RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15912
(482 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 = 192 bits (489), Expect = 1e-55
Identities = 71/159 (44%), Positives = 96/159 (60%), Gaps = 34/159 (21%)
Query: 44 SLSVFVVTYFLLSVWTYGVSVSGGGMPEKYDFLSKDNVWKSNGKPRSLSEQLSDSGGVFI 103
+L +F V Y+ L+ WT+G++V G +FI
Sbjct: 335 TLLIFFVLYYFLACWTFGIAVPSG---------------------------------LFI 361
Query: 104 PCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIILIEATG 163
P +L GAA+GRL + L S F T IDPG YAL+GAAA LGGV+RMT+SLT+IL+E T
Sbjct: 362 PMILIGAAYGRLVGILLGSYF-GFTSIDPGLYALLGAAAFLGGVMRMTVSLTVILLELTN 420
Query: 164 NISFGLPLMLTLITAKWIGDFFTEGLYDIHIQLSGIPLL 202
N+++ P+ML L+ AKW+GD+F EG+YDI IQL G+P L
Sbjct: 421 NLTYLPPIMLVLMIAKWVGDYFNEGIYDIIIQLKGVPFL 459
>gnl|CDD|238507 cd01036, ClC_euk, Chloride channel, ClC. These domains are found
in the eukaryotic halogen ion (Cl-, Br- and I-) channel
proteins that perform a variety of functions including
cell volume regulation, membrane potential
stabilization, charge compensation necessary for the
acidification of intracellular organelles, signal
transduction and transepithelial transport. They are
also involved in many pathophysiological processes and
are responsible for a number of human diseases. These
proteins belong to the ClC superfamily of chloride ion
channels, which share the unique double-barreled
architecture and voltage-dependent gating mechanism.
The gating is conferred by the permeating anion itself,
acting as the gating charge. Some proteins possess long
C-terminal cytoplasmic regions containing two CBS
(cystathionine beta synthase) domains of putative
regulatory function.
Length = 416
Score = 124 bits (314), Expect = 2e-31
Identities = 54/155 (34%), Positives = 75/155 (48%), Gaps = 40/155 (25%)
Query: 44 SLSVFVVTYFLLSVWTYGVSVSGGGMPEKYDFLSKDNVWKSNGKPRSLSEQLSDSGGVFI 103
+L +F++ YF +S +G++V GG FI
Sbjct: 295 TLLLFLLIYFWMSALAFGIAVPGG---------------------------------TFI 321
Query: 104 PCLLTGAAWGRLFSLFLQSIFPE-------ATWIDPGKYALIGAAAQLGGVVRMTISLTI 156
P L+ GAA GRL L + I W DPG YALIGAAA LGG R+T S+ +
Sbjct: 322 PSLVIGAAIGRLVGLLVHRIAVAGIGAESATLWADPGVYALIGAAAFLGGTTRLTFSICV 381
Query: 157 ILIEATGNISFGLPLMLTLITAKWIGDFFTEGLYD 191
I++E TG++ LPLM+ ++ AK + D F E LY
Sbjct: 382 IMMELTGDLHHLLPLMVAILIAKAVADAFCESLYH 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 = 112 bits (282), Expect = 6e-27
Identities = 47/118 (39%), Positives = 75/118 (63%), Gaps = 14/118 (11%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSI---FPEATW----------IDPGKYALIGAAAQLG 145
G+F+P + GA +GR+ + ++ + +P++ + I PG YA++GAAA LG
Sbjct: 328 AGIFVPSMAVGALFGRIVGILVEQLAYSYPDSIFFACCTAGPSCITPGLYAMVGAAAFLG 387
Query: 146 GVVRMTISLTIILIEATGNISFGLPLMLTLITAKWIGDFFT-EGLYDIHIQLSGIPLL 202
GV RMT+SL +I+ E TG +++ LPLM+ ++ +KW+ D EG+YD HI L+G P L
Sbjct: 388 GVTRMTVSLVVIMFELTGALNYILPLMIAVMVSKWVADAIGKEGIYDAHIHLNGYPFL 445
>gnl|CDD|216046 pfam00654, Voltage_CLC, Voltage gated chloride channel. This
family of ion channels contains 10 or 12 transmembrane
helices. Each protein forms a single pore. It has been
shown that some members of this family form homodimers.
In terms of primary structure, they are unrelated to
known cation channels or other types of anion channels.
Three ClC subfamilies are found in animals. ClC-1 is
involved in setting and restoring the resting membrane
potential of skeletal muscle, while other channels play
important parts in solute concentration mechanisms in
the kidney. These proteins contain two pfam00571
domains.
Length = 345
Score = 100 bits (251), Expect = 3e-23
Identities = 42/156 (26%), Positives = 65/156 (41%), Gaps = 36/156 (23%)
Query: 29 VRTMLHDPKGAFGVFSLSVFVVTYFLLSVWTYGVSVSGGGMPEKYDFLSKDNVWKSNGKP 88
++ +L+ + L + ++ L + + G SG
Sbjct: 226 IQLLLNG--STLSLLLLLLLLLLKLLATALSLG---SGA--------------------- 259
Query: 89 RSLSEQLSDSGGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVV 148
GG+F P L GAA GRL L L +FP PG +AL+G AA L GV
Sbjct: 260 ---------PGGIFAPSLFIGAALGRLLGLLLPLLFPG-IAPSPGAFALLGMAAFLAGVT 309
Query: 149 RMTISLTIILIEATGNISFGLPLMLTLITAKWIGDF 184
R ++ +++ E TG+ S LPLML ++ A +
Sbjct: 310 RAPLTAIVLVFELTGSYSLLLPLMLAVLIAYLVSRL 345
>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 = 85.8 bits (213), Expect = 2e-20
Identities = 37/118 (31%), Positives = 53/118 (44%), Gaps = 48/118 (40%)
Query: 345 SPGRLVGLILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLVVSENDRS 404
RLVG ILRSQL++ +K+
Sbjct: 36 ESPRLVGYILRSQLVVALKN---------------------------------------- 55
Query: 405 FTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
+++ SPF+V TSL +V +LFR LGLRH++VV + +VG+ITRKDL +
Sbjct: 56 -------YIDPSPFTVSPRTSLEKVHQLFRKLGLRHLLVV-DEGRLVGIITRKDLLKA 105
Score = 42.2 bits (100), Expect = 4e-05
Identities = 27/97 (27%), Positives = 36/97 (37%), Gaps = 40/97 (41%)
Query: 220 SHPVICLRPLETVGNIIDVLKATSHNGFPIVDVEPMTKHSSDGAEQSSAGSTDSHKGDTS 279
V+ L TV ++ +L TSHNGFP+VD
Sbjct: 1 VPLVVLLPEGMTVEDLESLLSTTSHNGFPVVD---------------------------- 32
Query: 280 HKRDSSHKGDASRKESPGRLVGLILRSQLIILIKHKI 316
E RLVG ILRSQL++ +K+ I
Sbjct: 33 ------------STEESPRLVGYILRSQLVVALKNYI 57
>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 = 91.2 bits (227), Expect = 7e-20
Identities = 39/110 (35%), Positives = 61/110 (55%), Gaps = 7/110 (6%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATW------IDPGKYALIGAAAQLGGVVRMTI 152
G+F+P + GAA GRL + +FPE I PG YA++GAAA G V T+
Sbjct: 316 AGIFMPVFVIGAALGRLVGEIMAVLFPEGIRGGISNPIGPGGYAVVGAAAFSGAVTH-TV 374
Query: 153 SLTIILIEATGNISFGLPLMLTLITAKWIGDFFTEGLYDIHIQLSGIPLL 202
S+ +I+ E TG IS LP+++ ++ + + F +YD I++ +P L
Sbjct: 375 SVAVIIFELTGQISHLLPVLIAVLISNAVAQFLQPSIYDSIIKIKKLPYL 424
>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 = 78.0 bits (193), Expect = 1e-15
Identities = 36/81 (44%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 98 SGGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTII 157
GGVF P L GAA G F L L ++FP PG YAL+G AA L V+R ++ ++
Sbjct: 303 PGGVFAPSLFIGAALGAAFGLLLPALFPGLV-ASPGAYALVGMAALLAAVLRAPLTAILL 361
Query: 158 LIEATGNISFGLPLMLTLITA 178
++E TG+ S LPLML ++ A
Sbjct: 362 VLELTGDYSLLLPLMLAVVIA 382
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 72.4 bits (178), Expect = 1e-13
Identities = 34/106 (32%), Positives = 54/106 (50%), Gaps = 2/106 (1%)
Query: 98 SGGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTII 157
GG+F P L GAA G F L +FP + ++PG +AL+G AA L R ++ ++
Sbjct: 332 PGGIFAPSLFIGAALGLAFGALLGLLFP-PSILEPGLFALLGMAAFLAATTRAPLTAIVL 390
Query: 158 LIEATGNISFGLPLMLTLITAKWIGD-FFTEGLYDIHIQLSGIPLL 202
++E TGN LPL++ + A + +Y + G P+L
Sbjct: 391 VLEMTGNYQLLLPLLIACLIAYLVSRLLGGRPIYTQLLARRGAPIL 436
>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 = 57.6 bits (140), Expect = 5e-11
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M +V TSL +L R G+ + VV+ + +VG++T +DL R
Sbjct: 4 IMTPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLLRA 54
Score = 26.7 bits (60), Expect = 4.7
Identities = 5/32 (15%), Positives = 17/32 (53%)
Query: 220 SHPVICLRPLETVGNIIDVLKATSHNGFPIVD 251
+ V+ + P ++ +++++ + P+VD
Sbjct: 6 TPDVVTVPPDTSLEEALELMRENGISRLPVVD 37
>gnl|CDD|239067 cd02205, CBS_pair, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 56.7 bits (137), Expect = 4e-10
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 392 SVNDLV--VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNH 449
+ DL+ ++E V + M +V TSL +L G+R + VV++
Sbjct: 41 TERDLLRALAEGGLDPLVTVGDVMTRDVVTVSPDTSLEEAAELMLEHGIRRLPVVDDEGR 100
Query: 450 VVGMITRKDLARY 462
+VG++TR D+ R
Sbjct: 101 LVGIVTRSDILRA 113
Score = 47.8 bits (114), Expect = 6e-07
Identities = 11/47 (23%), Positives = 24/47 (51%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+V ++ +L G+ + VV+++ +VG++T +DL R
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDLLR 47
Score = 27.4 bits (61), Expect = 7.4
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 221 HPVICLRPLETVGNIIDVLKATSHNGFPIVD 251
V+ + P +TV + ++ +G P+VD
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVD 31
>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 = 60.6 bits (148), Expect = 6e-10
Identities = 31/80 (38%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GG+F P L GA G LF L + P P +A+ G AA VVR I+ I++
Sbjct: 306 GGIFAPMLALGALLGLLFGTILVQLGPIPI-SAPATFAIAGMAAFFAAVVRAPITAIILV 364
Query: 159 IEATGNISFGLPLMLTLITA 178
E TGN + LPLM+ + A
Sbjct: 365 TEMTGNFNLLLPLMVVCLVA 384
>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 = 51.4 bits (124), Expect = 6e-09
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYR 463
+V T+L +L R G+R + VV+ +VG++TR+D+ +
Sbjct: 2 VVTVSPDTTLEEALELLRENGIRRLPVVDEEGRLVGIVTRRDIIKAL 48
Score = 32.5 bits (75), Expect = 0.032
Identities = 7/30 (23%), Positives = 15/30 (50%)
Query: 222 PVICLRPLETVGNIIDVLKATSHNGFPIVD 251
V+ + P T+ +++L+ P+VD
Sbjct: 1 DVVTVSPDTTLEEALELLRENGIRRLPVVD 30
>gnl|CDD|235385 PRK05277, PRK05277, chloride channel protein; Provisional.
Length = 438
Score = 54.1 bits (131), Expect = 8e-08
Identities = 26/80 (32%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GG+F P L G G F + ++FP+ I+PG +A+ G A VR ++ +++
Sbjct: 319 GGIFAPMLALGTLLGLAFGMVAAALFPQYH-IEPGTFAIAGMGALFAATVRAPLTGIVLV 377
Query: 159 IEATGNISFGLPLMLTLITA 178
+E T N LPL++T + A
Sbjct: 378 LEMTDNYQLILPLIITCLGA 397
>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 574
Score = 54.4 bits (131), Expect = 8e-08
Identities = 33/98 (33%), Positives = 52/98 (53%), Gaps = 8/98 (8%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GGVF P L GA G LF L + +++P T P YA++G A L G + + +++
Sbjct: 337 GGVFTPTLFVGAVVGSLFGLAMHALWPGHT-SAPFAYAMVGMGAFLAGATQAPLMAILMI 395
Query: 159 IEATGNISFGLPLMLTLI----TAKWIGDFFTEGLYDI 192
E T + LPLM++ + TA+ +G T +Y+I
Sbjct: 396 FEMTLSYQVVLPLMVSCVVAYFTARALG---TTSMYEI 430
>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 = 30/94 (31%), Positives = 44/94 (46%), Gaps = 8/94 (8%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GG+F P L GA G L + L S+ G L+G AA L GV + ++ +I+
Sbjct: 304 GGLFAPSLAVGAGLGSLLAALLGSV-------SQGALVLLGMAAFLAGVTQAPLTAFVIV 356
Query: 159 IEATGNISFGLPLMLTLITAKWIGDFF-TEGLYD 191
+E TG+ LPL+ + A + E LY
Sbjct: 357 MEMTGDQQMLLPLLAAALLASGVSRLVCPEPLYH 390
>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 = 48.3 bits (116), Expect = 3e-07
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 18/82 (21%)
Query: 396 LVVSENDR------------------SFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALG 437
LVV EN R S ++ MN +P + + +S + L R
Sbjct: 29 LVVDENGRLLGTVTDGDIRRALLKGLSLDDPVSEVMNRNPITAKVGSSREEILALMRERS 88
Query: 438 LRHVVVVNNNNHVVGMITRKDL 459
+RH+ +++ VVG+ T DL
Sbjct: 89 IRHLPILDEEGRVVGLATLDDL 110
>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 = 47.1 bits (113), Expect = 1e-06
Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 395 DLV---VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVV 451
D+V V+E T + M +V + + +L R +R + VV+++ +V
Sbjct: 43 DIVVRAVAEGRDPDTTTVGDVMTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDDGRLV 102
Query: 452 GMITRKDLAR 461
G+++ DLAR
Sbjct: 103 GIVSLGDLAR 112
Score = 29.8 bits (68), Expect = 1.0
Identities = 9/44 (20%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLA 460
+V ++ +L R + + V N+ +VG++T +D+
Sbjct: 3 VVTVSPDDTIREAARLMREHDVGALPVCEND-RLVGIVTDRDIV 45
>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 = 46.8 bits (112), Expect = 1e-06
Identities = 16/60 (26%), Positives = 33/60 (55%)
Query: 402 DRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+ M++ +V TSL +L R G+RH+VVV+++ ++G++++ DL +
Sbjct: 51 GPDLQTPVGEVMSSPLLTVPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDLLQ 110
>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 = 47.3 bits (113), Expect = 1e-06
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYR 463
+ ++ + SL +L R +RH+ VVN + +VG++T++DL R
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAA 49
Score = 37.6 bits (88), Expect = 0.002
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M T +V T L ++ + + VV++ +VG+ITR D R
Sbjct: 73 MKTDVLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDFLRL 122
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 44.8 bits (106), Expect = 7e-06
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYRV 464
M +V+ TS+ L G+ V VV++ +VG+IT +D+ R
Sbjct: 5 MTKDVITVKPDTSVRDALLLMSENGVSAVPVVDDG-KLVGIITERDILRALA 55
Score = 35.1 bits (81), Expect = 0.016
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 4/67 (5%)
Query: 395 DLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRAL-GLRHVVVVNNNN-HVVG 452
+ + R VK M +V T L +L +R + VV+++ +VG
Sbjct: 52 RALAAGGKRLLPVKE--VMTKPVVTVDPDTPLEEALELMVERHKIRRLPVVDDDGGKLVG 109
Query: 453 MITRKDL 459
+IT D+
Sbjct: 110 IITLSDI 116
>gnl|CDD|239955 cd04582, CBS_pair_ABC_OpuCA_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with the ABC transporter OpuCA.
OpuCA is the ATP binding component of a bacterial solute
transporter that serves a protective role to cells
growing in a hyperosmolar environment but the function
of the CBS domains in OpuCA remains unknown. In the
related ABC transporter, OpuA, the tandem CBS domains
have been shown to function as sensors for ionic
strength, whereby they control the transport activity
through an electronic switching mechanism. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. They are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 106
Score = 43.1 bits (102), Expect = 2e-05
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYR 463
T P +V+ L L LR + VV+ + +G +TR++ AR
Sbjct: 1 TEPITVRPDDPLSDALGLMDDSDLRALTVVDADGQPLGFVTRREAARAS 49
>gnl|CDD|239979 cd04606, CBS_pair_Mg_transporter, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domain in the magnesium transporter, MgtE. MgtE and its
homologs are found in eubacteria, archaebacteria, and
eukaryota. Members of this family transport Mg2+ or
other divalent cations into the cell via two highly
conserved aspartates. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 109
Score = 42.1 bits (100), Expect = 5e-05
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 392 SVNDLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVV 451
S+ DL++++ D ++ M+T SV V +LF L + VV+ +V
Sbjct: 42 SLRDLLLADPD----TPVSDIMDTDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRLV 97
Query: 452 GMITRKDL 459
G+IT D+
Sbjct: 98 GIITVDDV 105
>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 = 41.8 bits (99), Expect = 7e-05
Identities = 12/45 (26%), Positives = 25/45 (55%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
++ +T++ +L R +RH+ VV+ +VG++T +DL
Sbjct: 1 RDVVTITPTTTIAEALELMREHKIRHLPVVDEEGRLVGIVTDRDL 45
>gnl|CDD|240002 cd04631, CBS_pair_18, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 125
Score = 41.1 bits (97), Expect = 1e-04
Identities = 10/50 (20%), Positives = 25/50 (50%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M + ++ S+ +L + + VV+++ +VG++T +DL +
Sbjct: 76 MTRNVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERDLLKA 125
Score = 28.4 bits (64), Expect = 3.7
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNN-NHVVGMITRKDLARY 462
+V +T + K+ G R + VV+ +VG+IT D+ +Y
Sbjct: 1 KDVVTVPPTTPIMEAAKIMVRNGFRRLPVVDEGTGKLVGIITATDILKY 49
>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 = 40.3 bits (95), Expect = 3e-04
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 8/73 (10%)
Query: 397 VVSEND--RSFTVKLNL------FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNN 448
+V+E D R+ ++L M +V + KL R +RH +VV+
Sbjct: 39 IVTERDIVRAVAAGIDLDTPVSEIMTRDLVTVDPDEPVAEAAKLMRKNNIRHHLVVDKGG 98
Query: 449 HVVGMITRKDLAR 461
+VG+I+ +DL R
Sbjct: 99 ELVGVISIRDLVR 111
>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 = 39.9 bits (94), Expect = 3e-04
Identities = 16/64 (25%), Positives = 28/64 (43%)
Query: 398 VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRK 457
V R TV + M P + +L K + + VV+++ +VG+++R
Sbjct: 47 VPAEGREATVLVGDVMTRDPVTASPDETLRDALKRMAERDIGRLPVVDDSGRLVGIVSRS 106
Query: 458 DLAR 461
DL R
Sbjct: 107 DLLR 110
>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 = 39.6 bits (93), Expect = 5e-04
Identities = 24/115 (20%), Positives = 43/115 (37%), Gaps = 26/115 (22%)
Query: 347 GRLVGLILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLVVSENDRSFT 406
G+LVG++ L P + +I + Y ++ + VS+
Sbjct: 33 GKLVGIVTDRDL-----------KLASPSKATTLDI----WELYYLLSKIKVSD------ 71
Query: 407 VKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
M P +V S+ +L + + VV++ +VG+IT DL R
Sbjct: 72 -----IMTRDPITVSPDASVEEAAELMLERKISGLPVVDDQGRLVGIITESDLFR 121
Score = 35.3 bits (82), Expect = 0.015
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
+P +V TSL KL + +R + VV+ +VG++T +DL
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDRGK-LVGIVTDRDLKLA 47
>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 = 39.0 bits (92), Expect = 7e-04
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
P V +ST L + + R +VV+ G++T +D+
Sbjct: 66 PLFVPESTPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDI 108
Score = 27.5 bits (62), Expect = 6.4
Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNN-NHVVGMITRKDLARY 462
T ++ +L + +L G V + + ++++G++ KDL R
Sbjct: 1 TDIVALDADDTLEEILELIAESGHSRFPVYDGDLDNIIGVVHVKDLLRA 49
>gnl|CDD|239976 cd04603, CBS_pair_KefB_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the KefB (Kef-type K+ transport systems)
domain which is involved in inorganic ion transport and
metabolism. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 111
Score = 38.6 bits (90), Expect = 9e-04
Identities = 17/45 (37%), Positives = 21/45 (46%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
SV L K+ LG R VVVV+ N V+G +T DL
Sbjct: 1 IQTVSVNCENPLREAIKMINELGARAVVVVDEENKVLGQVTLSDL 45
>gnl|CDD|240007 cd04636, CBS_pair_23, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 132
Score = 38.9 bits (91), Expect = 0.001
Identities = 13/48 (27%), Positives = 23/48 (47%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
+V+ +L V ++ + V VV+N VVG+++ DL R
Sbjct: 1 KDVITVKKDDTLRDVVEILLTGKISGVPVVDNEGRVVGIVSEGDLIRK 48
Score = 31.2 bits (71), Expect = 0.54
Identities = 12/50 (24%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M +V + T++ V ++ ++ + VV++ +VG+I+R D+ R
Sbjct: 84 MTKKVITVDEDTTIEDVARIMSKKNIKRLPVVDDGK-LVGIISRGDIIRS 132
>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 = 38.8 bits (91), Expect = 0.001
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
M+ +V+ T + + L G HV VV+ + +VG++T+ DL
Sbjct: 75 MSPPVVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDL 121
Score = 34.5 bits (80), Expect = 0.029
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 419 SVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYRVWRHGGRMGLEELKI 478
+V TSL + L R ++ + VV+ + +VG++T++DL R+ G R L+
Sbjct: 6 TVTPDTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLRHARPD-GRRPLRGRLRG 64
Query: 479 SST 481
Sbjct: 65 RDK 67
>gnl|CDD|239969 cd04596, CBS_pair_DRTGG_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 108
Score = 38.4 bits (90), Expect = 0.001
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
Query: 389 RYPSVND------LVVSE--NDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRH 440
R+P V++ +V S+ + + M +P +V TS+ V + G+
Sbjct: 27 RFPVVDEKNKVVGIVTSKDVAGKDPDTTIEKVMTKNPITVNPKTSVASVAHMMIWEGIEM 86
Query: 441 VVVVNNNNHVVGMITRKDL 459
+ VV++N ++G+I+R+D+
Sbjct: 87 LPVVDDNKKLLGIISRQDV 105
Score = 28.7 bits (65), Expect = 2.4
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 439 RHVV--VVNNNNHVVGMITRKDLA 460
H VV+ N VVG++T KD+A
Sbjct: 24 GHSRFPVVDEKNKVVGIVTSKDVA 47
>gnl|CDD|239956 cd04583, CBS_pair_ABC_OpuCA_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with the ABC transporter OpuCA.
OpuCA is the ATP binding component of a bacterial solute
transporter that serves a protective role to cells
growing in a hyperosmolar environment but the function
of the CBS domains in OpuCA remains unknown. In the
related ABC transporter, OpuA, the tandem CBS domains
have been shown to function as sensors for ionic
strength, whereby they control the transport activity
through an electronic switching mechanism. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. They are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 109
Score = 37.5 bits (88), Expect = 0.002
Identities = 18/49 (36%), Positives = 25/49 (51%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
M F+VQ SL V L G ++V VV+ + +VG+ITR L
Sbjct: 60 MLEDVFTVQPDASLRDVLGLVLKRGPKYVPVVDEDGKLVGLITRSSLVD 108
Score = 27.1 bits (61), Expect = 9.3
Identities = 10/46 (21%), Positives = 25/46 (54%)
Query: 414 NTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
+P ++ +L KL R + ++VV+ +N ++G+++ + L
Sbjct: 1 IKNPVTITPDRTLAEAIKLMRDKKVDSLLVVDKDNKLLGIVSLESL 46
>gnl|CDD|226594 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 40.0 bits (94), Expect = 0.002
Identities = 23/79 (29%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 389 RYPSVNDL-----VVSEND---RSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRH 440
R+P VN VV+ D + + + M +P +V+ TS+ V ++ G+
Sbjct: 223 RFPVVNRSMKVVGVVTMRDVLDKKPSTTIEKVMTKNPITVRAKTSVASVAQMMIWEGIEM 282
Query: 441 VVVVNNNNHVVGMITRKDL 459
+ VV++NN ++G+ITR+D+
Sbjct: 283 LPVVDSNNTLLGIITRQDV 301
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 39.8 bits (94), Expect = 0.003
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
P +V TSL + L ++ + VV+ ++G+++ DLAR
Sbjct: 74 EIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEEGKLLGLVSLSDLAR 122
Score = 35.6 bits (83), Expect = 0.067
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 406 TVKLNLFMNTS-PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYR 463
++ ++ M T + L V ++ R VV+ + VVG+I+R L
Sbjct: 245 SIPVSYIMTTEDLVTFSKDDYLEDVKEVMLKSRYRSYPVVDEDGKVVGVISRYHLLSPV 303
>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 40.1 bits (94), Expect = 0.003
Identities = 19/107 (17%), Positives = 37/107 (34%), Gaps = 17/107 (15%)
Query: 378 LSSEIFHAEYPRYPSVNDLVVSE----------------NDRSFTVKLNLFMNTSPFSVQ 421
L +F P D + ++ +V
Sbjct: 104 LPKSVFMQLMEENPEFADFFLRSLAKRLRDIADRLAEQGESEFILTRVGEVKTLPAVTVS 163
Query: 422 DSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYRVWRHG 468
S+ + + G+ +VV++++ ++G++TRKDL R RV G
Sbjct: 164 PQASIQDAARKMKDEGVSSLVVLDDSGPLLGIVTRKDL-RSRVIADG 209
Score = 31.6 bits (72), Expect = 1.0
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 402 DRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
RS T K++ M + SV L + ++H+ V + +G++T D+ R
Sbjct: 209 GRSKTQKVSEVMTSPVISVDRGDFLFEAMLMMLRNRIKHLPVTEDGQ-PLGILTLTDILR 267
>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 = 36.9 bits (86), Expect = 0.003
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
M +V S +L V +L + G V VV+ + +VG++T +++
Sbjct: 62 MRRDFPTVSPSATLDAVLRLMQQGGAPAVPVVDGSGRLVGLVTLENV 108
Score = 27.6 bits (62), Expect = 6.2
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 443 VVNNNNHVVGMITRKDLAR 461
VV+ + H+VG++TR DL R
Sbjct: 29 VVDGDGHLVGLLTRDDLIR 47
>gnl|CDD|225979 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 39.0 bits (91), Expect = 0.004
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 408 KLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL--ARYRVW 465
+ M T +V+ T + GL + V++ +VG++++ DL A YR W
Sbjct: 316 TVKGIMTTPVVTVRPDTPAVELVPRLADEGLHALPVLDAAGKLVGIVSQTDLIAALYRNW 375
Query: 466 RHGG 469
Sbjct: 376 SQHL 379
Score = 30.2 bits (68), Expect = 2.9
Identities = 13/59 (22%), Positives = 31/59 (52%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYRVWRHGGRM 471
M+ +V TS+ KL + ++ + V++ + +VG++T++DL ++ R+
Sbjct: 251 MSRDVVTVSTDTSIDHARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLKHARPSPFQRL 309
>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 = 39.2 bits (92), Expect = 0.004
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GG+ P L GA G L + ++ P + +ALIGAAA L + ++ I++
Sbjct: 302 GGLLTPSLALGALLGALLGIVWNALLPPLSI---AAFALIGAAAFLAATQKAPLTALILV 358
Query: 159 IEATG-NISFGLPLML 173
+E T N F +PLML
Sbjct: 359 LEFTRQNPLFLIPLML 374
>gnl|CDD|225321 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 38.1 bits (89), Expect = 0.006
Identities = 11/54 (20%), Positives = 27/54 (50%)
Query: 406 TVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
K++ +M + ++ + + +L + ++V ++N VG+ITR D+
Sbjct: 233 DAKVSDYMRKNVITINEDEDIYDAIRLMNKNNVGRLLVTDSNGKPVGIITRTDI 286
>gnl|CDD|239968 cd04595, CBS_pair_DHH_polyA_Pol_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with an upstream DHH domain which
performs a phosphoesterase function and a downstream
polyA polymerase domain. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 35.7 bits (83), Expect = 0.008
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
+M+T +V T L V +L + V VV + +VG++TR DL R
Sbjct: 61 YMSTDVVTVPPDTPLSEVQELMVEHDIGRVPVVEDGR-LVGIVTRTDLLRT 110
Score = 26.8 bits (60), Expect = 10.0
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 220 SHPVICLRPLETVGNIIDVLKATSHNGFPIVD 251
S PV +RP T+ ++L H P+V+
Sbjct: 1 SSPVKTVRPEATIEEARELLLRYGHTALPVVE 32
>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 = 35.8 bits (83), Expect = 0.008
Identities = 14/29 (48%), Positives = 21/29 (72%)
Query: 223 VICLRPLETVGNIIDVLKATSHNGFPIVD 251
VI + P TV ++I ++K T H+GFP+VD
Sbjct: 4 VITVSPDNTVKDVIKLIKETGHDGFPVVD 32
Score = 27.4 bits (61), Expect = 6.6
Identities = 13/30 (43%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 432 LFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+FR G+ + VV+ NN++VG+IT D+ R
Sbjct: 78 MFR-TGISKLPVVDENNNLVGIITNTDVIR 106
>gnl|CDD|240009 cd04638, CBS_pair_25, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 106
Score = 35.8 bits (83), Expect = 0.009
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 429 VFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
V +L + + V VV + +VG+ITRKDL R
Sbjct: 15 VLELLKEYKVSGVPVVKKSGELVGIITRKDLLR 47
Score = 29.3 bits (66), Expect = 1.7
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 408 KLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+L L M P +V + KL +R V VV++ +VG++T D+ R
Sbjct: 53 QLALLMTRDPPTVSPDDDVKEAAKLMVENNIRRVPVVDDGK-LVGIVTVADIVR 105
>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 = 38.0 bits (89), Expect = 0.009
Identities = 12/68 (17%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 394 NDLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGM 453
+ S V + + M + + +L ++ + + +V+++ +VG+
Sbjct: 131 IRTSRDIDFLS-KVSVVMTMTEDLVTAPEGITLEEANEILHEHKIEKLPIVDDDGELVGL 189
Query: 454 ITRKDLAR 461
ITRKD+ +
Sbjct: 190 ITRKDIEK 197
>gnl|CDD|239988 cd04615, CBS_pair_2, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 35.2 bits (81), Expect = 0.014
Identities = 11/55 (20%), Positives = 26/55 (47%)
Query: 407 VKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
K+ MN+ ++ + S+ + L + + V+++ V G++T D+ R
Sbjct: 58 AKVREVMNSPVITIDANDSIAKARWLMSNNNISRLPVLDDKGKVGGIVTEDDILR 112
Score = 32.1 bits (73), Expect = 0.18
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKD-LARYR 463
P V +T + R G R + VV++ +VG+ITR D L+
Sbjct: 3 PSCVVLNTDIARAVAEMYTSGSRALPVVDDKKRLVGIITRYDVLSYAL 50
>gnl|CDD|240008 cd04637, CBS_pair_24, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 35.0 bits (81), Expect = 0.017
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M P +V T + KL + + VV+ N ++G+IT KDL +Y
Sbjct: 73 MTRDPITVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKDLLKY 122
Score = 31.6 bits (72), Expect = 0.28
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
T +V+ L V ++F H++VV +N +VG+I+ +D +
Sbjct: 1 TRVVTVEMDDRLEEVREIFEKHKFHHLLVVEDNE-LVGVISDRDYLK 46
>gnl|CDD|240003 cd04632, CBS_pair_19, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 128
Score = 35.2 bits (81), Expect = 0.019
Identities = 11/42 (26%), Positives = 25/42 (59%)
Query: 419 SVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLA 460
+V++ S+ + + R G+ + VV++N + G++TR D+
Sbjct: 5 TVREDDSVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDIV 46
Score = 27.8 bits (62), Expect = 6.2
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 398 VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVV--NNNNHVVGMIT 455
E +R + + M++ + + S+ VVVV +++ VVG++T
Sbjct: 62 SGEKERMLDLPVYDAMSSPVITASPNDSVRDAVDRMLENDDSSVVVVTPDDDTKVVGILT 121
Query: 456 RKDLARY 462
+KD+ R
Sbjct: 122 KKDVLRA 128
>gnl|CDD|239986 cd04613, CBS_pair_SpoIVFB_EriC_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 114
Score = 34.5 bits (80), Expect = 0.024
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNH-VVGMITRKDL 459
M P V SL K F + VV+++ ++G+++R DL
Sbjct: 63 IMTKPPVVVYPEDSLEDALKKFEDSDYEQLPVVDDDPGKLLGILSRSDL 111
>gnl|CDD|225148 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 36.9 bits (86), Expect = 0.024
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 395 DLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMI 454
DL+ +E D L M SV V +LF L V VV+ +N ++G+I
Sbjct: 188 DLLTAEPD----ELLKDLMEDDVVSVLADDDQEEVARLFEKYDLLAVPVVDEDNRLIGII 243
Query: 455 TRKDL 459
T D+
Sbjct: 244 TIDDI 248
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 36.5 bits (85), Expect = 0.030
Identities = 19/104 (18%), Positives = 37/104 (35%), Gaps = 16/104 (15%)
Query: 370 NQNWPDDQLSSEIFHAEYPRYPSVND--------------LVVSENDRSFTVKLNLFMNT 415
+ ++L I + + R P + L + +S L
Sbjct: 222 DLTDTVEELIELILESGHSRIPVYDGDLDNIIGIVHVKDLLRALLDGQSDLDLRVLVR-- 279
Query: 416 SPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
P V ++ SL + + FR +VV+ V G++T +D+
Sbjct: 280 PPLFVPETLSLSDLLEEFREERTHMAIVVDEYGGVEGLVTLEDI 323
>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 = 34.1 bits (79), Expect = 0.035
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
Query: 397 VVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITR 456
VV+E V + M SV + +L +R VV NN ++G+I+
Sbjct: 50 VVAEGRDPDRVNVYEIMTKPLISVSPDMDIKYCARLMERTNIRRAPVV-ENNELIGIISL 108
Query: 457 KDLARY 462
D+
Sbjct: 109 TDIFLA 114
>gnl|CDD|215154 PLN02274, PLN02274, inosine-5'-monophosphate dehydrogenase.
Length = 505
Score = 36.2 bits (84), Expect = 0.039
Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 397 VVSENDRSF----TVKLNLFMNTSP--FSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHV 450
V++ D F KL+ M + + L + + + +VN + +
Sbjct: 149 YVTKRDWDFVNDRETKLSEVMTSDDDLVTAPAGIDLEEAEAVLKDSKKGKLPLVNEDGEL 208
Query: 451 VGMITRKDLARYR 463
V ++TR D+ R +
Sbjct: 209 VDLVTRTDVKRVK 221
>gnl|CDD|233350 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes IMP dehydrogenase, an enzyme of GMP
biosynthesis. This form contains two CBS domains. This
model describes a rather tightly conserved cluster of
IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 450
Score = 36.2 bits (84), Expect = 0.040
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 441 VVVVNNNNHVVGMITRKDLARYRVWRHGGR 470
+ VV+ N +VG+IT KD+ + R + H +
Sbjct: 178 LPVVDKNGELVGLITMKDIVKRRKFPHASK 207
>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 = 33.6 bits (78), Expect = 0.047
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARYRVWRHG 468
+V+ ++ KL + VVVV++ +VG+ + +D+ R +V G
Sbjct: 1 RDVITVRPDATVAEAAKLMAEKNIGAVVVVDDGGRLVGIFSERDIVR-KVALRG 53
Score = 33.6 bits (78), Expect = 0.057
Identities = 10/50 (20%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M + +V ++ L RH+ VV+ +VG+++ D+ +
Sbjct: 65 MTRNVITVTPDDTVDEAMALMTERRFRHLPVVDGGK-LVGIVSIGDVVKA 113
>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 = 33.2 bits (77), Expect = 0.066
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 15/76 (19%)
Query: 395 DLV--VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRAL------GLRHVVVVNN 446
DL V ++ M P ++ ++ F AL G+ H+ VV++
Sbjct: 43 DLRNRVVAEGLDPDTPVSEVMTAPPITIPPDATV------FEALLLMLERGIHHLPVVDD 96
Query: 447 NNHVVGMITRKDLARY 462
+VG+I+ DL R
Sbjct: 97 G-RLVGVISATDLLRL 111
>gnl|CDD|239993 cd04621, CBS_pair_8, 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 = 135
Score = 33.5 bits (77), Expect = 0.068
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLA 460
+V SL V G+ V+VV++N VG+IT +DLA
Sbjct: 3 IATVHPEHSLLHVVDEMEKNGVGRVIVVDDNGKPVGVITYRDLA 46
>gnl|CDD|239982 cd04609, CBS_pair_PALP_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the pyridoxal-phosphate (PALP) dependent
enzyme domain upstream. The vitamin B6 complex
comprises pyridoxine, pyridoxal, and pyridoxamine, as
well as the 5'-phosphate esters of pyridoxal (PALP) and
pyridoxamine, the last two being the biologically active
coenzyme derivatives. The members of the PALP family
are principally involved in the biosynthesis of amino
acids and amino acid-derived metabolites, but they are
also found in the biosynthetic pathways of amino sugars
and other amine-containing compounds. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 110
Score = 33.3 bits (77), Expect = 0.069
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 394 NDLV--VSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVV 451
+DL+ + E F++ + M +V + + +L VVV+ V
Sbjct: 42 SDLLDALIEGKAKFSLPVREVMGEPLPTVDPDAPIEELSELLD--RGNVAVVVDEGGKFV 99
Query: 452 GMITRKDLARY 462
G+ITR DL +Y
Sbjct: 100 GIITRADLLKY 110
>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 = 33.4 bits (77), Expect = 0.070
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLA 460
T P +V +T++ KL R V+V + N +VG+ T KD+A
Sbjct: 1 TKPATVSPTTTVQEAAKLMREKR-VSCVLVMDGNKLVGIFTSKDIA 45
Score = 28.7 bits (65), Expect = 2.6
Identities = 11/44 (25%), Positives = 18/44 (40%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMIT 455
M +P T + L RH+ VV+ + VVG++
Sbjct: 63 VMTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKSGQVVGLLD 106
>gnl|CDD|239959 cd04586, CBS_pair_BON_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains
associated with the BON (bacterial OsmY and nodulation
domain) domain. BON is a putative phospholipid-binding
domain found in a family of osmotic shock protection
proteins. It is also found in some secretins and a group
of potential haemolysins. Its likely function is
attachment to phospholipid membranes. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 135
Score = 32.9 bits (76), Expect = 0.13
Identities = 12/48 (25%), Positives = 24/48 (50%)
Query: 414 NTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
T +V TS+ +L + + VV+++ +VG+++ DL R
Sbjct: 1 TTDVVTVSPETSVAEAARLMLDNHISGLPVVDDDGRLVGIVSEGDLLR 48
Score = 32.2 bits (74), Expect = 0.24
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
M +V + T L V +L ++ V VV +VG+++R DL R
Sbjct: 87 MTRPVVTVGEDTPLAEVAELMEEHRIKRVPVVRGG-RLVGIVSRADLLR 134
>gnl|CDD|239971 cd04598, CBS_pair_GGDEF_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
association with the GGDEF (DiGuanylate-Cyclase (DGC))
domain. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 119
Score = 32.1 bits (74), Expect = 0.18
Identities = 30/119 (25%), Positives = 44/119 (36%), Gaps = 36/119 (30%)
Query: 347 GRLVGLILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLVVSENDRSFT 406
GR VGLI+R L+ + LS+ A Y + P VSE
Sbjct: 34 GRPVGLIMREALM----------------ELLSTPYGRALYGKKP------VSE------ 65
Query: 407 VKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVV---VVNNNNHVVGMITRKDLARY 462
M+ P V+ T L V +L +++ +V +G+ T KDL R
Sbjct: 66 -----VMDPDPLIVEADTPLEEVSRLATGRDSQNLYDGFIVTEEGRYLGIGTVKDLLRQ 119
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 126
Score = 32.2 bits (74), Expect = 0.21
Identities = 13/45 (28%), Positives = 26/45 (57%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
P + TS+ +L G+R ++VV+++++ +G+IT DL
Sbjct: 1 VKPIVIPADTSIDEALELMIKHGVRLLLVVDSDDNFIGVITAVDL 45
Score = 31.9 bits (73), Expect = 0.28
Identities = 11/29 (37%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 434 RALGLRHVVVVNNNNHVV-GMITRKDLAR 461
+A G +H +VV+ +H + G+I+ D+AR
Sbjct: 97 KASGRQHALVVDREHHQIRGIISTSDIAR 125
>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 = 31.7 bits (73), Expect = 0.24
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 401 NDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLA 460
D TV+ M T +V S+ + +L + VV++ +VG I+R+D+
Sbjct: 56 CDGVATVRD--IMTTEVLTVSPDDSIVDLAQLMLKAKPKRYPVVDDG-KLVGQISRRDVL 112
Query: 461 R 461
R
Sbjct: 113 R 113
>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 = 31.5 bits (72), Expect = 0.29
Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 33/119 (27%)
Query: 347 GRLVGLILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLVVSENDRSFT 406
G+LVG++ I + D I + L VS+
Sbjct: 33 GKLVGIVTEKD----IADALRSFRPLVRDRHQERRIRN-----------LPVSD------ 71
Query: 407 VKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRH---VVVVNNNNHVVGMITRKDLARY 462
M +++ TS+ V L L + + V ++ +VG++TR D+ RY
Sbjct: 72 -----IMTRPVITIEPDTSVSDVASLM----LENNIGGLPVVDDGKLVGIVTRTDILRY 121
>gnl|CDD|224754 COG1841, RpmD, Ribosomal protein L30/L7E [Translation, ribosomal
structure and biogenesis].
Length = 55
Score = 29.8 bits (68), Expect = 0.30
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 426 LPRVFKLFRALGLR---HVVVVNNNNHVVGMITR-KDLARY 462
P++ K R LGLR H V+V + V GM+ + K L
Sbjct: 13 PPKIRKTLRLLGLRKINHTVIVEDTPAVRGMLNKVKHLVTV 53
>gnl|CDD|129495 TIGR00400, mgtE, Mg2+ transporter (mgtE). This family of
prokaryotic proteins models a class of Mg++ transporter
first described in Bacillus firmus. May form a homodimer
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 449
Score = 32.9 bits (75), Expect = 0.34
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 4/68 (5%)
Query: 392 SVNDLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVV 451
S+ DL++++ + L+ M +S FS+ V +L + V VV+N +V
Sbjct: 184 SIRDLILAKPE----EILSSIMRSSVFSIVGVNDQEEVARLIQKYDFLAVPVVDNEGRLV 239
Query: 452 GMITRKDL 459
G++T D+
Sbjct: 240 GIVTVDDI 247
>gnl|CDD|239961 cd04588, CBS_pair_CAP-ED_DUF294_assoc_arch, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the archaeal CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 110
Score = 31.1 bits (71), Expect = 0.35
Identities = 12/56 (21%), Positives = 24/56 (42%)
Query: 406 TVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
K+ M ++ + L +L + ++V ++ VG+ITR D+ R
Sbjct: 54 LAKVKDVMTKDVITIDEDEQLYDAIRLMNKHNVGRLIVTDDEGRPVGIITRTDILR 109
>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 = 31.3 bits (71), Expect = 0.43
Identities = 12/48 (25%), Positives = 22/48 (45%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
P + + +V+ L G + VV ++G+ITR+D+ R
Sbjct: 1 REPVTCTPDDPVSKVWDLMLESGFTGLPVVQKAGELIGIITRRDIIRA 48
Score = 29.4 bits (66), Expect = 1.7
Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 30/141 (21%)
Query: 324 PDDQLS---SEIFHAEYRCRPRIWSPGRLVGLILRSQLIILIKHKIYKENQNWPDDQLSS 380
PDD +S + + + P + G L+G+I R +I + E+Q + S
Sbjct: 8 PDDPVSKVWDLMLESGFTGLPVVQKAGELIGIITRRDIIRAGSVRTSVEDQQRTQTKAS- 66
Query: 381 EIFHAEYPRYPSVNDLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRH 440
P+V + M+T +SV S+ +L +
Sbjct: 67 ----------PTVEKI----------------MSTPVYSVTPDDSIATAVELMLEHDIGR 100
Query: 441 VVVVNNNNHVVGMITRKDLAR 461
+ VVN + +VG++ R D+ +
Sbjct: 101 LPVVNEKDQLVGIVDRHDVLK 121
>gnl|CDD|234963 PRK01610, PRK01610, putative voltage-gated ClC-type chloride
channel ClcB; Provisional.
Length = 418
Score = 32.4 bits (74), Expect = 0.45
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 99 GGVFIPCLLTGAAWGRLFSLFLQSIFPEATWIDPGKYALIGAAAQLGGVVRMTISLTIIL 158
GGVF P L G A G L+ L P+ I L G A L I T+++
Sbjct: 319 GGVFTPTLFVGLAIGMLYGRSLGLWLPDGEEI-TLLLGLTGMATLLAATTHAPIMSTLMI 377
Query: 159 IEATG 163
E TG
Sbjct: 378 CEMTG 382
>gnl|CDD|240115 cd04802, CBS_pair_3, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 30.8 bits (70), Expect = 0.51
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 396 LVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMIT 455
VVS N + V + M+T ++ + SL KL G++ + VV+++ +VG++T
Sbjct: 47 KVVSRNLKPREVPVGEVMSTPLITIDPNASLNEAAKLMAKHGIKRLPVVDDDE-LVGIVT 105
Query: 456 RKDLARY 462
D+
Sbjct: 106 TTDIVMG 112
Score = 28.5 bits (64), Expect = 2.6
Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 415 TSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+ +V T++ + + ++VV+N VG+IT +DL +
Sbjct: 1 KNVITVDPDTTVYEAANIMTENNIGRLIVVDNEK-PVGIITERDLVK 46
>gnl|CDD|240114 cd04801, CBS_pair_M50_like, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
association with the metalloprotease peptidase M50. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 114
Score = 30.7 bits (70), Expect = 0.56
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 419 SVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
+V SL V KL GL + VV ++ V+G+IT DL R
Sbjct: 71 TVLSEESLAEVLKLLEEQGLDELAVVEDSGQVIGLITEADLLRR 114
Score = 28.8 bits (65), Expect = 2.8
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 3/45 (6%)
Query: 420 VQDSTSLPRVFKLFRALGL--RHVVVVNNNNHVVGMITRKDLARY 462
V +L + + LG R VVV+N VG+I+ DL
Sbjct: 6 VPAHLTLREFVREY-VLGSNQRRFVVVDNEGRYVGIISLADLRAI 49
>gnl|CDD|239992 cd04620, CBS_pair_7, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 115
Score = 30.8 bits (70), Expect = 0.58
Identities = 8/34 (23%), Positives = 19/34 (55%)
Query: 422 DSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMIT 455
+ + LFR +RH+ V+++ ++G++T
Sbjct: 75 EIQDIFTALSLFRQHQIRHLPVLDDQGQLIGLVT 108
>gnl|CDD|153371 cd07320, Extradiol_Dioxygenase_3B_like, Subunit B of Class III
Extradiol ring-cleavage dioxygenases. Dioxygenases
catalyze the incorporation of both atoms of molecular
oxygen into substrates using a variety of reaction
mechanisms, resulting in the cleavage of aromatic rings.
Two major groups of dioxygenases have been identified
according to the cleavage site of the aromatic ring.
Intradiol enzymes cleave the aromatic ring between two
hydroxyl groups, whereas extradiol enzymes cleave the
aromatic ring between a hydroxylated carbon and an
adjacent non-hydroxylated carbon. Extradiol dioxygenases
can be further divided into three classes. Class I and
II enzymes are evolutionary related and show sequence
similarity, with the two-domain class II enzymes
evolving from the class I enzyme through gene
duplication. Class III enzymes are different in sequence
and structure and usually have two subunits, designated
A and B. This model represents the catalytic subunit B
of extradiol dioxygenase class III enzymes. Enzymes
belonging to this family include Protocatechuate
4,5-dioxygenase (LigAB), 2'-aminobiphenyl-2,3-diol
1,2-dioxygenase (CarB), 4,5-DOPA Dioxygenase,
2,3-dihydroxyphenylpropionate 1,2-dioxygenase, and
3,4-dihydroxyphenylacetate (homoprotocatechuate)
2,3-dioxygenase (HPCD). There are also some family
members that do not show the typical dioxygenase
activity.
Length = 260
Score = 32.1 bits (73), Expect = 0.59
Identities = 40/259 (15%), Positives = 69/259 (26%), Gaps = 54/259 (20%)
Query: 3 HAVQMYCGDGE-----YNTLAALWLQVPEKSVRTML------HDPKGAFGVFSLSVFVVT 51
H +Y + + ++ EK T++ A + F
Sbjct: 7 HGPALYAAEDTGKTRNDYQPIEISKRIKEKRPDTIIVVSPHHLVIISATAITCAETF--- 63
Query: 52 YFLLSVWTYGVSVSGGGMPEKYDF-LSKD---NVWKSNGKPRSL---SEQLSDSGGVFIP 104
G YD D + + K + +E G +P
Sbjct: 64 --------ETADSGQWGRRPVYDVKGDPDLAWEIAEELIKEIPVTIVNEMDGLDHGTLVP 115
Query: 105 -CLLTGAAWGRLFSLFLQSIF----PEATWIDPGKYALIGAAAQLGGVVRMTISLTIILI 159
+ G W F + S+ P A + GK I AA L + ++
Sbjct: 116 LSYIFGDPW--DFKVIPLSVGVLVPPFAKLFEFGK--AIRAA-------VEPSDLRVHVV 164
Query: 160 EATGNISFGLPLMLTLITAKWIGDFFTEGLYDIHIQLSGIPLLAWDPPPLSSNITARIVK 219
A+G++S L + I L P N+ +
Sbjct: 165 -ASGDLSH------QLQGDRPSSQSGY-YPIAEEFDKYVIDNLEELDPVEFKNMHQYLTI 216
Query: 220 SHPVIC-LRPLETVGNIID 237
S+ C PL + +D
Sbjct: 217 SNATPCGFHPLLILLGALD 235
>gnl|CDD|180100 PRK05463, PRK05463, hypothetical protein; Provisional.
Length = 262
Score = 31.7 bits (73), Expect = 0.73
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 456 RKDLARYRVWRHG 468
R D+ RYRV+R G
Sbjct: 81 RTDVPRYRVYRDG 93
>gnl|CDD|239987 cd04614, CBS_pair_1, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 96
Score = 30.0 bits (68), Expect = 0.76
Identities = 10/45 (22%), Positives = 24/45 (53%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+V + T LP ++ ++ + V++++ + G+IT +DL
Sbjct: 3 VPTVWEETPLPVAVRIMELANVKALPVLDDDGKLSGIITERDLIA 47
>gnl|CDD|181127 PRK07807, PRK07807, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 479
Score = 31.8 bits (73), Expect = 0.78
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 402 DRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
DR FT ++ M+T ++ T F L A ++ VV+ + +VG++TR R
Sbjct: 145 DR-FT-QVRDVMSTDLVTLPAGTDPREAFDLLEAARVKLAPVVDADGRLVGVLTRTGALR 202
>gnl|CDD|239977 cd04604, CBS_pair_KpsF_GutQ_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with KpsF/GutQ domains in the API
[A5P (D-arabinose 5-phosphate) isomerase] protein.
These APIs catalyze the conversion of the pentose
pathway intermediate D-ribulose 5-phosphate into A5P, a
precursor of 3-deoxy-D-manno-octulosonate, which is an
integral carbohydrate component of various glycolipids
coating the surface of the outer membrane of
Gram-negative bacteria, including lipopolysaccharide and
many group 2 K-antigen capsules. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The
interface between the two CBS domains forms a cleft that
is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 114
Score = 30.1 bits (69), Expect = 0.80
Identities = 11/50 (22%), Positives = 21/50 (42%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
M +P ++ +L + + VV++N VG++ DL R
Sbjct: 64 VMTRNPKTIDPDALAAEALELMEENKITALPVVDDNGRPVGVLHIHDLLR 113
Score = 29.0 bits (66), Expect = 2.3
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 436 LGLRHVVVVNNNNHVVGMITRKDLAR 461
LG+ VV+ + +VG+ T DL R
Sbjct: 25 LGM--TAVVDEDGRLVGIFTDGDLRR 48
>gnl|CDD|100098 cd00355, Ribosomal_L30_like, Ribosomal protein L30, which is found
in eukaryotes and prokaryotes but not in archaea, is one
of the smallest ribosomal proteins with a molecular mass
of about 7kDa. L30 binds the 23SrRNA as well as the 5S
rRNA and is one of five ribosomal proteins that mediate
the interactions 5S rRNA makes with the ribosome. The
eukaryotic L30 members have N- and/or C-terminal
extensions not found in their prokaryotic orthologs.
L30 is closely related to the ribosomal L7 protein found
in eukaryotes and archaea.
Length = 53
Score = 28.5 bits (65), Expect = 0.83
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 427 PRVFKLFRALGLR---HVVVVNNNNHVVGMITR-KDLARY 462
P+ K +ALGLR V V + + GM+ + K L
Sbjct: 13 PKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTV 52
>gnl|CDD|239972 cd04599, CBS_pair_GGDEF_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
association with the GGDEF (DiGuanylate-Cyclase (DGC))
domain. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 105
Score = 30.1 bits (68), Expect = 0.87
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 417 PFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
P ++ S+ R +L + + VV + +VG+IT +D+ R
Sbjct: 3 PITIDPLDSVGRAARLMEKHRIGGLPVVEDGK-LVGIITSRDVRRA 47
Score = 27.4 bits (61), Expect = 6.6
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
M ++ SL +L + + V+ +VG+IT+ +A
Sbjct: 57 MTREVVTISPEASLLEAKRLMEEKKIERLPVLRERK-LVGIITKGTIALE 105
>gnl|CDD|239974 cd04601, CBS_pair_IMPDH, This cd contains two tandem repeats of the
cystathionine beta-synthase (CBS pair) domains in the
inosine 5' monophosphate dehydrogenase (IMPDH) protein.
IMPDH is an essential enzyme that catalyzes the first
step unique to GTP synthesis, playing a key role in the
regulation of cell proliferation and differentiation.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 110
Score = 29.7 bits (68), Expect = 0.97
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 424 TSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
TSL +L + + VV++ + G+IT KD+
Sbjct: 72 TSLEEALELLHEHKIEKLPVVDDEGKLKGLITVKDI 107
Score = 27.0 bits (61), Expect = 8.6
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 443 VVNNNNHVVGMITRKDL 459
VV+++ +VG++T +DL
Sbjct: 30 VVDDDGKLVGIVTNRDL 46
>gnl|CDD|201157 pfam00327, Ribosomal_L30, Ribosomal protein L30p/L7e. This family
includes prokaryotic L30 and eukaryotic L7.
Length = 52
Score = 28.2 bits (64), Expect = 0.99
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 427 PRVFKLFRALGLR---HVVVVNNNNHVVGMI 454
P+ K + LGLR V V + + GM+
Sbjct: 15 PKQKKTLKLLGLRKINQTVFVKDTPAIRGML 45
>gnl|CDD|180163 PRK05611, rpmD, 50S ribosomal protein L30; Reviewed.
Length = 59
Score = 28.1 bits (64), Expect = 1.2
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 434 RALGLR---HVVVVNNNNHVVGMI 454
R LGLR V + + + GMI
Sbjct: 24 RGLGLRKINSTVELEDTPAIRGMI 47
>gnl|CDD|239989 cd04617, CBS_pair_4, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 118
Score = 29.6 bits (67), Expect = 1.3
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 443 VVNNNNHVVGMITRKDLAR 461
VV+ + +VG+++RKDL +
Sbjct: 29 VVDEDGDLVGVVSRKDLLK 47
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 30.9 bits (71), Expect = 1.6
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 412 FMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
+ T P +V T+L L G+ V VV+ N +VG+IT +D+
Sbjct: 92 GVVTDPVTVTPDTTLAEALALMARYGISGVPVVDENGKLVGIITNRDV 139
Score = 30.9 bits (71), Expect = 1.6
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 420 VQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDL 459
V + T+L +L + + VV++N + G+IT KD+
Sbjct: 161 VPEGTTLEEALELLHEHRIEKLPVVDDNGRLKGLITVKDI 200
>gnl|CDD|240012 cd04641, CBS_pair_28, 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 = 120
Score = 29.1 bits (66), Expect = 2.3
Identities = 23/117 (19%), Positives = 40/117 (34%), Gaps = 31/117 (26%)
Query: 347 GRLVGLILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLV-VSENDRSF 405
G++V + R +I L K Y + L + A R + S +D
Sbjct: 34 GKVVDVYSRFDVINLAKEGAY--------NNLDLTVGEALERRSQDFEGVRTCSPDDCLR 85
Query: 406 TVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLARY 462
T+ + RV +VVV+ N V G+I+ D+ ++
Sbjct: 86 TIFDLI-------------VKARV---------HRLVVVDENKRVEGIISLSDILQF 120
>gnl|CDD|239991 cd04619, CBS_pair_6, 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 = 28.6 bits (64), Expect = 3.0
Identities = 12/53 (22%), Positives = 27/53 (50%)
Query: 406 TVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKD 458
T + M + S + L V+++ + GL+++ VV+ N +G++ +D
Sbjct: 58 TAPVENVMTRAVVSCRPGDLLHDVWQVMKQRGLKNIPVVDENARPLGVLNARD 110
>gnl|CDD|129488 TIGR00393, kpsF, KpsF/GutQ family protein. This model describes a
number of closely related proteins with the
phosphosugar-binding domain SIS (Sugar ISomerase)
followed by two copies of the CBS (named after
Cystathionine Beta Synthase) domain. One is GutQ, a
protein of the glucitol operon. Another is KpsF, a
virulence factor involved in capsular polysialic acid
biosynthesis in some pathogenic strains of E. coli
[Energy metabolism, Sugars].
Length = 268
Score = 29.8 bits (67), Expect = 3.0
Identities = 11/51 (21%), Positives = 24/51 (47%)
Query: 404 SFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMI 454
S ++ FM P + + L + + +VVV+++N V+G++
Sbjct: 217 SLKSEVRDFMTLGPKTFKLDALLLEALEFLERRKITSLVVVDDHNKVLGVL 267
>gnl|CDD|239998 cd04626, CBS_pair_13, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 111
Score = 28.5 bits (64), Expect = 3.2
Identities = 6/44 (13%), Positives = 17/44 (38%)
Query: 418 FSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
++ + S+ ++V +N + G++T D+
Sbjct: 4 PTIDEDASIREALHEMLKYNTNEIIVKDNEEKLKGVVTFTDILD 47
>gnl|CDD|239970 cd04597, CBS_pair_DRTGG_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 113
Score = 28.1 bits (63), Expect = 3.9
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 413 MNTSPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMITRKDLAR 461
+N P + + + L L +R + VV+++ G+IT DLA
Sbjct: 64 INRKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAGIITLLDLAE 112
>gnl|CDD|240355 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 29.6 bits (67), Expect = 4.4
Identities = 8/25 (32%), Positives = 17/25 (68%)
Query: 443 VVNNNNHVVGMITRKDLARYRVWRH 467
+VN+N +V +++R DL + R + +
Sbjct: 197 IVNDNGELVALVSRSDLKKNRGYPN 221
>gnl|CDD|226147 COG3620, COG3620, Predicted transcriptional regulator with
C-terminal CBS domains [Transcription].
Length = 187
Score = 28.6 bits (64), Expect = 5.6
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 8/78 (10%)
Query: 388 PRYPSVND----LVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRHVVV 443
PR +V L +E R + M++ SV S+ V L R G+ + V
Sbjct: 45 PRLSTVKRILEALEEAEKTR---ITAKTIMHSPVVSVSPDDSISDVVNLMRDKGISQLPV 101
Query: 444 VNNNNHVVGMITRKDLAR 461
+ + VVG IT D+ R
Sbjct: 102 IEEDK-VVGSITENDIVR 118
>gnl|CDD|239997 cd04625, CBS_pair_12, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 27.8 bits (62), Expect = 5.7
Identities = 18/81 (22%), Positives = 31/81 (38%), Gaps = 12/81 (14%)
Query: 381 EIFHAEYPRYPSVNDLVVSENDRSFTVKLNLFMNTSPFSVQDSTSLPRVFKLFRALGLRH 440
E+ A V D V MN P S+ V +L LR+
Sbjct: 43 EVLQAMAQHGAGVLDTTVRA-----------IMNPEPIVASPDDSIDEVRRLMVERHLRY 91
Query: 441 VVVVNNNNHVVGMITRKDLAR 461
+ V++ ++G+I+ D+A+
Sbjct: 92 LPVLDGGT-LLGVISFHDVAK 111
>gnl|CDD|240014 cd04643, CBS_pair_30, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 116
Score = 27.5 bits (62), Expect = 5.9
Identities = 6/22 (27%), Positives = 16/22 (72%)
Query: 441 VVVVNNNNHVVGMITRKDLARY 462
+ VV+++ +G+ITR+++ +
Sbjct: 95 LPVVDDDGIFIGIITRREILKA 116
>gnl|CDD|239981 cd04608, CBS_pair_PALP_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the pyridoxal-phosphate (PALP) dependent
enzyme domain upstream. The vitamin B6 complex
comprises pyridoxine, pyridoxal, and pyridoxamine, as
well as the 5'-phosphate esters of pyridoxal (PALP) and
pyridoxamine, the last two being the biologically active
coenzyme derivatives. The members of the PALP family
are principally involved in the biosynthesis of amino
acids and amino acid-derived metabolites, but they are
also found in the biosynthetic pathways of amino sugars
and other amine-containing compounds. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 124
Score = 27.7 bits (62), Expect = 6.2
Identities = 8/40 (20%), Positives = 21/40 (52%)
Query: 416 SPFSVQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMIT 455
+P +V + + ++ + G + VV+ + ++GM+T
Sbjct: 3 APVTVLPTVTCAEAIEILKEKGFDQLPVVDESGKILGMVT 42
>gnl|CDD|185050 PRK15094, PRK15094, magnesium/cobalt efflux protein CorC;
Provisional.
Length = 292
Score = 28.6 bits (64), Expect = 6.8
Identities = 32/125 (25%), Positives = 52/125 (41%), Gaps = 30/125 (24%)
Query: 352 LILRSQLIILIKHKIYKENQNWPDDQLSSEIFHAEYPRYPSVNDLVVSENDRS-----FT 406
+I RSQ+I L K NQ D+ I + + R+P V+SE+
Sbjct: 73 MIPRSQMITL------KRNQTL--DECLDVIIESAHSRFP-----VISEDKDHIEGILMA 119
Query: 407 VKLNLFM--NTSPFS----------VQDSTSLPRVFKLFRALGLRHVVVVNNNNHVVGMI 454
L FM + FS V +S + R+ K FR+ +V++ V G++
Sbjct: 120 KDLLPFMRSDAEAFSMDKVLRQAVVVPESKRVDRMLKEFRSQRYHMAIVIDEFGGVSGLV 179
Query: 455 TRKDL 459
T +D+
Sbjct: 180 TIEDI 184
>gnl|CDD|233451 TIGR01531, glyc_debranch, glycogen debranching enzymye. glycogen
debranching enzyme possesses two different catalytic
activities; oligo-1,4-->1,4-glucantransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33). Site
directed mutagenesis studies in S. cerevisiae indicate
that the transferase and glucosidase activities are
independent and located in different regions of the
polypeptide chain. Proteins in this model belong to the
larger alpha-amylase family. The model covers eukaryotic
proteins with a seed composed of human, nematode and
yeast sequences. Yeast seed sequence is well
characterized. The model is quite rigorous; either query
sequence yields large bit score or it fails to hit the
model altogether. There doesn't appear to be any middle
ground [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 1464
Score = 29.0 bits (65), Expect = 8.0
Identities = 15/55 (27%), Positives = 19/55 (34%), Gaps = 2/55 (3%)
Query: 34 HDPKGAFGVFSLSVFVVTYFLLSVWTYGVSVSGGGMPEKYDFLSKDNVWKSNGKP 88
PK G ++ + TY+ G PEK DFL N W P
Sbjct: 401 GGPK--QGPVTVKHPLTTYYFTFKGKDGSEEKFAYDPEKADFLMAHNGWVMGSDP 453
>gnl|CDD|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II
protein Lhcb4; Provisional.
Length = 286
Score = 28.2 bits (63), Expect = 8.5
Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 5/70 (7%)
Query: 102 FIPCLLTGAAWGRLFSLFLQSI--FPEATWIDPGKYALIGAAAQLGGVVRMTISLTIILI 159
F C L W L +L S+ TW D GK L+ ++ LG + +I+ T+I I
Sbjct: 133 FRECELIHGRWAMLATLGALSVEALTGVTWQDAGKVELVDGSSYLGQPLPFSIT-TLIWI 191
Query: 160 EA--TGNISF 167
E G I F
Sbjct: 192 EVLVIGYIEF 201
>gnl|CDD|239978 cd04605, CBS_pair_MET2_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the MET2 domain. Met2 is a key enzyme in
the biosynthesis of methionine. It encodes a homoserine
transacetylase involved in converting homoserine to
O-acetyl homoserine. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 26.9 bits (60), Expect = 9.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 443 VVNNNNHVVGMITRKDLAR 461
VV+ N V+G+IT +D+++
Sbjct: 91 VVDAENRVIGIITSEDISK 109
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
0.320 0.137 0.419
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,853,208
Number of extensions: 2431672
Number of successful extensions: 2323
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2293
Number of HSP's successfully gapped: 159
Length of query: 482
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 381
Effective length of database: 6,457,848
Effective search space: 2460440088
Effective search space used: 2460440088
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 (21.8 bits)
S2: 61 (27.1 bits)