RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16252
(545 letters)
>gnl|CDD|187547 cd05236, FAR-N_SDR_e, fatty acyl CoA reductases (FARs), extended
(e) SDRs. SDRs are Rossmann-fold NAD(P)H-binding
proteins, many of which may function as fatty acyl CoA
reductases (FAR), acting on medium and long chain fatty
acids, and have been reported to be involved in diverse
processes such as biosynthesis of insect pheromones,
plant cuticular wax production, and mammalian wax
biosynthesis. In Arabidopsis thaliana, proteins with
this particular architecture have also been identified
as the MALE STERILITY 2 (MS2) gene product, which is
implicated in male gametogenesis. Mutations in MS2
inhibit the synthesis of exine (sporopollenin),
rendering plants unable to reduce pollen wall fatty
acids to corresponding alcohols. This N-terminal domain
shares the catalytic triad (but not the upstream Asn)
and characteristic NADP-binding motif of the extended
SDR family. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 320
Score = 315 bits (809), Expect = e-104
Identities = 131/315 (41%), Positives = 184/315 (58%), Gaps = 20/315 (6%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGATGFLGK+L+EKLLRS P + IY+++R K QS ++R+ ++L F
Sbjct: 3 VLITGATGFLGKVLLEKLLRSCPDIGKIYLLIRGKSGQSAEERLRELL----KDKLFDRG 58
Query: 160 TSKES------------AQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTN 207
+ P+LGLS +D + + +VN++ HCAAT+ FDE L EA+ N
Sbjct: 59 RNLNPLFESKIVPIEGDLSEPNLGLSDEDLQTLIEEVNIIIHCAATVTFDERLDEALSIN 118
Query: 208 MCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDP 267
+ T +L+LAK+CK LK F +VSTA+ N R+ IEE +Y +L+ I +L +DD
Sbjct: 119 VLGTLRLLELAKRCKKLKAFVHVSTAYVNGDRQLIEEKVYPPPADPEKLIDILEL-MDDL 177
Query: 268 KYQETRERLSHENMNTYTLTKAAAEQLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDNL 327
+ + +L + NTYT TKA AE+L+ +E P+ I RPSIV +T KEP PGWIDN
Sbjct: 178 ELERATPKLLGGHPNTYTFTKALAERLVLKERGNLPLVIVRPSIVGATLKEPFPGWIDNF 237
Query: 328 YGPTGLVTGAQAGVVRTFLVDPDVKADIVPADLVVNALICAPWNGHERFHKDPSCLPIYN 387
GP GL G++RT DP+ ADI+P D+V NAL+ A R P L +Y+
Sbjct: 238 NGPDGLFLAYGKGILRTMNADPNAVADIIPVDVVANALLAAAAYSGVR---KPRELEVYH 294
Query: 388 YVNSKDNPLTWGEFI 402
+S NP TWGE
Sbjct: 295 CGSSDVNPFTWGEAE 309
Score = 78.1 bits (193), Expect = 7e-16
Identities = 26/48 (54%), Positives = 39/48 (81%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKML 65
+L+TGATGFLGK+L+EKLLRS P + IY+++R K QS ++R+ ++L
Sbjct: 3 VLITGATGFLGKVLLEKLLRSCPDIGKIYLLIRGKSGQSAEERLRELL 50
>gnl|CDD|219687 pfam07993, NAD_binding_4, Male sterility protein. This family
represents the C-terminal region of the male sterility
protein in a number of arabidopsis and drosophila. A
sequence-related jojoba acyl CoA reductase is also
included.
Length = 245
Score = 240 bits (614), Expect = 5e-76
Identities = 104/269 (38%), Positives = 140/269 (52%), Gaps = 31/269 (11%)
Query: 103 TGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCSTSK 162
TGATGFLGK+L+EKLLRS P VK IY +VRAK +S +R+ + L + + +
Sbjct: 2 TGATGFLGKVLLEKLLRSTPEVK-IYCLVRAKDGESALERLRQELLKYGLFDRLKAL-ER 59
Query: 163 ESA-----QAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDL 217
P+LGLS +D + + +V+++ H AAT+ F E + TN+ T+ +L L
Sbjct: 60 IIPVAGDLSEPNLGLSDEDFQELAEEVDVIIHNAATVNFVEPYSDLRATNVLGTREVLRL 119
Query: 218 AKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERLS 277
AKQ K F +VSTA+ N R E K KLD D+P
Sbjct: 120 AKQMKK-LPFHHVSTAYVNGERGG----------LLEE--KPYKLDEDEPALLGGLP--- 163
Query: 278 HENMNTYTLTKAAAEQLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDNLY-GPTGLVTG 336
N YT +K AEQL+ E A PV I+RPSI+ E GWI+ GP GL+ G
Sbjct: 164 ----NGYTQSKWLAEQLVREAAGGLPVVIYRPSIITG---ESRTGWINGDDFGPRGLLGG 216
Query: 337 AQAGVVRTFLVDPDVKADIVPADLVVNAL 365
A GV+ L DPD + D+VP D V NA+
Sbjct: 217 AGLGVLPDILGDPDARLDLVPVDYVANAI 245
Score = 70.7 bits (174), Expect = 1e-13
Identities = 28/59 (47%), Positives = 39/59 (66%), Gaps = 1/59 (1%)
Query: 21 TGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAIIELIRNRPN 79
TGATGFLGK+L+EKLLRS P VK IY +VRAK +S +R+ + L + + ++
Sbjct: 2 TGATGFLGKVLLEKLLRSTPEVK-IYCLVRAKDGESALERLRQELLKYGLFDRLKALER 59
>gnl|CDD|215279 PLN02503, PLN02503, fatty acyl-CoA reductase 2.
Length = 605
Score = 163 bits (414), Expect = 1e-43
Identities = 134/506 (26%), Positives = 211/506 (41%), Gaps = 113/506 (22%)
Query: 91 LDDFYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRI-DKMLDT 149
+ +F G L+TGATGFL K+LIEK+LR+ P V IY++++AK ++ +R+ ++++D
Sbjct: 113 IAEFLRGKNFLITGATGFLAKVLIEKILRTNPDVGKIYLLIKAKDKEAAIERLKNEVIDA 172
Query: 150 VAIS-LKFTCSTSKESAQA------------PDLGLSPDDKRLVTSKVNLVFHCAATLRF 196
L+ T S +S +LGL PD + +V+++ + AA F
Sbjct: 173 ELFKCLQETHGKSYQSFMLSKLVPVVGNVCESNLGLEPDLADEIAKEVDVIINSAANTTF 232
Query: 197 DEELKEAIRTNMCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNI-------------- 242
DE AI N ++ AK+CK LK+F VSTA+ N R+
Sbjct: 233 DERYDVAIDINTRGPCHLMSFAKKCKKLKLFLQVSTAYVNGQRQGRIMEKPFRMGDCIAR 292
Query: 243 EEIIYKAHTHYSELLKIS---KL-------DVDDPKYQETRERL------SHENMNTYTL 286
E I + H L I KL + + + L + +TY
Sbjct: 293 ELGISNSLPHNRPALDIEAEIKLALDSKRHGFQSNSFAQKMKDLGLERAKLYGWQDTYVF 352
Query: 287 TKAAAEQLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDN--------LYGPTGLVTGAQ 338
TKA E ++ PV I RPS++ STWK+P PGW++ LY G +TG
Sbjct: 353 TKAMGEMVINSMRGDIPVVIIRPSVIESTWKDPFPGWMEGNRMMDPIVLYYGKGQLTG-- 410
Query: 339 AGVVRTFLVDPDVKADIVPADLVVNALICA-PWNGHERFHKDPSCLPIYNYVNSKDNPLT 397
FL DP+ D+VPAD+VVNA + A +G + +Y +S NPL
Sbjct: 411 ------FLADPNGVLDVVPADMVVNATLAAMAKHGGAA----KPEINVYQIASSVVNPLV 460
Query: 398 WGEFIT------------KSLKEGVKIP-----------SSQTRTNLLQ----DGQGSVR 430
+ + S + +P SS + L G S
Sbjct: 461 FQDLARLLYEHYKSSPYMDSKGRPIHVPPMKLFSSMEDFSSHLWRDALLRSGLAGMSSSD 520
Query: 431 SRTIQ-YPGVGVGQLQRAVHVDPSTRGGPGSISVQYS--GPRLGRLSAREWEWDNSNVQS 487
+ Q + +++A ++ SI Y+ G R +DNSN Q
Sbjct: 521 RKLSQKLENICAKSVEQAKYL--------ASIYEPYTFYGGR----------FDNSNTQR 562
Query: 488 MWTLVPAGDRVRFPFNIRDLDWDDYL 513
+ + ++ F F++ +DW DY+
Sbjct: 563 LMERMSEEEKAEFGFDVGSIDWRDYI 588
Score = 59.1 bits (143), Expect = 3e-09
Identities = 25/60 (41%), Positives = 43/60 (71%), Gaps = 1/60 (1%)
Query: 9 LDDFYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRI-DKMLDT 67
+ +F G L+TGATGFL K+LIEK+LR+ P V IY++++AK ++ +R+ ++++D
Sbjct: 113 IAEFLRGKNFLITGATGFLAKVLIEKILRTNPDVGKIYLLIKAKDKEAAIERLKNEVIDA 172
>gnl|CDD|215538 PLN02996, PLN02996, fatty acyl-CoA reductase.
Length = 491
Score = 151 bits (383), Expect = 6e-40
Identities = 109/349 (31%), Positives = 167/349 (47%), Gaps = 48/349 (13%)
Query: 94 FYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQR-----IDKMLD 148
F E IL+TGATGFL K+ +EK+LR P VK +Y+++RA +S QR I K L
Sbjct: 8 FLENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRASDAKSATQRLHDEVIGKDLF 67
Query: 149 TV---AISLKFTCSTSKESAQAP------DLGLSPDDKR-LVTSKVNLVFHCAATLRFDE 198
V + S++ P DLG+ + R + ++++V + AAT FDE
Sbjct: 68 KVLREKLGENLNSLISEKVTPVPGDISYDDLGVKDSNLREEMWKEIDIVVNLAATTNFDE 127
Query: 199 ELKEAIRTNMCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLK 258
A+ N +L+ AK+C +KM +VSTA+ + +I + H E L
Sbjct: 128 RYDVALGINTLGALNVLNFAKKCVKVKMLLHVSTAYVCGEK---SGLILEKPFHMGETLN 184
Query: 259 -ISKLDVDDPK--YQETRERLSHENM-----------------------NTYTLTKAAAE 292
KLD+++ K +E + L+ ++ NTY TKA E
Sbjct: 185 GNRKLDINEEKKLVKEKLKELNEQDASEEEITQAMKDLGMERAKLHGWPNTYVFTKAMGE 244
Query: 293 QLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGPTGLVTGAQAGVVRTFLVDPDVK 352
LL + P+ I RP+++ ST+KEP PGWI+ L ++ G G + FL DP+
Sbjct: 245 MLLGNFKENLPLVIIRPTMITSTYKEPFPGWIEGLRTIDSVIVGYGKGKLTCFLADPNSV 304
Query: 353 ADIVPADLVVNALICAPWNGHERFHKDPSCLPIYNYVNSKDNPLTWGEF 401
D++PAD+VVNA+I A S + IY+ +S NP+ +
Sbjct: 305 LDVIPADMVVNAMIVA---MAAHAGGQGSEI-IYHVGSSLKNPVKFSNL 349
Score = 60.9 bits (148), Expect = 7e-10
Identities = 25/50 (50%), Positives = 35/50 (70%)
Query: 12 FYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRI 61
F E IL+TGATGFL K+ +EK+LR P VK +Y+++RA +S QR+
Sbjct: 8 FLENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRASDAKSATQRL 57
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 132 bits (335), Expect = 5e-35
Identities = 74/272 (27%), Positives = 128/272 (47%), Gaps = 45/272 (16%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+ +TG TGFLG+ L+++LL + V+VR++ +RI+ + + +
Sbjct: 1 VFVTGGTGFLGRHLVKRLL---ENGFKVLVLVRSESLGEAHERIE---EAGLEADRVRVL 54
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDLAK 219
+ P+LGLS R + KV+ V HCAA+ F ++A RTN+ T+ +L+LA
Sbjct: 55 EGDLTQ--PNLGLSAAASRELAGKVDHVIHCAASYDFQAPNEDAWRTNIDGTEHVLELAA 112
Query: 220 QCKNLKMFTYVSTAF-SNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERLSH 278
+ +++ F YVSTA+ + + NI E +++ + +
Sbjct: 113 RL-DIQRFHYVSTAYVAGNREGNIRE-----------------TELNPGQNFK------- 147
Query: 279 ENMNTYTLTKAAAEQLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGPTGLVTGAQ 338
N Y +KA AEQL+ A P+ ++RPSIV+ K G I+ + G L+
Sbjct: 148 ---NPYEQSKAEAEQLVRAAATQIPLTVYRPSIVVGDSKT---GRIEKIDGLYELLNLLA 201
Query: 339 AGVVRTFLVDPDVKA---DIVPADLVVNALIC 367
+ +L P K ++VP D V +A++
Sbjct: 202 K--LGRWLPMPGNKGARLNLVPVDYVADAIVY 231
Score = 44.7 bits (106), Expect = 6e-05
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAIIELIR 75
+ +TG TGFLG+ L+++LL + V+VR++ +RI++ + ++
Sbjct: 1 VFVTGGTGFLGRHLVKRLL---ENGFKVLVLVRSESLGEAHERIEEAGLEADRVRVLE 55
>gnl|CDD|187546 cd05235, SDR_e1, extended (e) SDRs, subgroup 1. This family
consists of an SDR module of multidomain proteins
identified as putative polyketide sythases fatty acid
synthases (FAS), and nonribosomal peptide synthases,
among others. However, unlike the usual ketoreductase
modules of FAS and polyketide synthase, these domains
are related to the extended SDRs, and have canonical
NAD(P)-binding motifs and an active site tetrad.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 290
Score = 105 bits (263), Expect = 3e-25
Identities = 82/320 (25%), Positives = 128/320 (40%), Gaps = 66/320 (20%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGATGFLG L+ +LL+ V IY +VRAK ++ +R+ L ++L
Sbjct: 2 VLLTGATGFLGAYLLRELLKR-KNVSKIYCLVRAKDEEAALERLIDNLKEYGLNLWDELE 60
Query: 160 TSKESAQA-----PDLGLSPDDKRLVTSKVNLVFHCAATLRF---DEELKEAIRTNMCAT 211
S+ P+LGLS DD + + +V+++ H A + + EELK N+ T
Sbjct: 61 LSRIKVVVGDLSKPNLGLSDDDYQELAEEVDVIIHNGANVNWVYPYEELK---PANVLGT 117
Query: 212 QTMLDLAKQCKNLKMFTYVST--AFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKY 269
+ +L LA LK +VST FS ++ D +
Sbjct: 118 KELLKLAAT-GKLKPLHFVSTLSVFSAEEYNALD-------------------DEESDDM 157
Query: 270 QETRERLSHENMNTYTLTKAAAEQLLCEEA--QFFPVCIFRPSIVISTWKEPIPGWIDNL 327
E++ L N Y +K AE+LL EA + PV I RP + + I D
Sbjct: 158 LESQNGLP----NGYIQSKWVAEKLL-REAANRGLPVAIIRPGNIFGDSETGIGNTDDFF 212
Query: 328 YGPTGLVTGAQAGVVRTFLVDPDVKA--DIVPADLV---VNALICAPWNGHERFHKDPSC 382
+ L Q G+ P A D+ P D V + L N
Sbjct: 213 W--RLLKGCLQLGIY------PISGAPLDLSPVDWVARAIVKLALNESNEFS-------- 256
Query: 383 LPIYNYVNSKDNPLTWGEFI 402
IY+ +N ++ + +
Sbjct: 257 --IYHLLNP--PLISLNDLL 272
Score = 58.8 bits (143), Expect = 2e-09
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDT 67
+L+TGATGFLG L+ +LL+ V IY +VRAK ++ +R+ L
Sbjct: 2 VLLTGATGFLGAYLLRELLKR-KNVSKIYCLVRAKDEEAALERLIDNLKE 50
>gnl|CDD|225857 COG3320, COG3320, Putative dehydrogenase domain of multifunctional
non-ribosomal peptide synthetases and related enzymes
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 382
Score = 85.1 bits (211), Expect = 8e-18
Identities = 61/233 (26%), Positives = 89/233 (38%), Gaps = 54/233 (23%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGATGFLG L+ +LL + +VRA+ +++ R++K D + S
Sbjct: 3 VLLTGATGFLGAYLLLELLDRSDA--KVICLVRAQSDEAALARLEKTFDLYRHWDEL--S 58
Query: 160 TSKESAQA-----PDLGLS-PDDKRLVTSKVNLVFHCAATLRF---DEELKEAIRTNMCA 210
+ A PDLGLS + L + V+L+ H AA + EL+ A N+
Sbjct: 59 ADRVEVVAGDLAEPDLGLSERTWQELAEN-VDLIIHNAALVNHVFPYSELRGA---NVLG 114
Query: 211 TQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQ 270
T +L LA K K YVS+ IS + +
Sbjct: 115 TAEVLRLAATGK-PKPLHYVSS--------------------------ISVGETEYYSNF 147
Query: 271 ETRERLSHENMNT-------YTLTKAAAEQLLCEEA--QFFPVCIFRPSIVIS 314
N Y +K AE L EA + PV IFRP +
Sbjct: 148 TVDFDEISPTRNVGQGLAGGYGRSKWVAE-KLVREAGDRGLPVTIFRPGYITG 199
Score = 48.5 bits (116), Expect = 5e-06
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAI 70
+L+TGATGFLG L+ +LL + +VRA+ +++ R++K D
Sbjct: 3 VLLTGATGFLGAYLLLELLDRSDA--KVICLVRAQSDEAALARLEKTFDLYRH 53
>gnl|CDD|233557 TIGR01746, Thioester-redct, thioester reductase domain. This model
includes the terminal domain from the fungal alpha
aminoadipate reductase enzyme (also known as
aminoadipate semialdehyde dehydrogenase) which is
involved in the biosynthesis of lysine , as well as the
reductase-containing component of the myxochelin
biosynthetic gene cluster, MxcG. The mechanism of
reduction involves activation of the substrate by
adenylation and transfer to a covalently-linked
pantetheine cofactor as a thioester. This thioester is
then reduced to give an aldehyde (thus releasing the
product) and a regenerated pantetheine thiol. (In
myxochelin biosynthesis this aldehyde is further reduced
to an alcohol or converted to an amine by an
aminotransferase.) This is a fundamentally different
reaction than beta-ketoreductase domains of polyketide
synthases which act at a carbonyl two carbons removed
from the thioester and forms an alcohol as a product.
This domain is invariably found at the C-terminus of the
proteins which contain it (presumably because it results
in the release of the product). The majority of hits to
this model are non-ribosomal peptide synthetases in
which this domain is similarly located proximal to a
thiolation domain (pfam00550). In some cases this domain
is found at the end of a polyketide synthetase enzyme,
but is unlike ketoreductase domains which are found
before the thiolase domains. Exceptions to this observed
relationship with the thiolase domain include three
proteins which consist of stand-alone reductase domains
(GP|466833 from M. leprae, GP|435954 from Anabaena and
OMNI|NTL02SC1199 from Strep. coelicolor) and one protein
(OMNI|NTL01NS2636 from Nostoc) which contains N-terminal
homology with a small group of hypothetical proteins but
no evidence of a thiolation domain next to the putative
reductase domain. Below the noise cutoff to this model
are proteins containing more distantly related
ketoreductase and dehydratase/epimerase domains. It has
been suggested that a NADP-binding motif can be found in
the N-terminal portion of this domain that may form a
Rossman-type fold.
Length = 367
Score = 81.7 bits (202), Expect = 1e-16
Identities = 57/226 (25%), Positives = 91/226 (40%), Gaps = 42/226 (18%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGATGFLG L+E+LLR + K + +VRA + +R+ + L + + +
Sbjct: 2 VLLTGATGFLGAYLLEELLRRSTQAK-VICLVRAASEEHAMERLREALRSYRLWH-EDLA 59
Query: 160 TSKESAQA-----PDLGLS-PDDKRLVTSKVNLVFHCAATLRF---DEELKEAIRTNMCA 210
+ A P LGLS + +RL + V+ + H A + + EL+ N+
Sbjct: 60 RERIEVVAGDLSEPRLGLSDAEWERLAEN-VDTIVHNGALVNWVYPYSELR---GANVLG 115
Query: 211 TQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQ 270
T+ +L LA + K YVST + D+
Sbjct: 116 TREVLRLAASGR-AKPLHYVSTISVGAAI-----------------------DLSTVTED 151
Query: 271 ETRERLSHENMNTYTLTKAAAEQLLCEEA--QFFPVCIFRPSIVIS 314
+ Y +K AE LL EA + PV I RP ++
Sbjct: 152 DATVTPPPGLAGGYAQSKWVAE-LLVREASDRGLPVTIVRPGRILG 196
Score = 47.0 bits (112), Expect = 1e-05
Identities = 20/49 (40%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLD 66
+L+TGATGFLG L+E+LLR + K + +VRA + +R+ + L
Sbjct: 2 VLLTGATGFLGAYLLEELLRRSTQAK-VICLVRAASEEHAMERLREALR 49
>gnl|CDD|176924 cd09071, FAR_C, C-terminal domain of fatty acyl CoA reductases.
C-terminal domain of fatty acyl CoA reductases, a family
of SDR-like proteins. SDRs or short-chain
dehydrogenases/reductases are Rossmann-fold
NAD(P)H-binding proteins. Many proteins in this FAR_C
family may function as fatty acyl-CoA reductases (FARs),
acting on medium and long chain fatty acids, and have
been reported to be involved in diverse processes such
as the biosynthesis of insect pheromones, plant
cuticular wax production, and mammalian wax
biosynthesis. In Arabidopsis thaliana, proteins with
this particular architecture have also been identified
as the MALE STERILITY 2 (MS2) gene product, which is
implicated in male gametogenesis. Mutations in MS2
inhibit the synthesis of exine (sporopollenin),
rendering plants unable to reduce pollen wall fatty
acids to corresponding alcohols. The function of this
C-terminal domain is unclear.
Length = 92
Score = 64.9 bits (159), Expect = 4e-13
Identities = 19/48 (39%), Positives = 28/48 (58%)
Query: 476 REWEWDNSNVQSMWTLVPAGDRVRFPFNIRDLDWDDYLRAYVRGTLVH 523
EW +DN N +++W + DR F F+IR +DWDDY Y+ G +
Sbjct: 43 NEWRFDNDNTRALWERLSEEDRELFNFDIRSIDWDDYFENYIPGLRKY 90
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 62.7 bits (153), Expect = 2e-11
Identities = 57/288 (19%), Positives = 85/288 (29%), Gaps = 100/288 (34%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG GF+G L+ +LL V VI R LD V
Sbjct: 1 ILVTGGAGFIGSHLVRRLLERGHEV---VVIDR--------------LDVV--------- 34
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEEL---KEAIRTNMCATQTMLD 216
H AA + E TN+ T +L+
Sbjct: 35 ----------------------------VHLAALVGVPASWDNPDEDFETNVVGTLNLLE 66
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
A++ +K F Y S+A + Y P+ E
Sbjct: 67 AARKA-GVKRFVYASSA--SVY--------------------------GSPEGLPEEEET 97
Query: 277 SHENMNTYTLTKAAAEQLLCE--EAQFFPVCIFRPSIVIST-----WKEPIPGWIDNLYG 329
++ Y ++K AAE LL E+ PV I R + V + +I
Sbjct: 98 PPRPLSPYGVSKLAAEHLLRSYGESYGLPVVILRLANVYGPGQRPRLDGVVNDFIRRALE 157
Query: 330 PTGLVTGAQAGVVRTFLVDPDVKADIVPADLVVNALICAPWNGHERFH 377
L R F+ V D+V A + + P G ++
Sbjct: 158 GKPLTVFGGGNQTRDFI---HVD-DVVRA---ILHALENPLEGGGVYN 198
Score = 37.7 bits (88), Expect = 0.007
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
IL+TG GF+G L+ +LL V VI R
Sbjct: 1 ILVTGGAGFIGSHLVRRLLERGHEV---VVIDR 30
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 63.0 bits (154), Expect = 2e-10
Identities = 75/279 (26%), Positives = 120/279 (43%), Gaps = 64/279 (22%)
Query: 101 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLD------TVAISL 154
+TG TGF+G+ L+ +LL R T++V+VR QS R++ + V +
Sbjct: 4 FVTGGTGFIGRRLVSRLL-DRRREATVHVLVRR---QS-LSRLEALAAYWGADRVVPLVG 58
Query: 155 KFTCSTSKESAQAPDLGLSPDD-KRLVTSKVNLVFHCAAT--LRFDEELKEAIRTNMCAT 211
T P LGLS D L ++ V H AA L DEE + A N+ T
Sbjct: 59 DLT---------EPGLGLSEADIAELG--DIDHVVHLAAIYDLTADEEAQRA--ANVDGT 105
Query: 212 QTMLDLAKQCKNLKMFTYVST-AFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQ 270
+ +++LA++ + F +VS+ A + Y + E DD
Sbjct: 106 RNVVELAERLQA-ATFHHVSSIAVAGDYEG-----------VFRE---------DD---F 141
Query: 271 ETRERLSHENMNTYTLTKAAAEQLLCEEAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGP 330
+ + L Y TK AE+L+ EE P ++RP++V+ + G +D + GP
Sbjct: 142 DEGQGLPT----PYHRTKFEAEKLVREECG-LPWRVYRPAVVVGDSRT---GEMDKIDGP 193
Query: 331 TGLVTGAQA-GVVRTFL--VDPDV-KADIVPADLVVNAL 365
+ ++L V PD + +IVP D V +AL
Sbjct: 194 YYFFKVLAKLAKLPSWLPMVGPDGGRTNIVPVDYVADAL 232
Score = 41.9 bits (99), Expect = 7e-04
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 19 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRA 51
+TG TGF+G+ L+ +LL R T++V+VR
Sbjct: 4 FVTGGTGFIGRRLVSRLL-DRRREATVHVLVRR 35
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 57.6 bits (139), Expect = 5e-09
Identities = 49/226 (21%), Positives = 76/226 (33%), Gaps = 55/226 (24%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG GF+G L+E+LL + V + R + + ++ V + L
Sbjct: 3 ILVTGGAGFIGSHLVERLLAAGHDV---RGLDR---LRDGLDPLLSGVEFVVLDL----- 51
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAA----TLRFDEELKEAIRTNMCATQTML 215
DL L + V H AA + E + N+ T +L
Sbjct: 52 ------TDRDL-----VDELAKGVPDAVIHLAAQSSVPDSNASDPAEFLDVNVDGTLNLL 100
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRER 275
+ A+ +K F + S+ S + D P +
Sbjct: 101 EAARAA-GVKRFVFASSV--------------------------SVVYGDPPPLPIDEDL 133
Query: 276 LSHENMNTYTLTKAAAEQLL--CEEAQFFPVCIFRPSIVISTWKEP 319
+N Y ++K AAEQLL PV I RP V +P
Sbjct: 134 GPPRPLNPYGVSKLAAEQLLRAYARLYGLPVVILRPFNVYGPGDKP 179
Score = 34.5 bits (79), Expect = 0.11
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
IL+TG GF+G L+E+LL + V + R
Sbjct: 3 ILVTGGAGFIGSHLVERLLAAGHDV---RGLDR 32
>gnl|CDD|111859 pfam03015, Sterile, Male sterility protein. This family represents
the C-terminal region of the male sterility protein in a
number of arabidopsis and drosophila. A sequence-related
jojoba acyl CoA reductase is also included.
Length = 94
Score = 51.5 bits (124), Expect = 2e-08
Identities = 18/50 (36%), Positives = 27/50 (54%)
Query: 470 LGRLSAREWEWDNSNVQSMWTLVPAGDRVRFPFNIRDLDWDDYLRAYVRG 519
L S EW +DN N + + + D+ F F++ LDWD+Y R +RG
Sbjct: 37 LQPFSLNEWIFDNKNTRELREKMSEEDKKLFNFDMESLDWDEYFRNAIRG 86
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 55.0 bits (133), Expect = 4e-08
Identities = 55/219 (25%), Positives = 78/219 (35%), Gaps = 56/219 (25%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TGATGFLG L+ LL RV+ +VR+ + +LD + +
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVR---ALVRSGSDAV-------LLDGLPV------- 43
Query: 160 TSKESAQAPDLGLSPDDKRLVT---SKVNLVFHCAATLRF-DEELKEAIRTNMCATQTML 215
E + DL D + + VFH AA ++ KE RTN+ T+ +L
Sbjct: 44 ---EVVEG-DL----TDAASLAAAMKGCDRVFHLAAFTSLWAKDRKELYRTNVEGTRNVL 95
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRER 275
D A + ++ HT L D ET
Sbjct: 96 DAA-------------------LEAGVRRVV---HTSSIAALGGPPDGRID----ETTPW 129
Query: 276 LSHENMNTYTLTKAAAEQLLCEEA-QFFPVCIFRPSIVI 313
N Y +K AE + E A + V I PS V
Sbjct: 130 NERPFPNDYYRSKLLAELEVLEAAAEGLDVVIVNPSAVF 168
Score = 36.9 bits (86), Expect = 0.023
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAK 52
IL+TGATGFLG L+ LL RV+ +VR+
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVR---ALVRSG 32
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 51.5 bits (124), Expect = 8e-07
Identities = 48/197 (24%), Positives = 73/197 (37%), Gaps = 56/197 (28%)
Query: 60 RIDKMLDTVAI-----IELIRNRPNQTIMGTASPPSLDD-----FYEGAEILMTGATGFL 109
++ + D IE + RP P +LD G +L+TG G +
Sbjct: 212 QLTDLKDLNGQLREIEIEDLLGRP---------PVALDTELIGAMLTGKTVLVTGGGGSI 262
Query: 110 GKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCSTSKESAQAPD 169
G L ++L+ P K I + R + ID L LK
Sbjct: 263 GSELCRQILKFNP--KEIILFSRDEYK---LYLIDMELREKFPELKL----------RFY 307
Query: 170 LGLSPDDKRLV----TSKVNLVFHCAATLRFDEELK----------EAIRTNMCATQTML 215
+G D R+ KV++VFH AA LK EAI+TN+ T+ +
Sbjct: 308 IGDVRDRDRVERAMEGHKVDIVFHAAA-------LKHVPLVEYNPEEAIKTNVLGTENVA 360
Query: 216 DLAKQCKNLKMFTYVST 232
+ A + +K F +ST
Sbjct: 361 EAAIKNG-VKKFVLIST 376
Score = 31.1 bits (71), Expect = 1.9
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 12 FYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQ 55
G +L+TG G +G L ++L+ P K I + R +
Sbjct: 247 MLTGKTVLVTGGGGSIGSELCRQILKFNP--KEIILFSRDEYKL 288
>gnl|CDD|187552 cd05241, 3b-HSD-like_SDR_e, 3beta-hydroxysteroid dehydrogenases
(3b-HSD)-like, extended (e) SDRs. Extended SDR family
domains belonging to this subgroup have the
characteristic active site tetrad and a fairly
well-conserved NAD(P)-binding motif. 3b-HSD catalyzes
the NAD-dependent conversion of various steroids, such
as pregnenolone to progesterone, or androstenediol to
testosterone. This subgroup includes an unusual
bifunctional 3b-HSD/C-4 decarboxylase from Arabidopsis
thaliana, and Saccharomyces cerevisiae ERG26, a
3b-HSD/C-4 decarboxylase, involved in the synthesis of
ergosterol, the major sterol of yeast. It also includes
human 3 beta-HSD/HSD3B1 and C(27) 3beta-HSD/
[3beta-hydroxy-delta(5)-C(27)-steroid oxidoreductase;
HSD3B7]. C(27) 3beta-HSD/HSD3B7 is a membrane-bound
enzyme of the endoplasmic reticulum, that catalyzes the
isomerization and oxidation of 7alpha-hydroxylated
sterol intermediates, an early step in bile acid
biosynthesis. Mutations in the human NSDHL (NAD(P)H
steroid dehydrogenase-like protein) cause CHILD syndrome
(congenital hemidysplasia with ichthyosiform nevus and
limb defects), an X-linked dominant, male-lethal trait.
Mutations in the human gene encoding C(27) 3beta-HSD
underlie a rare autosomal recessive form of neonatal
cholestasis. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 331
Score = 50.1 bits (120), Expect = 1e-06
Identities = 56/274 (20%), Positives = 95/274 (34%), Gaps = 62/274 (22%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TG +GF G+ L+++LL R T YV P + + ++F
Sbjct: 2 VLVTGGSGFFGERLVKQLLE---RGGT-YVRSFDIA--PPGEALSAWQHPN---IEFLKG 52
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAA---TLRFDEELKEAIRTNMCATQTMLD 216
+D S + VFH AA + E N+ TQ +LD
Sbjct: 53 DI----------TDRNDVEQALSGADCVFHTAAIVPLAGPRDLYWE---VNVGGTQNVLD 99
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
++C ++ F Y S++ +I+ ++ + +D
Sbjct: 100 ACQRC-GVQKFVYTSSS----------SVIFGGQNIHNGDETLPYPPLD----------- 137
Query: 277 SHENMNTYTLTKAAAEQLLCEEAQF--FPVCIFRPSIVISTWKEPIPGWIDNLYGPTGLV 334
+ Y TKA AE ++ E C RP+ + PG D P L
Sbjct: 138 ----SDMYAETKAIAEIIVLEANGRDDLLTCALRPAGIFG------PG--DQGLVP-ILF 184
Query: 335 TGAQAGVVRTFLVDPDVKADIVPADLVVNALICA 368
A+ G+V+ + D + +A I A
Sbjct: 185 EWAEKGLVKFVFGRGNNLVDFTYVHNLAHAHILA 218
Score = 29.3 bits (66), Expect = 4.5
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 18 ILMTGATGFLGKLLIEKLLR 37
+L+TG +GF G+ L+++LL
Sbjct: 2 VLVTGGSGFFGERLVKQLLE 21
>gnl|CDD|217199 pfam02719, Polysacc_synt_2, Polysaccharide biosynthesis protein.
This is a family of diverse bacterial polysaccharide
biosynthesis proteins including the CapD protein, WalL
protein mannosyl-transferase and several putative
epimerases (e.g. WbiI).
Length = 280
Score = 49.4 bits (119), Expect = 2e-06
Identities = 36/147 (24%), Positives = 60/147 (40%), Gaps = 37/147 (25%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TG G +G L ++L+ P K I + R + + R + + L+F
Sbjct: 1 VLVTGGGGSIGSELCRQILKFNP--KKIILFSRDEFKLY-EIRQELRQEYNDPKLRF--- 54
Query: 160 TSKESAQAPDLGLSPDDKRLV----TSKVNLVFHCAATLRFDEELK----------EAIR 205
+G D +RL V+ VFH AA LK EAI+
Sbjct: 55 ---------FIGDVRDRERLERAMEQHGVDTVFHAAA-------LKHVPLVEYNPMEAIK 98
Query: 206 TNMCATQTMLDLAKQCKNLKMFTYVST 232
TN+ T+ + + A + ++ F +ST
Sbjct: 99 TNVLGTENVAEAAIEN-GVEKFVLIST 124
Score = 29.0 bits (66), Expect = 7.0
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQ 55
+L+TG G +G L ++L+ P K I + R +
Sbjct: 1 VLVTGGGGSIGSELCRQILKFNP--KKIILFSRDEFKL 36
>gnl|CDD|187671 cd09811, 3b-HSD_HSDB1_like_SDR_e, human 3beta-HSD (hydroxysteroid
dehydrogenase) and HSD3B1(delta 5-delta
4-isomerase)-like, extended (e) SDRs. This extended-SDR
subgroup includes human 3 beta-HSD/HSD3B1 and C(27)
3beta-HSD/ [3beta-hydroxy-delta(5)-C(27)-steroid
oxidoreductase; HSD3B7], and related proteins. These
proteins have the characteristic active site tetrad and
NAD(P)-binding motif of extended SDRs. 3 beta-HSD
catalyzes the oxidative conversion of delta 5-3
beta-hydroxysteroids to the delta 4-3-keto
configuration; this activity is essential for the
biosynthesis of all classes of hormonal steroids. C(27)
3beta-HSD is a membrane-bound enzyme of the endoplasmic
reticulum, it catalyzes the isomerization and oxidation
of 7alpha-hydroxylated sterol intermediates, an early
step in bile acid biosynthesis. Mutations in the human
gene encoding C(27) 3beta-HSD underlie a rare autosomal
recessive form of neonatal cholestasis. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 354
Score = 49.4 bits (118), Expect = 3e-06
Identities = 36/157 (22%), Positives = 54/157 (34%), Gaps = 25/157 (15%)
Query: 101 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS- 159
L+TG GFLG+ +I LL +K I V +DK I
Sbjct: 3 LVTGGGGFLGQHIIRLLLERKEELKEIRV-------------LDKAFGPELIEHFEKSQG 49
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFD--EELKEAIRTNMCATQTMLDL 217
+ + D+ R V++V H AA + +E N+ TQ +L+
Sbjct: 50 KTYVTDIEGDIKDLSFLFRACQG-VSVVIHTAAIVDVFGPPNYEELEEVNVNGTQAVLEA 108
Query: 218 AKQCKNLKMFTYVST---AFSNSYRKNIEEIIYKAHT 251
Q N+K Y S+ A N I+
Sbjct: 109 CVQN-NVKRLVYTSSIEVAGPNFKG----RPIFNGVE 140
Score = 32.1 bits (73), Expect = 0.80
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 19 LMTGATGFLGKLLIEKLLRSFPRVKTIYVI 48
L+TG GFLG+ +I LL +K I V+
Sbjct: 3 LVTGGGGFLGQHIIRLLLERKEELKEIRVL 32
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 47.3 bits (113), Expect = 6e-06
Identities = 54/237 (22%), Positives = 82/237 (34%), Gaps = 72/237 (30%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG TGF+G L+ +LL+ V I + R + RI
Sbjct: 1 ILVTGGTGFIGSHLVRRLLQEGYEV--IVLGRRRRSESLNTGRIRFHEG----------- 47
Query: 160 TSKESAQAPDLGLSPDDKRLVT-SKVNLVFHCAA---TLRFDEELKEAIRTNMCATQTML 215
DL +RL+ + + V H AA E+ + IR N+ T +L
Sbjct: 48 ---------DLTDPDALERLLAEVQPDAVIHLAAQSGVGASFEDPADFIRANVLGTLRLL 98
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRER 275
+ A++ +K F + S++ E+ Y DV DP E
Sbjct: 99 EAARRA-GVKRFVFASSS----------EV-------YG--------DVADPPITEDT-- 130
Query: 276 LSHENMNTYTLTKAAAEQLLCE--EAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGP 330
++ Y K AAE+L+ A I R N+YGP
Sbjct: 131 -PLGPLSPYAAAKLAAERLVEAYARAYGLRAVILRLF---------------NVYGP 171
Score = 35.3 bits (82), Expect = 0.047
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDK--MLDTVAIIELIR 75
IL+TG TGF+G L+ +LL+ V + R++ + + R + + D A+ L+
Sbjct: 1 ILVTGGTGFIGSHLVRRLLQEGYEVIVLGRRRRSESLNTGRIRFHEGDLTDPDALERLLA 60
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine. This
subgroup has the characteristic active site tetrad and
NAD-binding motif of the extended SDRs. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 303
Score = 46.6 bits (111), Expect = 2e-05
Identities = 47/223 (21%), Positives = 79/223 (35%), Gaps = 69/223 (30%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVI--VRAKKNQSPQQRIDKMLDTVAISLKFT 157
+L+TGA GF+G+ L++KLL + V VR +N P + ++ D
Sbjct: 2 VLVTGANGFIGRALVDKLLS-----RGEEVRIAVRNAENAEPSVVLAELPD--------- 47
Query: 158 CSTSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAA-----TLRFDEELKEAIRTNMCATQ 212
D + V+ V H AA + + L + + N T+
Sbjct: 48 ----------------IDSFTDLFLGVDAVVHLAARVHVMNDQGADPLSDYRKVNTELTR 91
Query: 213 TMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQET 272
+ A + + +K F ++S S + N E + + E D P+
Sbjct: 92 RLARAAAR-QGVKRFVFLS-----SVKVNGEGTV---GAPFDE------TDPPAPQ---- 132
Query: 273 RERLSHENMNTYTLTKAAAEQLLCEEAQF---FPVCIFRPSIV 312
+ Y +K AE+ L E V I RP +V
Sbjct: 133 ---------DAYGRSKLEAERAL-LELGASDGMEVVILRPPMV 165
Score = 32.7 bits (75), Expect = 0.41
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVI--VRAKKNQSPQQRIDKMLDT 67
+L+TGA GF+G+ L++KLL + V VR +N P + ++ D
Sbjct: 2 VLVTGANGFIGRALVDKLLS-----RGEEVRIAVRNAENAEPSVVLAELPDI 48
>gnl|CDD|216283 pfam01073, 3Beta_HSD, 3-beta hydroxysteroid dehydrogenase/isomerase
family. The enzyme 3 beta-hydroxysteroid
dehydrogenase/5-ene-4-ene isomerase (3 beta-HSD)
catalyzes the oxidation and isomerisation of 5-ene-3
beta-hydroxypregnene and 5-ene-hydroxyandrostene steroid
precursors into the corresponding 4-ene-ketosteroids
necessary for the formation of all classes of steroid
hormones.
Length = 280
Score = 46.6 bits (111), Expect = 2e-05
Identities = 54/290 (18%), Positives = 92/290 (31%), Gaps = 84/290 (28%)
Query: 101 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCST 160
L+TG GFLG+ ++ LLR ++ + V D +
Sbjct: 1 LVTGGGGFLGRHIVRLLLR-EGELQEVRVF-------------DLRFSPELLEDFSKLQV 46
Query: 161 SKESAQAPDLGLSPDDKRLVTSKVNLVFHCAA------TLRFDEELKEAIRTNMCATQTM 214
+ D+ D R ++V H AA D ++ N+ TQ +
Sbjct: 47 --ITYIEGDV-TDKQDLRRALQGSDVVIHTAAIIDVFGKAYRDT----IMKVNVKGTQNV 99
Query: 215 LDLAKQCKNLKMFTYVST---AFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQE 271
LD + +++ Y S+ NSY + I +
Sbjct: 100 LDACVKA-GVRVLVYTSSMEVVGPNSYGQ----PIVNGD-------------------ET 135
Query: 272 TRERLSHENMNTYTLTKAAAEQLLCEE-------AQFFPVCIFRPSIVISTWKEPIPGWI 324
T +H++ Y +KA AE+L+ + C RP+ +
Sbjct: 136 TPYESTHQDP--YPESKALAEKLVLKANGSTLKNGGRLYTCALRPAGI------------ 181
Query: 325 DNLYGP------TGLVTGAQAGVVRTFLVDPDVKADIVPADLVVNALICA 368
+G LV + G+ + D +V +D V V A I A
Sbjct: 182 ---FGEGDPFLFPFLVRLLKNGLAKFRTGDKNVLSDRVYVGNVAWAHILA 228
>gnl|CDD|187673 cd09813, 3b-HSD-NSDHL-like_SDR_e, human NSDHL (NAD(P)H steroid
dehydrogenase-like protein)-like, extended (e) SDRs.
This subgroup includes human NSDHL and related proteins.
These proteins have the characteristic active site
tetrad of extended SDRs, and also have a close match to
their NAD(P)-binding motif. Human NSDHL is a
3beta-hydroxysteroid dehydrogenase (3 beta-HSD) which
functions in the cholesterol biosynthetic pathway. 3
beta-HSD catalyzes the oxidative conversion of delta 5-3
beta-hydroxysteroids to the delta 4-3-keto
configuration; this activity is essential for the
biosynthesis of all classes of hormonal steroids.
Mutations in the gene encoding NSDHL cause CHILD
syndrome (congenital hemidysplasia with ichthyosiform
nevus and limb defects), an X-linked dominant,
male-lethal trait. This subgroup also includes an
unusual bifunctional [3beta-hydroxysteroid dehydrogenase
(3b-HSD)/C-4 decarboxylase from Arabidopsis thaliana,
and Saccharomyces cerevisiae ERG26, a 3b-HSD/C-4
decarboxylase, involved in the synthesis of ergosterol,
the major sterol of yeast. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 335
Score = 46.2 bits (110), Expect = 3e-05
Identities = 63/275 (22%), Positives = 107/275 (38%), Gaps = 65/275 (23%)
Query: 101 LMTGATGFLGKLLIEKLL-RSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
L+ G +GFLG+ L+E+LL R P V + + + S R+ +F
Sbjct: 3 LVVGGSGFLGRHLVEQLLRRGNPTVHVFDIRPTFELDPSSSGRV-----------QFHTG 51
Query: 160 TSKESAQAPDLGLSPDD--KRLVTSKVNLVFHCAA-TLRFDEELKEAIRTNMCATQTMLD 216
DL P D K N+VFH A+ +++L + N+ T+ +++
Sbjct: 52 ---------DL-TDPQDLEKAFNEKGPNVVFHTASPDHGSNDDLYY--KVNVQGTRNVIE 99
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
++C +K Y S+A S N ++II + D+
Sbjct: 100 ACRKC-GVKKLVYTSSA---SVVFNGQDII----------------NGDE------SLPY 133
Query: 277 SHENMNTYTLTKAAAEQLLCE---EAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGPTGL 333
++ + Y TKA AE+L+ + C RP+ + PG D P GL
Sbjct: 134 PDKHQDAYNETKALAEKLVLKANDPESGLLTCALRPAGIFG------PG--DRQLVP-GL 184
Query: 334 VTGAQAGVVRTFLVDPDVKADIVPADLVVNALICA 368
+ A+ G + + D + D + V +A I A
Sbjct: 185 LKAAKNGKTKFQIGDGNNLFDFTYVENVAHAHILA 219
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase, extended
(e) SDRs. UDP-Glcnac inverting 4,6-dehydratase was
identified in Helicobacter pylori as the hexameric flaA1
gene product (FlaA1). FlaA1 is hexameric, possesses
UDP-GlcNAc-inverting 4,6-dehydratase activity, and
catalyzes the first step in the creation of a
pseudaminic acid derivative in protein glycosylation.
Although this subgroup has the NADP-binding motif
characteristic of extended SDRs, its members tend to
have a Met substituted for the active site Tyr found in
most SDR families. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 287
Score = 45.7 bits (109), Expect = 3e-05
Identities = 33/142 (23%), Positives = 62/142 (43%), Gaps = 27/142 (19%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG G +G L+ ++L+ P K + V R +++ + + L + K
Sbjct: 5 ILVTGGAGSIGSELVRQILKFGP--KKLIVFDR---DENKLHELVRELRSRFPHDKLRFI 59
Query: 160 TSKESAQAPDLGLSPDDKRLVTS-----KVNLVFHCAATLRF----DEELKEAIRTNMCA 210
DK + ++VFH AA L+ ++ +EAI+TN+
Sbjct: 60 I-----------GDVRDKERLRRAFKERGPDIVFH-AAALKHVPSMEDNPEEAIKTNVLG 107
Query: 211 TQTMLDLAKQCKNLKMFTYVST 232
T+ ++D A + ++ F +ST
Sbjct: 108 TKNVIDAAIEN-GVEKFVCIST 128
Score = 34.1 bits (79), Expect = 0.14
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQ 55
IL+TG G +G L+ ++L+ P K + V R +
Sbjct: 5 ILVTGGAGSIGSELVRQILKFGP--KKLIVFDRDENKL 40
>gnl|CDD|234212 TIGR03443, alpha_am_amid, L-aminoadipate-semialdehyde dehydrogenase.
Members of this protein family are
L-aminoadipate-semialdehyde dehydrogenase (EC 1.2.1.31),
product of the LYS2 gene. It is also called
alpha-aminoadipate reductase. In fungi, lysine is
synthesized via aminoadipate. Currently, all members of
this family are fungal.
Length = 1389
Score = 45.1 bits (107), Expect = 1e-04
Identities = 39/151 (25%), Positives = 70/151 (46%), Gaps = 33/151 (21%)
Query: 100 ILMTGATGFLGKLLIEKLL-RSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTC 158
+ +TGATGFLG ++ LL R ++ VRAK ++ +R L+ T
Sbjct: 974 VFLTGATGFLGSFILRDLLTRRSNSNFKVFAHVRAKSEEAGLER-----------LRKTG 1022
Query: 159 ST----SKESAQ----------APDLGLSPDDKRLVTSKVNLVFHCAATLRF---DEELK 201
+T +E A GLS + +T++V+++ H A + + +L+
Sbjct: 1023 TTYGIWDEEWASRIEVVLGDLSKEKFGLSDEKWSDLTNEVDVIIHNGALVHWVYPYSKLR 1082
Query: 202 EAIRTNMCATQTMLDLAKQCKNLKMFTYVST 232
+A N+ T +L+L + K K F++VS+
Sbjct: 1083 DA---NVIGTINVLNLCAEGKA-KQFSFVSS 1109
Score = 38.9 bits (91), Expect = 0.008
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 18 ILMTGATGFLGKLLIEKLL-RSFPRVKTIYVIVRAKKNQSPQQRIDK 63
+ +TGATGFLG ++ LL R ++ VRAK ++ +R+ K
Sbjct: 974 VFLTGATGFLGSFILRDLLTRRSNSNFKVFAHVRAKSEEAGLERLRK 1020
>gnl|CDD|187652 cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like
proteins (5beta-POR), atypical (a) SDRs. 5beta-POR
catalyzes the reduction of progesterone to
5beta-pregnane-3,20-dione in Digitalis plants. This
subgroup of atypical-extended SDRs, shares the structure
of an extended SDR, but has a different glycine-rich
nucleotide binding motif (GXXGXXG) and lacks the YXXXK
active site motif of classical and extended SDRs.
Tyr-179 and Lys 147 are present in the active site, but
not in the usual SDR configuration. Given these
differences, it has been proposed that this subfamily
represents a new SDR class. Other atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 308
Score = 43.8 bits (104), Expect = 1e-04
Identities = 52/221 (23%), Positives = 72/221 (32%), Gaps = 53/221 (23%)
Query: 101 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCST 160
L+ GATG G L+E LL +Y + R P + ++++ + I
Sbjct: 3 LVVGATGISGWALVEHLLSDPGTWWKVYGLSRRPL---PTEDDPRLVEHIGI-------- 51
Query: 161 SKESAQAPDLGLSPDD-----KRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTML 215
DL L P D K V VF+ A R DE E + N + L
Sbjct: 52 --------DL-LDPADTVLRAKLPGLEDVTHVFYAAYIERPDEA--ELVEVNGAMLRNFL 100
Query: 216 D-LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRE 274
D L NLK + HY L K + +E
Sbjct: 101 DALEPASPNLKHVVLQTGTK-----------------HYGVHLGPFKTPRPEEPAREDPP 143
Query: 275 RLSHENMNTYTLTKAAAEQLLCEEAQ--FFPVCIFRPSIVI 313
RL N Y E LL E A+ + + RP +I
Sbjct: 144 RLLPPNFY-YDQ-----EDLLFEAAKGKGWTWSVLRPDAII 178
Score = 29.5 bits (67), Expect = 4.1
Identities = 13/42 (30%), Positives = 17/42 (40%)
Query: 19 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQR 60
L+ GATG G L+E LL +Y + R R
Sbjct: 3 LVVGATGISGWALVEHLLSDPGTWWKVYGLSRRPLPTEDDPR 44
>gnl|CDD|187536 cd05193, AR_like_SDR_e, aldehyde reductase, flavonoid reductase,
and related proteins, extended (e) SDRs. This subgroup
contains aldehyde reductase and flavonoid reductase of
the extended SDR-type and related proteins. Proteins in
this subgroup have a complete SDR-type active site
tetrad and a close match to the canonical extended SDR
NADP-binding motif. Aldehyde reductase I (aka carbonyl
reductase) is an NADP-binding SDR; it catalyzes the
NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 295
Score = 41.8 bits (98), Expect = 5e-04
Identities = 47/247 (19%), Positives = 85/247 (34%), Gaps = 52/247 (21%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQ---SPQQRIDKMLDTVAISLKF 156
+L+TGA+GF+ ++E+LL +V+ VR + +D + +++
Sbjct: 1 VLVTGASGFVASHVVEQLLERGYKVRA---TVRDPSKVKKVNHLLDLDAKPGRLELAV-- 55
Query: 157 TCSTSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRF-DEELKEAIRTNMCATQTML 215
T ++S G VFH A + F ++ E I+ + T L
Sbjct: 56 ADLTDEQSFDEVIKG------------CAGVFHVATPVSFSSKDPNEVIKPAIGGTLNAL 103
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQET--- 272
A K++K F S+A S + I K +V+ E
Sbjct: 104 KAAAAAKSVKRFVLTSSAGS---------------------VLIPKPNVEGIVLDEKSWN 142
Query: 273 -RERLSHENMNT--YTLTKAAAEQLLCE--EAQFFPVCIFRPSIVISTWKEPI--PGWID 325
E S + Y +K AE+ + + + P++ I T +
Sbjct: 143 LEEFDSDPKKSAWVYAASKTLAEKAAWKFADENNIDLITVIPTLTIGTIFDSETPSSSGW 202
Query: 326 NLYGPTG 332
+ TG
Sbjct: 203 AMSLITG 209
>gnl|CDD|187557 cd05246, dTDP_GD_SDR_e, dTDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains dTDP-D-glucose
4,6-dehydratase and related proteins, members of the
extended-SDR family, with the characteristic Rossmann
fold core region, active site tetrad and NAD(P)-binding
motif. dTDP-D-glucose 4,6-dehydratase is closely related
to other sugar epimerases of the SDR family.
dTDP-D-dlucose 4,6,-dehydratase catalyzes the second of
four steps in the dTDP-L-rhamnose pathway (the
dehydration of dTDP-D-glucose to
dTDP-4-keto-6-deoxy-D-glucose) in the synthesis of
L-rhamnose, a cell wall component of some pathogenic
bacteria. In many gram negative bacteria, L-rhamnose is
an important constituent of lipopoylsaccharide
O-antigen. The larger N-terminal portion of
dTDP-D-Glucose 4,6-dehydratase forms a Rossmann fold
NAD-binding domain, while the C-terminus binds the sugar
substrate. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 315
Score = 41.4 bits (98), Expect = 8e-04
Identities = 60/247 (24%), Positives = 96/247 (38%), Gaps = 82/247 (33%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKM--------LDTVA 151
IL+TG GF+G + LL +P K +I +DK+ L+ V+
Sbjct: 3 ILVTGGAGFIGSNFVRYLLNKYPDYK---IIN-----------LDKLTYAGNLENLEDVS 48
Query: 152 IS--LKFTCSTSKESAQAPDLGLSPDDKRLV-TSKVNLVFHCAATLRFDEELKEA---IR 205
S +F + D+ + RL K++ V H AA D + + IR
Sbjct: 49 SSPRYRF--------VKG-DICDAELVDRLFEEEKIDAVIHFAAESHVDRSISDPEPFIR 99
Query: 206 TNMCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVD 265
TN+ T T+L+ A++ +K F ++ST +E+ Y +LL +
Sbjct: 100 TNVLGTYTLLEAARKY-GVKRFVHIST----------DEV-------YGDLLDDGEFTET 141
Query: 266 DPKYQETRERLSHENMNTYTLTKAAAEQLLCEEAQFF--PVCIFRPSIVISTWKEPIPGW 323
P T + Y+ +KAAA+ L+ + + PV I R S
Sbjct: 142 SP-LAPT---------SPYSASKAAADLLVRAYHRTYGLPVVITRCS------------- 178
Query: 324 IDNLYGP 330
N YGP
Sbjct: 179 --NNYGP 183
>gnl|CDD|187538 cd05227, AR_SDR_e, aldehyde reductase, extended (e) SDRs. This
subgroup contains aldehyde reductase of the extended
SDR-type and related proteins. Aldehyde reductase I (aka
carbonyl reductase) is an NADP-binding SDR; it has an
NADP-binding motif consensus that is slightly different
from the canonical SDR form and lacks the Asn of the
extended SDR active site tetrad. Aldehyde reductase I
catalyzes the NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 301
Score = 41.1 bits (97), Expect = 0.001
Identities = 54/291 (18%), Positives = 98/291 (33%), Gaps = 56/291 (19%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGATGF+ ++E+LL++ +V+ VR + S ++ +L + +
Sbjct: 2 VLVTGATGFIASHIVEQLLKAGYKVRG---TVR---SLSKSAKLKALLKAAGYNDRL--- 52
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRF--DEELKEAIRTNMCATQTMLDL 217
E DL +P+ V+ V H A+ F + + I + T +L+
Sbjct: 53 ---EFVIVDDL-TAPNAWDEALKGVDYVIHVASPFPFTGPDAEDDVIDPAVEGTLNVLEA 108
Query: 218 AKQCKNLKMFTYVSTAFSNSY-RKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
AK ++K S+ + ++ + S
Sbjct: 109 AKAAGSVKRVVLTSSVAAVGDPTAEDPGKVFTEEDWNDLTISKSNG-------------- 154
Query: 277 SHENMNTYTLTKAAAEQ----LLCEEAQFFPVCIFRPSIVISTWKEPI-----PGWIDNL 327
++ Y +K AE+ + E F + P V+ I+ L
Sbjct: 155 ----LDAYIASKTLAEKAAWEFVKENKPKFELITINPGYVLGPSLLADELNSSNELINKL 210
Query: 328 --YGPTGLVTGAQAGVVRTFLVDPDVKADIVPADLVVNALICAPWNGHERF 376
+ G V DV+ D+ AD V AL +RF
Sbjct: 211 LDGKLPAIPPNLPFGYV-------DVR-DV--ADAHVRALESPE-AAGQRF 250
Score = 31.5 bits (72), Expect = 1.2
Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 14/67 (20%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLD--------TVA 69
+L+TGATGF+ ++E+LL++ +V+ VR + S ++ +L
Sbjct: 2 VLVTGATGFIASHIVEQLLKAGYKVRG---TVR---SLSKSAKLKALLKAAGYNDRLEFV 55
Query: 70 IIELIRN 76
I++ +
Sbjct: 56 IVDDLTA 62
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended or
atypical short-chain dehydrogenases/reductases (SDRs,
aka tyrosine-dependent oxidoreductases) are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. Atypical SDRs generally
lack the catalytic residues characteristic of the SDRs,
and their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 37.8 bits (88), Expect = 0.006
Identities = 43/213 (20%), Positives = 71/213 (33%), Gaps = 61/213 (28%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+ GATGF+G+ L +LL V ++VR +R+ K +++
Sbjct: 1 ILILGATGFIGRALARELLEQGHEV---TLLVRNT------KRLSKEDQEP-VAVVEGDL 50
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDLAK 219
+S G V++V H A R + E T+ +L+ AK
Sbjct: 51 RDLDSLSDAVQG------------VDVVIHLAGAPRDTRDFCEVDVE---GTRNVLEAAK 95
Query: 220 QCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERLSHE 279
+ +K F ++S+ +Y EE + Y
Sbjct: 96 E-AGVKHFIFISSLG--AYGDLHEETEPSPSSPYLA------------------------ 128
Query: 280 NMNTYTLTKAAAEQLLCEEAQFFPVCIFRPSIV 312
KA E +L P I RP ++
Sbjct: 129 -------VKAKTEAVL--REASLPYTIVRPGVI 152
Score = 33.9 bits (78), Expect = 0.12
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
IL+ GATGF+G+ L +LL V ++VR
Sbjct: 1 ILILGATGFIGRALARELLEQGHEV---TLLVR 30
>gnl|CDD|215146 PLN02260, PLN02260, probable rhamnose biosynthetic enzyme.
Length = 668
Score = 39.0 bits (91), Expect = 0.007
Identities = 55/215 (25%), Positives = 83/215 (38%), Gaps = 64/215 (29%)
Query: 95 YEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISL 154
YE IL+TGA GF+ + +L+R++P K ++V +DK LD
Sbjct: 4 YEPKNILITGAAGFIASHVANRLIRNYPDYK---IVV-----------LDK-LD------ 42
Query: 155 KFTCSTSK---ESAQAP-------DLGLSPD--DKRLVTSKVNLVFHCAATLRFDEELK- 201
CS K S +P D+ S D + L+T ++ + H AA D
Sbjct: 43 --YCSNLKNLNPSKSSPNFKFVKGDIA-SADLVNYLLITEGIDTIMHFAAQTHVDNSFGN 99
Query: 202 --EAIRTNMCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKI 259
E + N+ T +L+ K ++ F +VST Y + E+ H S+LL
Sbjct: 100 SFEFTKNNIYGTHVLLEACKVTGQIRRFIHVST--DEVYGETDEDADVGNH-EASQLLP- 155
Query: 260 SKLDVDDPKYQETRERLSHENMNTYTLTKAAAEQL 294
N Y+ TKA AE L
Sbjct: 156 ---------------------TNPYSATKAGAEML 169
Score = 31.6 bits (72), Expect = 1.2
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 13 YEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYV 47
YE IL+TGA GF+ + +L+R++P K + +
Sbjct: 4 YEPKNILITGAAGFIASHVANRLIRNYPDYKIVVL 38
>gnl|CDD|187551 cd05240, UDP_G4E_3_SDR_e, UDP-glucose 4 epimerase (G4E), subgroup
3, extended (e) SDRs. Members of this bacterial
subgroup are identified as possible sugar epimerases,
such as UDP-glucose 4 epimerase. However, while the
NAD(P)-binding motif is fairly well conserved, not all
members retain the canonical active site tetrad of the
extended SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 306
Score = 36.2 bits (84), Expect = 0.033
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 9/81 (11%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQ----QRIDKMLDTVAIIEL 73
IL+TGA G LG+LL +L S PRV + + R + SP R+D + A ++
Sbjct: 1 ILVTGAAGGLGRLLARRLAAS-PRVIGVDGLDRRRPPGSPPKVEYVRLD--IRDPAAADV 57
Query: 74 IRNRPNQTI--MGTASPPSLD 92
R R + + P D
Sbjct: 58 FREREADAVVHLAFILDPPRD 78
Score = 36.2 bits (84), Expect = 0.035
Identities = 32/120 (26%), Positives = 44/120 (36%), Gaps = 24/120 (20%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TGA G LG+LL +L S PRV I V ++ + S
Sbjct: 1 ILVTGAAGGLGRLLARRLAAS-PRV--IGVDGLDRR-------------------RPPGS 38
Query: 160 TSKESAQAPDLGLSPD-DKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDLA 218
K D+ P + + V H A L + E R N+ TQ +LD
Sbjct: 39 PPKVEYVRLDI-RDPAAADVFREREADAVVHLAFILDPPRDGAERHRINVDGTQNVLDAC 97
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). 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 (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs 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 = 186
Score = 35.2 bits (81), Expect = 0.037
Identities = 21/96 (21%), Positives = 37/96 (38%), Gaps = 8/96 (8%)
Query: 170 LGLSPDDKRLVTSKVNLVFHCAATLR-------FDEELKEAIRTNMCATQTMLDLAKQCK 222
L K LV S+ ++V H AA L ++ AIR N+ T+ +L+ A++
Sbjct: 18 LASRGSPKVLVVSRRDVVVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELM 77
Query: 223 NLK-MFTYVSTAFSNSYRKNIEEIIYKAHTHYSELL 257
K + ++ + Y A + L
Sbjct: 78 KAKRLGRFILISSVAGLFGAPGLGGYAASKAALDGL 113
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 35.7 bits (83), Expect = 0.040
Identities = 15/33 (45%), Positives = 22/33 (66%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
IL+TGATG LG ++E LL +V ++ +VR
Sbjct: 1 ILVTGATGKLGTAVVELLLA---KVASVVALVR 30
Score = 35.7 bits (83), Expect = 0.040
Identities = 15/33 (45%), Positives = 22/33 (66%), Gaps = 3/33 (9%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 132
IL+TGATG LG ++E LL +V ++ +VR
Sbjct: 1 ILVTGATGKLGTAVVELLLA---KVASVVALVR 30
>gnl|CDD|233570 TIGR01777, yfcH, TIGR01777 family protein. This model represents
a clade of proteins of unknown function including the
E. coli yfcH protein [Hypothetical proteins,
Conserved].
Length = 291
Score = 35.7 bits (83), Expect = 0.046
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQS 56
IL+TG TGF+G+ L ++L + V ++ R+ +
Sbjct: 1 ILITGGTGFIGRALTQRLTKRGHEV---TILTRSPPPGA 36
Score = 35.7 bits (83), Expect = 0.046
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQS 138
IL+TG TGF+G+ L ++L + V ++ R+ +
Sbjct: 1 ILITGGTGFIGRALTQRLTKRGHEV---TILTRSPPPGA 36
>gnl|CDD|187566 cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase,
extended (e) SDRs. This subgroup contains
UDP-N-acetylglucosamine 4-epimerase of Pseudomonas
aeruginosa, WbpP, an extended SDR, that catalyzes the
NAD+ dependent conversion of UDP-GlcNAc and UDPGalNA to
UDP-Glc and UDP-Gal. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 304
Score = 35.7 bits (83), Expect = 0.056
Identities = 53/252 (21%), Positives = 86/252 (34%), Gaps = 68/252 (26%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TG GF+G L+E+LL V + N S ++ + L V ++KF
Sbjct: 2 VLVTGGAGFIGSHLVERLLERGHEVIVL-------DNLSTGKKEN--LPEVKPNVKF--- 49
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIR---TNMCATQTMLD 216
D+ + V+ VFH AA +++ I+ N+ T +L+
Sbjct: 50 ------IEGDIRDDELVEFAF-EGVDYVFHQAAQASVPRSIEDPIKDHEVNVLGTLNLLE 102
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
A++ +K F Y S+ S+ Y DP Y E
Sbjct: 103 AARK-AGVKRFVYASS--SSVY--------------------------GDPPYLPKDEDH 133
Query: 277 SHENMNTYTLTKAAAEQLLC--EEAQFFPVCIFRPSIVISTWKEPIPGWIDNLYGPTGLV 334
++ Y ++K A E P R N+YGP
Sbjct: 134 PPNPLSPYAVSKYAGELYCQVFARLYGLPTVSLRYF---------------NVYGPRQDP 178
Query: 335 TGAQAGVVRTFL 346
G A V+ F+
Sbjct: 179 NGGYAAVIPIFI 190
>gnl|CDD|187567 cd05257, Arna_like_SDR_e, Arna decarboxylase_like, extended (e)
SDRs. Decarboxylase domain of ArnA. ArnA, is an enzyme
involved in the modification of outer membrane protein
lipid A of gram-negative bacteria. It is a bifunctional
enzyme that catalyzes the NAD-dependent decarboxylation
of UDP-glucuronic acid and
N-10-formyltetrahydrofolate-dependent formylation of
UDP-4-amino-4-deoxy-l-arabinose; its NAD-dependent
decaboxylating activity is in the C-terminal 360
residues. This subgroup belongs to the extended SDR
family, however the NAD binding motif is not a perfect
match and the upstream Asn of the canonical active site
tetrad is not conserved. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 316
Score = 35.4 bits (82), Expect = 0.056
Identities = 43/216 (19%), Positives = 72/216 (33%), Gaps = 47/216 (21%)
Query: 99 EILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTC 158
+L+TGA GF+G L E+LLR V+ + + + ++ ++
Sbjct: 1 NVLVTGADGFIGSHLTERLLREGHEVRALDIYNSFNSWGLLDNAVHDRFHFISGDVR--- 57
Query: 159 STSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELK---EAIRTNMCATQTML 215
+ + K ++VFH AA + + TN+ T +L
Sbjct: 58 --------------DASEVEYLVKKCDVVFHLAALIAIPYSYTAPLSYVETNVFGTLNVL 103
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRER 275
+ A K + ST S Y +D D P + R
Sbjct: 104 EAACV-LYRKRVVHTST--SEVY----------GTAQD------VPIDEDHPLLYINKPR 144
Query: 276 LSHENMNTYTLTKAAAEQLLCEEAQFF--PVCIFRP 309
Y+ +K A++L + F PV I RP
Sbjct: 145 SP------YSASKQGADRLAYSYGRSFGLPVTIIRP 174
Score = 32.3 bits (74), Expect = 0.53
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 17 EILMTGATGFLGKLLIEKLLRSFPRVKTI 45
+L+TGA GF+G L E+LLR V+ +
Sbjct: 1 NVLVTGADGFIGSHLTERLLREGHEVRAL 29
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 34.9 bits (81), Expect = 0.058
Identities = 30/166 (18%), Positives = 59/166 (35%), Gaps = 27/166 (16%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+ GATG +G+ ++ +LL +V +VR ++ + V L
Sbjct: 2 VLVVGATGKVGRHVVRELLDRGYQV---RALVR--DPSQAEKLEAAGAEVVVGDL----- 51
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDLAK 219
+ ++ V A + EA+ + ++D AK
Sbjct: 52 ------------TDAESLAAALEGIDAVISAAGSGGKGGPRTEAV--DYDGNINLIDAAK 97
Query: 220 QCKNLKMFTYVSTAFSNSYRKNIEEI--IYKAHTHYSELLKISKLD 263
+ +K F VS+ ++ +E + A + L+ S LD
Sbjct: 98 KA-GVKRFVLVSSIGADKPSHPLEALGPYLDAKRKAEDYLRASGLD 142
Score = 31.8 bits (73), Expect = 0.67
Identities = 11/33 (33%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
+L+ GATG +G+ ++ +LL +V +VR
Sbjct: 2 VLVVGATGKVGRHVVRELLDRGYQV---RALVR 31
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor of
L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis. The
human gene encoding MAT2B encodes two major splicing
variants which are induced in human cell liver cancer
and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this extended
SDR domain. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 34.9 bits (81), Expect = 0.071
Identities = 45/222 (20%), Positives = 74/222 (33%), Gaps = 68/222 (30%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TGATG LG+ L+ L V R +++ ++D + D A+
Sbjct: 2 ILITGATGMLGRALVRLLKERGYEV---IGTGR---SRASLFKLD-LTDPDAVEEAI--- 51
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDE---ELKEAIRTNMCATQTMLD 216
PD+ + +CAA R D+ + + A R N+ A + +
Sbjct: 52 ----RDYKPDV----------------IINCAAYTRVDKCESDPELAYRVNVLAPENLAR 91
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERL 276
AK+ ++ST + +K Y E D +P
Sbjct: 92 AAKEVGAR--LIHISTDYVFDGKKG----------PYKE------EDAPNP--------- 124
Query: 277 SHENMNTYTLTKAAAEQLLCEEAQFFP-VCIFRPSIVISTWK 317
+N Y +K E + P I R S + K
Sbjct: 125 ----LNVYGKSKLLGEVAV---LNANPRYLILRTSWLYGELK 159
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 34.5 bits (80), Expect = 0.092
Identities = 21/141 (14%), Positives = 49/141 (34%), Gaps = 32/141 (22%)
Query: 96 EGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLK 155
+ +L+TGA+G +G+ L E L + R +++ + + + ++
Sbjct: 4 KDKRVLLTGASGGIGQALAEALAAAGAR-----LLLVGRNAEKLEALAARLPYPGRHRW- 57
Query: 156 FTCSTSKESAQAPDLGLSPDDKRLVT-----SKVNLVFHCAATLRF-------DEELKEA 203
DL + ++ +N++ + A F E ++
Sbjct: 58 ----------VVADLTSEAGREAVLARAREMGGINVLINNAGVNHFALLEDQDPEAIERL 107
Query: 204 IRTN----MCATQTMLDLAKQ 220
+ N M T+ +L L +
Sbjct: 108 LALNLTAPMQLTRALLPLLRA 128
>gnl|CDD|224013 COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 34.9 bits (81), Expect = 0.10
Identities = 33/140 (23%), Positives = 55/140 (39%), Gaps = 23/140 (16%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVA---ISLKF 156
IL+TG GF+G + +L P V+ +DK+ T A +L
Sbjct: 3 ILVTGGAGFIGSNFVRYILNKHPDDH---VVN-----------LDKL--TYAGNLENLAD 46
Query: 157 TCSTSKESAQAPDLGLSPDDKRLVT-SKVNLVFHCAATLRFDEELKEA---IRTNMCATQ 212
+ + D+ RL + + V H AA D + I+TN+ T
Sbjct: 47 VEDSPRYRFVQGDICDRELVDRLFKEYQPDAVVHFAAESHVDRSIDGPAPFIQTNVVGTY 106
Query: 213 TMLDLAKQCKNLKMFTYVST 232
T+L+ A++ F ++ST
Sbjct: 107 TLLEAARKYWGKFRFHHIST 126
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar
epimerase [General function prediction only].
Length = 297
Score = 34.2 bits (79), Expect = 0.14
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQS 56
IL+TG TG +G+ L +L + + ++ R S
Sbjct: 1 ILITGGTGLIGRALTARLRKG---GHQVTILTRRPPKAS 36
Score = 34.2 bits (79), Expect = 0.14
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQS 138
IL+TG TG +G+ L +L + + ++ R S
Sbjct: 1 ILITGGTGLIGRALTARLRKG---GHQVTILTRRPPKAS 36
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 34.1 bits (78), Expect = 0.16
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
IL+TGATGF+G ++ +LL V VR
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEV---RAAVR 32
Score = 34.1 bits (78), Expect = 0.16
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 132
IL+TGATGF+G ++ +LL V VR
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEV---RAAVR 32
>gnl|CDD|187549 cd05238, Gne_like_SDR_e, Escherichia coli Gne (a
nucleoside-diphosphate-sugar 4-epimerase)-like, extended
(e) SDRs. Nucleoside-diphosphate-sugar 4-epimerase has
the characteristic active site tetrad and NAD-binding
motif of the extended SDR, and is related to more
specifically defined epimerases such as UDP-glucose 4
epimerase (aka UDP-galactose-4-epimerase), which
catalyzes the NAD-dependent conversion of UDP-galactose
to UDP-glucose, the final step in Leloir galactose
synthesis. This subgroup includes Escherichia coli
055:H7 Gne, a UDP-GlcNAc 4-epimerase, essential for O55
antigen synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 33.9 bits (78), Expect = 0.17
Identities = 33/137 (24%), Positives = 55/137 (40%), Gaps = 26/137 (18%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
+L+TGA+GF+G+ L E+LL P + I + V + K S R+ T
Sbjct: 3 VLITGASGFVGQRLAERLLSDVPNERLILIDVVSPKAPSGAPRV-------------TQI 49
Query: 160 TSKESAQAPD--LGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAI--RTNMCATQTML 215
+ A L D +VFH AA + E + R N+ T+ +L
Sbjct: 50 AGDLAVPALIEALANGRPD---------VVFHLAAIVSGGAEADFDLGYRVNVDGTRNLL 100
Query: 216 DLAKQCKNLKMFTYVST 232
+ ++ F + S+
Sbjct: 101 EALRKNGPKPRFVFTSS 117
Score = 32.0 bits (73), Expect = 0.83
Identities = 17/45 (37%), Positives = 27/45 (60%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRID 62
+L+TGA+GF+G+ L E+LL P + I + V + K S R+
Sbjct: 3 VLITGASGFVGQRLAERLLSDVPNERLILIDVVSPKAPSGAPRVT 47
>gnl|CDD|218047 pfam04367, DUF502, Protein of unknown function (DUF502).
Predicted to be an integral membrane protein.
Length = 108
Score = 32.1 bits (74), Expect = 0.17
Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 18/70 (25%)
Query: 18 ILMTG--ATGFLGKLLI---EKLLRSFPRVKTIYVIVR------AKKNQSPQQRIDKMLD 66
I + G A F+G+ L+ E+LL P V++IY V+ + ++
Sbjct: 8 IFLVGLLARNFIGRWLLSLGERLLNRIPLVRSIYSSVKQLVETLLGDKKKSFRK------ 61
Query: 67 TVAIIELIRN 76
V ++E R
Sbjct: 62 -VVLVEYPRP 70
Score = 32.1 bits (74), Expect = 0.19
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 100 ILMTG--ATGFLGKLLI---EKLLRSFPRVKTIY 128
I + G A F+G+ L+ E+LL P V++IY
Sbjct: 8 IFLVGLLARNFIGRWLLSLGERLLNRIPLVRSIY 41
>gnl|CDD|187569 cd05259, PCBER_SDR_a, phenylcoumaran benzylic ether reductase
(PCBER) like, atypical (a) SDRs. PCBER and
pinoresinol-lariciresinol reductases are
NADPH-dependent aromatic alcohol reductases, and are
atypical members of the SDR family. Other proteins in
this subgroup are identified as eugenol synthase. These
proteins contain an N-terminus characteristic of
NAD(P)-binding proteins and a small C-terminal domain
presumed to be involved in substrate binding, but they
do not have the conserved active site Tyr residue
typically found in SDRs. Numerous other members have
unknown functions. The glycine rich NADP-binding motif
in this subgroup is of 2 forms: GXGXXG and G[GA]XGXXG;
it tends to be atypical compared with the forms
generally seen in classical or extended SDRs. The usual
SDR active site tetrad is not present, but a critical
active site Lys at the usual SDR position has been
identified in various members, though other charged and
polar residues are found at this position in this
subgroup. Atypical SDR-related proteins retain the
Rossmann fold of the SDRs, but have limited sequence
identity and generally lack the catalytic properties of
the archetypical members. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 282
Score = 33.4 bits (77), Expect = 0.26
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQR 60
I + GATG LG ++ LL S P T+ V+ R S + +
Sbjct: 2 IAIAGATGTLGGPIVSALLAS-PGF-TVTVLTRPSSTSSNEFQ 42
Score = 33.4 bits (77), Expect = 0.26
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQR 142
I + GATG LG ++ LL S P T+ V+ R S + +
Sbjct: 2 IAIAGATGTLGGPIVSALLAS-PGF-TVTVLTRPSSTSSNEFQ 42
>gnl|CDD|130249 TIGR01181, dTDP_gluc_dehyt, dTDP-glucose 4,6-dehydratase. This
protein is related to UDP-glucose 4-epimerase (GalE) and
likewise has an NAD cofactor [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 317
Score = 32.7 bits (75), Expect = 0.38
Identities = 36/144 (25%), Positives = 56/144 (38%), Gaps = 31/144 (21%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG GF+G + +L P + VIV +DK+ T A +L
Sbjct: 2 ILVTGGAGFIGSNFVRYILNEHPDAE---VIV-----------LDKL--TYAGNL----E 41
Query: 160 TSKESAQAPDLGLSPDD-------KRLVT-SKVNLVFHCAATLRFDEELKEA---IRTNM 208
+ P D RL T + + V H AA D + I TN+
Sbjct: 42 NLADLEDNPRYRFVKGDIGDRELVSRLFTEHQPDAVVHFAAESHVDRSISGPAAFIETNV 101
Query: 209 CATQTMLDLAKQCKNLKMFTYVST 232
T T+L+ ++ + F ++ST
Sbjct: 102 VGTYTLLEAVRKYWHEFRFHHIST 125
>gnl|CDD|215100 PLN00198, PLN00198, anthocyanidin reductase; Provisional.
Length = 338
Score = 32.9 bits (75), Expect = 0.44
Identities = 38/135 (28%), Positives = 58/135 (42%), Gaps = 23/135 (17%)
Query: 104 GATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCSTSKE 163
G TGFL LLI+ LL+ V T VR +NQ + + + + + T +E
Sbjct: 16 GGTGFLASLLIKLLLQKGYAVNT---TVRDPENQKKIAHLRALQELGDLKIFGADLTDEE 72
Query: 164 SAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMC--ATQTMLDLAKQC 221
S +AP + +LVFH A + F E E +M A Q + ++ K C
Sbjct: 73 SFEAP------------IAGCDLVFHVATPVNFASEDPE---NDMIKPAIQGVHNVLKAC 117
Query: 222 ---KNLKMFTYVSTA 233
K++K S+A
Sbjct: 118 AKAKSVKRVILTSSA 132
>gnl|CDD|235595 PRK05762, PRK05762, DNA polymerase II; Reviewed.
Length = 786
Score = 32.9 bits (76), Expect = 0.54
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 342 VRTFLVDPD--VKADIVPADLVVNALICAPWNGHERFHKDPSCLP 384
+RTF +DPD V+ P + V A + G RF ++ LP
Sbjct: 430 IRTFNIDPDGLVEGLAQPPEESV-----AGFLGA-RFSREKHFLP 468
>gnl|CDD|200431 TIGR04180, EDH_00030, NAD dependent epimerase/dehydratase,
LLPSF_EDH_00030 family. This clade within the NAD
dependent epimerase/dehydratase superfamily (pfam01370)
is characterized by inclusion of its members within a
cassette of seven distinctive enzymes. These include
four genes homologous to the elements of the neuraminic
(sialic) acid biosynthesis cluster (NeuABCD), an
aminotransferase and a nucleotidyltransferase in
addition to the epimerase/dehydratase. Together it is
very likely that these enzymes direct the biosynthesis
of a nine-carbon sugar analagous to CMP-neuraminic
acid. These seven genes form the core of the cassette,
although they are often accompanied by additional genes
that may further modify the product sugar. Although
this cassette is widely distributed in bacteria, the
family nomenclature arises from the instance in
Leptospira interrogans serovar Lai, str. 56601, where
it appears as the 30th gene in the 91-gene
lipopolysaccharide biosynthesis cluster.
Length = 297
Score = 31.5 bits (72), Expect = 0.94
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVK 43
+L+TGA GF+G L+E L+R V+
Sbjct: 1 VLVTGADGFIGSHLVEALVRQGYEVR 26
Score = 31.5 bits (72), Expect = 0.94
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVK 125
+L+TGA GF+G L+E L+R V+
Sbjct: 1 VLVTGADGFIGSHLVEALVRQGYEVR 26
>gnl|CDD|132628 TIGR03589, PseB, UDP-N-acetylglucosamine 4,6-dehydratase. This
enzyme catalyzes the first step in the biosynthesis of
pseudaminic acid, the conversion of
UDP-N-acetylglucosamine to
UDP-4-keto-6-deoxy-N-acetylglucosamine. These sequences
are members of the broader pfam01073 (3-beta
hydroxysteroid dehydrogenase/isomerase family) family.
Length = 324
Score = 31.6 bits (72), Expect = 1.0
Identities = 37/130 (28%), Positives = 54/130 (41%), Gaps = 23/130 (17%)
Query: 94 FYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAIS 153
+ IL+TG TG GK I +LL ++ K I + R + Q Q+ A
Sbjct: 1 MFNNKSILITGGTGSFGKAFISRLLENY-NPKKIIIYSRDELKQWEMQQ-----KFPAPC 54
Query: 154 LKFTCSTSKESAQAPDLGLSPDDKRLVTS--KVNLVFHCAATLRFDE-ELK--EAIRTNM 208
L+F +G D +RL + V+ V H AA + E E IRTN+
Sbjct: 55 LRFF------------IGDVRDKERLTRALRGVDYVVHAAALKQVPAAEYNPFECIRTNI 102
Query: 209 CATQTMLDLA 218
Q ++D A
Sbjct: 103 NGAQNVIDAA 112
Score = 29.7 bits (67), Expect = 4.5
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 12 FYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQR 60
+ IL+TG TG GK I +LL ++ K I + R + Q Q+
Sbjct: 1 MFNNKSILITGGTGSFGKAFISRLLENY-NPKKIIIYSRDELKQWEMQQ 48
>gnl|CDD|223547 COG0471, CitT, Di- and tricarboxylate transporters [Inorganic ion
transport and metabolism].
Length = 461
Score = 31.5 bits (72), Expect = 1.1
Identities = 27/131 (20%), Positives = 43/131 (32%), Gaps = 8/131 (6%)
Query: 15 GAEILMTGATGFLGKLLI---EKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAII 71
G + + T FL P + ++ ++ + +R+ + A I
Sbjct: 122 GLALGLVLLTLFLSPAFPSNTATGGIMLPLILSLSPLLGSPPRDKIGKRLILGIALAANI 181
Query: 72 ----ELIRNRPNQTIMGTASPPSLDDFYEGAEILMTGATGFLGKLLI-EKLLRSFPRVKT 126
I N PN G +P SL +L G L LL+ KL +T
Sbjct: 182 GSALTPIGNPPNIIAAGLLNPISLSWGEWFLAMLPLGILLLLLLLLLLYKLFPPREIKET 241
Query: 127 IYVIVRAKKNQ 137
V AK+
Sbjct: 242 PNNPVAAKREL 252
>gnl|CDD|187545 cd05234, UDP_G4E_2_SDR_e, UDP-glucose 4 epimerase, subgroup 2,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
archaeal and bacterial proteins, and has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 31.1 bits (71), Expect = 1.4
Identities = 46/220 (20%), Positives = 76/220 (34%), Gaps = 53/220 (24%)
Query: 99 EILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTC 158
IL+TG GF+G L+++LL V + + ++ + +K V K
Sbjct: 1 RILVTGGAGFIGSHLVDRLLEEGNEVVVVDNLSSGRRENIEPEFENKAFRFV----KRDL 56
Query: 159 STSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAAT--LRFDE-ELKEAIRTNMCATQTML 215
+ + D + VFH AA +R + + N+ AT +L
Sbjct: 57 LDTADKVAKKD--------------GDTVFHLAANPDVRLGATDPDIDLEENVLATYNVL 102
Query: 216 DLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRER 275
+ + +K + S++ T Y E K T E
Sbjct: 103 EAMRA-NGVKRIVFASSS-----------------TVYGE-----------AKVIPTPED 133
Query: 276 LSHENMNTYTLTKAAAEQLLCEEAQFFPV--CIFR-PSIV 312
++ Y +K AAE L+ A F IFR +IV
Sbjct: 134 YPPLPISVYGASKLAAEALISAYAHLFGFQAWIFRFANIV 173
Score = 28.4 bits (64), Expect = 9.0
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 17 EILMTGATGFLGKLLIEKLLR 37
IL+TG GF+G L+++LL
Sbjct: 1 RILVTGGAGFIGSHLVDRLLE 21
>gnl|CDD|187541 cd05230, UGD_SDR_e, UDP-glucuronate decarboxylase (UGD) and related
proteins, extended (e) SDRs. UGD catalyzes the
formation of UDP-xylose from UDP-glucuronate; it is an
extended-SDR, and has the characteristic glycine-rich
NAD-binding pattern, TGXXGXXG, and active site tetrad.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 31.1 bits (71), Expect = 1.5
Identities = 28/126 (22%), Positives = 50/126 (39%), Gaps = 25/126 (19%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
IL+TG GFLG L ++LL VI ++ I+ ++ F
Sbjct: 3 ILITGGAGFLGSHLCDRLLE-----DGHEVICVDNFFTGRKRNIEHLIG----HPNFEF- 52
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFH--C-AATLRFDEELKEAIRTNMCATQTMLD 216
+ D + +V+ ++H C A+ + + + ++TN+ T ML
Sbjct: 53 ------------IRHDVTEPLYLEVDQIYHLACPASPVHYQYNPIKTLKTNVLGTLNMLG 100
Query: 217 LAKQCK 222
LAK+
Sbjct: 101 LAKRVG 106
Score = 30.7 bits (70), Expect = 1.9
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 18 ILMTGATGFLGKLLIEKLLR 37
IL+TG GFLG L ++LL
Sbjct: 3 ILITGGAGFLGSHLCDRLLE 22
>gnl|CDD|215072 PLN00141, PLN00141, Tic62-NAD(P)-related group II protein;
Provisional.
Length = 251
Score = 30.6 bits (69), Expect = 1.7
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 18 ILMTGATGFLGKLLIEKLL-RSFPRVKTIYVIVRAKKN--QSPQQRI---DKMLDTVAII 71
+ + GATG GK ++E+LL + F + + +AK + Q P +I D + ++
Sbjct: 20 VFVAGATGRTGKRIVEQLLAKGFAVKAGVRDVDKAKTSLPQDPSLQIVRADVTEGSDKLV 79
Query: 72 ELIRNRPNQTIMGTASPPSLDDF 94
E I + + I T S D F
Sbjct: 80 EAIGDDSDAVICATGFRRSFDPF 102
>gnl|CDD|224005 COG1079, COG1079, Uncharacterized ABC-type transport system,
permease component [General function prediction only].
Length = 304
Score = 30.2 bits (69), Expect = 2.3
Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 16/71 (22%)
Query: 74 IRNRPNQTIMGTASPPSLDDFYEGAEILMTGATGFLGKLLIEKLLRSF-----PRVKTIY 128
I+ R NQ I G A +L +G T FLG+ + + +F P + I
Sbjct: 85 IKLRANQIISGLA-----------LNLLASGLTAFLGQSIFGQPGTTFQPIDIPGLSDIP 133
Query: 129 VIVRAKKNQSP 139
VI A QSP
Sbjct: 134 VIGPALFGQSP 144
>gnl|CDD|234525 TIGR04259, oxa_formateAnti, oxalate/formate antiporter. This model
represents a subgroup of the more broadly defined model
TIGR00890, which in turn belongs to the Major
Facilitator transporter family. Seed members for this
family include the known oxalate/formate antiporter of
Oxalobacter formigenes, as well as transporter subunits
co-clustered with the two genes of a system that
decarboxylates oxalate into formate. In many of these
cassettes, two subunits are found rather than one,
suggesting the antiporter is sometimes homodimeric,
sometimes heterodimeric.
Length = 405
Score = 30.5 bits (69), Expect = 2.4
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 307 FRPSIVISTWKEPIPGWIDNLYGP 330
F +V TW PI GW + YGP
Sbjct: 44 FTLFVVTETWLVPIEGWFVDKYGP 67
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
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 KRs 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 = 375
Score = 30.4 bits (69), Expect = 2.7
Identities = 28/165 (16%), Positives = 47/165 (28%), Gaps = 32/165 (19%)
Query: 84 GTASPPSLDDFYEGAEILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRI 143
A+P LD Y L+TG G LG L+ L + + ++ R + P R
Sbjct: 142 LAAAPGGLDGTY-----LITGGLGGLGLLVARWLAAR--GARHLVLLSR----RGPAPRA 190
Query: 144 DKMLD-TVAISLKFTCSTSKESAQAPDLGLSPDDKRLVTS-----KVNLVFHCAATLRF- 196
A + + D+ L+ + V H A LR
Sbjct: 191 AARAALLRAGGARVS-------VVRCDVTDPAALAALLAELAAGGPLAGVIHAAGVLRDA 243
Query: 197 ------DEELKEAIRTNMCATQTMLDLAKQCKNLKMFTYVSTAFS 235
+ + + +L L F S+ +
Sbjct: 244 LLAELTPAAFAAVLAAKVAGALNLHELTPDL-PLDFFVLFSSVAA 287
>gnl|CDD|239170 cd02769, MopB_DMSOR-BSOR-TMAOR, The MopB_DMSOR-BSOR-TMAOR CD
contains dimethylsulfoxide reductase (DMSOR), biotin
sulfoxide reductase (BSOR), trimethylamine N-oxide
reductase (TMAOR) and other related proteins. DMSOR
always catalyzes the reduction of DMSO to
dimethylsulfide, but its cellular location and
oligomerization state are organism-dependent. For
example, in Rhodobacter sphaeriodes and Rhodobacter
capsulatus, it is an 82-kDa monomeric soluble protein
found in the periplasmic space; in E. coli, it is
membrane-bound and exists as a heterotrimer. BSOR
catalyzes the reduction of biotin sulfixode to biotin,
and is unique among Mo enzymes because no additional
auxiliary proteins or cofactors are required. TMAOR is
similar to DMSOR, but its only natural substrate is
TMAO. Members of this CD belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 609
Score = 30.3 bits (69), Expect = 2.9
Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 408 EGVKIPSSQTRTNLLQDGQGSVRSRT-IQYPGVGVGQLQRAVHVDPSTRG 456
E PS LL +V S T I+YP V G L++ D S RG
Sbjct: 25 EEDPDPSP-----LLDGVPDAVYSPTRIKYPMVRRGWLEKGPGSDRSLRG 69
>gnl|CDD|187798 cd09667, Csb2_I-U, CRISPR/Cas system-associated protein Csb2.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Duplicated RAMP domains; also known as GSU0054 family.
Length = 418
Score = 30.2 bits (68), Expect = 3.0
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 472 RLSAREWEWDNSNVQSMWTLVPAGDRV 498
LS R+ + + +L+PA D++
Sbjct: 279 ALSGRDLAKGAPDKGGLLSLLPASDKM 305
>gnl|CDD|187575 cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in
this subgroup are poorly defined and have been
identified putatively as isoflavones reductase, sugar
dehydratase, mRNA binding protein etc. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
retain the canonical active site triad (though not the
upstream Asn found in most SDRs) but have an unusual
putative glycine-rich NAD(P)-binding motif, GGXXXXG, in
the usual location. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 250
Score = 30.0 bits (68), Expect = 3.1
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 284 YTLTKAAAEQLLCEEAQFFPVCIFRPSIV 312
Y K AAE +L E A F P I RP +
Sbjct: 129 YGRGKRAAEDVLIEAAAF-PYTIVRPPYI 156
>gnl|CDD|218167 pfam04599, Pox_G5, Poxvirus G5 protein. This protein has been
predicted to be related to the FEN-1 endonuclease.
Length = 426
Score = 30.0 bits (68), Expect = 3.2
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 232 TAFSNSYRKNIEEI--IYKAHTHYSELLKISKLDVDDPKYQETRERL 276
+ N+ ++ EEI + A I LDV+D Y+E + L
Sbjct: 89 NSLKNTSKRKTEEIENLEDA---------IKNLDVEDEMYEEIKTDL 126
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 29.6 bits (67), Expect = 3.3
Identities = 41/211 (19%), Positives = 62/211 (29%), Gaps = 68/211 (32%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCS 159
I + GATG G+ L+++LL R + + R +P + + V L
Sbjct: 1 IAVIGATGKTGRRLVKELLA---RGHQVTALSR-----NPSKAPAPGVTPVQKDL----- 47
Query: 160 TSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAATLRFDEELKEAIRTNMCATQTMLDLAK 219
+ A L + V+ V D + + +LD A
Sbjct: 48 -FDLADLAEAL-----------AGVDAVVDAFGARPDDSD----------GVKHLLDAAA 85
Query: 220 QCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVDDPKYQETRERLSHE 279
+ ++ VS A L D+P T
Sbjct: 86 RAGVRRIVV-VSAAG---------------------------LYRDEPG---TFRLDDAP 114
Query: 280 NMNTYTLTKAAAEQLLCEEAQFFPVCIFRPS 310
Y KAAAE+LL A I RP
Sbjct: 115 LFPPYARAKAAAEELL--RASGLDWTIVRPG 143
Score = 28.4 bits (64), Expect = 6.2
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 18 ILMTGATGFLGKLLIEKLLR 37
I + GATG G+ L+++LL
Sbjct: 1 IAVIGATGKTGRRLVKELLA 20
>gnl|CDD|187562 cd05252, CDP_GD_SDR_e, CDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains CDP-D-glucose
4,6-dehydratase, an extended SDR, which catalyzes the
conversion of CDP-D-glucose to
CDP-4-keto-6-deoxy-D-glucose. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 336
Score = 29.6 bits (67), Expect = 4.4
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 12 FYEGAEILMTGATGFLG 28
F++G +L+TG TGF G
Sbjct: 1 FWQGKRVLVTGHTGFKG 17
Score = 29.6 bits (67), Expect = 4.4
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 94 FYEGAEILMTGATGFLG 110
F++G +L+TG TGF G
Sbjct: 1 FWQGKRVLVTGHTGFKG 17
>gnl|CDD|187560 cd05250, CC3_like_SDR_a, CC3(TIP30)-like, atypical (a) SDRs.
Atypical SDRs in this subgroup include CC3 (also known
as TIP30) which is implicated in tumor suppression.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine rich NAD(P)-binding
motif that resembles the extended SDRs, and have an
active site triad of the SDRs (YXXXK and upstream Ser),
although the upstream Asn of the usual SDR active site
is substituted with Asp. For CC3, the Tyr of the triad
is displaced compared to the usual SDRs and the protein
is monomeric, both these observations suggest that the
usual SDR catalytic activity is not present. NADP
appears to serve an important role as a ligand, and may
be important in the interaction with other
macromolecules. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 214
Score = 29.2 bits (66), Expect = 4.5
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 19 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 50
L+ GATG +GK L+ +LL+S P + IVR
Sbjct: 4 LVLGATGLVGKHLLRELLKS-PYYSKVTAIVR 34
Score = 29.2 bits (66), Expect = 4.5
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 101 LMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR 132
L+ GATG +GK L+ +LL+S P + IVR
Sbjct: 4 LVLGATGLVGKHLLRELLKS-PYYSKVTAIVR 34
>gnl|CDD|187553 cd05242, SDR_a8, atypical (a) SDRs, subgroup 8. This subgroup
contains atypical SDRs of unknown function. Proteins in
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that resembles that of the extended SDRs,
(GXXGXXG or GGXGXXG), but lacks the characteristic
active site residues of the SDRs. A Cys often replaces
the usual Lys of the YXXXK active site motif, while the
upstream Ser is generally present and Arg replaces the
usual Asn. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 296
Score = 29.5 bits (67), Expect = 4.7
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR-AKKNQSPQQRI 61
I++TG TGF+G+ L +L + V+ R K + + I
Sbjct: 2 IVITGGTGFIGRALTRRLTA---AGHEVVVLSRRPGKAEGLAEVI 43
Score = 29.5 bits (67), Expect = 4.7
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVR-AKKNQSPQQRI 143
I++TG TGF+G+ L +L + V+ R K + + I
Sbjct: 2 IVITGGTGFIGRALTRRLTA---AGHEVVVLSRRPGKAEGLAEVI 43
>gnl|CDD|187556 cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup
contains atypical SDRs, one member is identified as
Escherichia coli protein ybjT, function unknown.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine-rich NAD(P)-binding
motif consensus that generally matches the extended
SDRs, TGXXGXXG, but lacks the characteristic active
site residues of the SDRs. This subgroup has basic
residues (HXXXR) in place of the active site motif
YXXXK, these may have a catalytic role. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif
is often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 29.2 bits (66), Expect = 4.8
Identities = 12/45 (26%), Positives = 26/45 (57%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRID 62
+L+TGATG++G L+ +LL+ +V+ + ++ +R+
Sbjct: 1 VLVTGATGYVGGRLVPRLLQEGHQVRALVRSPEKLADRPWSERVT 45
Score = 29.2 bits (66), Expect = 4.8
Identities = 12/45 (26%), Positives = 26/45 (57%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRID 144
+L+TGATG++G L+ +LL+ +V+ + ++ +R+
Sbjct: 1 VLVTGATGYVGGRLVPRLLQEGHQVRALVRSPEKLADRPWSERVT 45
>gnl|CDD|187570 cd05260, GDP_MD_SDR_e, GDP-mannose 4,6 dehydratase, extended (e)
SDRs. GDP-mannose 4,6 dehydratase, a homodimeric SDR,
catalyzes the NADP(H)-dependent conversion of
GDP-(D)-mannose to GDP-4-keto, 6-deoxy-(D)-mannose in
the fucose biosynthesis pathway. These proteins have
the canonical active site triad and NAD-binding
pattern, however the active site Asn is often missing
and may be substituted with Asp. A Glu residue has been
identified as an important active site base. Extended
SDRs are distinct from classical SDRs. In addition to
the Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 316
Score = 29.1 bits (66), Expect = 5.9
Identities = 19/60 (31%), Positives = 24/60 (40%), Gaps = 8/60 (13%)
Query: 18 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSP--QQRIDKMLDTVAIIELIR 75
L+TG TG G L E LL + ++ IVR S RID + I L
Sbjct: 2 ALITGITGQDGSYLAEFLLE---KGYEVHGIVR---RSSSFNTDRIDHLYINKDRITLHY 55
Score = 29.1 bits (66), Expect = 6.7
Identities = 34/155 (21%), Positives = 54/155 (34%), Gaps = 28/155 (18%)
Query: 100 ILMTGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQ----QRIDKMLDTVAISLK 155
L+TG TG G L E LL + ++ IVR + + I+K T+
Sbjct: 2 ALITGITGQDGSYLAEFLLE---KGYEVHGIVRRSSSFNTDRIDHLYINKDRITL-HYGD 57
Query: 156 FTCSTSKESAQAPDLGLSPDDKRLVTSKVNLVFHCAA----TLRFDEELKEAIRTNMCAT 211
T S+S A + + + ++H AA + FD+ N T
Sbjct: 58 LTDSSSLRRA-------------IEKVRPDEIYHLAAQSHVKVSFDDPE-YTAEVNAVGT 103
Query: 212 QTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEII 246
+L+ + F S+ S Y K E
Sbjct: 104 LNLLEAIRILGLDARFYQASS--SEEYGKVQELPQ 136
>gnl|CDD|222984 PHA03100, PHA03100, ankyrin repeat protein; Provisional.
Length = 422
Score = 29.2 bits (66), Expect = 6.0
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 217 LAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLK-ISKLDV 264
L++ N + Y ++ Y K I+++I KA + K I KL+
Sbjct: 338 LSRYVNNKSVTKYTTSKI---YGKYIKKVINKAIERKKLIKKIIKKLNN 383
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1
alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like,
atypical (a) SDRs. This subgroup of extended SDR-like
proteins are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif
is often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 29.1 bits (66), Expect = 6.1
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 18 ILMTGATGFLGKLLIEKLLRS 38
+ + GATGF+G+ ++ +L +
Sbjct: 3 VTVFGATGFIGRYVVNRLAKR 23
Score = 29.1 bits (66), Expect = 6.1
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 100 ILMTGATGFLGKLLIEKLLRS 120
+ + GATGF+G+ ++ +L +
Sbjct: 3 VTVFGATGFIGRYVVNRLAKR 23
>gnl|CDD|187661 cd08958, FR_SDR_e, flavonoid reductase (FR), extended (e) SDRs.
This subgroup contains FRs of the extended SDR-type and
related proteins. These FRs act in the NADP-dependent
reduction of flavonoids, ketone-containing plant
secondary metabolites; they have the characteristic
active site triad of the SDRs (though not the upstream
active site Asn) and a NADP-binding motif that is very
similar to the typical extended SDR motif. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 29.1 bits (66), Expect = 6.2
Identities = 50/218 (22%), Positives = 79/218 (36%), Gaps = 72/218 (33%)
Query: 103 TGATGFLGKLLIEKLLRSFPRVKTIYVIVRAKKNQSPQQRIDKMLDTVAISLKFTCSTSK 162
TGA+GF+G L+++LL+ R T VRA TV
Sbjct: 4 TGASGFIGSWLVKRLLQ---RGYT----VRA---------------TVR-------DPGD 34
Query: 163 ESAQAPDLGLSPDDKRLVTSKVNL---------------VFHCAATLRFD------EELK 201
E A L L +RL K +L VFH A+ + FD E ++
Sbjct: 35 EKKVAHLLELEGAKERLKLFKADLLDYGSFDAAIDGCDGVFHVASPVDFDSEDPEEEMIE 94
Query: 202 EAIRTNMCATQTMLDLAKQCKNLKMFTYVSTAFSNSYRKNIEEIIYKAHTHYSELLKISK 261
A++ T +L+ + K++K + S+ + + N E + +S
Sbjct: 95 PAVK----GTLNVLEACAKAKSVKRVVFTSSVAAVVWNPNRGEGKVVDESCWS------- 143
Query: 262 LDVDDPKYQETRERLSHENMNTYTLTKAAAEQLLCEEA 299
D+D K + Y L+K AE+ E A
Sbjct: 144 -DLDFCK----------KTKLWYALSKTLAEKAAWEFA 170
>gnl|CDD|145227 pfam01939, DUF91, Protein of unknown function DUF91. The function
of this prokaryotic protein is unknown.
Length = 228
Score = 28.6 bits (64), Expect = 7.4
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 3/64 (4%)
Query: 55 QSPQQRIDKMLDTVAIIELIRNRPNQTIMGTASPPSLDDFYEGA---EILMTGATGFLGK 111
Q P + ++ + IR +P + + + E+ +TG+ +
Sbjct: 52 QPPGSWLTEVSGGENSLISIRRKPGERLEVEIEEVYHVSVFLAEDYEELALTGSEAEMAA 111
Query: 112 LLIE 115
L+ E
Sbjct: 112 LIFE 115
>gnl|CDD|165411 PHA03139, PHA03139, helicase-primase primase subunit; Provisional.
Length = 860
Score = 28.8 bits (64), Expect = 8.3
Identities = 29/115 (25%), Positives = 46/115 (40%), Gaps = 18/115 (15%)
Query: 218 AKQCKNL---KMFTYV---------STAFSNSYRKNIEEIIYKAHTHYSELLKISKLDVD 265
A+Q KNL + F Y+ S+ +N++R + I Y ++ + L
Sbjct: 217 ARQ-KNLRDKEEFKYLDTQINLFRKSSHLTNTFRVHYIYIAYNTALETTKFVNYCNLTSY 275
Query: 266 DPKYQETRERLSHENMNTYTLTKAAAEQLLCEEAQFFPV-CIFRPSIVISTWKEP 319
D ++ NM + L + E LLC Q+F C F+ I I K P
Sbjct: 276 DSNLPIGQQ--CQRNM--HILGNSLHENLLCIMKQYFNADCYFKTYIDIKRLKNP 326
>gnl|CDD|187572 cd05262, SDR_a7, atypical (a) SDRs, subgroup 7. This subgroup
contains atypical SDRs of unknown function. Members of
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that matches the extended SDRs, TGXXGXXG, but
lacks the characteristic active site residues of the
SDRs. This subgroup has basic residues (HXXXR) in place
of the active site motif YXXXK, these may have a
catalytic role. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 291
Score = 28.5 bits (64), Expect = 8.3
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 17 EILMTGATGFLGKLLIEKLL 36
++ +TGATGF+G ++ +L+
Sbjct: 2 KVFVTGATGFIGSAVVRELV 21
Score = 28.5 bits (64), Expect = 8.3
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 99 EILMTGATGFLGKLLIEKLL 118
++ +TGATGF+G ++ +L+
Sbjct: 2 KVFVTGATGFIGSAVVRELV 21
>gnl|CDD|233001 TIGR00509, bisC_fam, molybdopterin guanine dinucleotide-containing
S/N-oxide reductases. This enzyme family shares
sequence similarity and a requirement for a molydenum
cofactor as the only prosthetic group. The form of the
cofactor is a single molybdenum atom coordinated by two
molybdopterin guanine dinucleotide molecules. Members of
the family include biotin sulfoxide reductase,
dimethylsulfoxide reductase, and trimethylamine-N-oxide
reductase, although a single member may show all those
activities and related activities; it may not be
possible to resolve the primary function for members of
this family by sequence comparison alone. A number of
similar molybdoproteins in which the N-terminal region
contains a CXXXC motif and may bind an iron-sulfur
cluster are excluded from this set, including formate
dehydrogenases and nitrate reductases. Also excluded is
the A chain of a heteromeric, anaerobic DMSO reductase,
which also contains the CXXXC motif.
Length = 770
Score = 29.0 bits (65), Expect = 9.3
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 398 WGEFITKSLKEGV----------KIPSSQTRTNLLQDGQGSVRSRT-IQYPGVGVGQLQR 446
WG F +++G P+ +L+ V S + I+YP V G L+
Sbjct: 4 WGVFTAT-VQDGRIVAVTPFESDPNPTP-----MLEGVPDQVYSESRIKYPMVRKGFLEN 57
Query: 447 AVHVDPSTRG 456
V D S RG
Sbjct: 58 GVKSDRSGRG 67
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 28.5 bits (64), Expect = 9.9
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 6/39 (15%)
Query: 82 IMGTASPPSLDDFYEGAEILMTGATGFLGKLLIEKLLRS 120
+MGTA SL +G + +TGA+G LG+ L+++L +
Sbjct: 169 LMGTAL--SL----KGKTVAVTGASGTLGQALLKELHQQ 201
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
0.319 0.135 0.405
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,074,445
Number of extensions: 2750287
Number of successful extensions: 2990
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2940
Number of HSP's successfully gapped: 154
Length of query: 545
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 443
Effective length of database: 6,413,494
Effective search space: 2841177842
Effective search space used: 2841177842
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (27.3 bits)