132
Query: 130 NMIFLGIACALCLFFAMEASGG 151
++ LG+ L + AM GG
Sbjct: 133 HLFLLGLGAFLLVAKAMTGGGG 154
>gnl|CDD|213589 TIGR01153, psbC, photosystem II 44 kDa subunit reaction center
protein (also called P6 protein, CP43), bacterial and
chloroplast. This model describes the Photosystem II,
44kDa subunit (also called P6 protein, CP43) in
bacterial and its equivalents in chloroplast of algae
and higher plants. Photosystem II is in many ways
functionally equivalent to bacterial reaction center. At
the core of Photosystem II are several light harvesting
cofactors including plastoquinones, pheophytins,
phyloquinones etc. These cofactors are intimately
associated with the polypeptides, which principally
including subunits 44 kDa protein,DI, DII, Cyt.b, Cyt.f,
iron-sulphur protein and others. Functinally 44 kDa
subunit is imlicated in chlorophyll binding. Together
they participate in the electron transfer reactions that
lead to the net production of the reducting equivalents
in the form of NADPH, which are used for reduction of
CO2 to carbohydrates(C6H1206). Phosystem II operates
during oxygenic photosynthesis and principal electron
donor is H2O. Although no high resolution X-ray
structural data is presently available, recently a 3D
structure of the supercomplex has been described by
cryo-electron microscopy. Besides a huge body of
literature exits that describes function using a variety
of biochemical and biophysical techniques [Energy
metabolism, Electron transport, Energy metabolism,
Photosynthesis].
Length = 432
Score = 32.1 bits (73), Expect = 0.61
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 86 VGVIHFIMHAGVTFGSSLKVQW----LEVITDGFPQDVWR---TYLGLAGFNMIFLGIAC 138
VGV+H I A + FG LE + F D W+ + G+++I LGI
Sbjct: 82 VGVLHLISSAVLGFGGIYHSLRGPEKLEEYSSFFGYD-WKDKNQMTNILGYHLILLGIGA 140
Query: 139 ALCLFFAM 146
L + A
Sbjct: 141 LLLVAKAC 148
>gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component
regulatory system with RcsB and YojN; Provisional.
Length = 924
Score = 31.1 bits (71), Expect = 1.2
Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 3/27 (11%)
Query: 282 SFLAKFISDILEQSFVESE---LEPGE 305
S L K ISDIL+ S +ESE +EP E
Sbjct: 493 SLLLKIISDILDFSKIESEQLKIEPRE 519
>gnl|CDD|233919 TIGR02547, casA_cse1, CRISPR type I-E/ECOLI-associated protein
CasA/Cse1. CRISPR is a term for Clustered, Regularly
Interspaced Short Palidromic Repeats. A number of
protein families appear only in association with these
repeats and are designated Cas (CRISPR-Associated)
proteins. This model family, represented by CT1972 from
Chlorobium tepidum, is found in Ecoli subtype CRISPR/Cas
regions of many bacteria, most of which are mesophiles,
and not in Archaea. It is designated Cse1 [Mobile and
extrachromosomal element functions, Other].
Length = 503
Score = 30.5 bits (69), Expect = 1.7
Identities = 11/34 (32%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 92 IMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLG 125
I+ F W E+ DG P D R YL
Sbjct: 53 ILQR--AFAPKDTEDWKEIWRDGLPADKLRKYLN 84
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 30.5 bits (69), Expect = 2.1
Identities = 25/98 (25%), Positives = 37/98 (37%), Gaps = 17/98 (17%)
Query: 192 GMEGPIIHIGAAVGNIAPIVIAKLPLPTKFRTAPSLAYLNSVSERRDLSVCGVAAGVSAG 251
G EGP++ + A + L +F R L CG AAG+++
Sbjct: 136 GREGPMVQLAALAAS----------LVGRFAHFDP-------PRLRLLVACGAAAGITSA 178
Query: 252 FGAPFGGIFLALEETTTFFSAEMLPRLVVGSFLAKFIS 289
+ AP G F E + E LVV S +A +
Sbjct: 179 YNAPIAGAFFVAEIVLGSIAMESFGPLVVASVVANIVM 216
>gnl|CDD|150752 pfam10112, Halogen_Hydrol, 5-bromo-4-chloroindolyl phosphate
hydrolysis protein. Members of this family of
prokaryotic proteins mediate the hydrolysis of
5-bromo-4-chloroindolyl phosphate bonds.
Length = 199
Score = 28.8 bits (65), Expect = 3.9
Identities = 10/49 (20%), Positives = 18/49 (36%)
Query: 120 WRTYLGLAGFNMIFLGIACALCLFFAMEASGGNVSGVMAYLNGSRIKKF 168
T +G+ + +L L F + G +G + Y G R +
Sbjct: 9 LGTLVGIPIAAIAWLVSFFGLDQSFLLSLLIGAGAGWVVYAAGKRRARR 57
>gnl|CDD|223032 PHA03283, PHA03283, envelope glycoprotein E; Provisional.
Length = 542
Score = 29.1 bits (65), Expect = 5.1
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 10/68 (14%)
Query: 339 VIGDISRCLLYKLMASQVFDAPQPFPEDGYSSLYKIIFTKDCSIEYLQQVRQDMLLNVSE 398
V + C+LY+ + ++ PF ++Y + + D + +++ D S+
Sbjct: 415 VALVVWGCILYRRSNRKPYEVLNPFE-----TVYTSVPSNDPEVLVFERLASD-----SD 464
Query: 399 DDKDKLLD 406
D D D
Sbjct: 465 DSFDSSSD 472
>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 = 28.4 bits (64), Expect = 7.3
Identities = 20/70 (28%), Positives = 28/70 (40%), Gaps = 7/70 (10%)
Query: 77 AMVVLTGVMVGVIHFIMHAGVTFGSSLKVQWLEVITDGFPQDVWRTYLGLAGFNMIFLGI 136
A ++ T + FI+ A F WL +T G P V L L G ++FL +
Sbjct: 262 AALLQTARTTAAVLFILAAAGIFA------WLLTLT-GVPFAVSDWLLSLGGGKLLFLIL 314
Query: 137 ACALCLFFAM 146
L L M
Sbjct: 315 VNLLLLVLGM 324
>gnl|CDD|185690 cd02181, GH16_fungal_Lam16A_glucanase, fungal
1,3(4)-beta-D-glucanases, similar to Phanerochaete
chrysosporium laminarinase 16A. Group of fungal
1,3(4)-beta-D-glucanases, similar to Phanerochaete
chrysosporium laminarinase 16A. Lam16A belongs to the
'nonspecific' 1,3(4)-beta-glucanase subfamily, although
beta-1,6 branching and beta-1,4 bonds specifically
define where Lam16A hydrolyzes its substrates, like
curdlan (beta-1,3-glucan), lichenin (beta-1,3-1,4-mixed
linkage glucan), and laminarin
(beta-1,6-branched-1,3-glucan).
Length = 293
Score = 28.0 bits (63), Expect = 8.8
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 242 CGVAAGVSAGFGAPF----GGIFLALEETTTFFSAEMLPR 277
CGV + + +GA F GG++ A+E T+ PR
Sbjct: 162 CGVTSTSTNSYGAGFNAAGGGVY-AMEWTSDGIKVWFFPR 200
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 0.404
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,765,727
Number of extensions: 2148728
Number of successful extensions: 2137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2106
Number of HSP's successfully gapped: 56
Length of query: 422
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 323
Effective length of database: 6,546,556
Effective search space: 2114537588
Effective search space used: 2114537588
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (26.8 bits)