RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764505|ref|YP_003065248.2| polysialic acid capsule
expression protein [Candidatus Liberibacter asiaticus str. psy62]
(341 letters)
>gnl|CDD|31137 COG0794, GutQ, Predicted sugar phosphate isomerase involved in
capsule formation [Cell envelope biogenesis, outer
membrane].
Length = 202
Score = 210 bits (535), Expect = 6e-55
Identities = 100/201 (49%), Positives = 124/201 (61%), Gaps = 4/201 (1%)
Query: 27 ALRSIIAEKRGLSSLESSLQGELSFQFHCAVEKIKAIKGRVVITGIGKSGHIGSKLASTL 86
A ++ E L L L E F AVE I KG+V +TG+GKSG IG K A+ L
Sbjct: 5 AKEILMTEAEALLELAERLDDE---DFVRAVELILECKGKVFVTGVGKSGLIGKKFAARL 61
Query: 87 ASTGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSDELKAILYYARRFSIPLIAITS 146
ASTGTP+FFV AEA HGDLGMIT D++I +S SG + EL + A+R LIAITS
Sbjct: 62 ASTGTPAFFVGPAEALHGDLGMITPGDVVIAISGSGETKELLNLAPKAKRLGAKLIAITS 121
Query: 147 ENKSVVACHADIVLTLPKEPESCPHGLAPTTSAIMQLAIGDALAIALLESRNFSENDFYV 206
S +A AD+VL +P + E+CP GLAPTTS + LA+GDALA L E+R FS DF +
Sbjct: 122 NPDSSLAKAADVVLVIPVKTEACPLGLAPTTSTTLTLALGDALAGTLFEARGFSFEDFAI 181
Query: 207 LHPGGKLG-TLFVCASDVMHS 226
HPGG LG L + D M+
Sbjct: 182 AHPGGALGAKLLLKVKDHMNL 202
>gnl|CDD|88409 cd05014, SIS_Kpsf, KpsF-like protein. KpsF is an
arabinose-5-phosphate isomerase which contains SIS
(Sugar ISomerase) domains. SIS domains are found in many
phosphosugar isomerases and phosphosugar binding
proteins. KpsF catalyzes the reversible reaction of
ribulose 5-phosphate to arabinose 5-phosphate. This is
the second step in the CMP-Kdo biosynthesis pathway..
Length = 128
Score = 174 bits (443), Expect = 3e-44
Identities = 73/128 (57%), Positives = 96/128 (75%)
Query: 65 GRVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSS 124
G+VV+TG+GKSGHI K+A+TL+STGTP+FF+H EA HGDLGM+T D++I +S SG +
Sbjct: 1 GKVVVTGVGKSGHIARKIAATLSSTGTPAFFLHPTEALHGDLGMVTPGDVVIAISNSGET 60
Query: 125 DELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAPTTSAIMQLA 184
DEL +L + +R P+IAIT S +A +D+VL LP E E+CP GLAPTTS LA
Sbjct: 61 DELLNLLPHLKRRGAPIIAITGNPNSTLAKLSDVVLDLPVEEEACPLGLAPTTSTTAMLA 120
Query: 185 IGDALAIA 192
+GDALA+A
Sbjct: 121 LGDALAVA 128
>gnl|CDD|73104 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 = 128 bits (323), Expect = 3e-30
Identities = 51/113 (45%), Positives = 70/113 (61%), Gaps = 2/113 (1%)
Query: 227 GDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHK--DLNTLS 284
GD++PLV L DA+ +S K G AVVDE +L GI T+GD+ R K D+ TL
Sbjct: 1 GDALPLVSPDTSLKDALLEMSRKGLGMTAVVDEDGRLVGIFTDGDLRRALEKGLDILTLP 60
Query: 285 VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
V DVM +NPK I D L A++L+ ++ I+ L VVDD + +G++H DLLR
Sbjct: 61 VADVMTRNPKTIDPDALAAEALELMEENKITALPVVDDNGRPVGVLHIHDLLR 113
>gnl|CDD|144827 pfam01380, SIS, SIS domain. SIS (Sugar ISomerase) domains are
found in many phosphosugar isomerases and phosphosugar
binding proteins. SIS domains are also found in proteins
that regulate the expression of genes involved in
synthesis of phosphosugars. Presumably the SIS domains
bind to the end-product of the pathway.
Length = 131
Score = 94.7 bits (236), Expect = 4e-20
Identities = 48/132 (36%), Positives = 66/132 (50%), Gaps = 4/132 (3%)
Query: 62 AIKGRVVITGIGKSGHIGSKLASTLASTGTPSFFVH-AAEASHGDLGMITRDDLIIVLSW 120
A R+ + G G S +LA L G V A+E HG L ++ DDL+I +S
Sbjct: 3 AKAKRIYVIGAGTSYAAALELALKLEEIGYIVVEVEDASEFRHGPLALVDPDDLVIAISQ 62
Query: 121 SGSSDELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAPTTSAI 180
SG + +L + +IAIT S +A AD VL + PE+ G+A T S
Sbjct: 63 SGETRDLLEAAKLLKARGAKIIAITDSKGSPLAREADHVLYIIAGPEA---GVASTKSLT 119
Query: 181 MQLAIGDALAIA 192
+QLA+ DALAIA
Sbjct: 120 LQLALLDALAIA 131
>gnl|CDD|31923 COG1737, RpiR, Transcriptional regulators [Transcription].
Length = 281
Score = 80.8 bits (199), Expect = 5e-16
Identities = 47/147 (31%), Positives = 69/147 (46%), Gaps = 3/147 (2%)
Query: 52 QFHCAVEKIKAIKGRVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITR 111
AVE + + R+ G+G SG + S LA L G + L ++T
Sbjct: 119 ALERAVELLAKAR-RIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQLMQLALLTP 177
Query: 112 DDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPH 171
D++I +S+SG + E+ A+ +IAIT S +A ADIVL +P ES
Sbjct: 178 GDVVIAISFSGYTREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLVPVAEESFFR 237
Query: 172 GLAPTTSAIMQLAIGDALAIALLESRN 198
P +S I QLA+ DAL A+ + R
Sbjct: 238 S--PISSRIAQLALIDALITAVAQRRG 262
>gnl|CDD|73081 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 = 80.2 bits (197), Expect = 8e-16
Identities = 35/111 (31%), Positives = 57/111 (51%), Gaps = 2/111 (1%)
Query: 230 IPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF--HKDLNTLSVED 287
+ V + +A+ ++ E + VVD+ +L GI+TE D+ R ++V D
Sbjct: 3 VVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDLLRALAEGGLDPLVTVGD 62
Query: 288 VMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
VM ++ + DT L A +L+ +H I L VVDD + +GIV D+LR
Sbjct: 63 VMTRDVVTVSPDTSLEEAAELMLEHGIRRLPVVDDEGRLVGIVTRSDILRA 113
Score = 42.1 bits (98), Expect = 2e-04
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
++ + D + A++L+ +H IS L VVDD + +GIV DLLR
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDLLRA 48
>gnl|CDD|73122 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 = 72.8 bits (179), Expect = 1e-13
Identities = 33/109 (30%), Positives = 53/109 (48%), Gaps = 4/109 (3%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFH---KDLNTLSVEDVM 289
V+ + +A +++EK G V VVD+G +L GI +E DI R V ++M
Sbjct: 6 VRPDATVAEAAKLMAEKNIGAVVVVDDGGRLVGIFSERDIVRKVALRGASALDTPVSEIM 65
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+N + D + AM L+ + L VVD K +GIV D+++
Sbjct: 66 TRNVITVTPDDTVDEAMALMTERRFRHLPVVDG-GKLVGIVSIGDVVKA 113
Score = 32.8 bits (75), Expect = 0.13
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 295 VILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ D + A +L+ + NI ++VVDD + +GI D++R
Sbjct: 5 TVRPDATVAEAAKLMAEKNIGAVVVVDDGGRLVGIFSERDIVR 47
>gnl|CDD|88408 cd05013, SIS_RpiR, RpiR-like protein. RpiR contains a SIS (Sugar
ISomerase) domain, which is found in many phosphosugar
isomerases and phosphosugar binding proteins. In E.
coli, rpiR negatively regulates the expression of rpiB
gene. Both rpiB and rpiA are ribose phosphate isomerases
that catalyze the reversible reactions of ribose
5-phosphate into ribulose 5-phosphate..
Length = 139
Score = 70.7 bits (173), Expect = 6e-13
Identities = 42/137 (30%), Positives = 62/137 (45%), Gaps = 3/137 (2%)
Query: 56 AVEKIKAIKGRVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITRDDLI 115
AV+ + R+ I G+G SG + LA L G P + +T D++
Sbjct: 6 AVDLLAK-ARRIYIFGVGSSGLVAEYLAYKLLRLGKPVVLLSDPHLQLMSAANLTPGDVV 64
Query: 116 IVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAP 175
I +S+SG + E A+ +IAIT S +A ADIVL + E +
Sbjct: 65 IAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLAKLADIVLLVSSEEG--DFRSSA 122
Query: 176 TTSAIMQLAIGDALAIA 192
+S I QLA+ DAL +A
Sbjct: 123 FSSRIAQLALIDALFLA 139
>gnl|CDD|32593 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 69.5 bits (170), Expect = 1e-12
Identities = 34/106 (32%), Positives = 51/106 (48%), Gaps = 1/106 (0%)
Query: 232 LVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIK 291
V+ L +A + EK VVD+ K+ GIIT DI + V D M K
Sbjct: 184 TVRPDDTLREAAKLFYEKGIRGAPVVDDD-KIVGIITLSDIAKAIANGNLDAKVSDYMRK 242
Query: 292 NPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
N I ED + A++L+ ++N+ L+V D K +GI+ D+L
Sbjct: 243 NVITINEDEDIYDAIRLMNKNNVGRLLVTDSNGKPVGIITRTDILT 288
Score = 27.5 bits (61), Expect = 5.5
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 284 SVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDL 335
V+++M K + D L A +L + I VVDD K +GI+ D+
Sbjct: 173 KVKNLMSKKLITVRPDDTLREAAKLFYEKGIRGAPVVDD-DKIVGIITLSDI 223
>gnl|CDD|73111 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 = 69.1 bits (169), Expect = 2e-12
Identities = 38/110 (34%), Positives = 57/110 (51%), Gaps = 2/110 (1%)
Query: 229 SIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN-TLSVED 287
I L +A + + E+R + VVD+G+ L GI+TE DI R + V +
Sbjct: 2 QILTCPPDTSLAEAASRMRERRISSIVVVDDGRPL-GIVTERDILRLLASGPDLQTPVGE 60
Query: 288 VMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
VM + DT L A QL+R+H I L+VVDD + +G++ DLL+
Sbjct: 61 VMSSPLLTVPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDLLQ 110
Score = 35.2 bits (81), Expect = 0.024
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 6/60 (10%)
Query: 218 VCASDVMHSGDSIPLVKI--GCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
+VM S PL+ + L DA ++ E + VVD+ +L G++++ D+ +N
Sbjct: 56 TPVGEVMSS----PLLTVPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDLLQN 111
>gnl|CDD|73123 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 = 68.3 bits (167), Expect = 3e-12
Identities = 30/106 (28%), Positives = 57/106 (53%), Gaps = 1/106 (0%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN-TLSVEDVMIK 291
V + +A +++E+ G V VVD ++ GI+TE DI R ++ V ++M +
Sbjct: 6 VDPDTSIREAAKLMAEENVGSVVVVDPDERPIGIVTERDIVRAVAAGIDLDTPVSEIMTR 65
Query: 292 NPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ + D + A +L+R++NI +VVD + +G++ DL+R
Sbjct: 66 DLVTVDPDEPVAEAAKLMRKNNIRHHLVVDKGGELVGVISIRDLVR 111
Score = 29.4 bits (66), Expect = 1.4
Identities = 14/47 (29%), Positives = 27/47 (57%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ + DT + A +L+ + N+ ++VVD ++ IGIV D++R
Sbjct: 1 RPVVTVDPDTSIREAAKLMAEENVGSVVVVDPDERPIGIVTERDIVR 47
>gnl|CDD|30863 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 67.9 bits (165), Expect = 4e-12
Identities = 43/112 (38%), Positives = 59/112 (52%), Gaps = 4/112 (3%)
Query: 228 DSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF-HKDLNTLSVE 286
+ VK + DA+ ++SE V VVD+G KL GIITE DI R L V+
Sbjct: 7 KDVITVKPDTSVRDALLLMSENGVSAVPVVDDG-KLVGIITERDILRALAAGGKRLLPVK 65
Query: 287 DVMIKNPKVILEDTLLTVAMQLLRQ-HNISVLMVVDDCQ-KAIGIVHFLDLL 336
+VM K + DT L A++L+ + H I L VVDD K +GI+ D+L
Sbjct: 66 EVMTKPVVTVDPDTPLEEALELMVERHKIRRLPVVDDDGGKLVGIITLSDIL 117
Score = 39.7 bits (92), Expect = 0.001
Identities = 19/54 (35%), Positives = 33/54 (61%), Gaps = 1/54 (1%)
Query: 285 VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
V+D+M K+ + DT + A+ L+ ++ +S + VVDD K +GI+ D+LR
Sbjct: 1 VKDIMTKDVITVKPDTSVRDALLLMSENGVSAVPVVDD-GKLVGIITERDILRA 53
>gnl|CDD|73107 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 = 67.5 bits (165), Expect = 5e-12
Identities = 31/107 (28%), Positives = 53/107 (49%), Gaps = 3/107 (2%)
Query: 232 LVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF--HKDLNTLSVEDVM 289
LV ++DA+ + + V VVDE +L G +T+GDI R L+ V +VM
Sbjct: 6 LVSPDASILDALRKIDKNALRIVLVVDENGRLLGTVTDGDIRRALLKGLSLDD-PVSEVM 64
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
+NP + + L+R+ +I L ++D+ + +G+ DLL
Sbjct: 65 NRNPITAKVGSSREEILALMRERSIRHLPILDEEGRVVGLATLDDLL 111
>gnl|CDD|73085 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 = 66.4 bits (162), Expect = 1e-11
Identities = 33/112 (29%), Positives = 56/112 (50%), Gaps = 13/112 (11%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR------------NFHKDLNTLSV 285
L++A+ ++ E + VVD G KL GI+T+ D+ + L+ + V
Sbjct: 11 SLMEALKLMKENSIRRLPVVDRG-KLVGIVTDRDLKLASPSKATTLDIWELYYLLSKIKV 69
Query: 286 EDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
D+M ++P + D + A +L+ + IS L VVDD + +GI+ DL R
Sbjct: 70 SDIMTRDPITVSPDASVEEAAELMLERKISGLPVVDDQGRLVGIITESDLFR 121
Score = 36.7 bits (85), Expect = 0.009
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
KNP + DT L A++L+++++I L VVD K +GIV DL
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDR-GKLVGIVTDRDLKLA 47
>gnl|CDD|73101 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 = 64.3 bits (157), Expect = 4e-11
Identities = 32/101 (31%), Positives = 52/101 (51%), Gaps = 4/101 (3%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVIL 297
+ +A+ +++E + VVD+ KL GI+T D+ F DL+ V +VM +
Sbjct: 12 TVAEALELMAEYGISGLPVVDDDGKLVGIVTNRDL--RFETDLDK-PVSEVMTPENLLTT 68
Query: 298 E-DTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
T L A++LL +H I L VVDD K G++ D+ +
Sbjct: 69 VEGTSLEEALELLHEHKIEKLPVVDDEGKLKGLITVKDIEK 109
Score = 38.1 bits (89), Expect = 0.003
Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
I++P + D + A++L+ ++ IS L VVDD K +GIV D LRF
Sbjct: 1 IRDPITVSPDATVAEALELMAEYGISGLPVVDDDGKLVGIVTNRD-LRF 48
Score = 34.7 bits (80), Expect = 0.043
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 220 ASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
S+VM + + G L +A+ +L E + + VVD+ KLKG+IT DI
Sbjct: 56 VSEVMTPENLL-TTVEGTSLEEALELLHEHKIEKLPVVDDEGKLKGLITVKDI 107
>gnl|CDD|73105 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 = 64.1 bits (156), Expect = 5e-11
Identities = 34/97 (35%), Positives = 53/97 (54%), Gaps = 2/97 (2%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDT 300
+A ++ E+ + VVDE +L GI+T DI + +D SVED+M +N D
Sbjct: 15 EAAKLMIEENINHLPVVDEDGRLVGIVTSWDISKAVARDKK--SVEDIMTRNVITATPDE 72
Query: 301 LLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ VA + + +HNIS L VVD + IGI+ D+ +
Sbjct: 73 PIDVAARKMERHNISALPVVDAENRVIGIITSEDISK 109
Score = 26.7 bits (59), Expect = 9.1
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
P+ A + + VVD ++ GIIT DI +
Sbjct: 73 PIDVAARKMERHNISALPVVDAENRVIGIITSEDISK 109
>gnl|CDD|73087 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 = 64.1 bits (156), Expect = 5e-11
Identities = 35/111 (31%), Positives = 48/111 (43%), Gaps = 4/111 (3%)
Query: 228 DSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI-FRNF--HKDLNTLS 284
V + +A ++ EKR CV V+D KL GI T DI R D +
Sbjct: 1 TKPATVSPTTTVQEAAKLMREKRVSCVLVMDGN-KLVGIFTSKDIALRVVAQGLDPESTL 59
Query: 285 VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDL 335
VE VM NP DT + A+ L+ Q L VVD + +G++ L
Sbjct: 60 VERVMTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKSGQVVGLLDVTKL 110
Score = 26.7 bits (59), Expect = 9.2
Identities = 7/38 (18%), Positives = 22/38 (57%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
P+++A+ ++ + +F + VVD+ ++ G++ +
Sbjct: 76 PVLEALHLMVQGKFRHLPVVDKSGQVVGLLDVTKLTHA 113
>gnl|CDD|73121 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 = 64.0 bits (156), Expect = 6e-11
Identities = 34/104 (32%), Positives = 55/104 (52%), Gaps = 4/104 (3%)
Query: 237 CPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI-FRNF--HKDLNTLSVEDVMIKNP 293
+ +A ++ E G + V + +L GI+T+ DI R +D +T +V DVM +
Sbjct: 10 DTIREAARLMREHDVGALPVCEND-RLVGIVTDRDIVVRAVAEGRDPDTTTVGDVMTRGV 68
Query: 294 KVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ ED + A +L+R+H + L VVDD + +GIV DL R
Sbjct: 69 VTVTEDDDVDEAARLMREHQVRRLPVVDDDGRLVGIVSLGDLAR 112
Score = 27.8 bits (62), Expect = 4.7
Identities = 10/40 (25%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
++ + D + A +L+R+H++ L V ++ + +GIV
Sbjct: 1 RDVVTVSPDDTIREAARLMREHDVGALPVCEN-DRLVGIV 39
>gnl|CDD|73088 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 = 62.1 bits (151), Expect = 2e-10
Identities = 36/106 (33%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 232 LVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIK 291
+ L +A + + VVD+G KL GI+T DI + L V+DVM K
Sbjct: 5 TLNPNATLREAARLFNTHHIHGAPVVDDG-KLVGIVTLSDIAHAIARGLELAKVKDVMTK 63
Query: 292 NPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ I ED L A++L+ +HN+ L+V DD + +GI+ D+LR
Sbjct: 64 DVITIDEDEQLYDAIRLMNKHNVGRLIVTDDEGRPVGIITRTDILR 109
>gnl|CDD|73135 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 = 60.3 bits (146), Expect = 8e-10
Identities = 33/112 (29%), Positives = 60/112 (53%), Gaps = 13/112 (11%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF----------HKDLNTLS--VE 286
L + I + +F + VV++ + L G+I++ D + KDL TL+
Sbjct: 12 LEEVREIFEKHKFHHLLVVEDNE-LVGVISDRDYLKAISPFLGTAGETEKDLATLNRRAH 70
Query: 287 DVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+M ++P + DT + A +LL +++IS L VVD+ + IGI+ + DLL++
Sbjct: 71 QIMTRDPITVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKDLLKY 122
Score = 39.1 bits (91), Expect = 0.002
Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 213 LGTLFVCASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
L TL A +M + D I V P+ +A +L E C+ VVDE +L GIIT D+
Sbjct: 62 LATLNRRAHQIM-TRDPI-TVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKDL 119
Query: 273 FR 274
+
Sbjct: 120 LK 121
>gnl|CDD|73119 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 = 60.2 bits (146), Expect = 9e-10
Identities = 36/104 (34%), Positives = 54/104 (51%), Gaps = 4/104 (3%)
Query: 231 PLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR--NFHKDLNTLSVEDV 288
V P+ DAI ++S++ +V E +L GI TE DI R KDL+ L + +V
Sbjct: 4 LTVTPDTPVADAIALMSQQGDSSCVLVVEKGRLLGIFTERDIVRLTAIGKDLSDLPIGEV 63
Query: 289 MIKNPKVILEDTLLTV--AMQLLRQHNISVLMVVDDCQKAIGIV 330
M + + E + + A+ L RQH I L V+DD + IG+V
Sbjct: 64 MTQPVVTLQESEIQDIFTALSLFRQHQIRHLPVLDDQGQLIGLV 107
>gnl|CDD|73129 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 = 59.8 bits (145), Expect = 9e-10
Identities = 37/120 (30%), Positives = 52/120 (43%), Gaps = 14/120 (11%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQ-KLKGIITEGDIFRNFHKDLNTLS------- 284
V P+++A I+ F + VVDEG KL GIIT DI +
Sbjct: 6 VPPTTPIMEAAKIMVRNGFRRLPVVDEGTGKLVGIITATDILKYLGGGEKFNKIKTGNGL 65
Query: 285 ------VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
V +M +N I D + A +L+ + + L VVDD K +GIV DLL+
Sbjct: 66 EAINEPVRSIMTRNVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERDLLKA 125
>gnl|CDD|73086 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 = 59.4 bits (144), Expect = 1e-09
Identities = 32/133 (24%), Positives = 54/133 (40%), Gaps = 27/133 (20%)
Query: 231 PLVKIG--CPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF------------ 276
+V + + +A ++ + + VVD+ +L GI++EGD+ R
Sbjct: 3 DVVTVSPETSVAEAARLMLDNHISGLPVVDDDGRLVGIVSEGDLLRRAELGTERRRARWL 62
Query: 277 ------------HKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQ 324
+ V DVM + + EDT L +L+ +H I + VV
Sbjct: 63 DLLAGAEELAAAFVRSHGRKVADVMTRPVVTVGEDTPLAEVAELMEEHRIKRVPVVRG-G 121
Query: 325 KAIGIVHFLDLLR 337
+ +GIV DLLR
Sbjct: 122 RLVGIVSRADLLR 134
>gnl|CDD|88405 cd05008, SIS_GlmS_GlmD_1, SIS (Sugar ISomerase) domain repeat 1
found in Glucosamine 6-phosphate synthase (GlmS) and
Glucosamine-6-phosphate deaminase (GlmD). The SIS domain
is found in many phosphosugar isomerases and
phosphosugar binding proteins. GlmS contains a
N-terminal glutaminase domain and two C-terminal SIS
domains and catalyzes the first step in hexosamine
metabolism, converting fructose 6-phosphate into
glucosamine 6-phosphate using glutamine as nitrogen
source. The glutaminase domain hydrolyzes glutamine to
glutamate and ammonia. Ammonia is transferred through a
channel to the isomerase domain for glucosamine
6-phosphate synthesis. The end product of the pathway is
N-acetylglucosamine, which plays multiple roles in
eukaryotic cells including being a building block of
bacterial and fungal cell walls. In the absence of
glutamine, GlmS catalyzes the isomerization of fructose
6-phosphate into glucose 6- phosphate (PGI-like
activity). Glucosamine-6-phosphate deaminase (GlmD)
contains two SIS domains and catalyzes the deamination
and isomerization of glucosamine-6-phosphate into
fructose-6-phosphate with the release of ammonia; in
presence of high ammonia concentration, GlmD can
catalyze the reverse reaction..
Length = 126
Score = 58.6 bits (142), Expect = 2e-09
Identities = 39/128 (30%), Positives = 54/128 (42%), Gaps = 3/128 (2%)
Query: 66 RVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSD 125
R++I G G S H L V AA ++ D L+I +S SG +
Sbjct: 1 RILIVGCGTSYHAALVAKYLLERLAGIPVEVEAASEFRYRRPLLDEDTLVIAISQSGETA 60
Query: 126 ELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAPTTSAIMQLAI 185
+ A L A+ +AIT+ S +A AD VL L PE +A T + QL
Sbjct: 61 DTLAALRLAKEKGAKTVAITNVVGSTLAREADYVLYLRAGPE---ISVAATKAFTSQLLA 117
Query: 186 GDALAIAL 193
LA+AL
Sbjct: 118 LLLLALAL 125
>gnl|CDD|73084 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 = 58.3 bits (141), Expect = 3e-09
Identities = 32/110 (29%), Positives = 55/110 (50%), Gaps = 12/110 (10%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLS-----------VED 287
+ +A+ ++ E + + VVDE +L GI+T+ D+ TLS V++
Sbjct: 12 IAEALELMREHKIRHLPVVDEEGRLVGIVTDRDLRDASPSPFTTLSEHELYLLLKMPVKE 71
Query: 288 VMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+M K+ + + A L+R+H I L VV+D + +GI+ DLLR
Sbjct: 72 IMTKDVITVHPLDTVEEAALLMREHRIGCLPVVED-GRLVGIITETDLLR 120
Score = 39.4 bits (92), Expect = 0.002
Identities = 16/37 (43%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
+ +A ++ E R GC+ VV++G +L GIITE D+ R
Sbjct: 85 TVEEAALLMREHRIGCLPVVEDG-RLVGIITETDLLR 120
Score = 31.3 bits (71), Expect = 0.39
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 298 EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
T+ A++L+R+H I L VVD+ + +GIV DL
Sbjct: 9 TTTIAE-ALELMREHKIRHLPVVDEEGRLVGIVTDRDLRD 47
>gnl|CDD|73142 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 = 58.2 bits (141), Expect = 3e-09
Identities = 33/103 (32%), Positives = 55/103 (53%), Gaps = 4/103 (3%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI-FRNFHKDLN-TLSVEDVMIKNPKV 295
+ +A +++E R + VVD+G +L GI+T+ D+ R + L+ V +VM P
Sbjct: 11 TIREAARLMTEHRVSSLLVVDDG-RLVGIVTDRDLRNRVVAEGLDPDTPVSEVMTAPPIT 69
Query: 296 ILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
I D + A+ L+ + I L VVDD + +G++ DLLR
Sbjct: 70 IPPDATVFEALLLMLERGIHHLPVVDD-GRLVGVISATDLLRL 111
>gnl|CDD|73115 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 = 58.0 bits (140), Expect = 4e-09
Identities = 32/107 (29%), Positives = 50/107 (46%), Gaps = 2/107 (1%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF--HKDLNTLSVEDVMI 290
V + + A+ + + VVD+ ++L GIIT D+ ++L V +VM
Sbjct: 6 VVLNTDIARAVAEMYTSGSRALPVVDDKKRLVGIITRYDVLSYALESEELKDAKVREVMN 65
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
I + + A L+ +NIS L V+DD K GIV D+LR
Sbjct: 66 SPVITIDANDSIAKARWLMSNNNISRLPVLDDKGKVGGIVTEDDILR 112
>gnl|CDD|73136 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 = 56.8 bits (137), Expect = 8e-09
Identities = 32/97 (32%), Positives = 53/97 (54%), Gaps = 5/97 (5%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDT 300
D + +L E + V VV + +L GIIT D+ RN ++ L +M ++P + D
Sbjct: 14 DVLELLKEYKVSGVPVVKKSGELVGIITRKDLLRNPEEEQLAL----LMTRDPPTVSPDD 69
Query: 301 LLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ A +L+ ++NI + VVDD K +GIV D++R
Sbjct: 70 DVKEAAKLMVENNIRRVPVVDD-GKLVGIVTVADIVR 105
>gnl|CDD|73083 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 = 55.6 bits (134), Expect = 2e-08
Identities = 23/92 (25%), Positives = 50/92 (54%), Gaps = 3/92 (3%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILE 298
L +AI ++ +K+ + VVD+ KL GI++ + + + + S+ED+M+++ +
Sbjct: 13 LAEAIKLMRDKKVDSLLVVDKDNKLLGIVSLESLEQAYKEAK---SLEDIMLEDVFTVQP 69
Query: 299 DTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
D L + L+ + + VVD+ K +G++
Sbjct: 70 DASLRDVLGLVLKRGPKYVPVVDEDGKLVGLI 101
Score = 34.4 bits (79), Expect = 0.043
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 220 ASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEG 270
D+M + V+ L D + ++ ++ V VVDE KL G+IT
Sbjct: 56 LEDIMLE--DVFTVQPDASLRDVLGLVLKRGPKYVPVVDEDGKLVGLITRS 104
Score = 33.2 bits (76), Expect = 0.10
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
IKNP I D L A++L+R + L+VVD K +GIV
Sbjct: 1 IKNPVTITPDRTLAEAIKLMRDKKVDSLLVVDKDNKLLGIV 41
>gnl|CDD|73095 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 = 54.8 bits (132), Expect = 4e-08
Identities = 30/90 (33%), Positives = 49/90 (54%), Gaps = 2/90 (2%)
Query: 250 RFGCVAV-VDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQL 308
R+G A+ V EG ++ GII+ D+ + L V+D M + + DT L+ +L
Sbjct: 22 RYGHTALPVVEGGRVVGIISRRDVEKALRHGLGHAPVKDYMSTDVVTVPPDTPLSEVQEL 81
Query: 309 LRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+ +H+I + VV+D + +GIV DLLR
Sbjct: 82 MVEHDIGRVPVVED-GRLVGIVTRTDLLRT 110
>gnl|CDD|73113 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 = 54.8 bits (132), Expect = 4e-08
Identities = 28/102 (27%), Positives = 47/102 (46%), Gaps = 3/102 (2%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKD--LNTLSVEDVMIKNPKV 295
PL + + +++ VVD+ +L GI++ DI + + D+M K P V
Sbjct: 11 PLNELLDVIAHSPENNFPVVDDDGRLVGIVSLDDIREILFDPSLYDLVVASDIMTKPPVV 70
Query: 296 ILEDTLLTVAMQLLRQHNISVLMVVDDCQ-KAIGIVHFLDLL 336
+ + L A++ + L VVDD K +GI+ DLL
Sbjct: 71 VYPEDSLEDALKKFEDSDYEQLPVVDDDPGKLLGILSRSDLL 112
Score = 29.3 bits (66), Expect = 1.6
Identities = 13/48 (27%), Positives = 22/48 (45%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
++ I EDT L + ++ + VVDD + +GIV D+
Sbjct: 1 RDVVTIPEDTPLNELLDVIAHSPENNFPVVDDDGRLVGIVSLDDIREI 48
>gnl|CDD|73112 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 = 54.5 bits (131), Expect = 4e-08
Identities = 34/102 (33%), Positives = 53/102 (51%), Gaps = 2/102 (1%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR-NFHKDLNTLSVEDVMIKNPKVI 296
+ + + ++ +R VVD+G +L GI+T DI R T+ V DVM ++P
Sbjct: 11 TVDEVLALMFGERHRGYPVVDDG-RLVGIVTLADIRRVPAEGREATVLVGDVMTRDPVTA 69
Query: 297 LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
D L A++ + + +I L VVDD + +GIV DLLR
Sbjct: 70 SPDETLRDALKRMAERDIGRLPVVDDSGRLVGIVSRSDLLRA 111
Score = 37.9 bits (88), Expect = 0.004
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 220 ASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
DVM L DA+ ++E+ G + VVD+ +L GI++ D+ R
Sbjct: 58 VGDVMT--RDPVTASPDETLRDALKRMAERDIGRLPVVDDSGRLVGIVSRSDLLR 110
>gnl|CDD|144238 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 = 54.5 bits (132), Expect = 4e-08
Identities = 23/54 (42%), Positives = 34/54 (62%)
Query: 285 VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
V+D+M + + DT L A++L+R++ IS L VVD+ K +GIV DLLR
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLLRA 54
Score = 49.9 bits (120), Expect = 1e-06
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 2/59 (3%)
Query: 220 ASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHK 278
D+M + V L +A+ ++ E + VVDE KL GI+T D+ R
Sbjct: 1 VKDIMTP--DVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLLRALLG 57
>gnl|CDD|144171 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 = 54.2 bits (131), Expect = 6e-08
Identities = 22/100 (22%), Positives = 45/100 (45%), Gaps = 2/100 (2%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVIL 297
+ +A+ + V V ++G+ L G++ L+ +SV M ++
Sbjct: 100 TVAEALELKERYGISGVPVTEDGKLLGGLVGIRT--SRDIDFLSKVSVVMTMTEDLVTAP 157
Query: 298 EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
E L A ++L +H I L +VDD + +G++ D+ +
Sbjct: 158 EGITLEEANEILHEHKIEKLPIVDDDGELVGLITRKDIEK 197
Score = 34.2 bits (79), Expect = 0.049
Identities = 17/55 (30%), Positives = 27/55 (49%)
Query: 221 SDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
S VM + + G L +A IL E + + +VD+ +L G+IT DI +
Sbjct: 144 SVVMTMTEDLVTAPEGITLEEANEILHEHKIEKLPIVDDDGELVGLITRKDIEKA 198
>gnl|CDD|73145 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 = 52.9 bits (127), Expect = 1e-07
Identities = 32/112 (28%), Positives = 51/112 (45%), Gaps = 11/112 (9%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR-----------NFHKDLNTLSVE 286
L DA ++ E R + VV+E KL G++T+ D+ R + V
Sbjct: 11 SLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAALSSLSDNGEESLTKERDVPVA 70
Query: 287 DVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+VM + + DT L A +++ ++ I L VVDD +GI+ D LR
Sbjct: 71 EVMKTDVLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDFLRL 122
Score = 47.1 bits (112), Expect = 6e-06
Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 221 SDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
++VM + + V PL +A I+ E + GC+ VVD+ L GIIT D R
Sbjct: 70 AEVMKT--DVLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDFLR 121
Score = 33.3 bits (76), Expect = 0.10
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGI 340
+ ED L A +L+R+H I L VV++ K +G++ DLLR +
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAAL 50
>gnl|CDD|88402 cd05005, SIS_PHI, Hexulose-6-phosphate isomerase (PHI). PHI is a
member of the SIS (Sugar ISomerase domain) superfamily.
In the ribulose monophosphate pathway of formaldehyde
fixation, hexulose-6-phosphate synthase catalyzes the
condensation of ribulose-5-phosphate with formadelhyde
to become hexulose-6-phosphate, which is then isomerized
to fructose-6-phosphate by PHI..
Length = 179
Score = 52.9 bits (127), Expect = 1e-07
Identities = 38/163 (23%), Positives = 63/163 (38%), Gaps = 12/163 (7%)
Query: 52 QFHCAVEKIKAIKGRVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITR 111
+ + I K R+ + G G+SG + A L G + V I
Sbjct: 22 ELDKLISAILNAK-RIFVYGAGRSGLVAKAFAMRLMHLGLNVYVVGETTTPA-----IGP 75
Query: 112 DDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLP----KEPE 167
DL+I +S SG + + A++ ++ ITS S +A AD+V+ +P +
Sbjct: 76 GDLLIAISGSGETSSVVNAAEKAKKAGAKVVLITSNPDSPLAKLADVVVVIPAATKDDHG 135
Query: 168 SCPHGLAPTTSAIMQLA--IGDALAIALLESRNFSENDFYVLH 208
+ P + Q A DA+ L+E SE + H
Sbjct: 136 GEHKSIQPLGTLFEQSALVFLDAVIAKLMEELGVSEEEMKKRH 178
>gnl|CDD|73141 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 = 52.9 bits (127), Expect = 1e-07
Identities = 31/105 (29%), Positives = 48/105 (45%), Gaps = 9/105 (8%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI------FRNFH-KDLNTLSV 285
V+ L A+ +L++ + + V+D+ K G I+ DI N + L L V
Sbjct: 6 VQDTNTLRHALLVLTKHGYSAIPVLDKEGKYVGTISLTDILWKLKGLENLDLERLVDLKV 65
Query: 286 EDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
DVM + VI++D + + LL L VVDD IGI+
Sbjct: 66 IDVMNTDVPVIIDDADIEEILHLLIDQPF--LPVVDDDGIFIGII 108
>gnl|CDD|73099 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 = 52.2 bits (125), Expect = 2e-07
Identities = 30/97 (30%), Positives = 47/97 (48%), Gaps = 6/97 (6%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDT 300
A ++ + R G + VV++G KL GIIT D+ R H N L V D M + I +
Sbjct: 14 RAARLMEKHRIGGLPVVEDG-KLVGIITSRDV-RRAHP--NRL-VADAMTREVVTISPEA 68
Query: 301 LLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
L A +L+ + I L V+ + K +GI+ +
Sbjct: 69 SLLEAKRLMEEKKIERLPVLRER-KLVGIITKGTIAL 104
>gnl|CDD|73134 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 = 51.4 bits (123), Expect = 3e-07
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 23/122 (18%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHK-------------------- 278
L D + IL + V VVD ++ GI++EGD+ R +K
Sbjct: 12 LRDVVEILLTGKISGVPVVDNEGRVVGIVSEGDLIRKIYKGKGLFYVTLLYSVIFLDESK 71
Query: 279 --DLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
L VE++M K + EDT + +++ + NI L VVDD K +GI+ D++
Sbjct: 72 IKKLLGKKVEEIMTKKVITVDEDTTIEDVARIMSKKNIKRLPVVDD-GKLVGIISRGDII 130
Query: 337 RF 338
R
Sbjct: 131 RS 132
Score = 36.8 bits (85), Expect = 0.008
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
V + D I+S+K + VVD+G KL GII+ GDI R
Sbjct: 91 VDEDTTIEDVARIMSKKNIKRLPVVDDG-KLVGIISRGDIIR 131
Score = 34.5 bits (79), Expect = 0.039
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
K+ + +D L +++L IS + VVD+ + +GIV DL+R
Sbjct: 1 KDVITVKKDDTLRDVVEILLTGKISGVPVVDNEGRVVGIVSEGDLIR 47
>gnl|CDD|73100 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 = 51.4 bits (123), Expect = 4e-07
Identities = 29/111 (26%), Positives = 49/111 (44%), Gaps = 12/111 (10%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDL------------NTLSV 285
L +A +L R + VVD ++L GI+T+ D+ R+ D +V
Sbjct: 12 SLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLRHARPDGRRPLRGRLRGRDKPETV 71
Query: 286 EDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
D+M + DT + + LL + VVD+ ++ +GIV DL+
Sbjct: 72 GDIMSPPVVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDLI 122
Score = 41.4 bits (97), Expect = 4e-04
Identities = 20/39 (51%), Positives = 24/39 (61%)
Query: 299 DTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
DT L A LLR+H I L VVD ++ +GIV DLLR
Sbjct: 10 DTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLR 48
Score = 36.7 bits (85), Expect = 0.009
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 219 CASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
D+M + V+ P+ + + +L++ V VVDE ++L GI+T+ D+
Sbjct: 70 TVGDIMSPP--VVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDL 121
>gnl|CDD|88401 cd04795, SIS, SIS domain. SIS (Sugar ISomerase) domains are found
in many phosphosugar isomerases and phosphosugar binding
proteins. SIS domains are also found in proteins that
regulate the expression of genes involved in synthesis
of phosphosugars..
Length = 87
Score = 51.1 bits (122), Expect = 4e-07
Identities = 31/81 (38%), Positives = 45/81 (55%), Gaps = 2/81 (2%)
Query: 67 VVITGIGKSGHIGSKLASTLAS-TGTPSFFVHAAEASHGD-LGMITRDDLIIVLSWSGSS 124
+ + GIG SG I + A L TG + A E H L ++ + D++I LS+SG +
Sbjct: 1 IFVIGIGGSGAIAAYFALELLELTGIEVVALIATELEHASLLSLLRKGDVVIALSYSGRT 60
Query: 125 DELKAILYYARRFSIPLIAIT 145
+EL A L A+ IP+IAIT
Sbjct: 61 EELLAALEIAKELGIPVIAIT 81
>gnl|CDD|73102 cd04602, CBS_pair_IMPDH_2, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the inosine 5' monophosphate dehydrogenase (IMPDH)
protein. IMPDH is an essential enzyme that catalyzes
the first step unique to GTP synthesis, playing a key
role in the regulation of cell proliferation and
differentiation. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown. Mutations of
conserved residues within this domain in IMPDH have been
associated with retinitis pigmentosa..
Length = 114
Score = 50.9 bits (122), Expect = 5e-07
Identities = 28/102 (27%), Positives = 53/102 (51%), Gaps = 8/102 (7%)
Query: 241 DAITILSEKRFGCVAVVDEGQ---KLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVIL 297
D + I +K F + V ++G+ KL GI+T DI +F D + + +VM +++
Sbjct: 15 DVLEIKEKKGFSGIPVTEDGKSGGKLLGIVTSRDI--DFLTD-SETPLSEVMTPREVLVV 71
Query: 298 EDTLLTV--AMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
T +T+ A ++LR+ L +V+D + + +V DL +
Sbjct: 72 APTGITLEEANEILRESKKGKLPIVNDDGELVALVTRSDLKK 113
Score = 31.7 bits (72), Expect = 0.28
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 221 SDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
S+VM + + + G L +A IL E + G + +V++ +L ++T D+ +N
Sbjct: 60 SEVMTPREVLVVAPTGITLEEANEILRESKKGKLPIVNDDGELVALVTRSDLKKN 114
>gnl|CDD|73144 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 = 51.0 bits (122), Expect = 5e-07
Identities = 33/108 (30%), Positives = 51/108 (47%), Gaps = 5/108 (4%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF---HKDLNTLSVEDVM 289
V + +A I++E G + VVD K GIITE D+ + + + V +VM
Sbjct: 6 VDPDTTVYEAANIMTENNIGRLIVVDNE-KPVGIITERDLVKKVVSRNLKPREVPVGEVM 64
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
I + L A +L+ +H I L VVDD + +GIV D++
Sbjct: 65 STPLITIDPNASLNEAAKLMAKHGIKRLPVVDD-DELVGIVTTTDIVM 111
Score = 29.4 bits (66), Expect = 1.4
Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
KN + DT + A ++ ++NI L+VVD+ +K +GI+ DL++
Sbjct: 1 KNVITVDPDTTVYEAANIMTENNIGRLIVVDN-EKPVGIITERDLVK 46
>gnl|CDD|32404 COG2222, AgaS, Predicted phosphosugar isomerases [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 50.7 bits (121), Expect = 6e-07
Identities = 32/120 (26%), Positives = 48/120 (40%), Gaps = 4/120 (3%)
Query: 66 RVVITGIGKSGHIGSKLASTLAS-TGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSS 124
R++ G G S H + L G + A+E + D L+I S SG++
Sbjct: 41 RILFVGCGSSLHAATPAKYLLERELGLLVAAIPASEFLTNGAKYLGEDSLVIAFSQSGNT 100
Query: 125 DELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAPTTSAIMQLA 184
E A A+ IA+T+E S +A AD V+ E+ +A T S L
Sbjct: 101 PESVAAAELAKEGGALTIALTNEEDSPLARAADYVIPYLAGEEA---SVAATKSFTASLL 157
Score = 29.9 bits (67), Expect = 0.94
Identities = 35/183 (19%), Positives = 68/183 (37%), Gaps = 22/183 (12%)
Query: 26 CALRSIIAEKRGLSSLESSLQG---ELSFQFHC-AVEKIKAIKGRVVITGIGKSGHIGSK 81
AL +++AE G + L ++L E + A E + I +G G+
Sbjct: 157 LALLALLAEYDGDAQLLAALPDLPLEAAKALEEDAQEFAEEYADEDRIYTLGSGPLYGAA 216
Query: 82 LASTLAS---TGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSDEL-KAILYYARRF 137
+ L S + + E HG ++ +++ + EL + L + + +
Sbjct: 217 YEAALKLKEMQWIHSEAISSGEFRHGPKELVEEGTPVLLFVSEDETRELDERALKFLKNY 276
Query: 138 SIPLIAITSENKSVVACHADIVLTLPKEPESCPHGLAPTTSAIMQLAIGDALAIALLESR 197
++ I ++ D L L + H LAP ++ L + LA AL +R
Sbjct: 277 GAKVLVIDAK---------DAALDLIDQRVR--HDLAP---PLLSLVVAQRLAYALAVAR 322
Query: 198 NFS 200
+
Sbjct: 323 GHN 325
>gnl|CDD|73103 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 = 49.5 bits (118), Expect = 1e-06
Identities = 33/101 (32%), Positives = 54/101 (53%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVIL 297
PL +AI +++E V VVDE K+ G +T D+ D TL V +V I ++
Sbjct: 11 PLREAIKMINELGARAVVVVDEENKVLGQVTLSDLLEIGPNDYETLKVCEVYIVPVPIVY 70
Query: 298 EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
D+ +T +++ R+ V+ VVD K +G ++ +LLRF
Sbjct: 71 CDSKVTDLLRIFRETEPPVVAVVDKEGKLVGTIYERELLRF 111
Score = 33.7 bits (77), Expect = 0.066
Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 4/64 (6%)
Query: 211 GKLGTLFVCASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEG 270
TL VC + +P+V + D + I E VAVVD+ KL G I E
Sbjct: 51 NDYETLKVCEVYI----VPVPIVYCDSKVTDLLRIFRETEPPVVAVVDKEGKLVGTIYER 106
Query: 271 DIFR 274
++ R
Sbjct: 107 ELLR 110
>gnl|CDD|73133 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 = 49.6 bits (118), Expect = 1e-06
Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 11/104 (10%)
Query: 245 ILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFH-----------KDLNTLSVEDVMIKNP 293
++ E F + VV + +L GIIT DI R + + +VE +M
Sbjct: 18 LMLESGFTGLPVVQKAGELIGIITRRDIIRAGSVRTSVEDQQRTQTKASPTVEKIMSTPV 77
Query: 294 KVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ D + A++L+ +H+I L VV++ + +GIV D+L+
Sbjct: 78 YSVTPDDSIATAVELMLEHDIGRLPVVNEKDQLVGIVDRHDVLK 121
Score = 27.6 bits (61), Expect = 4.7
Identities = 12/51 (23%), Positives = 23/51 (45%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGII 341
+ P D ++ L+ + + L VV + IGI+ D++R G +
Sbjct: 1 REPVTCTPDDPVSKVWDLMLESGFTGLPVVQKAGELIGIITRRDIIRAGSV 51
>gnl|CDD|73131 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 = 49.4 bits (118), Expect = 2e-06
Identities = 35/117 (29%), Positives = 55/117 (47%), Gaps = 14/117 (11%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI------------FRNFHKDL 280
V + A ++ + + V++ G KL GI+TE DI R+ + +
Sbjct: 6 VSPDDRVSHARRLMLDHDISRLPVIEGG-KLVGIVTEKDIADALRSFRPLVRDRHQERRI 64
Query: 281 NTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
L V D+M + I DT ++ L+ ++NI L VVDD K +GIV D+LR
Sbjct: 65 RNLPVSDIMTRPVITIEPDTSVSDVASLMLENNIGGLPVVDD-GKLVGIVTRTDILR 120
>gnl|CDD|73127 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 = 49.0 bits (117), Expect = 2e-06
Identities = 27/106 (25%), Positives = 51/106 (48%), Gaps = 9/106 (8%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR-----NFHKDLNTLSVEDVMIKN 292
+ +A+ L + + VVD+ L G ++E D + ++H D +V D+M
Sbjct: 11 SVTEAVEKLLKSKISGGPVVDDNGNLVGFLSEQDCLKQLLESSYHCDG-VATVRDIMTTE 69
Query: 293 PKVI-LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ +D+++ +A QL+ + VVDD K +G + D+LR
Sbjct: 70 VLTVSPDDSIVDLA-QLMLKAKPKRYPVVDD-GKLVGQISRRDVLR 113
Score = 31.6 bits (72), Expect = 0.33
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+NP D +T A++ L + IS VVDD +G + D L+
Sbjct: 1 RNPVTFTPDMSVTEAVEKLLKSKISGGPVVDDNGNLVGFLSEQDCLKQ 48
>gnl|CDD|73109 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 = 49.0 bits (117), Expect = 2e-06
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 5/103 (4%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN--TLSVEDVMIKNPKV 295
+ AI + E + VVD+G ++ G I E D+ + +L V +VM +
Sbjct: 11 TVSQAIERMREYGVSQLPVVDDG-RVVGSIDESDLLDALIEGKAKFSLPVREVMGEPLPT 69
Query: 296 ILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+ D + +LL + N++V VVD+ K +GI+ DLL++
Sbjct: 70 VDPDAPIEELSELLDRGNVAV--VVDEGGKFVGIITRADLLKY 110
Score = 30.5 bits (69), Expect = 0.69
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 298 EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGI 340
+DT+ A++ +R++ +S L VVDD + +G + DLL I
Sbjct: 9 DDTVSQ-AIERMREYGVSQLPVVDD-GRVVGSIDESDLLDALI 49
Score = 29.4 bits (66), Expect = 1.5
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 220 ASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
+VM G+ +P V P+ + +L R VVDEG K GIIT D+ +
Sbjct: 59 VREVM--GEPLPTVDPDAPIEELSELLD--RGNVAVVVDEGGKFVGIITRADLLK 109
>gnl|CDD|73125 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 = 49.1 bits (117), Expect = 2e-06
Identities = 28/100 (28%), Positives = 51/100 (51%), Gaps = 4/100 (4%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR--NFHKDLNTLSVEDVMIKNPKVI 296
+ +A+ + + + V D +KLKG++T DI F L V +++ ++ +
Sbjct: 12 IREALHEMLKYNTNEIIVKDNEEKLKGVVTFTDILDLDLFESFLE-KKVFNIVSQDVFYV 70
Query: 297 LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
E+ + A+ ++R+ I L VVDD K IG+V D+L
Sbjct: 71 NEEDTIDEALDIMREKQIGRLPVVDD-NKLIGVVRTKDIL 109
Score = 32.9 bits (75), Expect = 0.15
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 295 VILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFG 339
I ED + A+ + ++N + ++V D+ +K G+V F D+L
Sbjct: 5 TIDEDASIREALHEMLKYNTNEIIVKDNEEKLKGVVTFTDILDLD 49
>gnl|CDD|73143 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 = 48.7 bits (116), Expect = 2e-06
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 254 VAVVDEGQKLKGIITEGDIFR---NFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLR 310
VVD + GII+ D+ + + V K V+ E++L V ++LL
Sbjct: 28 FVVVDNEGRYVGIISLADLRAIPTSQWAQTTVIQVMTPAAKLVTVLSEESLAEV-LKLLE 86
Query: 311 QHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+ + L VV+D + IG++ DLLR
Sbjct: 87 EQGLDELAVVEDSGQVIGLITEADLLRR 114
Score = 33.6 bits (77), Expect = 0.081
Identities = 15/53 (28%), Positives = 27/53 (50%)
Query: 222 DVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
VM + V L + + +L E+ +AVV++ ++ G+ITE D+ R
Sbjct: 61 QVMTPAAKLVTVLSEESLAEVLKLLEEQGLDELAVVEDSGQVIGLITEADLLR 113
>gnl|CDD|73132 cd04634, CBS_pair_21, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase)..
Length = 143
Score = 48.3 bits (115), Expect = 3e-06
Identities = 35/139 (25%), Positives = 52/139 (37%), Gaps = 36/139 (25%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIF------------------- 273
+ DA +L E + V+D G KL GI++E DI
Sbjct: 6 CNADDTISDAARLLRENKISGAPVLDGG-KLVGIVSESDILKLLVTHDPSGNLWLPSPLE 64
Query: 274 ------RNFHK---------DLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLM 318
R F D + V D+M K I D + A +L+ +H I L
Sbjct: 65 LIELPLREFINWEETKRALTDAGKMKVRDIMTKKVITISPDASIEDAAELMVRHKIKRLP 124
Query: 319 VVDDCQKAIGIVHFLDLLR 337
VV+D + +GIV D++
Sbjct: 125 VVED-GRLVGIVTRGDIIE 142
Score = 30.2 bits (68), Expect = 0.90
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
KNP D ++ A +LLR++ IS V+D K +GIV D+L+
Sbjct: 1 KNPITCNADDTISDAARLLRENKISGAPVLDG-GKLVGIVSESDILK 46
>gnl|CDD|32729 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 48.4 bits (115), Expect = 3e-06
Identities = 27/102 (26%), Positives = 46/102 (45%), Gaps = 3/102 (2%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN--TLSVEDVMIKNPKV 295
+ DA + ++ + V+D+ L GI+T D+ D T V +VM
Sbjct: 167 SIQDAARKMKDEGVSSLVVLDDSGPLLGIVTRKDLRSRVIADGRSKTQKVSEVMTSPVIS 226
Query: 296 ILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ L AM ++ ++ I L V +D Q +GI+ D+LR
Sbjct: 227 VDRGDFLFEAMLMMLRNRIKHLPVTEDGQ-PLGILTLTDILR 267
Score = 35.3 bits (81), Expect = 0.027
Identities = 13/61 (21%), Positives = 24/61 (39%)
Query: 278 KDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ V +V + + A + ++ +S L+V+DD +GIV DL
Sbjct: 144 SEFILTRVGEVKTLPAVTVSPQASIQDAARKMKDEGVSSLVVLDDSGPLLGIVTRKDLRS 203
Query: 338 F 338
Sbjct: 204 R 204
Score = 33.7 bits (77), Expect = 0.077
Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 17/109 (15%)
Query: 220 ASDVMHSGDSIPLVKI--GCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFH 277
S+VM S P++ + G L +A+ ++ R + V ++GQ L GI+T DI R F
Sbjct: 216 VSEVMTS----PVISVDRGDFLFEAMLMMLRNRIKHLPVTEDGQPL-GILTLTDILRLFS 270
Query: 278 KDLNTL--------SVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLM 318
++ L S+E+ + N +L+D+L T+ + +R IS L+
Sbjct: 271 QNSIVLVKRIARASSIEE--LANTAELLDDSLSTLVSRGVRTEFISELI 317
>gnl|CDD|73106 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 = 47.8 bits (114), Expect = 4e-06
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 256 VVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNIS 315
VVDE +L G+++ D+ D +T V D+M + + D +L ++++
Sbjct: 30 VVDEEGRLLGVVSLRDLLLA---DPDTP-VSDIMDTDVISVSADDDQEEVARLFEKYDLL 85
Query: 316 VLMVVDDCQKAIGIVHFLDLL 336
L VVD+ + +GI+ D++
Sbjct: 86 ALPVVDEEGRLVGIITVDDVI 106
Score = 34.7 bits (80), Expect = 0.034
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 221 SDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
SD+M + V + + + + VVDE +L GIIT D+
Sbjct: 56 SDIMD--TDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRLVGIITVDDV 105
Score = 28.9 bits (65), Expect = 2.1
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 295 VILEDTLLTVAMQLLRQH-----NISVLMVVDDCQKAIGIVHFLDLLR 337
+ ED + A++ LR++ I + VVD+ + +G+V DLL
Sbjct: 1 AVREDWTVGEALEYLRRNADDPETIYYIYVVDEEGRLLGVVSLRDLLL 48
>gnl|CDD|73120 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 = 47.6 bits (113), Expect = 4e-06
Identities = 28/124 (22%), Positives = 49/124 (39%), Gaps = 26/124 (20%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN----------------- 281
L+ + + + G V VVD+ K G+IT D+ +D
Sbjct: 12 LLHVVDEMEKNGVGRVIVVDDNGKPVGVITYRDLAFAEFEDNERGLPKKSIKMKRKAGQK 71
Query: 282 --------TLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFL 333
L ED+M + + + + A +L+ + NIS L VVD+ +G++
Sbjct: 72 RYRYVKEVPLVAEDIMTEEIITVSPNDDVVDAAKLMLEANISGLPVVDN-DNIVGVITKT 130
Query: 334 DLLR 337
D+ R
Sbjct: 131 DICR 134
>gnl|CDD|30798 COG0449, GlmS, Glucosamine 6-phosphate synthetase, contains
amidotransferase and phosphosugar isomerase domains
[Cell envelope biogenesis, outer membrane].
Length = 597
Score = 47.5 bits (113), Expect = 6e-06
Identities = 40/168 (23%), Positives = 66/168 (39%), Gaps = 10/168 (5%)
Query: 40 SLESSLQGELSFQFHCAVE-KIKAIKGRVVITGIGKSGH---IGSKLASTLASTGTPSFF 95
+L ++LQG L ++ I R++I G S H + LA
Sbjct: 258 ALRNTLQGRLDELVQNELDLDILREVDRIIIVACGTSYHAGLVAKYFFERLAKIPV---E 314
Query: 96 VHAAEASHGDLGMITRDDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVACH 155
V A + + L+I +S SG + + A L A+ +AIT+ S +A
Sbjct: 315 VEEASEFRYREPALNPNTLVIAISQSGETADTLAALRLAKEQGAKTLAITNVPGSTIARE 374
Query: 156 ADIVLTLPKEPESCPHGLAPTTSAIMQLAIGDALAIALLESRNFSEND 203
+D L + PE G+A T + Q+ LA+ L + R +
Sbjct: 375 SDHTLLIRAGPEI---GVASTKAFTAQVLALYLLALYLAKQRGTISEE 419
>gnl|CDD|73096 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 = 47.1 bits (112), Expect = 6e-06
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 7/87 (8%)
Query: 250 RFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLL 309
RF VVDE K+ GI+T D+ ++E VM KNP + T + ++
Sbjct: 27 RF---PVVDEKNKVVGIVTSKDVA----GKDPDTTIEKVMTKNPITVNPKTSVASVAHMM 79
Query: 310 RQHNISVLMVVDDCQKAIGIVHFLDLL 336
I +L VVDD +K +GI+ D+L
Sbjct: 80 IWEGIEMLPVVDDNKKLLGIISRQDVL 106
Score = 27.0 bits (60), Expect = 7.8
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 254 VAVVDEGQKLKGIITEGDIFRN 275
+ VVD+ +KL GII+ D+ +
Sbjct: 87 LPVVDDNKKLLGIISRQDVLKA 108
>gnl|CDD|73118 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 = 46.9 bits (111), Expect = 8e-06
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 3/108 (2%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN---TLSVEDVM 289
+ + L A IL E V V D KL G++T+ D+ R + T VE+VM
Sbjct: 6 IDVNATLQRAAKILGEPGIDLVVVCDPHGKLAGVLTKTDVVRQMGRCGGPGCTAPVENVM 65
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ LL Q+++Q + + VVD+ + +G+++ D L+
Sbjct: 66 TRAVVSCRPGDLLHDVWQVMKQRGLKNIPVVDENARPLGVLNARDALK 113
>gnl|CDD|32420 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 45.6 bits (108), Expect = 2e-05
Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 250 RFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLL 309
+ VVDE KL G+++ D+ +L ++D+M + +L D +L
Sbjct: 167 TIYYLYVVDEKGKLLGVVSLRDLLTAEPDEL----LKDLMEDDVVSVLADDDQEEVARLF 222
Query: 310 RQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
++++ + VVD+ + IGI+ D++
Sbjct: 223 EKYDLLAVPVVDEDNRLIGIITIDDIIDV 251
>gnl|CDD|32286 COG2103, COG2103, Predicted sugar phosphate isomerase [General
function prediction only].
Length = 298
Score = 45.2 bits (107), Expect = 3e-05
Identities = 35/137 (25%), Positives = 55/137 (40%), Gaps = 25/137 (18%)
Query: 56 AVEKI-KAIK--GRVVITGIGKSGHIGSKLASTLAST-------------GTPSFFVHAA 99
AV+ I A+K GR++ G G SG +G AS T G + A
Sbjct: 49 AVDIIAAALKQGGRLIYIGAGTSGRLGVLDASECPPTFGVPPELVIGLIAGGEEAILKAV 108
Query: 100 EASHGDLGM---------ITRDDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKS 150
E + D + +T D+++ ++ SG + + L YAR+ I I S
Sbjct: 109 EGAEDDEELGEADLKNIGLTAKDVVVGIAASGRTPYVIGALEYARQRGATTIGIACNPGS 168
Query: 151 VVACHADIVLTLPKEPE 167
++ ADI + PE
Sbjct: 169 AISRIADIAIEPVVGPE 185
>gnl|CDD|88404 cd05007, SIS_Etherase, N-acetylmuramic acid 6-phosphate etherase.
Members of this family contain the SIS (Sugar ISomerase)
domain. The SIS domain is found in many phosphosugar
isomerases and phosphosugar binding proteins. The
bacterial cell wall sugar N-acetylmuramic acid carries a
unique D-lactyl ether substituent at the C3 position.
The etherase catalyzes the cleavage of the lactyl ether
bond of N-acetylmuramic acid 6-phosphate..
Length = 257
Score = 45.1 bits (107), Expect = 3e-05
Identities = 41/134 (30%), Positives = 55/134 (41%), Gaps = 23/134 (17%)
Query: 56 AVEKIKAIKGRVVITGIGKSGHIGSKLASTLAST-GTPSFFVHA---------------- 98
A E+++A GR++ G G SG +G AS L T GTP V
Sbjct: 42 AAERLRA-GGRLIYVGAGTSGRLGVLDASELPPTFGTPPERVVGLIAGGEPALTRAVEGA 100
Query: 99 ---AEASHGDLGMI--TRDDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVA 153
EA DL I T D++I ++ SG + + L YAR I I S +
Sbjct: 101 EDDEEAGAADLQAINLTERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLL 160
Query: 154 CHADIVLTLPKEPE 167
ADI + L PE
Sbjct: 161 QLADIAIALITGPE 174
>gnl|CDD|33866 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 44.9 bits (106), Expect = 4e-05
Identities = 26/116 (22%), Positives = 52/116 (44%), Gaps = 4/116 (3%)
Query: 222 DVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN 281
D+M + ++ + D + ++ + VV+ K+ G++T D+
Sbjct: 192 DIMTPLEDTSYLRETDTVEDWLDLVEKTGHSRFPVVNRSMKVVGVVTMRDVLDK----KP 247
Query: 282 TLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ ++E VM KNP + T + Q++ I +L VVD +GI+ D+L+
Sbjct: 248 STTIEKVMTKNPITVRAKTSVASVAQMMIWEGIEMLPVVDSNNTLLGIITRQDVLK 303
>gnl|CDD|33419 COG3620, COG3620, Predicted transcriptional regulator with
C-terminal CBS domains [Transcription].
Length = 187
Score = 44.1 bits (104), Expect = 5e-05
Identities = 34/125 (27%), Positives = 62/125 (49%), Gaps = 9/125 (7%)
Query: 218 VCASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR--- 274
+ A +MHS + V + D + ++ +K + V++E K+ G ITE DI R
Sbjct: 65 ITAKTIMHS--PVVSVSPDDSISDVVNLMRDKGISQLPVIEED-KVVGSITENDIVRALL 121
Query: 275 NFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLD 334
+ + +L V +VM + + D L V QLL +H ++VV++ K +GI+ D
Sbjct: 122 EGMESIRSLRVREVMGEPFPTVSPDESLNVISQLLEEHP--AVLVVEN-GKVVGIITKAD 178
Query: 335 LLRFG 339
+++
Sbjct: 179 IMKLL 183
>gnl|CDD|36975 KOG1764, KOG1764, KOG1764, 5'-AMP-activated protein kinase, gamma
subunit [Energy production and conversion].
Length = 381
Score = 43.9 bits (103), Expect = 7e-05
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 12/112 (10%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI--------FRNFHKDLNTLSVEDVM 289
P+I+A+ I+SE+R + VVDE K G + D+ + N + ++
Sbjct: 247 PVIEALKIMSERRISALPVVDENGKKVGNYSRFDVIHLAREGTYNNLDLSCLSEALSHRP 306
Query: 290 IKNPKVIL---EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
I+ V+ TL V +L+ H + L VVD+ +G++ D+L +
Sbjct: 307 IRFEGVVTCRPTSTLAEVIDKLVA-HRVHRLWVVDEDGVLVGVISLSDILSY 357
Score = 41.2 bits (96), Expect = 4e-04
Identities = 36/161 (22%), Positives = 67/161 (41%), Gaps = 15/161 (9%)
Query: 183 LAIGDALAIALLESRNFSENDFYVLHPGGKLGTLFVCASDVMHSGDSIPLVKIGCP--LI 240
L I D + + L ++ S D + +L ++ P V I L+
Sbjct: 116 LTITDFITVLLRYYKSKSSLDNIEVLEDSQLSKR-REVECLLKETLKPPFVSISPESSLL 174
Query: 241 DAITILSEKRFGCVAVVDEGQ-KLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPK----- 294
DA+ +L + R V V+D ++ I+T+ I + + L + ++ K+
Sbjct: 175 DAVLLLIKSRIHRVPVIDPETGEVLYILTQRRILKFLWLNGRLLPLPSLLSKSLSDLGIG 234
Query: 295 ------VILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGI 329
I EDT + A++++ + IS L VVD+ K +G
Sbjct: 235 TWSNIASISEDTPVIEALKIMSERRISALPVVDENGKKVGN 275
>gnl|CDD|73114 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 = 43.3 bits (102), Expect = 1e-04
Identities = 25/108 (23%), Positives = 48/108 (44%), Gaps = 15/108 (13%)
Query: 230 IPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVM 289
+P V PL A+ I+ + V+D+ KL GIITE D+ +V+
Sbjct: 3 VPTVWEETPLPVAVRIMELANVKALPVLDDDGKLSGIITERDLIAK----------SEVV 52
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ + + Q ++++ I + +++ K IG++ DLL+
Sbjct: 53 TATKRTTVSE-----CAQKMKRNRIEQIPIINGNDKLIGLLRDHDLLK 95
Score = 29.1 bits (65), Expect = 1.8
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 291 KNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+N + E+T L VA++++ N+ L V+DD K GI+ DL+
Sbjct: 1 RNVPTVWEETPLPVAVRIMELANVKALPVLDDDGKLSGIITERDLIA 47
>gnl|CDD|73137 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 = 42.9 bits (101), Expect = 1e-04
Identities = 19/76 (25%), Positives = 34/76 (44%)
Query: 255 AVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNI 314
VVD L G++T D+ R + V VM ++ + L ++L++Q
Sbjct: 28 PVVDGDGHLVGLLTRDDLIRALAEGGPDAPVRGVMRRDFPTVSPSATLDAVLRLMQQGGA 87
Query: 315 SVLMVVDDCQKAIGIV 330
+ VVD + +G+V
Sbjct: 88 PAVPVVDGSGRLVGLV 103
Score = 30.6 bits (69), Expect = 0.61
Identities = 22/103 (21%), Positives = 38/103 (36%), Gaps = 21/103 (20%)
Query: 185 IGDALAIALLESRNFSENDFYVLHPGGKL---------------GTLFVCASDVMHSGDS 229
+ DA ALL + ++++F V+ G L G VM
Sbjct: 12 LDDAAD-ALLAT---TQHEFPVVDGDGHLVGLLTRDDLIRALAEGGPDAPVRGVMRRD-- 65
Query: 230 IPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
P V L + ++ + V VVD +L G++T ++
Sbjct: 66 FPTVSPSATLDAVLRLMQQGGAPAVPVVDGSGRLVGLVTLENV 108
>gnl|CDD|73090 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 = 42.4 bits (100), Expect = 2e-04
Identities = 21/100 (21%), Positives = 45/100 (45%), Gaps = 2/100 (2%)
Query: 238 PLIDAITILSEKRFGCVAVVDEG-QKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVI 296
L + + +++E V D + G++ D+ R + L + D +++ P +
Sbjct: 11 TLEEILELIAESGHSRFPVYDGDLDNIIGVVHVKDLLRALAEGEEDLDLRD-LLRPPLFV 69
Query: 297 LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
E T L ++ +R+ + +VVD+ G+V D+L
Sbjct: 70 PESTPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDIL 109
Score = 26.6 bits (59), Expect = 9.2
Identities = 13/43 (30%), Positives = 19/43 (44%)
Query: 230 IPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
V PL D + + ++R VVDE G++T DI
Sbjct: 66 PLFVPESTPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDI 108
>gnl|CDD|73116 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 = 42.5 bits (100), Expect = 2e-04
Identities = 28/108 (25%), Positives = 54/108 (50%), Gaps = 7/108 (6%)
Query: 229 SIPL-VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNF--HKDLNTLSV 285
S P+ V+ + DAI L + G + VVDE L G+++ D+ + DL + V
Sbjct: 1 SPPVVVRENTSVYDAIVTLFLEDVGSLFVVDEDGDLVGVVSRKDLLKASIGGADLQKVPV 60
Query: 286 EDVMIKNPKVIL---EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
+M + P + E+++L A +L+ +H + L VV+ + + ++
Sbjct: 61 GVIMTRMPNITTTTPEESVLEAAKKLI-EHQVDSLPVVEKVDEGLEVI 107
Score = 28.2 bits (63), Expect = 3.6
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 293 PKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
P V+ E+T + A+ L ++ L VVD+ +G+V DLL+
Sbjct: 3 PVVVRENTSVYDAIVTLFLEDVGSLFVVDEDGDLVGVVSRKDLLK 47
>gnl|CDD|73089 cd04589, CBS_pair_CAP-ED_DUF294_assoc_bac, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the bacterial CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
CBS domains usually come in tandem repeats, which
associate to form a so-called Bateman domain or a CBS
pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown..
Length = 111
Score = 41.7 bits (98), Expect = 3e-04
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 4/103 (3%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVIL 297
+ DA ++ E + V D +L GI+T D+ D S I +I
Sbjct: 11 SIRDAARLMREHGADALLVRDGDPRL-GIVTRTDLLDAVLLDGLPSSTPVGEIATFPLIT 69
Query: 298 --EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
D L A+ L+ +H I ++V + + +G++ DLL F
Sbjct: 70 VDPDDFLFNALLLMTRHRIHRVVVREG-GEVVGVLEQTDLLSF 111
>gnl|CDD|88412 cd05017, SIS_PGI_PMI_1, The members of this protein family contain
the SIS (Sugar ISomerase) domain and have both the
phosphoglucose isomerase (PGI) and the phosphomannose
isomerase (PMI) functions. These functions catalyze the
reversible reactions of glucose 6-phosphate to fructose
6-phosphate, and mannose 6-phosphate to fructose
6-phosphate, respectively at an equal rate. This protein
contains two SIS domains. This alignment is based on the
first SIS domain..
Length = 119
Score = 41.7 bits (98), Expect = 3e-04
Identities = 23/81 (28%), Positives = 39/81 (48%), Gaps = 3/81 (3%)
Query: 66 RVVITGIGKSGHIGSKLASTLASTGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSD 125
+VI G+G SG G L S L +V + + R L+I +S+SG+++
Sbjct: 1 NIVILGMGGSGIGGDLLESLLLDEAKIPVYVVK---DYTLPAFVDRKTLVIAVSYSGNTE 57
Query: 126 ELKAILYYARRFSIPLIAITS 146
E + + A+ ++AITS
Sbjct: 58 ETLSAVEQAKERGAKIVAITS 78
>gnl|CDD|73140 cd04642, CBS_pair_29, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase)..
Length = 126
Score = 41.8 bits (98), Expect = 3e-04
Identities = 22/116 (18%), Positives = 42/116 (36%), Gaps = 15/116 (12%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQK---------LKGIITEGDIFRNFHKDLNTLSVED- 287
++DA ++ + + VVDE K LKG++ D + E
Sbjct: 11 RVLDAFKLMRKNNISGLPVVDEKGKLIGNISASDLKGLLLSPDDLLLYRTITFKELSEKF 70
Query: 288 -----VMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
V + + L + L + + + VVD+ K IG++ D++
Sbjct: 71 TDSDGVKSRPLITCTPSSTLKEVITKLVANKVHRVWVVDEEGKPIGVITLTDIISI 126
Score = 31.4 bits (71), Expect = 0.38
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 296 ILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDL 335
I D + A +L+R++NIS L VVD+ K IG + DL
Sbjct: 6 IDSDERVLDAFKLMRKNNISGLPVVDEKGKLIGNISASDL 45
>gnl|CDD|73108 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 = 41.4 bits (97), Expect = 4e-04
Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 11/109 (10%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLS--VEDVMIK-NPKVIL 297
+AI IL EK F + VVDE K+ G++T G++ + S V + K +V
Sbjct: 15 EAIEILKEKGFDQLPVVDESGKILGMVTLGNLLSSLSSGKVQPSDPVSKALYKQFKRVNK 74
Query: 298 EDTLLTVAMQLLRQHNISVL--------MVVDDCQKAIGIVHFLDLLRF 338
DTL ++ L + V + + +K IGIV +DLL +
Sbjct: 75 NDTLGKLSRILETDAFLLVFFEQISSAAIGKEKQEKPIGIVTKIDLLSY 123
Score = 28.3 bits (63), Expect = 3.1
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 290 IKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+K P +L A+++L++ L VVD+ K +G+V +LL
Sbjct: 1 LKAPVTVLPTVTCAEAIEILKEKGFDQLPVVDESGKILGMVTLGNLLSS 49
>gnl|CDD|73139 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 = 41.3 bits (97), Expect = 4e-04
Identities = 27/111 (24%), Positives = 54/111 (48%), Gaps = 11/111 (9%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIF---RNFHKDLNTLSVEDVMIKNP- 293
PLID + +L E+R + +VDE K+ + + D+ + + L+V + + +
Sbjct: 11 PLIDVLDMLVERRVSALPIVDENGKVVDVYSRFDVINLAKEGAYNNLDLTVGEALERRSQ 70
Query: 294 ------KVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRF 338
+D L T+ L+ + + L+VVD+ ++ GI+ D+L+F
Sbjct: 71 DFEGVRTCSPDDCLRTI-FDLIVKARVHRLVVVDENKRVEGIISLSDILQF 120
>gnl|CDD|37761 KOG2550, KOG2550, KOG2550, IMP dehydrogenase/GMP reductase
[Nucleotide transport and metabolism].
Length = 503
Score = 41.1 bits (96), Expect = 4e-04
Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 260 GQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMV 319
G KL GIIT DI F +D + L V DVM KNP + L A ++L++ L V
Sbjct: 151 GSKLVGIITSRDI--QFLEDNSLL-VSDVMTKNPVTGAQGITLKEANEILKKIKKGKLPV 207
Query: 320 VDDCQKAIGIVHFLDLLR 337
VDD + + ++ DL++
Sbjct: 208 VDDKGELVAMLSRTDLMK 225
>gnl|CDD|73097 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 = 41.0 bits (96), Expect = 5e-04
Identities = 20/53 (37%), Positives = 27/53 (50%)
Query: 285 VEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
V DV+ + P + L A+ L+ +HNI L VVDD GI+ LDL
Sbjct: 60 VRDVINRKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAGIITLLDLAE 112
Score = 33.3 bits (76), Expect = 0.11
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 222 DVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
DV++ + PL +A+ ++ E + VVD+ GIIT D+
Sbjct: 62 DVIN--RKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAGIITLLDLAEK 113
>gnl|CDD|73092 cd04592, CBS_pair_EriC_assoc_euk, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
eukaryotes. These ion channels are proteins with a
seemingly simple task of allowing the passive flow of
chloride ions across biological membranes. CIC-type
chloride channels come from all kingdoms of life, have
several gene families, and can be gated by voltage. The
members of the CIC-type chloride channel are
double-barreled: two proteins forming homodimers at a
broad interface formed by four helices from each
protein. The two pores are not found at this interface,
but are completely contained within each subunit, as
deduced from the mutational analyses, unlike many other
channels, in which four or five identical or
structurally related subunits jointly form one pore. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Mutations of conserved residues within this domain in
CLC chloride channel family members have been associated
with classic Bartter syndrome, Osteopetrosis, Dent's
disease, idiopathic generalized epilepsy, and myotonia..
Length = 133
Score = 40.0 bits (93), Expect = 0.001
Identities = 31/110 (28%), Positives = 44/110 (40%), Gaps = 22/110 (20%)
Query: 233 VKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR-------------NFHKD 279
V L +A+ ++ +++ CV VVD L+GI+T GDI R + K
Sbjct: 6 VSPTTTLKEALNLMLDEKQSCVLVVDSDDFLEGILTLGDIQRFLFTNKTTRVQPEDETKQ 65
Query: 280 LNTLSVEDVMIKN---------PKVILEDTLLTVAMQLLRQHNISVLMVV 320
NT V V K DT LT A +L+ + L VV
Sbjct: 66 TNTCLVSSVCTKGISYGGQECGLWTCTPDTDLTTAKKLMEAKGVKQLPVV 115
>gnl|CDD|73110 cd04610, CBS_pair_ParBc_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a ParBc (ParB-like nuclease) domain
downstream. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown..
Length = 107
Score = 38.3 bits (89), Expect = 0.003
Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 5/97 (5%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDT 300
D I ++ E VVD K+ GI++ D+ KD + VE++M K+ V + +
Sbjct: 15 DVIKLIKETGHDGFPVVD-NGKVVGIVSARDLL---GKDPDET-VEEIMSKDLVVAVPEM 69
Query: 301 LLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
+ A +++ + IS L VVD+ +GI+ D++R
Sbjct: 70 DIMDAARVMFRTGISKLPVVDENNNLVGIITNTDVIR 106
Score = 26.8 bits (59), Expect = 9.0
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 239 LIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRN 275
++DA ++ + VVDE L GIIT D+ R+
Sbjct: 71 IMDAARVMFRTGISKLPVVDENNNLVGIITNTDVIRS 107
>gnl|CDD|73130 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 = 38.4 bits (89), Expect = 0.003
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 17/117 (14%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLN---------------T 282
+ AI +L E + VVD+ KL GI+T DI +D +
Sbjct: 11 SVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDIVDFVVRDRDKARTGDRSGEKERMLD 70
Query: 283 LSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVV--DDCQKAIGIVHFLDLLR 337
L V D M + + A+ + +++ S ++VV DD K +GI+ D+LR
Sbjct: 71 LPVYDAMSSPVITASPNDSVRDAVDRMLENDDSSVVVVTPDDDTKVVGILTKKDVLR 127
Score = 34.2 bits (78), Expect = 0.055
Identities = 19/43 (44%), Positives = 26/43 (60%)
Query: 298 EDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGI 340
ED + A+ +LR+H IS L VVDD K GIV D++ F +
Sbjct: 8 EDDSVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDIVDFVV 50
>gnl|CDD|33251 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 38.0 bits (88), Expect = 0.003
Identities = 28/103 (27%), Positives = 47/103 (45%), Gaps = 7/103 (6%)
Query: 241 DAITILSEKRFGCVAVVDEGQKLKGIITEGDIF----RNFHKDLNTL---SVEDVMIKNP 293
A +L E R + V+DE ++L GI+T+ D+ + + L L +V+ +M
Sbjct: 266 HARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLKHARPSPFQRLRFLRPPTVKGIMTTPV 325
Query: 294 KVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
+ DT + L + L V+D K +GIV DL+
Sbjct: 326 VTVRPDTPAVELVPRLADEGLHALPVLDAAGKLVGIVSQTDLI 368
Score = 38.0 bits (88), Expect = 0.003
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 282 TLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
L+ D+M ++ + DT + A +LL++H I L V+D+ ++ +GIV DLL+
Sbjct: 244 ELTCADIMSRDVVTVSTDTSIDHARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLK 299
Score = 33.0 bits (75), Expect = 0.12
Identities = 9/45 (20%), Positives = 25/45 (55%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNT 282
P ++ + L+++ + V+D KL GI+++ D+ +++ +
Sbjct: 333 PAVELVPRLADEGLHALPVLDAAGKLVGIVSQTDLIAALYRNWSQ 377
>gnl|CDD|31445 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 37.2 bits (86), Expect = 0.007
Identities = 21/120 (17%), Positives = 49/120 (40%), Gaps = 2/120 (1%)
Query: 218 VCASDVMHSGDSIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQK-LKGIITEGDIFRNF 276
++M I + + + + I ++ E + V D + GI+ D+ R
Sbjct: 206 RTVREIMTPRTDIVALDLTDTVEELIELILESGHSRIPVYDGDLDNIIGIVHVKDLLRAL 265
Query: 277 HKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLL 336
+ L + + ++ P + E L+ ++ R+ + +VVD+ G+V D++
Sbjct: 266 LDGQSDLDLRVL-VRPPLFVPETLSLSDLLEEFREERTHMAIVVDEYGGVEGLVTLEDII 324
Score = 31.8 bits (72), Expect = 0.25
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 279 DLNTLSVEDVMIKNPKVIL--EDTLLTVAMQLLRQHNISVLMVVDDCQKAI-GIVHFLDL 335
DL+ +V ++M ++ + ++L+ + S + V D I GIVH DL
Sbjct: 202 DLDDRTVREIMTPRTDIVALDLTDTVEELIELILESGHSRIPVYDGDLDNIIGIVHVKDL 261
Query: 336 LR 337
LR
Sbjct: 262 LR 263
>gnl|CDD|73098 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 = 36.3 bits (84), Expect = 0.012
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 9/92 (9%)
Query: 254 VAVVDEGQKLKGIITEGDIFR----NFHKDLNT-LSVEDVMIKNPKVILEDTLLTVAMQL 308
+AVVD+G+ + G+I + + + L V +VM +P ++ DT L +L
Sbjct: 28 LAVVDDGRPV-GLIMREALMELLSTPYGRALYGKKPVSEVMDPDPLIVEADTPLEEVSRL 86
Query: 309 L---RQHNISVLMVVDDCQKAIGIVHFLDLLR 337
N+ +V + + +GI DLLR
Sbjct: 87 ATGRDSQNLYDGFIVTEEGRYLGIGTVKDLLR 118
>gnl|CDD|73093 cd04593, CBS_pair_EriC_assoc_bac_arch, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
bacteria and archaea. These ion channels are proteins
with a seemingly simple task of allowing the passive
flow of chloride ions across biological membranes.
CIC-type chloride channels come from all kingdoms of
life, have several gene families, and can be gated by
voltage. The members of the CIC-type chloride channel
are double-barreled: two proteins forming homodimers at
a broad interface formed by four helices from each
protein. The two pores are not found at this interface,
but are completely contained within each subunit, as
deduced from the mutational analyses, unlike many other
channels, in which four or five identical or
structurally related subunits jointly form one pore. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Mutations of conserved residues within this domain in
CLC chloride channel family members have been associated
with classic Bartter syndrome, Osteopetrosis, Dent's
disease, idiopathic generalized epilepsy, and myotonia..
Length = 115
Score = 35.7 bits (82), Expect = 0.017
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 231 PLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFR 274
P++ PL +A L E + G VVD + GIIT D+ R
Sbjct: 4 PVLSATTPLREAAEQLIESKHGSALVVDRDGGVVGIITLPDLLR 47
Score = 33.4 bits (76), Expect = 0.11
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 293 PKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
P V+ T L A + L + +VVD +GI+ DLLR
Sbjct: 3 PPVLSATTPLREAAEQLIESKHGSALVVDRDGGVVGIITLPDLLR 47
>gnl|CDD|73138 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 = 34.8 bits (80), Expect = 0.036
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 292 NPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGII 341
P VI DT + A++L+ +H + +L+VVD IG++ +DLL I
Sbjct: 2 KPIVIPADTSIDEALELMIKHGVRLLLVVDSDDNFIGVITAVDLLGEEPI 51
>gnl|CDD|88403 cd05006, SIS_GmhA, Phosphoheptose isomerase is a member of the SIS
(Sugar ISomerase) superfamily. Phosphoheptose isomerase
catalyzes the isomerization of sedoheptulose 7-phosphate
into D-glycero-D-mannoheptose 7-phosphate. This is the
first step of the biosynthesis of gram-negative bacteria
inner core lipopolysaccharide precursor,
L-glycero-D-mannoheptose (Gmh)..
Length = 177
Score = 34.3 bits (79), Expect = 0.049
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 113 DLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSVVACHADIVLTLP 163
D++I +S SG+S + L A+ + IA+T + + ADI + +P
Sbjct: 103 DVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVP 153
>gnl|CDD|73082 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 = 34.1 bits (78), Expect = 0.064
Identities = 20/102 (19%), Positives = 39/102 (38%), Gaps = 5/102 (4%)
Query: 229 SIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDV 288
V+ PL DA+ ++ + + VVD + G +T + + D
Sbjct: 2 EPITVRPDDPLSDALGLMDDSDLRALTVVDADGQPLGFVTRREA-----ARASGGCCGDH 56
Query: 289 MIKNPKVILEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIV 330
+ D L + + + H++S L VD+ + +G V
Sbjct: 57 AEPFKVTVSVDDDLRIVLSRMFAHDMSWLPCVDEDGRYVGEV 98
>gnl|CDD|88414 cd05710, SIS_1, A subgroup of the SIS domain. SIS (Sugar ISomerase)
domains are found in many phosphosugar isomerases and
phosphosugar binding proteins. SIS domains are also
found in proteins that regulate the expression of genes
involved in synthesis of phosphosugars..
Length = 120
Score = 33.2 bits (76), Expect = 0.095
Identities = 22/78 (28%), Positives = 38/78 (48%)
Query: 92 PSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSDELKAILYYARRFSIPLIAITSENKSV 151
P F +AAE H +T ++I+ S SG++ E A +A+ +I +T + S
Sbjct: 28 PVFVYNAAEFLHTGPKRLTEKSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSP 87
Query: 152 VACHADIVLTLPKEPESC 169
+A AD V+ E ++
Sbjct: 88 LAKLADYVIVYGFEIDAV 105
>gnl|CDD|73128 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 = 33.2 bits (76), Expect = 0.11
Identities = 21/101 (20%), Positives = 43/101 (42%), Gaps = 5/101 (4%)
Query: 241 DAITILSEKRFGCVAVVDEG-QKLKGIITEGDIFRNF---HKDLNTLSVEDVMIKNPKVI 296
+A+ ++ E + V GI+T DI + +D + ++V ++M K +
Sbjct: 14 EALQLMKEHGVSSLVVEKRRESDAYGIVTMRDILKKVVAEGRDPDRVNVYEIMTKPLISV 73
Query: 297 LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLR 337
D + +L+ + NI V + + IGI+ D+
Sbjct: 74 SPDMDIKYCARLMERTNI-RRAPVVENNELIGIISLTDIFL 113
>gnl|CDD|88406 cd05009, SIS_GlmS_GlmD_2, SIS (Sugar ISomerase) domain repeat 2
found in Glucosamine 6-phosphate synthase (GlmS) and
Glucosamine-6-phosphate deaminase (GlmD). The SIS domain
is found in many phosphosugar isomerases and
phosphosugar binding proteins. GlmS contains a
N-terminal glutaminase domain and two C-terminal SIS
domains and catalyzes the first step in hexosamine
metabolism, converting fructose 6-phosphate into
glucosamine 6-phosphate using glutamine as nitrogen
source. The glutaminase domain hydrolyzes glutamine to
glutamate and ammonia. Ammonia is transferred through a
channel to the isomerase domain for glucosamine
6-phosphate synthesis. The end product of the pathway is
N-acetylglucosamine, which plays multiple roles in
eukaryotic cells including being a building block of
bacterial and fungal cell walls. In the absence of
glutamine, GlmS catalyzes the isomerization of fructose
6-phosphate into glucose 6- phosphate (PGI-like
activity). Glucosamine-6-phosphate deaminase (GlmD)
contains two SIS domains and catalyzes the deamination
and isomerization of glucosamine-6-phosphate into
fructose-6-phosphate with the release of ammonia; in
presence of high ammonia concentration, GlmD can
catalyze the reverse reaction..
Length = 153
Score = 31.4 bits (71), Expect = 0.37
Identities = 21/112 (18%), Positives = 46/112 (41%), Gaps = 11/112 (9%)
Query: 89 TGTPSFFVHAAEASHGDLGMITRDDLIIVLSWSGSSDEL-KAILYYARRFSIPLIAITSE 147
+ + A E HG + ++ +I L+ +E ++++ + +I IT +
Sbjct: 39 SYIHAEAYSAGEFKHGPIALVDEGTPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDD 98
Query: 148 NKSVVACHADIVLTLPKEPESCPHGLAPTTSAI-MQLAIGDALAIALLESRN 198
+ AD+V+ +P E L+P + +QL A +A+ +
Sbjct: 99 GDA--KDLADVVIRVPATVEE----LSPLLYIVPLQL---LAYHLAVARGID 141
>gnl|CDD|34183 COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic
ion transport and metabolism].
Length = 423
Score = 30.9 bits (70), Expect = 0.46
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 279 DLNTLSVEDVMIKNPKVI---LEDTLLTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDL 335
DL L+V D+M+ ++I ++D + QLL + + + DD IG++H DL
Sbjct: 196 DLENLTVSDIMVPRNEIIGIDIDDPWEEIVRQLLHSPHTRIPLYRDDLDNIIGVLHVRDL 255
Query: 336 LRF 338
LR
Sbjct: 256 LRL 258
>gnl|CDD|73091 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 = 30.2 bits (68), Expect = 0.75
Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 10/85 (11%)
Query: 254 VAVVDEGQKLKGIITEGDIFRNFHKDLNTLSVEDVMIKNPKVILEDTLLTVAMQLLRQHN 313
V +E +L G I + ++ +P + T L QL R+
Sbjct: 31 VDSTEESPRLVGYILRSQLVVALKNYIDP---------SPFTVSPRTSLEKVHQLFRKLG 81
Query: 314 ISVLMVVDDCQKAIGIVHFLDLLRF 338
+ L+VVD+ + +GI+ DLL+
Sbjct: 82 LRHLLVVDE-GRLVGIITRKDLLKA 105
>gnl|CDD|31322 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 29.1 bits (65), Expect = 1.9
Identities = 18/68 (26%), Positives = 27/68 (39%), Gaps = 6/68 (8%)
Query: 274 RNFHKDLNTLSVEDVMIKNPKVILEDTLLTVA-----MQLLRQHNISVLMVVDDCQKAIG 328
+ L+ +SV D + + E L L + SVL VVD+ + +G
Sbjct: 240 ERGLRLLSLVSVADAVRRGEPADGEPLLEGFVDRDALSDFLARG-RSVLPVVDEDGRPLG 298
Query: 329 IVHFLDLL 336
V DLL
Sbjct: 299 TVTRADLL 306
>gnl|CDD|35695 KOG0474, KOG0474, KOG0474, Cl- channel CLC-7 and related proteins
(CLC superfamily) [Inorganic ion transport and
metabolism].
Length = 762
Score = 28.7 bits (64), Expect = 2.1
Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 4/99 (4%)
Query: 246 LSEKRFGCVAVVDEGQKLKGIITEGDIFRNFHK---DLN-TLSVEDVMIKNPKVILEDTL 301
+ E R V + + H ++ + + M +P + E
Sbjct: 649 VEESRSTFDLPVRRKFTFRDFAKREPSIEDVHLTSEEMEMYVDLHPFMNPSPYTVPETMS 708
Query: 302 LTVAMQLLRQHNISVLMVVDDCQKAIGIVHFLDLLRFGI 340
L A L RQ + L+VV + +GI+ DL R+ I
Sbjct: 709 LAKAFILFRQLGLRHLLVVPKTNRVVGILTRKDLARYRI 747
>gnl|CDD|73126 cd04627, CBS_pair_14, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase)..
Length = 123
Score = 28.7 bits (64), Expect = 2.4
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 238 PLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
PLIDA+ ++ + VAVVD L G I+ D+
Sbjct: 86 PLIDALHLMHNEGISSVAVVDNQGNLIGNISVTDV 120
>gnl|CDD|33915 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 28.4 bits (63), Expect = 2.7
Identities = 25/104 (24%), Positives = 37/104 (35%), Gaps = 7/104 (6%)
Query: 176 TTSAIMQLA-------IGDALAIALLESRNFSENDFYVLHPGGKLGTLFVCASDVMHSGD 228
T IM+ GD +AL R+ Y + G K + S V +
Sbjct: 275 TAKDIMRRPDLLIRKTPGDGPRVALKLLRDEGREYGYAVDRGNKFVGVVSIDSLVKAALI 334
Query: 229 SIPLVKIGCPLIDAITILSEKRFGCVAVVDEGQKLKGIITEGDI 272
L + I + VAVVDE + GII+ G++
Sbjct: 335 DDVLTVDADTPLSEILARIRQAPCPVAVVDEDGRYVGIISRGEL 378
>gnl|CDD|31264 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 27.9 bits (62), Expect = 4.7
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 56 AVEKIKAIKG-RVVITGIGKSGHIGSKLASTL 86
A++K G V + G G GH+ + A +
Sbjct: 158 ALKKANVKPGKWVAVVGAGGLGHMAVQYAKAM 189
>gnl|CDD|173900 cd00674, LysRS_core_class_I, catalytic core domain of class I
lysyl tRNA synthetase. Class I lysyl tRNA synthetase
(LysRS) catalytic core domain. This class I enzyme is a
monomer which aminoacylates the 2'-OH of the nucleotide
at the 3' of the appropriate tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. The class I LysRS is found only in archaea and
some bacteria and has evolved separately from class II
LysRS, as the two do not share structural or sequence
similarity.
Length = 353
Score = 27.3 bits (61), Expect = 6.6
Identities = 19/66 (28%), Positives = 25/66 (37%), Gaps = 15/66 (22%)
Query: 57 VEKIKAIKGRVVITGIGKSG--HIGSKLASTLASTGTPSFFVHAAEASHGDLGMITRDDL 114
+E+ K + VV +GI SG HIG T A DLG R
Sbjct: 12 IEERKGKEKYVVASGISPSGHIHIG-----NFREVITADLVARALR----DLGFEVR--- 59
Query: 115 IIVLSW 120
++ SW
Sbjct: 60 -LIYSW 64
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.323 0.138 0.397
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,955,295
Number of extensions: 204884
Number of successful extensions: 839
Number of sequences better than 10.0: 1
Number of HSP's gapped: 742
Number of HSP's successfully gapped: 163
Length of query: 341
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 247
Effective length of database: 4,232,491
Effective search space: 1045425277
Effective search space used: 1045425277
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.1 bits)