RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 023678
(279 letters)
>gnl|CDD|178009 PLN02383, PLN02383, aspartate semialdehyde dehydrogenase.
Length = 344
Score = 469 bits (1208), Expect = e-168
Identities = 197/232 (84%), Positives = 214/232 (92%)
Query: 33 MSYQESAPSVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVE 92
M+ E+ PSVA+VGVTGAVGQEFLSVL+DRDFPY S+KMLAS RSAGK+++F+ + YTVE
Sbjct: 1 MALTENGPSVAIVGVTGAVGQEFLSVLTDRDFPYSSLKMLASARSAGKKVTFEGRDYTVE 60
Query: 93 ELTEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEA 152
ELTEDSFDGVDIALFSAGGSISKKFGPIAV+KG++VVDNSSAFRM E VPLVIPEVNPEA
Sbjct: 61 ELTEDSFDGVDIALFSAGGSISKKFGPIAVDKGAVVVDNSSAFRMEEGVPLVIPEVNPEA 120
Query: 153 MSGIKVGMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELE 212
M IK+G GKGALIANPNCSTIICLMA TPLHR AKV RMVVSTYQAASGAGAAAMEELE
Sbjct: 121 MKHIKLGKGKGALIANPNCSTIICLMAVTPLHRHAKVKRMVVSTYQAASGAGAAAMEELE 180
Query: 213 LQTREVLEGKPPTCKIFSQQYAFNLFSHNAPVLENGYNEEEMKMVKETRKIW 264
QTREVLEGKPPTC IF+QQYAFNLFSHNAP+ ENGYNEEEMK+VKETRKIW
Sbjct: 181 QQTREVLEGKPPTCNIFAQQYAFNLFSHNAPMQENGYNEEEMKLVKETRKIW 232
>gnl|CDD|237845 PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase;
Provisional.
Length = 334
Score = 334 bits (858), Expect = e-115
Identities = 128/224 (57%), Positives = 161/224 (71%), Gaps = 6/224 (2%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDSFDG 101
VAVVG TGAVG+E L++L +R+FP +++LAS RSAGK+LSF+ K VE+LT F G
Sbjct: 4 VAVVGATGAVGREMLNILEERNFPVDKLRLLASARSAGKELSFKGKELKVEDLTTFDFSG 63
Query: 102 VDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKVGMG 161
VDIALFSAGGS+SKK+ P A G++V+DNSSAFRM +VPLV+PEVNPEA++ +
Sbjct: 64 VDIALFSAGGSVSKKYAPKAAAAGAVVIDNSSAFRMDPDVPLVVPEVNPEALAEHR---K 120
Query: 162 KGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQTREVLEG 221
KG +IANPNCSTI ++A PLH A + R+VVSTYQA SGAG A MEEL QTR VL
Sbjct: 121 KG-IIANPNCSTIQMVVALKPLHDAAGIKRVVVSTYQAVSGAGKAGMEELFEQTRAVLNA 179
Query: 222 K--PPTCKIFSQQYAFNLFSHNAPVLENGYNEEEMKMVKETRKI 263
P K F + AFN+ H +++GY +EEMKMV ET+KI
Sbjct: 180 AVDPVEPKKFPKPIAFNVIPHIDVFMDDGYTKEEMKMVNETKKI 223
>gnl|CDD|223214 COG0136, Asd, Aspartate-semialdehyde dehydrogenase [Amino acid
transport and metabolism].
Length = 334
Score = 271 bits (694), Expect = 2e-90
Identities = 112/226 (49%), Positives = 141/226 (62%), Gaps = 8/226 (3%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQ-LSFQDKAYTVEELTEDSFD 100
VAV+G TGAVGQ L +L +R FP+ + +LAS RSAGK+ + F K+ V E D F
Sbjct: 4 VAVLGATGAVGQVLLELLEERHFPFEELVLLASARSAGKKYIEFGGKSIGVPEDAADEFV 63
Query: 101 --GVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKV 158
VDI F+AGGS+SK+ P A E G +V+DNSSAFRM +VPLV+PEVNPE + +
Sbjct: 64 FSDVDIVFFAAGGSVSKEVEPKAAEAGCVVIDNSSAFRMDPDVPLVVPEVNPEHLIDYQ- 122
Query: 159 GMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQTREV 218
+G +IANPNCSTI ++A PLH + R+VVSTYQA SGAGA EL QT +
Sbjct: 123 --KRGFIIANPNCSTIQLVLALKPLHDAFGIKRVVVSTYQAVSGAGAEGGVELAGQTDAL 180
Query: 219 LEGKPPTCKIFSQQYAFNLFSHNAPVLENGYNEEEMKMVKETRKIW 264
L G P AFN+ H L+NGY +EE K+ ETRKI
Sbjct: 181 LNGIPILPI--GYPLAFNVIPHIDGFLDNGYTKEEWKIEAETRKIL 224
>gnl|CDD|233347 TIGR01296, asd_B, aspartate-semialdehyde dehydrogenase
(peptidoglycan organisms). Two closely related families
of aspartate-semialdehyde dehydrogenase are found. They
differ by a deep split in phylogenetic and percent
identity trees and in gap patterns. This model
represents a branch more closely related to the USG-1
protein than to the other aspartate-semialdehyde
dehydrogenases represented in model TIGR00978 [Amino
acid biosynthesis, Aspartate family].
Length = 338
Score = 256 bits (655), Expect = 2e-84
Identities = 120/229 (52%), Positives = 154/229 (67%), Gaps = 10/229 (4%)
Query: 41 SVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDSFD 100
+VA+VG TGAVGQE L +L +R+FP + +LAS RSAG++L+F+ K VEE +SF+
Sbjct: 1 NVAIVGATGAVGQEMLKLLEERNFPIDKLVLLASARSAGRKLTFKGKELEVEEAETESFE 60
Query: 101 GVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKVGM 160
G+DIALFSAGGS+SK+F P A + G IV+DN+SAFRM +VPLV+PEVN E +
Sbjct: 61 GIDIALFSAGGSVSKEFAPKAAKAGVIVIDNTSAFRMDPDVPLVVPEVNFEDLKEFN--- 117
Query: 161 GKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQTREVLE 220
+IANPNCSTI ++ PLH AK+ R+VVSTYQA SGAG A +EEL QT+ VLE
Sbjct: 118 -PKGIIANPNCSTIQMVVVLKPLHDEAKIKRVVVSTYQAVSGAGNAGVEELYNQTKAVLE 176
Query: 221 GK------PPTCKIFSQQYAFNLFSHNAPVLENGYNEEEMKMVKETRKI 263
G P F Q AFN H +++GY +EE KM+ ETRKI
Sbjct: 177 GAEQLPYIQPKANKFPYQIAFNAIPHIDSFVDDGYTKEEQKMLFETRKI 225
>gnl|CDD|136022 PRK06728, PRK06728, aspartate-semialdehyde dehydrogenase;
Provisional.
Length = 347
Score = 168 bits (426), Expect = 4e-50
Identities = 95/235 (40%), Positives = 142/235 (60%), Gaps = 14/235 (5%)
Query: 37 ESAPSVAVVGVTGAVGQEFLSVL-SDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELT 95
E VAVVG TGAVGQ+ + +L + F + +L+SKRSAGK + F+ + ++E
Sbjct: 3 EKGYHVAVVGATGAVGQKIIELLEKETKFNIAEVTLLSSKRSAGKTVQFKGREIIIQEAK 62
Query: 96 EDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSG 155
+SF+GVDIA FSAGG +S++F AV G+IV+DN+S +RM +VPLV+PEVN +
Sbjct: 63 INSFEGVDIAFFSAGGEVSRQFVNQAVSSGAIVIDNTSEYRMAHDVPLVVPEVNAHTLKE 122
Query: 156 IKVGMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQT 215
K +IA PNCS + + A P+ + + R++VSTYQA SG+G A++EL+ Q
Sbjct: 123 HK------GIIAVPNCSALQMVTALQPIRKVFGLERIIVSTYQAVSGSGIHAIQELKEQA 176
Query: 216 REVLEGKPPTCKIF-----SQQY--AFNLFSHNAPVLENGYNEEEMKMVKETRKI 263
+ +L G+ I + Y AFN+ +N + EE+KM++ET+KI
Sbjct: 177 KSILAGEEVESTILPAKKDKKHYPIAFNVLPQVDIFTDNDFTFEEVKMIQETKKI 231
>gnl|CDD|236329 PRK08664, PRK08664, aspartate-semialdehyde dehydrogenase; Reviewed.
Length = 349
Score = 148 bits (377), Expect = 1e-42
Identities = 84/271 (30%), Positives = 123/271 (45%), Gaps = 75/271 (27%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKML-ASKRSAGKQL--------------SFQD 86
V ++G TG VGQ F+ +L++ P+ + L AS+RSAGK D
Sbjct: 6 VGILGATGMVGQRFVQLLAN--HPWFEVTALAASERSAGKTYGEAVRWQLDGPIPEEVAD 63
Query: 87 KAYTVEELTEDSFDGVDIALFSA-----GGSISKKFGPIAVEKGSIVVDNSSAFRMVENV 141
V ++ D VDI +FSA G + ++F + G V N+SA RM +V
Sbjct: 64 --MEVVSTDPEAVDDVDI-VFSALPSDVAGEVEEEF----AKAGKPVFSNASAHRMDPDV 116
Query: 142 PLVIPEVNPEAMSGIKV----GMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTY 197
PLVIPEVNPE + I+V G ++ NPNCSTI ++A PL + R+ V+T
Sbjct: 117 PLVIPEVNPEHLELIEVQRKRRGWDGFIVTNPNCSTIGLVLALKPL-MDFGIERVHVTTM 175
Query: 198 QAASGAG---AAAMEELELQTREVLEGKPPTCKIFSQQYAFNLFSHNAPVLENGYNEEEM 254
QA SGAG +M+ ++ N+ + EEE
Sbjct: 176 QAISGAGYPGVPSMDIVD-----------------------NVIPY-------IGGEEE- 204
Query: 255 KMVKETRKIWVSFK------MNFFVSPCSCN 279
K+ KET KI F+ +F +S +C+
Sbjct: 205 KIEKETLKILGKFEGGKIVPADFPIS-ATCH 234
>gnl|CDD|181205 PRK08040, PRK08040, putative semialdehyde dehydrogenase;
Provisional.
Length = 336
Score = 143 bits (362), Expect = 9e-41
Identities = 78/225 (34%), Positives = 123/225 (54%), Gaps = 10/225 (4%)
Query: 41 SVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDSFD 100
++A++G TGAVG+ L +L++R FP + LAS+ SAG+ L F K+ TV++ E +
Sbjct: 6 NIALLGATGAVGEALLELLAERQFPVGELYALASEESAGETLRFGGKSVTVQDAAEFDWS 65
Query: 101 GVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKVGM 160
+A F AG S + A G +V+D+S F + +VPLV+PEVNP ++ +
Sbjct: 66 QAQLAFFVAGREASAAYAEEATNAGCLVIDSSGLFALEPDVPLVVPEVNPFVLADYR--- 122
Query: 161 GKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQTREVLE 220
+IA + T L A PL +A ++R+ V+ +AS G AA++ L Q+ ++L
Sbjct: 123 -NRNIIAVADSLTSQLLTAIKPLIDQAGLSRLHVTNLLSASAHGKAAVDALAGQSAKLLN 181
Query: 221 GKPPTCKIFSQQYAFNLFSHNAPVL--ENGYNEEEMKMVKETRKI 263
G P F +Q AFN+ P+L G EE ++V + RKI
Sbjct: 182 GIPIEEGFFGRQLAFNML----PLLPDSEGSVREERRLVDQVRKI 222
>gnl|CDD|201603 pfam01118, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD binding
domain. This Pfam entry contains the following members:
N-acetyl-glutamine semialdehyde dehydrogenase (AgrC)
Aspartate-semialdehyde dehydrogenase.
Length = 121
Score = 136 bits (344), Expect = 2e-40
Identities = 47/121 (38%), Positives = 70/121 (57%), Gaps = 7/121 (5%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKA------YTVEELT 95
VA+VG TG VGQE L +L P + ++AS RSAGK+++F +E++
Sbjct: 2 VAIVGATGYVGQELLRLL-AEHPPLELVALVASSRSAGKKVAFAYPILEGGKDLLLEDVD 60
Query: 96 EDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSG 155
+ VDI + +SK+ P +E G++V+D SSAFRM ++VP V+PEVN EA+
Sbjct: 61 PEDLKDVDIVFLALPAGVSKELAPKLLEAGAVVIDLSSAFRMDDDVPYVLPEVNREAIKK 120
Query: 156 I 156
Sbjct: 121 A 121
>gnl|CDD|168165 PRK05671, PRK05671, aspartate-semialdehyde dehydrogenase; Reviewed.
Length = 336
Score = 134 bits (338), Expect = 3e-37
Identities = 73/222 (32%), Positives = 113/222 (50%), Gaps = 5/222 (2%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDSFDG 101
+AVVG TG VG+ + +L +RDFP ++ +LAS SAG + F K V E+ F
Sbjct: 7 IAVVGATGTVGEALVQILEERDFPVGTLHLLASSESAGHSVPFAGKNLRVREVDSFDFSQ 66
Query: 102 VDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKVGMG 161
V +A F+AG ++S+ F A G V+D S A P V+PEVN E ++ +
Sbjct: 67 VQLAFFAAGAAVSRSFAEKARAAGCSVIDLSGALP-SAQAPNVVPEVNAERLASLA---- 121
Query: 162 KGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQTREVLEG 221
L+++P+ S + +A PL + R+ V+ A S G + EL QT E+L
Sbjct: 122 APFLVSSPSASAVALAVALAPLKGLLDIQRVQVTACLAVSSLGREGVSELARQTAELLNA 181
Query: 222 KPPTCKIFSQQYAFNLFSHNAPVLENGYNEEEMKMVKETRKI 263
+P + F +Q AFNL + G+ E ++V E R++
Sbjct: 182 RPLEPRFFDRQVAFNLLAQVGAPDAQGHTALERRLVAELRQL 223
>gnl|CDD|214863 smart00859, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD binding
domain. The semialdehyde dehydrogenase family is found
in N-acetyl-glutamine semialdehyde dehydrogenase (AgrC),
which is involved in arginine biosynthesis, and
aspartate-semialdehyde dehydrogenase, an enzyme involved
in the biosynthesis of various amino acids from
aspartate. This family is also found in yeast and fungal
Arg5,6 protein, which is cleaved into the enzymes
N-acety-gamma-glutamyl-phosphate reductase and
acetylglutamate kinase. These are also involved in
arginine biosynthesis. All proteins in this entry
contain a NAD binding region of semialdehyde
dehydrogenase.
Length = 123
Score = 122 bits (308), Expect = 4e-35
Identities = 52/125 (41%), Positives = 70/125 (56%), Gaps = 11/125 (8%)
Query: 41 SVAVVGVTGAVGQEFLSVLSD-RDFPYRSIKMLASKRSAGKQLSF---QDKAYTVEELTE 96
VA+VG TG VGQE L +L++ DF ++ AS RSAGK++S K V EL
Sbjct: 1 KVAIVGATGYVGQELLRLLAEHPDFELTAL--AASSRSAGKKVSEAGPHLKGEVVLELDP 58
Query: 97 DSFD--GVDIALFSAGGSISK---KFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPE 151
F+ VDI + +SK P A G++V+D SSAFRM ++VP +PEVNPE
Sbjct: 59 PDFEELAVDIVFLALPHGVSKESAPLLPRAAAAGAVVIDLSSAFRMDDDVPYGLPEVNPE 118
Query: 152 AMSGI 156
A+
Sbjct: 119 AIKKA 123
>gnl|CDD|233220 TIGR00978, asd_EA, aspartate-semialdehyde dehydrogenase
(non-peptidoglycan organisms). Two closely related
families of aspartate-semialdehyde dehydrogenase are
found. They differ by a deep split in phylogenetic and
percent identity trees and in gap patterns. Separate
models are built for the two types in order to exclude
the USG-1 protein, found in several species, which is
specifically related to the Bacillus subtilis type of
aspartate-semialdehyde dehydrogenase. Members of this
type are found primarily in organisms that lack
peptidoglycan [Amino acid biosynthesis, Aspartate
family].
Length = 341
Score = 120 bits (303), Expect = 4e-32
Identities = 63/181 (34%), Positives = 94/181 (51%), Gaps = 22/181 (12%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSI-KMLASKRSAGKQL--------------SFQD 86
VAV+G TG VGQ+F+ +L+ PY + K++AS RSAGK+ +D
Sbjct: 3 VAVLGATGLVGQKFVKLLAKH--PYFELAKVVASPRSAGKRYGEAVKWIEPGDMPEYVRD 60
Query: 87 KAYTVEELTEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIP 146
+ E + D VDI + ++++ P E G V N+S RM +VPL+IP
Sbjct: 61 --LPIVEPEPIAEDDVDIVFSALPSEVAEEVEPKLAEAGKPVFSNASNHRMDPDVPLIIP 118
Query: 147 EVNPEAMSGIKV---GMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGA 203
EVN + + +KV KG ++ NPNC+T +A PL + ++ V+T QA SGA
Sbjct: 119 EVNSDHLELLKVQKERGWKGFIVTNPNCTTAGLTLALKPLIDAFGIKKVHVTTMQAVSGA 178
Query: 204 G 204
G
Sbjct: 179 G 179
>gnl|CDD|130806 TIGR01745, asd_gamma, aspartate-semialdehyde dehydrogenase,
gamma-proteobacterial. [Amino acid biosynthesis,
Aspartate family].
Length = 366
Score = 64.5 bits (157), Expect = 7e-12
Identities = 65/252 (25%), Positives = 102/252 (40%), Gaps = 33/252 (13%)
Query: 42 VAVVGVTGAVGQEFLS-VLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTE-DSF 99
V +VG G VG + + +RDF ++ + SF T+++ + D+
Sbjct: 3 VGLVGWRGMVGSVLMQRMQEERDFDAIRPVFFSTSQLGQAAPSFGGTTGTLQDAFDIDAL 62
Query: 100 DGVDIALFSAGGSISKKFGPIAVEKG--SIVVDNSSAFRMVENVPLVIPEVNPEAMSGIK 157
+DI + GG + + P E G +D +S+ RM ++ +++ VN + I
Sbjct: 63 KALDIIITCQGGDYTNEIYPKLRESGWQGYWIDAASSLRMKDDAVIILDPVNQDV---IT 119
Query: 158 VGMGKGA-LIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAGAAAMEELELQT- 215
G+ G NC+ + LM+ L V + V+TYQAASG GA M EL Q
Sbjct: 120 DGLNNGIRTFVGGNCTVSLMLMSLGGLFANDLVEWVSVATYQAASGGGARHMRELLTQMG 179
Query: 216 ---REVLE--GKPPTC------KIFSQQYAFNLFSHNAPV-------------LENGYNE 251
V + P + K+ + L N V L+NG +
Sbjct: 180 HLYGHVEDELATPSSAILDIERKVTKLTRSGELPVDNFGVPLAGSLIPWIDKQLDNGQSR 239
Query: 252 EEMKMVKETRKI 263
EE K ET KI
Sbjct: 240 EEWKGQAETNKI 251
>gnl|CDD|235839 PRK06598, PRK06598, aspartate-semialdehyde dehydrogenase; Reviewed.
Length = 369
Score = 61.4 bits (150), Expect = 8e-11
Identities = 78/269 (28%), Positives = 105/269 (39%), Gaps = 67/269 (24%)
Query: 42 VAVVGVTGAVGQEFLSVLSDR-----DF----PY---RSIKMLASKRSAGKQLSFQDKAY 89
V VG G VG SVL R DF P S A+ GK+ + QD A+
Sbjct: 4 VGFVGWRGMVG----SVLMQRMVEENDFDLIEPVFFSTSQAGGAAPSFGGKEGTLQD-AF 58
Query: 90 TVEELTEDSFDGVDIALFSAGGSISKKFGPIAVEKG--SIVVDNSSAFRMVENVPLVIPE 147
++ L + +DI + GG + + P G +D +S RM ++ +++
Sbjct: 59 DIDALKK-----LDIIITCQGGDYTNEVYPKLRAAGWQGYWIDAASTLRMKDDAIIILDP 113
Query: 148 VNPEAMSGIKVGMGKGALIAN---PNCSTIICLMAATPLHRRAKVTRMVVSTYQAASGAG 204
VN I + G + NC+ + LMA L + V + V TYQAASGAG
Sbjct: 114 VN---RDVIDDALANG--VKTFVGGNCTVSLMLMALGGLFKNDLVEWVSVMTYQAASGAG 168
Query: 205 AAAMEEL-------------ELQT---------REVLE----GKPPTCKIFSQQYAFNLF 238
A M EL EL R+V E G PT F A +L
Sbjct: 169 ARNMRELLTQMGALHGAVADELADPASAILDIDRKVTELMRSGDLPT-DNFGVPLAGSLI 227
Query: 239 SHNAP----VLENGYNEEEMKMVKETRKI 263
P L NG + EE K ET KI
Sbjct: 228 ----PWIDKDLGNGQSREEWKGQAETNKI 252
>gnl|CDD|234761 PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase;
Validated.
Length = 343
Score = 59.4 bits (145), Expect = 3e-10
Identities = 52/198 (26%), Positives = 78/198 (39%), Gaps = 44/198 (22%)
Query: 41 SVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLS------FQDKAYTVEEL 94
V +VG +G G E L +L + P I + S+ SAGK LS +E L
Sbjct: 4 KVGIVGASGYTGGELLRLLLNH--PEVEIVAVTSRSSAGKPLSDVHPHLRGLVDLVLEPL 61
Query: 95 TEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMV-------------ENV 141
+ G D+ + +S P +E G V+D S+ FR+
Sbjct: 62 DPEILAGADVVFLALPHGVSMDLAPQLLEAGVKVIDLSADFRLKDPEVYEKWYGFEHAAP 121
Query: 142 PLV------IPEVNPEAMSGIKVGMGKGA-LIANPNC---STIICLMAATPL--HRRAKV 189
L+ +PE+N E + KGA LIANP C ++++ L PL
Sbjct: 122 ELLKEAVYGLPELNREEI--------KGARLIANPGCYPTASLLALA---PLLKAGLIDP 170
Query: 190 TRMVVSTYQAASGAGAAA 207
+++ SGAG A
Sbjct: 171 DSIIIDAKSGVSGAGRKA 188
>gnl|CDD|217222 pfam02774, Semialdhyde_dhC, Semialdehyde dehydrogenase,
dimerisation domain. This Pfam entry contains the
following members: N-acetyl-glutamine semialdehyde
dehydrogenase (AgrC) Aspartate-semialdehyde
dehydrogenase.
Length = 167
Score = 53.5 bits (129), Expect = 7e-09
Identities = 29/85 (34%), Positives = 36/85 (42%), Gaps = 20/85 (23%)
Query: 182 PLH-RRAKVTRMVVSTYQAASGAGAAAMEELELQTREVLEGKPPTCKIFSQQYAFNLFSH 240
PL + R++V TYQA SGAG A +F A NL +
Sbjct: 3 PLRDALGGLERVIVDTYQAVSGAGKKAKPG-----------------VFGAPIADNLIPY 45
Query: 241 NAPVLENGYNE--EEMKMVKETRKI 263
NG E EE+KMV ET+KI
Sbjct: 46 IDGEEHNGTPETREELKMVNETKKI 70
>gnl|CDD|223081 COG0002, ArgC, Acetylglutamate semialdehyde dehydrogenase [Amino
acid transport and metabolism].
Length = 349
Score = 53.8 bits (130), Expect = 3e-08
Identities = 49/196 (25%), Positives = 83/196 (42%), Gaps = 33/196 (16%)
Query: 39 APSVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLS--------FQDKAYT 90
V +VG +G G E L +L+ P + +++S+ AGK +S D +
Sbjct: 2 MIKVGIVGASGYTGLELLRLLAGH--PDVELILISSRERAGKPVSDVHPNLRGLVDLPFQ 59
Query: 91 VEELTEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVE--------NVP 142
+ + D D+ + +S + P +E G V+D S+ FR+ +
Sbjct: 60 TIDPEKIELDECDVVFLALPHGVSAELVPELLEAGCKVIDLSADFRLKDPEVYEKWYGFT 119
Query: 143 LVIPEVNPEAMSGI------KVGMGKGA-LIANPNCSTIICLMAATPLHRRAKV----TR 191
PE+ +A+ G+ K+ +GA LIANP C ++A PL +A + +
Sbjct: 120 HAGPELLEDAVYGLPELHREKI---RGAKLIANPGCYPTAAILALAPL-VKAGLLDPDSP 175
Query: 192 MVVSTYQAASGAGAAA 207
+V SGAG A
Sbjct: 176 PIVDAKSGVSGAGRKA 191
>gnl|CDD|233597 TIGR01850, argC, N-acetyl-gamma-glutamyl-phosphate reductase,
common form. This model represents the more common of
two related families of
N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme
catalyzing the third step or Arg biosynthesis from Glu.
The two families differ by phylogeny, similarity
clustering, and the gap architecture in a multiple
sequence alignment. Bacterial members of this family
tend to be found within Arg biosynthesis operons [Amino
acid biosynthesis, Glutamate family].
Length = 346
Score = 52.6 bits (127), Expect = 6e-08
Identities = 51/196 (26%), Positives = 77/196 (39%), Gaps = 40/196 (20%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKML-ASKRSAGKQLSF---QDKAYTVEELTED 97
VA+VG +G G E L +L + P I L +S+ SAGK +S + L
Sbjct: 3 VAIVGASGYTGGELLRLLLNH--PEVEITYLVSSRESAGKPVSEVHPHLRGLVDLNLEPI 60
Query: 98 SFD----GVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRM---------------- 137
+ D+ + +S + P + G V+D S+ FR+
Sbjct: 61 DVEEILEDADVVFLALPHGVSAELAPELLAAGVKVIDLSADFRLKDPELYEKWYGFEHAG 120
Query: 138 ---VENVPLVIPEVNPEAMSGIKVGMGKGA-LIANPNCSTIICLMAATPL--HRRAKVTR 191
++ +PE++ E + KGA LIANP C L+A PL T
Sbjct: 121 PELLQKAVYGLPELHREEI--------KGARLIANPGCYPTATLLALAPLLKEGLIDPTS 172
Query: 192 MVVSTYQAASGAGAAA 207
++V SGAG A
Sbjct: 173 IIVDAKSGVSGAGRKA 188
>gnl|CDD|235883 PRK06901, PRK06901, aspartate-semialdehyde dehydrogenase;
Provisional.
Length = 322
Score = 50.1 bits (120), Expect = 4e-07
Identities = 44/167 (26%), Positives = 81/167 (48%), Gaps = 9/167 (5%)
Query: 82 LSFQDKAYTVEELTEDSFDGVDIA-LFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVEN 140
+ F +KA VE++ + + D +F AG + A E G IV+D + N
Sbjct: 46 IRFNNKA--VEQIAPEEVEWADFNYVFFAGKMAQAEHLAQAAEAGCIVIDLYGICAALAN 103
Query: 141 VPLVIPEVNPEAMSGIKVGMGKGALIANPNCSTIICLMAATPLHRRAKVTRMVVSTYQAA 200
VP+V+P VN E ++ ++ + +++ P+ +A P + ++++ V++ A
Sbjct: 104 VPVVVPSVNDEQLAELR----QRNIVSLPDPQVSQLALALAPFLQEQPLSQIFVTSLLPA 159
Query: 201 SGAGAAAMEELELQTREVLEGKPPTCKIFSQQYAFNLFSHNAPVLEN 247
S A +++L QT +L G P + Q+ AF++F NA LE
Sbjct: 160 SYTDAETVKKLAGQTARLLNGIPLDEE--EQRLAFDVFPANAQNLEL 204
>gnl|CDD|215522 PLN02968, PLN02968, Probable N-acetyl-gamma-glutamyl-phosphate
reductase.
Length = 381
Score = 43.3 bits (102), Expect = 8e-05
Identities = 52/236 (22%), Positives = 84/236 (35%), Gaps = 41/236 (17%)
Query: 2 ATFSSHQTQTHFISKLPANKPRTKPMFTRVRMSYQESAPSVAVVGVTGAVGQEFLSVLSD 61
S + + + E + V+G +G G E +L++
Sbjct: 3 FADSVGSKGLAS--RASVTSSPQSVVSSASSSVKSEEKKRIFVLGASGYTGAEVRRLLAN 60
Query: 62 RDFPYRSIKMLASKRSAGKQ-------LSFQDKAYTVEELTEDSFDGVDIALF-----SA 109
P I ++ + R AG+ L QD V D F VD A+F
Sbjct: 61 H--PDFEITVMTADRKAGQSFGSVFPHLITQDLPNLVAVKDAD-FSDVD-AVFCCLPHGT 116
Query: 110 GGSISKKFGPIAVEKGSIVVDNSSAFRMVE--------NVPLVIPEVNPEAMSGI----K 157
I K A+ K +VD S+ FR+ + P PE+ EA+ G+ +
Sbjct: 117 TQEIIK-----ALPKDLKIVDLSADFRLRDIAEYEEWYGHPHRAPELQKEAVYGLTELQR 171
Query: 158 VGMGKGALIANPNC--STIICLMAATPLHRRA--KVTRMVVSTYQAASGAGAAAME 209
+ L+ANP C + I + PL + + +++ SGAG A E
Sbjct: 172 EEIKSARLVANPGCYPTGIQLPL--VPLVKAGLIEPDNIIIDAKSGVSGAGRGAKE 225
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, 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 ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 34.5 bits (80), Expect = 0.033
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 10/88 (11%)
Query: 41 SVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVE-ELTEDS- 98
V VVG TG VG+ + L DR + R+ L S ++L A V +LT+
Sbjct: 1 KVLVVGATGKVGRHVVRELLDRGYQVRA---LVRDPSQAEKL-EAAGAEVVVGDLTDAES 56
Query: 99 ----FDGVDIALFSAGGSISKKFGPIAV 122
+G+D + +AG AV
Sbjct: 57 LAAALEGIDAVISAAGSGGKGGPRTEAV 84
>gnl|CDD|233598 TIGR01851, argC_other, N-acetyl-gamma-glutamyl-phosphate reductase,
uncommon form. This model represents the less common of
two related families of
N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme
catalyzing the third step or Arg biosynthesis from Glu.
The two families differ by phylogeny, similarity
clustering, and gap architecture in a multiple sequence
alignment [Amino acid biosynthesis, Glutamate family].
Length = 310
Score = 34.4 bits (79), Expect = 0.043
Identities = 41/174 (23%), Positives = 66/174 (37%), Gaps = 24/174 (13%)
Query: 39 APSVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDS 98
AP V + G G G + LS RD + + +R +D A + L
Sbjct: 1 APKVFIDGEAGTTGLQIRERLSGRD-DIELLSIAPDRR--------KDAAERAKLL---- 47
Query: 99 FDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAMSGIKV 158
+ D+A+ +++ + + ++D S+A+R ++ PE+ P I+
Sbjct: 48 -NAADVAILCLPDDAAREAVSLVDNPNTCIIDASTAYRTADDWAYGFPELAPGQREKIR- 105
Query: 159 GMGKGALIANPNC--STIICLMAATPLHRRAKVTRMVVSTYQAASG--AGAAAM 208
IANP C + I LM PL + T A SG G AM
Sbjct: 106 ---NSKRIANPGCYPTGFIALMR--PLVEAGILPADFPITINAVSGYSGGGKAM 154
>gnl|CDD|238769 cd01492, Aos1_SUMO, Ubiquitin activating enzyme (E1) subunit Aos1.
Aos1 is part of the heterodimeric activating enzyme
(E1), specific for the SUMO family of ubiquitin-like
proteins (Ubls). E1 enzymes are part of a conjugation
cascade to attach Ub or Ubls, covalently to substrate
proteins consisting of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and Ubls C-terminus. The E1 also
associates with E2 and promotes ubiquitin transfer to
the E2's catalytic cysteine. Post-translational
modification by SUMO family of ubiquitin-like proteins
(Ublps) is involved in cell division, nuclear transport,
the stress response and signal transduction. Aos1
contains part of the adenylation domain.
Length = 197
Score = 33.8 bits (78), Expect = 0.057
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 39 APSVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAG 79
AP AVVG G + Q+ ++ LS R+ P + + + S
Sbjct: 156 APVAAVVG--GILAQDVINALSKRESPLNNFFVFDGETSEA 194
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 31.6 bits (72), Expect = 0.31
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 13/87 (14%)
Query: 43 AVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAY------------- 89
A G+ A+ +EFL + +D R LA R + + + +
Sbjct: 17 ASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGLAADVSDDEDRR 76
Query: 90 TVEELTEDSFDGVDIALFSAGGSISKK 116
+ + ED +DG+ I + +AGG+I K
Sbjct: 77 AILDWVEDHWDGLHILVNNAGGNIRKA 103
>gnl|CDD|130833 TIGR01772, MDH_euk_gproteo, malate dehydrogenase, NAD-dependent.
This model represents the NAD-dependent malate
dehydrogenase found in eukaryotes and certain gamma
proteobacteria. The enzyme is involved in the citric
acid cycle as well as the glyoxalate cycle. Several
isoforms exidt in eukaryotes. In S. cereviseae, for
example, there are cytoplasmic, mitochondrial and
peroxisomal forms. Although malate dehydrogenases have
in some cases been mistaken for lactate dehydrogenases
due to the similarity of these two substrates and the
apparent ease with which evolution can toggle these
activities, critical residues have been identified which
can discriminate between the two activities. At the time
of the creation of this model no hits above the trusted
cutoff contained critical residues typical of lactate
dehydrogenases [Energy metabolism, TCA cycle].
Length = 312
Score = 31.6 bits (72), Expect = 0.37
Identities = 38/141 (26%), Positives = 61/141 (43%), Gaps = 27/141 (19%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSA---GKQLSFQD-----KAYTVEE 93
VAV+G G +GQ LS+L PY S L A LS K ++ EE
Sbjct: 2 VAVLGAAGGIGQP-LSLLLKLQ-PYVSELSLYDIAGAAGVAADLSHIPTAASVKGFSGEE 59
Query: 94 LTEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVENVPLVIPEVNPEAM 153
E++ G D+ + AG + +K G + + + N+ +V+++ + E P+AM
Sbjct: 60 GLENALKGADVVVIPAG--VPRKPG---MTRDDLFNVNAG---IVKDLVAAVAESCPKAM 111
Query: 154 SGIKVGMGKGALIANPNCSTI 174
+ I NP ST+
Sbjct: 112 ILV---------ITNPVNSTV 123
>gnl|CDD|240360 PTZ00325, PTZ00325, malate dehydrogenase; Provisional.
Length = 321
Score = 31.6 bits (72), Expect = 0.43
Identities = 25/77 (32%), Positives = 35/77 (45%), Gaps = 10/77 (12%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRS-IKMLASKRSAG--KQLSFQD-----KAYTVEE 93
VAV+G G +GQ LS+L + P+ S + + + G LS D Y E
Sbjct: 11 VAVLGAAGGIGQP-LSLLL-KQNPHVSELSLYDIVGAPGVAADLSHIDTPAKVTGYADGE 68
Query: 94 LTEDSFDGVDIALFSAG 110
L E + G D+ L AG
Sbjct: 69 LWEKALRGADLVLICAG 85
>gnl|CDD|187569 cd05259, PCBER_SDR_a, phenylcoumaran benzylic ether reductase
(PCBER) like, atypical (a) SDRs. PCBER and
pinoresinol-lariciresinol reductases are NADPH-dependent
aromatic alcohol reductases, and are atypical members of
the SDR family. Other proteins in this subgroup are
identified as eugenol synthase. These proteins contain
an N-terminus characteristic of NAD(P)-binding proteins
and a small C-terminal domain presumed to be involved in
substrate binding, but they do not have the conserved
active site Tyr residue typically found in SDRs.
Numerous other members have unknown functions. The
glycine rich NADP-binding motif in this subgroup is of 2
forms: GXGXXG and G[GA]XGXXG; it tends to be atypical
compared with the forms generally seen in classical or
extended SDRs. The usual SDR active site tetrad is not
present, but a critical active site Lys at the usual SDR
position has been identified in various members, though
other charged and polar residues are found at this
position in this subgroup. Atypical SDR-related proteins
retain the Rossmann fold of the SDRs, but have limited
sequence identity and generally lack the catalytic
properties of the archetypical members. Atypical SDRs
include biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, 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 ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 282
Score = 30.7 bits (70), Expect = 0.72
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 10/71 (14%)
Query: 41 SVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTV-------EE 93
+A+ G TG +G +S L P ++ +L S V E
Sbjct: 1 KIAIAGATGTLGGPIVSALLAS--PGFTVTVLTRPSSTSSNEFQPSGVKVVPVDYASHES 58
Query: 94 LTEDSFDGVDI 104
L + GVD
Sbjct: 59 LV-AALKGVDA 68
>gnl|CDD|235699 PRK06110, PRK06110, hypothetical protein; Provisional.
Length = 322
Score = 29.6 bits (67), Expect = 1.6
Identities = 15/28 (53%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 195 STYQAASGAGAAAMEELELQTREVLEGK 222
T+ A GAGAAA+ LQ RE L GK
Sbjct: 270 DTHNVAEGAGAAALAAA-LQERERLAGK 296
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 28.8 bits (65), Expect = 2.1
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 10/75 (13%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTV----EELTED 97
+AV+G TG G+ + L R ++ R+ K + +
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTAL-----SRNPSKAPAPGVTPVQKDLFDLADLAE 55
Query: 98 SFDGVDIALFSAGGS 112
+ GVD A+ A G+
Sbjct: 56 ALAGVD-AVVDAFGA 69
>gnl|CDD|116361 pfam07747, MTH865, MTH865-like family. This domain has an
EF-hand like fold.
Length = 75
Score = 26.7 bits (59), Expect = 3.3
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 54 EFLSVLSDRDFPYRSIKMLASK 75
E +L+D DFP++S + LA
Sbjct: 47 ELGKLLTDADFPFKSAEDLADT 68
>gnl|CDD|129658 TIGR00567, 3mg, DNA-3-methyladenine glycosylase (3mg). This
families are based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University). All
proteins in this family for which the function is known
are involved in the base excision repair of alkylation
damage to DNA. The exact specificty of the type of
alkylation damage repaired by each of these varies
somewhat between species. Substrates include 3-methyl
adenine, 7-methyl-guanaine, and 3-methyl-guanine [DNA
metabolism, DNA replication, recombination, and repair].
Length = 192
Score = 27.8 bits (62), Expect = 5.7
Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 6/59 (10%)
Query: 204 GAAAMEELELQT---REVLEGKPPTCKIFSQQYAFN---LFSHNAPVLENGYNEEEMKM 256
G M E ++ RE+ G C+ +FN L +A LE G E
Sbjct: 106 GLELMRERRGRSLKDRELTNGPGKLCQALGITMSFNGRDLIQPSALWLERGPLEHSAPA 164
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like proteins,
NMRa-like, atypical (a) SDRs. TMR is an atypical
NADP-binding protein of the SDR family. It lacks the
active site residues of the SDRs but has a glycine rich
NAD(P)-binding motif that matches the extended SDRs.
Proteins in this subgroup however, are more similar in
length to the classical SDRs. TMR was identified as a
reducer of triphenylmethane dyes, important
environmental pollutants. This subgroup also includes
Escherichia coli NADPH-dependent quinine oxidoreductase
(QOR2), which catalyzes two-electron reduction of
quinone; but is unlikely to play a major role in
protecting against quinone cytotoxicity. Atypical SDRs
are distinct from classical SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, 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 ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 27.6 bits (62), Expect = 6.3
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 12/72 (16%)
Query: 43 AVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTV-------EELT 95
V G TG +G + +L + ++A R+ K +F V E
Sbjct: 2 LVTGATGKLGTAVVELLLAKV-----ASVVALVRNPEKAKAFAADGVEVRQGDYDDPETL 56
Query: 96 EDSFDGVDIALF 107
E +F+GVD L
Sbjct: 57 ERAFEGVDRLLL 68
>gnl|CDD|147348 pfam05124, S_layer_C, S-layer like family, C-terminal region.
Length = 223
Score = 27.8 bits (62), Expect = 6.6
Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 9/87 (10%)
Query: 47 VTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTEDSFDGVDIAL 106
VT ++GQ+ + VL+ ++ + A + + A TE S D D L
Sbjct: 108 VTLSIGQK-VEVLNA--------EIKLEEIPAEAKQPVKLTAPIAVLDTEISLDNADKNL 158
Query: 107 FSAGGSISKKFGPIAVEKGSIVVDNSS 133
GG + K + G + +DN S
Sbjct: 159 ILVGGPVVNKLTKELADAGKVAIDNES 185
>gnl|CDD|227089 COG4746, COG4746, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 80
Score = 25.9 bits (57), Expect = 6.7
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 54 EFLSVLSDRDFPYRSIKMLASK 75
E +L+D DFP++S + +A
Sbjct: 52 EAGKLLTDADFPFKSAEQVADT 73
>gnl|CDD|187560 cd05250, CC3_like_SDR_a, CC3(TIP30)-like, atypical (a) SDRs.
Atypical SDRs in this subgroup include CC3 (also known
as TIP30) which is implicated in tumor suppression.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine rich NAD(P)-binding
motif that resembles the extended SDRs, and have an
active site triad of the SDRs (YXXXK and upstream Ser),
although the upstream Asn of the usual SDR active site
is substituted with Asp. For CC3, the Tyr of the triad
is displaced compared to the usual SDRs and the protein
is monomeric, both these observations suggest that the
usual SDR catalytic activity is not present. NADP
appears to serve an important role as a ligand, and may
be important in the interaction with other
macromolecules. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, 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 ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 214
Score = 27.3 bits (61), Expect = 8.2
Identities = 19/91 (20%), Positives = 34/91 (37%), Gaps = 16/91 (17%)
Query: 40 PSVAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRSAGKQLSFQDKAYTVEELTED-- 97
+ V+G TG VG+ L L Y + + ++L+F + + ++ D
Sbjct: 1 KTALVLGATGLVGKHLLRELLKSP-YYSKVTAIVR-----RKLTFPEAKEKLVQIVVDFE 54
Query: 98 -------SFDGVDIALFSAGGSISKKFGPIA 121
+F D+ F G+ KK G
Sbjct: 55 RLDEYLEAFQNPDVG-FCCLGTTRKKAGSQE 84
>gnl|CDD|176254 cd08294, leukotriene_B4_DH_like, 13-PGR is a bifunctional enzyme
with delta-13 15-prostaglandin reductase and leukotriene
B4 12 hydroxydehydrogenase activity. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 27.6 bits (62), Expect = 8.6
Identities = 23/67 (34%), Positives = 29/67 (43%), Gaps = 15/67 (22%)
Query: 80 KQLSFQDKAY---TV---EELTEDSFDGVDIALFSAGGSIS-------KKFGPIAVEKGS 126
K+L F D + TV E L E + DG+D + GG S FG +AV GS
Sbjct: 185 KELGF-DAVFNYKTVSLEEALKEAAPDGIDCYFDNVGGEFSSTVLSHMNDFGRVAV-CGS 242
Query: 127 IVVDNSS 133
I N
Sbjct: 243 ISTYNDK 249
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 27.3 bits (61), Expect = 9.8
Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 10/105 (9%)
Query: 42 VAVVGVTGAVGQEFLSVLSDRDFPYRSIKMLASKRS-----AGKQLSFQDKAYTV--EEL 94
VAV G +G +GQ L L + + + + ++ G+ L + + V E
Sbjct: 181 VAVTGASGTLGQALLKELHQQG--AKVVALTSNSDKITLEINGEDLPVKTLHWQVGQEAA 238
Query: 95 TEDSFDGVDIALFSAGGSISKKFGPIAVEKGSIVVDNSSAFRMVE 139
+ + VDI + + G ++ + P A+ K S V+ SA+R++E
Sbjct: 239 LAELLEKVDILIINHGINVHGERTPEAINK-SYEVNTFSAWRLME 282
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 0.130 0.370
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,923,222
Number of extensions: 1316274
Number of successful extensions: 1235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1196
Number of HSP's successfully gapped: 47
Length of query: 279
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 183
Effective length of database: 6,679,618
Effective search space: 1222370094
Effective search space used: 1222370094
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: 58 (26.0 bits)