RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1056
(590 letters)
>gnl|CDD|215154 PLN02274, PLN02274, inosine-5'-monophosphate dehydrogenase.
Length = 505
Score = 518 bits (1336), Expect = e-180
Identities = 240/520 (46%), Positives = 319/520 (61%), Gaps = 75/520 (14%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAG 149
DLS+ L++ I L+ P VSSPMDTVTESDMAIAMA GGIG
Sbjct: 42 DLSTRLSRNIPLSIPCVSSPMDTVTESDMAIAMAALGGIG-------------------- 81
Query: 150 VDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGSHG 209
I+ + Q +++ K V V + + +D
Sbjct: 82 ----IVHYNNTAE-EQAAIVRKAKSRRVGF-VSDPVVKSPSSTISSLDE--------LKA 127
Query: 210 CHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISL 269
GF VTE G +G KLLG VT RD DF+ + + K+ +VMT+ +++++A AGI L
Sbjct: 128 SRGFSSVCVTETGTMGSKLLGYVTKRDWDFVNDR---ETKLSEVMTSDDDLVTAPAGIDL 184
Query: 270 EEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSK---DENNQLIVGAAIG 326
EEA +L+ SKKGKLP++N+ GEL+ L+ RTD+K+ + YP K ++ +L+VGAAIG
Sbjct: 185 EEAEAVLKDSKKGKLPLVNEDGELVDLVTRTDVKRVKGYPKLGKPSVGKDGKLLVGAAIG 244
Query: 327 TREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPR 386
TRE+DK RL+ L +AGVDVV+LDSSQG+SIYQ+EMIK+IKK YP++ VIGGNV+ YQ +
Sbjct: 245 TRESDKERLEHLVKAGVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVIGGNVVTMYQAQ 304
Query: 387 ATLLNFIYQIEMIKFIKKEYPDMQV---------------IGR-NGTAVYRVAEYASRRG 430
I+ ++V +GR TAVY+VA A++ G
Sbjct: 305 -------------NLIQAGVDGLRVGMGSGSICTTQEVCAVGRGQATAVYKVASIAAQHG 351
Query: 431 VPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLE 490
VPVIADGG+ + GH++KAL LGAST MMGS LAGT+EAPGEYF+ DGVR+KKYRGMGSLE
Sbjct: 352 VPVIADGGISNSGHIVKALTLGASTVMMGSFLAGTTEAPGEYFYQDGVRVKKYRGMGSLE 411
Query: 491 AMSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAK 550
AM++ D+ + + KLK+AQGVSGA+ DKGSVL+F+PY +K G QD+GA
Sbjct: 412 AMTK------GSDQRYLGDTAKLKIAQGVSGAVADKGSVLKFVPYTMQAVKQGFQDLGAS 465
Query: 551 SLSNLRAMMYSGELKFEKRTLCAQNEGSVHGLYSYEKRLF 590
SL + ++ SG L+ E RT AQ EG VHGL SYEK+ F
Sbjct: 466 SLQSAHELLRSGTLRLEVRTGAAQVEGGVHGLVSYEKKAF 505
Score = 227 bits (580), Expect = 2e-67
Identities = 105/247 (42%), Positives = 135/247 (54%), Gaps = 52/247 (21%)
Query: 1 IIHHNCTPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGK 60
I+H+N T E QA V K K + GF+ DPV +PS+T+ + ++K GF VTE G
Sbjct: 82 IVHYNNTAEEQAAIVRKAKSRRVGFVSDPVVKSPSSTISSLDELKASRGFSSVCVTETGT 141
Query: 61 LGEKLLGIVTSRDVDFLENSANMDLKIEKDLSSPLTKKITLAAPLVSSPMDT-------- 112
+G KLLG VT RD DF+ D + L++ +T LV++P
Sbjct: 142 MGSKLLGYVTKRDWDFV-----------NDRETKLSEVMTSDDDLVTAPAGIDLEEAEAV 190
Query: 113 -----------VTESDMAIAMALCGGI----------------------GAAIGTREADK 139
V E + + + GAAIGTRE+DK
Sbjct: 191 LKDSKKGKLPLVNEDGELVDLVTRTDVKRVKGYPKLGKPSVGKDGKLLVGAAIGTRESDK 250
Query: 140 YRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAG 199
RL+ L +AGVDVV+LDSSQG+SIYQ+EMIKYIKK YP++ VIGGNVVT QA+NLI AG
Sbjct: 251 ERLEHLVKAGVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVIGGNVVTMYQAQNLIQAG 310
Query: 200 VDGLRVG 206
VDGLRVG
Sbjct: 311 VDGLRVG 317
>gnl|CDD|240355 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 512 bits (1322), Expect = e-178
Identities = 233/508 (45%), Positives = 317/508 (62%), Gaps = 61/508 (12%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAG 149
DLS+ LT+ I L P+VSSPMDTVTE MAIAMAL GGIG ++
Sbjct: 38 DLSTRLTRNIRLKIPIVSSPMDTVTEHKMAIAMALMGGIGVIHNNCSIEE---------- 87
Query: 150 VDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGSHG 209
Q+E ++ +K+ + + ++ V++ + + +
Sbjct: 88 ---------------QVEEVRKVKR-FENGFIMDPYVLSPNHTVADVLEIKEKK------ 125
Query: 210 CHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISL 269
GF +T +GK+G KLLGIVTSRD+DF+++ + + +VMT +++ ISL
Sbjct: 126 --GFSSILITVDGKVGGKLLGIVTSRDIDFVKDKS---TPVSEVMTPREKLVVGNTPISL 180
Query: 270 EEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTRE 329
EEAN +L +S+KGKLPI+ND GEL+AL++R+DLKK+R YP++S D N QL+VGAAI TR
Sbjct: 181 EEANEVLRESRKGKLPIVNDNGELVALVSRSDLKKNRGYPNASLDSNGQLLVGAAISTRP 240
Query: 330 ADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRATL 389
D R L +AGVDV+++DSSQGNSIYQI+MIK +K YP + +I GNV+ Q +
Sbjct: 241 EDIERAAALIEAGVDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIAGNVVTADQAK--- 297
Query: 390 LNFI------YQIEM----IKFIKKEYPDMQVIGR-NGTAVYRVAEYASRRGVPVIADGG 438
N I +I M I + ++ +GR +AVY VA YA RGVP IADGG
Sbjct: 298 -NLIDAGADGLRIGMGSGSICITQ----EVCAVGRPQASAVYHVARYARERGVPCIADGG 352
Query: 439 VQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEAMSRKDGG 498
+++ G + KALALGA M+GSLLAGT EAPGEYFF DGVRLK YRGMGSLEAM K
Sbjct: 353 IKNSGDICKALALGADCVMLGSLLAGTEEAPGEYFFKDGVRLKVYRGMGSLEAMLSK--- 409
Query: 499 AAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAKSLSNLRAM 558
+ +RY +E + +KVAQGVSG++VDKGSV + +PYL G+KHG Q IGA S+ L
Sbjct: 410 -ESGERY-LDENETIKVAQGVSGSVVDKGSVAKLIPYLVKGVKHGMQYIGAHSIPELHEK 467
Query: 559 MYSGELKFEKRTLCAQNEGSVHGLYSYE 586
+YSG+++FE+R+ A EG VH L+ +E
Sbjct: 468 LYSGQVRFERRSGSAIKEGGVHSLHKFE 495
Score = 223 bits (570), Expect = 4e-66
Identities = 98/237 (41%), Positives = 141/237 (59%), Gaps = 35/237 (14%)
Query: 1 IIHHNCTPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGK 60
+IH+NC+ E Q EV KVK++++GFI DP ++P+ T+ VL++K++ GF +T +GK
Sbjct: 78 VIHNNCSIEEQVEEVRKVKRFENGFIMDPYVLSPNHTVADVLEIKEKKGFSSILITVDGK 137
Query: 61 LGEKLLGIVTSRDVDFLENSANMDLKIEKDLSSPLTKKITLAAPL-VSSPMDTVTESDMA 119
+G KLLGIVTSRD+DF+++ + + ++ +P K + P+ + + + ES
Sbjct: 138 VGGKLLGIVTSRDIDFVKDKS---TPVS-EVMTPREKLVVGNTPISLEEANEVLRESRKG 193
Query: 120 I---------AMALCGG---------------------IGAAIGTREADKYRLKLLSQAG 149
+AL +GAAI TR D R L +AG
Sbjct: 194 KLPIVNDNGELVALVSRSDLKKNRGYPNASLDSNGQLLVGAAISTRPEDIERAAALIEAG 253
Query: 150 VDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
VDV+++DSSQGNSIYQI+MIK +K YP + +I GNVVT DQAKNLIDAG DGLR+G
Sbjct: 254 VDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIAGNVVTADQAKNLIDAGADGLRIG 310
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases 2
CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 439 bits (1132), Expect = e-150
Identities = 214/510 (41%), Positives = 279/510 (54%), Gaps = 85/510 (16%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAG 149
DLS+ LT+ ITL PLVS+ MDTVTES MAIAMA GGIG
Sbjct: 24 DLSTKLTRNITLNIPLVSANMDTVTESRMAIAMAREGGIG-------------------- 63
Query: 150 VDVVILDSSQGN-SI-YQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGS 207
VI N SI Q E ++ +K+ + VT + +A R
Sbjct: 64 ---VI----HKNMSIEEQAEEVRKVKRFE---SGFITDPVTVSPDTTVAEALELKER--- 110
Query: 208 HGCHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGI 267
+G G PVTE+GKL L+GI TSRD+DFL K+ VMT ++++A GI
Sbjct: 111 ---YGISGVPVTEDGKLLGGLVGIRTSRDIDFLS-------KVSVVMTMTEDLVTAPEGI 160
Query: 268 SLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGT 327
+LEEAN IL + K KLPI++D GEL+ LI R D++K+RDYP++SKD +L+VGAA+GT
Sbjct: 161 TLEEANEILHEHKIEKLPIVDDDGELVGLITRKDIEKARDYPNASKDAQGRLLVGAAVGT 220
Query: 328 READKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRA 387
RE D R + L +AGVDV+++DS+ G+S Y +EMIK+IKK+YP++ VI GNV+ R
Sbjct: 221 REDDLERAEALVEAGVDVIVIDSAHGHSEYVLEMIKWIKKKYPELDVIAGNVVTAEAARE 280
Query: 388 TLLNF---------------IYQIEMIKFIKKEYPDMQVIGR-NGTAVYRVAEYASRRGV 431
L++ + +GR TAVY VA+ A + GV
Sbjct: 281 -LIDAGADAVKVGIGPGSICTTREVA------------GVGRPQLTAVYEVADAARKLGV 327
Query: 432 PVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEA 491
PVIADGG++ G + KALA GAS M+GSLLAGT E+PGEY +G + K+YRGMGSL A
Sbjct: 328 PVIADGGIRYSGDIAKALAAGASAVMLGSLLAGTEESPGEYIERNGRKYKEYRGMGSLGA 387
Query: 492 MSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAKS 551
M + G DRYF DK V +GV G + KGSV + L GL+ +GA S
Sbjct: 388 MEKHKGSK---DRYF-QAGDKKLVPEGVEGRVPYKGSVKDTIHQLLGGLRSSMGYVGAAS 443
Query: 552 LSNLRAMMYSGELKFEKRTLCAQN-EGSVH 580
L LR F R A EG VH
Sbjct: 444 LKELREKA------FFVRVTSAGLREGHVH 467
Score = 213 bits (545), Expect = 1e-62
Identities = 96/229 (41%), Positives = 140/229 (61%), Gaps = 23/229 (10%)
Query: 1 IIHHNCTPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGK 60
+IH N + E QA EV KVK+++ GFI DPV ++P TT+ + L++K+++G G PVTE+GK
Sbjct: 64 VIHKNMSIEEQAEEVRKVKRFESGFITDPVTVSPDTTVAEALELKERYGISGVPVTEDGK 123
Query: 61 LGEKLLGIVTSRDVDFLENSANMDLKIEKDLSSP-----------LTKKITLAAPLVSSP 109
L L+GI TSRD+DFL + + E +++P L + P+V
Sbjct: 124 LLGGLVGIRTSRDIDFLSKVSVVMTMTEDLVTAPEGITLEEANEILHEHKIEKLPIVDDD 183
Query: 110 MDTV---TESDMAIA----MALCGG-----IGAAIGTREADKYRLKLLSQAGVDVVILDS 157
+ V T D+ A A +GAA+GTRE D R + L +AGVDV+++DS
Sbjct: 184 GELVGLITRKDIEKARDYPNASKDAQGRLLVGAAVGTREDDLERAEALVEAGVDVIVIDS 243
Query: 158 SQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
+ G+S Y +EMIK+IKK+YP++ VI GNVVT + A+ LIDAG D ++VG
Sbjct: 244 AHGHSEYVLEMIKWIKKKYPELDVIAGNVVTAEAARELIDAGADAVKVG 292
>gnl|CDD|233350 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes IMP dehydrogenase, an enzyme of GMP
biosynthesis. This form contains two CBS domains. This
model describes a rather tightly conserved cluster of
IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 450
Score = 425 bits (1095), Expect = e-144
Identities = 202/485 (41%), Positives = 270/485 (55%), Gaps = 73/485 (15%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAG 149
DLS+ +T+ I L P++SSPMDTVTES MAIAMA GGIG
Sbjct: 22 DLSTRITRNIKLNIPILSSPMDTVTESRMAIAMAREGGIG-------------------- 61
Query: 150 VDVVILDSSQGNSI-YQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGSH 208
VI + SI Q E +K +K+ I + VT + D L +
Sbjct: 62 ---VI---HRNMSIEEQAEQVKRVKRA---ENGIISDPVTISPETTVADV----LELM-- 106
Query: 209 GCHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGIS 268
G G PV E+G + KL+GI+T RD+ F+ + + +VMT E+I+ GI
Sbjct: 107 ERKGISGIPVVEDGDMTGKLVGIITKRDIRFV---KDKGKPVSEVMTR-EEVITVPEGID 162
Query: 269 LEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTR 328
LEEA +L + + KLP+++ GEL+ LI D+ K R +P +SKDEN +LIVGAA+GTR
Sbjct: 163 LEEALKVLHEHRIEKLPVVDKNGELVGLITMKDIVKRRKFPHASKDENGRLIVGAAVGTR 222
Query: 329 EADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRAT 388
E DK R + L +AGVDV+++DSS G+SIY I+ IK IKK YPD+ +I GNV Q +A
Sbjct: 223 EFDKERAEALVKAGVDVIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIAGNVATAEQAKAL 282
Query: 389 LLNF--------------IYQIEMIKFIKKEYPDMQVIGR-NGTAVYRVAEYASRRGVPV 433
+ +I +G TAVY VAEYA++ G+PV
Sbjct: 283 IDAGADGLRVGIGPGSICTTRIVA------------GVGVPQITAVYDVAEYAAQSGIPV 330
Query: 434 IADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEAMS 493
IADGG++ G ++KALA GA M+GSLLAGT+E+PGEY +G R K+YRGMGSL AM+
Sbjct: 331 IADGGIRYSGDIVKALAAGADAVMLGSLLAGTTESPGEYEIINGRRYKQYRGMGSLGAMT 390
Query: 494 RKDGGAAAMDRYFH-NEMDKLKVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAKSL 552
+ G + DRY K V +GV GA+ KGSVL LP L GLK G +GA+S+
Sbjct: 391 K--GSS---DRYLQDENKTKKFVPEGVEGAVPYKGSVLELLPQLVGGLKSGMGYVGARSI 445
Query: 553 SNLRA 557
LR
Sbjct: 446 DELRE 450
Score = 205 bits (524), Expect = 8e-60
Identities = 93/235 (39%), Positives = 133/235 (56%), Gaps = 32/235 (13%)
Query: 1 IIHHNCTPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGK 60
+IH N + E QA +V +VK+ ++G I DPV I+P TT+ VL++ ++ G G PV E+G
Sbjct: 62 VIHRNMSIEEQAEQVKRVKRAENGIISDPVTISPETTVADVLELMERKGISGIPVVEDGD 121
Query: 61 LGEKLLGIVTSRDVDFLEN-----------------SANMDLKIEKDLSSPLTKKITLAA 103
+ KL+GI+T RD+ F+++ +DL+ + L +
Sbjct: 122 MTGKLVGIITKRDIRFVKDKGKPVSEVMTREEVITVPEGIDLEEALKV---LHEHRIEKL 178
Query: 104 PLVSSPMDTV---TESDMAIAMALCGG---------IGAAIGTREADKYRLKLLSQAGVD 151
P+V + V T D+ +GAA+GTRE DK R + L +AGVD
Sbjct: 179 PVVDKNGELVGLITMKDIVKRRKFPHASKDENGRLIVGAAVGTREFDKERAEALVKAGVD 238
Query: 152 VVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
V+++DSS G+SIY I+ IK IKK YPD+ +I GNV T +QAK LIDAG DGLRVG
Sbjct: 239 VIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIAGNVATAEQAKALIDAGADGLRVG 293
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 297 bits (764), Expect = 2e-94
Identities = 166/523 (31%), Positives = 241/523 (46%), Gaps = 154/523 (29%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAG 149
DLS+ LTK I L PL+S+ MDTVTE+ MAIAMA GGIG
Sbjct: 29 DLSTQLTKNIRLNIPLLSAAMDTVTEARMAIAMAREGGIG-------------------- 68
Query: 150 VDVVI---LDSSQGNSIYQIEMIKYIKKE-----------YPDMQVIGGNVVTTDQAKNL 195
VI + + Q E ++ +K+ PD + +A L
Sbjct: 69 ---VIHKNMSIEE-----QAEEVRKVKRSESGVVTDPVTVTPDTTL--------AEALAL 112
Query: 196 IDAGVDGLRVGSHGCHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMT 255
+ +G G PV + KL+GI+T+RDV F ++ + +VMT
Sbjct: 113 MAR------------YGISGVPVVDENG---KLVGIITNRDVRF---ETDLSQPVSEVMT 154
Query: 256 NVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDE 315
+++ G +LEEA +L + + KLP+++D G L LI D++K+ ++P++ KDE
Sbjct: 155 KER-LVTVPEGTTLEEALELLHEHRIEKLPVVDDNGRLKGLITVKDIEKAEEFPNACKDE 213
Query: 316 NNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI 375
+L VGAA+G ++ R + L +AGVDV+++D++ G+S
Sbjct: 214 QGRLRVGAAVGVGADNEERAEALVEAGVDVLVVDTAHGHSE------------------- 254
Query: 376 GGNVLFGYQPRATLLNFIYQIEMIKFIKKEYPDMQVIGRN-------------------- 415
VL + ++ IK +YPD+Q+I N
Sbjct: 255 --GVL----------------DRVREIKAKYPDVQIIAGNVATAEAARALIEAGADAVKV 296
Query: 416 ----------------G----TAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGAST 455
G TA+ AE A + G+PVIADGG++ G + KALA GAS
Sbjct: 297 GIGPGSICTTRIVAGVGVPQITAIADAAEAAKKYGIPVIADGGIRYSGDIAKALAAGASA 356
Query: 456 AMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEAMSRKDGGAAAMDRYF--HNEMDKL 513
M+GS+LAGT EAPGE G K YRGMGSL AMS+ G + DRYF N DKL
Sbjct: 357 VMLGSMLAGTEEAPGEVELYQGRSYKSYRGMGSLGAMSK--GSS---DRYFQSVNAADKL 411
Query: 514 KVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAKSLSNLR 556
V +G+ G + KG + + L GL+ G GA ++ LR
Sbjct: 412 -VPEGIEGRVPYKGPLSEIIHQLMGGLRSGMGYTGAATIEELR 453
Score = 161 bits (409), Expect = 3e-43
Identities = 80/244 (32%), Positives = 124/244 (50%), Gaps = 53/244 (21%)
Query: 1 IIHHNCTPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGK 60
+IH N + E QA EV KVK+ + G + DPV + P TTL + L + ++G G PV +
Sbjct: 69 VIHKNMSIEEQAEEVRKVKRSESGVVTDPVTVTPDTTLAEALALMARYGISGVPVVDENG 128
Query: 61 LGEKLLGIVTSRDVDFLENSANMDLKIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAI 120
KL+GI+T+RDV F E DLS P+++ +T LV+ P T E + +
Sbjct: 129 ---KLVGIITNRDVRF-----------ETDLSQPVSEVMT-KERLVTVPEGTTLEEALEL 173
Query: 121 AMA--------------LCGGI------------------------GAAIGTREADKYRL 142
L G I GAA+G ++ R
Sbjct: 174 LHEHRIEKLPVVDDNGRLKGLITVKDIEKAEEFPNACKDEQGRLRVGAAVGVGADNEERA 233
Query: 143 KLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDG 202
+ L +AGVDV+++D++ G+S ++ ++ IK +YPD+Q+I GNV T + A+ LI+AG D
Sbjct: 234 EALVEAGVDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIAGNVATAEAARALIEAGADA 293
Query: 203 LRVG 206
++VG
Sbjct: 294 VKVG 297
>gnl|CDD|238223 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 = 270 bits (694), Expect = 2e-86
Identities = 117/260 (45%), Positives = 149/260 (57%), Gaps = 43/260 (16%)
Query: 317 NQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIG 376
+L+VGAA+GTRE DK R + L +AGVDV+++DS+ G+S+Y IEMIKFIKK+YP++ VI
Sbjct: 81 GRLLVGAAVGTREDDKERAEALVEAGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIA 140
Query: 377 GNVLFGYQPRATLLNFIYQIEMIK----FIKKEYPDMQV---------------IGR-NG 416
GNV A ++I +K V +G
Sbjct: 141 GNV---VTAEAAR-------DLIDAGADGVK-------VGIGPGSICTTRIVTGVGVPQA 183
Query: 417 TAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSD 476
TAV VA A GVPVIADGG+++ G ++KALA GA M+GSLLAGT E+PGEY +
Sbjct: 184 TAVADVAAAARDYGVPVIADGGIRTSGDIVKALAAGADAVMLGSLLAGTDESPGEYIEIN 243
Query: 477 GVRLKKYRGMGSLEAMSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPYL 536
G R K+YRGMGSL AM + G DRYF E K V +GV G + KGSV LP L
Sbjct: 244 GKRYKEYRGMGSLGAMKKGGG-----DRYFGEE-AKKLVPEGVEGIVPYKGSVKDVLPQL 297
Query: 537 QCGLKHGCQDIGAKSLSNLR 556
GL+ GAKSL L+
Sbjct: 298 VGGLRSSMGYCGAKSLKELQ 317
Score = 186 bits (475), Expect = 3e-54
Identities = 78/142 (54%), Positives = 99/142 (69%), Gaps = 25/142 (17%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIG-------------------- 129
DLS+ LTK ITL PLVS+PMDTVTES+MAIAMA GGIG
Sbjct: 22 DLSTKLTKNITLNIPLVSAPMDTVTESEMAIAMARLGGIGVIHRNMSIEEQAEEVRKVKG 81
Query: 130 -----AAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGG 184
AA+GTRE DK R + L +AGVDV+++DS+ G+S+Y IEMIK+IKK+YP++ VI G
Sbjct: 82 RLLVGAAVGTREDDKERAEALVEAGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIAG 141
Query: 185 NVVTTDQAKNLIDAGVDGLRVG 206
NVVT + A++LIDAG DG++VG
Sbjct: 142 NVVTAEAARDLIDAGADGVKVG 163
Score = 37.1 bits (87), Expect = 0.023
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 1 IIHHNCTPEYQANEVLKVKK 20
+IH N + E QA EV KVK
Sbjct: 62 VIHRNMSIEEQAEEVRKVKG 81
>gnl|CDD|180842 PRK07107, PRK07107, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 502
Score = 176 bits (449), Expect = 1e-48
Identities = 132/438 (30%), Positives = 204/438 (46%), Gaps = 76/438 (17%)
Query: 90 DLSSPLTK-------KITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRL 142
L +PL K ITL PLVS+ M +V++ +MAIA+A GG+ G++ +
Sbjct: 32 SLKTPLVKFKKGEESAITLNIPLVSAIMQSVSDDNMAIALAREGGLSFIFGSQSIE---- 87
Query: 143 KLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDG 202
S+A M++ +K V N+ + +++D
Sbjct: 88 ---SEA------------------AMVRRVKNYKAGFVVSDSNLTPDNTLADVLDLKEK- 125
Query: 203 LRVGSHGCHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIIS 262
G VTE+G KLLGIVTSRD + + ++D K++ MT ++++
Sbjct: 126 --------TGHSTVAVTEDGTAHGKLLGIVTSRD--YRISRMSLDTKVKDFMTPFEKLVT 175
Query: 263 AQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVG 322
A G +L+EAN I+ K LPI++ G L+ L+ R D ++ P D + + +VG
Sbjct: 176 ANEGTTLKEANDIIWDHKLNTLPIVDKNGNLVYLVFRKDYDSHKENPLELLDSSKRYVVG 235
Query: 323 AAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIG-GNVLF 381
A I TR+ R+ L +AG DV+ +DSS+G S +Q + +I+++Y D +G GNV+
Sbjct: 236 AGINTRDY-AERVPALVEAGADVLCIDSSEGYSEWQKRTLDWIREKYGDSVKVGAGNVVD 294
Query: 382 GYQPRATLLNFIYQIE----MIKF--------IKKEYPDMQVIGR-NGTAVYRVA----E 424
F Y E +K I +E + IGR TA+ VA E
Sbjct: 295 RE-------GFRYLAEAGADFVKVGIGGGSICITRE---QKGIGRGQATALIEVAKARDE 344
Query: 425 YASRRGV--PVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKK 482
Y GV P+ +DGG+ H+ ALA+GA M+G A E+P +G +K+
Sbjct: 345 YFEETGVYIPICSDGGIVYDYHMTLALAMGADFIMLGRYFARFDESPTNKVNINGNYMKE 404
Query: 483 YRGMGSLEAMS--RKDGG 498
Y G GS A + R D G
Sbjct: 405 YWGEGSNRARNWQRYDLG 422
Score = 109 bits (274), Expect = 2e-25
Identities = 73/239 (30%), Positives = 113/239 (47%), Gaps = 50/239 (20%)
Query: 7 TPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLL 66
+ E +A V +VK YK GF+ + P TL VL +K++ G VTE+G KLL
Sbjct: 85 SIESEAAMVRRVKNYKAGFVVSDSNLTPDNTLADVLDLKEKTGHSTVAVTEDGTAHGKLL 144
Query: 67 GIVTSRDVDFLENSANMDLKIEKDLSSPLTK------KITLAA-------------PLV- 106
GIVTSR D+ + ++D K+ KD +P K TL P+V
Sbjct: 145 GIVTSR--DYRISRMSLDTKV-KDFMTPFEKLVTANEGTTLKEANDIIWDHKLNTLPIVD 201
Query: 107 ------------------SSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQA 148
+P++ + S + +GA I TR+ R+ L +A
Sbjct: 202 KNGNLVYLVFRKDYDSHKENPLELLDSSKRYV-------VGAGINTRDY-AERVPALVEA 253
Query: 149 GVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIG-GNVVTTDQAKNLIDAGVDGLRVG 206
G DV+ +DSS+G S +Q + +I+++Y D +G GNVV + + L +AG D ++VG
Sbjct: 254 GADVLCIDSSEGYSEWQKRTLDWIREKYGDSVKVGAGNVVDREGFRYLAEAGADFVKVG 312
>gnl|CDD|239975 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 = 133 bits (338), Expect = 3e-37
Identities = 57/94 (60%), Positives = 71/94 (75%), Gaps = 3/94 (3%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLE 270
GF G PVTE+GK G KLLGIVTSRD+DFL +S + + +VMT ++ A GI+LE
Sbjct: 23 KGFSGIPVTEDGKSGGKLLGIVTSRDIDFLTDS---ETPLSEVMTPREVLVVAPTGITLE 79
Query: 271 EANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
EAN IL +SKKGKLPI+ND GEL+AL+ R+DLKK
Sbjct: 80 EANEILRESKKGKLPIVNDDGELVALVTRSDLKK 113
Score = 85.7 bits (213), Expect = 4e-20
Identities = 32/55 (58%), Positives = 42/55 (76%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENS 80
I DP ++P T+ VL++K++ GF G PVTE+GK G KLLGIVTSRD+DFL +S
Sbjct: 1 ITDPSVLSPDHTVADVLEIKEKKGFSGIPVTEDGKSGGKLLGIVTSRDIDFLTDS 55
>gnl|CDD|180725 PRK06843, PRK06843, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 404
Score = 131 bits (330), Expect = 3e-33
Identities = 106/352 (30%), Positives = 172/352 (48%), Gaps = 41/352 (11%)
Query: 234 SRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKK------------ 281
S ++ FL S+ MD E M I+ + GI + N+ +E +K
Sbjct: 40 SLNIPFL--SSAMDTVTESQMAIA---IAKEGGIGIIHKNMSIEAQRKEIEKVKTYKFQK 94
Query: 282 ----------GKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTREAD 331
K I K L A + + D+P++ KD NN+L VGAA+
Sbjct: 95 TINTNGDTNEQKPEIFTAKQHLEKSDAYKNAEHKEDFPNACKDLNNKLRVGAAVSIDIDT 154
Query: 332 KNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRATLLN 391
R++ L +A VD++++DS+ G+S IE++K IK +YP++ +I GN++ + L++
Sbjct: 155 IERVEELVKAHVDILVIDSAHGHSTRIIELVKKIKTKYPNLDLIAGNIV-TKEAALDLIS 213
Query: 392 FIYQIEMIKFIKKEYPDMQVIGRNG----TAVYRVAEYASRRGVPVIADGGVQSVGHVMK 447
+ +++ G TA+ V E + +IADGG++ G V+K
Sbjct: 214 VGADCLKVGIGPGSICTTRIVAGVGVPQITAICDVYEVCKNTNICIIADGGIRFSGDVVK 273
Query: 448 ALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEAMSRKDGGAAAMDRYF- 506
A+A GA + M+G+L AGT E+P E +G + K Y GMGS+ AM R + RYF
Sbjct: 274 AIAAGADSVMIGNLFAGTKESPSEEIIYNGKKFKSYVGMGSISAMKR-----GSKSRYFQ 328
Query: 507 --HNEMDKLKVAQGVSGAIVDKGSVLRFLPYLQCGLKHGCQDIGAKSLSNLR 556
+NE KL V +G+ G + G + L L+ GL G +GA ++S+L+
Sbjct: 329 LENNEPKKL-VPEGIEGMVPYSGKLKDILTQLKGGLMSGMGYLGAATISDLK 379
Score = 67.4 bits (164), Expect = 5e-12
Identities = 32/79 (40%), Positives = 53/79 (67%)
Query: 128 IGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVV 187
+GAA+ R++ L +A VD++++DS+ G+S IE++K IK +YP++ +I GN+V
Sbjct: 144 VGAAVSIDIDTIERVEELVKAHVDILVIDSAHGHSTRIIELVKKIKTKYPNLDLIAGNIV 203
Query: 188 TTDQAKNLIDAGVDGLRVG 206
T + A +LI G D L+VG
Sbjct: 204 TKEAALDLISVGADCLKVG 222
Score = 51.6 bits (123), Expect = 7e-07
Identities = 30/61 (49%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 69 VTSRDVDFLENSANMDLKIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGI 128
+T DV + +++ L E L + LTK I+L P +SS MDTVTES MAIA+A GGI
Sbjct: 10 LTFDDVSLIPRKSSV-LPSEVSLKTQLTKNISLNIPFLSSAMDTVTESQMAIAIAKEGGI 68
Query: 129 G 129
G
Sbjct: 69 G 69
>gnl|CDD|130370 TIGR01303, IMP_DH_rel_1, IMP dehydrogenase family protein. This
model represents a family of proteins, often annotated
as a putative IMP dehydrogenase, related to IMP
dehydrogenase and GMP reductase and restricted to the
high GC Gram-positive bacteria. All species in which a
member is found so far (Corynebacterium glutamicum,
Mycobacterium tuberculosis, Streptomyces coelicolor,
etc.) also have IMP dehydrogenase as described by
TIGRFAMs entry TIGR01302 [Unknown function, General].
Length = 475
Score = 106 bits (265), Expect = 2e-24
Identities = 95/341 (27%), Positives = 161/341 (47%), Gaps = 22/341 (6%)
Query: 224 LGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGK 283
L ++ +G+VT D+ + ++ +M ++++A A +A +LE + +
Sbjct: 126 LEDRPVGLVTDSDL----LGVDRFTQVRDIM--STDLVTAPADTEPRKAFDLLEHAPRDV 179
Query: 284 LPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTREADKNRLKLLSQAGV 343
P+++ G L ++ RT ++ Y ++ D +L +GAA+G + K L AGV
Sbjct: 180 APLVDADGTLAGILTRTGALRATIYTPAT-DAAGRLRIGAAVGINGDVGGKAKALLDAGV 238
Query: 344 DVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRATL---LNFIYQIEMIK 400
DV+++D++ G+ + I IK ++ + ++ GNV+ R L N I ++ +
Sbjct: 239 DVLVIDTAHGHQVKMISAIKAVRALDLGVPIVAGNVVSAEGVRDLLEAGANII-KVGVGP 297
Query: 401 FIKKEYPDMQVIGR-NGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
M +GR +AV A A + G V ADGGV+ V ALA GAS M+G
Sbjct: 298 GAMCTTRMMTGVGRPQFSAVLECAAEARKLGGHVWADGGVRHPRDVALALAAGASNVMVG 357
Query: 460 SLLAGTSEAPGEYFF-SDGVRLKKYRGMGSLEAMSRKDGGAAAMDRYFHNEMDKLKVAQG 518
S AGT E+PG+ DG K+ GM S A+ + G A DR K +G
Sbjct: 358 SWFAGTYESPGDLMRDRDGRPYKESFGMASKRAVVARTGADNAFDR-----ARKALFEEG 412
Query: 519 VSGAIV----DKGSVLRFLPYLQCGLKHGCQDIGAKSLSNL 555
+S + + D+G V + ++ G++ C GA SL
Sbjct: 413 ISTSRMGLDPDRGGVEDLIDHIISGVRSSCTYAGASSLEEF 453
Score = 59.2 bits (143), Expect = 3e-09
Identities = 46/223 (20%), Positives = 95/223 (42%), Gaps = 37/223 (16%)
Query: 12 ANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQM--KKQHGFCGFPVTENGKLGEKLLGIV 69
+ + K + + P+ +AP T+ + + K+ HG + L ++ +G+V
Sbjct: 81 VKQTVAFVKSRDLVLDTPITLAPHDTVSDAMALIHKRAHG-AAVVI-----LEDRPVGLV 134
Query: 70 TSRDVDFLENSANMD-------LKIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAM 122
T D+ ++ + + D + AP +P + ++D +A
Sbjct: 135 TDSDLLGVDRFTQVRDIMSTDLVTAPADTEPRKAFDLLEHAPRDVAP---LVDADGTLAG 191
Query: 123 ALCGG-------------------IGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSI 163
L IGAA+G + K L AGVDV+++D++ G+ +
Sbjct: 192 ILTRTGALRATIYTPATDAAGRLRIGAAVGINGDVGGKAKALLDAGVDVLVIDTAHGHQV 251
Query: 164 YQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
I IK ++ + ++ GNVV+ + ++L++AG + ++VG
Sbjct: 252 KMISAIKAVRALDLGVPIVAGNVVSAEGVRDLLEAGANIIKVG 294
>gnl|CDD|181127 PRK07807, PRK07807, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 479
Score = 91.1 bits (227), Expect = 2e-19
Identities = 111/422 (26%), Positives = 176/422 (41%), Gaps = 83/422 (19%)
Query: 104 PLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQ-AGVDVVILDSSQGNS 162
PLV + M V MA +A GG+ +L Q +DVV
Sbjct: 46 PLVVANMTAVAGRRMAETVARRGGLV--------------VLPQDIPIDVVA-------- 83
Query: 163 IYQIEMIKYIKKEYP--DMQVIGGNVVTTDQAKNLIDAGVDGLRVGSHGCHGFCGFPVTE 220
E++ ++K D V T A L+ R +HG V E
Sbjct: 84 ----EVVAWVKSRDLVFDTPVTLSPDDTVGDALALLPK-----R--AHGA----VVVVDE 128
Query: 221 NGKLGEKLLGIVTS---RDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILE 277
G+ +G+VT VD ++ VM+ ++++ AG EA +LE
Sbjct: 129 EGRP----VGVVTEADCAGVD-------RFTQVRDVMST--DLVTLPAGTDPREAFDLLE 175
Query: 278 KSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTREADKNRLKL 337
++ P+++ G L+ ++ RT ++ Y + D +L V AA+G + +
Sbjct: 176 AARVKLAPVVDADGRLVGVLTRTGALRATIY-TPAVDAAGRLRVAAAVGINGDVAAKARA 234
Query: 338 LSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRATLLNFIYQI- 396
L +AGVDV+++D++ G+ +E ++ ++ P + ++ GNV+ R L+ I
Sbjct: 235 LLEAGVDVLVVDTAHGHQEKMLEALRAVRALDPGVPIVAGNVVTAEGTRD-LVEAGADIV 293
Query: 397 ------------EMIKFIKKEYPDMQVIGR-NGTAVYRVAEYASRRGVPVIADGGVQSVG 443
M M +GR +AV A A G V ADGGV+
Sbjct: 294 KVGVGPGAMCTTRM----------MTGVGRPQFSAVLECAAAARELGAHVWADGGVRHPR 343
Query: 444 HVMKALALGASTAMMGSLLAGTSEAPGE-YFFSDGVRLKKYRGMGSLEAMSRKDGGAAAM 502
V ALA GAS M+GS AGT E+PG+ DG K+ GM S A++ + G +A
Sbjct: 344 DVALALAAGASNVMIGSWFAGTYESPGDLMRDRDGRPYKESFGMASARAVAARTAGDSAF 403
Query: 503 DR 504
DR
Sbjct: 404 DR 405
>gnl|CDD|239974 cd04601, CBS_pair_IMPDH, This cd contains two tandem repeats of the
cystathionine beta-synthase (CBS pair) domains in the
inosine 5' monophosphate dehydrogenase (IMPDH) protein.
IMPDH is an essential enzyme that catalyzes the first
step unique to GTP synthesis, playing a key role in the
regulation of cell proliferation and differentiation.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain in IMPDH have been
associated with retinitis pigmentosa.
Length = 110
Score = 77.5 bits (192), Expect = 2e-17
Identities = 35/95 (36%), Positives = 57/95 (60%), Gaps = 7/95 (7%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLE 270
+G G PV ++ KL+GIVT+RD+ F + +D + +VMT +++ G SLE
Sbjct: 23 YGISGLPVVDDDG---KLVGIVTNRDLRFETD---LDKPVSEVMT-PENLLTTVEGTSLE 75
Query: 271 EANVILEKSKKGKLPILNDKGELIALIARTDLKKS 305
EA +L + K KLP+++D+G+L LI D++K
Sbjct: 76 EALELLHEHKIEKLPVVDDEGKLKGLITVKDIEKR 110
Score = 67.5 bits (166), Expect = 8e-14
Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 3/55 (5%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENS 80
IRDP+ ++P T+ + L++ ++G G PV ++ KL+GIVT+RD+ F +
Sbjct: 1 IRDPITVSPDATVAEALELMAEYGISGLPVVDDDG---KLVGIVTNRDLRFETDL 52
>gnl|CDD|130373 TIGR01306, GMP_reduct_2, guanosine monophosphate reductase,
bacterial. A deep split separates two families of GMP
reductase. The other (TIGR01305) is found in eukaryotic
and some proteobacterial lineages, including E. coli,
while this family is found in a variety of bacterial
lineages [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 321
Score = 76.5 bits (188), Expect = 4e-15
Identities = 60/189 (31%), Positives = 88/189 (46%), Gaps = 21/189 (11%)
Query: 313 KDENNQ-LIVGAAIGTREADKNRLKLLSQAGV--DVVILDSSQGNSIYQIEMIKFIKKEY 369
KD + L ++G + + + L++ + + + +D + G+S I MIK IK
Sbjct: 76 KDMQERGLFASISVGVKACEYEFVTQLAEEALTPEYITIDIAHGHSNSVINMIKHIKTHL 135
Query: 370 PDMQVIGGNV--------LFGYQPRATLLNFIYQIEMIKFIKKEYPDMQVIGRNG--TAV 419
PD VI GNV L AT + I IK + G G A
Sbjct: 136 PDSFVIAGNVGTPEAVRELENAGADATKVGIGPGKVCITKIKTGF------GTGGWQLAA 189
Query: 420 YRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVR 479
R A+R+ P+IADGG+++ G + K++ GAS M+GSL AG E+PGE DG
Sbjct: 190 LRWCAKAARK--PIIADGGIRTHGDIAKSIRFGASMVMIGSLFAGHEESPGETVEKDGKL 247
Query: 480 LKKYRGMGS 488
K+Y G S
Sbjct: 248 YKEYFGSAS 256
Score = 50.7 bits (121), Expect = 1e-06
Identities = 42/161 (26%), Positives = 71/161 (44%), Gaps = 28/161 (17%)
Query: 73 DVDFLENSANMDLKIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCG------ 126
D+ + N ++ + E D S L K P+V + M T+ + +A +A G
Sbjct: 6 DIQLIPNKCIVNSRSECDTSVTLGKH-KFKLPVVPANMQTIIDEKLAEQLAENGYFYIMH 64
Query: 127 -----------------GIGAAI--GTREADKYRLKLLSQAGV--DVVILDSSQGNSIYQ 165
G+ A+I G + + + L++ + + + +D + G+S
Sbjct: 65 RFDEESRIPFIKDMQERGLFASISVGVKACEYEFVTQLAEEALTPEYITIDIAHGHSNSV 124
Query: 166 IEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
I MIK+IK PD VI GNV T + + L +AG D +VG
Sbjct: 125 INMIKHIKTHLPDSFVIAGNVGTPEAVRELENAGADATKVG 165
>gnl|CDD|235479 PRK05458, PRK05458, guanosine 5'-monophosphate oxidoreductase;
Provisional.
Length = 326
Score = 75.0 bits (185), Expect = 1e-14
Identities = 56/194 (28%), Positives = 89/194 (45%), Gaps = 42/194 (21%)
Query: 318 QLIVGAAIGTREADKNRLKLLSQAGV--DVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI 375
LI ++G ++ + + + L+ G+ + + +D + G+S I MI+ IKK P+ VI
Sbjct: 85 GLIASISVGVKDDEYDFVDQLAAEGLTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVI 144
Query: 376 GGNVLFGYQPRATLLNFIYQIEM------------------IKFIKKEYPDMQVIGRNG- 416
GNV P A E+ I IK + G G
Sbjct: 145 AGNV---GTPEAV-------RELENAGADATKVGIGPGKVCITKIKTGF------GTGGW 188
Query: 417 --TAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFF 474
A+ A+ A + P+IADGG+++ G + K++ GA+ M+GSL AG E+PG+
Sbjct: 189 QLAALRWCAKAARK---PIIADGGIRTHGDIAKSIRFGATMVMIGSLFAGHEESPGKTVE 245
Query: 475 SDGVRLKKYRGMGS 488
DG K+Y G S
Sbjct: 246 IDGKLYKEYFGSAS 259
Score = 53.4 bits (129), Expect = 1e-07
Identities = 36/134 (26%), Positives = 62/134 (46%), Gaps = 27/134 (20%)
Query: 100 TLAAPLVSSPMDTVTESDMAIAMALCG-----------------------GIGAAI--GT 134
T P+V + M T+ + +A +A G G+ A+I G
Sbjct: 35 TFKLPVVPANMQTIIDEKIAEWLAENGYFYIMHRFDPEARIPFIKDMHEQGLIASISVGV 94
Query: 135 READKYRLKLLSQAGV--DVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQA 192
++ + + L+ G+ + + +D + G+S I MI++IKK P+ VI GNV T +
Sbjct: 95 KDDEYDFVDQLAAEGLTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVIAGNVGTPEAV 154
Query: 193 KNLIDAGVDGLRVG 206
+ L +AG D +VG
Sbjct: 155 RELENAGADATKVG 168
>gnl|CDD|130372 TIGR01305, GMP_reduct_1, guanosine monophosphate reductase,
eukaryotic. A deep split separates two families of GMP
reductase. This family includes both eukaryotic and some
proteobacterial sequences, while the other family
contains other bacterial sequences [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 343
Score = 75.0 bits (184), Expect = 1e-14
Identities = 62/259 (23%), Positives = 113/259 (43%), Gaps = 34/259 (13%)
Query: 310 DSSKDENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEY 369
+SS D + V + + +K L + + + LD + G S + +E +K +++ +
Sbjct: 89 NSSPDCLQNVAVSSGSSDNDLEKMTSILEAVPQLKFICLDVANGYSEHFVEFVKLVREAF 148
Query: 370 PDMQVIGGNVLFGYQPRATLLNFIYQIEMIKF---------IKKE----YPDMQVIGRNG 416
P+ ++ GNV+ G +L+ +++K + + YP +
Sbjct: 149 PEHTIMAGNVVTGEMVEELILS---GADIVKVGIGPGSVCTTRTKTGVGYPQL------- 198
Query: 417 TAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSD 476
+AV A+ A +I+DGG G V KA GA M+G + AG +E+ GE +
Sbjct: 199 SAVIECADAAHGLKGHIISDGGCTCPGDVAKAFGAGADFVMLGGMFAGHTESGGEVIERN 258
Query: 477 GVRLKKYRGMGSLEAMSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPYL 536
G + K + GM S AM + GG A + + ++G + + +G V + +
Sbjct: 259 GRKFKLFYGMSSDTAMKKHAGGVA-----------EYRASEGKTVEVPYRGDVENTILDI 307
Query: 537 QCGLKHGCQDIGAKSLSNL 555
GL+ C +GA L L
Sbjct: 308 LGGLRSACTYVGAAKLKEL 326
Score = 46.8 bits (111), Expect = 2e-05
Identities = 32/152 (21%), Positives = 72/152 (47%), Gaps = 29/152 (19%)
Query: 84 DLKIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMA-------------------- 123
D+++E+ + +K+ P++++ MDTV +MA A++
Sbjct: 27 DVELERTFTFRNSKQTYSGVPIIAANMDTVGTFEMAAALSQHSIFTAIHKHYSVDEWKAF 86
Query: 124 -------LCGGIGAAIGTREADKYRLKLLSQA--GVDVVILDSSQGNSIYQIEMIKYIKK 174
+ + G+ + D ++ + +A + + LD + G S + +E +K +++
Sbjct: 87 ATNSSPDCLQNVAVSSGSSDNDLEKMTSILEAVPQLKFICLDVANGYSEHFVEFVKLVRE 146
Query: 175 EYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
+P+ ++ GNVVT + + LI +G D ++VG
Sbjct: 147 AFPEHTIMAGNVVTGEMVEELILSGADIVKVG 178
>gnl|CDD|223590 COG0516, GuaB, IMP dehydrogenase/GMP reductase [Nucleotide
transport and metabolism].
Length = 170
Score = 67.3 bits (165), Expect = 5e-13
Identities = 60/201 (29%), Positives = 86/201 (42%), Gaps = 52/201 (25%)
Query: 358 QIEMIKFIKKEYPDMQVIGGNVLFGYQPRATLL--NFIYQIEMIKFIKKEYPDMQVIGRN 415
+ + IKK P + +VL + + + + I P QV
Sbjct: 1 VLMQVLKIKKARPG--LTFDDVLLLPA-ASDVAPAGVDVKTGLGPGIGVNIP--QV---- 51
Query: 416 GTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFS 475
+A +R + + DGG+ M G++LA E+PGEY
Sbjct: 52 -SAAMDTVT-EARMAIAMARDGGIGV---------------MHGNMLAE--ESPGEYL-- 90
Query: 476 DGVRLKKYRGMGSLEAMSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLPY 535
K RGMGS++AM R YF + VAQGVSG VDKGS+ +F+PY
Sbjct: 91 ---YQK--RGMGSIDAMQR----------YF----SSVLVAQGVSGV-VDKGSIKKFIPY 130
Query: 536 LQCGLKHGCQDIGAKSLSNLR 556
L GL+ CQ IG +SL+ L+
Sbjct: 131 LYGGLQSSCQYIGCRSLTLLK 151
Score = 53.4 bits (129), Expect = 2e-08
Identities = 23/44 (52%), Positives = 28/44 (63%)
Query: 90 DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIG 133
D+ + L I + P VS+ MDTVTE+ MAIAMA GGIG G
Sbjct: 35 DVKTGLGPGIGVNIPQVSAAMDTVTEARMAIAMARDGGIGVMHG 78
Score = 39.9 bits (94), Expect = 0.001
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 165 QIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVG 206
+ + IKK P + +V+ A ++ AGVD ++ G
Sbjct: 1 VLMQVLKIKKARPG--LTFDDVLLLPAASDVAPAGVD-VKTG 39
>gnl|CDD|235343 PRK05096, PRK05096, guanosine 5'-monophosphate oxidoreductase;
Provisional.
Length = 346
Score = 67.3 bits (165), Expect = 5e-12
Identities = 68/261 (26%), Positives = 114/261 (43%), Gaps = 38/261 (14%)
Query: 310 DSSKDENNQLIVGAAIGTREADKNRLK--LLSQAGVDVVILDSSQGNSIYQIEMIKFIKK 367
+SS D ++V + GT +AD + K L ++ + +D + G S + ++ + ++
Sbjct: 90 NSSADVLKHVMV--STGTSDADFEKTKQILALSPALNFICIDVANGYSEHFVQFVAKARE 147
Query: 368 EYPDMQVIGGNVLFGYQPRATLLNFIYQIEMIKF-I---------KKE---YPDMQVIGR 414
+PD + GNV+ G +L+ +++K I K YP +
Sbjct: 148 AWPDKTICAGNVVTGEMVEELILS---GADIVKVGIGPGSVCTTRVKTGVGYPQL----- 199
Query: 415 NGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFF 474
+AV A+ A G +++DGG G V KA GA M+G +LAG E+ GE
Sbjct: 200 --SAVIECADAAHGLGGQIVSDGGCTVPGDVAKAFGGGADFVMLGGMLAGHEESGGEIVE 257
Query: 475 SDGVRLKKYRGMGSLEAMSRKDGGAAAMDRYFHNEMDKLKVAQGVSGAIVDKGSVLRFLP 534
+G + + GM S AM R GG A + + A+G + + +G V
Sbjct: 258 ENGEKFMLFYGMSSESAMKRHVGGVA-----------EYRAAEGKTVKLPLRGPVENTAR 306
Query: 535 YLQCGLKHGCQDIGAKSLSNL 555
+ GL+ C +GA L L
Sbjct: 307 DILGGLRSACTYVGASRLKEL 327
Score = 50.7 bits (122), Expect = 9e-07
Identities = 31/132 (23%), Positives = 60/132 (45%), Gaps = 29/132 (21%)
Query: 104 PLVSSPMDTVTESDMAIAMA---------------------------LCGGIGAAIGTRE 136
P++++ MDTV +MA A+A + + + GT +
Sbjct: 48 PIIAANMDTVGTFEMAKALASFDILTAVHKHYSVEEWAAFVNNSSADVLKHVMVSTGTSD 107
Query: 137 ADKYRLK--LLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKN 194
AD + K L ++ + +D + G S + ++ + ++ +PD + GNVVT + +
Sbjct: 108 ADFEKTKQILALSPALNFICIDVANGYSEHFVQFVAKAREAWPDKTICAGNVVTGEMVEE 167
Query: 195 LIDAGVDGLRVG 206
LI +G D ++VG
Sbjct: 168 LILSGADIVKVG 179
>gnl|CDD|236322 PRK08649, PRK08649, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 368
Score = 59.4 bits (145), Expect = 2e-09
Identities = 29/67 (43%), Positives = 38/67 (56%), Gaps = 11/67 (16%)
Query: 417 TAVYRVAEYASRRG---------VPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSE 467
TA+ VA A+RR V VIADGG+ + G + KA+A GA M+GS LA +E
Sbjct: 236 TAIADVA--AARRDYLDETGGRYVHVIADGGIGTSGDIAKAIACGADAVMLGSPLARAAE 293
Query: 468 APGEYFF 474
APG +
Sbjct: 294 APGRGWH 300
Score = 37.5 bits (88), Expect = 0.018
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 104 PLVSSPMDTVTESDMAIAMALCGGIGA----AIGTREAD 138
P+++SPMD V + AI + GG+G + TR D
Sbjct: 49 PIIASPMDAVVSPETAIELGKLGGLGVLNLEGLWTRYED 87
>gnl|CDD|239067 cd02205, CBS_pair, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 52.8 bits (127), Expect = 1e-08
Identities = 28/94 (29%), Positives = 53/94 (56%), Gaps = 7/94 (7%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVD--FLENSANMDLKIEKVMTNVNEIISAQAGIS 268
HG G PV ++ +L+GIVT RD+ E + + + VMT ++++ S
Sbjct: 22 HGISGLPVVDDD---GRLVGIVTERDLLRALAEGGLDPLVTVGDVMTR--DVVTVSPDTS 76
Query: 269 LEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
LEEA ++ + +LP+++D+G L+ ++ R+D+
Sbjct: 77 LEEAAELMLEHGIRRLPVVDDEGRLVGIVTRSDI 110
Score = 43.2 bits (102), Expect = 3e-05
Identities = 18/48 (37%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RD V ++P T+ + L++ +HG G PV ++ +L+GIVT RD+
Sbjct: 1 RDVVTVSPDDTVAEALRLMLEHGISGLPVVDD---DGRLVGIVTERDL 45
Score = 38.9 bits (91), Expect = 0.001
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RD V ++P T+L + ++ +HG PV ++ +L+GIVT D+
Sbjct: 66 RDVVTVSPDTSLEEAAELMLEHGIRRLPVVDD---EGRLVGIVTRSDI 110
Score = 32.0 bits (73), Expect = 0.25
Identities = 9/58 (15%), Positives = 26/58 (44%)
Query: 259 EIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDEN 316
++++ ++ EA ++ + LP+++D G L+ ++ DL ++
Sbjct: 2 DVVTVSPDDTVAEALRLMLEHGISGLPVVDDDGRLVGIVTERDLLRALAEGGLDPLVT 59
>gnl|CDD|240006 cd04635, CBS_pair_22, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 52.1 bits (125), Expect = 3e-08
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 212 GFCGFPVTENGKLGEKLLGIVTSRDV-----------DFLENSANMDLKIEKVMTNVNEI 260
GF G PV + +L+GI+T RD+ D +EK+M+ +
Sbjct: 23 GFTGLPVVQKAG---ELIGIITRRDIIRAGSVRTSVEDQQRTQTKASPTVEKIMST--PV 77
Query: 261 ISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKS 305
S S+ A ++ + G+LP++N+K +L+ ++ R D+ K+
Sbjct: 78 YSVTPDDSIATAVELMLEHDIGRLPVVNEKDQLVGIVDRHDVLKA 122
Score = 35.5 bits (82), Expect = 0.018
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV-----------D 75
R+PV P + KV + + GF G PV + +L+GI+T RD+ D
Sbjct: 1 REPVTCTPDDPVSKVWDLMLESGFTGLPVVQKAG---ELIGIITRRDIIRAGSVRTSVED 57
Query: 76 FLENSANMDLKIEKDLSSPL 95
+EK +S+P+
Sbjct: 58 QQRTQTKASPTVEKIMSTPV 77
>gnl|CDD|233351 TIGR01304, IMP_DH_rel_2, IMP dehydrogenase family protein. This
model represents a family of proteins, often annotated
as a putative IMP dehydrogenase, related to IMP
dehydrogenase and GMP reductase. Most species with a
member of this family belong to the high GC
Gram-positive bacteria, and these also have the IMP
dehydrogenase described by TIGRFAMs equivalog model
TIGR01302 [Unknown function, General].
Length = 369
Score = 55.2 bits (133), Expect = 4e-08
Identities = 23/46 (50%), Positives = 33/46 (71%)
Query: 429 RGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFF 474
R V VIADGG+++ G ++KA+A GA ++GS LA +EAPG +F
Sbjct: 254 RYVHVIADGGIETSGDLVKAIACGADAVVLGSPLARAAEAPGRGYF 299
Score = 29.8 bits (67), Expect = 3.7
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 104 PLVSSPMDTVTESDMAIAMALCGGIGA----AIGTREAD 138
P ++ PMD + + AI + GG+G + R D
Sbjct: 46 PFIAHPMDALVSPEFAIELGELGGLGVLNLEGLWGRHED 84
>gnl|CDD|239958 cd04585, CBS_pair_ACT_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin
is a product of fermentative metabolism in many
prokaryotic and eukaryotic microorganisms. They produce
acetoin as an external carbon storage compound and then
later reuse it as a carbon and energy source during
their stationary phase and sporulation. In addition
these CBS domains are associated with a downstream ACT
domain, which is linked to a wide range of metabolic
enzymes that are regulated by amino acid concentration.
Pairs of ACT domains bind specifically to a particular
amino acid leading to regulation of the linked enzyme.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 122
Score = 50.7 bits (122), Expect = 7e-08
Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 18/98 (18%)
Query: 217 PVTENGKLGEKLLGIVTSRDVD-------FLENSANM-----DLKIEKVMTNVNEIISAQ 264
PV + GKL +GIVT RD+ + + +K+ +MT + I+
Sbjct: 28 PVVDRGKL----VGIVTDRDLKLASPSKATTLDIWELYYLLSKIKVSDIMTR--DPITVS 81
Query: 265 AGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
S+EEA ++ + K LP+++D+G L+ +I +DL
Sbjct: 82 PDASVEEAAELMLERKISGLPVVDDQGRLVGIITESDL 119
Score = 42.6 bits (101), Expect = 5e-05
Identities = 17/48 (35%), Positives = 30/48 (62%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
++P+ + P T+L + L++ K++ PV + G KL+GIVT RD+
Sbjct: 1 KNPITVTPDTSLMEALKLMKENSIRRLPVVDRG----KLVGIVTDRDL 44
Score = 33.4 bits (77), Expect = 0.093
Identities = 12/48 (25%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RDP+ ++P ++ + ++ + G PV ++ +L+GI+T D+
Sbjct: 75 RDPITVSPDASVEEAAELMLERKISGLPVVDD---QGRLVGIITESDL 119
Score = 27.6 bits (62), Expect = 9.0
Identities = 13/43 (30%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 261 ISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLK 303
I+ SL EA +++++ +LP++ D+G+L+ ++ DLK
Sbjct: 4 ITVTPDTSLMEALKLMKENSIRRLPVV-DRGKLVGIVTDRDLK 45
>gnl|CDD|223591 COG0517, COG0517, FOG: CBS domain [General function prediction
only].
Length = 117
Score = 50.5 bits (121), Expect = 8e-08
Identities = 29/95 (30%), Positives = 54/95 (56%), Gaps = 9/95 (9%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV-DFLENSANMDLKIEKVMTNVNEIISAQAGISL 269
+G PV ++GKL +GI+T RD+ L L +++VMT +++ L
Sbjct: 28 NGVSAVPVVDDGKL----VGIITERDILRALAAGGKRLLPVKEVMTKP--VVTVDPDTPL 81
Query: 270 EEA-NVILEKSKKGKLPILNDKG-ELIALIARTDL 302
EEA +++E+ K +LP+++D G +L+ +I +D+
Sbjct: 82 EEALELMVERHKIRRLPVVDDDGGKLVGIITLSDI 116
Score = 44.0 bits (104), Expect = 2e-05
Identities = 20/104 (19%), Positives = 38/104 (36%), Gaps = 14/104 (13%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
+D + + P T++ L + ++G PV ++G KL+GI+T RD+ +
Sbjct: 7 KDVITVKPDTSVRDALLLMSENGVSAVPVVDDG----KLVGIITERDI--------LRAL 54
Query: 87 IEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGA 130
K++ + P + E M I
Sbjct: 55 AAGGKRLLPVKEVMTKPVVTVDPDTPLEE--ALELMVERHKIRR 96
Score = 30.5 bits (69), Expect = 0.77
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 27 RDPVCIAPSTTLGKVLQ-MKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
+ V + P T L + L+ M ++H PV ++ G KL+GI+T D+
Sbjct: 70 KPVVTVDPDTPLEEALELMVERHKIRRLPVVDDD--GGKLVGIITLSDI 116
>gnl|CDD|240073 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 = 52.2 bits (125), Expect = 1e-07
Identities = 30/147 (20%), Positives = 52/147 (35%), Gaps = 4/147 (2%)
Query: 315 ENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSI-YQIEMIKFIKKEYPDMQ 373
+ + A A AG D V + + G +E+I+ +++ PD++
Sbjct: 57 DLPLGVQLAINDAAAAVDIAAAAARAAGADGVEIHGAVGYLAREDLELIRELREAVPDVK 116
Query: 374 VIGGNVLFGYQPRATLLNFIYQIEMIKFIKKEYPDMQVIGRNGTAVYRVAEYASRRGVPV 433
V+ G A ++ + + A + VPV
Sbjct: 117 VVVKLSPTGELAAAAAEE--AGVDEVG-LGNGGGGGGGRDAVPIADLLLILAKRGSKVPV 173
Query: 434 IADGGVQSVGHVMKALALGASTAMMGS 460
IA GG+ +ALALGA ++GS
Sbjct: 174 IAGGGINDPEDAAEALALGADGVIVGS 200
Score = 38.3 bits (89), Expect = 0.004
Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 2/117 (1%)
Query: 96 TKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAGVDVVIL 155
+ + V + A G A A AG D V +
Sbjct: 31 VGTRSSDPEEAETDDKEVLKEVAAETDLPLGVQLAINDAAAAVDIAAAAARAAGADGVEI 90
Query: 156 DSSQGNSI-YQIEMIKYIKKEYPDMQVIGGNVVTTDQ-AKNLIDAGVDGLRVGSHGC 210
+ G +E+I+ +++ PD++V+ T + A +AGVD + +G+ G
Sbjct: 91 HGAVGYLAREDLELIRELREAVPDVKVVVKLSPTGELAAAAAEEAGVDEVGLGNGGG 147
>gnl|CDD|239985 cd04612, CBS_pair_SpoIVFB_EriC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 111
Score = 49.5 bits (119), Expect = 1e-07
Identities = 26/95 (27%), Positives = 50/95 (52%), Gaps = 11/95 (11%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMD---LKIEKVMTNVNEIISAQAGI 267
G+PV ++G+L +GIVT D+ A + + VMT + ++A
Sbjct: 22 ERHRGYPVVDDGRL----VGIVTLADIR--RVPAEGREATVLVGDVMTR--DPVTASPDE 73
Query: 268 SLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+L +A + + G+LP+++D G L+ +++R+DL
Sbjct: 74 TLRDALKRMAERDIGRLPVVDDSGRLVGIVSRSDL 108
Score = 43.8 bits (104), Expect = 2e-05
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 12/89 (13%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
D V + T+ +VL + G+PV ++G +L+GIVT D+ +
Sbjct: 1 PDVVTVPVDLTVDEVLALMFGERHRGYPVVDDG----RLVGIVTLADIR--------RVP 48
Query: 87 IEKDLSSPLTKKITLAAPLVSSPMDTVTE 115
E ++ L + P+ +SP +T+ +
Sbjct: 49 AEGREATVLVGDVMTRDPVTASPDETLRD 77
>gnl|CDD|240116 cd04803, CBS_pair_15, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 49.2 bits (118), Expect = 3e-07
Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 16/103 (15%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV---------DFLENSAN--MDLKIEKVMTNVNE 259
H PV KL+G++T RD+ D E S D+ + +VM +
Sbjct: 22 HRIRHLPVVNEDG---KLVGLLTQRDLLRAALSSLSDNGEESLTKERDVPVAEVMKT--D 76
Query: 260 IISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+++ L EA I+ ++K G LP+++DKG L+ +I R+D
Sbjct: 77 VLTVTPDTPLREAAEIMVENKIGCLPVVDDKGTLVGIITRSDF 119
Score = 35.7 bits (83), Expect = 0.013
Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
V ++ +L ++ ++H PV KL+G++T RD+
Sbjct: 1 SPVVTLSEDDSLADAEELMREHRIRHLPVVNEDG---KLVGLLTQRDL 45
Score = 33.0 bits (76), Expect = 0.12
Identities = 13/60 (21%), Positives = 31/60 (51%)
Query: 259 EIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQ 318
+++ SL +A ++ + + LP++N+ G+L+ L+ + DL ++ S E +
Sbjct: 2 PVVTLSEDDSLADAEELMREHRIRHLPVVNEDGKLVGLLTQRDLLRAALSSLSDNGEESL 61
>gnl|CDD|239972 cd04599, CBS_pair_GGDEF_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
association with the GGDEF (DiGuanylate-Cyclase (DGC))
domain. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 105
Score = 48.2 bits (115), Expect = 4e-07
Identities = 33/93 (35%), Positives = 50/93 (53%), Gaps = 13/93 (13%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFL-ENSANMDLKIEKVMTNVNEIISAQAGISL 269
H G PV E+GKL +GI+TSRDV N D +V+T IS +A SL
Sbjct: 22 HRIGGLPVVEDGKL----VGIITSRDVRRAHPNRLVADAMTREVVT-----ISPEA--SL 70
Query: 270 EEANVILEKSKKGKLPILNDKGELIALIARTDL 302
EA ++E+ K +LP+L + +L+ +I + +
Sbjct: 71 LEAKRLMEEKKIERLPVLRE-RKLVGIITKGTI 102
Score = 48.2 bits (115), Expect = 4e-07
Identities = 21/50 (42%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDF 76
RDP+ I P ++G+ ++ ++H G PV E+G KL+GI+TSRDV
Sbjct: 1 RDPITIDPLDSVGRAARLMEKHRIGGLPVVEDG----KLVGIITSRDVRR 46
Score = 28.5 bits (64), Expect = 3.7
Identities = 12/37 (32%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 268 SLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
S+ A ++EK + G LP++ D G+L+ +I D+++
Sbjct: 11 SVGRAARLMEKHRIGGLPVVED-GKLVGIITSRDVRR 46
>gnl|CDD|239983 cd04610, CBS_pair_ParBc_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a ParBc (ParB-like nuclease) domain
downstream. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found in
a wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 107
Score = 48.2 bits (115), Expect = 5e-07
Identities = 25/91 (27%), Positives = 54/91 (59%), Gaps = 10/91 (10%)
Query: 215 GFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANV 274
GFPV +NGK+ +GIV++RD+ + D +E++M+ +++ A + + +A
Sbjct: 27 GFPVVDNGKV----VGIVSARDLLG----KDPDETVEEIMSK--DLVVAVPEMDIMDAAR 76
Query: 275 ILEKSKKGKLPILNDKGELIALIARTDLKKS 305
++ ++ KLP++++ L+ +I TD+ +S
Sbjct: 77 VMFRTGISKLPVVDENNNLVGIITNTDVIRS 107
Score = 33.9 bits (78), Expect = 0.047
Identities = 19/48 (39%), Positives = 33/48 (68%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RD + ++P T+ V+++ K+ G GFPV +NG K++GIV++RD+
Sbjct: 2 RDVITVSPDNTVKDVIKLIKETGHDGFPVVDNG----KVVGIVSARDL 45
>gnl|CDD|239988 cd04615, CBS_pair_2, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 47.5 bits (113), Expect = 1e-06
Identities = 26/90 (28%), Positives = 51/90 (56%), Gaps = 7/90 (7%)
Query: 217 PVTENGKLGEKLLGIVTSRDV--DFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANV 274
PV ++ K +L+GI+T DV LE+ D K+ +VM + +I+ A S+ +A
Sbjct: 28 PVVDDKK---RLVGIITRYDVLSYALESEELKDAKVREVMNS--PVITIDANDSIAKARW 82
Query: 275 ILEKSKKGKLPILNDKGELIALIARTDLKK 304
++ + +LP+L+DKG++ ++ D+ +
Sbjct: 83 LMSNNNISRLPVLDDKGKVGGIVTEDDILR 112
>gnl|CDD|214522 smart00116, CBS, Domain in cystathionine beta-synthase and other
proteins. Domain present in all 3 forms of cellular
life. Present in two copies in inosine monophosphate
dehydrogenase, of which one is disordered in the
crystal structure. A number of disease states are
associated with CBS-containing proteins including
homocystinuria, Becker's and Thomsen disease.
Length = 49
Score = 45.2 bits (108), Expect = 1e-06
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 28 DPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVD 75
D V ++P TTL + L++ +++G PV + +L+GIVT RD+
Sbjct: 1 DVVTVSPDTTLEEALELLRENGIRRLPVVDE---EGRLVGIVTRRDII 45
Score = 38.6 bits (91), Expect = 3e-04
Identities = 12/46 (26%), Positives = 30/46 (65%)
Query: 259 EIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
++++ +LEEA +L ++ +LP+++++G L+ ++ R D+ K
Sbjct: 1 DVVTVSPDTTLEEALELLRENGIRRLPVVDEEGRLVGIVTRRDIIK 46
>gnl|CDD|239961 cd04588, CBS_pair_CAP-ED_DUF294_assoc_arch, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with the archaeal CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain. Members of
CAP_ED, include CAP which binds cAMP, FNR (fumarate and
nitrate reductase) which uses an iron-sulfur cluster to
sense oxygen, and CooA a heme containing CO sensor. In
all cases binding of the effector leads to
conformational changes and the ability to activate
transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 110
Score = 46.9 bits (112), Expect = 2e-06
Identities = 29/95 (30%), Positives = 49/95 (51%), Gaps = 6/95 (6%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLE 270
H G PV ++GKL +GIVT D+ K++ VMT ++I+ L
Sbjct: 22 HHIHGAPVVDDGKL----VGIVTLSDIAHAIARGLELAKVKDVMTK--DVITIDEDEQLY 75
Query: 271 EANVILEKSKKGKLPILNDKGELIALIARTDLKKS 305
+A ++ K G+L + +D+G + +I RTD+ +S
Sbjct: 76 DAIRLMNKHNVGRLIVTDDEGRPVGIITRTDILRS 110
Score = 29.2 bits (66), Expect = 2.2
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
+ + + P+ TL + ++ H G PV ++G KL+GIVT D+
Sbjct: 1 KPLITLNPNATLREAARLFNTHHIHGAPVVDDG----KLVGIVTLSDI 44
>gnl|CDD|240002 cd04631, CBS_pair_18, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 125
Score = 46.1 bits (110), Expect = 4e-06
Identities = 25/105 (23%), Positives = 52/105 (49%), Gaps = 17/105 (16%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRD-VDFL------------ENSANMDLKIEKVMTNV 257
+GF PV + G KL+GI+T+ D + +L ++ + +MT
Sbjct: 22 NGFRRLPVVDEGT--GKLVGIITATDILKYLGGGEKFNKIKTGNGLEAINEPVRSIMTR- 78
Query: 258 NEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+I+ S+++A ++ + + G LP+++D G+L+ ++ DL
Sbjct: 79 -NVITITPDDSIKDAAELMLEKRVGGLPVVDDDGKLVGIVTERDL 122
Score = 38.8 bits (91), Expect = 0.001
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRD-VDFL 77
+D V + P+T + + ++ ++GF PV + G KL+GI+T+ D + +L
Sbjct: 1 KDVVTVPPTTPIMEAAKIMVRNGFRRLPVVDEGT--GKLVGIITATDILKYL 50
Score = 31.5 bits (72), Expect = 0.48
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
R+ + I P ++ ++ + G PV ++ KL+GIVT RD+
Sbjct: 78 RNVITITPDDSIKDAAELMLEKRVGGLPVVDDD---GKLVGIVTERDL 122
>gnl|CDD|239980 cd04607, CBS_pair_NTP_transferase_assoc, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domain associated with the NTP (Nucleotidyl
transferase) domain downstream. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 113
Score = 45.6 bits (109), Expect = 4e-06
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 11/91 (12%)
Query: 218 VTENGKLGEKLLGIVTSRDVDF---LENSANMDLKIEKVMTNVNEIISAQAGISLEEANV 274
V ENG+L LG VT D D L ++D + +VM N N I+A+ G S EE
Sbjct: 31 VDENGRL----LGTVT--DGDIRRALLKGLSLDDPVSEVM-NRN-PITAKVGSSREEILA 82
Query: 275 ILEKSKKGKLPILNDKGELIALIARTDLKKS 305
++ + LPIL+++G ++ L DL
Sbjct: 83 LMRERSIRHLPILDEEGRVVGLATLDDLLSK 113
>gnl|CDD|240115 cd04802, CBS_pair_3, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 45.8 bits (109), Expect = 4e-06
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 6/81 (7%)
Query: 225 GEKLLGIVTSRDV---DFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKK 281
EK +GI+T RD+ N ++ + +VM+ +I+ SL EA ++ K
Sbjct: 32 NEKPVGIITERDLVKKVVSRNLKPREVPVGEVMST--PLITIDPNASLNEAAKLMAKHGI 89
Query: 282 GKLPILNDKGELIALIARTDL 302
+LP+++D EL+ ++ TD+
Sbjct: 90 KRLPVVDD-DELVGIVTTTDI 109
Score = 31.2 bits (71), Expect = 0.42
Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV---DFLENSANM 83
++ + + P TT+ + + ++ V +N EK +GI+T RD+ N
Sbjct: 1 KNVITVDPDTTVYEAANIMTENNIGRLIVVDN----EKPVGIITERDLVKKVVSRNLKPR 56
Query: 84 DLKIEKDLSSPL 95
++ + + +S+PL
Sbjct: 57 EVPVGEVMSTPL 68
>gnl|CDD|225321 COG2524, COG2524, Predicted transcriptional regulator, contains
C-terminal CBS domains [Transcription].
Length = 294
Score = 47.0 bits (112), Expect = 1e-05
Identities = 23/95 (24%), Positives = 46/95 (48%), Gaps = 6/95 (6%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLE 270
G G PV ++ K+ +GI+T D+ + N+D K+ M +I+ +
Sbjct: 201 KGIRGAPVVDDDKI----VGIITLSDIAKAIANGNLDAKVSDYMRK--NVITINEDEDIY 254
Query: 271 EANVILEKSKKGKLPILNDKGELIALIARTDLKKS 305
+A ++ K+ G+L + + G+ + +I RTD+
Sbjct: 255 DAIRLMNKNNVGRLLVTDSNGKPVGIITRTDILTR 289
Score = 32.3 bits (74), Expect = 0.56
Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 19 KKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLE 78
+K K+ + + + P TL + ++ + G G PV ++ K++GI+T D+
Sbjct: 172 EKVKNLMSKKLITVRPDDTLREAAKLFYEKGIRGAPVVDDD----KIVGIITLSDIAKAI 227
Query: 79 NSANMDLKIEK 89
+ N+D K+
Sbjct: 228 ANGNLDAKVSD 238
>gnl|CDD|240114 cd04801, CBS_pair_M50_like, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
association with the metalloprotease peptidase M50. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 114
Score = 43.8 bits (104), Expect = 2e-05
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 216 FPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVI 275
F V +N + +GI++ D+ + S + +VMT ++++ + SL E +
Sbjct: 28 FVVVDNE---GRYVGIISLADLRAIPTSQWAQTTVIQVMTPAAKLVTVLSEESLAEVLKL 84
Query: 276 LEKSKKGKLPILNDKGELIALIARTDL 302
LE+ +L ++ D G++I LI DL
Sbjct: 85 LEEQGLDELAVVEDSGQVIGLITEADL 111
>gnl|CDD|239994 cd04622, CBS_pair_9, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa
(IMP dehydrogenase-1), and homocystinuria
(cystathionine beta-synthase).
Length = 113
Score = 43.3 bits (103), Expect = 2e-05
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 6/48 (12%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGF-PVTENGKLGEKLLGIVTSRD 73
RD V ++P T+ + ++ ++H G PV EN +L+GIVT RD
Sbjct: 1 RDVVTVSPDDTIREAARLMREHD-VGALPVCEND----RLVGIVTDRD 43
Score = 37.9 bits (89), Expect = 0.002
Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 9/89 (10%)
Query: 217 PVTENGKLGEKLLGIVTSRD--VDFLENSANMD-LKIEKVMTNVNEIISAQAGISLEEAN 273
PV EN +L +GIVT RD V + + D + VMT +++ ++EA
Sbjct: 28 PVCENDRL----VGIVTDRDIVVRAVAEGRDPDTTTVGDVMT--RGVVTVTEDDDVDEAA 81
Query: 274 VILEKSKKGKLPILNDKGELIALIARTDL 302
++ + + +LP+++D G L+ +++ DL
Sbjct: 82 RLMREHQVRRLPVVDDDGRLVGIVSLGDL 110
Score = 28.6 bits (65), Expect = 3.7
Identities = 9/44 (20%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVT 70
R V + + + ++ ++H PV ++ +L+GIV+
Sbjct: 66 RGVVTVTEDDDVDEAARLMREHQVRRLPVVDDDG---RLVGIVS 106
>gnl|CDD|240081 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 = 45.2 bits (108), Expect = 3e-05
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 419 VYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAP 469
V V + +PVIA GG+ + ALALGA MG+ T E+
Sbjct: 148 VPEVRDAVD---IPVIAAGGIADGRGIAAALALGADGVQMGTRFLATEESG 195
Score = 39.8 bits (94), Expect = 0.002
Identities = 31/132 (23%), Positives = 52/132 (39%), Gaps = 41/132 (31%)
Query: 104 PLVSSPMDTVTESDMAIAMALCGGIG---AAIGTREA----------------------- 137
P++ +PM V+ ++A A++ GG+G A T EA
Sbjct: 4 PIIQAPMAGVSTPELAAAVSNAGGLGFIGAGYLTPEALRAEIRKIRALTDKPFGVNLLVP 63
Query: 138 -----DKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTT-DQ 191
+ L++ + GV VV S G +E + K ++VI VT+ ++
Sbjct: 64 SSNPDFEALLEVALEEGVPVVSF--SFGPPAEVVERL----KAA-GIKVIP--TVTSVEE 114
Query: 192 AKNLIDAGVDGL 203
A+ AG D L
Sbjct: 115 ARKAEAAGADAL 126
>gnl|CDD|239957 cd04584, CBS_pair_ACT_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin is
a product of fermentative metabolism in many prokaryotic
and eukaryotic microorganisms. They produce acetoin as
an external carbon storage compound and then later reuse
it as a carbon and energy source during their stationary
phase and sporulation. In addition these CBS domains are
associated with a downstream ACT domain, which is linked
to a wide range of metabolic enzymes that are regulated
by amino acid concentration. Pairs of ACT domains bind
specifically to a particular amino acid leading to
regulation of the linked enzyme. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 121
Score = 43.0 bits (102), Expect = 4e-05
Identities = 27/97 (27%), Positives = 51/97 (52%), Gaps = 17/97 (17%)
Query: 217 PVTENGKLGEKLLGIVTSRDV------DFLENSANM-----DLKIEKVMTNVNEIISAQA 265
PV + +L+GIVT RD+ F S + + ++++MT ++I+
Sbjct: 28 PVVDEEG---RLVGIVTDRDLRDASPSPFTTLSEHELYLLLKMPVKEIMT--KDVITVHP 82
Query: 266 GISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
++EEA +++ + + G LP++ D G L+ +I TDL
Sbjct: 83 LDTVEEAALLMREHRIGCLPVVED-GRLVGIITETDL 118
Score = 41.8 bits (99), Expect = 1e-04
Identities = 13/48 (27%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
+D + + P T+ + + ++H PV E+G +L+GI+T D+
Sbjct: 75 KDVITVHPLDTVEEAALLMREHRIGCLPVVEDG----RLVGIITETDL 118
Score = 39.1 bits (92), Expect = 0.001
Identities = 31/111 (27%), Positives = 49/111 (44%), Gaps = 18/111 (16%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV------DFLENS 80
RD V I P+TT+ + L++ ++H PV + +L+GIVT RD+ F S
Sbjct: 1 RDVVTITPTTTIAEALELMREHKIRHLPVVDEEG---RLVGIVTDRDLRDASPSPFTTLS 57
Query: 81 ANMDLKIEK-DLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGA 130
+ + K + +TK + P+DTV E A + IG
Sbjct: 58 EHELYLLLKMPVKEIMTKD-----VITVHPLDTVEE---AALLMREHRIGC 100
Score = 29.5 bits (67), Expect = 1.7
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV 237
H PV E+G+L +GI+T D+
Sbjct: 96 HRIGCLPVVEDGRL----VGIITETDL 118
Score = 28.4 bits (64), Expect = 4.8
Identities = 9/36 (25%), Positives = 23/36 (63%)
Query: 268 SLEEANVILEKSKKGKLPILNDKGELIALIARTDLK 303
++ EA ++ + K LP+++++G L+ ++ DL+
Sbjct: 11 TIAEALELMREHKIRHLPVVDEEGRLVGIVTDRDLR 46
>gnl|CDD|239203 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 = 45.1 bits (108), Expect = 5e-05
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
A + V+ DGG++ V+KALALGA ++G
Sbjct: 223 AVGGRIEVLLDGGIRRGTDVLKALALGADAVLIG 256
Score = 29.3 bits (67), Expect = 6.0
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 186 VVTTDQAKNLIDAGVDGLRVGSHG 209
++T + A +DAG DG+ V +HG
Sbjct: 180 ILTPEDALRAVDAGADGIVVSNHG 203
>gnl|CDD|201313 pfam00571, CBS, CBS domain. CBS domains are small intracellular
modules that pair together to form a stable globular
domain. This family represents a single CBS domain.
Pairs of these domains have been termed a Bateman
domain. CBS domains have been shown to bind ligands
with an adenosyl group such as AMP, ATP and S-AdoMet.
CBS domains are found attached to a wide range of other
protein domains suggesting that CBS domains may play a
regulatory role making proteins sensitive to adenosyl
carrying ligands. The region containing the CBS domains
in Cystathionine-beta synthase is involved in
regulation by S-AdoMet. CBS domain pairs from AMPK bind
AMP or ATP. The CBS domains from IMPDH and the chloride
channel CLC2 bind ATP.
Length = 57
Score = 40.6 bits (96), Expect = 6e-05
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVT-ENGKLGEKLLGIVTSRDV 74
D V + P T+L + L++ +++G PV E+G KL+GIVT RD+
Sbjct: 6 TPDVVTVPPDTSLEEALELMRENGISRLPVVDEDG----KLVGIVTLRDL 51
Score = 37.5 bits (88), Expect = 7e-04
Identities = 13/55 (23%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 250 IEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
++ +MT ++++ SLEEA ++ ++ +LP++++ G+L+ ++ DL +
Sbjct: 1 VKDIMTP--DVVTVPPDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLLR 53
>gnl|CDD|240004 cd04633, CBS_pair_20, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 121
Score = 42.7 bits (101), Expect = 6e-05
Identities = 26/99 (26%), Positives = 50/99 (50%), Gaps = 19/99 (19%)
Query: 216 FPVTENGKLGEKLLGIVTSRDV------------DFLENSANMDLKIEKVMTNVNEIISA 263
PV E GKL +GIVT +D+ D + +L + +MT +I+
Sbjct: 27 LPVIEGGKL----VGIVTEKDIADALRSFRPLVRDRHQERRIRNLPVSDIMT--RPVITI 80
Query: 264 QAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+ S+ + ++ ++ G LP+++D G+L+ ++ RTD+
Sbjct: 81 EPDTSVSDVASLMLENNIGGLPVVDD-GKLVGIVTRTDI 118
Score = 39.2 bits (92), Expect = 8e-04
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
R + I P T++ V + ++ G PV ++G KL+GIVT D+
Sbjct: 75 RPVITIEPDTSVSDVASLMLENNIGGLPVVDDG----KLVGIVTRTDI 118
Score = 29.9 bits (68), Expect = 1.2
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
+ + ++P + ++ H PV E GKL +GIVT +D+
Sbjct: 1 KPVITVSPDDRVSHARRLMLDHDISRLPVIEGGKL----VGIVTEKDI 44
Score = 28.4 bits (64), Expect = 4.8
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 4/27 (14%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV 237
+ G PV ++G KL+GIVT D+
Sbjct: 96 NNIGGLPVVDDG----KLVGIVTRTDI 118
>gnl|CDD|237843 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 45.2 bits (108), Expect = 9e-05
Identities = 49/286 (17%), Positives = 101/286 (35%), Gaps = 70/286 (24%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDL 85
I PV ++P T+L + + ++ PV + KLLG+V+ D+ A MD+
Sbjct: 75 IDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDE---EGKLLGLVSLSDL----ARAYMDI 127
Query: 86 KIEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLL 145
+ LS + ++ + + + + + +
Sbjct: 128 LDPEILSK------------SPTSLENIIRT-----------LDGEVLVGAEEDKVEEG- 163
Query: 146 SQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRV 205
VV+ E + +E D+ ++G D I+AGV L
Sbjct: 164 -----KVVVA-------AMAPESLLERIEEG-DIVIVGDR---EDIQLAAIEAGVRLL-- 205
Query: 206 GSHGCHGFCGFPVTENGKLGEKLLG---------IVTSRDVDFLENSANMDLKIEKVMTN 256
+T + E +L I T D N + + +MT
Sbjct: 206 -----------IITGGAPVSEDVLELAKENGVTVISTPYDTFTTARLINQSIPVSYIMTT 254
Query: 257 VNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+ +++ LE+ ++ KS+ P++++ G+++ +I+R L
Sbjct: 255 ED-LVTFSKDDYLEDVKEVMLKSRYRSYPVVDEDGKVVGVISRYHL 299
Score = 29.4 bits (67), Expect = 6.0
Identities = 15/61 (24%), Positives = 37/61 (60%), Gaps = 5/61 (8%)
Query: 250 IEKVMTNV-----NEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
IE V V ++ ++ SL+EA +++++ LP+++++G+L+ L++ +DL +
Sbjct: 63 IEDVKPQVRDLEIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEEGKLLGLVSLSDLAR 122
Query: 305 S 305
+
Sbjct: 123 A 123
>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 302
Score = 44.4 bits (106), Expect = 9e-05
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
+ R +PV+ DGG++ V+KALALGA ++G
Sbjct: 218 IVAAVGGR-IPVLVDGGIRRGTDVLKALALGADAVLLG 254
>gnl|CDD|239973 cd04600, CBS_pair_HPP_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains
associated with the HPP motif domain. These proteins are
integral membrane proteins with four transmembrane
spanning helices. The function of these proteins is
uncertain, but they are thought to be transporters. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 124
Score = 41.9 bits (99), Expect = 9e-05
Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 26/134 (19%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
RD V + P T+L + + ++H PV + + +L+GIVT R D L A D +
Sbjct: 2 RDVVTVTPDTSLEEAWALLRRHRIKALPVVDGDR---RLVGIVTQR--DLLR-HARPDGR 55
Query: 87 IEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGAAIGTREADKYRLKLLS 146
K ++S P+ TV D IA L + LL+
Sbjct: 56 RPLRGRLRGRDKPETVGDIMSPPVVTVRP-DTPIA-EL-----------------VPLLA 96
Query: 147 QAGVD-VVILDSSQ 159
G V ++D +
Sbjct: 97 DGGHHHVPVVDEDR 110
Score = 33.4 bits (77), Expect = 0.091
Identities = 19/105 (18%), Positives = 42/105 (40%), Gaps = 19/105 (18%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV-------------DFLENSANMDLKIEKVMTNV 257
H PV + + +L+GIVT RD+ L + +M+
Sbjct: 23 HRIKALPVVDGDR---RLVGIVTQRDLLRHARPDGRRPLRGRLRGRD-KPETVGDIMSP- 77
Query: 258 NEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+++ + + E +L +P++++ L+ ++ +TDL
Sbjct: 78 -PVVTVRPDTPIAELVPLLADGGHHHVPVVDEDRRLVGIVTQTDL 121
Score = 29.2 bits (66), Expect = 2.5
Identities = 11/49 (22%), Positives = 26/49 (53%)
Query: 259 EIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRD 307
++++ SLEEA +L + + LP+++ L+ ++ + DL +
Sbjct: 3 DVVTVTPDTSLEEAWALLRRHRIKALPVVDGDRRLVGIVTQRDLLRHAR 51
>gnl|CDD|224223 COG1304, idi, Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and
related proteins) [Coenzyme transport and metabolism].
Length = 360
Score = 44.2 bits (105), Expect = 1e-04
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 418 AVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG-----SLLAGTSEA 468
++ + E R + VIADGG++S V KALALGA +G L AG
Sbjct: 262 SLPEIVEAVGDR-IEVIADGGIRSGLDVAKALALGADAVGIGRPFLYGLAAGGEAG 316
>gnl|CDD|224981 COG2070, COG2070, Dioxygenases related to 2-nitropropane
dioxygenase [General function prediction only].
Length = 336
Score = 43.9 bits (104), Expect = 2e-04
Identities = 18/42 (42%), Positives = 22/42 (52%)
Query: 428 RRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAP 469
G+PVIA GG+ + ALALGA MG+ T EA
Sbjct: 182 VDGIPVIAAGGIADGRGIAAALALGADGVQMGTRFLATKEAD 223
Score = 35.4 bits (82), Expect = 0.065
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 91 LSSPLTKKITLAAPLVSSPMDTVTESDMAIAMALCGGIGA-AIGTREADKYR 141
LS+ + + P++ M V+ ++A A++ GG+G A G A++ R
Sbjct: 3 LSTRFILLLGIKYPIIQGGMAGVSTPELAAAVSNAGGLGIIASGGLPAEQLR 54
>gnl|CDD|225979 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 43.3 bits (102), Expect = 3e-04
Identities = 23/99 (23%), Positives = 43/99 (43%), Gaps = 12/99 (12%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTN--VNEIIS-----A 263
H PV + +L+GIVT RD L+++ + + + V I++
Sbjct: 274 HRIKALPVLDEH---RRLVGIVTQRD--LLKHARPSPFQRLRFLRPPTVKGIMTTPVVTV 328
Query: 264 QAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
+ E L LP+L+ G+L+ ++++TDL
Sbjct: 329 RPDTPAVELVPRLADEGLHALPVLDAAGKLVGIVSQTDL 367
Score = 39.0 bits (91), Expect = 0.005
Identities = 28/126 (22%), Positives = 56/126 (44%), Gaps = 13/126 (10%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
RD V ++ T++ ++ ++H PV + +L+GIVT R D L+++ +
Sbjct: 253 RDVVTVSTDTSIDHARKLLQEHRIKALPVLDE---HRRLVGIVTQR--DLLKHARPSPFQ 307
Query: 87 IEKDLSSPLTKKITLAAPLVSSPMDTVTESDMAIAMA--LCGGIGAAIGTREADKYRLKL 144
+ L P K I +++P+ TV A+ + L A+ +A + +
Sbjct: 308 RLRFLRPPTVKGI------MTTPVVTVRPDTPAVELVPRLADEGLHALPVLDAAGKLVGI 361
Query: 145 LSQAGV 150
+SQ +
Sbjct: 362 VSQTDL 367
Score = 32.5 bits (74), Expect = 0.70
Identities = 20/106 (18%), Positives = 49/106 (46%), Gaps = 11/106 (10%)
Query: 253 VMTNVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDL-KKSRDYP-- 309
+M+ ++++ S++ A +L++ + LP+L++ L+ ++ + DL K +R P
Sbjct: 250 IMSR--DVVTVSTDTSIDHARKLLQEHRIKALPVLDEHRRLVGIVTQRDLLKHARPSPFQ 307
Query: 310 --DSSKDENNQLIVGAAIGTREADK---NRLKLLSQAGVD-VVILD 349
+ + I+ + T D + L+ G+ + +LD
Sbjct: 308 RLRFLRPPTVKGIMTTPVVTVRPDTPAVELVPRLADEGLHALPVLD 353
>gnl|CDD|239995 cd04623, CBS_pair_10, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 113
Score = 39.4 bits (93), Expect = 5e-04
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
R+ + + P T+ + + + + F PV + G KL+GIV+ DV
Sbjct: 67 RNVITVTPDDTVDEAMALMTERRFRHLPVVDGG----KLVGIVSIGDV 110
Score = 31.3 bits (72), Expect = 0.43
Identities = 11/48 (22%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RD + + P T+ + ++ + V ++G +L+GI + RD+
Sbjct: 1 RDVITVRPDATVAEAAKLMAEKNIGAVVVVDDG---GRLVGIFSERDI 45
Score = 30.9 bits (71), Expect = 0.48
Identities = 21/95 (22%), Positives = 50/95 (52%), Gaps = 15/95 (15%)
Query: 217 PVTENGKLGEKLLGIVTSRDVD---FLENSANMDLKIEKVMTNVNEIISAQAGISLEEAN 273
V ++G +L+GI + RD+ L ++ +D + ++MT +I+ +++EA
Sbjct: 28 VVVDDG---GRLVGIFSERDIVRKVALRGASALDTPVSEIMT--RNVITVTPDDTVDEA- 81
Query: 274 VILEKSKKGK---LPILNDKGELIALIARTDLKKS 305
+ + + LP++ D G+L+ +++ D+ K+
Sbjct: 82 --MALMTERRFRHLPVV-DGGKLVGIVSIGDVVKA 113
>gnl|CDD|240008 cd04637, CBS_pair_24, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 122
Score = 39.6 bits (93), Expect = 5e-04
Identities = 23/104 (22%), Positives = 49/104 (47%), Gaps = 14/104 (13%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDV-----DFLENSANMDLKIEKVMTNVNEIISAQ- 264
H F V E+ +L +G+++ RD FL + + + + ++I++
Sbjct: 22 HKFHHLLVVEDNEL----VGVISDRDYLKAISPFLGTAGETEKDLATLNRRAHQIMTRDP 77
Query: 265 ----AGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
++EA+ +L ++ LP++++ G+LI +I DL K
Sbjct: 78 ITVSPDTPVDEASKLLLENSISCLPVVDENGQLIGIITWKDLLK 121
Score = 38.5 bits (90), Expect = 0.001
Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 14/78 (17%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV-----DFLENSA 81
V + L +V ++ ++H F V E+ +L+G+++ RD FL +
Sbjct: 1 TRVVTVEMDDRLEEVREIFEKHKFHHLLVVEDN----ELVGVISDRDYLKAISPFLGTAG 56
Query: 82 NMDLKIEKDLSSPLTKKI 99
EKDL + L ++
Sbjct: 57 ET----EKDL-ATLNRRA 69
Score = 37.3 bits (87), Expect = 0.004
Identities = 12/48 (25%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RDP+ ++P T + + ++ ++ PV + +L+GI+T +D+
Sbjct: 75 RDPITVSPDTPVDEASKLLLENSISCLPVVDE---NGQLIGIITWKDL 119
>gnl|CDD|233287 TIGR01137, cysta_beta, cystathionine beta-synthase. Members of
this family closely resemble cysteine synthase but
contain an additional C-terminal CBS domain. The
function of any bacterial member included in this family
is proposed but not proven [Amino acid biosynthesis,
Serine family].
Length = 454
Score = 42.5 bits (100), Expect = 5e-04
Identities = 29/95 (30%), Positives = 46/95 (48%), Gaps = 8/95 (8%)
Query: 14 EVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPV-TENGKLGEKLLGIVTSR 72
+VLK K + PV + P+ T+G +++ +++GF PV TE G K+LG VT R
Sbjct: 330 DVLKNATVKDLHLPAPVTVHPTETVGDAIEILREYGFDQLPVVTEAG----KVLGSVTLR 385
Query: 73 DV--DFLENSANMDLKIEKDLSSPLTKKITLAAPL 105
++ AN D + K +S +I L
Sbjct: 386 ELLSALFAGKANPDDAVSKVMSKKF-IQIGEGEKL 419
>gnl|CDD|240009 cd04638, CBS_pair_25, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 106
Score = 39.3 bits (92), Expect = 6e-04
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
RDP ++P + + ++ ++ PV + KL+GIVT D+
Sbjct: 60 RDPPTVSPDDDVKEAAKLMVENNIRRVPVVD----DGKLVGIVTVADI 103
Score = 34.7 bits (80), Expect = 0.024
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 16/89 (17%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
+ V + T VL++ K++ G PV + +L+GI+T +D+ L N
Sbjct: 1 ENVVYVTLPGTRDDVLELLKEYKVSGVPVVKK---SGELVGIITRKDL--LRNPE----- 50
Query: 87 IEKDLSSPLTKKITLAAPLVSSPMDTVTE 115
E+ L+ +T+ P SP D V E
Sbjct: 51 -EEQLALLMTRD-----PPTVSPDDDVKE 73
Score = 30.8 bits (70), Expect = 0.50
Identities = 10/33 (30%), Positives = 21/33 (63%)
Query: 275 ILEKSKKGKLPILNDKGELIALIARTDLKKSRD 307
+L++ K +P++ GEL+ +I R DL ++ +
Sbjct: 18 LLKEYKVSGVPVVKKSGELVGIITRKDLLRNPE 50
Score = 27.3 bits (61), Expect = 9.4
Identities = 18/91 (19%), Positives = 43/91 (47%), Gaps = 10/91 (10%)
Query: 212 GFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEE 271
G PV + +L+GI+T +D+ L N L + + + ++E
Sbjct: 23 KVSGVPVVKKS---GELVGIITRKDL--LRNPEEEQL----ALLMTRDPPTVSPDDDVKE 73
Query: 272 ANVILEKSKKGKLPILNDKGELIALIARTDL 302
A ++ ++ ++P+++D G+L+ ++ D+
Sbjct: 74 AAKLMVENNIRRVPVVDD-GKLVGIVTVADI 103
>gnl|CDD|239960 cd04587, CBS_pair_CAP-ED_DUF294_PBI_assoc, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 113
Score = 39.1 bits (92), Expect = 9e-04
Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 11/84 (13%)
Query: 225 GEKLLGIVTSRDVDFLENSANMDLK---IEKVMTNVNEIISAQAGISLEEANVILEKSKK 281
G KL+GI TS+D+ + +D + +E+VMT ++ + EA L +
Sbjct: 32 GNKLVGIFTSKDIALRVVAQGLDPESTLVERVMTPNPVCATSDTPVL--EA---LHLMVQ 86
Query: 282 GK---LPILNDKGELIALIARTDL 302
GK LP+++ G+++ L+ T L
Sbjct: 87 GKFRHLPVVDKSGQVVGLLDVTKL 110
Score = 30.7 bits (70), Expect = 0.68
Identities = 15/47 (31%), Positives = 28/47 (59%), Gaps = 6/47 (12%)
Query: 29 PVCIAPSTTLGKVLQ-MKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
P ++P+TT+ + + M+++ C V + G KL+GI TS+D+
Sbjct: 3 PATVSPTTTVQEAAKLMREKRVSCVL-VMD----GNKLVGIFTSKDI 44
>gnl|CDD|239968 cd04595, CBS_pair_DHH_polyA_Pol_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with an upstream DHH domain which
performs a phosphoesterase function and a downstream
polyA polymerase domain. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 38.0 bits (89), Expect = 0.002
Identities = 22/92 (23%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLE 270
+G PV E G +++GI++ RDV+ ++ M+ ++++ L
Sbjct: 23 YGHTALPVVE----GGRVVGIISRRDVEKALRHGLGHAPVKDYMS--TDVVTVPPDTPLS 76
Query: 271 EANVILEKSKKGKLPILNDKGELIALIARTDL 302
E ++ + G++P++ D G L+ ++ RTDL
Sbjct: 77 EVQELMVEHDIGRVPVVED-GRLVGIVTRTDL 107
Score = 32.6 bits (75), Expect = 0.12
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 29 PV-CIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVD 75
PV + P T+ + ++ ++G PV E G +++GI++ RDV+
Sbjct: 3 PVKTVRPEATIEEARELLLRYGHTALPVVE----GGRVVGIISRRDVE 46
Score = 32.6 bits (75), Expect = 0.12
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 7/57 (12%)
Query: 18 VKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
VK Y D V + P T L +V ++ +H PV E+G+L +GIVT D+
Sbjct: 58 VKDY---MSTDVVTVPPDTPLSEVQELMVEHDIGRVPVVEDGRL----VGIVTRTDL 107
Score = 32.2 bits (74), Expect = 0.17
Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 20/86 (23%)
Query: 260 IISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKS----------RDY- 308
+ + + ++EEA +L + LP++ G ++ +I+R D++K+ +DY
Sbjct: 4 VKTVRPEATIEEARELLLRYGHTALPVVEG-GRVVGIISRRDVEKALRHGLGHAPVKDYM 62
Query: 309 --------PDSSKDENNQLIVGAAIG 326
PD+ E +L+V IG
Sbjct: 63 STDVVTVPPDTPLSEVQELMVEHDIG 88
>gnl|CDD|239992 cd04620, CBS_pair_7, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 115
Score = 37.7 bits (88), Expect = 0.002
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 22/96 (22%)
Query: 218 VTENGKLGEKLLGIVTSRDVDFLENSA--NMDLKIEKVMTNVNEIISAQAGISLEEANV- 274
V E G+L LGI T RD+ L DL I +VMT Q ++L+E+ +
Sbjct: 30 VVEKGRL----LGIFTERDIVRLTAIGKDLSDLPIGEVMT--------QPVVTLQESEIQ 77
Query: 275 -------ILEKSKKGKLPILNDKGELIALIARTDLK 303
+ + + LP+L+D+G+LI L+ ++
Sbjct: 78 DIFTALSLFRQHQIRHLPVLDDQGQLIGLVTAESIR 113
Score = 29.6 bits (67), Expect = 1.7
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 18/92 (19%)
Query: 27 RDPVCIAPSTTLGKVL-QMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDL 85
R P+ + P T + + M +Q V E G+L LGI T RD+ L
Sbjct: 1 RHPLTVTPDTPVADAIALMSQQGDSSCVLVVEKGRL----LGIFTERDIVRL-------T 49
Query: 86 KIEKDLSSPLTKKITLAAPLVSSPMDTVTESD 117
I KDLS +++ P+ T+ ES+
Sbjct: 50 AIGKDLSD------LPIGEVMTQPVVTLQESE 75
>gnl|CDD|239969 cd04596, CBS_pair_DRTGG_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 108
Score = 37.6 bits (88), Expect = 0.002
Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 17/94 (18%)
Query: 216 FPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANV- 274
FPV + K++GIVTS+DV + D IEKVMT I+ S+ A+V
Sbjct: 28 FPVVDEKN---KVVGIVTSKDV----AGKDPDTTIEKVMT--KNPITVNPKTSV--ASVA 76
Query: 275 ---ILEKSKKGKLPILNDKGELIALIARTDLKKS 305
I E + LP+++D +L+ +I+R D+ K+
Sbjct: 77 HMMIWEGIE--MLPVVDDNKKLLGIISRQDVLKA 108
Score = 33.4 bits (77), Expect = 0.069
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
++P+ + P T++ V M G PV ++ K KLLGI++ +DV
Sbjct: 61 KNPITVNPKTSVASVAHMMIWEGIEMLPVVDDNK---KLLGIISRQDV 105
Score = 31.0 bits (71), Expect = 0.41
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 16/87 (18%)
Query: 28 DPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKI 87
D + + T+ ++ K+ G FPV + K++GIVTS+DV
Sbjct: 3 DTGYLTTTDTVKDWHELNKETGHSRFPVVDEKN---KVVGIVTSKDV------------A 47
Query: 88 EKDLSSPLTKKITLAAPLVSSPMDTVT 114
KD + + K +T P+ +P +V
Sbjct: 48 GKDPDTTIEKVMT-KNPITVNPKTSVA 73
>gnl|CDD|217344 pfam03060, NMO, Nitronate monooxygenase. Nitronate monooxygenase
(NMO), formerly referred to as 2-nitropropane
dioxygenase (NPD) (EC:1.13.11.32), is an FMN-dependent
enzyme that uses molecular oxygen to oxidize (anionic)
alkyl nitronates and, in the case of the enzyme from
Neurospora crassa, (neutral) nitroalkanes to the
corresponding carbonyl compounds and nitrite. Previously
classified as 2-nitropropane dioxygenase, but it is now
recognized that this was the result of the slow
ionization of nitroalkanes to their nitronate (anionic)
forms. The enzymes from the fungus Neurospora crassa and
the yeast Williopsis saturnus var. mrakii (formerly
classified as Hansenula mrakii) contain non-covalently
bound FMN as the cofactor. Active towards linear alkyl
nitronates of lengths between 2 and 6 carbon atoms and,
with lower activity, towards propyl-2-nitronate. The
enzyme from N. crassa can also utilize neutral
nitroalkanes, but with lower activity. One atom of
oxygen is incorporated into the carbonyl group of the
aldehyde product. The reaction appears to involve the
formation of an enzyme-bound nitronate radical and an
a-peroxynitroethane species, which then decomposes,
either in the active site of the enzyme or after
release, to acetaldehyde and nitrite.
Length = 329
Score = 40.1 bits (94), Expect = 0.003
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 421 RVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAP 469
V + +PVIA GG+ + ALALGA +G+ T EA
Sbjct: 186 TVVDAVD---IPVIAAGGIADGRGIAAALALGAEGVQIGTRFLATKEAD 231
>gnl|CDD|240113 cd04800, CBS_pair_CAP-ED_DUF294_PBI_assoc2, This cd contains two
tandem repeats of the cystathionine beta-synthase (CBS
pair) domains associated with either the CAP_ED (cAMP
receptor protein effector domain) family of
transcription factors and the DUF294 domain or the PB1
(Phox and Bem1p) domain. Members of CAP_ED, include CAP
which binds cAMP, FNR (fumarate and nitrate reductase)
which uses an iron-sulfur cluster to sense oxygen, and
CooA a heme containing CO sensor. In all cases binding
of the effector leads to conformational changes and the
ability to activate transcription. DUF294 is a putative
nucleotidyltransferase with a conserved DxD motif. The
PB1 domain adopts a beta-grasp fold, similar to that
found in ubiquitin and Ras-binding domains. A motif,
variously termed OPR, PC and AID, represents the most
conserved region of the majority of PB1 domains, and is
necessary for PB1 domain function. This function is the
formation of PB1 domain heterodimers, although not all
PB1 domain pairs associate. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 37.5 bits (88), Expect = 0.003
Identities = 12/47 (25%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRD 73
P+ I P T+ + L + + G PV ++G +L+G++++ D
Sbjct: 65 APPITIPPDATVFEALLLMLERGIHHLPVVDDG----RLVGVISATD 107
Score = 37.5 bits (88), Expect = 0.003
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
R PV +P TT+ + ++ +H V ++G +L+GIVT RD+
Sbjct: 1 RPPVTCSPDTTIREAARLMTEHRVSSLLVVDDG----RLVGIVTDRDL 44
Score = 36.3 bits (85), Expect = 0.008
Identities = 26/87 (29%), Positives = 46/87 (52%), Gaps = 9/87 (10%)
Query: 218 VTENGKLGEKLLGIVTSRDVDF--LENSANMDLKIEKVMTNVNEIISAQAGISLEEANVI 275
V ++G+L +GIVT RD+ + + D + +VMT I A ++ EA ++
Sbjct: 29 VVDDGRL----VGIVTDRDLRNRVVAEGLDPDTPVSEVMTAPPITIPPDA--TVFEALLL 82
Query: 276 LEKSKKGKLPILNDKGELIALIARTDL 302
+ + LP++ D G L+ +I+ TDL
Sbjct: 83 MLERGIHHLPVV-DDGRLVGVISATDL 108
>gnl|CDD|240007 cd04636, CBS_pair_23, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 132
Score = 38.1 bits (89), Expect = 0.003
Identities = 11/48 (22%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
+ + + TT+ V ++ + PV ++G KL+GI++ D+
Sbjct: 86 KKVITVDEDTTIEDVARIMSKKNIKRLPVVDDG----KLVGIISRGDI 129
>gnl|CDD|215294 PLN02535, PLN02535, glycolate oxidase.
Length = 364
Score = 39.0 bits (91), Expect = 0.005
Identities = 24/54 (44%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVR 479
A VPV+ DGGV+ V KALALGA ++G + A GE DGVR
Sbjct: 274 AVGGRVPVLLDGGVRRGTDVFKALALGAQAVLVGRPVIYGLAAKGE----DGVR 323
>gnl|CDD|240080 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 = 38.3 bits (90), Expect = 0.005
Identities = 61/234 (26%), Positives = 84/234 (35%), Gaps = 85/234 (36%)
Query: 259 EIISAQA---------GISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYP 309
EI++A A GI I + LPI I LI RDYP
Sbjct: 27 EIMAAMALAAVQGGAVGIRANGVEDIRAIRARVDLPI-------IGLI-------KRDYP 72
Query: 310 DSSKDENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQ-----GNSIYQIEMIKF 364
DS + + I E D L+ AG D++ LD++ G ++ E+IK
Sbjct: 73 DSE------VYITPTI--EEVDA-----LAAAGADIIALDATDRPRPDGETLA--ELIKR 117
Query: 365 IKKEY--PDM------------QVIG----GNVLFGYQPRATLLNFIYQIEMIKFIKKEY 406
I +EY M +G G L GY K E
Sbjct: 118 IHEEYNCLLMADISTLEEALNAAKLGFDIIGTTLSGYTEETA--------------KTED 163
Query: 407 PDMQVIGRNGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGS 460
PD +++ E G+PVIA+G + S KAL LGA ++GS
Sbjct: 164 PDFELLK----------ELRKALGIPVIAEGRINSPEQAAKALELGADAVVVGS 207
>gnl|CDD|239984 cd04611, CBS_pair_PAS_GGDEF_DUF1_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with a PAS domain, a GGDEF
(DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain
downstream. PAS domains have been found to bind ligands,
and to act as sensors for light and oxygen in signal
transduction. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 36.4 bits (85), Expect = 0.006
Identities = 23/75 (30%), Positives = 45/75 (60%), Gaps = 3/75 (4%)
Query: 229 LGIVTSRD-VDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPIL 287
LGIVT RD + L + ++ + +VM++ +++ A SL +A ++ + L ++
Sbjct: 36 LGIVTERDILRLLASGPDLQTPVGEVMSS--PLLTVPADTSLYDARQLMREHGIRHLVVV 93
Query: 288 NDKGELIALIARTDL 302
+D GEL+ L+++TDL
Sbjct: 94 DDDGELLGLLSQTDL 108
Score = 31.8 bits (73), Expect = 0.26
Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 20/93 (21%)
Query: 27 RDPVCIAPSTTLGKVLQ-MKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDL 85
+ P T+L + M+++ V ++G + LGIVT RD+ L
Sbjct: 1 TQILTCPPDTSLAEAASRMRERRISSIV-VVDDG----RPLGIVTERDI----------L 45
Query: 86 KIEKDLSSPLTKKITLAAPLVSSPMDTVTESDM 118
++ S P + T ++SSP+ TV
Sbjct: 46 RL--LASGPDLQ--TPVGEVMSSPLLTVPADTS 74
Score = 28.3 bits (64), Expect = 4.4
Identities = 12/48 (25%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 29 PV-CIAPSTTLGKVLQMKKQHGFCGFPVT-ENGKLGEKLLGIVTSRDV 74
P+ + T+L Q+ ++HG V ++G +LLG+++ D+
Sbjct: 65 PLLTVPADTSLYDARQLMREHGIRHLVVVDDDG----ELLGLLSQTDL 108
>gnl|CDD|239202 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 = 39.1 bits (92), Expect = 0.006
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 424 EYASRRGVPVIADGGVQSVGHVMKALALGA-----STAMM 458
+ R V +IA GG+++ V KALALGA TA +
Sbjct: 279 KNGLRDRVSLIASGGLRTGADVAKALALGADAVGIGTAAL 318
>gnl|CDD|239982 cd04609, CBS_pair_PALP_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the pyridoxal-phosphate (PALP)
dependent enzyme domain upstream. The vitamin B6
complex comprises pyridoxine, pyridoxal, and
pyridoxamine, as well as the 5'-phosphate esters of
pyridoxal (PALP) and pyridoxamine, the last two being
the biologically active coenzyme derivatives. The
members of the PALP family are principally involved in
the biosynthesis of amino acids and amino acid-derived
metabolites, but they are also found in the
biosynthetic pathways of amino sugars and other
amine-containing compounds. CBS is a small domain
originally identified in cystathionine beta-synthase
and subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The
interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains.
It has been proposed that the CBS domain may play a
regulatory role, although its exact function is
unknown.
Length = 110
Score = 36.0 bits (84), Expect = 0.010
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV-DFL-ENSANMD 84
D V +AP T+ + ++ +++G PV ++G +++G + D+ D L E A
Sbjct: 1 GDVVSVAPDDTVSQAIERMREYGVSQLPVVDDG----RVVGSIDESDLLDALIEGKAKFS 56
Query: 85 LKIEKDLSSPL 95
L + + + PL
Sbjct: 57 LPVREVMGEPL 67
>gnl|CDD|239978 cd04605, CBS_pair_MET2_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the MET2 domain. Met2 is a key enzyme in
the biosynthesis of methionine. It encodes a homoserine
transacetylase involved in converting homoserine to
O-acetyl homoserine. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 35.7 bits (83), Expect = 0.013
Identities = 30/124 (24%), Positives = 56/124 (45%), Gaps = 20/124 (16%)
Query: 181 VIGGNVVTTDQAKNLIDAGVDGLRVGSHGCHGFCGFPVTENGKLGEKLLGIVTSRDVDFL 240
I + + AK +I+ ++ L V V E+G+L +GIVTS D+
Sbjct: 6 TISEDASIKEAAKLMIEENINHLPV------------VDEDGRL----VGIVTSWDIS-- 47
Query: 241 ENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIART 300
+ A +E +MT +I+A ++ A +E+ LP+++ + +I +I
Sbjct: 48 KAVARDKKSVEDIMTR--NVITATPDEPIDVAARKMERHNISALPVVDAENRVIGIITSE 105
Query: 301 DLKK 304
D+ K
Sbjct: 106 DISK 109
Score = 29.2 bits (66), Expect = 2.0
Identities = 9/47 (19%), Positives = 26/47 (55%)
Query: 259 EIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKS 305
+++ S++EA ++ + LP++++ G L+ ++ D+ K+
Sbjct: 3 PVVTISEDASIKEAAKLMIEENINHLPVVDEDGRLVGIVTSWDISKA 49
>gnl|CDD|239448 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 = 38.0 bits (89), Expect = 0.013
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 421 RVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
+ E A + V+ D GV++ +MKALALGA ++G
Sbjct: 300 EIVE-AVGDRLTVLFDSGVRTGADIMKALALGAKAVLIG 337
>gnl|CDD|240003 cd04632, CBS_pair_19, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 128
Score = 35.9 bits (83), Expect = 0.014
Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVT-ENGKLGEKLLGIVTSRD-VDFL---ENSA 81
D + + ++GK + + ++HG PV +NG KL GIVT D VDF+ + A
Sbjct: 1 EDVITVREDDSVGKAINVLREHGISRLPVVDDNG----KLTGIVTRHDIVDFVVRDRDKA 56
Query: 82 NM-DL--KIEKDLSSPLTKKITLAAPLVS-SPMDTVTESDMAIAMALCGGIGAAIGTREA 137
D + E+ L P+ ++ +P+++ SP D+V + A+ L + +
Sbjct: 57 RTGDRSGEKERMLDLPVYDAMS--SPVITASPNDSVRD---AVDRMLENDDSSVVVVTPD 111
Query: 138 D 138
D
Sbjct: 112 D 112
>gnl|CDD|239979 cd04606, CBS_pair_Mg_transporter, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domain in the magnesium transporter, MgtE. MgtE and its
homologs are found in eubacteria, archaebacteria, and
eukaryota. Members of this family transport Mg2+ or
other divalent cations into the cell via two highly
conserved aspartates. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 109
Score = 35.2 bits (82), Expect = 0.015
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 226 EKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLP 285
+LLG+V+ RD+ L A+ D + +M ++IS A EE + EK LP
Sbjct: 35 GRLLGVVSLRDL--L--LADPDTPVSDIMDT--DVISVSADDDQEEVARLFEKYDLLALP 88
Query: 286 ILNDKGELI 294
+++++G L+
Sbjct: 89 VVDEEGRLV 97
Score = 29.4 bits (67), Expect = 1.7
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVT-ENGKLGEKLLGIVTSRDV 74
D + ++ +V ++ +++ PV E G+L +GI+T DV
Sbjct: 60 DTDVISVSADDDQEEVARLFEKYDLLALPVVDEEGRL----VGIITVDDV 105
>gnl|CDD|240088 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 = 37.4 bits (87), Expect = 0.016
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
+AE + R VP+I D GV+ HV KALA GA +G
Sbjct: 269 IAEAVNHR-VPIIFDSGVRRGEHVFKALASGADAVAVG 305
>gnl|CDD|235577 PRK05718, PRK05718,
keto-hydroxyglutarate-aldolase/keto-deoxy-
phosphogluconate aldolase; Provisional.
Length = 212
Score = 36.8 bits (86), Expect = 0.017
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 166 IEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
+E I+ I KE P+ + G V+ +Q I+AG
Sbjct: 54 LEAIRLIAKEVPEALIGAGTVLNPEQLAQAIEAGAQ 89
Score = 31.0 bits (71), Expect = 1.3
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 26/79 (32%)
Query: 396 IEMIKFIKKEYPDMQVIGRNGT--------------AVYRV--------AEYASRRGVPV 433
+E I+ I KE P+ +IG GT A + V + A +P+
Sbjct: 54 LEAIRLIAKEVPEA-LIGA-GTVLNPEQLAQAIEAGAQFIVSPGLTPPLLKAAQEGPIPL 111
Query: 434 IADGGVQSVGHVMKALALG 452
I GV + +M + LG
Sbjct: 112 IP--GVSTPSELMLGMELG 128
>gnl|CDD|240087 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 = 37.5 bits (87), Expect = 0.017
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG-SLLAGTSEAPGEYFFSDGVRL 480
+AE + PV+ D G++ ++KALALGA+ ++G + L G + A GE S+ +RL
Sbjct: 281 LAEIVAATYKPVLIDSGIRRGSDIVKALALGANAVLLGRATLYGLA-ARGEAGVSEVLRL 339
Query: 481 KK 482
K
Sbjct: 340 LK 341
>gnl|CDD|239956 cd04583, CBS_pair_ABC_OpuCA_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with the ABC transporter OpuCA.
OpuCA is the ATP binding component of a bacterial solute
transporter that serves a protective role to cells
growing in a hyperosmolar environment but the function
of the CBS domains in OpuCA remains unknown. In the
related ABC transporter, OpuA, the tandem CBS domains
have been shown to function as sensors for ionic
strength, whereby they control the transport activity
through an electronic switching mechanism. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. They are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 109
Score = 34.5 bits (80), Expect = 0.030
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 225 GEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKL 284
KLLGIV+ LE + +E +M + ++ + Q SL + ++ K +
Sbjct: 34 DNKLLGIVSLES---LEQAYKEAKSLEDIM--LEDVFTVQPDASLRDVLGLVLKRGPKYV 88
Query: 285 PILNDKGELIALIARTDL 302
P++++ G+L+ LI R+ L
Sbjct: 89 PVVDEDGKLVGLITRSSL 106
Score = 27.5 bits (62), Expect = 7.0
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSAN 82
I++PV I P TL + +++ + V + KLLGIV+ ++ A
Sbjct: 1 IKNPVTITPDRTLAEAIKLMRDKKVDSLLVVDKD---NKLLGIVSLESLEQAYKEAK 54
>gnl|CDD|239986 cd04613, CBS_pair_SpoIVFB_EriC_assoc2, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with either the SpoIVFB domain
(sporulation protein, stage IV cell wall formation, F
locus, promoter-distal B) or the chloride channel
protein EriC. SpoIVFB is one of 4 proteins involved in
endospore formation; the others are SpoIVFA (sporulation
protein, stage IV cell wall formation, F locus,
promoter-proximal A), BofA (bypass-of-forespore A ), and
SpoIVB (sporulation protein, stage IV cell wall
formation, B locus). SpoIVFB is negatively regulated by
SpoIVFA and BofA and activated by SpoIVB. It is thought
that SpoIVFB, SpoIVFA, and BofA are located in the
mother-cell membrane that surrounds the forespore and
that SpoIVB is secreted from the forespore into the
space between the two where it activates SpoIVFB. EriC
is involved in inorganic ion transport and metabolism.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 114
Score = 34.5 bits (80), Expect = 0.034
Identities = 27/90 (30%), Positives = 52/90 (57%), Gaps = 8/90 (8%)
Query: 216 FPVTENGKLGEKLLGIVTSRDV-DFLENSANMDLKI-EKVMTNVNEIISAQAGISLEEAN 273
FPV ++ +L+GIV+ D+ + L + + DL + +MT ++ + SLE+A
Sbjct: 27 FPVVDDDG---RLVGIVSLDDIREILFDPSLYDLVVASDIMTKPPVVVYPED--SLEDAL 81
Query: 274 VILEKSKKGKLPILNDK-GELIALIARTDL 302
E S +LP+++D G+L+ +++R+DL
Sbjct: 82 KKFEDSDYEQLPVVDDDPGKLLGILSRSDL 111
Score = 27.9 bits (63), Expect = 5.2
Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 21/99 (21%)
Query: 27 RDPVCIAPSTTLGKVLQ-MKKQHGFCGFPVTENGKLGEKLLGIVTSRDV-DFLENSANMD 84
RD V I T L ++L + FPV ++ +L+GIV+ D+ + L + + D
Sbjct: 1 RDVVTIPEDTPLNELLDVIAHSPENN-FPVVDDDG---RLVGIVSLDDIREILFDPSLYD 56
Query: 85 LKIEKDLSSPLTKKITLAAPLVSSPMDTVTESD-MAIAM 122
L + D +++ P V D + A+
Sbjct: 57 LVVASD--------------IMTKPPVVVYPEDSLEDAL 81
>gnl|CDD|200976 pfam00072, Response_reg, Response regulator receiver domain. This
domain receives the signal from the sensor partner in
bacterial two-component systems. It is usually found
N-terminal to a DNA binding effector domain.
Length = 111
Score = 34.5 bits (80), Expect = 0.035
Identities = 17/69 (24%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 142 LKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
L+LL + D+++LD + +E+++ I++ P VI V+T A + V+
Sbjct: 35 LELLKEKRPDLILLDIRMPG-MDGLELLRRIRRRPPTTPVI---VLT---AHGDEEDAVE 87
Query: 202 GLRVGSHGC 210
L+ G++
Sbjct: 88 ALKAGANDF 96
Score = 30.2 bits (69), Expect = 0.88
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 315 ENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQV 374
E +V A EA L+LL + D+++LD + +E+++ I++ P V
Sbjct: 19 EKEGYVVAEADDGEEA----LELLKEKRPDLILLDIRMPG-MDGLELLRRIRRRPPTTPV 73
Query: 375 I 375
I
Sbjct: 74 I 74
>gnl|CDD|240014 cd04643, CBS_pair_30, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 116
Score = 34.1 bits (79), Expect = 0.044
Identities = 13/59 (22%), Positives = 27/59 (45%)
Query: 258 NEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDEN 316
E+ Q +L A ++L K +P+L+ +G+ + I+ TD+ ++ E
Sbjct: 1 EEVAYVQDTNTLRHALLVLTKHGYSAIPVLDKEGKYVGTISLTDILWKLKGLENLDLER 59
Score = 31.0 bits (71), Expect = 0.52
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 211 HGFCGFPVTENGKLGEKLLGIVTSRD-VDFLENSANMDL------KIEKVMTNVNEIISA 263
HG+ PV + K +G ++ D + L+ N+DL K+ VM +I
Sbjct: 22 HGYSAIPVLDKEG---KYVGTISLTDILWKLKGLENLDLERLVDLKVIDVMNTDVPVIID 78
Query: 264 QAGISLEEANVILEKSKK-GKLPILNDKGELIALIARTDLKKS 305
A +EE IL LP+++D G I +I R ++ K+
Sbjct: 79 DA--DIEE---ILHLLIDQPFLPVVDDDGIFIGIITRREILKA 116
>gnl|CDD|225107 COG2197, CitB, Response regulator containing a CheY-like receiver
domain and an HTH DNA-binding domain [Signal
transduction mechanisms / Transcription].
Length = 211
Score = 35.4 bits (82), Expect = 0.050
Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 142 LKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTD----QAKNLID 197
L L + DVV+LD S + +E +K ++ PD++V+ V+T +
Sbjct: 39 LDLARELKPDVVLLDLS-MPGMDGLEALKQLRARGPDIKVV---VLTAHDDPAYVIRALR 94
Query: 198 AGVDG 202
AG DG
Sbjct: 95 AGADG 99
Score = 29.2 bits (66), Expect = 4.3
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 320 IVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI 375
+VG A EA L L + DVV+LD S + +E +K ++ PD++V+
Sbjct: 28 VVGEASNGEEA----LDLARELKPDVVLLDLS-MPGMDGLEALKQLRARGPDIKVV 78
>gnl|CDD|240005 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 = 34.7 bits (80), Expect = 0.051
Identities = 16/63 (25%), Positives = 36/63 (57%), Gaps = 5/63 (7%)
Query: 240 LENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIAR 299
L ++ M K+ +MT ++I+ S+E+A ++ + K +LP++ + G L+ ++ R
Sbjct: 83 LTDAGKM--KVRDIMTK--KVITISPDASIEDAAELMVRHKIKRLPVV-EDGRLVGIVTR 137
Query: 300 TDL 302
D+
Sbjct: 138 GDI 140
Score = 29.6 bits (67), Expect = 2.1
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
++P+ T+ ++ +++ G PV + G KL+GIV+ D+ L + +
Sbjct: 1 KNPITCNADDTISDAARLLRENKISGAPVLD----GGKLVGIVSESDILKLLVTHDPSGN 56
Query: 87 IEKDLSSPL 95
+ L SPL
Sbjct: 57 LW--LPSPL 63
Score = 29.6 bits (67), Expect = 2.3
Identities = 14/54 (25%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 261 ISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKD 314
I+ A ++ +A +L ++K P+L D G+L+ +++ +D+ K D S +
Sbjct: 4 ITCNADDTISDAARLLRENKISGAPVL-DGGKLVGIVSESDILKLLVTHDPSGN 56
>gnl|CDD|239981 cd04608, CBS_pair_PALP_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the pyridoxal-phosphate (PALP) dependent
enzyme domain upstream. The vitamin B6 complex
comprises pyridoxine, pyridoxal, and pyridoxamine, as
well as the 5'-phosphate esters of pyridoxal (PALP) and
pyridoxamine, the last two being the biologically active
coenzyme derivatives. The members of the PALP family
are principally involved in the biosynthesis of amino
acids and amino acid-derived metabolites, but they are
also found in the biosynthetic pathways of amino sugars
and other amine-containing compounds. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 124
Score = 33.8 bits (78), Expect = 0.057
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 24/93 (25%)
Query: 29 PVCIAPSTTLGKVLQMKKQHGFCGFPV-TENGKLGEKLLGIVTSRDVDFLENSANMDLKI 87
PV + P+ T + +++ K+ GF PV E+G K+LG+VT L N
Sbjct: 4 PVTVLPTVTCAEAIEILKEKGFDQLPVVDESG----KILGMVT------LGNL------- 46
Query: 88 EKDLSSPLTKKITLAAPL---VSSPMDTVTESD 117
LSS + K+ + P+ + V ++D
Sbjct: 47 ---LSSLSSGKVQPSDPVSKALYKQFKRVNKND 76
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 35.9 bits (82), Expect = 0.057
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGE 471
A++ +PV DGGV+ V KALALGAS +G + + A GE
Sbjct: 274 ATQGRIPVFLDGGVRRGTDVFKALALGASGIFIGRPVVFSLAAEGE 319
>gnl|CDD|239963 cd04590, CBS_pair_CorC_HlyC_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the CorC_HlyC domain. CorC_HlyC
is a transporter associated domain. This small domain
is found in Na+/H+ antiporters, in proteins involved in
magnesium and cobalt efflux, and in association with
some proteins of unknown function. The function of the
CorC_HlyC domain is uncertain but it might be involved
in modulating transport of ion substrates. CBS is a
small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is
unknown. The second CBS domain in this CD is
degenerate.
Length = 111
Score = 33.6 bits (78), Expect = 0.061
Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 28 DPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKI 87
D V + TL ++L++ + G FPV + + ++G+V +D+ DL +
Sbjct: 2 DIVALDADDTLEEILELIAESGHSRFPVYDGDL--DNIIGVVHVKDLLRALAEGEEDLDL 59
Query: 88 EKDLSSPLT 96
L PL
Sbjct: 60 RDLLRPPLF 68
>gnl|CDD|240083 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 = 35.1 bits (82), Expect = 0.067
Identities = 35/156 (22%), Positives = 68/156 (43%), Gaps = 34/156 (21%)
Query: 331 DKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI-------GGNVLFGY 383
++ L GV VI+ ++ ++ E++K + KEY +++ G G+
Sbjct: 84 SLEDIERLLDLGVSRVIIGTA---AVKNPELVKELLKEYGGERIVVGLDAKDGKVATKGW 140
Query: 384 QPRATLLNFIYQIEMIKFIKKEYPDMQV-------IGRNGT------AVYRVAEYASRRG 430
+ ++ + + K + ++ V I R+GT +Y+ E A+ G
Sbjct: 141 LETS-------EVSLEELAK-RFEELGVKAIIYTDISRDGTLSGPNFELYK--ELAAATG 190
Query: 431 VPVIADGGVQSVGHVMKALALGASTAMMG-SLLAGT 465
+PVIA GGV S+ + LG + ++G +L G
Sbjct: 191 IPVIASGGVSSLDDIKALKELGVAGVIVGKALYEGK 226
Score = 29.0 bits (66), Expect = 6.8
Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 152 VVILDSSQGNSIYQIEMIKYIKKEYPDMQV-IGGNVVTTDQAKNLIDAGVDGLRVGS 207
VV LD ++G +E+I+ I K + V +GG + + + + L+D GV + +G+
Sbjct: 48 VVDLDGAKGGEPVNLELIEEIVKA-VGIPVQVGGGIRSLEDIERLLDLGVSRVIIGT 103
>gnl|CDD|166134 PLN02493, PLN02493, probable peroxisomal (S)-2-hydroxy-acid
oxidase.
Length = 367
Score = 35.5 bits (81), Expect = 0.079
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGE 471
A++ +PV DGGV+ V KALALGAS +G + + A GE
Sbjct: 275 ATQGRIPVFLDGGVRRGTDVFKALALGASGIFIGRPVVFSLAAEGE 320
>gnl|CDD|223988 COG1060, ThiH, Thiamine biosynthesis enzyme ThiH and related
uncharacterized enzymes [Coenzyme metabolism / General
function prediction only].
Length = 370
Score = 35.0 bits (81), Expect = 0.11
Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 24/103 (23%)
Query: 379 VLFGYQPRATLLNFIYQIEMIKFIKKEYPDMQVIGRNGTAVYRVAEYASRRGVPVIADGG 438
++ G P L+ Y E+ + IK+E+PD+ + + + + +R G +
Sbjct: 112 IVGGEHPE---LSLEYYEELFRTIKEEFPDLHIHALSAGEIL----FLAREGGLSYEE-- 162
Query: 439 VQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSDGVRLK 481
V+K L A + S+ G +E S+ VR
Sbjct: 163 ------VLKRLK----EAGLDSMPGGGAE-----ILSEEVRKI 190
Score = 28.8 bits (65), Expect = 7.7
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 7/51 (13%)
Query: 134 TREADKYRLK-LLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIG 183
REA K + +L G + + Y E+ + IK+E+PD+ +
Sbjct: 99 VREAVKRGITEVLIVGGEHPEL------SLEYYEELFRTIKEEFPDLHIHA 143
>gnl|CDD|240090 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 = 34.9 bits (81), Expect = 0.11
Identities = 13/37 (35%), Positives = 16/37 (43%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
+ R + A GGV V+K L GA M S L
Sbjct: 233 SGRVKASLAASGGVHDAEDVVKYLLAGADVVMTTSAL 269
>gnl|CDD|226594 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 35.0 bits (81), Expect = 0.11
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 16/88 (18%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDL 85
+ D + + T+ L + ++ G FPV K++G+VT RDV
Sbjct: 197 LEDTSYLRETDTVEDWLDLVEKTGHSRFPVVNRSM---KVVGVVTMRDV----------- 242
Query: 86 KIEKDLSSPLTKKITLAAPLVSSPMDTV 113
++K S+ + K +T P+ +V
Sbjct: 243 -LDKKPSTTIEKVMT-KNPITVRAKTSV 268
Score = 33.1 bits (76), Expect = 0.41
Identities = 27/90 (30%), Positives = 42/90 (46%), Gaps = 9/90 (10%)
Query: 216 FPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVI 275
FPV K++G+VT RDV IEKVMT + A+ ++ +I
Sbjct: 224 FPVVNRSM---KVVGVVTMRDV----LDKKPSTTIEKVMTKNPITVRAKTSVASVAQMMI 276
Query: 276 LEKSKKGKLPILNDKGELIALIARTDLKKS 305
E + LP+++ L+ +I R D+ KS
Sbjct: 277 WEGIE--MLPVVDSNNTLLGIITRQDVLKS 304
Score = 32.7 bits (75), Expect = 0.51
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
++P+ + T++ V QM G PV ++ LLGI+T +DV
Sbjct: 257 KNPITVRAKTSVASVAQMMIWEGIEMLPVVDSNN---TLLGIITRQDV 301
>gnl|CDD|131755 TIGR02708, L_lactate_ox, L-lactate oxidase. Members of this
protein oxidize L-lactate to pyruvate, reducing
molecular oxygen to hydrogen peroxide. The enzyme is
known in Aerococcus viridans, Streptococcus iniae, and
some strains of Streptococcus pyogenes where it appears
to contribute to virulence [Energy metabolism, Other].
Length = 367
Score = 34.5 bits (79), Expect = 0.14
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMG 459
VAE +R VP++ D GV+ HV KALA GA +G
Sbjct: 276 VAEAVDKR-VPIVFDSGVRRGQHVFKALASGADLVALG 312
>gnl|CDD|216225 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 catalyzed 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 = 230
Score = 34.0 bits (79), Expect = 0.16
Identities = 39/168 (23%), Positives = 67/168 (39%), Gaps = 43/168 (25%)
Query: 319 LIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI--- 375
+ VG I + E + +LLS AG D VI+ ++ ++ E+IK +++ ++
Sbjct: 76 VQVGGGIRSLEDAE---RLLS-AGADKVIIGTA---AVKNPELIKEAAEKFGSQCIVVAI 128
Query: 376 -----GGNVLFGYQPRATLLNFIY------QIEMIKFIKK--EYP-------DMQVIG-R 414
G V I I+ +++ KK E D+ G
Sbjct: 129 DAKREDGKV------------AINGWREETGIDAVEWAKKLEELGAGEILLTDIDRDGTL 176
Query: 415 NGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
+G + E A +PVIA GGV S+ + + + G + GS L
Sbjct: 177 SGPDLELTRELAEAVNIPVIASGGVGSLEDLKELFSEGVDGVIAGSAL 224
Score = 32.8 bits (76), Expect = 0.31
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 413 GRNGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGS 460
N + +AE +PV GG++S+ + L+ GA ++G+
Sbjct: 59 PVNLDLIEEIAEEVF---IPVQVGGGIRSLEDAERLLSAGADKVIIGT 103
>gnl|CDD|188481 TIGR03966, actino_HemFlav, heme/flavin dehydrogenase, mycofactocin
system. Members of this protein family possess an
N-terminal heme-binding domain and C-terminal
flavodehydrogenase domain, and share homology to yeast
flavocytochrome b2, to E. coli L-lactate dehydrogenase
[cytochrome], to (S)-mandelate dehydrogenase, etc. This
enzyme appears only in the context of the mycofactocin
system. Interestingly, it is absent from the four
species detected so far with mycofactocin but without an
F420 biosynthesis system.
Length = 385
Score = 34.3 bits (79), Expect = 0.16
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 11/45 (24%)
Query: 426 ASRRGVPVIA-----------DGGVQSVGHVMKALALGASTAMMG 459
A+ R +P IA DGG++ V+KALALGA M+G
Sbjct: 287 AAIRALPAIAEAVGDQVEVLLDGGIRRGSDVVKALALGARAVMIG 331
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 34.2 bits (79), Expect = 0.19
Identities = 10/29 (34%), Positives = 21/29 (72%)
Query: 431 VPVIADGGVQSVGHVMKALALGASTAMMG 459
+ ++AD G+++ V++ +ALGA T ++G
Sbjct: 301 ITILADSGIRNGLDVVRMIALGADTVLLG 329
>gnl|CDD|236401 PRK09190, PRK09190, hypothetical protein; Provisional.
Length = 220
Score = 33.4 bits (77), Expect = 0.20
Identities = 16/56 (28%), Positives = 18/56 (32%), Gaps = 11/56 (19%)
Query: 449 LALGASTAMMGSLLAGTSEAPGEYFFSDGVRLKKYRGMGSLEAMSRKDGGAAAMDR 504
LA G + +LLAG E RL YRG G AA
Sbjct: 173 LAFGRENVIHAALLAG---GAAERVVKRAQRLAGYRG--------GDPGRAAGGAA 217
>gnl|CDD|235465 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 34.0 bits (79), Expect = 0.21
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTA-----MMGSLLAGTSEA 468
+ +P+IA GG+++ + KALALGA + + L G EA
Sbjct: 257 SLLPDLPIIASGGIRNGLDIAKALALGADAVGMAGPFLKAALEGGEEA 304
>gnl|CDD|188632 cd00452, KDPG_aldolase, KDPG and KHG 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 = 33.3 bits (77), Expect = 0.22
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 166 IEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
+E I+ ++KE+P+ + G V+T +QA I AG
Sbjct: 43 LEAIRALRKEFPEALIGAGTVLTPEQADAAIAAGAQ 78
Score = 31.3 bits (72), Expect = 0.98
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAM 457
V + A+R G+P++ GV + +M+AL LGA
Sbjct: 89 VVKAANRAGIPLLP--GVATPTEIMQALELGADIVK 122
>gnl|CDD|239959 cd04586, CBS_pair_BON_assoc, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains
associated with the BON (bacterial OsmY and nodulation
domain) domain. BON is a putative phospholipid-binding
domain found in a family of osmotic shock protection
proteins. It is also found in some secretins and a group
of potential haemolysins. Its likely function is
attachment to phospholipid membranes. CBS is a small
domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 135
Score = 32.6 bits (75), Expect = 0.22
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
R V + T L +V ++ ++H PV G +L+GIV+ D+
Sbjct: 89 RPVVTVGEDTPLAEVAELMEEHRIKRVPVVR----GGRLVGIVSRADL 132
Score = 28.7 bits (65), Expect = 3.9
Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 26 IRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFL 77
D V ++P T++ + ++ + G PV ++ +L+GIV+ + D L
Sbjct: 1 TTDVVTVSPETSVAEAARLMLDNHISGLPVVDDDG---RLVGIVS--EGDLL 47
>gnl|CDD|182771 PRK10840, PRK10840, transcriptional regulator RcsB; Provisional.
Length = 216
Score = 33.3 bits (76), Expect = 0.23
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 145 LSQAGVDVVILDSSQGNSIYQ--IEMIKYIKKEYPDMQVI 182
L + V+I D S Y I +IKYIK+ +P + +I
Sbjct: 45 LPKLDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSII 84
Score = 31.3 bits (71), Expect = 1.0
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 338 LSQAGVDVVILDSSQGNSIYQ--IEMIKFIKKEYPDMQVI 375
L + V+I D S Y I +IK+IK+ +P + +I
Sbjct: 45 LPKLDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSII 84
>gnl|CDD|162241 TIGR01182, eda, Entner-Doudoroff aldolase.
2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14)
is an enzyme of the Entner-Doudoroff pathway. This
aldolase has another function, 4-hydroxy-2-oxoglutarate
aldolase (EC 4.1.3.16) shown experimentally in
Escherichia coli and Pseudomonas putida [Amino acid
biosynthesis, Glutamate family, Energy metabolism,
Entner-Doudoroff].
Length = 204
Score = 33.1 bits (76), Expect = 0.28
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 167 EMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
+ I+ ++KE PD + G V+ +Q + +DAG
Sbjct: 48 DAIRLLRKEVPDALIGAGTVLNPEQLRQAVDAGAQ 82
Score = 30.0 bits (68), Expect = 2.3
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 26/81 (32%)
Query: 397 EMIKFIKKEYPDMQVIGRNGT--------------AVY--------RVAEYASRRGVPVI 434
+ I+ ++KE PD +IG GT A + +A++A G+P+I
Sbjct: 48 DAIRLLRKEVPDA-LIG-AGTVLNPEQLRQAVDAGAQFIVSPGLTPELAKHAQDHGIPII 105
Query: 435 ADGGVQSVGHVMKALALGAST 455
GV + +M AL LG +
Sbjct: 106 P--GVATPSEIMLALELGITA 124
>gnl|CDD|223147 COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport
and metabolism].
Length = 485
Score = 33.8 bits (78), Expect = 0.28
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 428 RRGVPVIADGGVQSVGHVMKALALGA-----STAMMGSL 461
R V +IADGG+++ V KA ALGA TA + +L
Sbjct: 372 RDKVKLIADGGLRTGADVAKAAALGADAVGFGTAALVAL 410
>gnl|CDD|234907 PRK01130, PRK01130, N-acetylmannosamine-6-phosphate 2-epimerase;
Provisional.
Length = 221
Score = 33.2 bits (77), Expect = 0.28
Identities = 41/179 (22%), Positives = 61/179 (34%), Gaps = 64/179 (35%)
Query: 306 RDYPDSSKDENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSS-----QGNSIYQIE 360
RDYPDS V +E D L+ AG D++ LD++ G ++ E
Sbjct: 65 RDYPDSE--------VYITPTLKEVDA-----LAAAGADIIALDATLRPRPDGETL--AE 109
Query: 361 MIKFIKKE-----------YPDMQV-------IGGNVLFGY-QPRATLLNFIYQIEMIKF 401
++K IK+ + G L GY +
Sbjct: 110 LVKRIKEYPGQLLMADCSTLEEGLAAQKLGFDFIGTTLSGYTEETKKP------------ 157
Query: 402 IKKEYPDMQVIGRNGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGS 460
E PD + + E G PVIA+G + + KAL LGA ++G
Sbjct: 158 ---EEPDFAL----------LKELLKAVGCPVIAEGRINTPEQAKKALELGAHAVVVGG 203
>gnl|CDD|224328 COG1410, MetH, Methionine synthase I, cobalamin-binding domain
[Amino acid transport and metabolism].
Length = 842
Score = 33.5 bits (77), Expect = 0.34
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 358 QIEMIKFIKKEYPDMQVIGG--NVLFGYQPRA 387
IE I+ IKKE P + G NV FG +
Sbjct: 211 TIEAIRRIKKELPHVLTTLGLSNVSFGLRGAV 242
>gnl|CDD|176160 cd08471, PBP2_CrgA_like_2, The C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator CrgA-like, contains the type 2 periplasmic
binding fold. This CD represents the substrate binding
domain of an uncharacterized LysR-type transcriptional
regulator (LTTR) CrgA-like 2. The LTTRs are acting as
both auto-repressors and activators of target promoters,
controlling operons involved in a wide variety of
cellular processes such as amino acid biosynthesis, CO2
fixation, antibiotic resistance, degradation of aromatic
compounds, nodule formation of nitrogen-fixing bacteria,
and synthesis of virulence factors, to name a few. In
contrast to the tetrameric form of other LTTRs, CrgA
from Neisseria meningitides assembles into an octameric
ring, which can bind up to four 63-bp DNA
oligonucleotides. Phylogenetic cluster analysis showed
that the CrgA-like regulators form a subclass of the
LTTRs that function as octamers. The CrgA is an
auto-repressor of its own gene and activates the
expression of the mdaB gene which coding for an
NADPH-quinone reductase and that its action is increased
by MBL (alpha-methylene-gamma-butyrolactone), an inducer
of NADPH-quinone oxidoreductase. The structural
topology of this substrate-binding domain is most
similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 201
Score = 32.5 bits (75), Expect = 0.35
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 174 KEYPDMQVIGGNVVTTDQAKNLIDAGVD-GLRVG 206
YP++ V ++ D+ NL++ GVD +R+G
Sbjct: 25 DAYPEVSV---RLLLLDRVVNLLEEGVDVAVRIG 55
>gnl|CDD|239206 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 = 32.6 bits (75), Expect = 0.38
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 166 IEMIKYIKKEYPDMQVI-GGNVVTTDQAKNLIDAGVDGLRVG 206
E+++ +KK D +I GG + + +QAK + +AG D + VG
Sbjct: 163 PEVVRAVKKVLGDTPLIVGGGIRSGEQAKEMAEAGADTIVVG 204
>gnl|CDD|239993 cd04621, CBS_pair_8, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 135
Score = 31.6 bits (72), Expect = 0.39
Identities = 23/102 (22%), Positives = 41/102 (40%), Gaps = 28/102 (27%)
Query: 225 GEKLLGIVTSRDVDFLENSAN-------------------------MDLKIEKVMTNVNE 259
K +G++T RD+ F E N + L E +MT
Sbjct: 33 NGKPVGVITYRDLAFAEFEDNERGLPKKSIKMKRKAGQKRYRYVKEVPLVAEDIMTEEII 92
Query: 260 IISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTD 301
+S + + A ++LE + G LP++ D ++ +I +TD
Sbjct: 93 TVSPNDDVV-DAAKLMLEANISG-LPVV-DNDNIVGVITKTD 131
>gnl|CDD|239971 cd04598, CBS_pair_GGDEF_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
association with the GGDEF (DiGuanylate-Cyclase (DGC))
domain. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 119
Score = 31.4 bits (72), Expect = 0.40
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 27 RDPVCIAPSTTLGKVLQM----KKQHGFCGFPVTENGKLGEKLLGIVTSRD 73
DP+ + T L +V ++ Q+ + GF VTE G + LGI T +D
Sbjct: 69 PDPLIVEADTPLEEVSRLATGRDSQNLYDGFIVTEEG----RYLGIGTVKD 115
>gnl|CDD|239977 cd04604, CBS_pair_KpsF_GutQ_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with KpsF/GutQ domains in the API
[A5P (D-arabinose 5-phosphate) isomerase] protein.
These APIs catalyze the conversion of the pentose
pathway intermediate D-ribulose 5-phosphate into A5P, a
precursor of 3-deoxy-D-manno-octulosonate, which is an
integral carbohydrate component of various glycolipids
coating the surface of the outer membrane of
Gram-negative bacteria, including lipopolysaccharide and
many group 2 K-antigen capsules. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The
interface between the two CBS domains forms a cleft that
is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Length = 114
Score = 31.3 bits (72), Expect = 0.44
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 227 KLLGIVTSRDVD--FLENSANMDLKIEKVMT-NVNEIISAQAGISLEEANVILEKSKKGK 283
+L+GI T D+ + + L + VMT N + EA ++E++K
Sbjct: 36 RLVGIFTDGDLRRALEKGLDILTLPVADVMTRNP---KTIDPDALAAEALELMEENKITA 92
Query: 284 LPILNDKGELIALIARTDL 302
LP+++D G + ++ DL
Sbjct: 93 LPVVDDNGRPVGVLHIHDL 111
>gnl|CDD|233750 TIGR02151, IPP_isom_2, isopentenyl-diphosphate delta-isomerase,
type 2. Isopentenyl-diphosphate delta-isomerase (IPP
isomerase) interconverts isopentenyl diphosphate and
dimethylallyl diphosphate. This model represents the
type 2 enzyme. FMN, NADPH, and Mg2+ are required by this
form, which lacks homology to the type 1 enzyme
(TIGR02150). IPP is precursor to many compounds,
including enzyme cofactors, sterols, and isoprenoids
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 333
Score = 32.6 bits (75), Expect = 0.55
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 430 GVPVIADGGVQSVGHVMKALALGAS-TAMMGSLL 462
P+IA GG+++ V KA+ALGA M L
Sbjct: 254 DAPIIASGGLRTGLDVAKAIALGADAVGMARPFL 287
>gnl|CDD|240000 cd04629, CBS_pair_16, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 114
Score = 30.6 bits (70), Expect = 0.62
Identities = 27/97 (27%), Positives = 50/97 (51%), Gaps = 12/97 (12%)
Query: 211 HGFCGFPVT-ENGKLGEKLLGIVTSRDV--DFLENSANMDL--KIEKVMTNVNEIISAQA 265
G PV +NG L +G ++ +D LE+S + D + +MT +S
Sbjct: 22 SKISGGPVVDDNGNL----VGFLSEQDCLKQLLESSYHCDGVATVRDIMTTEVLTVSPDD 77
Query: 266 GISLEEANVILEKSKKGKLPILNDKGELIALIARTDL 302
I ++ A ++L K+K + P+++D G+L+ I+R D+
Sbjct: 78 SI-VDLAQLML-KAKPKRYPVVDD-GKLVGQISRRDV 111
Score = 29.8 bits (68), Expect = 1.3
Identities = 14/65 (21%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 10 YQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIV 69
Y + V V+ + + ++P ++ + Q+ + +PV ++G KL+G +
Sbjct: 54 YHCDGVATVRDIMT---TEVLTVSPDDSIVDLAQLMLKAKPKRYPVVDDG----KLVGQI 106
Query: 70 TSRDV 74
+ RDV
Sbjct: 107 SRRDV 111
>gnl|CDD|227095 COG4753, COG4753, Response regulator containing CheY-like receiver
domain and AraC-type DNA-binding domain [Signal
transduction mechanisms].
Length = 475
Score = 32.7 bits (75), Expect = 0.63
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 18/71 (25%)
Query: 319 LIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQ-----IEMIKFIKKEYPDMQ 373
+VG A +EA L+L+ + D+VI D I +++IK IK++ PD +
Sbjct: 29 EVVGTAANGKEA----LELIQETQPDIVITD------INMPGMDGLDLIKAIKEQSPDTE 78
Query: 374 VIGGNVLFGYQ 384
I +L GY
Sbjct: 79 FI---ILSGYD 86
>gnl|CDD|239964 cd04591, CBS_pair_EriC_assoc_euk_bac, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in the EriC CIC-type chloride channels in
eukaryotes and bacteria. These ion channels are
proteins with a seemingly simple task of allowing the
passive flow of chloride ions across biological
membranes. CIC-type chloride channels come from all
kingdoms of life, have several gene families, and can
be gated by voltage. The members of the CIC-type
chloride channel are double-barreled: two proteins
forming homodimers at a broad interface formed by four
helices from each protein. The two pores are not found
at this interface, but are completely contained within
each subunit, as deduced from the mutational analyses,
unlike many other channels, in which four or five
identical or structurally related subunits jointly form
one pore. CBS is a small domain originally identified
in cystathionine beta-synthase and subsequently found
in a wide range of different proteins. CBS domains
usually come in tandem repeats, which associate to form
a so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain in CLC chloride channel
family members have been associated with classic
Bartter syndrome, Osteopetrosis, Dent's disease,
idiopathic generalized epilepsy, and myotonia.
Length = 105
Score = 30.7 bits (70), Expect = 0.67
Identities = 12/70 (17%), Positives = 25/70 (35%), Gaps = 8/70 (11%)
Query: 27 RDPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLK 86
V + T+ + + GFPV ++ + +L+G + + + +D
Sbjct: 2 PLVVLLPEGMTVEDLESLLSTTSHNGFPVVDSTEESPRLVGYILRSQLVVALKNY-IDP- 59
Query: 87 IEKDLSSPLT 96
SP T
Sbjct: 60 ------SPFT 63
>gnl|CDD|223871 COG0800, Eda, 2-keto-3-deoxy-6-phosphogluconate aldolase
[Carbohydrate transport and metabolism].
Length = 211
Score = 31.8 bits (73), Expect = 0.67
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 167 EMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
E I+ + KE+P+ + G V+ +QA+ I AG
Sbjct: 53 EAIRALAKEFPEALIGAGTVLNPEQARQAIAAGAQ 87
Score = 30.3 bits (69), Expect = 2.3
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 421 RVAEYASRRGVPVIADGGVQSVGHVMKALALGAST 455
VA+ A+R G+P I GV + +M AL LGAS
Sbjct: 97 EVAKAANRYGIPYIP--GVATPTEIMAALELGASA 129
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 31.8 bits (73), Expect = 0.68
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 11/72 (15%)
Query: 127 GIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNV 186
GIG AI L++ G V+I S E+++ +K + +V
Sbjct: 9 GIGRAIA---------LKLAKEGAKVIITYRSSEEGAE--EVVEELKAYGVKALGVVCDV 57
Query: 187 VTTDQAKNLIDA 198
+ K +++
Sbjct: 58 SDREDVKAVVEE 69
>gnl|CDD|235553 PRK05672, dnaE2, error-prone DNA polymerase; Validated.
Length = 1046
Score = 32.5 bits (75), Expect = 0.73
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 421 RVAEYASRRGVPVIADGGVQSVGH-------VMKALALGASTAMMGSLLAGTSEA 468
R+A A+R GVP++A G V M A+ S A G LA E
Sbjct: 183 RLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGER 237
>gnl|CDD|238381 cd00740, MeTr, MeTr subgroup of pterin binding enzymes. This family
includes cobalamin-dependent methyltransferases such as
methyltetrahydrofolate, corrinoid iron-sulfur protein
methyltransferase (MeTr) and methionine synthase (MetH).
Cobalamin-dependent methyltransferases catalyze the
transfer of a methyl group via a methyl- cob(III)amide
intermediate. These include MeTr, a functional
heterodimer, and the folate binding domain of MetH.
Length = 252
Score = 32.0 bits (73), Expect = 0.74
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 9/67 (13%)
Query: 344 DVVILDSSQG------NSIYQIEMIKFIKKEYPDMQVIGG--NVLFGYQPRA-TLLNFIY 394
D +IL + G ++ I+ I+ IK+ P +++ G NV FG+ P A LN ++
Sbjct: 164 DPLILPIATGIEEHRPYALETIDAIRMIKERLPAVKISLGVSNVSFGFNPAAREALNSVF 223
Query: 395 QIEMIKF 401
E IK
Sbjct: 224 LYEAIKA 230
>gnl|CDD|240074 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 = 31.9 bits (73), Expect = 0.76
Identities = 40/163 (24%), Positives = 67/163 (41%), Gaps = 27/163 (16%)
Query: 312 SKDENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYP- 370
+ L V I + E + LK G VI+ + S + + + ++
Sbjct: 74 AAAWPLGLWVDGGIRSLENAQEWLKR----GASRVIVGTETLPSDDDEDRLAALGEQRLV 129
Query: 371 -DMQVIGGNVLFGYQPRATLLNFIYQIEMIKFIKKEYPDMQV---IGRNGTA-------V 419
+ GG +L +FI E+++ + K +P+ + I R G+ +
Sbjct: 130 LSLDFRGGQLL-------KPTDFIGPEELLRRLAK-WPEELIVLDIDRVGSGQGPDLELL 181
Query: 420 YRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
R+A A PVIA GGV+SV + LGAS A++ S L
Sbjct: 182 ERLAARADI---PVIAAGGVRSVEDLELLKKLGASGALVASAL 221
>gnl|CDD|198371 cd07803, FGGY_D-XK, D-xylulose kinases; a subgroup of the FGGY
family of carbohydrate kinases. This subfamily is
predominantly composed of bacterial D-xylulose kinases
(XK, also known as xylulokinase; EC 2.7.1.17), which
catalyze the rate-limiting step in the ATP-dependent
phosphorylation of D-xylulose to produce D-xylulose
5-phosphate (X5P) and ADP. Some uncharacterized
sequences are also included in this subfamily. The
prototypical member of this subfamily is Escherichia
coli xylulokinase (EcXK), which exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. XKs do not have any known allosteric
regulators, and they may have weak but significant
activity in the absence of substrate. The presence of
Mg2+ or Mn2+ is required for catalytic activity. Members
of this subfamily belong to the FGGY family of
carbohydrate kinases.
Length = 482
Score = 32.3 bits (74), Expect = 0.81
Identities = 34/140 (24%), Positives = 48/140 (34%), Gaps = 36/140 (25%)
Query: 421 RVAEYASRR-----GVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFF- 474
V A+R+ G PV+A G + AL G SL GTS G
Sbjct: 214 AVTPEAARKTGLKAGTPVVAGAG----DNAAAALGAGVVDPGQASLSLGTS---GVVAVV 266
Query: 475 SDGVRLK--------KYRGMGSLEAMSRKDGGAAAMD---------RYFHNEMDKLKVAQ 517
S+G + G ++ + +A+ + EM +L AQ
Sbjct: 267 SEGPVPDPKGAVITFAHAVPGRWYQVTCTNSAGSALRWARDLLGPADVSYAEMAEL-AAQ 325
Query: 518 GVSGAIVDKGSVLRFLPYLQ 537
GA +L FLPYL
Sbjct: 326 VPVGA----NGLL-FLPYLN 340
>gnl|CDD|239022 cd02071, MM_CoA_mut_B12_BD, methylmalonyl CoA mutase B12 binding
domain. This domain binds to B12 (adenosylcobamide),
which initiates the conversion of succinyl CoA and
methylmalonyl CoA by forming an adenosyl radical, which
then undergoes a rearrangement exchanging a hydrogen
atom with a group attached to a neighboring carbon atom.
This family is present in both mammals and bacteria.
Bacterial members are heterodimers and involved in the
fermentation of pyruvate to propionate. Mammalian
members are homodimers and responsible for the
conversion of odd-chain fatty acids and branched-chain
amino acids via propionyl CoA to succinyl CoA for
further degradation.
Length = 122
Score = 30.6 bits (70), Expect = 0.82
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 14/64 (21%)
Query: 147 QAGVDVVILDSSQGNSIYQ---IEMIKYIKKEY-----PDMQVIGGNVVTTDQAKNLIDA 198
Q VDV+ G S + + + + D+ V+GG ++ + + L +
Sbjct: 48 QEDVDVI------GLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEM 101
Query: 199 GVDG 202
GV
Sbjct: 102 GVAE 105
>gnl|CDD|240650 cd12173, PGDH_4, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 32.0 bits (74), Expect = 0.87
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 407 PDMQVIGRNGTAVYRVA-EYASRRGVPVI--ADGGVQSVG-HVMKALALGAS 454
P ++VIGR G V + E A+ RG+ V+ SV H + AL L +
Sbjct: 61 PRLKVIGRAGVGVDNIDVEAATARGILVVNAPGANTISVAEHTI-ALMLALA 111
>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 = 31.9 bits (73), Expect = 0.88
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 418 AVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGA-----STAMMGSL 461
+ E R V +IADGG+++ V KA ALGA TA + +L
Sbjct: 261 VHQTLVENGLRDRVSLIADGGLRTGADVAKAAALGADAVYIGTAALIAL 309
>gnl|CDD|184165 PRK13585, PRK13585,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase; Provisional.
Length = 241
Score = 31.4 bits (72), Expect = 0.94
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 415 NGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
G V E +PVIA GGV ++ + GA+ ++GS L
Sbjct: 178 EGVNTEPVKELVDSVDIPVIASGGVTTLDDLRALKEAGAAGVVVGSAL 225
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 32.1 bits (73), Expect = 0.95
Identities = 32/106 (30%), Positives = 40/106 (37%), Gaps = 13/106 (12%)
Query: 7 TPEYQANEVLKVKKYKHGFIRDPVCIAPSTTLGKVLQMKKQHGFCGFPVTEN-GKLGEKL 65
TP+ A E+L Y G++ I L LQ K + GF E L E L
Sbjct: 1069 TPQTIAEELLT--HYTKGYVTITSPIPKEEDLFIYLQEKLKEGFLKLYANEQFYDLDEPL 1126
Query: 66 LGIVTSRDVDFLENSANM--DLKIEKDLSSPLTKKITLAAPLVSSP 109
LEN A + KI + S L +TLA L SS
Sbjct: 1127 --------PTSLENPAIVIQHTKISEKNLSSLLSSLTLAFSLSSSI 1164
>gnl|CDD|232779 TIGR00007, TIGR00007, phosphoribosylformimino-5-aminoimidazole
carboxamide ribotide isomerase. This protein family
consists of HisA,
phosphoribosylformimino-5-aminoimidazole carboxamide
ribotide isomerase, the enzyme catalyzing the fourth
step in histidine biosynthesis. It is closely related to
the enzyme HisF for the sixth step. Examples of this
enzyme in Actinobacteria have been found to be
bifunctional, also possessing phosphoribosylanthranilate
isomerase activity ; the trusted cutoff here has now
been raised to 275.0 to exclude the bifunctional group,
now represented by model TIGR01919. HisA from
Lactococcus lactis was reported to be inactive
(MEDLINE:93322317) [Amino acid biosynthesis, Histidine
family].
Length = 230
Score = 31.0 bits (71), Expect = 1.2
Identities = 42/159 (26%), Positives = 70/159 (44%), Gaps = 31/159 (19%)
Query: 321 VGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVI----- 375
VG I + E + KLL GVD VI+ ++ ++ +++K + KEY +++
Sbjct: 77 VGGGIRSLEDVE---KLLD-LGVDRVIIGTA---AVENPDLVKELLKEYGPERIVVSLDA 129
Query: 376 -GGNVLF-GYQPRATLLNFIYQIEMIKFIKKE------YPDMQVIGRNGT----AVYRVA 423
GG V G+ ++ + E+ K +++ Y D I R+GT
Sbjct: 130 RGGEVAVKGWLEKSEVS----LEELAKRLEELGLEGIIYTD---ISRDGTLSGPNFELTK 182
Query: 424 EYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
E VPVIA GGV S+ ++ LG ++G L
Sbjct: 183 ELVKAVNVPVIASGGVSSIDDLIALKKLGVYGVIVGKAL 221
Score = 30.2 bits (69), Expect = 2.6
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 152 VVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGS 207
VV LD ++ + +IK I +E +GG + + + + L+D GVD + +G+
Sbjct: 47 VVDLDGAKEGGPVNLPVIKKIVRETGVPVQVGGGIRSLEDVEKLLDLGVDRVIIGT 102
>gnl|CDD|223245 COG0167, PyrD, Dihydroorotate dehydrogenase [Nucleotide transport
and metabolism].
Length = 310
Score = 31.4 bits (72), Expect = 1.2
Identities = 9/42 (21%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 419 VYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGS 460
V + + +P+I GG+++ ++ + GAS +G+
Sbjct: 231 VAELYK-RLGGDIPIIGVGGIETGEDALEFILAGASAVQVGT 271
>gnl|CDD|216969 pfam02310, B12-binding, B12 binding domain. This domain binds to
B12 (adenosylcobamide), it is found in several enzymes,
such as glutamate mutase, methionine synthase, and
methylmalonyl-CoA mutase. It contains a conserved
DxHxxGx(41)SxVx(26)GG motif, which is important for B12
binding.
Length = 121
Score = 30.0 bits (68), Expect = 1.2
Identities = 18/76 (23%), Positives = 37/76 (48%), Gaps = 13/76 (17%)
Query: 337 LLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYPDMQVIGGNVLFGYQPRATLLNFIYQI 396
L AG +V++L + ++++ I++E PD V+G + L N
Sbjct: 23 ALRAAGFEVILLGADVP----PEDIVEAIREEKPD--VVGLSALMTT-------NLPAAK 69
Query: 397 EMIKFIKKEYPDMQVI 412
E+I+ +K+ P ++V+
Sbjct: 70 ELIELLKRIRPRVKVV 85
>gnl|CDD|234651 PRK00125, pyrF, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 278
Score = 31.0 bits (71), Expect = 1.5
Identities = 22/79 (27%), Positives = 26/79 (32%), Gaps = 16/79 (20%)
Query: 413 GRNGTAVY-RVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGE 471
G G A R Y GV VIAD +G +A A A
Sbjct: 68 GAEGLAQLERTIAYLREAGVLVIADAKRGDIGSTAEAYA---------------KAAFES 112
Query: 472 YFFSDGVRLKKYRGMGSLE 490
+D V + Y G SLE
Sbjct: 113 PLEADAVTVSPYMGFDSLE 131
>gnl|CDD|239205 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 = 30.9 bits (71), Expect = 1.6
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 426 ASRRGVPVIADGGVQSVGHVMKALALGASTAMM 458
++ +P+IA GG+++ + KALALGA M
Sbjct: 251 SALPDLPLIASGGIRNGLDIAKALALGADLVGM 283
>gnl|CDD|223184 COG0106, HisA, Phosphoribosylformimino-5-aminoimidazole carboxamide
ribonucleotide (ProFAR) isomerase [Amino acid transport
and metabolism].
Length = 241
Score = 30.6 bits (70), Expect = 1.6
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 152 VVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGS 207
+V LD ++ +E IK I + +GG + + + + L+DAGV + +G+
Sbjct: 50 LVDLDGAKAGGPRNLEAIKEILEATDVPVQVGGGIRSLEDVEALLDAGVARVIIGT 105
>gnl|CDD|238088 cd00156, REC, Signal receiver domain; originally thought to be
unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
recently identified in eukaroytes ETR1 Arabidopsis
thaliana; this domain receives the signal from the
sensor partner in a two-component systems; contains a
phosphoacceptor site that is phosphorylated by histidine
kinase homologs; usually found N-terminal to a DNA
binding effector domain; forms homodimers.
Length = 113
Score = 29.5 bits (67), Expect = 1.7
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 16/69 (23%)
Query: 142 LKLLSQAGVDVVILD----SSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTT----DQAK 193
L LL++ D+++LD G +E+++ I+K PD+ +I +T + A
Sbjct: 34 LALLAEEKPDLILLDIMMPGMDG-----LELLRRIRKRGPDIPII---FLTAHGDDEDAV 85
Query: 194 NLIDAGVDG 202
+ AG D
Sbjct: 86 EALKAGADD 94
>gnl|CDD|235237 PRK04169, PRK04169, geranylgeranylglyceryl phosphate synthase-like
protein; Reviewed.
Length = 232
Score = 30.5 bits (70), Expect = 1.8
Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 167 EMIKYIKKEYPDMQVI-GGNVVTTDQAKNLIDAGVDGLRVG 206
EM+K +KK +I GG + + +QA+ L+ AG D + VG
Sbjct: 173 EMVKAVKKALDITPLIYGGGIRSPEQARELMAAGADTIVVG 213
>gnl|CDD|234023 TIGR02814, pfaD_fam, PfaD family protein. The protein PfaD is part
of four gene locus, similar to polyketide biosynthesis
systems, responsible for omega-3 polyunsaturated fatty
acid biosynthesis in several high pressure and/or
cold-adapted bacteria. Several other members of the seed
alignment for this model are found in loci presumed to
act in polyketide biosyntheses per se.
Length = 444
Score = 31.2 bits (71), Expect = 1.8
Identities = 33/127 (25%), Positives = 45/127 (35%), Gaps = 39/127 (30%)
Query: 423 AEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSL-----LAGTSE---------- 467
Y R+ + V A GG+ + A LGA + GS+ AGTS+
Sbjct: 217 RRYGYRKPIRVGAAGGIGTPEAAAAAFMLGADFIVTGSVNQCTVEAGTSDNVKKLLAKAD 276
Query: 468 ------APGEYFFSDGVR---LKK--------------YRGMGSLEAMSRKDGGAAAMDR 504
AP F GV+ LK+ YR SLEA+ A +
Sbjct: 277 VQDTAYAPAGDMFELGVKLQVLKRGTLFPARANKLYELYRRYDSLEALPAAT-RAQLEKK 335
Query: 505 YFHNEMD 511
YF +D
Sbjct: 336 YFKRSLD 342
>gnl|CDD|217603 pfam03537, DUF297, TM1410 hypothetical-related protein.
Length = 203
Score = 30.3 bits (69), Expect = 1.8
Identities = 15/72 (20%), Positives = 24/72 (33%), Gaps = 12/72 (16%)
Query: 139 KYRLKLLSQAGVDVV---ILDSSQGNSIY--------QIEMIKYIKKEYPDMQVIGGNVV 187
RL L G D V +DS Q + + +I+ + P + +I N
Sbjct: 93 DARLDRLWAKGFDGVFLDNVDSYQNANGTGRPLTAADLVALIRELAARAPGLAIILNNGF 152
Query: 188 TT-DQAKNLIDA 198
L+D
Sbjct: 153 ELLPALAPLVDG 164
Score = 29.6 bits (67), Expect = 3.4
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 332 KNRLKLLSQAGVDVV---ILDSSQGNSIY--------QIEMIKFIKKEYPDMQVIGGN 378
RL L G D V +DS Q + + +I+ + P + +I N
Sbjct: 93 DARLDRLWAKGFDGVFLDNVDSYQNANGTGRPLTAADLVALIRELAARAPGLAIILNN 150
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 31.1 bits (71), Expect = 1.9
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 12/73 (16%)
Query: 315 ENNQLIVGAAIGTREADKNRLKLLSQAGVDVVILDS--SQGNSIYQIEMIKFIKKEYPDM 372
E V A EA L+ LS++ D+V+LD + +E++K IK PD+
Sbjct: 25 ELAGYEVVTAESAEEA----LEALSESPFDLVLLDIRMPGMDG---LELLKEIKSRDPDL 77
Query: 373 QVIGGNVLFGYQP 385
VI V+ G+
Sbjct: 78 PVI---VMTGHGD 87
Score = 30.0 bits (68), Expect = 4.2
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 9/55 (16%)
Query: 130 AAIGTREADKYRLKLLSQAGVDVVILDS--SQGNSIYQIEMIKYIKKEYPDMQVI 182
A EA L+ LS++ D+V+LD + +E++K IK PD+ VI
Sbjct: 33 TAESAEEA----LEALSESPFDLVLLDIRMPGMDG---LELLKEIKSRDPDLPVI 80
>gnl|CDD|215995 pfam00563, EAL, EAL domain. This domain is found in diverse
bacterial signaling proteins. It is called EAL after its
conserved residues. The EAL domain is a good candidate
for a diguanylate phosphodiesterase function. The domain
contains many conserved acidic residues that could
participate in metal binding and might form the
phosphodiesterase active site.
Length = 231
Score = 30.4 bits (69), Expect = 2.0
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 13/86 (15%)
Query: 127 GIGAAI---GTREADKYRLKLLSQAGVDVVILDSS------QGNSIYQIEMIKYIKKEYP 177
G A+ GT + L LS+ D + +D S S + + + +
Sbjct: 142 GFRLALDDFGTGYSS---LSYLSRLPPDYIKIDRSFIKDLSDPESRALLRALIALARSL- 197
Query: 178 DMQVIGGNVVTTDQAKNLIDAGVDGL 203
++V+ V T +Q + L + G+D +
Sbjct: 198 GIKVVAEGVETEEQLELLKELGIDYV 223
>gnl|CDD|205457 pfam13277, YmdB, YmdB-like protein. This family of putative
phosphoesterases contains the B. subtilis protein YmdB.
Length = 253
Score = 30.5 bits (70), Expect = 2.0
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 167 EMIKYIKKEY-PDMQVI------GGNVVTTDQAKNLIDAGVDGLRVGSH 208
E + +KKEY D + GG +T AK L +AGVD + +G+H
Sbjct: 17 EHLPRLKKEYGIDFVIANGENAAGGFGITPKIAKELFEAGVDVITLGNH 65
>gnl|CDD|179510 PRK02947, PRK02947, hypothetical protein; Provisional.
Length = 246
Score = 30.6 bits (70), Expect = 2.1
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 413 GRNGTAVYRVAEYASRRGVPVIADGGVQSVGHVMKA 448
GRN + +A A RG VIA V S+ +
Sbjct: 117 GRNPVPI-EMALEAKERGAKVIA---VTSLAYSASV 148
>gnl|CDD|239970 cd04597, CBS_pair_DRTGG_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with a DRTGG domain upstream. The function of
the DRTGG domain, named after its conserved residues, is
unknown. CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 113
Score = 29.3 bits (66), Expect = 2.2
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 250 IEKVMTNVNEIIS-----AQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKK 304
+ V V ++I+ A+ L EA ++ + LP+++D G +I DL +
Sbjct: 53 LADVHPRVRDVINRKPVTARPNDPLREALNLMHEHNIRTLPVVDDDGTPAGIITLLDLAE 112
Query: 305 S 305
Sbjct: 113 K 113
>gnl|CDD|188483 TIGR03968, mycofact_TetR, mycofactocin system transcriptional
regulator. Members of this family are TetR family
putative transcriptional regulators that occur in genome
contexts near proteins of the mycofactocin system. These
include the precursor peptide (TIGR03969), a radical SAM
peptide maturase (TIGR03962), and a putative carrier
protein (TIGR03967).
Length = 190
Score = 30.0 bits (68), Expect = 2.5
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 422 VAEYASRR-GVPVIADGGVQSVGHVMKALALGA 453
+AE+ +RR G+P D ++VG + +AL A
Sbjct: 131 IAEFVARRLGLPP-DDLLPRTVGWLTLGVALSA 162
>gnl|CDD|239238 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 = 30.3 bits (69), Expect = 2.6
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 433 VIADGGVQSVGHVMKALALGASTAMMG 459
V DGGV+ V+KAL LGA +G
Sbjct: 274 VYVDGGVRRGTDVLKALCLGAKAVGLG 300
>gnl|CDD|240082 cd04731, HisF, The cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). 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 = 243
Score = 30.1 bits (69), Expect = 2.7
Identities = 19/83 (22%), Positives = 29/83 (34%), Gaps = 32/83 (38%)
Query: 389 LLNFI--------YQIEMIKFIKKEYPDMQVIGRNGTAVYRVAEYASRRGVPVIADGGVQ 440
LL + Y +E+I+ + AV +PVIA GG
Sbjct: 167 LLTSMDRDGTKKGYDLELIRAVSS-------------AV----------NIPVIASGGAG 203
Query: 441 SVGHVMKAL-ALGASTAMMGSLL 462
H ++A GA A+ S+
Sbjct: 204 KPEHFVEAFEEGGADAALAASIF 226
>gnl|CDD|239200 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present.
Length = 231
Score = 30.2 bits (69), Expect = 2.9
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 413 GRNGTAVY-RVAEYASRRGVPVIADGGVQSVGHVMKALAL-GASTAMMG 459
+G A + +AE +PVIA+G + S+ ++ L G M+G
Sbjct: 165 RYSGPADWDYIAEIKEAVSIPVIANGDIFSLEDALRCLEQTGVDGVMIG 213
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 29.8 bits (68), Expect = 2.9
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 20/104 (19%)
Query: 116 SDMAIAMA--LCGG---IGAAIGTREADKYRLKLLSQAGVDVVIL------DSSQGNSIY 164
D+ +A A L G IG + T E L AG D V + + +
Sbjct: 90 DDLPVADARALLGPDAIIGLSTHTLEEAAAALA----AGADYVGVGPIFPTPTKKDAKAP 145
Query: 165 Q-IEMIKYIKKEYPDMQV--IGGNVVTTDQAKNLIDAGVDGLRV 205
Q +E ++ I+ D+ + IGG +T + A +++AG DG+ V
Sbjct: 146 QGLEGLREIRAAVGDIPIVAIGG--ITPENAPEVLEAGADGVAV 187
>gnl|CDD|223429 COG0352, ThiE, Thiamine monophosphate synthase [Coenzyme
metabolism].
Length = 211
Score = 29.9 bits (68), Expect = 2.9
Identities = 25/108 (23%), Positives = 43/108 (39%), Gaps = 20/108 (18%)
Query: 113 VTESDMAIAMA--LCGG---IGAAIGTREADKYRLKLLSQAGVDVVIL------DSSQGN 161
+ + DM +A A L G IG + E + G D V L +
Sbjct: 87 LGQDDMPLAEARELLGPGLIIGLSTHDLE----EALEAEELGADYVGLGPIFPTSTKPDA 142
Query: 162 SIYQIEMIKYIKK--EYPDMQVIGGNVVTTDQAKNLIDAGVDGLRVGS 207
+E ++ I++ P + IGG + + +++AG DG+ V S
Sbjct: 143 PPLGLEGLREIRELVNIP-VVAIGG--INLENVPEVLEAGADGVAVVS 187
>gnl|CDD|240093 cd04742, NPD_FabD, 2-Nitropropane dioxygenase (NPD)-like domain,
associated with the (acyl-carrier-protein)
S-malonyltransferase FabD. NPD is part of the
nitroalkaneoxidizing enzyme family, that catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDPs are
members 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 = 418
Score = 30.3 bits (69), Expect = 3.0
Identities = 31/113 (27%), Positives = 40/113 (35%), Gaps = 38/113 (33%)
Query: 422 VAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSL-----LAGTSE--------- 467
A Y RR + V A GG+ + A ALGA + GS+ AGTS+
Sbjct: 211 AARYGYRRPIRVGAAGGIGTPEAAAAAFALGADFIVTGSINQCTVEAGTSDAVKDLLQKA 270
Query: 468 -------APGEYFFSDGVR---LKK--------------YRGMGSLEAMSRKD 496
AP F G + LK+ YR SLE + K
Sbjct: 271 GVQDTAYAPAADMFELGAKVQVLKRGTLFPARANKLYELYRRYDSLEEIPAKT 323
>gnl|CDD|239016 cd02065, B12-binding_like, B12 binding domain (B12-BD). Most of the
members bind different cobalamid derivates, like B12
(adenosylcobamide) or methylcobalamin or methyl-Co(III)
5-hydroxybenzimidazolylcobamide. This domain is found in
several enzymes, such as glutamate mutase, methionine
synthase and methylmalonyl-CoA mutase. Cobalamin
undergoes a conformational change on binding the
protein; the dimethylbenzimidazole group, which is
coordinated to the cobalt in the free cofactor, moves
away from the corrin and is replaced by a histidine
contributed by the protein. The sequence
Asp-X-His-X-X-Gly, which contains this histidine ligand,
is conserved in many cobalamin-binding proteins. Not all
members of this family contain the conserved binding
motif.
Length = 125
Score = 28.9 bits (65), Expect = 3.0
Identities = 11/72 (15%), Positives = 27/72 (37%), Gaps = 1/72 (1%)
Query: 324 AIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKKEYP-DMQVIGGNVLFG 382
+G + ++ + DVV L + + ++++ KE D+ V+ G
Sbjct: 32 DLGVDVPPEEIVEAAKEEDADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVVGGAHPT 91
Query: 383 YQPRATLLNFIY 394
P ++ +
Sbjct: 92 ADPEEPKVDAVV 103
>gnl|CDD|163625 cd07382, MPP_DR1281, Deinococcus radiodurans DR1281 and related
proteins, metallophosphatase domain. DR1281 is an
uncharacterized Deinococcus radiodurans protein with a
domain that belongs to the metallophosphatase (MPP)
superfamily. MPPs are functionally diverse, but all
share a conserved domain with an active site consisting
of two metal ions (usually manganese, iron, or zinc)
coordinated with octahedral geometry by a cage of
histidine, aspartate, and asparagine residues. The MPP
superfamily includes: Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 255
Score = 30.1 bits (69), Expect = 3.0
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 9/50 (18%)
Query: 167 EMIKYIKKEY-PDMQVI-------GGNVVTTDQAKNLIDAGVDGLRVGSH 208
E + +KKEY D VI GG +T AK L+ AGVD + +G+H
Sbjct: 19 EHLPKLKKEYKIDF-VIANGENAAGGKGITPKIAKELLSAGVDVITMGNH 67
>gnl|CDD|233740 TIGR02127, pyrF_sub2, orotidine 5'-phosphate decarboxylase,
subfamily 2. This model represents orotidine
5'-monophosphate decarboxylase, the PyrF protein of
pyrimidine nucleotide biosynthesis. See TIGR01740 for a
related but distinct subfamily of the same enzyme
[Purines, pyrimidines, nucleosides, and nucleotides,
Pyrimidine ribonucleotide biosynthesis].
Length = 261
Score = 30.1 bits (68), Expect = 3.2
Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 16/74 (21%)
Query: 417 TAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAPGEYFFSD 476
A+ V +A G+PV+AD +G A A A +G L A D
Sbjct: 73 KALEEVIAHARSLGLPVLADVKRGDIGSTASAYA----KAWLGHLHA------------D 116
Query: 477 GVRLKKYRGMGSLE 490
+ + Y G+ SL
Sbjct: 117 ALTVSPYLGLDSLR 130
>gnl|CDD|221214 pfam11769, DUF3313, Protein of unknown function (DUF3313). This a
bacterial family of proteins which are annotated as
putative lipoproteins.
Length = 202
Score = 29.6 bits (67), Expect = 3.3
Identities = 30/123 (24%), Positives = 48/123 (39%), Gaps = 21/123 (17%)
Query: 95 LTKKITLAAPLVSSP-------------MDTVTESDMAIAMALCGGIGAAIGTREADKYR 141
L ++++ PLV +P +DT T D+ + G+ A G + A R
Sbjct: 87 LKEELSKRFPLVDAPGPGTLRVRVAITGVDTSTP-DLKAYEVIPIGLVIA-GVKAATGTR 144
Query: 142 LKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
S V+V +LD+ G + + K Y + +V+T D AK ID
Sbjct: 145 DGSGS-VAVEVELLDAQTGELL-----AAVVDKRYGNKLENSASVITLDDAKAAIDKWAK 198
Query: 202 GLR 204
L
Sbjct: 199 DLV 201
>gnl|CDD|147701 pfam05690, ThiG, Thiazole biosynthesis protein ThiG. This family
consists of several bacterial thiazole biosynthesis
protein G sequences. ThiG, together with ThiF and ThiH,
is proposed to be involved in the synthesis of
4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an
intermediate in the thiazole production pathway.
Length = 246
Score = 29.9 bits (68), Expect = 3.4
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 431 VPVIADGGVQSVGHVMKALALGASTAMMGSLLAG 464
VPVI D G+ + +A+ LGA ++ + +A
Sbjct: 175 VPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAR 208
>gnl|CDD|239431 cd03315, MLE_like, Muconate lactonizing enzyme (MLE) like subgroup
of the enolase superfamily. Enzymes of this subgroup
share three conserved carboxylate ligands for the
essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and residues that can
function as general acid/base catalysts, a Lys-X-Lys
motif and another conserved lysine. Despite these
conserved residues, the members of the MLE subgroup,
like muconate lactonizing enzyme, o-succinylbenzoate
synthase (OSBS) and N-acylamino acid racemase (NAAAR),
catalyze different reactions.
Length = 265
Score = 30.0 bits (68), Expect = 3.5
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 423 AEYASRRGVPVIADGGVQSVGHVMKALALGASTAMM 458
A A P++AD + + LALGA+ A+
Sbjct: 173 AALARATDTPIMADESAFTPHDAFRELALGAADAVN 208
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 29.8 bits (68), Expect = 3.5
Identities = 20/84 (23%), Positives = 31/84 (36%), Gaps = 17/84 (20%)
Query: 126 GGIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGN 185
GIG AI R L+ G +VVI +S + ++ I + G+
Sbjct: 15 RGIGRAIAER---------LAAQGANVVINYAS--SEAGAEALVAEIGALGGKALAVQGD 63
Query: 186 VVTTDQAKNLIDA------GVDGL 203
V + + +D GVD L
Sbjct: 64 VSDAESVERAVDEAKAEFGGVDIL 87
>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
cAMP-binding and CBS domains [Signal transduction
mechanisms].
Length = 610
Score = 30.0 bits (68), Expect = 3.8
Identities = 23/79 (29%), Positives = 44/79 (55%), Gaps = 5/79 (6%)
Query: 226 EKLLGIVTSRDV--DFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGK 283
LLGIVT +D+ + + + K+ +VMT + +IS G L EA +++ +++
Sbjct: 190 GPLLGIVTRKDLRSRVIADGRSKTQKVSEVMT--SPVISVDRGDFLFEAMLMMLRNRIKH 247
Query: 284 LPILNDKGELIALIARTDL 302
LP+ D G+ + ++ TD+
Sbjct: 248 LPVTED-GQPLGILTLTDI 265
Score = 29.3 bits (66), Expect = 7.6
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 249 KIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLKKSRDY 308
++ +V T +S QA S+++A ++ L +L+D G L+ ++ R DL+
Sbjct: 150 RVGEVKTLPAVTVSPQA--SIQDAARKMKDEGVSSLVVLDDSGPLLGIVTRKDLRSRVIA 207
Query: 309 PDSSKDE 315
SK +
Sbjct: 208 DGRSKTQ 214
>gnl|CDD|119340 cd00377, ICL_PEPM, Members of the ICL/PEPM enzyme family catalyze
either P-C or C-C bond formation/cleavage. Known members
are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate
hydrolase (PPH), carboxyPEP mutase (CPEP mutase),
oxaloacetate hydrolase (OAH), isocitrate lyase (ICL),
and 2-methylisocitrate lyase (MICL). Isocitrate lyase
(ICL) catalyzes the conversion of isocitrate to
succinate and glyoxylate, the first committed step in
the glyoxylate pathway. This carbon-conserving pathway
is present in most prokaryotes, lower eukaryotes and
plants, but has not been observed in vertebrates. PEP
mutase (PEPM) turns phosphoenolpyruvate (PEP) into
phosphonopyruvate (P-pyr), an important intermediate in
the formation of organophosphonates, which function as
antibiotics or play a role in pathogenesis or signaling.
P-pyr can be hydrolyzed by phosphonopyruvate hydrolase
(PPH) to from pyruvate and phosphate. Oxaloacetate
acetylhydrolase (OAH) catalyzes the hydrolytic cleavage
of oxaloacetate to form acetate and oxalate, an
important pathway to produce oxalate in filamentous
fungi. 2-methylisocitrate lyase (MICL) cleaves
2-methylisocitrate to pyruvate and succinate, part of
the methylcitrate cycle for the alpha-oxidation of
propionate.
Length = 243
Score = 29.8 bits (68), Expect = 3.8
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 406 YPDMQVIGRNGTAVYRVAEYASRRGVPVIAD-----GGVQSVGHVMKALA-LGAS 454
PD ++ + + V A +PVIAD G +V ++ L GA+
Sbjct: 46 LPDGGLLTLD-EVLAAVRRIARAVDLPVIADADTGYGNALNVARTVRELEEAGAA 99
>gnl|CDD|238299 cd00537, MTHFR, Methylenetetrahydrofolate reductase (MTHFR).
5,10-Methylenetetrahydrofolate is reduced to
5-methyltetrahydrofolate by methylenetetrahydrofolate
reductase, a cytoplasmic, NAD(P)-dependent enzyme.
5-methyltetrahydrofolate is utilized by methionine
synthase to convert homocysteine to methionine. The
enzymatic mechanism is a ping-pong bi-bi mechanism, in
which NAD(P)+ release precedes the binding of
methylenetetrahydrofolate and the acceptor is free FAD.
The family includes the 5,10-methylenetetrahydrofolate
reductase EC:1.7.99.5 from prokaryotes and
methylenetetrahydrofolate reductase EC: 1.5.1.20 from
eukaryotes. The bacterial enzyme is a homotetramer and
NADH is the preferred reductant while the eukaryotic
enzyme is a homodimer and NADPH is the preferred
reductant. In humans, there are several clinically
significant mutations in MTHFR that result in
hyperhomocysteinemia, which is a risk factor for the
development of cardiovascular disease.
Length = 274
Score = 29.9 bits (68), Expect = 3.9
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 376 GGNVLFGYQPRATLLNFIYQIEMIKFIKKEYPD 408
G G QP A + F+Y +++++ I+KE
Sbjct: 95 GDPPKGGDQPGAKPVGFVYAVDLVELIRKENGG 127
>gnl|CDD|179108 PRK00748, PRK00748,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase; Validated.
Length = 233
Score = 29.6 bits (68), Expect = 4.0
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 8/48 (16%)
Query: 412 IGRNGT------AVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGA 453
I R+GT R E A+ +PVIA GGV S+ + LGA
Sbjct: 168 ISRDGTLSGPNVEATR--ELAAAVPIPVIASGGVSSLDDIKALKGLGA 213
>gnl|CDD|239999 cd04627, CBS_pair_14, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 123
Score = 28.4 bits (64), Expect = 4.0
Identities = 24/117 (20%), Positives = 51/117 (43%), Gaps = 16/117 (13%)
Query: 196 IDAGVDGLRVGSHGCHGFCGFPVTENGKLGEKLLGIVTSRDV-DFLENSANMDLKIEKVM 254
+ ++ L GS G H VTE +++GI++ R + +FL +A ++ +
Sbjct: 12 LFQAIEIL--GSGGIHRV---AVTEEE--SGEVIGILSQRRLVEFLWENARSFPGLDPLY 64
Query: 255 TNVNE--------IISAQAGISLEEANVILEKSKKGKLPILNDKGELIALIARTDLK 303
+IS L +A ++ + +++++G LI I+ TD++
Sbjct: 65 PIPLRDLTIGTSDVISINGDQPLIDALHLMHNEGISSVAVVDNQGNLIGNISVTDVR 121
>gnl|CDD|236051 PRK07565, PRK07565, dihydroorotate dehydrogenase 2; Reviewed.
Length = 334
Score = 29.8 bits (68), Expect = 4.1
Identities = 13/36 (36%), Positives = 16/36 (44%)
Query: 427 SRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLL 462
R G + A GV V+K L GA M+ S L
Sbjct: 236 GRVGADLAATTGVHDAEDVIKMLLAGADVVMIASAL 271
>gnl|CDD|223867 COG0796, MurI, Glutamate racemase [Cell envelope biogenesis, outer
membrane].
Length = 269
Score = 29.5 bits (67), Expect = 4.1
Identities = 17/75 (22%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 365 IKKEYPDMQVI--GGNVLFGYQPR--ATLLNFIYQIEMIKFIKKEYPDMQVIGRNGTAVY 420
I+++ PD +I G F Y + + +E++ F+ + VI N TA
Sbjct: 24 IRRQLPDEDIIYVGDTARFPYGEKSEEEIRERT--LEIVDFLLERGIKALVIACN-TASA 80
Query: 421 RVAEYASRR-GVPVI 434
E + +PV+
Sbjct: 81 VALEDLREKFDIPVV 95
>gnl|CDD|99746 cd06453, SufS_like, Cysteine desulfurase (SufS)-like. This family
belongs to the pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). The
major groups in this CD correspond to cysteine
desulfurase (SufS) and selenocysteine lyase. SufS
catalyzes the removal of elemental sulfur and selenium
atoms from L-cysteine, L-cystine, L-selenocysteine, and
L-selenocystine to produce L-alanine; and selenocysteine
lyase catalyzes the decomposition of L-selenocysteine.
Length = 373
Score = 29.7 bits (68), Expect = 4.3
Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 421 RVAEYASRRGVPVIADGGVQSVGH 444
+ E A GVPV+ DG QS GH
Sbjct: 160 EIGEIAHEAGVPVLVDGA-QSAGH 182
>gnl|CDD|238226 cd00384, ALAD_PBGS, Porphobilinogen synthase (PBGS), which is also
called delta-aminolevulinic acid dehydratase (ALAD),
catalyzes the condensation of two 5-aminolevulinic acid
(ALA) molecules to form the pyrrole porphobilinogen
(PBG), which is the second step in the biosynthesis of
tetrapyrroles, such as heme, vitamin B12 and
chlorophyll. This reaction involves the formation of a
Schiff base link between the substrate and the enzyme.
PBGSs are metalloenzymes, some of which have a second,
allosteric metal binding site, beside the metal ion
binding site in their active site. Although PBGS is a
family of homologous enzymes, its metal ion utilization
at catalytic site varies between zinc and magnesium
and/or potassium. PBGS can be classified into two groups
based on differences in their active site metal binding
site. They either contain a cysteine-rich zinc binding
site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an
aspartate-rich magnesium binding site (consensus
DXALDX(Y/F)X3G(H/Q)DG). The cysteine-rich zinc binding
site appears more common. Most members represented by
this model also have a second allosteric magnesium
binding site (consensus RX~164DX~65EXXXD, missing in a
eukaryotic subfamily with cysteine-rich zinc binding
site).
Length = 314
Score = 29.4 bits (67), Expect = 4.9
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 354 NSIYQIEMIKFIKKEYPDMQVI 375
+ I Q I+ IK+ P++ VI
Sbjct: 88 DGIVQ-RAIRAIKEAVPELVVI 108
>gnl|CDD|239987 cd04614, CBS_pair_1, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 96
Score = 27.7 bits (62), Expect = 5.0
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 17/78 (21%)
Query: 227 KLLGIVTSRDVDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGKLPI 286
KL GI+T RD+ +E+++A ++ E +++++ ++PI
Sbjct: 35 KLSGIITERDL-----------------IAKSEVVTATKRTTVSECAQKMKRNRIEQIPI 77
Query: 287 LNDKGELIALIARTDLKK 304
+N +LI L+ DL K
Sbjct: 78 INGNDKLIGLLRDHDLLK 95
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 29.1 bits (66), Expect = 5.1
Identities = 15/72 (20%), Positives = 27/72 (37%), Gaps = 12/72 (16%)
Query: 126 GGIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGN 185
GIG AI L+ G V + D S+ + +E IK + + +
Sbjct: 10 RGIGRAIA---------LRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNAA---ALEAD 57
Query: 186 VVTTDQAKNLID 197
V + + L++
Sbjct: 58 VSDREAVEALVE 69
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 28.4 bits (64), Expect = 5.2
Identities = 17/87 (19%), Positives = 32/87 (36%), Gaps = 13/87 (14%)
Query: 118 MAIAMALCGGIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYP 177
A+ +A G I + + +L+L + G D VI + ++ +++
Sbjct: 5 AAVQLAKALGAARVIAV-DRSEEKLELAKELGADHVINYRD-------EDFVERVRELTG 56
Query: 178 DMQV-----IGGNVVTTDQAKNLIDAG 199
V G T +QA L+ G
Sbjct: 57 GRGVDVVIDCVGAPATLEQALELLRPG 83
>gnl|CDD|176184 cd05281, TDH, Threonine dehydrogenase. L-threonine dehydrogenase
(TDH) catalyzes the zinc-dependent formation of
2-amino-3-ketobutyrate from L-threonine via NAD(H)-
dependent oxidation. THD is a member of the
zinc-requiring, medium chain NAD(H)-dependent alcohol
dehydrogenase family (MDR). MDRs have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The N-terminal region typically
has an all-beta catalytic domain. These proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria) and have 2 tightly bound
zinc atoms per subunit. Sorbitol and aldose reductase
are NAD(+) binding proteins of the polyol pathway, which
interconverts glucose and fructose.
Length = 341
Score = 29.5 bits (67), Expect = 5.4
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 118 MAIAMALCGGIGAAIGTREADKYRLKLLSQAGVDVVI 154
MAIA+A G I + + + YRL+L + G DVVI
Sbjct: 178 MAIAVAKAAGASLVIAS-DPNPYRLELAKKMGADVVI 213
>gnl|CDD|240013 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 = 28.4 bits (64), Expect = 5.5
Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 275 ILEKSKKGKLPILNDKGELIALIARTDLKKSRDYPDSSKDENNQLIVGAAIGTREADKNR 334
++ K+ LP++++KG+LI I+ +DLK + I + + D +
Sbjct: 18 LMRKNNISGLPVVDEKGKLIGNISASDLKGL--LLSPDDLLLYRTITFKELSEKFTDSDG 75
Query: 335 LKLLSQ 340
+K
Sbjct: 76 VKSRPL 81
Score = 28.0 bits (63), Expect = 5.9
Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 3/90 (3%)
Query: 28 DPVCIAPSTTLGKVLQMKKQHGFCGFPVTENGKLGEKLLGIVTSRDVDFLENSANMDLKI 87
V I + ++ +++ G PV + KL+G +++ D+ L S + L
Sbjct: 2 KVVSIDSDERVLDAFKLMRKNNISGLPVVDEKG---KLIGNISASDLKGLLLSPDDLLLY 58
Query: 88 EKDLSSPLTKKITLAAPLVSSPMDTVTESD 117
L++K T + + S P+ T T S
Sbjct: 59 RTITFKELSEKFTDSDGVKSRPLITCTPSS 88
>gnl|CDD|239996 cd04624, CBS_pair_11, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 112
Score = 28.0 bits (63), Expect = 5.8
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 225 GEKLLGIVTSRD-VDFLENSANMDLKIEKVMTNVNEIISAQAGISLEEANVILEKSKKGK 283
E+ +GIVT RD V + ++D + ++MT + + EA ++ K+
Sbjct: 33 DERPIGIVTERDIVRAVAAGIDLDTPVSEIMTRDLVTVDPDE--PVAEAAKLMRKNNIRH 90
Query: 284 LPILNDKGELIALIARTDL 302
+++ GEL+ +I+ DL
Sbjct: 91 HLVVDKGGELVGVISIRDL 109
>gnl|CDD|239204 cd02810, DHOD_DHPD_FMN, Dihydroorotate dehydrogenase (DHOD) and
Dihydropyrimidine dehydrogenase (DHPD) 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.
DHPD catalyzes the first step in pyrimidine degradation:
the NADPH-dependent reduction of uracil and thymine to
the corresponding 5,6-dihydropyrimidines. DHPD contains
two FAD, two FMN and eight [4Fe-4S] clusters, arranged
in two electron transfer chains that pass its
homodimeric interface twice. Two of the Fe-S clusters
show a hitherto unobserved coordination involving a
glutamine residue.
Length = 289
Score = 29.2 bits (66), Expect = 5.9
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 422 VAEYASRR--GVPVIADGGVQSVGHVMKALALGASTAMMGS 460
VA A+R +P+I GG+ S V++ L GAS + +
Sbjct: 233 VARLAARLQLDIPIIGVGGIDSGEDVLEMLMAGASAVQVAT 273
>gnl|CDD|233714 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine
methyltransferase. This family represents
5-methyltetrahydrofolate--homocysteine methyltransferase
(EC 2.1.1.13), one of at least three different enzymes
able to convert homocysteine to methionine by
transferring a methyl group on to the sulfur atom. It is
also called the vitamin B12(or cobalamine)-dependent
methionine synthase. Other methionine synthases include
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase (MetE, EC 2.1.1.14, the
cobalamin-independent methionine synthase) and
betaine-homocysteine methyltransferase [Amino acid
biosynthesis, Aspartate family].
Length = 1178
Score = 29.7 bits (67), Expect = 6.0
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 354 NSIYQIEMIKFIKKEYPDMQVIGG--NVLFGY 383
+I IE I++IK+E PD ++ GG NV F +
Sbjct: 525 YAINFIEAIRWIKEELPDAKISGGVSNVSFSF 556
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 29.0 bits (66), Expect = 6.3
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 11/72 (15%)
Query: 126 GGIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKYIKKEYPDMQVIGGN 185
GGIG AI +LL++ G VVI + ++ + IK+E D + +
Sbjct: 15 GGIGRAIA---------ELLAKEGAKVVIAYDINEEAAQELL--EEIKEEGGDAIAVKAD 63
Query: 186 VVTTDQAKNLID 197
V + + +NL++
Sbjct: 64 VSSEEDVENLVE 75
>gnl|CDD|235619 PRK05826, PRK05826, pyruvate kinase; Provisional.
Length = 465
Score = 29.4 bits (67), Expect = 6.6
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 320 IVGAAIGTREADKNRLKLLSQAGVDVVILDSSQGNSIYQIEMIKFIKK 367
IV A +G L+ L +AGV+VV L+ S G+ + +++
Sbjct: 8 IV-ATLGPASDSPENLEKLIEAGVNVVRLNFSHGSHEEHGKRAALVRE 54
>gnl|CDD|233086 TIGR00676, fadh2, 5,10-methylenetetrahydrofolate reductase,
prokaryotic form. The enzyme activities
methylenetetrahydrofolate reductase (EC 1.5.1.20) and
5,10-methylenetetrahydrofolate reductase (FADH) (EC
1.7.99.5) differ in that 1.5.1.20 (assigned in many
eukaryotes) is defined to use NADP+ as an acceptor,
while 1.7.99.5 (assigned in many bacteria) is flexible
with respect to the acceptor; both convert
5-methyltetrahydrofolate to
5,10-methylenetetrahydrofolate. From a larger set of
proteins assigned as 1.5.1.20 and 1.7.99.5, this model
describes the subset of proteins found in bacteria, and
currently designated 1.7.99.5. This protein is an
FAD-containing flavoprotein [Amino acid biosynthesis,
Aspartate family].
Length = 272
Score = 28.8 bits (65), Expect = 8.4
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 20/91 (21%)
Query: 324 AIG-TREADKNRLKLLSQAGV-DVVIL---------DSSQGNSIYQIEMIKFIKKEYPDM 372
IG TRE + L+ + G+ ++ L + G Y E+++FI+ E+ D
Sbjct: 67 CIGATREEIREILREYRELGIRHILALRGDPPKGEGTPTPGGFNYASELVEFIRNEFGDF 126
Query: 373 QVIGGNVLFGY---QPRATLLNFIYQIEMIK 400
+ Y P A N IE +K
Sbjct: 127 DIGVA----AYPEKHPEAP--NLEEDIENLK 151
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa
(IMP dehydrogenase-1), and homocystinuria
(cystathionine beta-synthase).
Length = 126
Score = 27.6 bits (62), Expect = 8.4
Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 29 PVCIAPSTTLGKVLQ-MKKQHGFCGFPVTENGKLGEKLLGIVTSRDV 74
P+ I T++ + L+ M K V + +G++T+ D+
Sbjct: 3 PIVIPADTSIDEALELMIKHGVRLLLVVDSDD----NFIGVITAVDL 45
>gnl|CDD|223484 COG0407, HemE, Uroporphyrinogen-III decarboxylase [Coenzyme
metabolism].
Length = 352
Score = 28.8 bits (65), Expect = 8.5
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 11/52 (21%)
Query: 335 LKLLSQAGVDVV-ILDSSQGNSI----------YQIEMIKFIKKEYPDMQVI 375
LK +AG D V I DS G Y +++ +K+ + VI
Sbjct: 195 LKAQIEAGADAVQIFDSWAGVLSMIDYDEFVLPYMKRIVREVKEVKGGVPVI 246
>gnl|CDD|178317 PLN02715, PLN02715, lipid phosphate phosphatase.
Length = 327
Score = 28.9 bits (64), Expect = 8.6
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 416 GTAVYRVAEYASRRGVPVIADGGVQSVGHVMKALALGASTAMMGSLLAGTSEAP 469
G Y + A RGVPV + G ++A++L + + ++ +GTS AP
Sbjct: 277 GWGPYAYFKAAQERGVPVASSQN----GDALRAMSLQMDSTSLENMESGTSTAP 326
>gnl|CDD|107303 cd06308, PBP1_sensor_kinase_like, Periplasmic binding domain of
two-component sensor kinase signaling systems.
Periplasmic binding domain of two-component sensor
kinase signaling systems, some of which are fused with a
C-terminal histidine kinase A domain (HisK) and/or a
signal receiver domain (REC). Members of this group
share homology with a family of pentose/hexose
sugar-binding proteins of the type I periplasmic binding
protein superfamily and are predicted to be involved in
sensing of environmental stimuli; their substrate
specificities, however, are not known in detail.
Length = 270
Score = 28.4 bits (64), Expect = 9.8
Identities = 25/94 (26%), Positives = 40/94 (42%), Gaps = 23/94 (24%)
Query: 351 SQGNSI--YQIEMIKFIKKE---YPDMQVI----GGNVLFGYQPRATLLNFIYQIEMIKF 401
SQ N ++ M I++E YPD+++I + + IE F
Sbjct: 5 SQCNLADPWRAAMNDEIQREASNYPDVELIIADAADDNS----------KQVADIE--NF 52
Query: 402 IKKEYPDMQVIGRN-GTAVYRVAEYASRRGVPVI 434
I++ D+ +I N + V E A R G+PVI
Sbjct: 53 IRQG-VDLLIISPNEAAPLTPVVEEAYRAGIPVI 85
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 28.4 bits (63), Expect = 9.9
Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 11/90 (12%)
Query: 112 TVTESDMAIAMALCGGIGAAIGTREADKYRLKLLSQAGVDVVILDSSQGNSIYQIEMIKY 171
+AI GIG AI T L+Q G VVI +S + + +
Sbjct: 2 VQLNGKVAIVTGGAKGIGKAI-TVA--------LAQEGAKVVINYNSSKEAAENL--VNE 50
Query: 172 IKKEYPDMQVIGGNVVTTDQAKNLIDAGVD 201
+ KE D+ + +V + A L++ V+
Sbjct: 51 LGKEGHDVYAVQADVSKVEDANRLVEEAVN 80
>gnl|CDD|110032 pfam01001, HCV_NS4b, Hepatitis C virus non-structural protein NS4b.
No precise function has been assigned to NS4b. However,
it is known that NS4b interacts with NS4a and NS3 to
form a large replicase complex to direct the viral RNA
replication.
Length = 192
Score = 28.1 bits (63), Expect = 9.9
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 91 LSSPLTKKITLAAPLVSSPMDT-VTESDMAIAMALCGGIGAAIGT 134
++SPL + LA L+ T + +A G GAA+G+
Sbjct: 70 MTSPLPTHVRLALALLGGWGATQLGTPSGGLAFVGAGFAGAAVGS 114
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.136 0.383
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,969,486
Number of extensions: 3018595
Number of successful extensions: 4732
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4602
Number of HSP's successfully gapped: 389
Length of query: 590
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 488
Effective length of database: 6,413,494
Effective search space: 3129785072
Effective search space used: 3129785072
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: 62 (27.5 bits)