RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11185
(312 letters)
>gnl|CDD|233412 TIGR01438, TGR, thioredoxin and glutathione reductase
selenoprotein. This homodimeric, FAD-containing member
of the pyridine nucleotide disulfide oxidoreductase
family contains a C-terminal motif Cys-SeCys-Gly, where
SeCys is selenocysteine encoded by TGA (in some sequence
reports interpreted as a stop codon). In some members of
this subfamily, Cys-SeCys-Gly is replaced by
Cys-Cys-Gly. The reach of the selenium atom at the
C-term arm of the protein is proposed to allow broad
substrate specificity.
Length = 484
Score = 306 bits (784), Expect = e-101
Identities = 127/193 (65%), Positives = 157/193 (81%), Gaps = 2/193 (1%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLM 161
YDYDL+V+GGGSGGLAAAKEAAA+G KV++LD+V P+P GT WG+GGTCVNVGCIPKKLM
Sbjct: 1 YDYDLIVIGGGSGGLAAAKEAAAYGAKVMLLDFVTPTPLGTRWGIGGTCVNVGCIPKKLM 60
Query: 162 HQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYL 221
HQAALLG+A+KD+ YGW++ +V+H+W L EAVQNH+ S+NW RV LR+KKV Y
Sbjct: 61 HQAALLGQALKDSRNYGWKVEE--TVKHDWKRLVEAVQNHIGSLNWGYRVALREKKVKYE 118
Query: 222 NALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSLEK 281
NA +F+D+H ++AT K G++K +AE LIATG RP YP IPGAKE CI+SDD+FSL
Sbjct: 119 NAYAEFVDKHRIKATNKKGKEKIYSAERFLIATGERPRYPGIPGAKELCITSDDLFSLPY 178
Query: 282 PPGKTLVVGAGYI 294
PGKTLVVGA Y+
Sbjct: 179 CPGKTLVVGASYV 191
Score = 80.7 bits (199), Expect = 6e-17
Identities = 36/88 (40%), Positives = 55/88 (62%), Gaps = 4/88 (4%)
Query: 23 LECAGFLNGLGFNATVMIRSVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLADG 82
LECAGFL G+G + TVM+RS+ LRGFDQ A + E M E GV F + +P+ V ++ +
Sbjct: 193 LECAGFLAGIGLDVTVMVRSILLRGFDQDCANKVGEHMEEHGVKFKRQFVPIKVEQI-EA 251
Query: 83 KLKVQYKNVAEVRQDNTHKYDYDLLVLG 110
K+ V++ + ++ +YD LL +G
Sbjct: 252 KVLVEFTDSTNGIEE---EYDTVLLAIG 276
>gnl|CDD|185416 PTZ00052, PTZ00052, thioredoxin reductase; Provisional.
Length = 499
Score = 271 bits (695), Expect = 4e-88
Identities = 119/202 (58%), Positives = 148/202 (73%), Gaps = 8/202 (3%)
Query: 100 HKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKK 159
+ YDL+V+GGGSGG+AAAKEAAAHG+KV + DYV PS QGT WGLGGTCVNVGC+PKK
Sbjct: 2 LTFMYDLVVIGGGSGGMAAAKEAAAHGKKVALFDYVKPSTQGTKWGLGGTCVNVGCVPKK 61
Query: 160 LMHQAALLGEAIK-DAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKV 218
LMH AA +G D+ YGW+ + NW L VQNH++S+N+ R LR KV
Sbjct: 62 LMHYAANIGSIFHHDSQMYGWKTSSS----FNWGKLVTTVQNHIRSLNFSYRTGLRSSKV 117
Query: 219 DYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYP-DIPGAKEHCISSDDIF 277
+Y+N L K D+H+V N +++T+TA+ ILIATGGRP+ P D+PGAKE+ I+SDDIF
Sbjct: 118 EYINGLAKLKDEHTVSYG-DNSQEETITAKYILIATGGRPSIPEDVPGAKEYSITSDDIF 176
Query: 278 SLEKPPGKTLVVGAGYIGKLET 299
SL K PGKTL+VGA YIG LET
Sbjct: 177 SLSKDPGKTLIVGASYIG-LET 197
Score = 81.8 bits (202), Expect = 3e-17
Identities = 34/69 (49%), Positives = 49/69 (71%), Gaps = 1/69 (1%)
Query: 22 GLECAGFLNGLGFNATVMIRSVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLAD 81
GLE AGFLN LGF+ TV +RS+PLRGFD+Q ++ + E M E G FL +P+++ K+ D
Sbjct: 194 GLETAGFLNELGFDVTVAVRSIPLRGFDRQCSEKVVEYMKEQGTLFLEGVVPINIEKMDD 253
Query: 82 GKLKVQYKN 90
K+KV + +
Sbjct: 254 -KIKVLFSD 261
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 208 bits (531), Expect = 5e-64
Identities = 88/195 (45%), Positives = 120/195 (61%), Gaps = 19/195 (9%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLM 161
DYDL+V+GGGSGG+A+A AA +G KV +++ LGGTCVNVGC+PKKLM
Sbjct: 3 KDYDLIVIGGGSGGIASANRAAMYGAKVALIEA---------KRLGGTCVNVGCVPKKLM 53
Query: 162 HQAALLGEAIKD-AVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDY 220
A + EA D A YG+ +V + +WA L ++ ++ R L + VD
Sbjct: 54 WYGAQIAEAFHDYAPGYGF---DVTENKFDWAKLIANRDAYIDRLHGSYRNGLENNGVDL 110
Query: 221 LNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSLE 280
+ +F+D H+VE NGE+ TA++ILIATGGRP+ PDIPGA E+ I+SD F+LE
Sbjct: 111 IEGFARFVDAHTVEV---NGER--YTADHILIATGGRPSIPDIPGA-EYGITSDGFFALE 164
Query: 281 KPPGKTLVVGAGYIG 295
+ P + VVGAGYI
Sbjct: 165 ELPKRVAVVGAGYIA 179
Score = 60.6 bits (148), Expect = 2e-10
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 22 GLECAGFLNGLGFNATVMIRS-VPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLA 80
+E AG LNGLG + +R PLRGFD + + + EEM + G+ +P +V K A
Sbjct: 179 AVEFAGVLNGLGSETHLFVRGDAPLRGFDPDIRETLVEEMEKKGIRLHTNAVPKAVEKNA 238
Query: 81 DGKLKVQYKN 90
DG L + ++
Sbjct: 239 DGSLTLTLED 248
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 170 bits (433), Expect = 2e-49
Identities = 71/195 (36%), Positives = 98/195 (50%), Gaps = 15/195 (7%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLM- 161
+YD++V+G G G AA AA G KV + V LGGTC+NVGCIP K +
Sbjct: 4 EYDVVVIGAGPAGYVAAIRAAQLGLKVAL---VEKGE-----RLGGTCLNVGCIPSKALL 55
Query: 162 HQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYL 221
H A ++ EA A YG K ++ L V+ + +L+ VD +
Sbjct: 56 HAAEVIEEARHAAKEYGISAEVPKI---DFEKLLARKDKVVRLLTGGVEGLLKKNGVDVI 112
Query: 222 NALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCI-SSDDIFSLE 280
+F+D H+VE T +K+T+TA+NI+IATG RP P PG I S D L
Sbjct: 113 RGEARFVDPHTVEVT--GEDKETITADNIIIATGSRPRIPPGPGIDGARILDSSDALFLL 170
Query: 281 KPPGKTLVVGAGYIG 295
+ P ++VG GYIG
Sbjct: 171 ELPKSLVIVGGGYIG 185
Score = 46.0 bits (110), Expect = 1e-05
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 7/88 (7%)
Query: 22 GLECAGFLNGLGFNATVMIR-SVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLA 80
GLE A LG TV+ R L G D +++K + +++ +GGV L ++ +
Sbjct: 185 GLEFASVFAALGSKVTVVERGDRILPGEDPEISKELTKQLEKGGVKILL-NTKVTAVEKK 243
Query: 81 DGKLKVQYKNVAEVRQDNTHKYDYDLLV 108
D + V ++ + T + D +LV
Sbjct: 244 DDGVLVTLEDG----EGGTIEADA-VLV 266
Score = 35.6 bits (83), Expect = 0.031
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 232 SVEATMKNGEKKTLTAENILIATGGRPNYPDI 263
V T+++GE T+ A+ +L+A G +PN +
Sbjct: 246 GVLVTLEDGEGGTIEADAVLVAIGRKPNTDGL 277
>gnl|CDD|213618 TIGR01424, gluta_reduc_2, glutathione-disulfide reductase, plant.
The tripeptide glutathione is an important reductant,
e.g., for maintaining the cellular thiol/disulfide
status and for protecting against reactive oxygen
species such as hydrogen peroxide. Glutathione-disulfide
reductase regenerates reduced glutathione from oxidized
glutathione (glutathione disulfide) + NADPH. This model
represents one of two closely related subfamilies of
glutathione-disulfide reductase. Both are closely
related to trypanothione reductase, and separate models
are built so each of the three can describe proteins
with conserved function. This model describes
glutathione-disulfide reductases of plants and some
bacteria, including cyanobacteria [Energy metabolism,
Electron transport].
Length = 446
Score = 156 bits (397), Expect = 2e-44
Identities = 74/196 (37%), Positives = 100/196 (51%), Gaps = 20/196 (10%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIV--LDYVIPSPQGTTWGLGGTCVNVGCIPKK 159
+DYDL V+G GSGG+ AA+ AAA G KV + V GGTCV GC+PKK
Sbjct: 1 FDYDLFVIGAGSGGVRAARLAAALGAKVAIAEEFRV-----------GGTCVIRGCVPKK 49
Query: 160 LMHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVD 219
LM A+ E +DA YGW V + +W L A + ++ + R L + +
Sbjct: 50 LMVYASQFAEHFEDAAGYGWT---VGKARFDWKKLLAAKDQEIARLSGLYRKGLANAGAE 106
Query: 220 YLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSL 279
L+ + + ++VE KT TAE ILIA GGRP P +PG E I+S++ F L
Sbjct: 107 LLDGRAELVGPNTVEVLASG---KTYTAEKILIAVGGRPPKPALPGH-ELGITSNEAFHL 162
Query: 280 EKPPGKTLVVGAGYIG 295
P L+ G GYI
Sbjct: 163 PTLPKSILIAGGGYIA 178
Score = 51.7 bits (124), Expect = 2e-07
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 22 GLECAGFLNGLGFNATVMIR-SVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLA 80
+E AG GLG T++ R LRGFD M + + + E G+ L + S++K
Sbjct: 178 AVEFAGIFRGLGVQTTLIYRGKEILRGFDDDMRRGLAAALEERGIRILPEDSITSISKDD 237
Query: 81 DGKLKVQYKNVAEVRQD 97
DG+LK E+ D
Sbjct: 238 DGRLKATLSKHEEIVAD 254
>gnl|CDD|215281 PLN02507, PLN02507, glutathione reductase.
Length = 499
Score = 152 bits (386), Expect = 2e-42
Identities = 85/219 (38%), Positives = 122/219 (55%), Gaps = 13/219 (5%)
Query: 79 LADGKLKVQYKNVAEVRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIP- 137
L DG++ V + TH YD+DL V+G GSGG+ AA+ +A G KV + + +P
Sbjct: 6 LIDGEVAK----VNADEANATH-YDFDLFVIGAGSGGVRAARFSANFGAKVGICE--LPF 58
Query: 138 SPQGTTW--GLGGTCVNVGCIPKKLMHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLR 195
P + G+GGTCV GC+PKK++ A G +DA YGWEI V NW L
Sbjct: 59 HPISSESIGGVGGTCVIRGCVPKKILVYGATFGGEFEDAKNYGWEINE--KVDFNWKKLL 116
Query: 196 EAVQNHVKSVNWVTRVMLRDKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATG 255
+ + + +N + + +L + V GK + + VE T +G K TA++ILIATG
Sbjct: 117 QKKTDEILRLNGIYKRLLANAGVKLYEGEGKIVGPNEVEVTQLDGTKLRYTAKHILIATG 176
Query: 256 GRPNYPDIPGAKEHCISSDDIFSLEKPPGKTLVVGAGYI 294
R P+IPG KE I+SD+ SLE+ P + +V+G GYI
Sbjct: 177 SRAQRPNIPG-KELAITSDEALSLEELPKRAVVLGGGYI 214
Score = 34.8 bits (80), Expect = 0.048
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 23 LECAGFLNGLGFNATVMIR-SVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLS-VTKLA 80
+E A G+G + R +PLRGFD +M ++ + G++ LH L+ +TK
Sbjct: 216 VEFASIWRGMGATVDLFFRKELPLRGFDDEMRAVVARNLEGRGIN-LHPRTNLTQLTKTE 274
Query: 81 DGKLKVQYKNVAEVRQD 97
G +KV + E D
Sbjct: 275 GG-IKVITDHGEEFVAD 290
>gnl|CDD|130488 TIGR01421, gluta_reduc_1, glutathione-disulfide reductase,
animal/bacterial. The tripeptide glutathione is an
important reductant, e.g., for maintaining the cellular
thiol/disulfide status and for protecting against
reactive oxygen species such as hydrogen peroxide.
Glutathione-disulfide reductase regenerates reduced
glutathione from oxidized glutathione (glutathione
disulfide) + NADPH. This model represents one of two
closely related subfamilies of glutathione-disulfide
reductase. Both are closely related to trypanothione
reductase, and separate models are built so each of the
three can describe proteins with conserved function.
This model describes glutathione-disulfide reductases of
animals, yeast, and a number of animal-resident bacteria
[Energy metabolism, Electron transport].
Length = 450
Score = 147 bits (373), Expect = 6e-41
Identities = 81/193 (41%), Positives = 112/193 (58%), Gaps = 18/193 (9%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD LV+GGGSGG+A+A+ AA HG K ++++ LGGTCVNVGC+PKK+M
Sbjct: 3 YDYLVIGGGSGGIASARRAAEHGAKALLVE---------AKKLGGTCVNVGCVPKKVMWY 53
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNA 223
A+ L E + DA YG+ NW L+E +V +N + + L KVD +
Sbjct: 54 ASDLAERMHDAADYGF--YQNLENTFNWPELKEKRDAYVDRLNGIYQKNLEKNKVDVIFG 111
Query: 224 LGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPD-IPGAKEHCISSDDIFSLEKP 282
+F +VE NG TA +ILIATGG+P++P+ IPGA E SD F+LE+
Sbjct: 112 HARFTKDGTVEV---NGRD--YTAPHILIATGGKPSFPENIPGA-ELGTDSDGFFALEEL 165
Query: 283 PGKTLVVGAGYIG 295
P + ++VGAGYI
Sbjct: 166 PKRVVIVGAGYIA 178
Score = 47.1 bits (112), Expect = 6e-06
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 22 GLECAGFLNGLGFNATVMIR-SVPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLA 80
+E AG L+GLG ++IR LR FD +++ I EE + G++ P+ V K
Sbjct: 178 AVELAGVLHGLGSETHLVIRHERVLRSFDSMISETITEEYEKEGINVHKLSKPVKVEKTV 237
Query: 81 DGKLKVQYKNVAEV 94
+GKL + +++ +
Sbjct: 238 EGKLVIHFEDGKSI 251
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 144 bits (367), Expect = 6e-40
Identities = 68/206 (33%), Positives = 101/206 (49%), Gaps = 33/206 (16%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
YD++V+G G G AA+ AA G+KV +++ +G LGGTC+NVGCIP K +
Sbjct: 3 KYDVIVIGAGPAGYVAARRAAKLGKKVALIE------KGP---LGGTCLNVGCIPSKALI 53
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKS-----VNWVTRVMLRDKK 217
AA K A +G I + + ++ V V+ V V + + K
Sbjct: 54 AAAEAFHEAKHAEEFG--I-HADGPKIDFK----KVMARVRRERDRFVGGVVEGLEKKPK 106
Query: 218 VDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE----HCISS 273
+D + +F+D ++VE + + A+NI+IATG R P IPG ++S
Sbjct: 107 IDKIKGTARFVDPNTVEV-----NGERIEAKNIVIATGSR--VPPIPGVWLILGDRLLTS 159
Query: 274 DDIFSLEKPPGKTLVVGAGYIGKLET 299
DD F L+K P V+G G IG LE
Sbjct: 160 DDAFELDKLPKSLAVIGGGVIG-LEL 184
Score = 34.4 bits (80), Expect = 0.067
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 233 VEATMKNGEKKTLTAENILIATGGRPN 259
VE K G+ +T+ A+ +L+ATG RPN
Sbjct: 243 VEELEKGGKTETIEADYVLVATGRRPN 269
>gnl|CDD|200098 TIGR01423, trypano_reduc, trypanothione-disulfide reductase.
Trypanothione, a glutathione-modified derivative of
spermidine, is (in its reduced form) an important
antioxidant found in trypanosomatids (Crithidia,
Leishmania, Trypanosoma). This model describes
trypanothione reductase, a possible antitrypanosomal
drug target closely related to some forms of glutathione
reductase.
Length = 486
Score = 138 bits (349), Expect = 2e-37
Identities = 77/197 (39%), Positives = 109/197 (55%), Gaps = 8/197 (4%)
Query: 104 YDLLVLGGGSGGLAAAKEAAA-HGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
+DL+V+G GSGGL A AA + ++V V+D LGGTCVNVGC+PKKLM
Sbjct: 4 FDLVVIGAGSGGLEAGWNAATLYKKRVAVVDVQTHHGPPFYAALGGTCVNVGCVPKKLMV 63
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKK-VDYL 221
A + ++++ +GWE + SV+ NW L A V +N M D + + +
Sbjct: 64 TGAQYMDTLRESAGFGWEF-DRSSVKANWKALIAAKNKAVLDINKSYEGMFADTEGLTFF 122
Query: 222 NALGKFIDQHSV----EATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIF 277
G D++ V A K+ K+ L AE+IL+ATG P IPG EHCISS++ F
Sbjct: 123 LGWGALEDKNVVLVRESADPKSAVKERLQAEHILLATGSWPQMLGIPGI-EHCISSNEAF 181
Query: 278 SLEKPPGKTLVVGAGYI 294
L++PP + L VG G+I
Sbjct: 182 YLDEPPRRVLTVGGGFI 198
Score = 32.6 bits (74), Expect = 0.24
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 23 LECAGFLNG---LGFNATVMIRSVP-LRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTK 78
+E AG N G T+ R+ LRGFD + K + +++ G++ + P VT
Sbjct: 200 VEFAGIFNAYKPRGGKVTLCYRNNMILRGFDSTLRKELTKQLRANGINIMTNENPAKVTL 259
Query: 79 LADGKLKVQYKNVAEVRQDNTHKYDYDLLVLGGG 112
ADG V +++ + D D++++ G
Sbjct: 260 NADGSKHVTFESGKTL--------DVDVVMMAIG 285
>gnl|CDD|233368 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase. This
model describes dihydrolipoamide dehydrogenase, a
flavoprotein that acts in a number of ways. It is the E3
component of dehydrogenase complexes for pyruvate,
2-oxoglutarate, 2-oxoisovalerate, and acetoin. It can
also serve as the L protein of the glycine cleavage
system. This family includes a few members known to have
distinct functions (ferric leghemoglobin reductase and
NADH:ferredoxin oxidoreductase) but that may be
predicted by homology to act as dihydrolipoamide
dehydrogenase as well. The motif GGXCXXXGCXP near the
N-terminus contains a redox-active disulfide.
Length = 460
Score = 134 bits (339), Expect = 6e-36
Identities = 70/194 (36%), Positives = 102/194 (52%), Gaps = 15/194 (7%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD++V+GGG GG AA AA G KV + + LGGTC+NVGCIP K +
Sbjct: 2 YDVIVIGGGPGGYVAAIRAAQLGLKVAL----VEKEY-----LGGTCLNVGCIPTKALLH 52
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNA 223
+A + + IK A G E+ NV +W +++ VK + +L+ KV +
Sbjct: 53 SAEVYDEIKHAKDLGIEVENVSV---DWEKMQKRKNKVVKKLVGGVSGLLKKNKVTVIKG 109
Query: 224 LGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHC--ISSDDIFSLEK 281
KF+D +V T +NGE +TL A+NI+IATG RP P + I+S +LE+
Sbjct: 110 EAKFLDPGTVSVTGENGE-ETLEAKNIIIATGSRPRSLPGPFDFDGKVVITSTGALNLEE 168
Query: 282 PPGKTLVVGAGYIG 295
P +++G G IG
Sbjct: 169 VPESLVIIGGGVIG 182
Score = 34.5 bits (80), Expect = 0.060
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 229 DQHSVEATMKNGEKKTLTAENILIATGGRPNYPDI 263
+ V K GE +TLT E +L+A G +PN +
Sbjct: 240 NDDQVTYENKGGETETLTGEKVLVAVGRKPNTEGL 274
>gnl|CDD|185420 PTZ00058, PTZ00058, glutathione reductase; Provisional.
Length = 561
Score = 130 bits (328), Expect = 4e-34
Identities = 67/216 (31%), Positives = 109/216 (50%), Gaps = 39/216 (18%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
YDL+V+GGGSGG+AAA+ AA + KV +++ LGGTCVNVGC+PKK+M
Sbjct: 48 VYDLIVIGGGSGGMAAARRAARNKAKVALVEKDY---------LGGTCVNVGCVPKKIMF 98
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLN 222
AA + + ++++ YG++ N L E +++ +N + R L+ V+Y
Sbjct: 99 NAASIHDILENSRHYGFDTQFS----FNLPLLVERRDKYIRRLNDIYRQNLKKDNVEYFE 154
Query: 223 ALGKFIDQHSV------------------------EATMKNGEKKTLTAENILIATGGRP 258
G + ++ V + + + + +NILIA G +P
Sbjct: 155 GKGSLLSENQVLIKKVSQVDGEADESDDDEVTIVSAGVSQLDDGQVIEGKNILIAVGNKP 214
Query: 259 NYPDIPGAKEHCISSDDIFSLEKPPGKTLVVGAGYI 294
+PD+ G KE ISSDD F +++ + + G+GYI
Sbjct: 215 IFPDVKG-KEFTISSDDFFKIKEAK-RIGIAGSGYI 248
>gnl|CDD|215301 PLN02546, PLN02546, glutathione reductase.
Length = 558
Score = 128 bits (323), Expect = 2e-33
Identities = 69/199 (34%), Positives = 104/199 (52%), Gaps = 9/199 (4%)
Query: 97 DNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPS-PQGTTWGLGGTCVNVGC 155
++ YD+DL +G GSGG+ A++ A+ G V + + T G+GGTCV GC
Sbjct: 73 ESERHYDFDLFTIGAGSGGVRASRFASNFGASAAVCELPFATISSDTLGGVGGTCVLRGC 132
Query: 156 IPKKLMHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRD 215
+PKKL+ A+ +++ +GW+ +H+W L ++ + + + +L++
Sbjct: 133 VPKKLLVYASKYSHEFEESRGFGWKYET--EPKHDWNTLIANKNAELQRLTGIYKNILKN 190
Query: 216 KKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDD 275
V + GK +D H+V+ + K TA NILIA GGRP PDIPG EH I SD
Sbjct: 191 AGVTLIEGRGKIVDPHTVDV-----DGKLYTARNILIAVGGRPFIPDIPG-IEHAIDSDA 244
Query: 276 IFSLEKPPGKTLVVGAGYI 294
L P K +VG GYI
Sbjct: 245 ALDLPSKPEKIAIVGGGYI 263
Score = 47.2 bits (112), Expect = 6e-06
Identities = 44/155 (28%), Positives = 66/155 (42%), Gaps = 24/155 (15%)
Query: 23 LECAGFLNGLGFNATVMIRSVP-LRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLAD 81
LE AG NGL + V IR LRGFD+++ + E+M+ G+ F + P ++ K AD
Sbjct: 265 LEFAGIFNGLKSDVHVFIRQKKVLRGFDEEVRDFVAEQMSLRGIEFHTEESPQAIIKSAD 324
Query: 82 GKLKVQ--------YKNV--AEVRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIV 131
G L ++ + +V A R+ NT LG G+ K A I
Sbjct: 325 GSLSLKTNKGTVEGFSHVMFATGRKPNTKN-------LGLEEVGVKMDKNGA------IE 371
Query: 132 LDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAAL 166
+D + + W +G + P LM AL
Sbjct: 372 VDEYSRTSVPSIWAVGDVTDRINLTPVALMEGGAL 406
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 116 bits (292), Expect = 1e-30
Identities = 55/195 (28%), Positives = 80/195 (41%), Gaps = 45/195 (23%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQA 164
D++++GGG GLAAA A G KV +++ GGTC N GC+PKKL+ +
Sbjct: 1 DVVIIGGGPAGLAAAIRLARLGLKVALIE-----------REGGTCYNRGCLPKKLLLEV 49
Query: 165 ALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNAL 224
A E + K V+L + VD
Sbjct: 50 AEGLELAIGL---------------------ALPEEVYKEFG--VEVLLGTEVVDIDRGE 86
Query: 225 GKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEH----CISSDDIFSLE 280
+ + + +T + ++IATG RP P IPG + I SD+I L
Sbjct: 87 KTVVLKDVE-------TGREITYDKLIIATGARPRIPGIPGVEVATLRGVIDSDEILELL 139
Query: 281 KPPGKTLVVGAGYIG 295
+ P + +VVG GYIG
Sbjct: 140 ELPKRVVVVGGGYIG 154
Score = 41.6 bits (98), Expect = 2e-04
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 8/94 (8%)
Query: 20 DSGLECAGFLNGLGFNATVMIRSV-PLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTK 78
GLE A L LG TV+ R L D +++ + E++ + + V
Sbjct: 152 YIGLELAAALAKLGKEVTVVERRDRLLARADDEISAALLEKLEKLLLGVT-------VLL 204
Query: 79 LADGKLKVQYKNVAEVRQDNTHKYDYDLLVLGGG 112
+ +KV V EV+ + + D D++++ G
Sbjct: 205 VVVVVVKVGDGKVVEVKLGDGEELDADVVLVAIG 238
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 118 bits (298), Expect = 3e-30
Identities = 68/205 (33%), Positives = 101/205 (49%), Gaps = 36/205 (17%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVL--DYVIPSPQGTTWGLGGTCVNVGCIPKKL 160
+YD++V+G G GG AA AA G KV ++ + LGGTC+N GCIP K
Sbjct: 4 EYDVIVIGAGPGGYVAAIRAAQLGLKVAIVEKEK-----------LGGTCLNRGCIPSKA 52
Query: 161 MHQAALLGEAIKDAVAYGWEIPNV----KSVQHNWAN-----LREAVQNHVKSVNWVTRV 211
+ AA + + + +G + NV K VQ W N L V+ +K
Sbjct: 53 LLHAAERADEARHSEDFGIKAENVGIDFKKVQ-EWKNGVVNRLTGGVEGLLKK------- 104
Query: 212 MLRDKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRP-NYPDIPGAKEHC 270
KVD + K +D ++V ++GE +T TA+NI++ATG RP P I
Sbjct: 105 ----NKVDIIRGEAKLVDPNTVRVMTEDGE-QTYTAKNIILATGSRPRELPGIEIDGRVI 159
Query: 271 ISSDDIFSLEKPPGKTLVVGAGYIG 295
+SD+ +L++ P +V+G GYIG
Sbjct: 160 WTSDEALNLDEVPKSLVVIGGGYIG 184
Score = 32.0 bits (74), Expect = 0.39
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 213 LRDKKVD-YLNALGKFIDQH--SVEATMKNGEK-KTLTAENILIATGGRPN 259
L+ + + A K ++Q V T+++G K +TL A+ +L+A G RPN
Sbjct: 223 LKKRGIKIKTGAKAKKVEQTDDGVTVTLEDGGKEETLEADYVLVAVGRRPN 273
>gnl|CDD|235373 PRK05249, PRK05249, soluble pyridine nucleotide transhydrogenase;
Provisional.
Length = 461
Score = 116 bits (294), Expect = 1e-29
Identities = 64/204 (31%), Positives = 92/204 (45%), Gaps = 26/204 (12%)
Query: 100 HKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKK 159
H YDYDL+V+G G G AA +AA G++V V++ +GG C + G IP K
Sbjct: 2 HMYDYDLVVIGSGPAGEGAAMQAAKLGKRVAVIE--------RYRNVGGGCTHTGTIPSK 53
Query: 160 LMHQAALL-------GEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVM 212
+ +A L V ++ A + V+ V R
Sbjct: 54 ALREAVLRLIGFNQNPLYSSYRVKLRITFADLL------ARADHVINKQVE----VRRGQ 103
Query: 213 LRDKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYP-DIPGAKEHCI 271
+VD + +F+D H+VE +GE +TLTA+ I+IATG RP P D+
Sbjct: 104 YERNRVDLIQGRARFVDPHTVEVECPDGEVETLTADKIVIATGSRPYRPPDVDFDHPRIY 163
Query: 272 SSDDIFSLEKPPGKTLVVGAGYIG 295
SD I SL+ P ++ GAG IG
Sbjct: 164 DSDSILSLDHLPRSLIIYGAGVIG 187
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 115 bits (290), Expect = 5e-29
Identities = 66/203 (32%), Positives = 91/203 (44%), Gaps = 31/203 (15%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD +V+G G G A AA G KV ++ LGGTCVN GC+P K +
Sbjct: 6 YDAIVIGAGQAGPPLAARAAGLGMKVALI--------ERGL-LGGTCVNTGCVPTKTLIA 56
Query: 164 AALLGEAIKDAVAYGWEIP-----NVKSVQHNWANLREAVQN-HVKSVNWVTRVMLRDKK 217
+A + A YG + + K+V A R S W LR +
Sbjct: 57 SARAAHLARRAAEYGVSVGGPVSVDFKAVM---ARKRRIRARSRHGSEQW-----LRGLE 108
Query: 218 -VDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE-HCISSDD 275
VD +F ++V GE TL A+ I I TG R P IPG E ++++
Sbjct: 109 GVDVFRGHARFESPNTVRV---GGE--TLRAKRIFINTGARAAIPPIPGLDEVGYLTNET 163
Query: 276 IFSLEKPPGKTLVVGAGYIGKLE 298
IFSL++ P +++G GYIG LE
Sbjct: 164 IFSLDELPEHLVIIGGGYIG-LE 185
Score = 27.5 bits (62), Expect = 9.3
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 239 NGEKKTLTAENILIATGGRPN 259
NG +T +IL+A G PN
Sbjct: 252 NGGAPEITGSHILVAVGRVPN 272
>gnl|CDD|180579 PRK06467, PRK06467, dihydrolipoamide dehydrogenase; Reviewed.
Length = 471
Score = 110 bits (278), Expect = 2e-27
Identities = 67/198 (33%), Positives = 96/198 (48%), Gaps = 17/198 (8%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRK-VIVLDYVIPSPQGTTWGLGGTCVNVGCIPKK-LM 161
++VLG G G +AA AA G + V V Y LGG C+NVGCIP K L+
Sbjct: 5 TQVVVLGAGPAGYSAAFRAADLGLETVCVERYST---------LGGVCLNVGCIPSKALL 55
Query: 162 HQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYL 221
H A ++ EA K +G K + +R + VK + M + +KV +
Sbjct: 56 HVAKVIEEA-KALAEHGIVFGEPKI---DIDKMRARKEKVVKQLTGGLAGMAKGRKVTVV 111
Query: 222 NALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRP-NYPDIPGAKEHCISSDDIFSLE 280
N LGKF +++E T ++G+ + +N +IA G RP P IP S D L+
Sbjct: 112 NGLGKFTGGNTLEVTGEDGKTTVIEFDNAIIAAGSRPIQLPFIPHDDPRIWDSTDALELK 171
Query: 281 KPPGKTLVVGAGYIGKLE 298
+ P + LV+G G IG LE
Sbjct: 172 EVPKRLLVMGGGIIG-LE 188
>gnl|CDD|235660 PRK05976, PRK05976, dihydrolipoamide dehydrogenase; Validated.
Length = 472
Score = 109 bits (276), Expect = 4e-27
Identities = 65/211 (30%), Positives = 98/211 (46%), Gaps = 42/211 (19%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKK-LMH 162
YDL+++GGG GG AA A G K +++ +G LGGTC++ GCIP K L+H
Sbjct: 5 YDLVIIGGGPGGYVAAIRAGQLGLKTALVE------KGK---LGGTCLHKGCIPSKALLH 55
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNW----VTRV------M 212
A + + K A +G + + K V R+ +
Sbjct: 56 SAEVF-QTAKKASPFGISVSGP-------------ALDFAKVQERKDGIVDRLTKGVAAL 101
Query: 213 LRDKKVDYLNALGKFID-------QHSVEATMKNGEKKTLTAENILIATGGRP-NYPDIP 264
L+ K+D + +G+ + +V + GE + + EN+LIATG RP P +P
Sbjct: 102 LKKGKIDVFHGIGRILGPSIFSPMPGTVSVETETGENEMIIPENLLIATGSRPVELPGLP 161
Query: 265 GAKEHCISSDDIFSLEKPPGKTLVVGAGYIG 295
E+ ISSD+ SLE P ++VG G IG
Sbjct: 162 FDGEYVISSDEALSLETLPKSLVIVGGGVIG 192
Score = 30.6 bits (70), Expect = 1.0
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 238 KNGEKKTLTAENILIATGGRPNYPDI 263
NGE+KTL A+ +L++ G RPN I
Sbjct: 261 HNGEEKTLEADKVLVSVGRRPNTEGI 286
>gnl|CDD|233700 TIGR02053, MerA, mercuric reductase. This model represents the
mercuric reductase found in the mer operon for the
detoxification of mercury compounds. MerA is a
FAD-containing flavoprotein which reduces Hg(II) to
Hg(0) utilizing NADPH [Cellular processes,
Detoxification].
Length = 463
Score = 109 bits (274), Expect = 7e-27
Identities = 65/202 (32%), Positives = 98/202 (48%), Gaps = 34/202 (16%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YDL+++G G+ AAA +AA G V +++ +G LGGTCVNVGC+P K++ +
Sbjct: 1 YDLVIIGSGAAAFAAAIKAAELGASVAMVE------RGP---LGGTCVNVGCVPSKMLLR 51
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKK------ 217
AA VA+ P + A + + V V LR +K
Sbjct: 52 AA--------EVAHYARKPPFGGLAATVAVDFGELLEGKREV--VEE--LRHEKYEDVLS 99
Query: 218 ---VDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE-HCISS 273
VDYL +F D +V+ + ++ A+ LIATG RP P IPG KE ++S
Sbjct: 100 SYGVDYLRGRARFKDPKTVKV---DLGREVRGAKRFLIATGARPAIPPIPGLKEAGYLTS 156
Query: 274 DDIFSLEKPPGKTLVVGAGYIG 295
++ +L++ P V+G G IG
Sbjct: 157 EEALALDRIPESLAVIGGGAIG 178
Score = 31.2 bits (71), Expect = 0.71
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 196 EAVQNHVKS--VNWVTRVMLRDKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIA 253
AV+ + + VT ++ V GK I K G + + A+ +L+A
Sbjct: 211 AAVEEALAEEGIEVVTSAQVKAVSV---RGGGKIITVE------KPGGQGEVEADELLVA 261
Query: 254 TGGRPN 259
TG RPN
Sbjct: 262 TGRRPN 267
>gnl|CDD|180743 PRK06912, acoL, dihydrolipoamide dehydrogenase; Validated.
Length = 458
Score = 104 bits (261), Expect = 3e-25
Identities = 57/195 (29%), Positives = 93/195 (47%), Gaps = 20/195 (10%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAA 165
L+V+GGG G AA AA +G+ V ++D + LGGTC+N GC+P K + ++A
Sbjct: 3 LVVIGGGPAGYVAAITAAQNGKNVTLID------EAD---LGGTCLNEGCMPTKSLLESA 53
Query: 166 LLGEAIKDAVAYGWEIPNVKSVQHNWANL----REAVQNHVKSVNWVTRVMLRDKKVDYL 221
+ + +K A +G +PN S+ +W + + V V+ + + +++ K+ +
Sbjct: 54 EVHDKVKKANHFGITLPN-GSISIDWKQMQARKSQIVTQLVQGIQY----LMKKNKIKVI 108
Query: 222 NALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRP-NYPDIPGAKEHCISSDDIFSLE 280
F H V + E + + AE +IA G P P P + I+S SL
Sbjct: 109 QGKASFETDHRVRVEYGDKE-EVVDAEQFIIAAGSEPTELPFAPFDGKWIINSKHAMSLP 167
Query: 281 KPPGKTLVVGAGYIG 295
P L+VG G IG
Sbjct: 168 SIPSSLLIVGGGVIG 182
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 93.9 bits (234), Expect = 1e-21
Identities = 57/213 (26%), Positives = 92/213 (43%), Gaps = 57/213 (26%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
YDL+++G GSG + A +++ +++ +GT GGTC+NVGCIP K+
Sbjct: 1 HYDLIIIGTGSGNSILDERFA--DKRIAIVE------KGT---FGGTCLNVGCIPTKMFV 49
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNW---VTRVMLR----- 214
AA + I++A G V + V W V+RV R
Sbjct: 50 YAADVARTIREAARLG-------------------VDAELDGVRWPDIVSRVFGRIDPIA 90
Query: 215 ----------DKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIP 264
+D +FI T++ G+ + +TA+ ++IA G RP P +
Sbjct: 91 AGGEEYRGRDTPNIDVYRGHARFIGPK----TLRTGDGEEITADQVVIAAGSRPVIPPVI 146
Query: 265 ---GAKEHCISSDDIFSLEKPPGKTLVVGAGYI 294
G + H +SD I L + P ++VG G+I
Sbjct: 147 ADSGVRYH--TSDTIMRLPELPESLVIVGGGFI 177
Score = 28.0 bits (63), Expect = 7.6
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 229 DQHSVEATMKNGEKKTLTAENILIATGGRPN 259
D V + +G T+ A+ +L+ATG PN
Sbjct: 235 DGSGVTLRLDDGS--TVEADVLLVATGRVPN 263
>gnl|CDD|235779 PRK06327, PRK06327, dihydrolipoamide dehydrogenase; Validated.
Length = 475
Score = 90.8 bits (226), Expect = 2e-20
Identities = 57/197 (28%), Positives = 94/197 (47%), Gaps = 9/197 (4%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
+D++V+G G GG AA AA G KV ++ +P+G LGGTC+NVGCIP K +
Sbjct: 4 QFDVVVIGAGPGGYVAAIRAAQLGLKVACIEAW-KNPKGKP-ALGGTCLNVGCIPSKALL 61
Query: 163 QAALLGEAIKDAVA-YGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYL 221
++ E A +G + VK ++ V VK + + + K+ L
Sbjct: 62 ASSEEFENAGHHFADHGIHVDGVKIDVAKMIARKDKV---VKKMTGGIEGLFKKNKITVL 118
Query: 222 NALGKFI--DQHSVEATMKNGEKKTLTAENILIATGGRP-NYPDIPGAKEHCISSDDIFS 278
G F+ E + ++ +TA++++IATG P + P +P + + + +
Sbjct: 119 KGRGSFVGKTDAGYEIKVTGEDETVITAKHVIIATGSEPRHLPGVPFDNKIILDNTGALN 178
Query: 279 LEKPPGKTLVVGAGYIG 295
+ P K V+GAG IG
Sbjct: 179 FTEVPKKLAVIGAGVIG 195
>gnl|CDD|180907 PRK07251, PRK07251, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 438
Score = 89.8 bits (223), Expect = 4e-20
Identities = 60/194 (30%), Positives = 88/194 (45%), Gaps = 30/194 (15%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YDL+V+G G G A + A+ G+KV +++ S GGTC+N+GCIP K +
Sbjct: 4 YDLIVIGFGKAGKTLAAKLASAGKKVALVE---ESKAM----YGGTCINIGCIPTKTLLV 56
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNA 223
AA + + +A + V + ++ N+ ML VD +A
Sbjct: 57 AAEKNLSFEQVMAT-----------------KNTVTSRLRGKNY---AMLAGSGVDLYDA 96
Query: 224 LGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE--HCISSDDIFSLEK 281
F+ +E + EK LTAE I+I TG N IPG + H S I SLE
Sbjct: 97 EAHFVSNKVIEVQAGD-EKIELTAETIVINTGAVSNVLPIPGLADSKHVYDSTGIQSLET 155
Query: 282 PPGKTLVVGAGYIG 295
P + ++G G IG
Sbjct: 156 LPERLGIIGGGNIG 169
>gnl|CDD|180409 PRK06115, PRK06115, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 88.8 bits (220), Expect = 9e-20
Identities = 64/196 (32%), Positives = 98/196 (50%), Gaps = 17/196 (8%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD++++GGG GG AA A G KV ++ + T LGGTC+NVGC+P K +
Sbjct: 4 YDVVIIGGGPGGYNAAIRAGQLGLKVACVE-----GRST---LGGTCLNVGCMPSKALLH 55
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTR---VMLRDKKVDY 220
A+ L EA A G E ++ NL + ++ +SV +T+ + R KVD+
Sbjct: 56 ASELYEA-----ASGGEFAHLGIEVKPTLNLAQMMKQKDESVEALTKGVEFLFRKNKVDW 110
Query: 221 LNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPN-YPDIPGAKEHCISSDDIFSL 279
+ G+ V ++G + L A++I+IATG P P + + I S SL
Sbjct: 111 IKGWGRLDGVGKVVVKAEDGSETQLEAKDIVIATGSEPTPLPGVTIDNQRIIDSTGALSL 170
Query: 280 EKPPGKTLVVGAGYIG 295
+ P +V+GAG IG
Sbjct: 171 PEVPKHLVVIGAGVIG 186
>gnl|CDD|237790 PRK14694, PRK14694, putative mercuric reductase; Provisional.
Length = 468
Score = 87.7 bits (217), Expect = 2e-19
Identities = 52/195 (26%), Positives = 98/195 (50%), Gaps = 24/195 (12%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALL 167
V+G G +AAA +A G +V +++ +GT +GGTCVN+GC+P K+M +AA +
Sbjct: 11 VIGSGGSAMAAALKATERGARVTLIE------RGT---IGGTCVNIGCVPSKIMIRAAHI 61
Query: 168 GEAIKDAVAYGWEIP-----NVKSVQHNWANLREAVQNHVKSV--NWVTRVMLRDKKVDY 220
+ E P + ++ + + L Q V+ + + ++ + +
Sbjct: 62 AHLRR-------ESPFDDGLSAQAPVVDRSALLAQQQARVEELRESKYQSILRENAAITV 114
Query: 221 LNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPG-AKEHCISSDDIFSL 279
LN +F+D+ ++ T+ +G ++T+ + I TG RP P +PG A+ ++S L
Sbjct: 115 LNGEARFVDERTLTVTLNDGGEQTVHFDRAFIGTGARPAEPPVPGLAETPYLTSTSALEL 174
Query: 280 EKPPGKTLVVGAGYI 294
+ P + LV+GA +
Sbjct: 175 DHIPERLLVIGASVV 189
>gnl|CDD|236106 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 86.2 bits (214), Expect = 7e-19
Identities = 60/201 (29%), Positives = 96/201 (47%), Gaps = 30/201 (14%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD--YVIPSPQGTTWGLGGTCVNVGCIPKK-L 160
YD++VLG G GG AA AA G K V++ Y WG G C+NVGCIP K L
Sbjct: 5 YDVVVLGAGPGGYVAAIRAAQLGLKTAVVEKKY---------WG--GVCLNVGCIPSKAL 53
Query: 161 MHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDY 220
+ A L K+A +G + R+ + VK V++ +++ K+
Sbjct: 54 LRNAELAHIFTKEAKTFGISGEVTFDYGAAFDRSRKVAEGRVKGVHF----LMKKNKITE 109
Query: 221 LNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSLE 280
++ G F D +++E + +G +T+T +N +IATG +PG S+++ + E
Sbjct: 110 IHGYGTFTDANTLEVDLNDGGTETVTFDNAIIATGSSTRL--LPGTS----LSENVVTYE 163
Query: 281 KP------PGKTLVVGAGYIG 295
+ P ++ GAG IG
Sbjct: 164 EQILSRELPKSIVIAGAGAIG 184
Score = 28.1 bits (63), Expect = 6.3
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 229 DQHSVEATMKNGEKKTLTAENILIATGGRPN 259
+ +V + K+G+ + L A+ +L A G P
Sbjct: 244 SKVTVTVSKKDGKAQELEADKVLQAIGFAPR 274
>gnl|CDD|132493 TIGR03452, mycothione_red, mycothione reductase. Mycothiol, a
glutathione analog in Mycobacterium tuberculosis and
related species, can form a disulfide-linked dimer
called mycothione. This enzyme can reduce mycothione to
regenerate two mycothiol molecules. The enzyme shows
some sequence similarity to glutathione-disulfide
reductase, trypanothione-disulfide reductase, and
dihydrolipoamide dehydrogenase. The characterized
protein from M. tuberculosis, a homodimer, has FAD as a
cofactor, one per monomer, and uses NADPH as a
substrate.
Length = 452
Score = 85.6 bits (212), Expect = 1e-18
Identities = 60/213 (28%), Positives = 94/213 (44%), Gaps = 55/213 (25%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
YDL+++G GSG + A R IV +GT GGTC+NVGCIP K+
Sbjct: 2 HYDLIIIGTGSGN-SIPDPRFADKRIAIV-------EKGT---FGGTCLNVGCIPTKMFV 50
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNW---VTRVMLRDKKVD 219
AA + ++I ++ G + + SV W V+RV ++D
Sbjct: 51 YAAEVAQSIGESARLG-------------------IDAEIDSVRWPDIVSRVF--GDRID 89
Query: 220 YLNALGK------------FIDQHSV---EATMKNGEKKTLTAENILIATGGRPNYPDI- 263
+ A G+ D H+ T++ G+ + +T + I+IA G RP P
Sbjct: 90 PIAAGGEDYRRGDETPNIDVYDGHARFVGPRTLRTGDGEEITGDQIVIAAGSRPYIPPAI 149
Query: 264 --PGAKEHCISSDDIFSLEKPPGKTLVVGAGYI 294
G + H +++DI L + P ++VG GYI
Sbjct: 150 ADSGVRYH--TNEDIMRLPELPESLVIVGGGYI 180
>gnl|CDD|237806 PRK14727, PRK14727, putative mercuric reductase; Provisional.
Length = 479
Score = 75.8 bits (186), Expect = 2e-15
Identities = 50/184 (27%), Positives = 89/184 (48%), Gaps = 13/184 (7%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALL 167
++G GS AAA +AA HG +V +++ +GG CVNVGC+P K++ +AA L
Sbjct: 21 IIGSGSAAFAAAIKAAEHGARVTIIE------GADV--IGGCCVNVGCVPSKILIRAAQL 72
Query: 168 GEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNALGKF 227
+ G E + + ++A ++ + ++ + + L +F
Sbjct: 73 AHQQRSNPFDGVEAVAPSIDRGLLLHQQQARVEELRHAKY-QSILDGNPALTLLKGYARF 131
Query: 228 IDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE--HCISSDDIFSLEKPPGK 285
D +++ + +G ++ L A+ LIATG P P IPG + + S++ +FS E P
Sbjct: 132 KDGNTLVVRLHDGGERVLAADRCLIATGSTPTIPPIPGLMDTPYWTSTEALFSDELP--A 189
Query: 286 TLVV 289
+L V
Sbjct: 190 SLTV 193
>gnl|CDD|173442 PTZ00153, PTZ00153, lipoamide dehydrogenase; Provisional.
Length = 659
Score = 75.7 bits (186), Expect = 3e-15
Identities = 65/215 (30%), Positives = 91/215 (42%), Gaps = 30/215 (13%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD+ ++G G GG AAA A G KVI+ G +GGTCVNVGCIP K +
Sbjct: 117 YDVGIIGCGVGGHAAAINAMERGLKVIIF-------TGDDDSIGGTCVNVGCIPSKALLY 169
Query: 164 AALLGEAIK------------DAVAYGWEIPNVK------SVQHNWANLREAVQNHVKSV 205
A +K +A G P + +VQ + L+E Q+ + +
Sbjct: 170 ATGKYRELKNLAKLYTYGIYTNAFKNGKNDPVERNQLVADTVQIDITKLKEYTQSVIDKL 229
Query: 206 NWVTRVMLRDKKVDYLNALGKFIDQHS--VEATMKNGEK--KTLTAENILIATGGRPNYP 261
L+ KK + + I + V+ EK K +NI+IATG PN P
Sbjct: 230 RGGIENGLKSKKFCKNSEHVQVIYERGHIVDKNTIKSEKSGKEFKVKNIIIATGSTPNIP 289
Query: 262 D-IPGAKEHCISSDDIFSLEKPPGKTLVVGAGYIG 295
D I ++ +SD LE +VG G IG
Sbjct: 290 DNIEVDQKSVFTSDTAVKLEGLQNYMGIVGMGIIG 324
>gnl|CDD|184298 PRK13748, PRK13748, putative mercuric reductase; Provisional.
Length = 561
Score = 72.5 bits (178), Expect = 3e-14
Identities = 54/196 (27%), Positives = 91/196 (46%), Gaps = 32/196 (16%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALL 167
V+G G +AAA +A G +V +++ +GT +GGTCVNVGC+P K+M +AA +
Sbjct: 103 VIGSGGAAMAAALKAVEQGARVTLIE------RGT---IGGTCVNVGCVPSKIMIRAAHI 153
Query: 168 GEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKK---------- 217
+++ G V ++ + L Q V LR K
Sbjct: 154 AHLRRESPFDGGIAATVPTIDR--SRLLAQQQARVDE--------LRHAKYEGILDGNPA 203
Query: 218 VDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE--HCISSDD 275
+ L+ +F D ++ + +G ++ + + LIATG P P IPG KE + S++
Sbjct: 204 ITVLHGEARFKDDQTLIVRLNDGGERVVAFDRCLIATGASPAVPPIPGLKETPYWTSTEA 263
Query: 276 IFSLEKPPGKTLVVGA 291
+ S P + V+G+
Sbjct: 264 LVSDTIPE-RLAVIGS 278
>gnl|CDD|236112 PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed.
Length = 466
Score = 70.3 bits (173), Expect = 2e-13
Identities = 58/201 (28%), Positives = 90/201 (44%), Gaps = 30/201 (14%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALL 167
++GGG GG AA AA G V V++ GLGG V C+P K + A +
Sbjct: 6 IIGGGPGGYEAALVAAQLGADVTVIERD---------GLGGAAVLTDCVPSKTLIATAEV 56
Query: 168 GEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVK------SVNWVTRVMLRDKKVDYL 221
++ A G + + +L AV VK S + R L + V +
Sbjct: 57 RTELRRAAELGIRFIDDGEAR---VDL-PAVNARVKALAAAQSAD--IRARLEREGVRVI 110
Query: 222 NALGKFID----QHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAK---EHCISSD 274
G+ ID H V+ T +G ++TL A+ +LIATG P +P A+ E ++
Sbjct: 111 AGRGRLIDPGLGPHRVKVTTADGGEETLDADVVLIATGASPR--ILPTAEPDGERILTWR 168
Query: 275 DIFSLEKPPGKTLVVGAGYIG 295
++ L++ P +VVG+G G
Sbjct: 169 QLYDLDELPEHLIVVGSGVTG 189
>gnl|CDD|181196 PRK08010, PRK08010, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 441
Score = 66.2 bits (161), Expect = 4e-12
Identities = 53/204 (25%), Positives = 85/204 (41%), Gaps = 49/204 (24%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIP-KKLMH 162
Y +++G G G A A G +V +++ Q GGTC+N+GCIP K L+H
Sbjct: 4 YQAVIIGFGKAGKTLAVTLAKAGWRVALIE------QSNAM-YGGTCINIGCIPTKTLVH 56
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDK------ 216
A + ++ A+Q + VN+ LR+K
Sbjct: 57 DAQQHTDFVR------------------------AIQRKNEVVNF-----LRNKNFHNLA 87
Query: 217 ---KVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPG--AKEHCI 271
+D ++ +FI+ HS+ G + + E I I TG + P IPG
Sbjct: 88 DMPNIDVIDGQAEFINNHSLRVHRPEGNLE-IHGEKIFINTGAQTVVPPIPGITTTPGVY 146
Query: 272 SSDDIFSLEKPPGKTLVVGAGYIG 295
S + +L++ PG ++G GYIG
Sbjct: 147 DSTGLLNLKELPGHLGILGGGYIG 170
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 48.7 bits (117), Expect = 7e-08
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 20 DSGLECAGFLNGLGFNATVMIRS-VPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTK 78
GLE A L LG TV+ R LRGFD+++AK++ E++ + G+ L +
Sbjct: 9 YIGLEFASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEKNGIEVLLNTTVEEIEG 68
Query: 79 LADGKL 84
DG +
Sbjct: 69 NGDGVV 74
>gnl|CDD|223981 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
flavoprotein subunit [Energy production and conversion].
Length = 562
Score = 49.3 bits (118), Expect = 1e-06
Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGT 149
+++D++V+GGG GL AA EAA G KV +L P T GG
Sbjct: 4 IHEFDVVVIGGGGAGLRAAIEAAEAGLKVALLSKAPPKRGHTVAAQGGI 52
>gnl|CDD|180419 PRK06134, PRK06134, putative FAD-binding dehydrogenase; Reviewed.
Length = 581
Score = 48.9 bits (117), Expect = 2e-06
Identities = 30/86 (34%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 94 VRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQ--GTTWGLGGTCV 151
+ D+LV+G G+ GL+AA AA HG KVIV V P GTT GG
Sbjct: 3 SAAAYPPDLECDVLVIGSGAAGLSAAVTAAWHGLKVIV---VEKDPVFGGTTAWSGG--- 56
Query: 152 NVGCIPKKLMHQAALLGEAIKDAVAY 177
IP+ + + A + E I+ Y
Sbjct: 57 -WMWIPRNPLARRAGIVEDIEQPRTY 81
>gnl|CDD|216176 pfam00890, FAD_binding_2, FAD binding domain. This family includes
members that bind FAD. This family includes the
flavoprotein subunits from succinate and fumarate
dehydrogenase, aspartate oxidase and the alpha subunit
of adenylylsulphate reductase.
Length = 401
Score = 47.3 bits (113), Expect = 5e-06
Identities = 21/47 (44%), Positives = 26/47 (55%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCV 151
D++V+G G GLAAA EAA G KV V++ P T W GG
Sbjct: 1 DVVVIGSGLAGLAAALEAAEAGLKVAVVEKGQPFGGATAWSSGGIDA 47
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 45.4 bits (108), Expect = 1e-05
Identities = 43/198 (21%), Positives = 66/198 (33%), Gaps = 33/198 (16%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRK-VIVLDYVIPSPQ-GTTWGLGGTCVNVGCIPK----KL 160
LV+G G+ G+A A G VI++D Q G W V +
Sbjct: 1 LVVGAGAAGMAFADHLLDLGDAPVIIVD---RGAQPGGHWRKWYPFVRLHQPSFFYGDFG 57
Query: 161 MHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANL--REAVQNHVKSVNWVTRVMLRDKKV 218
M L E+ + + +L R + ++ VT V
Sbjct: 58 MPDLNALSIDTSPKWDGKAELASGAEIAAYLEDLARRYGLP--IRLSTRVTAVE------ 109
Query: 219 DYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGR--PNYPDIPGAKEHCISSDDI 276
D + +GE T+ A+ ++ ATG P P PGA + D+
Sbjct: 110 ---------RDGGRFVVRLTDGE--TVRADYVVDATGAFSVPKPPGFPGADAEGVHLVDV 158
Query: 277 FSLEKPPGKT-LVVGAGY 293
GKT V+G G+
Sbjct: 159 LERIDLKGKTVAVIGGGH 176
>gnl|CDD|237223 PRK12839, PRK12839, hypothetical protein; Provisional.
Length = 572
Score = 46.0 bits (109), Expect = 1e-05
Identities = 19/51 (37%), Positives = 29/51 (56%)
Query: 97 DNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLG 147
+ + YD++V+G G+GGL+AA AA G KV+V++ T W G
Sbjct: 2 TPSMTHTYDVVVVGSGAGGLSAAVAAAYGGAKVLVVEKASTCGGATAWSGG 52
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 43.7 bits (104), Expect = 8e-05
Identities = 15/33 (45%), Positives = 22/33 (66%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D D++V+G G GL AA E A G++V++LD
Sbjct: 2 AMDADVIVVGAGLAGLVAAAELADAGKRVLLLD 34
>gnl|CDD|221798 pfam12831, FAD_oxidored, FAD dependent oxidoreductase. This family
of proteins contains FAD dependent oxidoreductases and
related proteins.
Length = 415
Score = 41.8 bits (99), Expect = 3e-04
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 8/45 (17%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGT 149
D++V+GGG G+AAA AA G KV++++ LGG
Sbjct: 1 DVVVVGGGPAGVAAAIAAARLGAKVLLVE---RRGW-----LGGM 37
>gnl|CDD|178082 PLN02463, PLN02463, lycopene beta cyclase.
Length = 447
Score = 41.6 bits (98), Expect = 4e-04
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 94 VRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQ 140
R D + DL+V+GGG GLA A++ + G V +D PSP
Sbjct: 19 PRFDPSKSRVVDLVVVGGGPAGLAVAQQVSEAGLSVCCID---PSPL 62
>gnl|CDD|217590 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 41.4 bits (98), Expect = 4e-04
Identities = 16/30 (53%), Positives = 24/30 (80%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YD++V+GGG+ GL AA AA GR+V+++D
Sbjct: 1 YDVIVIGGGAAGLMAAISAAKRGRRVLLID 30
>gnl|CDD|237224 PRK12842, PRK12842, putative succinate dehydrogenase; Reviewed.
Length = 574
Score = 41.6 bits (98), Expect = 4e-04
Identities = 47/173 (27%), Positives = 67/173 (38%), Gaps = 63/173 (36%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
D+LV+G G+GGL+AA A G V+VL+ P GGT
Sbjct: 10 CDVLVIGSGAGGLSAAITARKLGLDVVVLE---KEPV-----FGGTT------------- 48
Query: 164 AALLGEAIKDAVAYGWE-IP-NVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYL 221
A + G IP N + + A+ REA + ++K
Sbjct: 49 ----------AFSGGVLWIPGNPHAREAGVADSREAARTYLK------------------ 80
Query: 222 NALGKFIDQHSVEATMKNG-------EKKTLTAENILIATGGRPNY-PDIPGA 266
+ G F D +VEA + NG E++T E + T P+Y PD PG
Sbjct: 81 HETGAFFDAAAVEAFLDNGPEMVEFFERET---EVKFVPT-LYPDYHPDAPGG 129
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 41.0 bits (96), Expect = 5e-04
Identities = 19/84 (22%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPK----- 158
D++++GGG GL+AA A G V VL+ + G G + P
Sbjct: 5 MDVVIIGGGIVGLSAAYYLAERGADVTVLE-AGEAGGGAAGRNAGGILAPWASPGGELEV 63
Query: 159 -KLMHQAALLGEAIKDAVAYGWEI 181
L + L + + + G +
Sbjct: 64 RPLADLSLALWRELSEELGTGAGL 87
>gnl|CDD|233382 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 985
Score = 41.3 bits (97), Expect = 6e-04
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D+LV+G G GLAAA AA G +VI++D
Sbjct: 165 DVLVVGAGPAGLAAALAAARAGARVILVD 193
>gnl|CDD|131777 TIGR02730, carot_isom, carotene isomerase. Members of this family,
including sll0033 (crtH) of Synechocystis sp. PCC 6803,
catalyze a cis-trans isomerization of carotenes to the
all-trans lycopene, a reaction that can also occur
non-enzymatically in light through photoisomerization
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 493
Score = 40.9 bits (96), Expect = 6e-04
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD-YVIPSPQGTTWGLGGTCVNVG 154
YD +V+G G GGL A + A G KV+VL+ Y+IP + G +VG
Sbjct: 1 YDAIVIGSGIGGLVTATQLAVKGAKVLVLERYLIPGGSAGYFEREGYRFDVG 52
>gnl|CDD|223566 COG0492, TrxB, Thioredoxin reductase [Posttranslational
modification, protein turnover, chaperones].
Length = 305
Score = 40.4 bits (95), Expect = 7e-04
Identities = 40/199 (20%), Positives = 66/199 (33%), Gaps = 58/199 (29%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
YD++++GGG GL AA AA G KV+++ G +L
Sbjct: 3 IYDVIIIGGGPAGLTAAIYAARAGLKVVLIL--------------EGGEPGG----QLTK 44
Query: 163 QAALLGEAIKDAVAYGWEIPNVKSVQHN--WANLREAVQNHVKSVNWVTRVMLRDKKVDY 220
++ N L E ++ + V V +KV+
Sbjct: 45 TT---------------DVENYPGFPGGILGPELMEQMKEQAEKFG-VEIVEDEVEKVE- 87
Query: 221 LNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE-------HCISS 273
V+ +K T A+ ++IATG +PG +E +C +
Sbjct: 88 -----LEGGPFKVK-----TDKGTYEAKAVIIATGAGARKLGVPGEEEFEGKGVSYCATC 137
Query: 274 DDIFSLEKPPGKTLVVGAG 292
D F +V+G G
Sbjct: 138 DGFF----KGKDVVVIGGG 152
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family includes
various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 39.6 bits (93), Expect = 9e-04
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD-YVIPSPQGTTWGLGG 148
D++V+GGG GL+ A E A G V +L+ + S G + G
Sbjct: 1 DVVVIGGGIVGLSTAYELARRGLSVTLLERGDLAS--GASGRNAG 43
>gnl|CDD|224992 COG2081, COG2081, Predicted flavoproteins [General function
prediction only].
Length = 408
Score = 39.5 bits (93), Expect = 0.001
Identities = 14/30 (46%), Positives = 23/30 (76%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+D++++GGG GL AA AA GR+V+++D
Sbjct: 4 FDVIIIGGGPAGLMAAISAAKAGRRVLLID 33
>gnl|CDD|226103 COG3573, COG3573, Predicted oxidoreductase [General function
prediction only].
Length = 552
Score = 39.8 bits (93), Expect = 0.002
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D++V+G G GL AA E A G++V++LD
Sbjct: 3 GLTADVIVVGAGLAGLVAAAELADAGKRVLILD 35
>gnl|CDD|224172 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy
production and conversion].
Length = 405
Score = 39.2 bits (92), Expect = 0.002
Identities = 37/176 (21%), Positives = 63/176 (35%), Gaps = 52/176 (29%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKV-IVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQA 164
+++LGGG GGL+AAK A V I L V + L+++
Sbjct: 6 IVILGGGFGGLSAAKRLARKLPDVEITL--VDRRDY-HLF-------------TPLLYEV 49
Query: 165 ALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNAL 224
A G + +A + + N VQ V ++
Sbjct: 50 AT-GTLSESEIAI--PLRALLRKSGN-VQF---VQGEVTDID------------------ 84
Query: 225 GKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSLE 280
D V T+ + + ++ + +++A G NY IPGA E+ + +LE
Sbjct: 85 ---RDAKKV--TLADLGE--ISYDYLVVALGSETNYFGIPGAAEYAFG---LKTLE 130
>gnl|CDD|234119 TIGR03140, AhpF, alkyl hydroperoxide reductase subunit F. This
enzyme is the partner of the peroxiredoxin (alkyl
hydroperoxide reductase) AhpC which contains the
peroxide-reactive cysteine. AhpF contains the reductant
(NAD(P)H) binding domain (pfam00070) and presumably acts
to resolve the disulfide which forms after oxidation of
the active site cysteine in AphC. This proteins contains
two paired conserved cysteine motifs, CxxCP and CxHCDGP
[Cellular processes, Detoxification, Cellular processes,
Adaptations to atypical conditions].
Length = 515
Score = 38.9 bits (91), Expect = 0.002
Identities = 45/190 (23%), Positives = 72/190 (37%), Gaps = 54/190 (28%)
Query: 83 KLKVQYKNVAEVRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGT 142
KL+ A YD+LV+GGG G AAA AA G + ++
Sbjct: 194 KLEETAGVEAA--SALEQLDPYDVLVVGGGPAGAAAAIYAARKGLRTAMV---------- 241
Query: 143 TWGLGGTCVNVGCIPKKLMHQAALLGEAIKDAVAYGWEIPNVKSVQH-NWANLREAVQNH 201
A +G +KD V I N+ SV + + L ++ H
Sbjct: 242 ---------------------AERIGGQVKDTVG----IENLISVPYTTGSQLAANLEEH 276
Query: 202 VKSVNWVTRVMLRDKKVDYLNAL-GKFIDQHS--VEATMKNGEKKTLTAENILIATGGRP 258
+K +D + K I+ + T+++GE L A+++++ATG R
Sbjct: 277 IKQYP-----------IDLMENQRAKKIETEDGLIVVTLESGE--VLKAKSVIVATGARW 323
Query: 259 NYPDIPGAKE 268
+PG KE
Sbjct: 324 RKLGVPGEKE 333
>gnl|CDD|240384 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 39.1 bits (91), Expect = 0.002
Identities = 14/33 (42%), Positives = 22/33 (66%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YDYD++++GG G AK + GRKV++L+
Sbjct: 31 NYDYDVIIVGGSIAGPVLAKALSKQGRKVLMLE 63
>gnl|CDD|224983 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 38.6 bits (90), Expect = 0.003
Identities = 48/204 (23%), Positives = 71/204 (34%), Gaps = 39/204 (19%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHG-RKVIVLDYVIPSPQ-GTTWGLG---GTCVNVGCIP 157
D+ ++G G GLAAA G ++ + G TW G ++ P
Sbjct: 8 HTDVAIIGAGQSGLAAAYALKQAGVPDFVIFE---KRDDVGGTWRYNRYPGLRLD---SP 61
Query: 158 KKLMHQAALLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKK 217
K L+ L +A A EI + LR ++ N V D+
Sbjct: 62 KWLLGFPF-LPFRWDEAFAPFAEIKDYIKDYLEKYGLRFQIR-----FNTRVEVADWDE- 114
Query: 218 VDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATG--GRPNYPDIPGAKE------H 269
D T +G LTA+ +++ATG P PD G E H
Sbjct: 115 -----------DTKRWTVTTSDGGTGELTADFVVVATGHLSEPYIPDFAGLDEFKGRILH 163
Query: 270 CISSDDIFSLEKPPGKTLVVGAGY 293
S+D + + LV+GAG
Sbjct: 164 --SADWPNPEDLRGKRVLVIGAGA 185
>gnl|CDD|132407 TIGR03364, HpnW_proposed, FAD dependent oxidoreductase TIGR03364.
This clade of FAD dependent oxidoreductases (members of
the pfam01266 family) is syntenically associated with a
family of proposed phosphonatase-like enzymes
(TIGR03351) and is also found (less frequently) in
association with phosphonate transporter components. A
likely role for this enzyme involves the oxidative
deamination of an aminophosphonate differring slightly
from 2-aminoethylphosphonate, possibly
1-hydroxy-2-aminoethylphosphonate (see the comments for
TIGR03351). Many members of the larger FAD dependent
oxidoreductase family act as amino acid oxidative
deaminases.
Length = 365
Score = 38.4 bits (90), Expect = 0.003
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTT 143
YDL+++G G GLA A AA G V V++ QG +
Sbjct: 1 YDLIIVGAGILGLAHAYAAARRGLSVTVIERS-SRAQGAS 39
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 38.3 bits (90), Expect = 0.004
Identities = 15/31 (48%), Positives = 23/31 (74%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+ D++V+G G+ G AA EAAA G +V+VL+
Sbjct: 20 EADVVVVGFGAAGACAAIEAAAAGARVLVLE 50
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 38.2 bits (89), Expect = 0.004
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+YD++++G G G +AA+ A G V+VL+
Sbjct: 1 MMEYDVVIVGAGPAGSSAARRLAKAGLDVLVLE 33
>gnl|CDD|236214 PRK08274, PRK08274, tricarballylate dehydrogenase; Validated.
Length = 466
Score = 38.3 bits (90), Expect = 0.004
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D+LV+GGG+ L AA A G V++L+
Sbjct: 4 MVDVLVIGGGNAALCAALAAREAGASVLLLE 34
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 38.2 bits (89), Expect = 0.004
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 97 DNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+ K +YD +++G GS G A + G V+VL+
Sbjct: 1 MSEMKMEYDYVIVGSGSAGSVLAARLSDAGLSVLVLE 37
>gnl|CDD|234436 TIGR03997, mycofact_OYE_2, mycofactocin system FadH/OYE family
oxidoreductase 2. The yeast protein called old yellow
enzyme and FadH from Escherichia coli (2,4-dienoyl CoA
reductase) are enzymes with 4Fe-4S, FMN, and FAD
prosthetic groups, and interact with NADPH as well as
substrate. Members of this related protein family occur
in the vicinity of the putative mycofactocin
biosynthesis operon in a number of Actinobacteria such
as Frankia sp. and Rhodococcus sp., in Pelotomaculum
thermopropionicum SI (Firmicutes), and in Geobacter
uraniireducens Rf4 (Deltaproteobacteria). The function
of this oxidoreductase is unknown.
Length = 645
Score = 38.1 bits (89), Expect = 0.005
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
LV+GGG GL AA AA G +V + +
Sbjct: 383 LVVGGGPAGLEAAATAARRGHRVTLFE 409
>gnl|CDD|180567 PRK06452, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 566
Score = 37.9 bits (88), Expect = 0.005
Identities = 20/48 (41%), Positives = 28/48 (58%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGG 148
K +YD +V+GGG GL +A E A+ G KV V+ V P+ + GG
Sbjct: 3 KIEYDAVVIGGGLAGLMSAHEIASAGFKVAVISKVFPTRSHSAAAEGG 50
>gnl|CDD|233988 TIGR02734, crtI_fam, phytoene desaturase. Phytoene is converted to
lycopene by desaturation at four (two symmetrical pairs
of) sites. This is achieved by two enzymes (crtP and
crtQ) in cyanobacteria (Gloeobacter being an exception)
and plants, but by a single enzyme in most other
bacteria and in fungi. This single enzyme is called the
bacterial-type phytoene desaturase, or CrtI. Most
members of this family, part of the larger Pfam family
pfam01593, which also contains amino oxidases, are CrtI
itself; it is likely that all members act on either
phytoene or on related compounds such as
dehydrosqualene, for carotenoid biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 502
Score = 37.6 bits (88), Expect = 0.006
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 13/78 (16%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD---------YVIPSPQGTTWGLGGTCVNVGCIP 157
+V+G G GGLA A AA G V V++ V+ G + G T + + P
Sbjct: 2 VVIGAGFGGLALAIRLAAAGIPVTVVEQRDKPGGRAGVLED-DGFRFDTGPTVITM---P 57
Query: 158 KKLMHQAALLGEAIKDAV 175
+ L AL G + D V
Sbjct: 58 EALEELFALAGRDLADYV 75
>gnl|CDD|236887 PRK11259, solA, N-methyltryptophan oxidase; Provisional.
Length = 376
Score = 37.5 bits (88), Expect = 0.006
Identities = 18/43 (41%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD-YVIPSPQGTTWG 145
YD++V+G GS G AA A G +V+ LD ++ P QG++ G
Sbjct: 4 YDVIVIGLGSMGSAAGYYLARRGLRVLGLDRFMPPHQQGSSHG 46
>gnl|CDD|235412 PRK05329, PRK05329, anaerobic glycerol-3-phosphate dehydrogenase
subunit B; Validated.
Length = 422
Score = 37.5 bits (88), Expect = 0.006
Identities = 14/30 (46%), Positives = 21/30 (70%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
+D+LV+GGG GL AA AA G++V ++
Sbjct: 2 KFDVLVIGGGLAGLTAALAAAEAGKRVALV 31
>gnl|CDD|237225 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
Length = 578
Score = 37.4 bits (87), Expect = 0.007
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 7/49 (14%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIV---LDYVIPSPQGTTWGLGGT 149
+D++V+G G+ G++AA AA G KV++ +YV GTT GT
Sbjct: 17 FDVIVIGAGAAGMSAALFAAIAGLKVLLVERTEYV----GGTTATSAGT 61
>gnl|CDD|237512 PRK13800, PRK13800, putative oxidoreductase/HEAT repeat-containing
protein; Provisional.
Length = 897
Score = 37.5 bits (87), Expect = 0.008
Identities = 16/37 (43%), Positives = 24/37 (64%)
Query: 97 DNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+ + D D+LV+GGG+ G AA AA HG V++L+
Sbjct: 7 TDALRLDCDVLVIGGGTAGTMAALTAAEHGANVLLLE 43
>gnl|CDD|236102 PRK07804, PRK07804, L-aspartate oxidase; Provisional.
Length = 541
Score = 37.3 bits (87), Expect = 0.009
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGG 148
D++V+G G GL AA A GR+V+V+ T W GG
Sbjct: 18 DVVVVGSGVAGLTAALAARRAGRRVLVVTKAALDDGSTRWAQGG 61
>gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This
family includes lycopene beta and epsilion cyclases
(which form beta and delta carotene, respectively) from
bacteria and plants as well as the plant
capsanthin/capsorubin and neoxanthin cyclases which
appear to have evolved from the plant lycopene cyclases.
The plant lycopene epsilon cyclases also transform
neurosporene to alpha zeacarotene.
Length = 388
Score = 36.6 bits (85), Expect = 0.013
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWG 145
DL V+GGG GLA A E A G +V +++ P P T+G
Sbjct: 1 DLAVIGGGPAGLAIALELARPGLRVQLIEPHPPIPGNHTYG 41
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide it
translocates into the plasma membrane, where it's action
may generate cytotoxic aldehydes and may lower estrogen
levels through its use of 17-beta-estradiol as a
substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an 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 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 (15-PGDH) numbering). 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) 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. 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 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.
Length = 252
Score = 36.1 bits (84), Expect = 0.014
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLDYVIPSPQG 141
+V GG SG GLA + A G KV++LD +P+ G
Sbjct: 6 VVTGGASGLGLATVERLLAQGAKVVILD--LPNSPG 39
>gnl|CDD|205628 pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain.
Length = 66
Score = 33.2 bits (77), Expect = 0.015
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLD 133
++G G GL AA A G+ V+VL+
Sbjct: 1 IVGAGLSGLVAAYLLAKRGKDVLVLE 26
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 36.3 bits (84), Expect = 0.016
Identities = 16/31 (51%), Positives = 20/31 (64%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YD++V+G G GLAAA A G KV VL+
Sbjct: 3 MYDVVVIGAGLNGLAAAALLARAGLKVTVLE 33
>gnl|CDD|223959 COG1028, FabG, Dehydrogenases with different specificities (related
to short-chain alcohol dehydrogenases) [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 251
Score = 35.6 bits (82), Expect = 0.023
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLDY 134
LV G SG G A A+ A G +V+V
Sbjct: 9 LVTGASSGIGRAIARALAREGARVVVAAR 37
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 36.1 bits (84), Expect = 0.023
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
++D++V+GGG G A++AA G KV +++
Sbjct: 12 EFDVIVIGGGITGAGIARDAAGRGLKVALVE 42
>gnl|CDD|181001 PRK07494, PRK07494, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Provisional.
Length = 388
Score = 35.6 bits (83), Expect = 0.025
Identities = 43/178 (24%), Positives = 63/178 (35%), Gaps = 42/178 (23%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNV----GCIPK 158
D+ V+GGG GLAAA A G V ++ P T L G + G +
Sbjct: 7 HTDIAVIGGGPAGLAAAIALARAGASVALVAPEPPYADLRTTALLGPSIRFLERLGLWAR 66
Query: 159 KLMHQAALLGEAIKDAV-------------------AYGWEIPNVKSVQHNWANLREAVQ 199
H A L I DA A+G+ IPN L A++
Sbjct: 67 LAPHAAPLQSMRIVDATGRLIRAPEVRFRAAEIGEDAFGYNIPN--------WLLNRALE 118
Query: 200 NHVKSVNWVTRVMLRDKKVDYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGR 257
V + +TR + V + V T+ +G TL+A +++ GR
Sbjct: 119 ARVAELPNITRFGDEAESVR--------PREDEVTVTLADGT--TLSAR-LVVGADGR 165
>gnl|CDD|181564 PRK08849, PRK08849, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 35.5 bits (82), Expect = 0.026
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSP 139
YD+ V+GGG G A A A GR V V++ P
Sbjct: 4 YDIAVVGGGMVGAATALGFAKQGRSVAVIEGGEPKA 39
>gnl|CDD|222125 pfam13434, K_oxygenase, L-lysine 6-monooxygenase (NADPH-requiring).
This is family of Rossmann fold oxidoreductases that
catalyzes the NADPH-dependent hydroxylation of lysine at
the N6 position, EC:1.14.13.59.
Length = 335
Score = 35.2 bits (82), Expect = 0.030
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 239 NGEKKTLTAENILIATGGRPNYPD----IPGAKEHCISSDDI---FSLEKPPGKTLVVGA 291
G ++T A N+++ TG P P+ +PG E S + + VVG
Sbjct: 136 TGTEQTYLARNLVLGTGTTPYIPECAKPLPG--ERVFHSSEYLLRKPRLLAGKRITVVGG 193
Query: 292 G 292
G
Sbjct: 194 G 194
>gnl|CDD|232908 TIGR00292, TIGR00292, thiazole biosynthesis enzyme. This enzyme is
involved in the biosynthesis of the thiamine precursor
thiazole, and is repressed by thiamine. This family
includes c-thi1, a Citrus gene induced during natural
and ethylene induced fruit maturation and is highly
homologous to plant and yeast thi genes involved in
thiamine biosynthesis [Biosynthesis of cofactors,
prosthetic groups, and carriers, Thiamine].
Length = 254
Score = 34.8 bits (80), Expect = 0.033
Identities = 17/43 (39%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLG 147
D++++G G GL AA A +G KV VL+ + + G +WG G
Sbjct: 23 DVIIVGAGPSGLTAAYYLAKNGLKVCVLERSL-AFGGGSWGGG 64
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 35.4 bits (82), Expect = 0.035
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 96 QDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGR--KVIVLD 133
NT + + D+LV+GGG+ G AA +A +V++L+
Sbjct: 2 AMNTQEVETDILVIGGGTAGPMAAIKAKERNPALRVLLLE 41
>gnl|CDD|145231 pfam01946, Thi4, Thi4 family. This family includes a putative
thiamine biosynthetic enzyme.
Length = 229
Score = 34.7 bits (80), Expect = 0.037
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLG 147
D++++G G GL AA A G KV +++ + SP G WG G
Sbjct: 19 DVVIVGAGPSGLTAAYYLAKKGLKVAIIERSL-SPGGGAWGGG 60
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 34.9 bits (80), Expect = 0.041
Identities = 36/195 (18%), Positives = 60/195 (30%), Gaps = 54/195 (27%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLDYVI-PSPQGTTWGLGGTCVNVGCIPKKLMHQAA 165
+++GGG+ GL+AA + P L +
Sbjct: 2 VIVGGGAAGLSAATTLRRLLLAAEITLIGREPKYSYYRCPL-----------------SL 44
Query: 166 LLGEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNALG 225
+G I E A V++ VT + +K V
Sbjct: 45 YVGGGIASL-----EDLRYP------PRFNRATGIDVRTGTEVTSIDPENKVV------- 86
Query: 226 KFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPG-----AKEHCISSDDIFSLE 280
+ +GE + + +++ATG RP P I ++ +
Sbjct: 87 ----------LLDDGE---IEYDYLVLATGARPRPPPISDWEGVVTLRLREDAEALKGGA 133
Query: 281 KPPGKTLVVGAGYIG 295
+PP +VVGAG IG
Sbjct: 134 EPPKDVVVVGAGPIG 148
Score = 33.3 bits (76), Expect = 0.15
Identities = 13/29 (44%), Positives = 21/29 (72%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D++V+G G GL AA+ AA G+KV +++
Sbjct: 138 DVVVVGAGPIGLEAAEAAAKRGKKVTLIE 166
>gnl|CDD|235241 PRK04176, PRK04176, ribulose-1,5-biphosphate synthetase;
Provisional.
Length = 257
Score = 34.8 bits (81), Expect = 0.044
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGG 148
+ D+ ++G G GL AA A G KV V + + S G WG GG
Sbjct: 25 EVDVAIVGAGPSGLTAAYYLAKAGLKVAVFERKL-SFGGGMWG-GG 68
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 34.2 bits (79), Expect = 0.047
Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIV 131
LV+GG SG GLA A+ AA G +V +
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTI 26
>gnl|CDD|234447 TIGR04046, MSMEG_0569_nitr, flavin-dependent oxidoreductase,
MSMEG_0569 family. Members of this protein family
belong to a conserved seven-gene biosynthetic cluster
found sparsely in Cyanobacteria, Proteobacteria, and
Actinobacteria. Distant homologies to characterized
proteins suggest that members are enzymes dependent on a
flavinoid cofactor.
Length = 400
Score = 34.6 bits (80), Expect = 0.052
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 21/104 (20%)
Query: 212 MLRDKKVDYLNALGKFID----QH-SVEATMKNGEKK--------TLTAENILIATGGRP 258
M++D+ V YL+ + + + V + K+G TA+ ++IATGG
Sbjct: 71 MVKDEIVAYLDGYARSFNPPVREGTEVTSLRKHGAGGFRVSTSAGAFTADQVVIATGGYH 130
Query: 259 NYPDIPGAKE------HCISSDDIFSLEK-PPGKTLVVGAGYIG 295
P IP E + S + + ++ P G LVVG+G G
Sbjct: 131 V-PVIPPLAERLPADVLQLHSSEYRNPDQLPDGAVLVVGSGQSG 173
>gnl|CDD|223636 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope biogenesis,
outer membrane].
Length = 374
Score = 34.6 bits (80), Expect = 0.053
Identities = 10/31 (32%), Positives = 20/31 (64%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+D L++G G G A+ AA G++V++++
Sbjct: 1 MFDYLIVGAGLSGAVIAEVAAQLGKRVLIVE 31
>gnl|CDD|236385 PRK09126, PRK09126, hypothetical protein; Provisional.
Length = 392
Score = 34.5 bits (80), Expect = 0.056
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D++V+G G GL+ A+ A G KV +++
Sbjct: 4 SDIVVVGAGPAGLSFARSLAGSGLKVTLIE 33
>gnl|CDD|237365 PRK13369, PRK13369, glycerol-3-phosphate dehydrogenase;
Provisional.
Length = 502
Score = 34.6 bits (80), Expect = 0.056
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
YDL V+GGG G A++AA G KV++
Sbjct: 6 TYDLFVIGGGINGAGIARDAAGRGLKVLLC 35
>gnl|CDD|236101 PRK07803, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 626
Score = 34.6 bits (80), Expect = 0.058
Identities = 14/32 (43%), Positives = 21/32 (65%)
Query: 101 KYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
++ YD++V+G G GL AA EA G +V V+
Sbjct: 6 RHSYDVVVIGAGGAGLRAAIEARERGLRVAVV 37
>gnl|CDD|237221 PRK12835, PRK12835, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 584
Score = 34.8 bits (80), Expect = 0.059
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D+LV+G G GG+ AA AAA G +V++
Sbjct: 12 VDVLVVGSGGGGMTAALTAAARGLDTLVVE 41
>gnl|CDD|181262 PRK08163, PRK08163, salicylate hydroxylase; Provisional.
Length = 396
Score = 34.6 bits (80), Expect = 0.060
Identities = 15/28 (53%), Positives = 20/28 (71%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+L++GGG GGLAAA A G KV +L+
Sbjct: 7 VLIVGGGIGGLAAALALARQGIKVKLLE 34
>gnl|CDD|163244 TIGR03385, CoA_CoA_reduc, CoA-disulfide reductase. Members of this
protein family are CoA-disulfide reductase (EC
1.8.1.14), as characterized in Staphylococcus aureus,
Pyrococcus horikoshii, and Borrelia burgdorferi, and
inferred in several other species on the basis of high
levels of CoA and an absence of glutathione as a
protective thiol [Cellular processes, Detoxification].
Length = 427
Score = 34.3 bits (79), Expect = 0.065
Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 21/73 (28%)
Query: 239 NGEKKTL--TAENILIATGGRPNYPDIPGAKEHCISSDDIFSLEKPPG------------ 284
N +T + + ++++ G P P+I G I+ D +F+L
Sbjct: 82 NKTNETYEESYDYLILSPGASPIVPNIEG-----INLDIVFTLRNLEDTDAIKQYIDKNK 136
Query: 285 --KTLVVGAGYIG 295
+++G GYIG
Sbjct: 137 VENVVIIGGGYIG 149
Score = 29.7 bits (67), Expect = 2.0
Identities = 20/93 (21%), Positives = 43/93 (46%), Gaps = 13/93 (13%)
Query: 22 GLECAGFLNGLGFNATVMIRS--VPLRGFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKL 79
G+E A L G N T++ RS + + FD++M +++ EE+ + ++ +L
Sbjct: 149 GIEMAEALRERGKNVTLIHRSERILNKLFDEEMNQIVEEELKKHEINL----------RL 198
Query: 80 ADGKLKVQYKNVAEVRQDNTHKYDYDLLVLGGG 112
+ ++ + +V Y D+++L G
Sbjct: 199 NEEVDSIEGEERVKVFTSGG-VYQADMVILATG 230
>gnl|CDD|180814 PRK07057, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 591
Score = 34.4 bits (79), Expect = 0.067
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 96 QDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVG 154
+ + + +D++++G G G+ A+ + A G V VL V P+ T GG ++G
Sbjct: 5 KTSLPRRKFDVVIVGAGGSGMRASLQLARAGLSVAVLSKVFPTRSHTVAAQGGIGASLG 63
>gnl|CDD|181507 PRK08626, PRK08626, fumarate reductase flavoprotein subunit;
Provisional.
Length = 657
Score = 34.6 bits (80), Expect = 0.068
Identities = 15/33 (45%), Positives = 16/33 (48%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIP 137
D LV+G G GL A AA G IVL V
Sbjct: 7 DALVIGAGLAGLRVAIAAAQRGLDTIVLSLVPA 39
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related
FAD-dependent oxidoreductases [Coenzyme metabolism /
Energy production and conversion].
Length = 387
Score = 34.3 bits (79), Expect = 0.073
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
D+ ++G G GLA A A G V +L+
Sbjct: 1 KMLDVAIVGAGPAGLALALALARAGLDVTLLE 32
>gnl|CDD|233689 TIGR02023, BchP-ChlP, geranylgeranyl reductase. This model
represents a group of geranylgeranyl reductases specific
for the biosyntheses of bacteriochlorophyll and
chlorophyll. It is unclear whether the processes of
isoprenoid ligation to the chlorin ring and reduction of
the geranylgeranyl chain to a phytyl chain are
necessarily ordered the same way in all species (see
introduction to ) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 388
Score = 34.4 bits (79), Expect = 0.073
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YD+ V+GGG G AA+ A G + I+L+
Sbjct: 1 YDVAVIGGGPSGATAAETLARAGIETILLE 30
>gnl|CDD|240286 PTZ00139, PTZ00139, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit; Provisional.
Length = 617
Score = 34.3 bits (79), Expect = 0.075
Identities = 15/49 (30%), Positives = 21/49 (42%)
Query: 100 HKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGG 148
+ YD +V+G G GL AA G K + + P+ T GG
Sbjct: 26 IDHTYDAVVVGAGGAGLRAALGLVELGYKTACISKLFPTRSHTVAAQGG 74
>gnl|CDD|214966 smart01002, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of pyruvate
into alanine.
Length = 149
Score = 32.9 bits (76), Expect = 0.076
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAAL 166
+V+G G GL AA A G +V VLD + LG L QA L
Sbjct: 24 VVIGAGVVGLGAAATAKGLGAEVTVLDVRPARLRQLESLLGA-------RFTTLYSQAEL 76
Query: 167 LGEAIKDA 174
L EA+K+A
Sbjct: 77 LEEAVKEA 84
>gnl|CDD|181199 PRK08020, ubiF, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Reviewed.
Length = 391
Score = 33.8 bits (78), Expect = 0.091
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSP 139
D+ ++GGG G A A A HG V VL++ P+P
Sbjct: 5 PTDIAIVGGGMVGAALALGLAQHGFSVAVLEHAAPAP 41
>gnl|CDD|236111 PRK07843, PRK07843, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 33.9 bits (78), Expect = 0.094
Identities = 12/31 (38%), Positives = 21/31 (67%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+YD++V+G G+ G+ AA AA G +V++
Sbjct: 7 EYDVVVVGSGAAGMVAALTAAHRGLSTVVVE 37
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 33.3 bits (77), Expect = 0.10
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
+V G SG G A+ AA G +V+V D
Sbjct: 9 IVTGASSGIGEGIARRFAAEGARVVVTD 36
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 33.6 bits (77), Expect = 0.12
Identities = 12/30 (40%), Positives = 21/30 (70%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YD++V+G G GG+ AA AA G + ++++
Sbjct: 7 YDVVVVGSGGGGMCAALAAADSGLEPLIVE 36
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 250
Score = 33.1 bits (76), Expect = 0.12
Identities = 17/28 (60%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
LV GG SG GLA AK AA G V+V D
Sbjct: 5 LVTGGASGIGLAIAKRLAAEGAAVVVAD 32
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 33.6 bits (77), Expect = 0.14
Identities = 14/28 (50%), Positives = 22/28 (78%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
++V+GGG G +AA EAA+ G +VI+L+
Sbjct: 412 VIVVGGGLAGCSAAIEAASCGAQVILLE 439
>gnl|CDD|235977 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 33.3 bits (77), Expect = 0.15
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLD 133
++GGG GLAAA A G +V V +
Sbjct: 4 IVGGGIAGLAAAYRLAKRGHEVTVFE 29
>gnl|CDD|224550 COG1635, THI4, Ribulose 1,5-bisphosphate synthetase, converts PRPP
to RuBP, flavoprotein [Carbohydrate transport and
metabolism].
Length = 262
Score = 32.7 bits (75), Expect = 0.17
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLG 147
D++++G G GL AA A G KV + + + S G WG G
Sbjct: 32 DVIIVGAGPSGLTAAYYLAKAGLKVAIFERKL-SFGGGIWGGG 73
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 33.2 bits (76), Expect = 0.17
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+LV+GGG G+ AA E A G KV +++
Sbjct: 126 SVLVIGGGVAGITAALELADMGFKVYLVE 154
>gnl|CDD|224171 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 33.1 bits (76), Expect = 0.18
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 10/78 (12%)
Query: 228 IDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGA-KEHCISSDDIFSLE------ 280
ID+ + T G T++ + ++IATG P IPG+ I +E
Sbjct: 85 IDRANKVVTTDAGR--TVSYDKLIIATGSYPFILPIPGSDLPGVFVYRTIDDVEAMLDCA 142
Query: 281 KPPGKTLVVGAGYIGKLE 298
+ K +V+G G +G LE
Sbjct: 143 RNKKKAVVIGGGLLG-LE 159
>gnl|CDD|235879 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 33.0 bits (76), Expect = 0.18
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 7/43 (16%)
Query: 93 EVRQDNTHKYDYDLLVLGGGSGGLAAAKEAA--AHGRKVIVLD 133
EV + +T D+L++GGG G AA EA A KV++++
Sbjct: 6 EVVEVDT-----DILIIGGGMAGCGAAFEAKEWAPDLKVLIVE 43
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 32.8 bits (76), Expect = 0.18
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
++LG G G AA+ A G +V VLD
Sbjct: 172 VILGAGVVGENAARVALGLGAEVTVLD 198
>gnl|CDD|236158 PRK08132, PRK08132, FAD-dependent oxidoreductase; Provisional.
Length = 547
Score = 32.9 bits (76), Expect = 0.19
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+V+G G GLA A + A G V++LD
Sbjct: 27 VVVGAGPVGLALAIDLAQQGVPVVLLD 53
>gnl|CDD|188533 TIGR04018, Bthiol_YpdA, putative bacillithiol system
oxidoreductase, YpdA family. Members of this protein
family, including YpdA from Bacillus subtilis, are
apparent oxidoreductases present only in species with an
active bacillithiol system. They have been suggested
actually to be thiol disulfide oxidoreductases (TDOR),
although the evidence is incomplete [Unknown function,
Enzymes of unknown specificity].
Length = 316
Score = 32.5 bits (75), Expect = 0.20
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVI 136
D++++G G GLA A EA G L Y+I
Sbjct: 1 DVIIIGAGPCGLACAIEAQKAG-----LSYLI 27
Score = 27.5 bits (62), Expect = 9.8
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 220 YLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNY 260
Y N+ K I + SV +GE T+ + + TG RP++
Sbjct: 211 YFNSRVKEITEDSVTLETPDGEVHTIPNDFVFALTGYRPDF 251
>gnl|CDD|215436 PLN02815, PLN02815, L-aspartate oxidase.
Length = 594
Score = 33.1 bits (76), Expect = 0.21
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 96 QDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTC 150
D + KY +D LV+G G GL A E A +G V ++ P T + GG
Sbjct: 23 DDESTKY-FDFLVIGSGIAGLRYALEVAEYG-TVAIITKDEPHESNTNYAQGGVS 75
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an 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 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 prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) 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. 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 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.
Length = 234
Score = 32.3 bits (74), Expect = 0.24
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
LV G SG G A A+ A G KV++ D
Sbjct: 2 LVTGASSGIGRAIARRLAREGAKVVLAD 29
>gnl|CDD|237942 PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F;
Provisional.
Length = 517
Score = 32.8 bits (76), Expect = 0.25
Identities = 49/187 (26%), Positives = 64/187 (34%), Gaps = 74/187 (39%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD+LV+GGG G AAA AA RK G+ G +
Sbjct: 212 YDVLVVGGGPAGAAAAIYAA---RK----------------GI-----RTGIV------- 240
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQHN-----WANLREAVQNHVKSVNWVTRVMLRDKKV 218
A G + D + I N SV A L E HVK + V
Sbjct: 241 AERFGGQVLDTMG----IENFISVPETEGPKLAAALEE----HVKEYD-----------V 281
Query: 219 DYLN-----ALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE----- 268
D +N L VE + NG L A+ +++ATG R ++PG E
Sbjct: 282 DIMNLQRASKLEPAAGLIEVE--LANGA--VLKAKTVILATGARWRNMNVPGEDEYRNKG 337
Query: 269 -----HC 270
HC
Sbjct: 338 VAYCPHC 344
>gnl|CDD|233693 TIGR02032, GG-red-SF, geranylgeranyl reductase family. This model
represents a subfamily which includes geranylgeranyl
reductases involved in chlorophyll and
bacteriochlorophyll biosynthesis as well as other
related enzymes which may also act on geranylgeranyl
groups or related substrates [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 295
Score = 32.3 bits (74), Expect = 0.25
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YD++V+G G G +AA A G +V++L+
Sbjct: 1 YDVVVVGAGPAGASAAYRLADKGLRVLLLE 30
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an 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
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. 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 and Lys, as
well as Asn (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 = 243
Score = 32.2 bits (74), Expect = 0.26
Identities = 15/28 (53%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
L+ GGGSG G A E A G KV++LD
Sbjct: 3 LITGGGSGIGRLLALEFAKRGAKVVILD 30
>gnl|CDD|215314 PLN02576, PLN02576, protoporphyrinogen oxidase.
Length = 496
Score = 32.7 bits (75), Expect = 0.28
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 94 VRQDNTHKYDYDLLVLGGGSGGLAAA-KEAAAHGRKVIV 131
+ + + D+ V+G G GLAAA A+ HG V+V
Sbjct: 3 IAEGSAAASSKDVAVVGAGVSGLAAAYALASKHGVNVLV 41
>gnl|CDD|181958 PRK09564, PRK09564, coenzyme A disulfide reductase; Reviewed.
Length = 444
Score = 32.3 bits (74), Expect = 0.29
Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 21/90 (23%)
Query: 237 MKNGEKKTLTAENILIATGGRPNYPDIPGAKEHCISSDDIFSL--------------EKP 282
+K G T + ++IATG RP P I I+ +++++L ++
Sbjct: 94 LKTGSIFNDTYDKLMIATGARPIIPPIKN-----INLENVYTLKSMEDGLALKELLKDEE 148
Query: 283 PGKTLVVGAGYIGKLETWDSNSGCG-NVTI 311
+++GAG+IG LE ++ G NV I
Sbjct: 149 IKNIVIIGAGFIG-LEAVEAAKHLGKNVRI 177
>gnl|CDD|130444 TIGR01377, soxA_mon, sarcosine oxidase, monomeric form. Sarcosine
oxidase catalyzes the oxidative demethylation of
sarcosine to glycine. The reaction converts
tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The
enzyme is known in monomeric and heterotetrameric
(alpha,beta,gamma,delta) forms [Energy metabolism, Amino
acids and amines].
Length = 380
Score = 32.1 bits (73), Expect = 0.33
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD-YVIPSPQGTTWG 145
+D++V+G G G AA A HG+K ++L+ + +P +G++ G
Sbjct: 1 FDVIVVGAGIMGCFAAYHLAKHGKKTLLLEQFDLPHSRGSSHG 43
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 244
Score = 31.5 bits (72), Expect = 0.44
Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
++ GG SG GLA AK G KV +LD
Sbjct: 4 IITGGASGIGLATAKLLLKKGAKVAILD 31
>gnl|CDD|233583 TIGR01813, flavo_cyto_c, flavocytochrome c. This model describes a
family of redox proteins related to the succinate
dehydrogenases and fumarate reductases of E. coli,
mitochondria, and other well-characterized systems. A
member of this family from Shewanella frigidimarina
NCIMB400 is characterized as a water-soluble periplasmic
protein with four heme groups, a non-covalently bound
FAD, and essentially unidirectional fumarate reductase
activity. At least seven distinct members of this family
are found in Shewanella oneidensis, a species able to
use a wide variety of pathways for respiraton [Energy
metabolism, Electron transport].
Length = 439
Score = 31.9 bits (73), Expect = 0.44
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRK-VIVLD 133
D++V+G G GL+AA A G V++L+
Sbjct: 1 DVVVVGSGFAGLSAALSAKKAGAANVVLLE 30
>gnl|CDD|151761 pfam11320, DUF3122, Protein of unknown function (DUF3122). This
family of proteins with unknown function appear to be
restricted to Cyanobacteria.
Length = 134
Score = 30.3 bits (69), Expect = 0.50
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 231 HSVEATMKNGEKKTLTAENILIATGGRPN 259
H + G K L AE++ + GRPN
Sbjct: 60 HPQPLQVTTGRGKWLLAEDVFLDEDGRPN 88
>gnl|CDD|232791 TIGR00031, UDP-GALP_mutase, UDP-galactopyranose mutase. This
enzyme is involved in the conversion of UDP-GALP into
UDP-GALF through a 2-keto intermediate. It contains FAD
as a cofactor. The gene is known as glf, ceoA, and rfbD.
It is known experimentally in E. coli, Mycobacterium
tuberculosis, and Klebsiella pneumoniae [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 377
Score = 31.7 bits (72), Expect = 0.51
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+D +++G G G+ A A ++V+V++
Sbjct: 2 FDYIIVGAGLSGIVLANILAQLNKRVLVVE 31
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 31.3 bits (72), Expect = 0.55
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
LV G G G A A AA G KV++ D
Sbjct: 9 LVTGASRGIGRAIALRLAADGAKVVIYD 36
>gnl|CDD|225617 COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase [Amino
acid transport and metabolism].
Length = 421
Score = 31.2 bits (71), Expect = 0.64
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDY 134
+D+ ++GGG GL G++ +++
Sbjct: 3 FDVAIIGGGLAGLTCGLALQQAGKRCAIVNR 33
>gnl|CDD|176205 cd08243, quinone_oxidoreductase_like_1, Quinone oxidoreductase
(QOR). NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. 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.
Length = 320
Score = 31.0 bits (71), Expect = 0.71
Identities = 14/26 (53%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 106 LLVLGGGSG-GLAAAKEAAAHGRKVI 130
LL+ GG S GLAA K A A G V
Sbjct: 146 LLIRGGTSSVGLAALKLAKALGATVT 171
>gnl|CDD|232901 TIGR00275, TIGR00275, flavoprotein, HI0933 family. The model when
searched with a partial length search brings in proteins
with a dinucleotide-binding motif (Rossman fold) over
the initial 40 residues of the model, including
oxidoreductases and dehydrogenases. Partially
characterized members include an FAD-binding protein
from Bacillus cereus and flavoprotein HI0933 from
Haemophilus influenzae [Unknown function, Enzymes of
unknown specificity].
Length = 400
Score = 31.0 bits (71), Expect = 0.72
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+++GGG+ GL AA AA G V++L+
Sbjct: 1 IIIGGGAAGLMAAITAAREGLSVLLLE 27
>gnl|CDD|178566 PLN02985, PLN02985, squalene monooxygenase.
Length = 514
Score = 31.0 bits (70), Expect = 0.74
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 12/64 (18%)
Query: 77 TKLADGKLKVQYKNVAEVRQDNTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVI 136
T+LAD VAE R+D D++++G G GG A A A GR+V V++ +
Sbjct: 29 TELADA--------VAEERKDGAT----DVIIVGAGVGGSALAYALAKDGRRVHVIERDL 76
Query: 137 PSPQ 140
P+
Sbjct: 77 REPE 80
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(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. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 30.8 bits (70), Expect = 0.74
Identities = 16/27 (59%), Positives = 18/27 (66%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
LVLG G GL AA+ A A G +VIV D
Sbjct: 139 LVLGAGGVGLLAAQLAKAAGARVIVTD 165
>gnl|CDD|226160 COG3634, AhpF, Alkyl hydroperoxide reductase, large subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 520
Score = 31.3 bits (71), Expect = 0.75
Identities = 44/166 (26%), Positives = 60/166 (36%), Gaps = 43/166 (25%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQ 163
YD+LV+GGG G AAA AA RK I +
Sbjct: 212 YDVLVVGGGPAGAAAAIYAA---RKGI--------------------------------R 236
Query: 164 AALLGEAIKDAVAYGWEIPNVKSVQH-NWANLREAVQNHVKSVNWVTRVMLRDKKVDYLN 222
L+ E V I N SV L A++ HVK + + R K++
Sbjct: 237 TGLVAERFGGQVLDTMGIENFISVPETEGPKLAAALEAHVKQYDVDVMNLQRASKLEPAA 296
Query: 223 ALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE 268
G I E + NG L A +++ATG R ++PG E
Sbjct: 297 VEGGLI-----EVELANG--AVLKARTVILATGARWRNMNVPGEDE 335
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 30.9 bits (70), Expect = 0.75
Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 108 VLGGGSG-GLAAAKEAAAHGRKVIVLD 133
+ GGGSG GLA A+ AA G V+V D
Sbjct: 12 ITGGGSGIGLATARRLAAEGATVVVGD 38
>gnl|CDD|235758 PRK06263, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 543
Score = 31.1 bits (71), Expect = 0.81
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIV 131
D+L++G G G AA EA VIV
Sbjct: 6 MITDVLIIGSGGAGARAAIEAERGKNVVIV 35
>gnl|CDD|225885 COG3349, COG3349, Uncharacterized conserved protein [Function
unknown].
Length = 485
Score = 30.9 bits (70), Expect = 0.84
Identities = 14/43 (32%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTC 150
+ G G GLAAA E A G V + + LGG
Sbjct: 5 IAGAGLAGLAAAYELADAGYDVTLYE--------ARDRLGGKV 39
>gnl|CDD|236185 PRK08205, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 583
Score = 30.7 bits (70), Expect = 0.95
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 99 THKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTC 150
H+YD ++++G G G+ AA EA R VL + P+ T GG C
Sbjct: 3 QHRYD--VVIVGAGGAGMRAAIEAGPRAR-TAVLTKLYPTRSHTGAAQGGMC 51
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one C
subunit in the genome and that genome is lacking the F
subunit partner (also a thioredcxin reductase homolog)
that is usually found (TIGR03140).
Length = 555
Score = 30.9 bits (70), Expect = 0.99
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
YDL+++GGG GL+A A ++++
Sbjct: 5 YDLIIIGGGPAGLSAGIYAGRAKLDTLIIE 34
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR 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. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 337
Score = 30.6 bits (70), Expect = 1.0
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+LV+G G GL + A A G +VIV+D
Sbjct: 163 VLVVGAGPIGLGVIQVAKARGARVIVVD 190
>gnl|CDD|213807 TIGR03378, glycerol3P_GlpB, glycerol-3-phosphate dehydrogenase,
anaerobic, B subunit. Members of this protein family
are the B subunit, product of the glpB gene, of a
three-subunit, membrane-anchored, FAD-dependent
anaerobic glycerol-3-phosphate dehydrogenase [Energy
metabolism, Anaerobic].
Length = 419
Score = 30.8 bits (70), Expect = 1.0
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
+D++++GGG GL+ A A G+K ++
Sbjct: 1 FDVIIIGGGLAGLSCALRLAEAGKKCAII 29
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 30.4 bits (69), Expect = 1.0
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+ D+L++GGG GL A A G +V++++
Sbjct: 1 ETDVLIVGGGPAGLMLALLLARAGVRVVLVE 31
>gnl|CDD|224527 COG1611, COG1611, Predicted Rossmann fold nucleotide-binding
protein [General function prediction only].
Length = 205
Score = 30.0 bits (68), Expect = 1.1
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 103 DYDLLVLGGGSGGL--AAAKEAAAHGRKVI 130
LLV+ GG G+ A A+ A G V+
Sbjct: 45 KRGLLVITGGGPGVMEAVARGALEAGGLVV 74
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 30.3 bits (69), Expect = 1.2
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIV 131
L+ GG SG GL A++ A G +V +
Sbjct: 10 LITGGTSGIGLETARQFLAEGARVAI 35
>gnl|CDD|233345 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This model
describes thioredoxin-disulfide reductase, a member of
the pyridine nucleotide-disulphide oxidoreductases
(pfam00070) [Energy metabolism, Electron transport].
Length = 299
Score = 30.3 bits (69), Expect = 1.2
Identities = 40/166 (24%), Positives = 57/166 (34%), Gaps = 47/166 (28%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPK-KLMHQ 163
D++++G G GL AA AA K ++++ P Q TT V P
Sbjct: 1 DVIIIGAGPAGLTAAIYAARANLKPLLIEGGEPGGQLTTTTE------VENYPGFPEGIS 54
Query: 164 AALLGEAIKD-AVAYGWEIPNVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLN 222
L E +K+ AV +G EI + V V DK
Sbjct: 55 GPELMEKMKEQAVKFGAEI----------------IYEEVIKV---------DKSGRPF- 88
Query: 223 ALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPGAKE 268
+ G+ K TA+ ++IATG IPG E
Sbjct: 89 -------------KVYTGDGKEYTAKAVIIATGASARKLGIPGEDE 121
>gnl|CDD|236374 PRK09077, PRK09077, L-aspartate oxidase; Provisional.
Length = 536
Score = 30.7 bits (70), Expect = 1.2
Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 21/107 (19%)
Query: 99 THKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPK 158
+ ++ D+L++G G+ GL+ A A H R+V VL S T + GG
Sbjct: 4 SPEHQCDVLIIGSGAAGLSLALRLAEH-RRVAVLSKGPLSEGSTFYAQGGI--------- 53
Query: 159 KLMHQAALLGEA------IKDAVAYGWEIPNVKSVQHNWANLREAVQ 199
AA+L E ++D + G + + +V+ N REAVQ
Sbjct: 54 -----AAVLDETDSIESHVEDTLIAGAGLCDEDAVRFIAENAREAVQ 95
>gnl|CDD|233702 TIGR02061, aprA, adenosine phosphosulphate reductase, alpha
subunit. During dissimilatory sulfate reduction or
sulfur oxidation, adenylylsulfate (APS) reductase
catalyzes reversibly the two-electron reduction of APS
to sulfite and AMP. Found in several bacterial lineages
and in Archaeoglobales, APS reductase is a heterodimer
composed of an alpha subunit containing a noncovalently
bound FAD, and a beta subunit containing two [4Fe-4S]
clusters. Described by this model is the alpha subunit
of APS reductase, sharing common evolutionary origin
with fumarate reductase/succinate dehydrogenase
flavoproteins [Central intermediary metabolism, Sulfur
metabolism].
Length = 614
Score = 30.6 bits (69), Expect = 1.3
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 105 DLLVLGGGSGGLAAAKEAA----AHGRKVIVLD 133
DLL++GGG GG AA EA G K+++++
Sbjct: 1 DLLIVGGGMGGCGAAFEAVYWGDKKGLKIVLVE 33
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 30.6 bits (70), Expect = 1.3
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
LV G G G A AK AA G V++ D
Sbjct: 426 LVTGAAGGIGKATAKRLAAEGACVVLAD 453
>gnl|CDD|180584 PRK06481, PRK06481, fumarate reductase flavoprotein subunit;
Validated.
Length = 506
Score = 30.2 bits (68), Expect = 1.4
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 99 THKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
K YD++++G G G++AA EA G ++L+
Sbjct: 57 ELKDKYDIVIVGAGGAGMSAAIEAKDAGMNPVILE 91
>gnl|CDD|235967 PRK07208, PRK07208, hypothetical protein; Provisional.
Length = 479
Score = 30.2 bits (69), Expect = 1.4
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+++G G GL AA E G V VL+
Sbjct: 8 VIIGAGPAGLTAAYELLKRGYPVTVLE 34
>gnl|CDD|215527 PLN02976, PLN02976, amine oxidase.
Length = 1713
Score = 30.6 bits (69), Expect = 1.4
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 4/66 (6%)
Query: 72 LPLSVTKLADGKLKVQYKNVAEVRQDNTHKYDYD----LLVLGGGSGGLAAAKEAAAHGR 127
L + +L + VQ + E+ ++ D ++V+G G GL AA+ G
Sbjct: 658 LSVIKPELRNELQSVQSNSCIEMGGNHCVLCDSVDRKKIIVVGAGPAGLTAARHLQRQGF 717
Query: 128 KVIVLD 133
V VL+
Sbjct: 718 SVTVLE 723
>gnl|CDD|240976 cd12532, RRM3_MEI2_fungi, RNA recognition motif 3 in fungal
Mei2-like proteins. This subgroup corresponds to the
RRM3 of fungal Mei2-like proteins. The Mei2 protein is
an essential component of the switch from mitotic to
meiotic growth in the fission yeast Schizosaccharomyces
pombe. It is an RNA-binding protein that contains three
RNA recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains).
In the nucleus, S. pombe Mei2 stimulates meiosis upon
binding a specific non-coding RNA through its
C-terminal RRM motif. .
Length = 90
Score = 28.3 bits (63), Expect = 1.4
Identities = 11/33 (33%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 37 TVMIRSVPLRGFDQQMAKLICEEMAEGGVHFLH 69
TVM++++P + F QQM + +E G F++
Sbjct: 3 TVMLKNIPNK-FTQQMLRKYIDETNPGTYDFMY 34
>gnl|CDD|235704 PRK06126, PRK06126, hypothetical protein; Provisional.
Length = 545
Score = 30.3 bits (69), Expect = 1.5
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYV---IPSPQGTT 143
+ +L++GGG GLA A + G I+++ +P+ T
Sbjct: 6 SETPVLIVGGGPVGLALALDLGRRGVDSILVERKDGTAFNPKANT 50
>gnl|CDD|178144 PLN02529, PLN02529, lysine-specific histone demethylase 1.
Length = 738
Score = 30.2 bits (68), Expect = 1.5
Identities = 12/28 (42%), Positives = 21/28 (75%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
++++G G GLAAA++ + G KV+VL+
Sbjct: 163 VIIVGAGLAGLAAARQLLSFGFKVVVLE 190
>gnl|CDD|178267 PLN02661, PLN02661, Putative thiazole synthesis.
Length = 357
Score = 30.2 bits (68), Expect = 1.6
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 13/67 (19%)
Query: 92 AEVRQDNTHKY--------DYDLLVLGGGSGGLAAAKE--AAAHGRKVIVLDYVIPSPQG 141
+ V ++ T +Y D D++++G GS GL+ A E + + I+ V SP G
Sbjct: 73 SIVSREMTRRYMTDMITYADTDVVIVGAGSAGLSCAYELSKNPNVKVAIIEQSV--SPGG 130
Query: 142 TTWGLGG 148
W LGG
Sbjct: 131 GAW-LGG 136
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 29.5 bits (67), Expect = 2.2
Identities = 14/27 (51%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVL 132
LV G G G G AA A HG VI+L
Sbjct: 16 LVTGAGDGIGREAALTYARHGATVILL 42
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins of
undetermined function. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
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 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 prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) 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. 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 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.
Length = 198
Score = 29.1 bits (66), Expect = 2.2
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIV 131
+V+G GLA A+ +AHG +VI
Sbjct: 2 IVIGATGTIGLAVAQLLSAHGHEVIT 27
>gnl|CDD|204097 pfam08926, DUF1908, Domain of unknown function (DUF1908). This
domain is found in a set of hypothetical/structural
eukaryotic proteins.
Length = 282
Score = 29.5 bits (66), Expect = 2.3
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 59 EMAEGGVHFLHKCLPLSVTKLADGKLKVQYKNVAEVRQDNTHK 101
+M E F+ + P S LADG L + V E+ +D K
Sbjct: 136 QMEERLQDFIAEFKPCSSLPLADGVLGFIHHQVVELARDCLDK 178
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 29.5 bits (67), Expect = 2.3
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 105 DLLVLGGGSG-GLAAAKEAAAHGRKVIV 131
+LV G GSG G AA + A G VI
Sbjct: 169 TVLVHGAGSGVGSAAIQIAKLFGATVIA 196
>gnl|CDD|130341 TIGR01274, ACC_deam, 1-aminocyclopropane-1-carboxylate deaminase.
This pyridoxal phosphate-dependent enzyme degrades
1-aminocyclopropane-1-carboxylate, which in plants is a
precursor of the ripening hormone ethylene, to ammonia
and alpha-ketoglutarate. This model includes all members
of this family for which function has been demonstrated
experimentally, but excludes a closely related family
often annotated as putative members of this family
[Central intermediary metabolism, Other].
Length = 337
Score = 29.4 bits (66), Expect = 2.3
Identities = 38/147 (25%), Positives = 59/147 (40%), Gaps = 33/147 (22%)
Query: 126 GRKVIVLDYVIPS--PQGTTWGLGGTCVNVGCIPKKLMHQ-AALLGEAIKDAVAYGWEIP 182
G K L+Y+IP QG T T V++G I Q AA+ V
Sbjct: 48 GNKTRKLEYLIPDAQAQGCT-----TLVSIGGIQSNQTRQVAAVAAHLGMKCVL------ 96
Query: 183 NVKSVQHNWANLREAVQNHVKSVNWVTRVMLRDKKVDYLNALGKFIDQHSVEATMKNGEK 242
VQ NW N +AV + V ++ ++R+M D ++ D + +N +
Sbjct: 97 ----VQENWVNYSDAVYDRVGNIQ-LSRIMGADVRL----------DPDGFDIGHRNSWE 141
Query: 243 KTLTAENILIATGGRPNYPDIPGAKEH 269
+ L + GG+P YP G +H
Sbjct: 142 RALEE---VRGAGGKP-YPIPAGCSDH 164
>gnl|CDD|233889 TIGR02485, CobZ_N-term, precorrin 3B synthase CobZ. CobZ is
essential for cobalamin biosynthesis (by knockout of the
R. capsulatus gene ) and is complemented by the
characterized precorrin 3B synthase CobG. The enzyme has
been shown to contain flavin, heme and Fe-S cluster
cofactors and is believed to require dioxygen as a
substrate. This model identifies the N-terminal portion
of the R. capsulatus gene which, in other species exists
as a separate protein. The C-terminal portion is
homologous to the 2-component signal transduction system
protein CitB (TIGR02484) [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 432
Score = 29.5 bits (66), Expect = 2.5
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQG 141
V+GGG GL AA EAA G V++L+ + +G
Sbjct: 1 VIGGGLAGLCAAIEAARAGASVLLLEAAPRARRG 34
>gnl|CDD|223842 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell
envelope biogenesis, outer membrane].
Length = 448
Score = 29.6 bits (67), Expect = 2.6
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
LVLG G GLAAA+ G +V V D
Sbjct: 11 LVLGLGKSGLAAARFLLKLGAEVTVSD 37
>gnl|CDD|129242 TIGR00136, gidA, glucose-inhibited division protein A. GidA, the
longer of two forms of GidA-related proteins, appears to
be present in all complete eubacterial genomes so far,
as well as Saccharomyces cerevisiae. A subset of these
organisms have a closely related protein. GidA is absent
in the Archaea. It appears to act with MnmE, in an
alpha2/beta2 heterotetramer, in the
5-carboxymethylaminomethyl modification of uridine 34 in
certain tRNAs. The shorter, related protein, previously
called gid or gidA(S), is now called TrmFO (see model
TIGR00137) [Protein synthesis, tRNA and rRNA base
modification].
Length = 617
Score = 29.6 bits (67), Expect = 2.6
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
+D++V+GGG G AA AA G K ++L
Sbjct: 1 FDVIVIGGGHAGCEAALAAARMGAKTLLL 29
>gnl|CDD|237740 PRK14511, PRK14511, maltooligosyl trehalose synthase; Provisional.
Length = 879
Score = 29.6 bits (67), Expect = 2.6
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 11/56 (19%)
Query: 99 THKYD---YDLL--VLGGGSGGLAAAKEAAAHGRKVIVLDYV-----IPSPQGTTW 144
TH YD + + LGG G A AHG +I LD V + P W
Sbjct: 50 THGYDVVDHTRINPELGGEEGLRRLAAALRAHGMGLI-LDIVPNHMAVGGPDNPWW 104
>gnl|CDD|223522 COG0445, GidA, Flavin-dependent tRNA uridine
5-carboxymethylaminomethyl modification enzyme GidA
[Cell cycle control, cell division, chromosome
partitioning].
Length = 621
Score = 29.4 bits (67), Expect = 2.7
Identities = 14/30 (46%), Positives = 21/30 (70%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
+YD++V+GGG G+ AA AA G K ++L
Sbjct: 4 EYDVIVIGGGHAGVEAALAAARMGAKTLLL 33
>gnl|CDD|180935 PRK07333, PRK07333, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Provisional.
Length = 403
Score = 29.2 bits (66), Expect = 2.7
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 7/42 (16%)
Query: 104 YDLLVLGGGSGGLAAA---KEAAAHGRKVIVLDYVIPSPQGT 142
D+++ GGG GLA A K+AA H V V+D +P G
Sbjct: 2 CDVVIAGGGYVGLALAVALKQAAPH-LPVTVVD---AAPAGA 39
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 239
Score = 29.1 bits (66), Expect = 2.7
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVL 132
L+ GG SG G A AKE G VI++
Sbjct: 5 LITGGSSGIGKALAKELVKEGANVIIV 31
>gnl|CDD|223108 COG0029, NadB, Aspartate oxidase [Coenzyme metabolism].
Length = 518
Score = 29.5 bits (67), Expect = 2.8
Identities = 42/208 (20%), Positives = 70/208 (33%), Gaps = 64/208 (30%)
Query: 98 NTHKYDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTT---WGLGGTCVNVG 154
NT D+L++G G GL AA + A +V VL P G + W GG +
Sbjct: 2 NTDFEHPDVLIIGSGLAGLTAAL-SLAPSFRVTVLT---KGPLGESSSYWAQGGIAAALS 57
Query: 155 -------------------CIPK---KLMHQAALLGEAIKDAVAYGWEIPNVKSVQHNWA 192
C + ++ +A EAI+ + G +P +
Sbjct: 58 EDDSPELHVADTLAAGAGLCDEEAVEFIVSEAP---EAIEWLIDLG--VPFDRDEDGRLH 112
Query: 193 NLRE---------------------AVQNHVK---SVNWVTRVMLRDKKVDYLNALGKFI 228
RE A+ V+ ++ + D ++ G +
Sbjct: 113 LTREGGHSRRRILHAADATGKEIMTALLKKVRNRPNITVLEGAEALDLIIED----GIGV 168
Query: 229 DQHSVEATMKNGEKKTLTAENILIATGG 256
V +NGE T A+ +++ATGG
Sbjct: 169 A--GVLVLNRNGELGTFRAKAVVLATGG 194
>gnl|CDD|235689 PRK06069, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 577
Score = 29.3 bits (66), Expect = 2.8
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKVI 130
YD++++G G GL AA AA +
Sbjct: 6 YDVVIVGSGLAGLRAAVAAAERSGGKL 32
>gnl|CDD|188511 TIGR03996, mycofact_OYE_1, mycofactocin system FadH/OYE family
oxidoreductase 1. The yeast protein called old yellow
enzyme and FadH from Escherichia coli (2,4-dienoyl CoA
reductase) are enzymes with 4Fe-4S, FMN, and FAD
prosthetic groups, and interact with NADPH as well as
substrate. Members of this related protein family occur
in the vicinity of the putative mycofactocin
biosynthesis operon in a number of Actinobacteria such
as Frankia sp. and Rhodococcus sp. The function of this
oxidoreductase is unknown.
Length = 633
Score = 29.5 bits (66), Expect = 2.9
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKV 129
D+LV+GGG GL AA+ AA G +V
Sbjct: 374 DVLVVGGGPAGLEAARVLAARGHRV 398
>gnl|CDD|153113 cd01055, Nonheme_Ferritin, nonheme-containing ferritins. Nonheme
Ferritin domain, found in archaea and bacteria, is a
member of a broad superfamily of ferritin-like
diiron-carboxylate proteins. The ferritin protein shell
is composed of 24 protein subunits arranged in 432
symmetry. Each protein subunit, a four-helix bundle with
a fifth short terminal helix, contains a dinuclear
ferroxidase center (H type). Unique to this group of
proteins is a third metal site in the ferroxidase
center. Iron storage involves the uptake of iron (II) at
the protein shell, its oxidation by molecular oxygen at
the ferroxidase centers, and the movement of iron (III)
into the cavity for deposition as ferrihydrite.
Length = 156
Score = 28.6 bits (65), Expect = 2.9
Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 12/70 (17%)
Query: 180 EIPNVKSVQHNWANLREAVQN------HV-KSVNWVTRVMLRDKKVDY--LNALGKFID- 229
E+P +++ + +L E + V +S+N + + L +K DY N L F+
Sbjct: 67 ELPAIEAPPSEFESLLEVFEAALEHEQKVTESINNLVDLALEEK--DYATFNFLQWFVKE 124
Query: 230 QHSVEATMKN 239
Q EA ++
Sbjct: 125 QVEEEALARD 134
>gnl|CDD|233018 TIGR00551, nadB, L-aspartate oxidase. L-aspartate oxidase is the B
protein, NadB, of the quinolinate synthetase complex.
Quinolinate synthetase makes a precursor of the pyridine
nucleotide portion of NAD. This model identifies
proteins that cluster as L-aspartate oxidase (a
flavoprotein difficult to separate from the set of
closely related flavoprotein subunits of succinate
dehydrogenase and fumarate reductase) by both UPGMA and
neighbor-joining trees. The most distant protein
accepted as an L-aspartate oxidase (NadB), that from
Pyrococcus horikoshii, not only clusters with other NadB
but is just one gene away from NadA [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 488
Score = 29.4 bits (66), Expect = 3.0
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIV 131
D++V+G G+ GL+AA A GR +++
Sbjct: 4 DVVVIGSGAAGLSAALALADQGRVIVL 30
>gnl|CDD|183292 PRK11728, PRK11728, hydroxyglutarate oxidase; Provisional.
Length = 393
Score = 29.0 bits (66), Expect = 3.1
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 102 YDYDLLVLGGGSGGLAAAKE--AAAHGRKVIVLD 133
YD +++GGG GL+ A + G ++ VL+
Sbjct: 1 AMYDFVIIGGGIVGLSTAMQLQERYPGARIAVLE 34
>gnl|CDD|236967 PRK11749, PRK11749, dihydropyrimidine dehydrogenase subunit A;
Provisional.
Length = 457
Score = 29.0 bits (66), Expect = 3.3
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLD 133
V+G G GL AA A G V + +
Sbjct: 145 VIGAGPAGLTAAHRLARKGYDVTIFE 170
>gnl|CDD|215375 PLN02697, PLN02697, lycopene epsilon cyclase.
Length = 529
Score = 29.0 bits (65), Expect = 3.3
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKV 129
DL+V+G G GLA A E+A G V
Sbjct: 110 DLVVIGCGPAGLALAAESAKLGLNV 134
>gnl|CDD|237279 PRK13030, PRK13030, 2-oxoacid ferredoxin oxidoreductase;
Provisional.
Length = 1159
Score = 29.2 bits (66), Expect = 3.3
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 9/47 (19%)
Query: 22 GLECAGFLNGLGFNATVMIRSVPLRGFDQQMAKLICEEMAEGGVHFL 68
GL AGF++G R PL G DQ + K + + + FL
Sbjct: 41 GLNTAGFVSGY--------RGSPLGGVDQALWK-AKKLLDASDIRFL 78
>gnl|CDD|237222 PRK12837, PRK12837, 3-ketosteroid-delta-1-dehydrogenase;
Provisional.
Length = 513
Score = 29.0 bits (65), Expect = 3.5
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMH 162
+ D+LV G G GG+A A AA G V +++ GTT GG + C P +
Sbjct: 7 EVDVLVAGSG-GGVAGAYTAAREGLSVALVE-ATDKFGGTTAYSGGGGMWFPCNP---VL 61
Query: 163 QAALLGEAIKDAVAY 177
+ A + I+DA+ Y
Sbjct: 62 RRAGTDDTIEDALEY 76
>gnl|CDD|184785 PRK14668, uvrC, excinuclease ABC subunit C; Provisional.
Length = 577
Score = 29.0 bits (65), Expect = 3.5
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAA 124
D DLL++ GG G L AA++A A
Sbjct: 443 DPDLLLIDGGDGQLGAARDALA 464
>gnl|CDD|234995 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 498
Score = 28.9 bits (65), Expect = 3.6
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
LVLG G GLA A+ A HG ++ V D
Sbjct: 11 LVLGLGESGLAMARWCARHGARLRVAD 37
>gnl|CDD|183857 PRK13057, PRK13057, putative lipid kinase; Reviewed.
Length = 287
Score = 28.7 bits (65), Expect = 3.7
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 100 HKYDYDLLVLGGGSGGLAAA 119
+ DL+++GGG G L AA
Sbjct: 47 YADGVDLVIVGGGDGTLNAA 66
>gnl|CDD|215187 PLN02328, PLN02328, lysine-specific histone demethylase 1 homolog.
Length = 808
Score = 28.8 bits (64), Expect = 4.1
Identities = 12/29 (41%), Positives = 21/29 (72%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+++V+G G GL AA++ + G KV+VL+
Sbjct: 240 NVVVVGAGLAGLVAARQLLSMGFKVVVLE 268
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
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 a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an 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 (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. 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
and Lys, as well as Asn (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 = 248
Score = 28.5 bits (64), Expect = 4.3
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
+V G GSG G A+ A G +V++ D
Sbjct: 9 IVTGAGSGFGEGIARRFAQEGARVVIAD 36
>gnl|CDD|187600 cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs. This subgroup
includes members identified as 3beta17beta
hydroxysteroid dehydrogenase, 20beta hydroxysteroid
dehydrogenase, and R-alcohol dehydrogenase. These
proteins exhibit the canonical active site tetrad and
glycine rich NAD(P)-binding motif of the classical SDRs.
17beta-dehydrogenases are a group of isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an 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
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. 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 and Lys, as
well as Asn (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 = 247
Score = 28.5 bits (64), Expect = 4.3
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
+V GG G GLA A+ A G KV++ D
Sbjct: 9 IVTGGARGLGLAHARLLVAEGAKVVLSD 36
>gnl|CDD|238242 cd00423, Pterin_binding, Pterin binding enzymes. This family
includes dihydropteroate synthase (DHPS) and
cobalamin-dependent methyltransferases such as
methyltetrahydrofolate, corrinoid iron-sulfur protein
methyltransferase (MeTr) and methionine synthase (MetH).
DHPS, a functional homodimer, catalyzes the
condensation of p-aminobenzoic acid (pABA) in the de
novo biosynthesis of folate, which is an essential
cofactor in both nucleic acid and protein biosynthesis.
Prokaryotes (and some lower eukaryotes) must synthesize
folate de novo, while higher eukaryotes are able to
utilize dietary folate and therefore lack DHPS.
Sulfonamide drugs, which are substrate analogs of pABA,
target DHPS. 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 = 258
Score = 28.4 bits (64), Expect = 4.4
Identities = 22/94 (23%), Positives = 32/94 (34%), Gaps = 18/94 (19%)
Query: 111 GGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALLGEA 170
GG G A AA +G V+++ G T N + L E
Sbjct: 105 GGRGDPEMAPLAAEYGAPVVLM---------HMDGTPQTMQNNPYYADVVDEVVEFLEER 155
Query: 171 IKDAVAYG---WEI---PN---VKSVQHNWANLR 195
++ A G +I P K+ +HN LR
Sbjct: 156 VEAATEAGIPPEDIILDPGIGFGKTEEHNLELLR 189
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 28.6 bits (64), Expect = 4.4
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 106 LLVLGGGSG-GLAAAKEAAAHGRKVIV 131
+L+ G SG G AAA++ A G V+
Sbjct: 43 ILLTGASSGIGEAAAEQFARRGATVVA 69
>gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 450
Score = 28.8 bits (65), Expect = 4.5
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
LV+G G GLA AK G KVI+ D
Sbjct: 9 LVVGAGVSGLALAKFLKKLGAKVILTD 35
>gnl|CDD|224152 COG1231, COG1231, Monoamine oxidase [Amino acid transport and
metabolism].
Length = 450
Score = 28.6 bits (64), Expect = 4.6
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVL 132
D++++G G GL+AA E G +V +L
Sbjct: 9 DVIIVGAGLAGLSAAYELKKAGYQVQIL 36
>gnl|CDD|235059 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 459
Score = 28.7 bits (65), Expect = 4.6
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 107 LVLGGGSGGLAAAKEAAAHGRKVIVLD 133
V+G G G+AAA+ A G +V+V D
Sbjct: 4 HVIGLGRSGIAAARLLKAQGWEVVVSD 30
>gnl|CDD|176470 cd01598, PurB, PurB_like adenylosuccinases (adenylsuccinate lyase,
ASL). This subgroup contains EcASL, the product of the
purB gene in Escherichia coli, and related proteins. It
is a member of the Lyase class I family of the Lyase_I
superfamily. Members of the Lyase class I family
function as homotetramers to catalyze similar
beta-elimination reactions in which a Calpha-N or
Calpha-O bond is cleaved with the subsequent release of
fumarate as one of the products. The four active sites
of the homotetrameric enzyme are each formed by residues
from three different subunits. ASL catalyzes two
non-sequential steps in the de novo purine biosynthesis
pathway: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and; the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP).
Length = 425
Score = 28.4 bits (64), Expect = 4.8
Identities = 17/68 (25%), Positives = 24/68 (35%), Gaps = 9/68 (13%)
Query: 188 QHNWANLREAVQ------NHVKSVNWVTRVMLRDKKVDYLNALGKFIDQHSVEATMKNGE 241
NW L E +Q + + R K++D L +FID + K E
Sbjct: 357 DANWEVLAEPIQTVMRRYGIPNPYEKLKDLT-RGKRID-KETLKEFIDSLDIPEEAKA-E 413
Query: 242 KKTLTAEN 249
LT N
Sbjct: 414 LLALTPAN 421
>gnl|CDD|237197 PRK12770, PRK12770, putative glutamate synthase subunit beta;
Provisional.
Length = 352
Score = 28.4 bits (64), Expect = 4.9
Identities = 50/207 (24%), Positives = 68/207 (32%), Gaps = 68/207 (32%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIPKKLMHQAALL 167
++G G GLAAA A G +V V D +P P G + IP
Sbjct: 23 IIGAGPAGLAAAGYLACLGYEVHVYD-KLPEPGGLM---------LFGIP---------- 62
Query: 168 GEAIKDAVAYGWEIPNVKSVQHNWANLREAVQNHV-KSVNWVTRVMLRDKKVDYLNALGK 226
+ IP +RE V+ V + TR KV L +
Sbjct: 63 ----------EFRIP--------IERVREGVKELEEAGVVFHTRT-----KVCCGEPLHE 99
Query: 227 FIDQHSVEATMKNGE-KKTLTAENILIATGG-RPNYPDIPG------------------A 266
VE + E K A +LIATG + IPG A
Sbjct: 100 EEGDEFVERIVSLEELVKKYDA--VLIATGTWKSRKLGIPGEDLPGVYSALEYLFRIRAA 157
Query: 267 KEHCISSDDIFSLEKPPGKTLVVGAGY 293
K + + + +E K +VVGAG
Sbjct: 158 KLGYLPWEKVPPVEG--KKVVVVGAGL 182
>gnl|CDD|215257 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 28.6 bits (64), Expect = 5.0
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 104 YDLLVLGGGSGGLAAAKEAAAHGRKV 129
D+LV+GGG+ G A +AA G +V
Sbjct: 72 LDVLVVGGGATGAGVALDAATRGLRV 97
>gnl|CDD|201664 pfam01210, NAD_Gly3P_dh_N, NAD-dependent glycerol-3-phosphate
dehydrogenase N-terminus. NAD-dependent
glycerol-3-phosphate dehydrogenase (GPDH) catalyzes the
interconversion of dihydroxyacetone phosphate and
L-glycerol-3-phosphate. This family represents the
N-terminal NAD-binding domain.
Length = 157
Score = 27.6 bits (62), Expect = 5.1
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIV 131
VLG GS G A AK A +G +V +
Sbjct: 4 VLGAGSWGTALAKVLARNGHEVRL 27
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 28.3 bits (64), Expect = 5.1
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 108 VLGGGSG-GLAAAKEAAAHGRKVIVL 132
+ G +G G A A+ A G KV++L
Sbjct: 13 ITGASAGVGRATARAFARRGAKVVLL 38
>gnl|CDD|236199 PRK08244, PRK08244, hypothetical protein; Provisional.
Length = 493
Score = 28.6 bits (64), Expect = 5.4
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
Y+++++GGG GL A E A G K V++
Sbjct: 2 KYEVIIIGGGPVGLMLASELALAGVKTCVIE 32
>gnl|CDD|177739 PLN00128, PLN00128, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit.
Length = 635
Score = 28.3 bits (63), Expect = 5.6
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 102 YDYDLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGG 148
+ YD +V+G G GL AA + HG + + P+ T GG
Sbjct: 49 HTYDAVVVGAGGAGLRAAIGLSEHGFNTACITKLFPTRSHTVAAQGG 95
>gnl|CDD|223758 COG0686, Ald, Alanine dehydrogenase [Amino acid transport and
metabolism].
Length = 371
Score = 28.5 bits (64), Expect = 5.6
Identities = 15/30 (50%), Positives = 16/30 (53%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIP 137
VLGGG G AAK A G V +LD I
Sbjct: 173 VLGGGVVGTNAAKIAIGLGADVTILDLNID 202
>gnl|CDD|216319 pfam01134, GIDA, Glucose inhibited division protein A.
Length = 391
Score = 28.3 bits (64), Expect = 5.6
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 11/53 (20%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQGTTWGLGGTCVNVGCIP 157
D++V+GGG G AA AA G KV+++ T + C P
Sbjct: 1 DVIVIGGGHAGCEAALAAARMGAKVLLIT-----------HNTDTIAELSCNP 42
>gnl|CDD|185214 PRK15314, PRK15314, outer membrane protein RatB; Provisional.
Length = 2435
Score = 28.7 bits (63), Expect = 6.1
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 283 PGKTLVVGAGYIGKLETW----------DSNSGCGNVTI 311
PGKTL + GY K ETW + GCG T+
Sbjct: 1457 PGKTLTIANGYYDKGETWGMITVDKAWNGTGGGCGRDTL 1495
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 228
Score = 27.7 bits (62), Expect = 6.3
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIV 131
L+ GG SG GLA A++ G VI+
Sbjct: 9 LITGGTSGIGLALARKFLEAGNTVII 34
>gnl|CDD|236630 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 28.4 bits (64), Expect = 6.4
Identities = 14/41 (34%), Positives = 17/41 (41%), Gaps = 10/41 (24%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLD----------YVIPS 138
V+G G GLAAA A G V V + +IP
Sbjct: 544 VIGAGPAGLAAAYFLARAGHPVTVFEREENAGGVVKNIIPQ 584
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 257
Score = 27.9 bits (62), Expect = 6.5
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 103 DYDLLVLGGGSG-GLAAAKEAAAHGRKVIVLDY 134
D +L+ GGGSG GLA A A G K+ ++D
Sbjct: 3 DKVVLITGGGSGLGLATAVRLAKEGAKLSLVDL 35
>gnl|CDD|130383 TIGR01316, gltA, glutamate synthase (NADPH), homotetrameric. This
protein is homologous to the small subunit of NADPH and
NADH forms of glutamate synthase as found in eukaryotes
and some bacteria. This protein is found in numerous
species having no homolog of the glutamate synthase
large subunit. The prototype of the family, from
Pyrococcus sp. KOD1, was shown to be active as a
homotetramer and to require NADPH [Amino acid
biosynthesis, Glutamate family].
Length = 449
Score = 28.3 bits (63), Expect = 6.6
Identities = 28/94 (29%), Positives = 35/94 (37%), Gaps = 19/94 (20%)
Query: 57 CEEMAEGGVHFLHKCLPLSVTKL----AD-----GKLKVQYKNVAEVRQDNTHKYDYDLL 107
CE G F P+S+ L AD G K +THK +
Sbjct: 87 CEGQCTVGKMFKDVGKPVSIGALERFVADWERQHGIETEPEK------APSTHK---KVA 137
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLDYVIPSPQG 141
V+G G GLA A E A G V V + + P G
Sbjct: 138 VIGAGPAGLACASELAKAGHSVTVFE-ALHKPGG 170
>gnl|CDD|107302 cd06307, PBP1_uncharacterized_sugar_binding, Periplasmic
sugar-binding domain of uncharacterized transport
systems. Periplasmic sugar-binding domain of
uncharacterized transport systems that share homology
with a family of pentose/hexose sugar-binding proteins
of the type I periplasmic binding protein (PBP1)
superfamily. The members of this group are predicted to
be involved in the transport of sugar-containing
molecules across cellular and organellar membranes.
Length = 275
Score = 27.9 bits (63), Expect = 6.7
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIV 131
GGG+ G+ A A KV+
Sbjct: 192 NAGGGNRGVIRALREAGRAGKVVF 215
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14, dehydrogenase/reductase
SDR family member (DHRS)-12 , -13 and -X (a DHRS on
chromosome X), and WWOX (WW domain-containing
oxidoreductase), as well as a Neurospora crassa SDR
encoded by the blue light inducible bli-4 gene. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an 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 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 (15-PGDH)
numbering). 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) 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. 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 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.
Length = 269
Score = 28.0 bits (63), Expect = 6.9
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVL 132
++ G SG G A+E A G VI+
Sbjct: 5 VITGANSGIGKETARELAKRGAHVIIA 31
>gnl|CDD|170080 PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin
reductase subunit; Provisional.
Length = 396
Score = 28.0 bits (62), Expect = 7.1
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 234 EATMKNGEKKTLTAENILIATGGRPN-YPDIPGAKEHCIS---SDDIFSLE---KPPGKT 286
E + NGE + + IATG P + E C + + D L +P
Sbjct: 90 ELVLTNGES--WHWDQLFIATGAAARPLPLLDALGERCFTLRHAGDAARLREVLQPERSV 147
Query: 287 LVVGAGYIG-KLETWDSNSGCGNVTI 311
++VGAG IG +L + C VT+
Sbjct: 148 VIVGAGTIGLELAASATQRRC-KVTV 172
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 27.8 bits (62), Expect = 7.4
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLDY 134
LV G G G G A AK G KV ++DY
Sbjct: 6 LVTGAGQGIGFAIAKRLVEDGFKVAIVDY 34
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 27.1 bits (61), Expect = 7.6
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLD 133
L+ GG G GLA A+ AA G + +VL
Sbjct: 4 LITGGTGGLGLALARWLAAEGARHLVLV 31
>gnl|CDD|215116 PLN02172, PLN02172, flavin-containing monooxygenase FMO GS-OX.
Length = 461
Score = 27.9 bits (62), Expect = 7.6
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 108 VLGGGSGGLAAAKEAAAHGRKVIVLD 133
V+G G+ GL AA+E G V+V +
Sbjct: 15 VIGAGAAGLVAARELRREGHTVVVFE 40
>gnl|CDD|216593 pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase.
This family consists of various amine oxidases,
including maze polyamine oxidase (PAO) and various
flavin containing monoamine oxidases (MAO). The aligned
region includes the flavin binding site of these
enzymes. The family also contains phytoene
dehydrogenases and related enzymes. In vertebrates MAO
plays an important role regulating the intracellular
levels of amines via there oxidation; these include
various neurotransmitters, neurotoxins and trace amines.
In lower eukaryotes such as aspergillus and in bacteria
the main role of amine oxidases is to provide a source
of ammonium. PAOs in plants, bacteria and protozoa
oxidase spermidine and spermine to an aminobutyral,
diaminopropane and hydrogen peroxide and are involved in
the catabolism of polyamines. Other members of this
family include tryptophan 2-monooxygenase, putrescine
oxidase, corticosteroid binding proteins and
antibacterial glycoproteins.
Length = 444
Score = 27.9 bits (62), Expect = 8.2
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 115 GLAAAKEAAAHGRKVIVL 132
GLAAA+E G V VL
Sbjct: 3 GLAAARELLRAGFDVTVL 20
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 27.6 bits (62), Expect = 8.4
Identities = 15/28 (53%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 108 VLGGGSGGL--AAAKEAAAHGRKVIVLD 133
V+ GG G L A AKE A G KV +LD
Sbjct: 14 VITGGGGVLGGAMAKELARAGAKVAILD 41
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 27.7 bits (62), Expect = 8.7
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 108 VLGGGSG-GLAAAKEAAAHGRKVIVLD 133
+ G SG GLA A+ AA G K+++ D
Sbjct: 11 ITGAASGFGLAFARIGAALGMKLVLAD 37
>gnl|CDD|201049 pfam00164, Ribosomal_S12, Ribosomal protein S12.
Length = 122
Score = 26.5 bits (59), Expect = 8.8
Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 21/66 (31%)
Query: 208 VTRVMLRDKKV--DYLNALGKFIDQHSVEATMKNGEKKTLTAENILIATGGRPNYPDIPG 265
V RV L + K Y+ G + +HS +LI G D+PG
Sbjct: 51 VARVRLINGKEVTAYIPGDGHNLQEHSE----------------VLIRGGRVK---DLPG 91
Query: 266 AKEHCI 271
+ +
Sbjct: 92 VRYKVV 97
>gnl|CDD|237027 PRK12266, glpD, glycerol-3-phosphate dehydrogenase; Reviewed.
Length = 508
Score = 27.8 bits (63), Expect = 8.9
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 103 DYDLLVLGGGSGGLAAAKEAAAHGRKV 129
YDLLV+GGG G A++AA G V
Sbjct: 6 TYDLLVIGGGINGAGIARDAAGRGLSV 32
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
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 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 (15-PGDH) numbering). 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) 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. 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 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.
Length = 248
Score = 27.6 bits (62), Expect = 9.0
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVI 130
L+ G SG GLA A AA G +VI
Sbjct: 4 LITGCSSGIGLALALALAAQGYRVI 28
>gnl|CDD|225915 COG3380, COG3380, Predicted NAD/FAD-dependent oxidoreductase
[General function prediction only].
Length = 331
Score = 27.5 bits (61), Expect = 9.1
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+ ++G G GLAAA GR+V V +
Sbjct: 3 SIAIVGAGIAGLAAAYALREAGREVTVFE 31
>gnl|CDD|162827 TIGR02374, nitri_red_nirB, nitrite reductase [NAD(P)H], large
subunit. [Central intermediary metabolism, Nitrogen
metabolism].
Length = 785
Score = 27.9 bits (62), Expect = 9.2
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 7/61 (11%)
Query: 242 KKTLTAENILIATGGRPNYPDIPGA-KEHCI------SSDDIFSLEKPPGKTLVVGAGYI 294
+TL+ + +++ATG P IPGA K+ D I ++ + K V+G G +
Sbjct: 92 GRTLSYDKLILATGSYPFILPIPGADKKGVYVFRTIEDLDAIMAMAQRFKKAAVIGGGLL 151
Query: 295 G 295
G
Sbjct: 152 G 152
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 27.1 bits (61), Expect = 9.4
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVL 132
LV GG G GL A+ A G + +VL
Sbjct: 4 LVTGGLGGLGLELARWLAERGARHLVL 30
>gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 445
Score = 27.5 bits (61), Expect = 9.4
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 106 LLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+LV G G G++ +G +V D
Sbjct: 8 ILVAGLGGTGISMIAYLRKNGAEVAAYD 35
>gnl|CDD|217060 pfam02481, DNA_processg_A, DNA recombination-mediator protein A.
The SMF family, of DNA processing chain A, dprA, are a
group of bacterial proteins. In H. pylori, dprA is
required for natural chromosomal and plasmid
transformation. It has now been shown that DprA is found
to bind cooperatively to single-stranded DNA (ssDNA) and
to interact with RecA. In the process, DprA-RecA-ssDNA
filaments are produced and these filaments catalyze the
homology-dependent formation of joint molecules. While
the E.coli SSB protein limits access of RecA to ssDNA,
DprA alleviates this barrier. It is proposed that DprA
is a new member of the recombination-mediator protein
family, dedicated to natural bacterial transformation.
Length = 210
Score = 27.1 bits (61), Expect = 9.5
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 113 SGGLAAAKEAAAHGRKVIVLDYVIPSPQ 140
SG L A+ A GR V + I SPQ
Sbjct: 166 SGSLITARLALEQGRDVFAVPGPITSPQ 193
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 27.5 bits (62), Expect = 9.5
Identities = 14/26 (53%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 106 LLVLGGGSG-GLAAAKEAAAHGRKVI 130
+LVLG G GLAA + A A G +VI
Sbjct: 143 VLVLGAAGGVGLAAVQLAKALGARVI 168
>gnl|CDD|238631 cd01306, PhnM, PhnM is believed to be a subunit of the membrane
associated C-P lyase complex. C-P lyase is thought to
catalyze the direct cleavage of inactivated C-P bonds to
yield inorganic phosphate and the corresponding
hydrocarbons. It is responsible for cleavage of
alkylphosphonates, which are utilized as sole phosphorus
sources by many bacteria.
Length = 325
Score = 27.6 bits (62), Expect = 9.6
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 107 LVLGGGSGGLAAAKEAAAHGR-KVIVLDYVIPS 138
+V GG G +A+E AAHG ++ DYV S
Sbjct: 227 VVRGGSHSGNVSARELAAHGLLDILSSDYVPAS 259
>gnl|CDD|236046 PRK07538, PRK07538, hypothetical protein; Provisional.
Length = 413
Score = 27.6 bits (62), Expect = 9.6
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 105 DLLVLGGGSGGLAAAKEAAAHGRKVIVLD 133
+L+ GGG GGL A G +V+V +
Sbjct: 2 KVLIAGGGIGGLTLALTLHQRGIEVVVFE 30
>gnl|CDD|107250 cd01537, PBP1_Repressors_Sugar_Binding_like, Ligand-binding domain
of the LacI-GalR family of transcription regulators and
the sugar-binding domain of ABC-type transport systems.
Ligand-binding domain of the LacI-GalR family of
transcription regulators and the sugar-binding domain of
ABC-type transport systems, all of which contain the
type I periplasmic binding protein-like fold. Their
specific ligands include lactose, ribose, fructose,
xylose, arabinose, galactose/glucose, and other sugars.
The LacI family of proteins consists of transcriptional
regulators related to the lac repressor; in general the
sugar binding domain in this family binds a sugar, which
in turn changes the DNA binding activity of the
repressor domain. The core structure of the periplasmic
binding proteins is classified into two types and they
differ in number and order of beta strands in each
domain: type I, which has six beta strands, and type II,
which has five beta strands. These two distinct
structural arrangements may have originated from a
common ancestor.
Length = 264
Score = 27.3 bits (61), Expect = 9.6
Identities = 17/99 (17%), Positives = 28/99 (28%), Gaps = 14/99 (14%)
Query: 47 GFDQQMAKLICEEMAEGGVHFLHKCLPLSVTKLADGKLKVQYKNVAEVRQDNTHKYDYDL 106
F Q+ K I E G L + + Q + +N D
Sbjct: 12 PFFAQVLKGIEEAAKAAGYQVLLAN--------SQNDAEKQLSAL-----ENLIARGVDG 58
Query: 107 LVLGGGSG-GLAAAKEAAAHGRKVIVLDYVIPSPQGTTW 144
+++ K A G V+++D IP
Sbjct: 59 IIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPDGDRVPS 97
>gnl|CDD|234194 TIGR03389, laccase, laccase, plant. Members of this protein family
include the copper-containing enzyme laccase (EC
1.10.3.2), often several from a single plant species,
and additional, uncharacterized, closely related plant
proteins termed laccase-like multicopper oxidases. This
protein family shows considerable sequence similarity to
the L-ascorbate oxidase (EC 1.10.3.3) family. Laccases
are enzymes of rather broad specificity, and
classification of all proteins scoring about the trusted
cutoff of this model as laccases may be appropriate.
Length = 539
Score = 27.8 bits (62), Expect = 9.8
Identities = 19/51 (37%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 242 KKTLTAENILIATGGRPNYPD------IPGAKEHCISSDDIFSLEKPPGKT 286
N TGG PN D PG +C SS D F L PGKT
Sbjct: 147 ADVEAVINQANQTGGAPNVSDAYTINGHPGPLYNC-SSKDTFKLTVEPGKT 196
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 0.135 0.412
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,818,537
Number of extensions: 1511632
Number of successful extensions: 2377
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2267
Number of HSP's successfully gapped: 309
Length of query: 312
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 215
Effective length of database: 6,635,264
Effective search space: 1426581760
Effective search space used: 1426581760
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 (21.6 bits)
S2: 59 (26.3 bits)