RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780889|ref|YP_003065302.1| inosine 5'-monophosphate
dehydrogenase [Candidatus Liberibacter asiaticus str. psy62]
(493 letters)
>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 = 634 bits (1638), Expect = 0.0
Identities = 259/471 (54%), Positives = 346/471 (73%), Gaps = 10/471 (2%)
Query: 13 ALTFDDVLLRPEFSNVLPR--DIDISTRIAKDFTLNLPIMSAAMDQVTDSRLAIAMAQAG 70
LTFDDVLL P S VLP D+D+ST++ ++ TLN+P++SA MD VT+SR+AIAMA+ G
Sbjct: 2 GLTFDDVLLLPGRS-VLPSRSDVDLSTKLTRNITLNIPLVSANMDTVTESRMAIAMAREG 60
Query: 71 GLGVIHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVE 130
G+GVIH+N S EQ +V +VK+FESG + +PVT+SP T+A+AL L ++Y ISG+PV E
Sbjct: 61 GIGVIHKNMSIEEQAEEVRKVKRFESGFITDPVTVSPDTTVAEALELKERYGISGVPVTE 120
Query: 131 SDVGKLVGILTNRDVRF-ASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLV 189
D L G++ R R ++ +V MT +L+T + + LE A +LH+H+IEKL +
Sbjct: 121 -DGKLLGGLVGIRTSRDIDFLSKVSVVMTMTEDLVTAPEGITLEEANEILHEHKIEKLPI 179
Query: 190 VDDDGCCIGLITVKDIERSQLNPNATKDSKGRLRVAAAVSVAKDIADRVGPLFDVNVDLV 249
VDDDG +GLIT KDIE+++ PNA+KD++GRL V AAV D +R L + VD++
Sbjct: 180 VDDDGELVGLITRKDIEKARDYPNASKDAQGRLLVGAAVGTRDDDLERAEALVEAGVDVI 239
Query: 250 VVDTAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSIC 309
V+D+AHGHS+ VL+ + IKK +P L V+AGN+ TAE A LIDAGAD +KVGIGPGSIC
Sbjct: 240 VIDSAHGHSEYVLEMIKWIKKKYPDLDVIAGNVVTAEAARELIDAGADAVKVGIGPGSIC 299
Query: 310 TTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLLA 369
TTR V GVG PQL+A+ V + A + GV ++ADGGIR+SGDIAKA+AAG++ VM+GSLLA
Sbjct: 300 TTREVAGVGRPQLTAVYEVADAARKLGVPVIADGGIRYSGDIAKALAAGASAVMLGSLLA 359
Query: 370 GTDESPGDIFLYQGRSFKSYRGMGSVAAMER--GSSARYSQDGVTDVLKLVPEGIEGRVP 427
GT+ESPG+ GR +K YRGMGS+ AME+ GS RY Q G K VPEG+EGRVP
Sbjct: 360 GTEESPGEYIERNGRRYKEYRGMGSLGAMEKHKGSKDRYFQAGDK---KGVPEGVEGRVP 416
Query: 428 YKGPIASVLHQMSGGLKSSMGYVGASNIEEFQKKANFIRVSVAGLRESHVH 478
YKG + +HQ+ GGL+SSMGYVGA++++E ++KA F+RV+ AGLRE HVH
Sbjct: 417 YKGSVKDTIHQLLGGLRSSMGYVGAASLKELREKAFFVRVTSAGLREGHVH 467
>gnl|CDD|37761 KOG2550, KOG2550, KOG2550, IMP dehydrogenase/GMP reductase
[Nucleotide transport and metabolism].
Length = 503
Score = 385 bits (989), Expect = e-107
Identities = 173/459 (37%), Positives = 276/459 (60%), Gaps = 5/459 (1%)
Query: 11 GVALTFDDVLLRPEFSNVLPRDIDISTRIAKDFTLNLPIMSAAMDQVTDSRLAIAMAQAG 70
+ LT++D L+ P F + ++ + T++ ++ TLN P++S+ MD VT+S +AIAMA G
Sbjct: 27 KIGLTYNDFLILPGFIDFASDEVSLQTKLTRNITLNTPLVSSPMDTVTESEMAIAMALLG 86
Query: 71 GLGVIHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVE 130
G+G IH N +P +Q V +VK +E+G + NP+ ISP T+ + +K+ SGIPV E
Sbjct: 87 GIGFIHHNCTPEDQADMVRRVKNYENGFINNPIVISPTTTVGEVKEAKEKHGFSGIPVTE 146
Query: 131 SDV--GKLVGILTNRDVRFASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLL 188
KLVGI+T+RD++F + V ++MT+N +T + + L+ A +L + + KL
Sbjct: 147 DGKRGSKLVGIITSRDIQFLEDNSLLVSDVMTKNPVTGAQGITLKEANEILKKIKKGKLP 206
Query: 189 VVDDDGCCIGLITVKDIERSQLNPNATKDSKGRLRVAAAVSVAKDIADRVGPLFDVNVDL 248
VVDD G + +++ D+ +++ P A+KDS +L AA+ D +R+ L VD+
Sbjct: 207 VVDDKGELVAMLSRTDLMKNRDYPLASKDSTKQLLCGAAIGTRDDDKERLDLLVQAGVDV 266
Query: 249 VVVDTAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSI 308
V++D++ G+S L+ + IK+ +P L ++AGN+ T E A LI AGAD ++VG+G GSI
Sbjct: 267 VILDSSQGNSIYQLEMIKYIKETYPDLQIIAGNVVTKEQAANLIAAGADGLRVGMGSGSI 326
Query: 309 CTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLL 368
C T+ V G PQ +A+ V E A + GV +ADGGI+ G + KA+ G++ VM+G LL
Sbjct: 327 CITQKVMACGRPQGTAVYKVAEFANQFGVPCIADGGIQNVGHVVKALGLGASTVMMGGLL 386
Query: 369 AGTDESPGDIFLYQGRSFKSYRGMGSVAAMERGSSARYSQDGVTDVLKLVPEGIEGRVPY 428
AGT E+PG+ F G K YRGMGS+ AME S RY + D +K + +G+ G V
Sbjct: 387 AGTTEAPGEYFFRDGVRLKKYRGMGSLDAMESSSQKRYFSEV--DKVK-IAQGVSGSVQD 443
Query: 429 KGPIASVLHQMSGGLKSSMGYVGASNIEEFQKKANFIRV 467
KG + + + G++ S +GA +++E ++ V
Sbjct: 444 KGSVQKFIPYLLAGIQHSCQDIGARSLKELREMMYSGEV 482
>gnl|CDD|73364 cd00381, IMPDH, IMPDH: The catalytic domain of the inosine
monophosphate dehydrogenase. IMPDH catalyzes the
NAD-dependent oxidation of inosine 5'-monophosphate
(IMP) to xanthosine 5' monophosphate (XMP). It is a
rate-limiting step in the de novo synthesis of the
guanine nucleotides. There is often a CBS domain
inserted in the middle of this domain, which is proposed
to play a regulatory role. IMPDH is a key enzyme in the
regulation of cell proliferation and differentiation. It
has been identified as an attractive target for
developing chemotherapeutic agents..
Length = 325
Score = 334 bits (859), Expect = 2e-92
Identities = 139/249 (55%), Positives = 180/249 (72%), Gaps = 3/249 (1%)
Query: 219 KGRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTAHGHSQKVLDAVVQIKKNFPSLLVM 278
KGRL V AAV +D +R L + VD++V+D+AHGHS V++ + IKK +P++ V+
Sbjct: 80 KGRLLVGAAVGTREDDKERAEALVEAGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVI 139
Query: 279 AGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVA 338
AGN+ TAE A LIDAGAD +KVGIGPGSICTTR+VTGVG PQ +A+ V A GV
Sbjct: 140 AGNVVTAEAARDLIDAGADGVKVGIGPGSICTTRIVTGVGVPQATAVADVAAAARDYGVP 199
Query: 339 IVADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESPGDIFLYQGRSFKSYRGMGSVAAM 398
++ADGGIR SGDI KA+AAG+ VM+GSLLAGTDESPG+ G+ +K YRGMGS+ AM
Sbjct: 200 VIADGGIRTSGDIVKALAAGADAVMLGSLLAGTDESPGEYIEINGKRYKEYRGMGSLGAM 259
Query: 399 ERGSSARYSQDGVTDVLKLVPEGIEGRVPYKGPIASVLHQMSGGLKSSMGYVGASNIEEF 458
++G RY + KLVPEG+EG VPYKG + VL Q+ GGL+SSMGY GA +++E
Sbjct: 260 KKGGGDRYFGEEAK---KLVPEGVEGIVPYKGSVKDVLPQLVGGLRSSMGYCGAKSLKEL 316
Query: 459 QKKANFIRV 467
Q+KA F+R+
Sbjct: 317 QEKARFVRI 325
Score = 113 bits (285), Expect = 9e-26
Identities = 47/81 (58%), Positives = 63/81 (77%)
Query: 13 ALTFDDVLLRPEFSNVLPRDIDISTRIAKDFTLNLPIMSAAMDQVTDSRLAIAMAQAGGL 72
LTFDDVLL P +S VLP ++D+ST++ K+ TLN+P++SA MD VT+S +AIAMA+ GG+
Sbjct: 1 GLTFDDVLLVPGYSTVLPSEVDLSTKLTKNITLNIPLVSAPMDTVTESEMAIAMARLGGI 60
Query: 73 GVIHRNFSPSEQVAQVHQVKK 93
GVIHRN S EQ +V +VK
Sbjct: 61 GVIHRNMSIEEQAEEVRKVKG 81
>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 = 151 bits (384), Expect = 3e-37
Identities = 63/111 (56%), Positives = 85/111 (76%), Gaps = 2/111 (1%)
Query: 99 VVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGEL 158
+ +P+T+SP AT+A+AL LM +Y ISG+PVV+ D GKLVGI+TNRD+RF ++ + V E+
Sbjct: 1 IRDPITVSPDATVAEALELMAEYGISGLPVVDDD-GKLVGIVTNRDLRFETDLDKPVSEV 59
Query: 159 MTR-NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
MT NL+T + +LE A LLH+H+IEKL VVDD+G GLITVKDIE+
Sbjct: 60 MTPENLLTTVEGTSLEEALELLHEHKIEKLPVVDDEGKLKGLITVKDIEKR 110
>gnl|CDD|30862 COG0516, GuaB, IMP dehydrogenase/GMP reductase [Nucleotide
transport and metabolism].
Length = 170
Score = 133 bits (337), Expect = 8e-32
Identities = 68/220 (30%), Positives = 98/220 (44%), Gaps = 51/220 (23%)
Query: 261 VLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCP 320
VL V++IKK P L ++ A + AG +K G+GPG GV P
Sbjct: 1 VLMQVLKIKKARPGL--TFDDVLLLPAASDVAPAG-VDVKTGLGPG--------IGVNIP 49
Query: 321 QLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESPGDIFL 380
Q+SA M V A A +A+ DGGI VM G++LA +ESPG+
Sbjct: 50 QVSAAMDTVTEARMA-IAMARDGGIG---------------VMHGNMLA--EESPGEYLY 91
Query: 381 YQGRSFKSYRGMGSVAAMERGSSARYSQDGVTDVLKLVPEGIEGRVPYKGPIASVLHQMS 440
+ RGMGS+ AM RY LV +G+ G V KG I + +
Sbjct: 92 QK-------RGMGSIDAM-----QRYFSS------VLVAQGVSGVV-DKGSIKKFIPYLY 132
Query: 441 GGLKSSMGYVGASNIEEFQKKANFIRVSVAGLRESHVHDV 480
GGL+SS Y+G ++ ++ F + + E VH++
Sbjct: 133 GGLQSSCQYIGCRSLTLLKENVRFEFRTAS---EGGVHNL 169
Score = 90.7 bits (225), Expect = 8e-19
Identities = 37/99 (37%), Positives = 58/99 (58%)
Query: 1 MARIIENNVGGVALTFDDVLLRPEFSNVLPRDIDISTRIAKDFTLNLPIMSAAMDQVTDS 60
+ ++++ LTFDDVLL P S+V P +D+ T + +N+P +SAAMD VT++
Sbjct: 2 LMQVLKIKKARPGLTFDDVLLLPAASDVAPAGVDVKTGLGPGIGVNIPQVSAAMDTVTEA 61
Query: 61 RLAIAMAQAGGLGVIHRNFSPSEQVAQVHQVKKFESGMV 99
R+AIAMA+ GG+GV+H N E + K+ +
Sbjct: 62 RMAIAMARDGGIGVMHGNMLAEESPGEYLYQKRGMGSID 100
>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 = 94.5 bits (235), Expect = 6e-20
Identities = 40/113 (35%), Positives = 68/113 (60%), Gaps = 4/113 (3%)
Query: 99 VVNPVTISPYATLADALALMKKYSISGIPVVE--SDVGKLVGILTNRDVRFASNAQQAVG 156
+ +P +SP T+AD L + +K SGIPV E GKL+GI+T+RD+ F ++++ +
Sbjct: 1 ITDPSVLSPDHTVADVLEIKEKKGFSGIPVTEDGKSGGKLLGIVTSRDIDFLTDSETPLS 60
Query: 157 ELMTRN--LITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
E+MT L+ + LE A +L + + KL +V+DDG + L+T D+++
Sbjct: 61 EVMTPREVLVVAPTGITLEEANEILRESKKGKLPIVNDDGELVALVTRSDLKK 113
>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 = 88.4 bits (219), Expect = 5e-18
Identities = 43/107 (40%), Positives = 67/107 (62%), Gaps = 4/107 (3%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMT 160
+P+TI P ++ A LM+K+ I G+PVVE GKLVGI+T+RDVR A + + V + MT
Sbjct: 2 DPITIDPLDSVGRAARLMEKHRIGGLPVVED--GKLVGIITSRDVRRA-HPNRLVADAMT 58
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
R ++T+ +L AK L+ + +IE+L V+ + +G+IT I
Sbjct: 59 REVVTISPEASLLEAKRLMEEKKIERLPVLRERK-LVGIITKGTIAL 104
Score = 39.9 bits (93), Expect = 0.002
Identities = 31/105 (29%), Positives = 46/105 (43%), Gaps = 6/105 (5%)
Query: 48 PIMSAAMDQVTDSRLAIAMAQAGGLGVIHRN----FSPSEQVAQVHQVKKFESGMVVNPV 103
PI +D V + + + GGL V+ S V + H + M V
Sbjct: 3 PITIDPLDSVGRAARLMEKHRIGGLPVVEDGKLVGIITSRDVRRAHPNRLVADAMTREVV 62
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA 148
TISP A+L +A LM++ I +PV+ KLVGI+T +
Sbjct: 63 TISPEASLLEAKRLMEEKKIERLPVLRE--RKLVGIITKGTIALE 105
Score = 35.3 bits (81), Expect = 0.039
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLN 211
R+ IT+ ++ A L+ +HRI L VV+D G+IT +D+ R+ N
Sbjct: 1 RDPITIDPLDSVGRAARLMEKHRIGGLPVVEDGKLV-GIITSRDVRRAHPN 50
>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 = 86.8 bits (215), Expect = 1e-17
Identities = 48/122 (39%), Positives = 73/122 (59%), Gaps = 17/122 (13%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASN---------- 150
NP+T++P +L +AL LMK+ SI +PVV+ GKLVGI+T+RD++ AS
Sbjct: 2 NPITVTPDTSLMEALKLMKENSIRRLPVVDR--GKLVGIVTDRDLKLASPSKATTLDIWE 59
Query: 151 -----AQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
++ V ++MTR+ ITV ++E A L+ + +I L VVDD G +G+IT D+
Sbjct: 60 LYYLLSKIKVSDIMTRDPITVSPDASVEEAAELMLERKISGLPVVDDQGRLVGIITESDL 119
Query: 206 ER 207
R
Sbjct: 120 FR 121
Score = 51.3 bits (123), Expect = 6e-07
Identities = 32/90 (35%), Positives = 49/90 (54%), Gaps = 10/90 (11%)
Query: 57 VTDSRLAIAMA-QAGGLGVIHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADAL 115
VTD L +A +A L + + S+ K M +P+T+SP A++ +A
Sbjct: 39 VTDRDLKLASPSKATTLDIWELYYLLSKI--------KVSDIMTRDPITVSPDASVEEAA 90
Query: 116 ALMKKYSISGIPVVESDVGKLVGILTNRDV 145
LM + ISG+PVV+ D G+LVGI+T D+
Sbjct: 91 ELMLERKISGLPVVD-DQGRLVGIITESDL 119
Score = 38.6 bits (90), Expect = 0.003
Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 4/94 (4%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSKG 220
+N ITV +L A L+ ++ I +L VV D G +G++T +D++ + + T D
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVV-DRGKLVGIVTDRDLKLASPSKATTLDIWE 59
Query: 221 RLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTA 254
+ + + V DI R V+ D V + A
Sbjct: 60 LYYLLSKIKV-SDIMTR--DPITVSPDASVEEAA 90
>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 = 85.2 bits (211), Expect = 4e-17
Identities = 47/119 (39%), Positives = 73/119 (61%), Gaps = 16/119 (13%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFAS----------- 149
+ VTI+P T+A+AL LM+++ I +PVV+ + G+LVGI+T+RD+R AS
Sbjct: 2 DVVTITPTTTIAEALELMREHKIRHLPVVDEE-GRLVGIVTDRDLRDASPSPFTTLSEHE 60
Query: 150 ---NAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+ V E+MT+++ITV +E A L+ +HRI L VV +DG +G+IT D+
Sbjct: 61 LYLLLKMPVKEIMTKDVITVHPLDTVEEAALLMREHRIGCLPVV-EDGRLVGIITETDL 118
Score = 49.8 bits (119), Expect = 2e-06
Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + +T+ P T+ +A LM+++ I +PVVE G+LVGI+T D+
Sbjct: 73 MTKDVITVHPLDTVEEAALLMREHRIGCLPVVED--GRLVGIITETDL 118
Score = 44.4 bits (105), Expect = 7e-05
Identities = 15/47 (31%), Positives = 30/47 (63%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
R+++T+ T + A L+ +H+I L VVD++G +G++T +D+
Sbjct: 1 RDVVTITPTTTIAEALELMREHKIRHLPVVDEEGRLVGIVTDRDLRD 47
>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 = 81.4 bits (201), Expect = 5e-16
Identities = 40/109 (36%), Positives = 65/109 (59%), Gaps = 6/109 (5%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD-VRFA---SNAQQAVG 156
+T P +LA+A + M++ IS I VV+ + +GI+T RD +R + Q VG
Sbjct: 2 QILTCPPDTSLAEAASRMRERRISSIVVVDDG--RPLGIVTERDILRLLASGPDLQTPVG 59
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
E+M+ L+TV +L +A+ L+ +H I L+VVDDDG +GL++ D+
Sbjct: 60 EVMSSPLLTVPADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDL 108
Score = 30.5 bits (69), Expect = 1.2
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR 146
T+ +L DA LM+++ I + VV+ D G+L+G+L+ D+
Sbjct: 68 TVPADTSLYDARQLMREHGIRHLVVVDDD-GELLGLLSQTDLL 109
Score = 28.6 bits (64), Expect = 4.1
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
++T +L A + + + RI ++VVDD +G++T +DI R
Sbjct: 1 TQILTCPPDTSLAEAASRMRERRISSIVVVDDGR-PLGIVTERDILR 46
>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 = 1e-15
Identities = 50/112 (44%), Positives = 75/112 (66%), Gaps = 6/112 (5%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA-----SNAQQAV 155
+ VT+SP T+A+AL LM ++ ISG+PVV+ D G+LVGI+T RD+ A + V
Sbjct: 2 DVVTVSPDDTVAEALRLMLEHGISGLPVVDDD-GRLVGIVTERDLLRALAEGGLDPLVTV 60
Query: 156 GELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
G++MTR+++TV +LE A L+ +H I +L VVDD+G +G++T DI R
Sbjct: 61 GDVMTRDVVTVSPDTSLEEAAELMLEHGIRRLPVVDDEGRLVGIVTRSDILR 112
Score = 43.6 bits (102), Expect = 1e-04
Identities = 20/48 (41%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + VT+SP +L +A LM ++ I +PVV+ + G+LVGI+T D+
Sbjct: 64 MTRDVVTVSPDTSLEEAAELMLEHGIRRLPVVDDE-GRLVGIVTRSDI 110
Score = 38.2 bits (88), Expect = 0.005
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKD 217
R+++TV + A L+ +H I L VVDDDG +G++T +D+ R+
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDLLRALAEGGLDPL 57
>gnl|CDD|30863 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 78.3 bits (192), Expect = 4e-15
Identities = 48/114 (42%), Positives = 69/114 (60%), Gaps = 8/114 (7%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA--- 154
M + +T+ P ++ DAL LM + +S +PVV D GKLVGI+T RD+ A A
Sbjct: 5 MTKDVITVKPDTSVRDALLLMSENGVSAVPVV--DDGKLVGIITERDILRALAAGGKRLL 62
Query: 155 -VGELMTRNLITVKKTVNLENAKALLHQ-HRIEKLLVVDDDGC-CIGLITVKDI 205
V E+MT+ ++TV LE A L+ + H+I +L VVDDDG +G+IT+ DI
Sbjct: 63 PVKEVMTKPVVTVDPDTPLEEALELMVERHKIRRLPVVDDDGGKLVGIITLSDI 116
Score = 37.0 bits (85), Expect = 0.011
Identities = 22/79 (27%), Positives = 41/79 (51%), Gaps = 1/79 (1%)
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNA 214
V ++MT+++ITVK ++ +A L+ ++ + + VVDD +G+IT +DI R+
Sbjct: 1 VKDIMTKDVITVKPDTSVRDALLLMSENGVSAVPVVDDGK-LVGIITERDILRALAAGGK 59
Query: 215 TKDSKGRLRVAAAVSVAKD 233
+ V+V D
Sbjct: 60 RLLPVKEVMTKPVVTVDPD 78
>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 = 78.2 bits (193), Expect = 5e-15
Identities = 40/114 (35%), Positives = 76/114 (66%), Gaps = 8/114 (7%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQ------QA 154
+ VT+SP T+ +A LM+++ + +PV E+D +LVGI+T+RD+ + A+
Sbjct: 2 DVVTVSPDDTIREAARLMREHDVGALPVCEND--RLVGIVTDRDIVVRAVAEGRDPDTTT 59
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
VG++MTR ++TV + +++ A L+ +H++ +L VVDDDG +G++++ D+ R+
Sbjct: 60 VGDVMTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDDGRLVGIVSLGDLARA 113
Score = 39.3 bits (92), Expect = 0.003
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M VT++ + +A LM+++ + +PVV+ D G+LVGI++ D+
Sbjct: 64 MTRGVVTVTEDDDVDEAARLMREHQVRRLPVVDDD-GRLVGIVSLGDL 110
>gnl|CDD|32729 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 74.9 bits (184), Expect = 4e-14
Identities = 48/178 (26%), Positives = 84/178 (47%), Gaps = 14/178 (7%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNA-----Q 152
+ VT+SP A++ DA MK +S + V++ G L+GI+T +D+R A
Sbjct: 155 KTLPAVTVSPQASIQDAARKMKDEGVSSLVVLDDS-GPLLGIVTRKDLRSRVIADGRSKT 213
Query: 153 QAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNP 212
Q V E+MT +I+V + L A ++ ++RI+ L V +DG +G++T+ DI R +
Sbjct: 214 QKVSEVMTSPVISVDRGDFLFEAMLMMLRNRIKH-LPVTEDGQPLGILTLTDILR-LFSQ 271
Query: 213 N---ATKDSKGRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTAHGHSQKVLDAVVQ 267
N K + + A+ + D + L V + ++ D +VQ
Sbjct: 272 NSIVLVKRIARASSIEELANTAELLDDSLSTLVSRGVRTEFISELI---TEINDQLVQ 326
>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 = 74.8 bits (184), Expect = 5e-14
Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 16/121 (13%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--------------- 145
+ VT+ P + +A +M + +PVV+ GKLVGI+T D+
Sbjct: 2 DVVTVPPTTPIMEAAKIMVRNGFRRLPVVDEGTGKLVGIITATDILKYLGGGEKFNKIKT 61
Query: 146 -RFASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKD 204
+ V +MTRN+IT+ ++++A L+ + R+ L VVDDDG +G++T +D
Sbjct: 62 GNGLEAINEPVRSIMTRNVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERD 121
Query: 205 I 205
+
Sbjct: 122 L 122
Score = 49.4 bits (118), Expect = 2e-06
Identities = 23/48 (47%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M N +TI+P ++ DA LM + + G+PVV+ D GKLVGI+T RD+
Sbjct: 76 MTRNVITITPDDSIKDAAELMLEKRVGGLPVVDDD-GKLVGIVTERDL 122
>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 = 72.5 bits (178), Expect = 3e-13
Identities = 41/113 (36%), Positives = 61/113 (53%), Gaps = 8/113 (7%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRF-----ASNAQQAV 155
PVT SP T+ +A LM ++ +S + VV D G+LVGI+T+RD+R + V
Sbjct: 2 PPVTCSPDTTIREAARLMTEHRVSSLLVV--DDGRLVGIVTDRDLRNRVVAEGLDPDTPV 59
Query: 156 GELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
E+MT IT+ + A L+ + I L VV DDG +G+I+ D+ R
Sbjct: 60 SEVMTAPPITIPPDATVFEALLLMLERGIHHLPVV-DDGRLVGVISATDLLRL 111
Score = 46.7 bits (111), Expect = 2e-05
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 74 VIHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDV 133
V+ P V++V M P+TI P AT+ +AL LM + I +PVV+
Sbjct: 48 VVAEGLDPDTPVSEV---------MTAPPITIPPDATVFEALLLMLERGIHHLPVVDD-- 96
Query: 134 GKLVGILTNRDV 145
G+LVG+++ D+
Sbjct: 97 GRLVGVISATDL 108
Score = 28.9 bits (65), Expect = 3.4
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R +T + A L+ +HR+ LLVVDD +G++T +D+
Sbjct: 1 RPPVTCSPDTTIREAARLMTEHRVSSLLVVDDGR-LVGIVTDRDL 44
>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 = 71.3 bits (175), Expect = 5e-13
Identities = 42/111 (37%), Positives = 66/111 (59%), Gaps = 8/111 (7%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV------RFASNAQQA 154
+ +T+ P AT+A+A LM + +I + VV+ D G+LVGI + RD+ R AS
Sbjct: 2 DVITVRPDATVAEAAKLMAEKNIGAVVVVD-DGGRLVGIFSERDIVRKVALRGASALDTP 60
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V E+MTRN+ITV ++ A AL+ + R L VV D G +G++++ D+
Sbjct: 61 VSEIMTRNVITVTPDDTVDEAMALMTERRFRHLPVV-DGGKLVGIVSIGDV 110
Score = 40.9 bits (96), Expect = 0.001
Identities = 20/48 (41%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M N +T++P T+ +A+ALM + +PVV+ GKLVGI++ DV
Sbjct: 65 MTRNVITVTPDDTVDEAMALMTERRFRHLPVVDG--GKLVGIVSIGDV 110
Score = 36.3 bits (84), Expect = 0.023
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
R++ITV+ + A L+ + I ++VVDD G +G+ + +DI R
Sbjct: 1 RDVITVRPDATVAEAAKLMAEKNIGAVVVVDDGGRLVGIFSERDIVR 47
>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 = 71.0 bits (174), Expect = 6e-13
Identities = 42/110 (38%), Positives = 66/110 (60%), Gaps = 5/110 (4%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR---FASNAQQAVGEL 158
+T++P ATL +A L + I G PVV D GKLVGI+T D+ V ++
Sbjct: 3 LITLNPNATLREAARLFNTHHIHGAPVV--DDGKLVGIVTLSDIAHAIARGLELAKVKDV 60
Query: 159 MTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
MT+++IT+ + L +A L+++H + +L+V DD+G +G+IT DI RS
Sbjct: 61 MTKDVITIDEDEQLYDAIRLMNKHNVGRLIVTDDEGRPVGIITRTDILRS 110
Score = 34.0 bits (78), Expect = 0.097
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + +TI L DA+ LM K+++ + V + D G+ VGI+T D+
Sbjct: 61 MTKDVITIDEDEQLYDAIRLMNKHNVGRLIVTD-DEGRPVGIITRTDI 107
Score = 27.9 bits (62), Expect = 6.9
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
+ LIT+ L A L + H I VVDD +G++T+ DI +
Sbjct: 1 KPLITLNPNATLREAARLFNTHHIHGAPVVDDGK-LVGIVTLSDIAHA 47
>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 = 70.3 bits (172), Expect = 1e-12
Identities = 42/121 (34%), Positives = 61/121 (50%), Gaps = 15/121 (12%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--------------R 146
VT+S +LADA LM+++ I +PVV D GKLVG+LT RD+
Sbjct: 2 PVVTLSEDDSLADAEELMREHRIRHLPVVNED-GKLVGLLTQRDLLRAALSSLSDNGEES 60
Query: 147 FASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIE 206
V E+M +++TV L A ++ +++I L VVDD G +G+IT D
Sbjct: 61 LTKERDVPVAEVMKTDVLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDFL 120
Query: 207 R 207
R
Sbjct: 121 R 121
Score = 43.3 bits (102), Expect = 2e-04
Identities = 18/50 (36%), Positives = 34/50 (68%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQL 210
++T+ + +L +A+ L+ +HRI L VV++DG +GL+T +D+ R+ L
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAAL 50
>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 = 68.7 bits (168), Expect = 4e-12
Identities = 42/108 (38%), Positives = 66/108 (61%), Gaps = 5/108 (4%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD-VRFASNAQQAVGELM 159
N V ++ T D L L+K+Y +SG+PVV+ G+LVGI+T +D +R Q A+ LM
Sbjct: 2 NVVYVTLPGTRDDVLELLKEYKVSGVPVVK-KSGELVGIITRKDLLRNPEEEQLAL--LM 58
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
TR+ TV +++ A L+ ++ I ++ VVDD +G++TV DI R
Sbjct: 59 TRDPPTVSPDDDVKEAAKLMVENNIRRVPVVDDGK-LVGIVTVADIVR 105
Score = 41.4 bits (97), Expect = 6e-04
Identities = 20/48 (41%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M +P T+SP + +A LM + +I +PVV+ GKLVGI+T D+
Sbjct: 58 MTRDPPTVSPDDDVKEAAKLMVENNIRRVPVVDD--GKLVGIVTVADI 103
>gnl|CDD|32593 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 68.4 bits (167), Expect = 5e-12
Identities = 38/120 (31%), Positives = 66/120 (55%), Gaps = 5/120 (4%)
Query: 92 KKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR---FA 148
+K ++ M +T+ P TL +A L + I G PVV+ D K+VGI+T D+
Sbjct: 172 EKVKNLMSKKLITVRPDDTLREAAKLFYEKGIRGAPVVDDD--KIVGIITLSDIAKAIAN 229
Query: 149 SNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
N V + M +N+IT+ + ++ +A L++++ + +LLV D +G +G+IT DI
Sbjct: 230 GNLDAKVSDYMRKNVITINEDEDIYDAIRLMNKNNVGRLLVTDSNGKPVGIITRTDILTR 289
Score = 36.0 bits (83), Expect = 0.021
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 82 SEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT 141
++ +A + K M N +TI+ + DA+ LM K ++ G +V GK VGI+T
Sbjct: 224 AKAIANGNLDAKVSDYMRKNVITINEDEDIYDAIRLMNKNNV-GRLLVTDSNGKPVGIIT 282
Query: 142 NRDV 145
D+
Sbjct: 283 RTDI 286
>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 = 67.2 bits (164), Expect = 1e-11
Identities = 41/108 (37%), Positives = 68/108 (62%), Gaps = 2/108 (1%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA-SNAQQAVGELM 159
VTIS A++ +A LM + +I+ +PVV+ D G+LVGI+T+ D+ A + +++V ++M
Sbjct: 3 PVVTISEDASIKEAAKLMIEENINHLPVVDED-GRLVGIVTSWDISKAVARDKKSVEDIM 61
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
TRN+IT ++ A + +H I L VVD + IG+IT +DI +
Sbjct: 62 TRNVITATPDEPIDVAARKMERHNISALPVVDAENRVIGIITSEDISK 109
Score = 38.7 bits (90), Expect = 0.004
Identities = 20/64 (31%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 82 SEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT 141
S+ VA+ K E M N +T +P + A M++++IS +PVV+++ +++GI+T
Sbjct: 47 SKAVAR--DKKSVEDIMTRNVITATPDEPIDVAARKMERHNISALPVVDAE-NRVIGIIT 103
Query: 142 NRDV 145
+ D+
Sbjct: 104 SEDI 107
Score = 37.1 bits (86), Expect = 0.010
Identities = 15/49 (30%), Positives = 31/49 (63%)
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
+R ++T+ + +++ A L+ + I L VVD+DG +G++T DI ++
Sbjct: 1 SRPVVTISEDASIKEAAKLMIEENINHLPVVDEDGRLVGIVTSWDISKA 49
>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 = 66.8 bits (163), Expect = 1e-11
Identities = 42/114 (36%), Positives = 70/114 (61%), Gaps = 10/114 (8%)
Query: 102 PVTISPYATLADALALMKKYSISG-IPVVESDVGKLVGILTNRD-VRFASN----AQQAV 155
P+T++P +ADA+ALM + S + VVE G+L+GI T RD VR + + +
Sbjct: 3 PLTVTPDTPVADAIALMSQQGDSSCVLVVEK--GRLLGIFTERDIVRLTAIGKDLSDLPI 60
Query: 156 GELMTRNLITVKKT--VNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
GE+MT+ ++T++++ ++ A +L QH+I L V+DD G IGL+T + I +
Sbjct: 61 GEVMTQPVVTLQESEIQDIFTALSLFRQHQIRHLPVLDDQGQLIGLVTAESIRQ 114
>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 = 66.4 bits (162), Expect = 2e-11
Identities = 36/111 (32%), Positives = 62/111 (55%), Gaps = 5/111 (4%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA----VG 156
VT+ P ++ +A LM + ++ + VV+ D + +GI+T RD+ A A V
Sbjct: 2 PVVTVDPDTSIREAAKLMAEENVGSVVVVDPD-ERPIGIVTERDIVRAVAAGIDLDTPVS 60
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
E+MTR+L+TV + A L+ ++ I LVVD G +G+I+++D+ R
Sbjct: 61 EIMTRDLVTVDPDEPVAEAAKLMRKNNIRHHLVVDKGGELVGVISIRDLVR 111
Score = 35.9 bits (83), Expect = 0.027
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 95 ESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + VT+ P +A+A LM+K +I VV+ G+LVG+++ RD+
Sbjct: 60 SEIMTRDLVTVDPDEPVAEAAKLMRKNNIRHHLVVDKG-GELVGVISIRDL 109
Score = 31.3 bits (71), Expect = 0.55
Identities = 15/48 (31%), Positives = 28/48 (58%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
R ++TV ++ A L+ + + ++VVD D IG++T +DI R+
Sbjct: 1 RPVVTVDPDTSIREAAKLMAEENVGSVVVVDPDERPIGIVTERDIVRA 48
>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 = 66.3 bits (162), Expect = 2e-11
Identities = 37/108 (34%), Positives = 58/108 (53%), Gaps = 6/108 (5%)
Query: 105 ISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA-----SNAQQAVGELM 159
+SP +L DAL M + + VV+ D G+LVGI T+ D+R A V ++M
Sbjct: 7 VSPDTSLKDALLEMSRKGLGMTAVVDED-GRLVGIFTDGDLRRALEKGLDILTLPVADVM 65
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
TRN T+ A L+ +++I L VVDD+G +G++ + D+ R
Sbjct: 66 TRNPKTIDPDALAAEALELMEENKITALPVVDDNGRPVGVLHIHDLLR 113
Score = 45.5 bits (108), Expect = 4e-05
Identities = 20/43 (46%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGIL 140
M NP TI P A A+AL LM++ I+ +PVV+ + G+ VG+L
Sbjct: 65 MTRNPKTIDPDALAAEALELMEENKITALPVVDDN-GRPVGVL 106
>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 = 66.0 bits (161), Expect = 2e-11
Identities = 38/111 (34%), Positives = 59/111 (53%), Gaps = 6/111 (5%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASN----AQQAVG 156
+ VT+ T+ + LALM G PVV+ G+LVGI+T D+R A VG
Sbjct: 2 DVVTVPVDLTVDEVLALMFGERHRGYPVVDD--GRLVGIVTLADIRRVPAEGREATVLVG 59
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
++MTR+ +T L +A + + I +L VVDD G +G+++ D+ R
Sbjct: 60 DVMTRDPVTASPDETLRDALKRMAERDIGRLPVVDDSGRLVGIVSRSDLLR 110
Score = 42.1 bits (99), Expect = 3e-04
Identities = 23/48 (47%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M +PVT SP TL DAL M + I +PVV+ D G+LVGI++ D+
Sbjct: 62 MTRDPVTASPDETLRDALKRMAERDIGRLPVVD-DSGRLVGIVSRSDL 108
>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 = 66.0 bits (161), Expect = 3e-11
Identities = 34/101 (33%), Positives = 61/101 (60%), Gaps = 1/101 (0%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMT 160
NPVTI+P TLA+A+ LM+ + + VV+ D KL+GI++ + A +++ ++M
Sbjct: 3 NPVTITPDRTLAEAIKLMRDKKVDSLLVVDKD-NKLLGIVSLESLEQAYKEAKSLEDIML 61
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLIT 201
++ TV+ +L + L+ + + + VVD+DG +GLIT
Sbjct: 62 EDVFTVQPDASLRDVLGLVLKRGPKYVPVVDEDGKLVGLIT 102
Score = 39.4 bits (92), Expect = 0.002
Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 92 KKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT 141
K E M+ + T+ P A+L D L L+ K +PVV+ D GKLVG++T
Sbjct: 54 KSLEDIMLEDVFTVQPDASLRDVLGLVLKRGPKYVPVVDED-GKLVGLIT 102
Score = 34.0 bits (78), Expect = 0.086
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKD 217
N +T+ L A L+ +++ LLVVD D +G+++++ +E++ + +D
Sbjct: 3 NPVTITPDRTLAEAIKLMRDKKVDSLLVVDKDNKLLGIVSLESLEQAYKEAKSLED 58
>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 = 65.2 bits (159), Expect = 3e-11
Identities = 36/111 (32%), Positives = 62/111 (55%), Gaps = 7/111 (6%)
Query: 102 PV-TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASN---AQQAVGE 157
PV T+ P AT+ +A L+ +Y + +PVVE G++VGI++ RDV A V +
Sbjct: 3 PVKTVRPEATIEEARELLLRYGHTALPVVEG--GRVVGIISRRDVEKALRHGLGHAPVKD 60
Query: 158 LMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
M+ +++TV L + L+ +H I + V +DG +G++T D+ R+
Sbjct: 61 YMSTDVVTVPPDTPLSEVQELMVEHDI-GRVPVVEDGRLVGIVTRTDLLRT 110
Score = 38.2 bits (89), Expect = 0.005
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 96 SGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + VT+ P L++ LM ++ I +PVVE G+LVGI+T D+
Sbjct: 60 DYMSTDVVTVPPDTPLSEVQELMVEHDIGRVPVVED--GRLVGIVTRTDL 107
>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 = 64.5 bits (157), Expect = 7e-11
Identities = 33/121 (27%), Positives = 60/121 (49%), Gaps = 17/121 (14%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV---------------R 146
VT+ L + + +K+ + VVE + +LVG++++RD +
Sbjct: 3 VVTVEMDDRLEEVREIFEKHKFHHLLVVEDN--ELVGVISDRDYLKAISPFLGTAGETEK 60
Query: 147 FASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIE 206
+ + ++MTR+ ITV ++ A LL ++ I L VVD++G IG+IT KD+
Sbjct: 61 DLATLNRRAHQIMTRDPITVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKDLL 120
Query: 207 R 207
+
Sbjct: 121 K 121
Score = 52.2 bits (125), Expect = 3e-07
Identities = 21/59 (35%), Positives = 38/59 (64%), Gaps = 7/59 (11%)
Query: 87 QVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
+ HQ+ M +P+T+SP + +A L+ + SIS +PVV+ + G+L+GI+T +D+
Sbjct: 68 RAHQI------MTRDPITVSPDTPVDEASKLLLENSISCLPVVDEN-GQLIGIITWKDL 119
Score = 30.6 bits (69), Expect = 1.00
Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPN 213
++TV+ LE + + +H+ LLVV+D+ G+I+ +D + ++P
Sbjct: 1 TRVVTVEMDDRLEEVREIFEKHKFHHLLVVEDNELV-GVISDRDYLK-AISPF 51
>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 = 61.8 bits (150), Expect = 4e-10
Identities = 39/142 (27%), Positives = 71/142 (50%), Gaps = 40/142 (28%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--------------- 145
NP+T + T++DA L+++ ISG PV++ GKLVGI++ D+
Sbjct: 2 NPITCNADDTISDAARLLRENKISGAPVLDG--GKLVGIVSESDILKLLVTHDPSGNLWL 59
Query: 146 ---------------------RFASNA-QQAVGELMTRNLITVKKTVNLENAKALLHQHR 183
R ++A + V ++MT+ +IT+ ++E+A L+ +H+
Sbjct: 60 PSPLELIELPLREFINWEETKRALTDAGKMKVRDIMTKKVITISPDASIEDAAELMVRHK 119
Query: 184 IEKLLVVDDDGCCIGLITVKDI 205
I++L VV+D +G++T DI
Sbjct: 120 IKRLPVVEDGR-LVGIVTRGDI 140
Score = 41.8 bits (98), Expect = 4e-04
Identities = 23/55 (41%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 91 VKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
K M +TISP A++ DA LM ++ I +PVVE G+LVGI+T D+
Sbjct: 88 KMKVRDIMTKKVITISPDASIEDAAELMVRHKIKRLPVVED--GRLVGIVTRGDI 140
>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 = 60.2 bits (146), Expect = 1e-09
Identities = 40/123 (32%), Positives = 66/123 (53%), Gaps = 18/123 (14%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA--------SNAQ 152
+T+SP ++ A LM + IS +PV+E GKLVGI+T +D+ A +
Sbjct: 2 PVITVSPDDRVSHARRLMLDHDISRLPVIEG--GKLVGIVTEKDIADALRSFRPLVRDRH 59
Query: 153 QA-------VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
Q V ++MTR +IT++ ++ + +L+ ++ I L VV DDG +G++T DI
Sbjct: 60 QERRIRNLPVSDIMTRPVITIEPDTSVSDVASLMLENNIGGLPVV-DDGKLVGIVTRTDI 118
Query: 206 ERS 208
R
Sbjct: 119 LRY 121
Score = 45.9 bits (109), Expect = 2e-05
Identities = 20/48 (41%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M +TI P +++D +LM + +I G+PVV+ GKLVGI+T D+
Sbjct: 73 MTRPVITIEPDTSVSDVASLMLENNIGGLPVVDD--GKLVGIVTRTDI 118
Score = 30.1 bits (68), Expect = 1.4
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+ +ITV + +A+ L+ H I +L V++ +G++T KDI
Sbjct: 1 KPVITVSPDDRVSHARRLMLDHDISRLPVIEGGK-LVGIVTEKDI 44
>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 = 60.1 bits (146), Expect = 1e-09
Identities = 25/105 (23%), Positives = 51/105 (48%), Gaps = 2/105 (1%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--RFASNAQQAVGELMT 160
V + TL + L L+ + S PV + D+ ++G++ +D+ A + +
Sbjct: 4 VALDADDTLEEILELIAESGHSRFPVYDGDLDNIIGVVHVKDLLRALAEGEEDLDLRDLL 63
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R + V ++ L++ + + R +VVD+ G GL+T++DI
Sbjct: 64 RPPLFVPESTPLDDLLEEMRKERSHMAIVVDEYGGTAGLVTLEDI 108
Score = 29.3 bits (66), Expect = 2.8
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 1/76 (1%)
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDD-GCCIGLITVKDIERSQLNPNATKDSKG 220
+++ + LE L+ + + V D D IG++ VKD+ R+ D +
Sbjct: 2 DIVALDADDTLEEILELIAESGHSRFPVYDGDLDNIIGVVHVKDLLRALAEGEEDLDLRD 61
Query: 221 RLRVAAAVSVAKDIAD 236
LR V + + D
Sbjct: 62 LLRPPLFVPESTPLDD 77
>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 = 59.8 bits (145), Expect = 2e-09
Identities = 35/113 (30%), Positives = 61/113 (53%), Gaps = 5/113 (4%)
Query: 100 VNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA----SNAQQAV 155
+ + +SP A++ DAL + K + I +V + G+L+G +T+ D+R A + V
Sbjct: 2 IKQLLVSPDASILDALRKIDK-NALRIVLVVDENGRLLGTVTDGDIRRALLKGLSLDDPV 60
Query: 156 GELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
E+M RN IT K + E AL+ + I L ++D++G +GL T+ D+
Sbjct: 61 SEVMNRNPITAKVGSSREEILALMRERSIRHLPILDEEGRVVGLATLDDLLSK 113
Score = 39.0 bits (91), Expect = 0.003
Identities = 16/47 (34%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD 144
M NP+T ++ + LALM++ SI +P+++ + G++VG+ T D
Sbjct: 64 MNRNPITAKVGSSREEILALMRERSIRHLPILDEE-GRVVGLATLDD 109
Score = 31.7 bits (72), Expect = 0.44
Identities = 13/48 (27%), Positives = 27/48 (56%)
Query: 164 ITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLN 211
+ V ++ +A + ++ + +LVVD++G +G +T DI R+ L
Sbjct: 5 LLVSPDASILDALRKIDKNALRIVLVVDENGRLLGTVTDGDIRRALLK 52
>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 = 59.1 bits (143), Expect = 3e-09
Identities = 35/122 (28%), Positives = 59/122 (48%), Gaps = 19/122 (15%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMT- 160
V+I + DA LM+K +ISG+PVV+ GKL+G ++ D++ + + T
Sbjct: 3 VVSIDSDERVLDAFKLMRKNNISGLPVVDEK-GKLIGNISASDLKGLLLSPDDLLLYRTI 61
Query: 161 -----------------RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVK 203
R LIT + L+ L +++ ++ VVD++G IG+IT+
Sbjct: 62 TFKELSEKFTDSDGVKSRPLITCTPSSTLKEVITKLVANKVHRVWVVDEEGKPIGVITLT 121
Query: 204 DI 205
DI
Sbjct: 122 DI 123
Score = 28.3 bits (63), Expect = 5.1
Identities = 11/71 (15%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 75 IHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVG 134
+ + + +T +P +TL + + + + + VV+ + G
Sbjct: 54 DLLLYRTITFKELSEKFTDSDGVKSRPLITCTPSSTLKEVITKLVANKVHRVWVVD-EEG 112
Query: 135 KLVGILTNRDV 145
K +G++T D+
Sbjct: 113 KPIGVITLTDI 123
>gnl|CDD|32420 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 58.7 bits (142), Expect = 3e-09
Identities = 57/229 (24%), Positives = 103/229 (44%), Gaps = 19/229 (8%)
Query: 81 PSEQVAQVHQVKKFE-----SGMVVNPVTISPYATLADALALMKKY-----SISGIPVVE 130
E+ A+V Q+ + M VT+ T+ +AL +++ +I + VV+
Sbjct: 116 DPEERARVRQLLSYPEDTAGRIMTTEFVTLPEDVTVDEALDRIRERAEDAETIYYLYVVD 175
Query: 131 SDVGKLVGILTNRDVRFASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVV 190
GKL+G+++ RD+ A + + +LM ++++V + E L ++ + + VV
Sbjct: 176 EK-GKLLGVVSLRDLLTAEPDEL-LKDLMEDDVVSVLADDDQEEVARLFEKYDLLAVPVV 233
Query: 191 DDDGCCIGLITVKDIERSQLNPNATKDSK---GRLRVA-AAVSVAKDIADRVGPLFDVNV 246
D+D IG+IT+ DI + AT+D G L V SV K + R+ L + V
Sbjct: 234 DEDNRLIGIITIDDI-IDVIEEEATEDILRMAGPLDVPDLFASVLKLVKKRIPWLLVLLV 292
Query: 247 DLVVVDTAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAG 295
+ + G + L+ +V + P + M GN T A +I
Sbjct: 293 TATLTASVIGLFEDTLEQLVALAAFIPLVAGMGGNAGTQ--AATVIVRA 339
>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 = 58.6 bits (142), Expect = 4e-09
Identities = 35/111 (31%), Positives = 63/111 (56%), Gaps = 7/111 (6%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--RFASNAQQA---- 154
N VTI AT+A+AL LMK++ +S + V + GI+T RD+ + + +
Sbjct: 2 NVVTIDGLATVAEALQLMKEHGVSSLVVEKRRESDAYGIVTMRDILKKVVAEGRDPDRVN 61
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V E+MT+ LI+V ++++ L+ + I + VV+++ IG+I++ DI
Sbjct: 62 VYEIMTKPLISVSPDMDIKYCARLMERTNIRRAPVVENNE-LIGIISLTDI 111
Score = 29.7 bits (67), Expect = 1.8
Identities = 11/54 (20%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVV-DDDGCCIGLITVKDIERSQLNPN 213
N++T+ + A L+ +H + L+V + G++T++DI + +
Sbjct: 1 PNVVTIDGLATVAEALQLMKEHGVSSLVVEKRRESDAYGIVTMRDILKKVVAEG 54
>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 = 58.3 bits (141), Expect = 4e-09
Identities = 33/120 (27%), Positives = 61/120 (50%), Gaps = 16/120 (13%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA------ 154
+ VT++P +L +A AL++++ I +PVV+ D +LVGI+T RD+ +
Sbjct: 3 DVVTVTPDTSLEEAWALLRRHRIKALPVVDGD-RRLVGIVTQRDLLRHARPDGRRPLRGR 61
Query: 155 ---------VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
VG++M+ ++TV+ + LL + VVD+D +G++T D+
Sbjct: 62 LRGRDKPETVGDIMSPPVVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDL 121
Score = 47.1 bits (112), Expect = 9e-06
Identities = 34/109 (31%), Positives = 53/109 (48%), Gaps = 5/109 (4%)
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSK 219
+R+++TV +LE A ALL +HRI+ L VVD D +G++T +D+ R P+ + +
Sbjct: 1 SRDVVTVTPDTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLR-HARPDGRRPLR 59
Query: 220 GRLRVAAAVSVAKDIADRVGPLFDVN---VDLVVVDTAHGHSQ-KVLDA 264
GRLR DI + +LV + GH V+D
Sbjct: 60 GRLRGRDKPETVGDIMSPPVVTVRPDTPIAELVPLLADGGHHHVPVVDE 108
>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 = 58.2 bits (141), Expect = 4e-09
Identities = 28/107 (26%), Positives = 59/107 (55%), Gaps = 7/107 (6%)
Query: 104 TISPYATLADALALMKKYS-----ISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGEL 158
+ T+ +AL +++ + I I VV+ + G+L+G+++ RD+ ++ V ++
Sbjct: 1 AVREDWTVGEALEYLRRNADDPETIYYIYVVDEE-GRLLGVVSLRDL-LLADPDTPVSDI 58
Query: 159 MTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
M ++I+V + E L ++ + L VVD++G +G+ITV D+
Sbjct: 59 MDTDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRLVGIITVDDV 105
Score = 40.9 bits (96), Expect = 8e-04
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M + +++S + L +KY + +PVV+ + G+LVGI+T DV
Sbjct: 59 MDTDVISVSADDDQEEVARLFEKYDLLALPVVDEE-GRLVGIITVDDV 105
>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 = 58.2 bits (141), Expect = 4e-09
Identities = 33/112 (29%), Positives = 61/112 (54%), Gaps = 9/112 (8%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV-------RFASNAQQ 153
NPVT +P ++ +A+ + K ISG PVV+ + G LVG L+ +D + +
Sbjct: 2 NPVTFTPDMSVTEAVEKLLKSKISGGPVVDDN-GNLVGFLSEQDCLKQLLESSYHCDGVA 60
Query: 154 AVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V ++MT ++TV ++ + L+ + + ++ VV DDG +G I+ +D+
Sbjct: 61 TVRDIMTTEVLTVSPDDSIVDLAQLMLKAKPKRYPVV-DDGKLVGQISRRDV 111
Score = 30.9 bits (70), Expect = 0.81
Identities = 14/51 (27%), Positives = 26/51 (50%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLN 211
RN +T +++ A L + +I VVDD+G +G ++ +D + L
Sbjct: 1 RNPVTFTPDMSVTEAVEKLLKSKISGGPVVDDNGNLVGFLSEQDCLKQLLE 51
>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 = 58.2 bits (141), Expect = 4e-09
Identities = 31/107 (28%), Positives = 57/107 (53%), Gaps = 2/107 (1%)
Query: 99 VVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGEL 158
+ + ++ T+ D L K+ S PVV+ K+VGI+T++DV + ++
Sbjct: 1 LEDTGYLTTTDTVKDWHELNKETGHSRFPVVDEK-NKVVGIVTSKDVAGKDP-DTTIEKV 58
Query: 159 MTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
MT+N ITV ++ + ++ IE L VVDD+ +G+I+ +D+
Sbjct: 59 MTKNPITVNPKTSVASVAHMMIWEGIEMLPVVDDNKKLLGIISRQDV 105
Score = 36.7 bits (85), Expect = 0.013
Identities = 17/48 (35%), Positives = 30/48 (62%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M NP+T++P ++A +M I +PVV+ + KL+GI++ +DV
Sbjct: 59 MTKNPITVNPKTSVASVAHMMIWEGIEMLPVVDDN-KKLLGIISRQDV 105
>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 = 57.8 bits (140), Expect = 6e-09
Identities = 38/130 (29%), Positives = 64/130 (49%), Gaps = 29/130 (22%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD------------------ 144
VT+SP ++A+A LM ISG+PVV+ D G+LVGI++ D
Sbjct: 5 VTVSPETSVAEAARLMLDNHISGLPVVDDD-GRLVGIVSEGDLLRRAELGTERRRARWLD 63
Query: 145 ---------VRFASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGC 195
F + + V ++MTR ++TV + L L+ +HRI+++ VV G
Sbjct: 64 LLAGAEELAAAFVRSHGRKVADVMTRPVVTVGEDTPLAEVAELMEEHRIKRVPVV-RGGR 122
Query: 196 CIGLITVKDI 205
+G+++ D+
Sbjct: 123 LVGIVSRADL 132
Score = 42.0 bits (99), Expect = 4e-04
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M VT+ LA+ LM+++ I +PVV G+LVGI++ D+
Sbjct: 87 MTRPVVTVGEDTPLAEVAELMEEHRIKRVPVVRG--GRLVGIVSRADL 132
Score = 32.4 bits (74), Expect = 0.32
Identities = 28/144 (19%), Positives = 48/144 (33%), Gaps = 32/144 (22%)
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSK 219
T +++TV ++ A L+ + I L VVDDDG +G+++ D+ R +
Sbjct: 1 TTDVVTVSPETSVAEAARLMLDNHISGLPVVDDDGRLVGIVSEGDLLR-----------R 49
Query: 220 GRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTAHGHSQKVLDAVVQIKKNFPSLLVMA 279
L + D+ L H +KV D VM
Sbjct: 50 AELGTERRRARWLDLLAGAEEL--------AAAFVRSHGRKVAD-------------VMT 88
Query: 280 GNIATAEGALALIDAGADIIKVGI 303
+ T L + + + I
Sbjct: 89 RPVVTVGEDTPLAEVAELMEEHRI 112
>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 = 57.6 bits (139), Expect = 7e-09
Identities = 36/108 (33%), Positives = 65/108 (60%), Gaps = 3/108 (2%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMT 160
+ +T+SP T+ D + L+K+ G PVV D GK+VGI++ RD+ + V E+M+
Sbjct: 3 DVITVSPDNTVKDVIKLIKETGHDGFPVV--DNGKVVGIVSARDLLGKDPDET-VEEIMS 59
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
++L+ +++ +A ++ + I KL VVD++ +G+IT D+ RS
Sbjct: 60 KDLVVAVPEMDIMDAARVMFRTGISKLPVVDENNNLVGIITNTDVIRS 107
>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 = 57.5 bits (139), Expect = 8e-09
Identities = 33/108 (30%), Positives = 56/108 (51%), Gaps = 9/108 (8%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA-----SNAQQAVGE 157
V+++P T++ A+ M++Y +S +PVV+ G++VG + D+ A + V E
Sbjct: 4 VSVAPDDTVSQAIERMREYGVSQLPVVDD--GRVVGSIDESDLLDALIEGKAKFSLPVRE 61
Query: 158 LMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+M L TV +E LL R +VVD+ G +G+IT D+
Sbjct: 62 VMGEPLPTVDPDAPIEELSELL--DRGNVAVVVDEGGKFVGIITRADL 107
Score = 33.2 bits (76), Expect = 0.18
Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 11/98 (11%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSKG 220
++++V + A + ++ + +L VVDD +G I E L+ +K
Sbjct: 1 GDVVSVAPDDTVSQAIERMREYGVSQLPVVDDGR-VVGSID----ESDLLDALIEGKAKF 55
Query: 221 RLRVAAAVS-----VAKDIA-DRVGPLFDVNVDLVVVD 252
L V + V D + + L D VVVD
Sbjct: 56 SLPVREVMGEPLPTVDPDAPIEELSELLDRGNVAVVVD 93
>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 = 57.5 bits (139), Expect = 8e-09
Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 8/111 (7%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQ------QA 154
P T+SP T+ +A LM++ +S + V+ D KLVGI T++D+ AQ
Sbjct: 2 KPATVSPTTTVQEAAKLMREKRVSCVLVM--DGNKLVGIFTSKDIALRVVAQGLDPESTL 59
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V +MT N + + A L+ Q + L VVD G +GL+ V +
Sbjct: 60 VERVMTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKSGQVVGLLDVTKL 110
Score = 33.6 bits (77), Expect = 0.12
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT 141
M NPV + + +AL LM + +PVV+ G++VG+L
Sbjct: 64 MTPNPVCATSDTPVLEALHLMVQGKFRHLPVVDKS-GQVVGLLD 106
>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 = 55.7 bits (134), Expect = 2e-08
Identities = 34/111 (30%), Positives = 55/111 (49%), Gaps = 6/111 (5%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--RFASNAQ---QAVG 156
P + +A A+A M +PVV+ D +LVGI+T DV + + V
Sbjct: 3 PSCVVLNTDIARAVAEMYTSGSRALPVVD-DKKRLVGIITRYDVLSYALESEELKDAKVR 61
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
E+M +IT+ ++ A+ L+ + I +L V+DD G G++T DI R
Sbjct: 62 EVMNSPVITIDANDSIAKARWLMSNNNISRLPVLDDKGKVGGIVTEDDILR 112
Score = 38.4 bits (89), Expect = 0.005
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M +TI ++A A LM +IS +PV++ GK+ GI+T D+
Sbjct: 64 MNSPVITIDANDSIAKARWLMSNNNISRLPVLDDK-GKVGGIVTEDDI 110
>gnl|CDD|73371 cd02809, alpha_hydroxyacid_oxid_FMN, Family of homologous
FMN-dependent alpha-hydroxyacid oxidizing enzymes. This
family occurs in both prokaryotes and eukaryotes.
Members of this family include flavocytochrome b2
(FCB2), glycolate oxidase (GOX), lactate monooxygenase
(LMO), mandelate dehydrogenase (MDH), and long chain
hydroxyacid oxidase (LCHAO). In green plants, glycolate
oxidase is one of the key enzymes in photorespiration
where it oxidizes glycolate to glyoxylate. LMO catalyzes
the oxidation of L-lactate to acetate and carbon
dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate.
It is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate..
Length = 299
Score = 55.8 bits (135), Expect = 3e-08
Identities = 38/123 (30%), Positives = 59/123 (47%), Gaps = 20/123 (16%)
Query: 249 VVVDTAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSI 308
+ VDT + D + ++ + L++ G I T E AL +DAGAD I
Sbjct: 148 LTVDTPVLGRRLTWDDLAWLRSQWKGPLILKG-ILTPEDALRAVDAGADGI--------- 197
Query: 309 CTTRVVTGVGCPQL----SAIMSVVEVAERAG--VAIVADGGIRFSGDIAKAIAAGSACV 362
VV+ G QL + I ++ E+ G + ++ DGGIR D+ KA+A G+ V
Sbjct: 198 ----VVSNHGGRQLDGAPATIDALPEIVAAVGGRIEVLLDGGIRRGTDVLKALALGADAV 253
Query: 363 MIG 365
+IG
Sbjct: 254 LIG 256
>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 = 55.6 bits (134), Expect = 3e-08
Identities = 39/113 (34%), Positives = 62/113 (54%), Gaps = 9/113 (7%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD------VRFASNAQQA 154
N +T+ P T+ +A +M + +I + VV++ K VGI+T RD R +
Sbjct: 2 NVITVDPDTTVYEAANIMTENNIGRLIVVDN--EKPVGIITERDLVKKVVSRNLKPREVP 59
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
VGE+M+ LIT+ +L A L+ +H I++L VVDDD +G++T DI
Sbjct: 60 VGEVMSTPLITIDPNASLNEAAKLMAKHGIKRLPVVDDDE-LVGIVTTTDIVM 111
Score = 42.5 bits (100), Expect = 3e-04
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 10/74 (13%)
Query: 72 LGVIHRNFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVES 131
V+ RN P E M +TI P A+L +A LM K+ I +PVV+
Sbjct: 46 KKVVSRNLKPREVPV--------GEVMSTPLITIDPNASLNEAAKLMAKHGIKRLPVVDD 97
Query: 132 DVGKLVGILTNRDV 145
D +LVGI+T D+
Sbjct: 98 D--ELVGIVTTTDI 109
>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 = 54.6 bits (131), Expect = 6e-08
Identities = 30/125 (24%), Positives = 62/125 (49%), Gaps = 21/125 (16%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--RFASNAQQA------ 154
+T+ ++ A+ +++++ IS +PVV+ + GKL GI+T D+ + +A
Sbjct: 4 ITVREDDSVGKAINVLREHGISRLPVVDDN-GKLTGIVTRHDIVDFVVRDRDKARTGDRS 62
Query: 155 ----------VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVV--DDDGCCIGLITV 202
V + M+ +IT ++ +A + ++ ++VV DDD +G++T
Sbjct: 63 GEKERMLDLPVYDAMSSPVITASPNDSVRDAVDRMLENDDSSVVVVTPDDDTKVVGILTK 122
Query: 203 KDIER 207
KD+ R
Sbjct: 123 KDVLR 127
Score = 35.7 bits (82), Expect = 0.028
Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
++ITV++ ++ A +L +H I +L VVDD+G G++T DI
Sbjct: 1 EDVITVREDDSVGKAINVLREHGISRLPVVDDNGKLTGIVTRHDI 45
Score = 34.2 bits (78), Expect = 0.089
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 93 KFESGMVVNPVTISPYATLADALALMKKYSISGIPVVE-SDVGKLVGILTNRDV 145
M +T SP ++ DA+ M + S + VV D K+VGILT +DV
Sbjct: 72 PVYDAMSSPVITASPNDSVRDAVDRMLENDDSSVVVVTPDDDTKVVGILTKKDV 125
>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 = 53.7 bits (130), Expect = 1e-07
Identities = 19/51 (37%), Positives = 36/51 (70%)
Query: 155 VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V ++MT +++TV +LE A L+ ++ I +L VVD+DG +G++T++D+
Sbjct: 1 VKDIMTPDVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDL 51
Score = 51.8 bits (125), Expect = 5e-07
Identities = 25/51 (49%), Positives = 35/51 (68%), Gaps = 1/51 (1%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA 148
M + VT+ P +L +AL LM++ IS +PVV+ D GKLVGI+T RD+ A
Sbjct: 5 MTPDVVTVPPDTSLEEALELMRENGISRLPVVDED-GKLVGIVTLRDLLRA 54
>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 = 53.0 bits (127), Expect = 2e-07
Identities = 31/104 (29%), Positives = 52/104 (50%), Gaps = 3/104 (2%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMTR 161
P+T+ P L+DAL LM + + VV++D G+ +G +T R+ AS G+
Sbjct: 3 PITVRPDDPLSDALGLMDDSDLRALTVVDAD-GQPLGFVTRREAARAS--GGCCGDHAEP 59
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+TV +L + + H + L VD+DG +G +T + I
Sbjct: 60 FKVTVSVDDDLRIVLSRMFAHDMSWLPCVDEDGRYVGEVTQRSI 103
Score = 28.7 bits (64), Expect = 4.2
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 163 LITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
ITV+ L +A L+ + L VVD DG +G +T ++ R
Sbjct: 3 PITVRPDDPLSDALGLMDDSDLRALTVVDADGQPLGFVTRREAAR 47
>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 = 52.6 bits (126), Expect = 3e-07
Identities = 36/132 (27%), Positives = 65/132 (49%), Gaps = 27/132 (20%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA------- 154
+T+ TL D + ++ ISG+PVV+++ G++VGI++ D+ +
Sbjct: 3 VITVKKDDTLRDVVEILLTGKISGVPVVDNE-GRVVGIVSEGDLIRKIYKGKGLFYVTLL 61
Query: 155 ------------------VGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCC 196
V E+MT+ +ITV + +E+ ++ + I++L VV DDG
Sbjct: 62 YSVIFLDESKIKKLLGKKVEEIMTKKVITVDEDTTIEDVARIMSKKNIKRLPVV-DDGKL 120
Query: 197 IGLITVKDIERS 208
+G+I+ DI RS
Sbjct: 121 VGIISRGDIIRS 132
Score = 41.0 bits (96), Expect = 8e-04
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 92 KKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
KK E M +T+ T+ D +M K +I +PVV+ GKLVGI++ D+
Sbjct: 78 KKVEEIMTKKVITVDEDTTIEDVARIMSKKNIKRLPVVDD--GKLVGIISRGDI 129
Score = 29.1 bits (65), Expect = 3.2
Identities = 15/48 (31%), Positives = 29/48 (60%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
+++ITVKK L + +L +I + VVD++G +G+++ D+ R
Sbjct: 1 KDVITVKKDDTLRDVVEILLTGKISGVPVVDNEGRVVGIVSEGDLIRK 48
>gnl|CDD|144604 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 301
Score = 51.7 bits (125), Expect = 4e-07
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 19/90 (21%)
Query: 282 IATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQL----SAIMSVVEVAERAG- 336
I + E A ++AG D I VV+ G QL + I ++ E+ G
Sbjct: 177 ILSPEDAKRAVEAGVDGI-------------VVSNHGGRQLDGAPATIDALPEIVAAVGG 223
Query: 337 -VAIVADGGIRFSGDIAKAIAAGSACVMIG 365
+ ++ DGGIR D+ KA+A G+ V++G
Sbjct: 224 RIPVLVDGGIRRGTDVLKALALGADAVLLG 253
>gnl|CDD|36975 KOG1764, KOG1764, KOG1764, 5'-AMP-activated protein kinase, gamma
subunit [Energy production and conversion].
Length = 381
Score = 50.8 bits (121), Expect = 8e-07
Identities = 35/115 (30%), Positives = 56/115 (48%), Gaps = 14/115 (12%)
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA-----------SNAQ 152
+IS + +AL +M + IS +PVV+ + GK VG + DV S
Sbjct: 241 SISEDTPVIEALKIMSERRISALPVVDEN-GKKVGNYSRFDVIHLAREGTYNNLDLSCLS 299
Query: 153 QAVGELMTRN--LITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+A+ R ++T + T L L HR+ +L VVD+DG +G+I++ DI
Sbjct: 300 EALSHRPIRFEGVVTCRPTSTLAEVIDKLVAHRVHRLWVVDEDGVLVGVISLSDI 354
Score = 43.1 bits (101), Expect = 2e-04
Identities = 31/126 (24%), Positives = 62/126 (49%), Gaps = 16/126 (12%)
Query: 96 SGMVVNP--VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT-----------N 142
+ P V+ISP ++L DA+ L+ K I +PV++ + G+++ ILT
Sbjct: 156 LKETLKPPFVSISPESSLLDAVLLLIKSRIHRVPVIDPETGEVLYILTQRRILKFLWLNG 215
Query: 143 RDVRFASNAQQAVGEL---MTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGL 199
R + S +++ +L N+ ++ + + A ++ + RI L VVD++G +G
Sbjct: 216 RLLPLPSLLSKSLSDLGIGTWSNIASISEDTPVIEALKIMSERRISALPVVDENGKKVGN 275
Query: 200 ITVKDI 205
+ D+
Sbjct: 276 YSRFDV 281
Score = 28.1 bits (62), Expect = 5.4
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
VT P +TLA+ + + + + + VV+ D G LVG+++ D+
Sbjct: 313 VTCRPTSTLAEVIDKLVAHRVHRLWVVDED-GVLVGVISLSDI 354
>gnl|CDD|31445 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 50.7 bits (121), Expect = 1e-06
Identities = 25/105 (23%), Positives = 51/105 (48%), Gaps = 2/105 (1%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--RFASNAQQAVGELMT 160
V + T+ + + L+ + S IPV + D+ ++GI+ +D+ ++
Sbjct: 219 VALDLTDTVEELIELILESGHSRIPVYDGDLDNIIGIVHVKDLLRALLDGQSDLDLRVLV 278
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R + V +T++L + + R +VVD+ G GL+T++DI
Sbjct: 279 RPPLFVPETLSLSDLLEEFREERTHMAIVVDEYGGVEGLVTLEDI 323
Score = 31.1 bits (70), Expect = 0.82
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 151 AQQAVGELMT--RNLITVKKTVNLENAKALLHQHRIEKLLVVDDD-GCCIGLITVKDIER 207
+ V E+MT +++ + T +E L+ + ++ V D D IG++ VKD+ R
Sbjct: 204 DDRTVREIMTPRTDIVALDLTDTVEELIELILESGHSRIPVYDGDLDNIIGIVHVKDLLR 263
Query: 208 SQLNPNATKDSKGRLR 223
+ L+ + D + +R
Sbjct: 264 ALLDGQSDLDLRVLVR 279
>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 = 50.2 bits (120), Expect = 1e-06
Identities = 35/109 (32%), Positives = 55/109 (50%), Gaps = 5/109 (4%)
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR---FASNAQQAVGELMT 160
T+ + TL + + S VV + G+ VGI++ D+R + AQ V ++MT
Sbjct: 5 TVPAHLTLREFVREYVLGSNQRRFVVVDNEGRYVGIISLADLRAIPTSQWAQTTVIQVMT 64
Query: 161 --RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
L+TV +L LL + +++L VV+D G IGLIT D+ R
Sbjct: 65 PAAKLVTVLSEESLAEVLKLLEEQGLDELAVVEDSGQVIGLITEADLLR 113
>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 = 2e-06
Identities = 31/121 (25%), Positives = 60/121 (49%), Gaps = 15/121 (12%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--------------RF 147
PVT +P ++ LM + +G+PVV G+L+GI+T RD+ R
Sbjct: 3 PVTCTPDDPVSKVWDLMLESGFTGLPVV-QKAGELIGIITRRDIIRAGSVRTSVEDQQRT 61
Query: 148 ASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
+ A V ++M+ + +V ++ A L+ +H I +L VV++ +G++ D+ +
Sbjct: 62 QTKASPTVEKIMSTPVYSVTPDDSIATAVELMLEHDIGRLPVVNEKDQLVGIVDRHDVLK 121
Query: 208 S 208
+
Sbjct: 122 A 122
Score = 38.0 bits (88), Expect = 0.006
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 82 SEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT 141
+Q Q E M +++P ++A A+ LM ++ I +PVV + +LVGI+
Sbjct: 57 DQQRTQTKASPTVEKIMSTPVYSVTPDDSIATAVELMLEHDIGRLPVVN-EKDQLVGIVD 115
Query: 142 NRDV 145
DV
Sbjct: 116 RHDV 119
>gnl|CDD|33419 COG3620, COG3620, Predicted transcriptional regulator with
C-terminal CBS domains [Transcription].
Length = 187
Score = 49.5 bits (118), Expect = 2e-06
Identities = 36/116 (31%), Positives = 58/116 (50%), Gaps = 11/116 (9%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA------SNA 151
M V++SP +++D + LM+ IS +PV+E D K+VG +T D+ A S
Sbjct: 71 MHSPVVSVSPDDSISDVVNLMRDKGISQLPVIEED--KVVGSITENDIVRALLEGMESIR 128
Query: 152 QQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
V E+M TV +L LL +H ++V ++G +G+IT DI +
Sbjct: 129 SLRVREVMGEPFPTVSPDESLNVISQLLEEH---PAVLVVENGKVVGIITKADIMK 181
Score = 34.5 bits (79), Expect = 0.065
Identities = 23/105 (21%), Positives = 43/105 (40%), Gaps = 11/105 (10%)
Query: 158 LMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKD 217
+M +++V ++ + L+ I +L V+++D +G IT DI R+ L +
Sbjct: 70 IMHSPVVSVSPDDSISDVVNLMRDKGISQLPVIEEDK-VVGSITENDIVRALLE---GME 125
Query: 218 SKGRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTAHGHSQKVL 262
S LRV +++ P + L V+ VL
Sbjct: 126 SIRSLRV-------REVMGEPFPTVSPDESLNVISQLLEEHPAVL 163
>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 = 49.5 bits (118), Expect = 2e-06
Identities = 28/119 (23%), Positives = 52/119 (43%), Gaps = 14/119 (11%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV--------RFASNAQ 152
+ + A+L A+ ++ I + V E + G+++GIL+ R + R
Sbjct: 2 PFIPVPSTASLFQAIEILGSGGIHRVAVTEEESGEVIGILSQRRLVEFLWENARSFPGLD 61
Query: 153 QAVGELM------TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+ T ++I++ L +A L+H I + VVD+ G IG I+V D+
Sbjct: 62 PLYPIPLRDLTIGTSDVISINGDQPLIDALHLMHNEGISSVAVVDNQGNLIGNISVTDV 120
>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 = 47.8 bits (114), Expect = 7e-06
Identities = 31/106 (29%), Positives = 50/106 (47%), Gaps = 13/106 (12%)
Query: 110 TLADALALMKKYSISGIPVVESDVGKLVGILTNRDV----------RFASNAQQAVGELM 159
TL AL ++ K+ S IPV++ + GK VG ++ D+ V ++M
Sbjct: 11 TLRHALLVLTKHGYSAIPVLDKE-GKYVGTISLTDILWKLKGLENLDLERLVDLKVIDVM 69
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
++ + ++E LL L VVDDDG IG+IT ++I
Sbjct: 70 NTDVPVIIDDADIEEILHLLIDQPF--LPVVDDDGIFIGIITRREI 113
Score = 34.7 bits (80), Expect = 0.056
Identities = 22/99 (22%), Positives = 36/99 (36%), Gaps = 9/99 (9%)
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPN-------- 213
+ V+ T L +A +L +H + V+D +G +G I++ DI
Sbjct: 2 EVAYVQDTNTLRHALLVLTKHGYSAIPVLDKEGKYVGTISLTDILWKLKGLENLDLERLV 61
Query: 214 ATKDSKGRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVD 252
K + DI + + L D L VVD
Sbjct: 62 DLKVIDVMNTDVPVIIDDADIEEILHLLIDQPF-LPVVD 99
>gnl|CDD|33866 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 47.6 bits (113), Expect = 8e-06
Identities = 33/107 (30%), Positives = 57/107 (53%), Gaps = 2/107 (1%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMTR 161
+ T+ D L L++K S PVV K+VG++T RDV + + ++MT+
Sbjct: 200 TSYLRETDTVEDWLDLVEKTGHSRFPVVN-RSMKVVGVVTMRDVLDKKPSTT-IEKVMTK 257
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
N ITV+ ++ + ++ IE L VVD + +G+IT +D+ +S
Sbjct: 258 NPITVRAKTSVASVAQMMIWEGIEMLPVVDSNNTLLGIITRQDVLKS 304
Score = 34.9 bits (80), Expect = 0.051
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 93 KFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
E M NP+T+ ++A +M I +PVV+S+ L+GI+T +DV
Sbjct: 250 TIEKVMTKNPITVRAKTSVASVAQMMIWEGIEMLPVVDSN-NTLLGIITRQDV 301
>gnl|CDD|33251 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 47.3 bits (112), Expect = 9e-06
Identities = 29/118 (24%), Positives = 55/118 (46%), Gaps = 11/118 (9%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV----------RF 147
M + VT+S ++ A L++++ I +PV++ + +LVGI+T RD+ R
Sbjct: 251 MSRDVVTVSTDTSIDHARKLLQEHRIKALPVLD-EHRRLVGIVTQRDLLKHARPSPFQRL 309
Query: 148 ASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
V +MT ++TV+ L + L V+D G +G+++ D+
Sbjct: 310 RFLRPPTVKGIMTTPVVTVRPDTPAVELVPRLADEGLHALPVLDAAGKLVGIVSQTDL 367
Score = 41.5 bits (97), Expect = 6e-04
Identities = 25/109 (22%), Positives = 50/109 (45%), Gaps = 8/109 (7%)
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI-------ERSQ 209
++M+R+++TV ++++A+ LL +HRI+ L V+D+ +G++T +D+ +
Sbjct: 249 DIMSRDVVTVSTDTSIDHARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLKHARPSPFQR 308
Query: 210 LNPNATKDSKGRLRVAAAVSVAKDIADRVGPLF-DVNVDLVVVDTAHGH 257
L KG + A + P D + + V A G
Sbjct: 309 LRFLRPPTVKGIMTTPVVTVRPDTPAVELVPRLADEGLHALPVLDAAGK 357
Score = 30.0 bits (67), Expect = 1.4
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA 154
M VT+ P + + + + +PV+++ GKLVGI++ D+ A +
Sbjct: 321 MTTPVVTVRPDTPAVELVPRLADEGLHALPVLDAA-GKLVGIVSQTDLIAALYRNWS 376
>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 = 47.1 bits (112), Expect = 1e-05
Identities = 32/111 (28%), Positives = 55/111 (49%), Gaps = 7/111 (6%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR-FASNAQQA----V 155
+ VTI L + L ++ + PVV+ D G+LVGI++ D+R +
Sbjct: 2 DVVTIPEDTPLNELLDVIAHSPENNFPVVDDD-GRLVGIVSLDDIREILFDPSLYDLVVA 60
Query: 156 GELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDD-GCCIGLITVKDI 205
++MT+ + V +LE+A E+L VVDDD G +G+++ D+
Sbjct: 61 SDIMTKPPVVVYPEDSLEDALKKFEDSDYEQLPVVDDDPGKLLGILSRSDL 111
Score = 46.3 bits (110), Expect = 2e-05
Identities = 19/48 (39%), Positives = 27/48 (56%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M PV + P +L DAL + +PVV+ D GKL+GIL+ D+
Sbjct: 64 MTKPPVVVYPEDSLEDALKKFEDSDYEQLPVVDDDPGKLLGILSRSDL 111
Score = 31.7 bits (72), Expect = 0.52
Identities = 12/45 (26%), Positives = 24/45 (53%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R+++T+ + L ++ VVDDDG +G++++ DI
Sbjct: 1 RDVVTIPEDTPLNELLDVIAHSPENNFPVVDDDGRLVGIVSLDDI 45
>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 = 46.8 bits (111), Expect = 1e-05
Identities = 34/105 (32%), Positives = 52/105 (49%), Gaps = 4/105 (3%)
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA---SNAQQAVGELMT 160
T+SP TL DA + + PVV+ D G LVG+LT D+ A V +M
Sbjct: 5 TLSPADTLDDAADALLATTQHEFPVVDGD-GHLVGLLTRDDLIRALAEGGPDAPVRGVMR 63
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R+ TV + L+ L+ Q + VVD G +GL+T++++
Sbjct: 64 RDFPTVSPSATLDAVLRLMQQGGAPAVPVVDGSGRLVGLVTLENV 108
>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 = 46.9 bits (111), Expect = 1e-05
Identities = 36/136 (26%), Positives = 58/136 (42%), Gaps = 30/136 (22%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQ------- 153
+ T+ P +L + M+K + + VV+ D GK VG++T RD+ FA
Sbjct: 2 DIATVHPEHSLLHVVDEMEKNGVGRVIVVD-DNGKPVGVITYRDLAFAEFEDNERGLPKK 60
Query: 154 ---------------------AVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDD 192
++MT +ITV ++ +A L+ + I L VVD+
Sbjct: 61 SIKMKRKAGQKRYRYVKEVPLVAEDIMTEEIITVSPNDDVVDAAKLMLEANISGLPVVDN 120
Query: 193 DGCCIGLITVKDIERS 208
D +G+IT DI R
Sbjct: 121 DN-IVGVITKTDICRE 135
Score = 43.8 bits (103), Expect = 1e-04
Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M +T+SP + DA LM + +ISG+PVV++D +VG++T D+
Sbjct: 87 MTEEIITVSPNDDVVDAAKLMLEANISGLPVVDND--NIVGVITKTDI 132
Score = 34.5 bits (79), Expect = 0.066
Identities = 23/123 (18%), Positives = 58/123 (47%), Gaps = 6/123 (4%)
Query: 162 NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSKGR 221
++ TV +L + + ++ + +++VVDD+G +G+IT +D+ ++ N K
Sbjct: 2 DIATVHPEHSLLHVVDEMEKNGVGRVIVVDDNGKPVGVITYRDLAFAEFEDNERGLPKKS 61
Query: 222 LRVAAAVSVAKDIADRVGPLF--DVNVDLVVVDTAHGHSQKVLDAV-VQIKKNFPSLLVM 278
+++ + + PL D+ + ++ + + V+DA + ++ N L V+
Sbjct: 62 IKMKRKAGQKRYRYVKEVPLVAEDIMTEEIITVSP---NDDVVDAAKLMLEANISGLPVV 118
Query: 279 AGN 281
+
Sbjct: 119 DND 121
>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 = 46.7 bits (111), Expect = 2e-05
Identities = 29/109 (26%), Positives = 52/109 (47%), Gaps = 8/109 (7%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQ-----AVG 156
P+ + ++ DA LM+++ ++ D +GI+T D+ A VG
Sbjct: 3 PLIVDASTSIRDAARLMREHGADA--LLVRDGDPRLGIVTRTDLLDAVLLDGLPSSTPVG 60
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
E+ T LITV L NA L+ +HRI +++V + +G++ D+
Sbjct: 61 EIATFPLITVDPDDFLFNALLLMTRHRIHRVVVREGGE-VVGVLEQTDL 108
Score = 31.6 bits (72), Expect = 0.47
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
+T+ P L +AL LM ++ I + V E G++VG+L D+
Sbjct: 66 PLITVDPDDFLFNALLLMTRHRIHRVVVREG--GEVVGVLEQTDL 108
>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 = 46.4 bits (110), Expect = 2e-05
Identities = 28/107 (26%), Positives = 58/107 (54%), Gaps = 6/107 (5%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQ----QAVGEL 158
TI A++ +AL M KY+ + +V+ + KL G++T D+ + + V +
Sbjct: 4 PTIDEDASIREALHEMLKYN-TNEIIVKDNEEKLKGVVTFTDILDLDLFESFLEKKVFNI 62
Query: 159 MTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+++++ V + ++ A ++ + +I +L VVDD+ IG++ KDI
Sbjct: 63 VSQDVFYVNEEDTIDEALDIMREKQIGRLPVVDDNK-LIGVVRTKDI 108
Score = 36.0 bits (83), Expect = 0.025
Identities = 14/55 (25%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 92 KKFESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR 146
KK + + + ++ T+ +AL +M++ I +PVV+ + KL+G++ +D+
Sbjct: 57 KKVFNIVSQDVFYVNEEDTIDEALDIMREKQIGRLPVVDDN--KLIGVVRTKDIL 109
>gnl|CDD|73392 cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the
nitroalkane oxidizing enzyme families, catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDP is a
member of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN..
Length = 236
Score = 45.9 bits (109), Expect = 2e-05
Identities = 25/100 (25%), Positives = 39/100 (39%), Gaps = 19/100 (19%)
Query: 282 IATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGC-----PQLSAIMSVV-EVAERA 335
+ + E A AGAD + V G ++V EV +
Sbjct: 109 VTSVEEARKAEAAGADAL-------------VAQGAEAGGHRGTFDIGTFALVPEVRDAV 155
Query: 336 GVAIVADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESP 375
+ ++A GGI IA A+A G+ V +G+ T+ES
Sbjct: 156 DIPVIAAGGIADGRGIAAALALGADGVQMGTRFLATEESG 195
Score = 42.0 bits (99), Expect = 4e-04
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 5/92 (5%)
Query: 45 LNLPIMSAAMDQVTDSRLAIAMAQAGGLGVIH-RNFSPSEQVAQVHQVKKFESGMV-VNP 102
+ PI+ A M V+ LA A++ AGGLG I +P A++ +++ VN
Sbjct: 1 IRYPIIQAPMAGVSTPELAAAVSNAGGLGFIGAGYLTPEALRAEIRKIRALTDKPFGVNL 60
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVG 134
+ S L + + G+PVV G
Sbjct: 61 LVPSSNPDFEALLEVALEE---GVPVVSFSFG 89
>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 = 45.6 bits (108), Expect = 3e-05
Identities = 28/117 (23%), Positives = 52/117 (44%), Gaps = 13/117 (11%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV-------RFASNAQQ 153
N T P L D L ++ + +S +P+V+ + GK+V + + DV + +
Sbjct: 2 NIATARPDTPLIDVLDMLVERRVSALPIVDEN-GKVVDVYSRFDVINLAKEGAYNNLDLT 60
Query: 154 AVGELMTR-----NLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
L R + T L L+ + R+ +L+VVD++ G+I++ DI
Sbjct: 61 VGEALERRSQDFEGVRTCSPDDCLRTIFDLIVKARVHRLVVVDENKRVEGIISLSDI 117
>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 = 45.3 bits (107), Expect = 4e-05
Identities = 20/63 (31%), Positives = 32/63 (50%)
Query: 146 RFASNAQQAVGELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
++ V +++ R +T + L A L+H+H I L VVDDDG G+IT+ D+
Sbjct: 51 ILLADVHPRVRDVINRKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAGIITLLDL 110
Query: 206 ERS 208
Sbjct: 111 AEK 113
Score = 40.6 bits (95), Expect = 0.001
Identities = 19/45 (42%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
PVT P L +AL LM +++I +PVV+ D G GI+T D+
Sbjct: 67 KPVTARPNDPLREALNLMHEHNIRTLPVVDDD-GTPAGIITLLDL 110
>gnl|CDD|73094 cd04594, CBS_pair_EriC_assoc_archaea, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the EriC CIC-type chloride
channels in 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 = 104
Score = 45.3 bits (107), Expect = 4e-05
Identities = 25/106 (23%), Positives = 51/106 (48%), Gaps = 5/106 (4%)
Query: 100 VNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELM 159
+ + + Y + +A +M + + +PVV D K +G + +D+ A+ V + +
Sbjct: 1 IKDIKVKDYDKVYEAKRIMIENDLLSLPVV--DYNKFLGAVYLKDIENATYGD--VVDYI 56
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
R + V+ T E A ++ +++ VV DDG G++T+ I
Sbjct: 57 VRGIPYVRLTSTAEEAWEVMMKNKTRWCPVV-DDGKFKGIVTLDSI 101
>gnl|CDD|32253 COG2070, COG2070, Dioxygenases related to 2-nitropropane
dioxygenase [General function prediction only].
Length = 336
Score = 44.2 bits (104), Expect = 9e-05
Identities = 19/53 (35%), Positives = 28/53 (52%)
Query: 35 ISTRIAKDFTLNLPIMSAAMDQVTDSRLAIAMAQAGGLGVIHRNFSPSEQVAQ 87
+STR + PI+ M V+ LA A++ AGGLG+I P+EQ+
Sbjct: 3 LSTRFILLLGIKYPIIQGGMAGVSTPELAAAVSNAGGLGIIASGGLPAEQLRA 55
Score = 41.5 bits (97), Expect = 5e-04
Identities = 29/99 (29%), Positives = 43/99 (43%), Gaps = 8/99 (8%)
Query: 279 AGNIATAEGALALIDAGAD-IIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAE-RAG 336
++ T AL AGAD +I G G G ++S V EV + G
Sbjct: 131 IHSVITVREALKAERAGADAVIAQGAEAGGH------RGGVDLEVSTFALVPEVVDAVDG 184
Query: 337 VAIVADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESP 375
+ ++A GGI IA A+A G+ V +G+ T E+
Sbjct: 185 IPVIAAGGIADGRGIAAALALGADGVQMGTRFLATKEAD 223
>gnl|CDD|73399 cd04737, LOX_like_FMN, L-Lactate oxidase (LOX) FMN-binding domain.
LOX is a member of the family of FMN-containing
alpha-hydroxyacid oxidases and catalyzes the oxidation
of l-lactate using molecular oxygen to generate pyruvate
and H2O2. This family occurs in both prokaryotes and
eukaryotes. Members of this family include
flavocytochrome b2 (FCB2), glycolate oxidase (GOX),
lactate monooxygenase (LMO), mandelate dehydrogenase
(MDH), and long chain hydroxyacid oxidase (LCHAO)..
Length = 351
Score = 42.6 bits (100), Expect = 3e-04
Identities = 33/109 (30%), Positives = 51/109 (46%), Gaps = 11/109 (10%)
Query: 259 QKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVG 318
QK+ A ++ L V+ I + E A I+AGAD I V G R + G
Sbjct: 206 QKLSPADIEFIAKISGLPVIVKGIQSPEDADVAINAGADGIWVSNHGG-----RQLDGGP 260
Query: 319 CPQLSAIMSVVEVAERAG--VAIVADGGIRFSGDIAKAIAAGSACVMIG 365
++ S+ E+AE V I+ D G+R + KA+A+G+ V +G
Sbjct: 261 ----ASFDSLPEIAEAVNHRVPIIFDSGVRRGEHVFKALASGADAVAVG 305
>gnl|CDD|30418 COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport
and metabolism].
Length = 485
Score = 42.6 bits (100), Expect = 3e-04
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 288 ALALIDAGADIIKV-GIGPGSICTTRVVT-GVGCPQLSAIMSVVEVAE----RAGVAIVA 341
A + AGAD+I + G G+ + G P + + R V ++A
Sbjct: 320 AAGVAKAGADVITIDGADGGTGASPLTSIDHAGIPWELGLAETHQTLVLNGLRDKVKLIA 379
Query: 342 DGGIRFSGDIAKAIAAGSACVMIGS 366
DGG+R D+AKA A G+ V G+
Sbjct: 380 DGGLRTGADVAKAAALGADAVGFGT 404
>gnl|CDD|73384 cd04722, TIM_phosphate_binding, TIM barrel proteins share a
structurally conserved phosphate binding motif and in
general share an eight beta/alpha closed barrel
structure. Specific for this family is the conserved
phosphate binding site at the edges of strands 7 and 8.
The phosphate comes either from the substrate, as in the
case of inosine monophosphate dehydrogenase (IMPDH), or
from ribulose-5-phosphate 3-epimerase (RPE) or from
cofactors, like FMN..
Length = 200
Score = 42.2 bits (98), Expect = 3e-04
Identities = 32/140 (22%), Positives = 58/140 (41%), Gaps = 9/140 (6%)
Query: 229 SVAKDIADRVGPLFDVNVDLVVVDTAHGHSQKVLDAVV-QIKKNFPSLLVMAGNIATAEG 287
A + D V + A G+ + ++ ++++ P + V+ T E
Sbjct: 68 DAAAAVDIAAAAARAAGADGVEIHGAVGYLAREDLELIRELREAVPDVKVVVKLSPTGEL 127
Query: 288 ALA-LIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADGGIR 346
A A +AG D + +G G G G A + ++ + V ++A GGI
Sbjct: 128 AAAAAEEAGVDEVGLGNGGG-------GGGGRDAVPIADLLLILAKRGSKVPVIAGGGIN 180
Query: 347 FSGDIAKAIAAGSACVMIGS 366
D A+A+A G+ V++GS
Sbjct: 181 DPEDAAEALALGADGVIVGS 200
>gnl|CDD|73370 cd02808, GltS_FMN, Glutamate synthase (GltS) FMN-binding domain.
GltS is a complex iron-sulfur flavoprotein that
catalyzes the reductive synthesis of L-glutamate from
2-oxoglutarate and L-glutamine via intramolecular
channelling of ammonia, a reaction in the plant, yeast
and bacterial pathway for ammonia assimilation. It is a
multifunctional enzyme that functions through three
distinct active centers, carrying out L-glutamine
hydrolysis, conversion of 2-oxoglutarate into
L-glutamate, and electron uptake from an electron
donor..
Length = 392
Score = 42.1 bits (99), Expect = 3e-04
Identities = 29/104 (27%), Positives = 42/104 (40%), Gaps = 22/104 (21%)
Query: 276 LVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTG---------VGCPQLSAIM 326
LV +A AGAD I + G TG VG P +
Sbjct: 221 LVAGHGEGDIAAGVAA--AGADFITIDGAEGG-------TGAAPLTFIDHVGLPTELGLA 271
Query: 327 SVVEVAERAG----VAIVADGGIRFSGDIAKAIAAGSACVMIGS 366
+ + G V+++A GG+R D+AKA+A G+ V IG+
Sbjct: 272 RAHQALVKNGLRDRVSLIASGGLRTGADVAKALALGADAVGIGT 315
>gnl|CDD|145943 pfam03060, NPD, 2-nitropropane dioxygenase. Members of this family
catalyse the denitrification of a number of nitroalkanes
using either FAD or FMN as a cofactor.
Length = 330
Score = 42.0 bits (99), Expect = 4e-04
Identities = 28/96 (29%), Positives = 42/96 (43%), Gaps = 10/96 (10%)
Query: 282 IATAEGALALIDAGADIIKV-GIGPGSICTTRVVTGVGCPQLSAIMSVVE-VAERAGVAI 339
+++A+ A AGAD + G G T V TG +V V + + +
Sbjct: 144 VSSAKEARKAEAAGADAVVAQGPEAGGHRGTEVGTG--------TFLLVPTVVDAVDIPV 195
Query: 340 VADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESP 375
+A GGI IA A+A G+ V IG+ T E+
Sbjct: 196 IAAGGIADGRGIAAALALGAEGVQIGTRFLATKEAT 231
Score = 36.2 bits (84), Expect = 0.018
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 36 STRIAKDFTLNLPIMSAAMDQVTDSRLAIAMAQAGGLGVI 75
TR + PI+ M ++ LA A+++AGGLGV+
Sbjct: 1 RTRFTDLLKIKYPIVQPPMGGISTPELAAAVSEAGGLGVL 40
>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 = 41.7 bits (98), Expect = 5e-04
Identities = 27/114 (23%), Positives = 52/114 (45%), Gaps = 14/114 (12%)
Query: 104 TISPYATLADALALMKKYS-ISGIPVVESDVGKLVGILTNRDV--RFASN------AQQA 154
T+SP T+ D L ++ +S + VV D G+ VG++ + ++ ++
Sbjct: 5 TVSPDTTVNDVLERFERDPDLSALAVV--DDGRPVGLIMREALMELLSTPYGRALYGKKP 62
Query: 155 VGELMTRNLITVKKTVNLENAKALL---HQHRIEKLLVVDDDGCCIGLITVKDI 205
V E+M + + V+ LE L + +V ++G +G+ TVKD+
Sbjct: 63 VSEVMDPDPLIVEADTPLEEVSRLATGRDSQNLYDGFIVTEEGRYLGIGTVKDL 116
>gnl|CDD|31495 COG1304, LldD, L-lactate dehydrogenase (FMN-dependent) and related
alpha-hydroxy acid dehydrogenases [Energy production and
conversion].
Length = 360
Score = 41.4 bits (97), Expect = 5e-04
Identities = 32/85 (37%), Positives = 41/85 (48%), Gaps = 13/85 (15%)
Query: 287 GALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQL----SAIMSVVEVAERAG--VAIV 340
G LA DA G G I V+ G QL S S+ E+ E G + ++
Sbjct: 225 GILAPEDAAG---AGGTGADGI----EVSNHGGRQLDWGISTADSLPEIVEAVGDRIEVI 277
Query: 341 ADGGIRFSGDIAKAIAAGSACVMIG 365
ADGGIR D+AKA+A G+ V IG
Sbjct: 278 ADGGIRSGLDVAKALALGADAVGIG 302
>gnl|CDD|73391 cd04729, NanE, N-acetylmannosamine-6-phosphate epimerase (NanE)
converts N-acetylmannosamine-6-phosphate to
N-acetylglucosamine-6-phosphate. This reaction is part
of the pathway that allows the usage of sialic acid as a
carbohydrate source. Sialic acids are a family of
related sugars that are found as a component of
glycoproteins, gangliosides, and other
sialoglycoconjugates..
Length = 219
Score = 41.3 bits (97), Expect = 7e-04
Identities = 31/135 (22%), Positives = 55/135 (40%), Gaps = 10/135 (7%)
Query: 241 LFDVNVDLVVVDTAHGH--SQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADI 298
L D++ +D + L +++ + L+MA +I+T E AL G DI
Sbjct: 88 LAAAGADIIALDATDRPRPDGETLAELIKRIHEEYNCLLMA-DISTLEEALNAAKLGFDI 146
Query: 299 IKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAG 358
I + G T L E+ + G+ ++A+G I AKA+ G
Sbjct: 147 IGTTLS-GYTEETAKTEDPDFELLK------ELRKALGIPVIAEGRINSPEQAAKALELG 199
Query: 359 SACVMIGSLLAGTDE 373
+ V++GS + +
Sbjct: 200 ADAVVVGSAITRPEH 214
>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 = 40.4 bits (94), Expect = 0.001
Identities = 17/59 (28%), Positives = 26/59 (44%)
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSK 219
I V T L+ A L+ + +LVVD D G++T+ DI+R T+
Sbjct: 1 TKYIKVSPTTTLKEALNLMLDEKQSCVLVVDSDDFLEGILTLGDIQRFLFTNKTTRVQP 59
Score = 31.9 bits (72), Expect = 0.46
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVR 146
+ +SP TL +AL LM S + VV+SD L GILT D++
Sbjct: 4 IKVSPTTTLKEALNLMLDEKQSCVLVVDSD-DFLEGILTLGDIQ 46
Score = 28.0 bits (62), Expect = 6.6
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVG 134
T +P L A LM+ + +PVV+ V
Sbjct: 88 LWTCTPDTDLTTAKKLMEAKGVKQLPVVKRGVD 120
>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 = 40.2 bits (94), Expect = 0.001
Identities = 26/107 (24%), Positives = 52/107 (48%), Gaps = 13/107 (12%)
Query: 101 NPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMT 160
N T+ L A+ +M+ ++ +PV++ D GKL GI+T RD+ S
Sbjct: 2 NVPTVWEETPLPVAVRIMELANVKALPVLDDD-GKLSGIITERDLIAKSE---------- 50
Query: 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIER 207
++T K + + ++RIE++ +++ + IGL+ D+ +
Sbjct: 51 --VVTATKRTTVSECAQKMKRNRIEQIPIINGNDKLIGLLRDHDLLK 95
>gnl|CDD|110632 pfam01645, Glu_synthase, Conserved region in glutamate synthase.
This family represents a region of the glutamate
synthase protein. This region is expressed as a separate
subunit in the glutamate synthase alpha subunit from
archaebacteria, or part of a large multidomain enzyme in
other organisms. The aligned region of these proteins
contains a putative FMN binding site and Fe-S cluster.
Length = 367
Score = 39.2 bits (92), Expect = 0.002
Identities = 31/90 (34%), Positives = 43/90 (47%), Gaps = 16/90 (17%)
Query: 288 ALALIDAGADIIKV-------GIGPGSICTTRVVTGVGCPQLSAIMSV----VEVAERAG 336
A + AGADII + G P + + G P A+ V VE R
Sbjct: 219 AAGVAKAGADIILIDGHDGGTGASPKTS-----IKHAGLPWELALAEVHQTLVENGLRDR 273
Query: 337 VAIVADGGIRFSGDIAKAIAAGSACVMIGS 366
V+++ADGG+R D+AKA A G+ V IG+
Sbjct: 274 VSLIADGGLRTGADVAKAAALGADAVYIGT 303
>gnl|CDD|73398 cd04736, MDH_FMN, Mandelate dehydrogenase (MDH)-like FMN-binding
domain. MDH is part of a widespread family of
homologous FMN-dependent a-hydroxy acid oxidizing
enzymes that oxidizes (S)-mandelate to phenylglyoxalate.
MDH is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate. This family occurs in both
prokaryotes and eukaryotes. Members of this family
include flavocytochrome b2 (FCB2), glycolate oxidase
(GOX), lactate monooxygenase (LMO), mandelate
dehydrogenase (MDH), and long chain hydroxyacid oxidase
(LCHAO)..
Length = 361
Score = 38.4 bits (89), Expect = 0.004
Identities = 28/107 (26%), Positives = 48/107 (44%), Gaps = 18/107 (16%)
Query: 263 DAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQL 322
+ ++ +P L++ G I TAE A I+ GAD + +++ G QL
Sbjct: 226 QDLRWLRDLWPHKLLVKG-IVTAEDAKRCIELGADGV-------------ILSNHGGRQL 271
Query: 323 SAIMSVVEV----AERAGVAIVADGGIRFSGDIAKAIAAGSACVMIG 365
++ +E ++ D GIR DI KA+A G+ V++G
Sbjct: 272 DDAIAPIEALAEIVAATYKPVLIDSGIRRGSDIVKALALGANAVLLG 318
>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 = 38.3 bits (89), Expect = 0.005
Identities = 22/118 (18%), Positives = 51/118 (43%), Gaps = 15/118 (12%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILT---------NRDVRFASNAQ 152
PVT+ P T A+A+ ++K+ +PVV+ GK++G++T + V+ +
Sbjct: 4 PVTVLPTVTCAEAIEILKEKGFDQLPVVDES-GKILGMVTLGNLLSSLSSGKVQPSDPVS 62
Query: 153 QAVGELM-----TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+A+ + L + + + + + + + + IG++T D+
Sbjct: 63 KALYKQFKRVNKNDTLGKLSRILETDAFLLVFFEQISSAAIGKEKQEKPIGIVTKIDL 120
Score = 36.0 bits (83), Expect = 0.026
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 164 ITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERSQLNPNATKDSK 219
+TV TV A +L + ++L VVD+ G +G++T+ ++ S +
Sbjct: 5 VTVLPTVTCAEAIEILKEKGFDQLPVVDESGKILGMVTLGNLLSSLSSGKVQPSDP 60
>gnl|CDD|73383 cd03332, LMO_FMN, L-Lactate 2-monooxygenase (LMO) FMN-binding
domain. LMO is a FMN-containing enzyme that catalyzes
the conversion of L-lactate and oxygen to acetate,
carbon dioxide, and water. LMO is a member of the family
of alpha-hydroxy acid oxidases. It is thought to be a
homooctamer with two- and four- fold axes in the center
of the octamer..
Length = 383
Score = 38.3 bits (89), Expect = 0.005
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 7/84 (8%)
Query: 282 IATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVA 341
I + A ++AG D + V G R V G L A+ +VE A + ++
Sbjct: 261 ILHPDDARRAVEAGVDGVVVSNHGG-----RQVDG-SIAALDALPEIVE-AVGDRLTVLF 313
Query: 342 DGGIRFSGDIAKAIAAGSACVMIG 365
D G+R DI KA+A G+ V+IG
Sbjct: 314 DSGVRTGADIMKALALGAKAVLIG 337
>gnl|CDD|73124 cd04625, CBS_pair_12, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase)..
Length = 112
Score = 37.9 bits (88), Expect = 0.006
Identities = 28/111 (25%), Positives = 55/111 (49%), Gaps = 9/111 (8%)
Query: 104 TISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV------RFASNAQQAVGE 157
T++P L++A+A M + + + V+E G+LVG+LT R+V A V
Sbjct: 5 TVAPETLLSEAVATMAEQDLGSLVVMER--GELVGLLTFREVLQAMAQHGAGVLDTTVRA 62
Query: 158 LMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208
+M I +++ + L+ + + L V+ D G +G+I+ D+ ++
Sbjct: 63 IMNPEPIVASPDDSIDEVRRLMVERHLRYLPVL-DGGTLLGVISFHDVAKA 112
Score = 30.6 bits (69), Expect = 1.1
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
M P+ SP ++ + LM + + +PV+ D G L+G+++ DV
Sbjct: 64 MNPEPIVASPDDSIDEVRRLMVERHLRYLPVL--DGGTLLGVISFHDV 109
>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 = 37.6 bits (87), Expect = 0.008
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 125 GIPVVESDVGKLVGILTNRD-VRFASNAQQ-----AVGELMTRNLITVKKTVNLENAKAL 178
+ VV GKL G+LT D VR V +MTR +++ + L + +
Sbjct: 25 DLVVVCDPHGKLAGVLTKTDVVRQMGRCGGPGCTAPVENVMTRAVVSCRPGDLLHDVWQV 84
Query: 179 LHQHRIEKLLVVDDDGCCIGLITVKD 204
+ Q ++ + VVD++ +G++ +D
Sbjct: 85 MKQRGLKNIPVVDENARPLGVLNARD 110
Score = 27.6 bits (61), Expect = 7.1
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 95 ESGMVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
E+ M V+ P L D +MK+ + IPVV+ + + +G+L RD
Sbjct: 62 ENVMTRAVVSCRPGDLLHDVWQVMKQRGLKNIPVVDEN-ARPLGVLNARDA 111
>gnl|CDD|32827 COG3010, NanE, Putative N-acetylmannosamine-6-phosphate epimerase
[Carbohydrate transport and metabolism].
Length = 229
Score = 37.5 bits (87), Expect = 0.008
Identities = 34/132 (25%), Positives = 52/132 (39%), Gaps = 11/132 (8%)
Query: 236 DRVGPLFDVNVDLVVVD-TAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDA 294
V L + D++ D T L+ ++ K +P L MA + +T E L
Sbjct: 89 KEVDALAEAGADIIAFDATDRPRPDGDLEELIARIK-YPGQLAMA-DCSTFEEGLNAHKL 146
Query: 295 GADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKA 354
G DII G+ T TG +V+ AG ++A+G KA
Sbjct: 147 GFDII------GT--TLSGYTGYTEKPTEPDFQLVKQLSDAGCRVIAEGRYNTPEQAKKA 198
Query: 355 IAAGSACVMIGS 366
I G+ V++GS
Sbjct: 199 IEIGADAVVVGS 210
>gnl|CDD|29938 cd00452, KDPG_aldolase, KDPG and KHG aldolase. This family belongs
to the class I adolases whose reaction mechanism
involves Schiff base formation between a substrate
carbonyl and lysine residue in the active site.
2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is
best known for its role in the Entner-Doudoroff pathway
of bacteria, where it catalyzes the reversible cleavage
of KDPG to pyruvate and glyceraldehyde-3-phosphate.
2-keto-4-hydroxyglutarate (KHG) aldolase, which has
enzymatic specificity toward glyoxylate, forming KHG in
the presence of pyruvate, and is capable of regulating
glyoxylate levels in the glyoxylate bypass, an alternate
pathway when bacteria are grown on acetate carbon
sources..
Length = 190
Score = 37.4 bits (87), Expect = 0.009
Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 22/107 (20%)
Query: 258 SQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGV 317
+ L+A+ ++K FP L+ AG + T E A A I AGA I + PG
Sbjct: 39 TPGALEAIRALRKEFPEALIGAGTVLTPEQADAAIAAGAQFI---VSPG---LDP----- 87
Query: 318 GCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMI 364
VV+ A RAG+ ++ G+ +I +A+ G+ V +
Sbjct: 88 ---------EVVKAANRAGIPLLP--GVATPTEIMQALELGADIVKL 123
>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 = 37.1 bits (86), Expect = 0.010
Identities = 34/126 (26%), Positives = 55/126 (43%), Gaps = 19/126 (15%)
Query: 100 VNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD------VRFASNAQQ 153
V P+ I ++ +AL LM K+ + + VV+SD +G++T D ++
Sbjct: 1 VKPIVIPADTSIDEALELMIKHGVRLLLVVDSD-DNFIGVITAVDLLGEEPIKRIQEGGI 59
Query: 154 AVGELMTRNLITVK------KTVNLENAK-----ALLHQHRIEKLLVVDDDGCCI-GLIT 201
+ EL +++T K LENA L + LVVD + I G+I+
Sbjct: 60 SRSELTVADVMTPKEDLKALDLEELENASVGDVVETLKASGRQHALVVDREHHQIRGIIS 119
Query: 202 VKDIER 207
DI R
Sbjct: 120 TSDIAR 125
>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 = 36.8 bits (85), Expect = 0.013
Identities = 30/106 (28%), Positives = 50/106 (47%), Gaps = 9/106 (8%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVES--DVGKLVGILTNRDVRFASNAQQAVGELM 159
V + T+ D +L+ S +G PVV+S + +LVG + + A + +
Sbjct: 4 VVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEESPRLVGYILRSQLVVA------LKNYI 57
Query: 160 TRNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDI 205
+ TV +LE L + + LLVVD+ G +G+IT KD+
Sbjct: 58 DPSPFTVSPRTSLEKVHQLFRKLGLRHLLVVDE-GRLVGIITRKDL 102
Score = 32.9 bits (75), Expect = 0.18
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 98 MVVNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFA 148
+ +P T+SP +L L +K + + VV D G+LVGI+T +D+ A
Sbjct: 57 IDPSPFTVSPRTSLEKVHQLFRKLGLRHLLVV--DEGRLVGIITRKDLLKA 105
>gnl|CDD|31143 COG0800, Eda, 2-keto-3-deoxy-6-phosphogluconate aldolase
[Carbohydrate transport and metabolism].
Length = 211
Score = 36.7 bits (85), Expect = 0.014
Identities = 34/140 (24%), Positives = 48/140 (34%), Gaps = 38/140 (27%)
Query: 262 LDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVT---GVG 318
L+A+ + K FP L+ AG + E A I AGA I + PG V G
Sbjct: 52 LEAIRALAKEFPEALIGAGTVLNPEQARQAIAAGAQFI---VSPG--LNPEVAKAANRYG 106
Query: 319 CPQLSAIMSVVEV--AERAG---------------------------VAIVADGGIRFSG 349
P + + + E+ A G V GG+
Sbjct: 107 IPYIPGVATPTEIMAALELGASALKFFPAEVVGGPAMLKALAGPFPQVRFCPTGGVSLD- 165
Query: 350 DIAKAIAAGSACVMIGSLLA 369
+ A +AAG V +GS L
Sbjct: 166 NAADYLAAGVVAVGLGSWLV 185
>gnl|CDD|73373 cd02811, IDI-2_FMN, Isopentenyl-diphosphate:dimethylallyl
diphosphate isomerase type 2 (IDI-2) FMN-binding domain.
Two types of IDIs have been characterized at present.
The long known IDI-1 is only dependent on divalent
metals for activity, whereas IDI-2 requires a metal, FMN
and NADPH. IDI-2 catalyzes the interconversion of
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP) in the mevalonate pathway..
Length = 326
Score = 36.2 bits (84), Expect = 0.021
Identities = 36/135 (26%), Positives = 54/135 (40%), Gaps = 21/135 (15%)
Query: 259 QKVLDAVVQIKK--NFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRV--- 313
+ L+ + ++ K + P ++ G + E A L DAG I V G G RV
Sbjct: 164 RGWLERIEELVKALSVPVIVKEVGFGISRETAKRLADAGVKAIDVA-GAGGTSWARVENY 222
Query: 314 ------------VTGVGCPQLSAIMSVVEVAERAGVAIVADGGIRFSGDIAKAIAAGSAC 361
G P ++++ V + ++A GGIR DIAKA+A G+
Sbjct: 223 RAKDSDQRLAEYFADWGIPTAASLLEVRSALP--DLPLIASGGIRNGLDIAKALALGADL 280
Query: 362 V-MIGSLLAGTDESP 375
V M G L E
Sbjct: 281 VGMAGPFLKAALEGE 295
>gnl|CDD|35758 KOG0538, KOG0538, KOG0538, Glycolate oxidase [Energy production and
conversion].
Length = 363
Score = 35.6 bits (82), Expect = 0.029
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 19/98 (19%)
Query: 274 SLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEV-- 331
L ++ + T E A ++AG I +V+ G QL + + +E
Sbjct: 223 KLPIVVKGVLTGEDARKAVEAGVAGI-------------IVSNHGGRQLDYVPATIEALP 269
Query: 332 ----AERAGVAIVADGGIRFSGDIAKAIAAGSACVMIG 365
A + + DGG+R D+ KA+A G+ V IG
Sbjct: 270 EVVKAVEGRIPVFLDGGVRRGTDVLKALALGAKGVFIG 307
>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 = 35.3 bits (81), Expect = 0.041
Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 102 PVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQA-----VG 156
P +S L +A + + VV+ D G +VGI+T D+ A A +A V
Sbjct: 3 PPVLSATTPLREAAEQLIESKHGSALVVDRD-GGVVGIITLPDLLRALEADEAGEPSAVD 61
Query: 157 ELMTRNLITVKKTVNLENAKALLHQHRIEKLLVVDDD--GCCIGLITVKDIERS 208
E+ T L+TV L +A + + +L VVD G +GL+T +++ +
Sbjct: 62 EVATPPLLTVHPDEPLAHALDRMASRGLRQLPVVDRGNPGQVLGLLTRENVLLA 115
>gnl|CDD|144709 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 34.9 bits (81), Expect = 0.045
Identities = 27/114 (23%), Positives = 38/114 (33%), Gaps = 24/114 (21%)
Query: 279 AGNIATAEGALALIDAGADIIKVGIGPGSIC---TTRVVTGVGCPQLSAIMSVVEVAERA 335
AG + E A I DI G I T G L + + +A
Sbjct: 106 AGKL-DLEDLEAAIRPVGDIHFPPTG--LISLENTHNSAGGQ-VVSLEELREIRAIAREH 161
Query: 336 GVAIVADGGIRF------SGDIAKAIAAG----------SACVMIGSLLAGTDE 373
G+ + DG R G I K I + +GS+LAG+D+
Sbjct: 162 GIPLHLDGA-RLANAAVALGVIVKEITSYADSVSMSLSKGLGAPVGSVLAGSDD 214
>gnl|CDD|73117 cd04618, CBS_pair_5, 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 = 98
Score = 34.8 bits (80), Expect = 0.052
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDV 145
V+I P +L DA L+ K I +PV++ G + ILT+R +
Sbjct: 53 VSIHPERSLFDAALLLLKNKIHRLPVIDPSTGTGLYILTSRRI 95
Score = 31.3 bits (71), Expect = 0.55
Identities = 21/94 (22%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 114 ALALMKKYSISGIPVVESDVGKLVGILTNRDVRFASNAQQAVGELMTRNLITVKKTVNLE 173
A + + I P+ +S + VG+LT D ++ L+++ +L
Sbjct: 15 AFNALVENGIRSAPLWDSRKQQFVGMLTITDF------------ILILRLVSIHPERSLF 62
Query: 174 NAKALLHQHRIEKLLVVD-DDGCCIGLITVKDIE 206
+A LL +++I +L V+D G + ++T + I
Sbjct: 63 DAALLLLKNKIHRLPVIDPSTGTGLYILTSRRIL 96
>gnl|CDD|29940 cd00945, Aldolase_Class_I, Class I aldolases. The class I aldolases
use an active-site lysine which stablilzes a reaction
intermediates via Schiff base formation, and have TIM
beta/alpha barrel fold. The members of this family
include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and
2-keto-4-hydroxyglutarate (KHG) aldolases,
transaldolase, dihydrodipicolinate synthase sub-family,
Type I 3-dehydroquinate dehydratase, DeoC and DhnA
proteins, and metal-independent
fructose-1,6-bisphosphate aldolase. Although
structurally similar, the class II aldolases use a
different mechanism and are believed to have an
independent evolutionary origin..
Length = 201
Score = 34.6 bits (79), Expect = 0.060
Identities = 26/93 (27%), Positives = 34/93 (36%), Gaps = 13/93 (13%)
Query: 273 PSLLVMAGNIATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVA 332
L A IA A A +AGAD IK G G T + + + E
Sbjct: 122 TRGLKTADEIAKA--ARIAAEAGADFIKTSTGFGGGGAT----------VEDVKLMKEAV 169
Query: 333 ERAGVAIVADGGIRFSGDIAKAIAAGSACVMIG 365
V + A GGI+ D AI AG+ +
Sbjct: 170 -GGRVGVKAAGGIKTLEDALAAIEAGADGIGTS 201
>gnl|CDD|34182 COG4535, CorC, Putative Mg2+ and Co2+ transporter CorC [Inorganic
ion transport and metabolism].
Length = 293
Score = 34.1 bits (78), Expect = 0.090
Identities = 43/176 (24%), Positives = 79/176 (44%), Gaps = 27/176 (15%)
Query: 103 VTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRD-VRF-ASNAQQAVGELMT 160
+T+ TL + L ++ + + S PV+ D + GIL +D + F S+A+ + +
Sbjct: 80 ITLKRNQTLDECLDVIIESAHSRFPVISEDKDHVEGILLAKDLLPFMRSDAEPFDIKELL 139
Query: 161 RNLITVKKTVNLENAKALLHQHRIEK---LLVVDDDGCCIGLITVKDI------------ 205
R + V ++ ++ LL + R ++ +V+D+ G GL+T++DI
Sbjct: 140 RPAVVVPESKRVD---RLLKEFRSQRNHMAIVIDEFGGVSGLVTIEDILEQIVGDIEDEY 196
Query: 206 -ERSQLNPNATKDSKGRLRVAAAVSVAKDIADRVGPLF-DVNVDLV--VVDTAHGH 257
E + S+ RV A + +D + G F D VD + +V A GH
Sbjct: 197 DEEEDADIRQL--SRHTWRVRALTEI-EDFNEAFGTHFSDEEVDTIGGLVMQAFGH 249
>gnl|CDD|146945 pfam04551, GcpE, GcpE protein. In a variety of organisms,
including plants and several eubacteria, isoprenoids are
synthesized by the mevalonate-independent
2-C-methyl-D-erythritol 4-phosphate (MEP) pathway.
Although different enzymes of this pathway have been
described, the terminal biosynthetic steps of the MEP
pathway have not been fully elucidated. GcpE gene of
Escherichia coli is involved in this pathway.
Length = 345
Score = 34.0 bits (79), Expect = 0.10
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 19/83 (22%)
Query: 283 ATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVAD 342
AT L +AG DI++ V P + A ++ E+ +++ + +VAD
Sbjct: 32 ATVAQIKRLEEAGCDIVR----------------VAVPDMEAAEALKEIKKQSPIPLVAD 75
Query: 343 GGIRFSGDIA-KAIAAGSACVMI 364
I F +A +AI AG + I
Sbjct: 76 --IHFDYRLALEAIEAGVDKIRI 96
>gnl|CDD|145121 pfam01791, DeoC, DeoC/LacD family aldolase. This family includes
diverse aldolase enzymes. This family includes the
enzyme deoxyribose-phosphate aldolase EC:4.1.2.4, which
is involved in nucleotide metabolism. The family also
includes a group of related bacterial proteins of
unknown function. The family also includes tagatose
1,6-diphosphate aldolase (EC:4.1.2.40) is part of the
tagatose-6-phosphate pathway of galactose-6-phosphate
degradation.
Length = 231
Score = 32.7 bits (75), Expect = 0.25
Identities = 20/77 (25%), Positives = 27/77 (35%), Gaps = 13/77 (16%)
Query: 283 ATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVAD 342
A+ +AGAD +K G G T + EV A + A
Sbjct: 145 LVAKATRVGAEAGADFVKTSTGFGERGAT----------EEDVQIFKEVVGGAPPGVKAS 194
Query: 343 GGIR---FSGDIAKAIA 356
GGI+ F + AIA
Sbjct: 195 GGIKEKDFLRTVEDAIA 211
>gnl|CDD|73394 cd04732, HisA, HisA. Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase catalyzes
the fourth step in histidine biosynthesis, an
isomerisation of the aminoaldose moiety of ProFAR to the
aminoketose of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene..
Length = 234
Score = 32.4 bits (74), Expect = 0.32
Identities = 33/145 (22%), Positives = 60/145 (41%), Gaps = 20/145 (13%)
Query: 236 DRVGPLFDVNVDLVVVDTAHGHSQKVLDAVVQIKKNFPSLLVMA------GNIAT----A 285
+ + L D+ V V++ TA + K + V ++ K + ++ G +AT
Sbjct: 86 EDIERLLDLGVSRVIIGTA---AVKNPELVKELLKEYGGERIVVGLDAKDGKVATKGWLE 142
Query: 286 EGALALIDAGADIIKVGIGPGSICT--TRVVTGVGCPQLSAIMSVVEVAERAGVAIVADG 343
++L + ++G+ I T +R T G P E+A G+ ++A G
Sbjct: 143 TSEVSLEELAKRFEELGVK-AIIYTDISRDGTLSG-PNFELY---KELAAATGIPVIASG 197
Query: 344 GIRFSGDIAKAIAAGSACVMIGSLL 368
G+ DI G A V++G L
Sbjct: 198 GVSSLDDIKALKELGVAGVIVGKAL 222
Score = 27.4 bits (61), Expect = 8.5
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 330 EVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSL 367
E+ + G+ + GGIR DI + + G + V+IG+
Sbjct: 67 EIVKAVGIPVQVGGGIRSLEDIERLLDLGVSRVIIGTA 104
>gnl|CDD|110106 pfam01081, Aldolase, KDPG and KHG aldolase. This family includes
the following members: 4-hydroxy-2-oxoglutarate aldolase
(KHG-aldolase) Phospho-2-dehydro-3-deoxygluconate
aldolase (KDPG-aldolase).
Length = 196
Score = 31.7 bits (72), Expect = 0.50
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 7/92 (7%)
Query: 217 DSKGRLRVAAAVSVAKDIADRVGPLFDVNVD--LVVVDTAHGHSQKVLDAVVQIKKNFPS 274
+S R V V KD D + PL + + V++ + LDA+ ++KN P
Sbjct: 2 ESILREAKIVPVIVIKDKEDAL-PLAEALAAGGIRVLEVTL-RTPCALDAIRLLRKNRPD 59
Query: 275 LLVMAGNIATAEGALALIDAGADIIKVGIGPG 306
LV AG + A+ +AGA + + PG
Sbjct: 60 ALVGAGTVLNAQQLAEAAEAGAQFV---VSPG 88
>gnl|CDD|31001 COG0656, ARA1, Aldo/keto reductases, related to diketogulonate
reductase [General function prediction only].
Length = 280
Score = 31.0 bits (70), Expect = 0.78
Identities = 28/129 (21%), Positives = 50/129 (38%), Gaps = 21/129 (16%)
Query: 65 AMAQAGGLGVIHR----NFSPSEQVAQVHQVKKFESGMVVNPVTISPYATLADALALMKK 120
A+ + G+I NF E + ++ + K + VN + PY + L ++
Sbjct: 125 ALEELVDEGLIRAIGVSNFGV-EHLEELLSLAKVK--PAVNQIEYHPYLRQPELLPFCQR 181
Query: 121 YSISGIPVVE-SDVGKLVGILTNRDVRF------ASNAQQAVGELMTRNLITVKKTVN-- 171
+ GI V S + K +L N + + AQ A+ + R +I + K+
Sbjct: 182 H---GIAVEAYSPLAKGGKLLDNPVLAEIAKKYGKTPAQVALRWHIQRGVIVIPKSTTPE 238
Query: 172 --LENAKAL 178
EN A
Sbjct: 239 RIRENLAAF 247
>gnl|CDD|73376 cd02922, FCB2_FMN, Flavocytochrome b2 (FCB2) FMN-binding domain.
FCB2 (AKA L-lactate:cytochrome c oxidoreductase) is a
respiratory enzyme located in the intermembrane space of
fungal mitochondria which catalyzes the oxidation of
L-lactate to pyruvate. FCB2 also participates in a short
electron-transport chain involving cytochrome c and
cytochrome oxidase which ultimately directs the reducing
equivalents gained from L-lactate oxidation to oxygen,
yielding one molecule of ATP for every L-lactate
molecule consumed. FCB2 is composed of 2 domains: a
C-terminal flavin-binding domain, which includes the
active site for lacate oxidation, and an N-terminal
b2-cytochrome domain, required for efficient cytochrome
c reduction. FCB2 is a homotetramer and contains two
noncovalently bound cofactors, FMN and heme per
subunit..
Length = 344
Score = 30.9 bits (70), Expect = 0.88
Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 22/93 (23%)
Query: 282 IATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQL----SAIMSVVEVAERA-- 335
+ T E A+ + G D I V++ G QL + I ++E+ +
Sbjct: 221 VQTVEDAVLAAEYGVDGI-------------VLSNHGGRQLDTAPAPIEVLLEIRKHCPE 267
Query: 336 ---GVAIVADGGIRFSGDIAKAIAAGSACVMIG 365
+ + DGG+R D+ KA+ G+ V +G
Sbjct: 268 VFDKIEVYVDGGVRRGTDVLKALCLGAKAVGLG 300
>gnl|CDD|30516 COG0167, PyrD, Dihydroorotate dehydrogenase [Nucleotide transport
and metabolism].
Length = 310
Score = 30.6 bits (69), Expect = 0.93
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 16/124 (12%)
Query: 260 KVLDAVVQIKKNFPSLLVMAGNIAT-AEGALALIDAGAD----------IIKVGIGPGSI 308
K+L+AV P + +A NI E A A +AGAD +K+ +
Sbjct: 151 KLLEAVKA-ATKVPVFVKLAPNITDIDEIAKAAEEAGADGLIAINTTKSGMKIDLETKKP 209
Query: 309 CTTRVVTGVGCPQLS--AIMSVVEVAERAG--VAIVADGGIRFSGDIAKAIAAGSACVMI 364
G+ P L A+ V E+ +R G + I+ GGI D + I AG++ V +
Sbjct: 210 VLANETGGLSGPPLKPIALRVVAELYKRLGGDIPIIGVGGIETGEDALEFILAGASAVQV 269
Query: 365 GSLL 368
G+ L
Sbjct: 270 GTAL 273
>gnl|CDD|35696 KOG0475, KOG0475, KOG0475, Cl- channel CLC-3 and related proteins
(CLC superfamily) [Inorganic ion transport and
metabolism].
Length = 696
Score = 30.3 bits (68), Expect = 1.1
Identities = 43/203 (21%), Positives = 68/203 (33%), Gaps = 52/203 (25%)
Query: 47 LPIMSAAM--DQVTD--SRLAIAMAQAGGLGVIHRNFSPSEQV---------AQVHQVKK 93
LP+M A M + D + I A I N P V + +
Sbjct: 500 LPLMLAVMISKWIGDGLGKTGIYDAH------IELNGYPFLDSKSEFSSTLAIPVMEPCR 553
Query: 94 FESGMVVNPVTISPYATLADALALMKKYSISGIPVV-ESDVGKLVGILTNRDVRFASNAQ 152
ES ++V TL D +LM+ SG PVV D +LVG + R++ A
Sbjct: 554 SESCLIVITQD---SMTLEDLESLMEDTDFSGFPVVLSEDSQRLVGFVLRRNLFLAILNA 610
Query: 153 QAVGE----------------------------LMTRNLITVKKTVNLENAKALLHQHRI 184
+ + ++ TV +E L +
Sbjct: 611 RKIQSFIVTTSIYFNDPSPSAVAGIPSRLDLKDILDMTPFTVTDLTPMETV-VDLFRKLG 669
Query: 185 EKLLVVDDDGCCIGLITVKDIER 207
+ ++V +G +G+IT KD R
Sbjct: 670 LRQILVTKNGILLGIITKKDCLR 692
>gnl|CDD|31163 COG0821, GcpE, Enzyme involved in the deoxyxylulose pathway of
isoprenoid biosynthesis [Lipid metabolism].
Length = 361
Score = 30.5 bits (69), Expect = 1.1
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 19/83 (22%)
Query: 283 ATAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVAD 342
AT AL AG DI++V P + A ++ E+ +R V +VAD
Sbjct: 37 ATVAQIKALERAGCDIVRVT----------------VPDMEAAEALKEIKQRLNVPLVAD 80
Query: 343 GGIRFSGDIA-KAIAAGSACVMI 364
I F +A +A G V I
Sbjct: 81 --IHFDYRLALEAAECGVDKVRI 101
>gnl|CDD|31139 COG0796, MurI, Glutamate racemase [Cell envelope biogenesis, outer
membrane].
Length = 269
Score = 30.5 bits (69), Expect = 1.2
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 259 QKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGPG 306
++ L+ V + + LV+A N A+A AL + DI VG+ P
Sbjct: 54 ERTLEIVDFLLERGIKALVIACNTASAV-ALEDLREKFDIPVVGVIPA 100
>gnl|CDD|33977 COG4254, COG4254, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 339
Score = 30.0 bits (67), Expect = 1.4
Identities = 20/94 (21%), Positives = 32/94 (34%), Gaps = 1/94 (1%)
Query: 333 ERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLLAGTDESPGDIFLYQGRSFKSYRGM 392
AG +A G+R + K A SA ++ + R+ R +
Sbjct: 219 LDAGRRTLATLGVRPALPPVKGDARLSASILSMQGSQTISAAVEIKPTAPERAAPPERAL 278
Query: 393 GSVA-AMERGSSARYSQDGVTDVLKLVPEGIEGR 425
+ R S R S+ G+ K G +GR
Sbjct: 279 PASDPRPLRTFSNRPSKRGLDKGKKAKDTGYKGR 312
>gnl|CDD|143497 cd06824, PLPDE_III_Yggs_like, Pyridoxal 5-phosphate (PLP)-binding
TIM barrel domain of Type III PLP-Dependent Enzymes,
Yggs-like proteins. This subfamily contains mainly
uncharacterized proteobacterial proteins with similarity
to the hypothetical Escherichia coli protein YggS, a
homolog of yeast YBL036c, which is homologous to a
Pseudomonas aeruginosa gene that is co-transcribed with
a known proline biosynthetic gene. Like yeast YBL036c,
Yggs is a single domain monomeric protein with a typical
TIM-barrel fold. Its structure, which shows a
covalently-bound PLP cofactor, is similar to the
N-terminal domain of the fold type III PLP-dependent
enzymes, bacterial alanine racemase and eukaryotic
ornithine decarboxylase, which are two-domain dimeric
proteins. YggS has not been characterized extensively
and its biological function is still unkonwn.
Length = 224
Score = 29.9 bits (68), Expect = 1.5
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 348 SGDIAKAIAAGSACVMIGS 366
SGD+ AIAAGS V IG+
Sbjct: 201 SGDLEAAIAAGSTMVRIGT 219
>gnl|CDD|73374 cd02812, PcrB_like, PcrB_like proteins. One member of this family,
a protein from Archaeoglobus fulgidus, has been
characterized as a (S)-3-O-geranylgeranylglyceryl
phosphate synthase (AfGGGPS). AfGGGPS catalyzes the
formation of an ether linkage between
sn-glycerol-1-phosphate (G1P) and geranylgeranyl
diphosphate (GGPP), the committed step in archaeal lipid
biosynthesis. Therefore, it has been proposed that
PcrB-like proteins are either prenyltransferases or are
involved in lipoteichoic acid biosynthesis although the
exact function is still unknown..
Length = 219
Score = 29.4 bits (66), Expect = 2.0
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 263 DAVVQIKKNF-PSLLVMAGNIATAEGALALIDAGADIIKVG 302
+ V +KK + L++ G I + E A + +AGAD I VG
Sbjct: 164 EVVRAVKKVLGDTPLIVGGGIRSGEQAKEMAEAGADTIVVG 204
>gnl|CDD|73402 cd04740, DHOD_1B_like, Dihydroorotate dehydrogenase (DHOD) class 1B
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively..
Length = 296
Score = 29.7 bits (67), Expect = 2.1
Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 11/90 (12%)
Query: 288 ALALIDAGADII---------KVGIGPGSICTTRVVTGVGCPQLS--AIMSVVEVAERAG 336
A A +AGAD + + I V G+ P + A+ V +V +
Sbjct: 172 ARAAEEAGADGLTLINTLKGMAIDIETRKPILGNVTGGLSGPAIKPIALRMVYQVYKAVE 231
Query: 337 VAIVADGGIRFSGDIAKAIAAGSACVMIGS 366
+ I+ GGI D + + AG++ V +G+
Sbjct: 232 IPIIGVGGIASGEDALEFLMAGASAVQVGT 261
>gnl|CDD|35999 KOG0780, KOG0780, KOG0780, Signal recognition particle, subunit
Srp54 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 483
Score = 29.5 bits (66), Expect = 2.1
Identities = 27/100 (27%), Positives = 45/100 (45%), Gaps = 9/100 (9%)
Query: 209 QLNPNATKDS---KGRLRVAAAVSVAKDIADRVGPLFDVNVDLVVVDTAHGHSQK--VLD 263
QL NATK G A V +A + DR N D+++VDT+ H Q+ + +
Sbjct: 147 QLKQNATKARVPFYGSYTEADPVKIASEGVDRFK---KENFDVIIVDTSGRHKQEASLFE 203
Query: 264 AVVQIKKNF-PSLLVMAGNIATAEGALALIDAGADIIKVG 302
+ Q+ K P ++ + + + A A A + + VG
Sbjct: 204 EMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKETVDVG 243
>gnl|CDD|73401 cd04739, DHOD_like, Dihydroorotate dehydrogenase (DHOD) like
proteins. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
This subgroup has the conserved FMN binding site, but
lacks some catalytic residues and may therefore be
inactive..
Length = 325
Score = 29.4 bits (66), Expect = 2.7
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 334 RAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLL 368
R ++ A GG+ + D+ K + AG+ VM S L
Sbjct: 235 RVKASLAASGGVHDAEDVVKYLLAGADVVMTTSAL 269
>gnl|CDD|34183 COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic
ion transport and metabolism].
Length = 423
Score = 29.0 bits (65), Expect = 2.9
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 10/87 (11%)
Query: 126 IPVVESDVGKLVGILTNRDVRFASNAQQAVGELMTRNLIT----VKKTVNLENAKALLHQ 181
IP+ D+ ++G+L RD+ N + + V + L + L
Sbjct: 236 IPLYRDDLDNIIGVLHVRDLLRLLNEKNEFTKEDILRAADEPYFVPEGTPLSDQ---LVA 292
Query: 182 HRIEKL---LVVDDDGCCIGLITVKDI 205
+ K LVVD+ G GL+T++DI
Sbjct: 293 FQRNKKHIALVVDEYGDIQGLVTLEDI 319
>gnl|CDD|176259 cd08299, alcohol_DH_class_I_II_IV, class I, II, IV alcohol
dehydrogenases. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. This group includes alcohol
dehydrogenases corresponding to mammalian classes I, II,
IV. Alcohol dehydrogenase in the liver converts ethanol
and NAD+ to acetaldehyde and NADH, while in yeast and
some other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which have a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine (His-51), the
ribose of NAD, a serine (Ser-48) , then the alcohol,
which allows the transfer of a hydride to NAD+, creating
NADH and a zinc-bound aldehyde or ketone. In yeast and
some bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 373
Score = 28.8 bits (65), Expect = 3.0
Identities = 23/59 (38%), Positives = 26/59 (44%), Gaps = 21/59 (35%)
Query: 286 EGALALIDAGADIIKV---------GIG---------PGSICTTRVVTGVGCPQLSAIM 326
E A+A IDA A + KV G G PGS C V G+G LSAIM
Sbjct: 153 EIAVAKIDAAAPLEKVCLIGCGFSTGYGAAVNTAKVTPGSTC---AVFGLGGVGLSAIM 208
>gnl|CDD|73385 cd04723, HisA_HisF, Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase (HisA) and
the cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). The ProFAR isomerase catalyzes the
fourth step in histidine biosynthesis, an isomerisation
of the aminoaldose moiety of ProFAR to the aminoketose
of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene. The Imidazole glycerol phosphate synthase (IGPS)
catalyzes the fifth step of histidine biosynthesis, the
formation of the imidazole ring. IGPS converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria..
Length = 233
Score = 28.7 bits (64), Expect = 3.6
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 330 EVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLL 368
+A RA + ++A GG+R D+ G++ ++ S L
Sbjct: 183 RLAARADIPVIAAGGVRSVEDLELLKKLGASGALVASAL 221
>gnl|CDD|30673 COG0325, COG0325, Predicted enzyme with a TIM-barrel fold [General
function prediction only].
Length = 228
Score = 28.7 bits (64), Expect = 3.7
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 348 SGDIAKAIAAGSACVMIGSLLAG 370
S D AIA G+ V IG+ + G
Sbjct: 202 SNDYEIAIAEGATMVRIGTAIFG 224
>gnl|CDD|173951 cd08192, Fe-ADH7, Iron-containing alcohol dehydrogenases-like,
involved in the linear alkylbenzenesulfonate (LAS)
degradation pathway. NAD-dependent iron-containing
alcohol dehydrogenase-like. Proteins in this family are
NAD-dependent alcohol dehydrogenases which are involved
in the linear alkylbenzenesulfonate (LAS) degradation
pathway. They catalyze the oxidation of beta-hydroxy CoA
ester to beta-oxo CoA ester, which then be subject to
CoA-dependent thiolysis to yield acetyl-CoA and
6-C8-SPC-CoA. The major laundry surfactant in worldwide
use is commercial linear alkylbenzenesulfonate (LAS)
which contains 20 congeners of linear alkanes (C10 to
C13). LAS is fully biodegradable in oxic environments.
Degradation involves microbial communities. Parvibaculum
lavamentivorans DS-1T is a representative member of many
heterotrophic, LAS-degrading communities, in which it
catalyzes the first steps of LAS degradation. Strain
DS-1T is a small heterotrophic bacterium able to
omega-oxygenate the commercial surfactant linear
alkylbenzenesulfonate (LAS) and shorten the side chain
by beta-oxidation to yield sulfophenylcarboxylates
(SPC). Parvibaculum lavamentivorans utilizes 3-C12-LAS
as the sole carbon and energy source, and excretes
largely 4-C6-SPC.
Length = 370
Score = 28.7 bits (65), Expect = 3.8
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 311 TRVVTGVGCPQLSAIMSVVEVAERAGVA---IVADGGIRFSGDIAKAIAAGSACVMIGSL 367
TR+ G G AI + G+ IV D G+ G +A+ +A + +L
Sbjct: 3 TRIRFGAG-----AIKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAAL 57
Query: 368 LAGTDESP 375
+P
Sbjct: 58 FDEVPPNP 65
>gnl|CDD|145185 pfam01884, PcrB, PcrB family. This family contains proteins that
are related to PcrB. The function of these proteins is
unknown.
Length = 231
Score = 28.6 bits (64), Expect = 3.9
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 245 NVDLVVVDTAHGHSQKVLDAVVQIKKNFP-SLLVMAGNIATAEGALALIDAGADIIKVG 302
+ + ++ G V + V+ +KK + L++ G I + E A + AGAD+I G
Sbjct: 153 GMRIFYLEAGSGAPGPVPEEVIAVKKVLDDARLIVGGGIKSGEKAKEMARAGADVIVTG 211
>gnl|CDD|30455 COG0106, HisA, Phosphoribosylformimino-5-aminoimidazole carboxamide
ribonucleotide (ProFAR) isomerase [Amino acid transport
and metabolism].
Length = 241
Score = 28.6 bits (64), Expect = 4.3
Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 10/84 (11%)
Query: 284 TAEGALALIDAGADIIKVGIGPGSICTTRVVTGVGCPQLSAIMSVVEVAERAGVAIVADG 343
E A D GA+ + + + G + ++ E+ E V + G
Sbjct: 33 PLEVAKKWSDQGAEWLHL----------VDLDGAKAGGPRNLEAIKEILEATDVPVQVGG 82
Query: 344 GIRFSGDIAKAIAAGSACVMIGSL 367
GIR D+ + AG A V+IG+
Sbjct: 83 GIRSLEDVEALLDAGVARVIIGTA 106
Score = 28.2 bits (63), Expect = 5.8
Identities = 16/55 (29%), Positives = 28/55 (50%)
Query: 248 LVVVDTAHGHSQKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVG 302
LV +D A + L+A+ +I + + + G I + E AL+DAG + +G
Sbjct: 50 LVDLDGAKAGGPRNLEAIKEILEATDVPVQVGGGIRSLEDVEALLDAGVARVIIG 104
>gnl|CDD|73400 cd04738, DHOD_2_like, Dihydroorotate dehydrogenase (DHOD) class 2.
DHOD catalyzes the oxidation of (S)-dihydroorotate to
orotate. This is the fourth step and the only redox
reaction in the de novo biosynthesis of UMP, the
precursor of all pyrimidine nucleotides. DHOD requires
FMN as co-factor. DHOD divides into class 1 and class 2
based on their amino acid sequences, their cellular
location and their natural electron acceptor used to
reoxidize the flavin group. Members of class 1 are
cytosolic enzymes and multimers, while class 2 enzymes
are membrane associated, monomeric and use respiratory
quinones as their physiological electron acceptors..
Length = 327
Score = 28.5 bits (64), Expect = 4.6
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 275 LLVMAGNIATAEGALALIDAGADIIKV 301
++ G I++ E A I AGA ++++
Sbjct: 282 PIIGVGGISSGEDAYEKIRAGASLVQL 308
>gnl|CDD|31306 COG1109, {ManB}, Phosphomannomutase [Carbohydrate transport and
metabolism].
Length = 464
Score = 28.4 bits (63), Expect = 4.7
Identities = 17/83 (20%), Positives = 27/83 (32%), Gaps = 6/83 (7%)
Query: 189 VVDDDGCCIGLITVKDIERSQLNPNATKDSKGRL--RVAAAVSVAKDIADRVGPLFDVNV 246
DG I ++IE R+ + + L DV++
Sbjct: 115 FFGSDGGKISDDIEEEIEAILAEEVDLPRPSWGELGRLKRIPDALDRYIEFIKSLVDVDL 174
Query: 247 DL----VVVDTAHGHSQKVLDAV 265
L VVVD A+G + V +
Sbjct: 175 KLRGLKVVVDCANGAAGLVAPRL 197
>gnl|CDD|34006 COG4284, COG4284, UDP-glucose pyrophosphorylase [Carbohydrate
transport and metabolism].
Length = 472
Score = 28.4 bits (63), Expect = 5.0
Identities = 9/56 (16%), Positives = 21/56 (37%), Gaps = 2/56 (3%)
Query: 420 EGIEGRVPYKGPIASVLHQMSGGLKSSMGYVGASNIEEFQKKANFIRVSVAGLRES 475
EG G +A + ++GG + +G G + E + + + ++
Sbjct: 94 EGWGLLKIKLGKLAVLK--LAGGQGTRLGCDGPKGLFEVKDGKSLFDLQAEQIKYL 147
>gnl|CDD|144535 pfam00977, His_biosynth, Histidine biosynthesis protein. Proteins
involved in steps 4 and 6 of the histidine biosynthesis
pathway are contained in this family. Histidine is
formed by several complex and distinct biochemical
reactions catalysed by eight enzymes. The enzymes in
this Pfam entry are called His6 and His7 in eukaryotes
and HisA and HisF in prokaryotes. The structure of HisA
is known to be a TIM barrel fold. In some archaeal HisA
proteins the TIM barrel is composed of two tandem
repeats of a half barrel. This family belong to the
common phosphate binding site TIM barrel family.
Length = 229
Score = 28.2 bits (64), Expect = 5.2
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 330 EVAERAGVAIVADGGIRFSGDIAKAIAAGSACVMIGSLL 368
E+AE + ++A GG+ D+ + + G V+ GS L
Sbjct: 185 ELAEAVNIPVIASGGVGSLEDLKELFSEGVDGVIAGSAL 223
>gnl|CDD|107348 cd06353, PBP1_BmpA_Med_like, Periplasmic binding domain of the
basic membrane lipoprotein Med in Bacillus and its close
homologs from other bacteria and Archaea. Periplasmic
binding domain of the basic membrane lipoprotein Med in
Bacillus and its close homologs from other bacteria and
Archaea. Med, a cell-surface localized protein, which
regulates the competence transcription factor gene comK
in Bacillus subtilis, lacks the DNA binding domain when
compared with structures of transcription regulators
from the LacI family. Nevertheless, Med has significant
overall sequence homology to various periplasmic
substrate-binding proteins. Moreover, the structure of
Med shows a striking similarity to PnrA, a periplasmic
nucleoside binding protein of an ATP-binding cassette
transport system. Members of this group contain the type
I periplasmic sugar-binding protein-like fold.
Length = 258
Score = 28.3 bits (64), Expect = 5.4
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 285 AEGALALIDAGADII 299
E ALALID GAD+I
Sbjct: 169 KEAALALIDQGADVI 183
>gnl|CDD|31832 COG1646, COG1646, Predicted phosphate-binding enzymes, TIM-barrel
fold [General function prediction only].
Length = 240
Score = 28.3 bits (63), Expect = 5.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 274 SLLVMAGNIATAEGALALIDAGADIIKVG 302
+ L++ G I + E A + +AGAD I G
Sbjct: 192 TPLIVGGGIRSPEQAREMAEAGADTIVTG 220
>gnl|CDD|73397 cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN
binding domain, group 4. Each monomer of OYE contains
FMN as a non-covalently bound cofactor, uses NADPH as a
reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Other members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase..
Length = 353
Score = 28.2 bits (63), Expect = 5.5
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 276 LVMAGNIATAEGALALIDAGADIIKVG 302
L+ G+I T + AL ++ GAD++ +G
Sbjct: 287 LIAVGSINTPDDALEALETGADLVAIG 313
>gnl|CDD|144181 pfam00490, ALAD, Delta-aminolevulinic acid dehydratase.
Length = 322
Score = 27.8 bits (63), Expect = 6.4
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 25/61 (40%)
Query: 264 AVVQIKKNFPSLLVMA----------G-----------NIAT----AEGALALIDAGADI 298
A+ IK+ FP L+V+ G N T A+ AL+ +AGADI
Sbjct: 102 AIRAIKEAFPDLVVITDVCLCEYTSHGHCGILEDGEVDNDETLELLAKQALSHAEAGADI 161
Query: 299 I 299
+
Sbjct: 162 V 162
>gnl|CDD|73388 cd04726, KGPDC_HPS, 3-Keto-L-gulonate 6-phosphate decarboxylase
(KGPDC) and D-arabino-3-hexulose-6-phosphate synthase
(HPS). KGPDC catalyzes the formation of L-xylulose
5-phosphate and carbon dioxide from 3-keto-L-gulonate
6-phosphate as part of the anaerobic pathway for
L-ascorbate utilization in some eubacteria. HPS
catalyzes the formation of
D-arabino-3-hexulose-6-phosphate from D-ribulose
5-phosphate and formaldehyde in microorganisms that can
use formaldehyde as a carbon source. Both catalyze
reactions that involve the Mg2+-assisted formation and
stabilization of 1,2-enediolate reaction intermediates..
Length = 202
Score = 27.8 bits (62), Expect = 6.8
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 18/84 (21%)
Query: 262 LDAVVQIKKNFPSLLVMAGNIATAEGAL---ALIDAGADIIKVGIGPGSICTTRVVTGVG 318
++AV +++ FP +++A GAL AGADI VT +G
Sbjct: 41 MEAVRALREAFPDKIIVADLKTADAGALEAEMAFKAGADI---------------VTVLG 85
Query: 319 CPQLSAIMSVVEVAERAGVAIVAD 342
LS I V+ A++ G + D
Sbjct: 86 AAPLSTIKKAVKAAKKYGKEVQVD 109
>gnl|CDD|30848 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme
metabolism].
Length = 335
Score = 27.9 bits (62), Expect = 6.9
Identities = 22/92 (23%), Positives = 38/92 (41%), Gaps = 14/92 (15%)
Query: 259 QKVLDAVVQIKKNFPSLLVMAGNIATAEGALALIDAGADIIKVGIGP-----GSICTTRV 313
++V++A+ +K+ + + + T E A L DAG D + +I TTR
Sbjct: 118 EEVVEAIKAVKEELGLEVCASLGMLTEEQAEKLADAGVDRYNHNLETSPEFYENIITTR- 176
Query: 314 VTGVGCPQLSAIMSVVEVAERAGVAIVADGGI 345
++ +E AG+ V GGI
Sbjct: 177 -------TYEDRLNTLENVREAGIE-VCSGGI 200
>gnl|CDD|37546 KOG2335, KOG2335, KOG2335, tRNA-dihydrouridine synthase
[Translation, ribosomal structure and biogenesis].
Length = 358
Score = 27.9 bits (62), Expect = 7.0
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 262 LDAVVQIKKNFPSLLVMA-GNIATA-EGALALIDAGADIIKVGIG 304
+A+ +++N P + V+A GNI + + L GAD + G
Sbjct: 191 WEAIKAVRENVPDIPVIANGNILSLEDVERCLKYTGADGVMSARG 235
>gnl|CDD|144163 pfam00465, Fe-ADH, Iron-containing alcohol dehydrogenase.
Length = 312
Score = 27.6 bits (62), Expect = 7.7
Identities = 15/46 (32%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 320 PQLSAIMSVVEVAERAGV-AIVADGGIRFSG---DIAKAIAAGSAC 361
P L + A G I+A GG G D AKAIA
Sbjct: 63 PTLEEVDEAAAAAREEGADVIIAVGG----GSVIDTAKAIALLLTN 104
>gnl|CDD|163675 cd07937, DRE_TIM_PC_TC_5S, Pyruvate carboxylase and
Transcarboxylase 5S, carboxyltransferase domain. This
family includes the carboxyltransferase domains of
pyruvate carboxylase (PC) and the transcarboxylase (TC)
5S subunit. Transcarboxylase 5S is a cobalt-dependent
metalloenzyme subunit of the biotin-dependent
transcarboxylase multienzyme complex. Transcarboxylase
5S transfers carbon dioxide from the 1.3S biotin to
pyruvate in the second of two carboxylation reactions
catalyzed by TC. The first reaction involves the
transfer of carbon dioxide from methylmalonyl-CoA to the
1.3S biotin, and is catalyzed by the 12S subunit. These
two steps allow a carboxylate group to be transferred
from oxaloacetate to propionyl-CoA to yield pyruvate and
methylmalonyl-CoA. The catalytic domain of
transcarboxylase 5S has a canonical TIM-barrel fold with
a large C-terminal extension that forms a funnel leading
to the active site. Transcarboxylase 5S forms a
homodimer and there are six dimers per complex. In
addition to the catalytic domain, transcarboxylase 5S
has several other domains including a
carbamoyl-phosphate synthase domain, a biotin
carboxylase domain, a carboxyltransferase domain, and an
ATP-grasp domain. Pyruvate carboxylase, like TC, is a
biotin-dependent enzyme that catalyzes the carboxylation
of pyruvate to produce oxaloacetate. In mammals, PC has
critical roles in gluconeogenesis, lipogenesis,
glyceroneogenesis, and insulin secretion. Inherited PC
deficiencies are linked to serious diseases in humans
such as lactic acidemia, hypoglycemia, psychomotor
retardation, and death. PC is a single-chain enzyme and
is active only in its homotetrameric form. PC has three
domains, an N-terminal biotin carboxylase domain, a
carboxyltransferase domain (this alignment model), and a
C-terminal biotin-carboxyl carrier protein domain. This
family belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 275
Score = 27.8 bits (63), Expect = 7.8
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 289 LALIDAGADIIKVGIGPGSICT 310
LA +AG DI+ I P S T
Sbjct: 211 LAAAEAGVDIVDTAISPLSGGT 232
>gnl|CDD|173946 cd08187, BDH, Butanol dehydrogenase catalyzes the conversion of
butyraldehyde to butanol with the cofactor NAD(P)H being
oxidized in the process. The butanol dehydrogenase
(BDH) is involved in the final step of the butanol
formation pathway in anaerobic micro-organism. Butanol
dehydrogenase catalyzes the conversion of butyraldehyde
to butanol with the cofactor NAD(P)H being oxidized in
the process. Activity in the reverse direction was
50-fold lower than that in the forward direction. The
NADH-BDH had higher activity with longer chained
aldehydes and was inhibited by metabolites containing an
adenine moiety. This protein family belongs to the
so-called iron-containing alcohol dehydrogenase
superfamily. Since members of this superfamily use
different divalent ions, preferentially iron or zinc, it
has been suggested to be renamed to family III
metal-dependent polyol dehydrogenases.
Length = 382
Score = 27.4 bits (62), Expect = 8.2
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 320 PQLSAIMSVVEVAERAGV-AIVADGGIRFSG---DIAKAIAAGSAC 361
P+L + +E+ + V I+A GG G D AKAIAAG+
Sbjct: 70 PRLETVREGIELCKEEKVDFILAVGG----GSVIDSAKAIAAGAPY 111
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
0.318 0.134 0.371
Gapped
Lambda K H
0.267 0.0826 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,481,612
Number of extensions: 292520
Number of successful extensions: 1379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1188
Number of HSP's successfully gapped: 282
Length of query: 493
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 395
Effective length of database: 4,146,055
Effective search space: 1637691725
Effective search space used: 1637691725
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.3 bits)