RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10632
(273 letters)
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad and
glycine-rich NAD-binding motif of the classical SDRs.
3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD type 12,
encoded by HSD17B12) acts in fatty acid elongation;
17beta- hydroxysteroid dehydrogenases are isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family.
17beta-estradiol dehydrogenase (aka 17beta-HSD type 1,
encoded by HSD17B1) converts estrone to estradiol.
Estradiol is the predominant female sex hormone.
17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup also
contains a putative steroid dehydrogenase let-767 from
Caenorhabditis elegans, mutation in which results in
hypersensitivity to cholesterol limitation. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 239
Score = 200 bits (511), Expect = 4e-64
Identities = 76/153 (49%), Positives = 97/153 (63%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VVTG TDGIG+AYA ELA+RG N++LISRT EKL AKEIE +GV+TK IA D S
Sbjct: 5 VVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEEKYGVETKTIAADFSAGD 64
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
E ++ +L + ILVNNVG S P+ E E E D +++NV+ T MT+LILP
Sbjct: 65 DIYERIEKELEGLDIGILVNNVGISHSIPEYFLETPEDELQDIINVNVMATLKMTRLILP 124
Query: 238 RMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
M +GAIVN+SS + P L Y+A+K
Sbjct: 125 GMVKRKKGAIVNISSFAGLIPTPLLATYSASKA 157
Score = 81.5 bits (202), Expect = 2e-18
Identities = 32/72 (44%), Positives = 46/72 (63%), Gaps = 4/72 (5%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYARSAVSTLGVTDTST 107
AL EY+ GI VQ + P V+TKM+ +R S FVP EQ+ RSA++TLG++ +T
Sbjct: 165 ALYEEYKSQGIDVQSLLPYLVATKMSK----IRKSSLFVPSPEQFVRSALNTLGLSKRTT 220
Query: 108 GFWVHGIQSFVV 119
G+W H +Q +V
Sbjct: 221 GYWSHALQGWVA 232
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 142 bits (361), Expect = 2e-41
Identities = 56/155 (36%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
++TG + GIG A +LARRG N++L++R +KL+ AKE+E GV+ ++I DLS
Sbjct: 9 ALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKTGVEVEVIPADLSDP 68
Query: 177 KAAIEAVKNQLGD--HPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ A+E ++++L + P+ +LVNN G E + E + + LN++ T +TK
Sbjct: 69 E-ALERLEDELKERGGPIDVLVNNAG--FGTFGPFLELSLDEEEEMIQLNILALTRLTKA 125
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP M + G G I+N+ S + P VY+ATK
Sbjct: 126 VLPGMVERGAGHIINIGSAAGLIPTPYMAVYSATK 160
Score = 31.4 bits (72), Expect = 0.42
Identities = 20/112 (17%), Positives = 36/112 (32%), Gaps = 21/112 (18%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKS------FFVPDAEQYARSAVSTLG 101
ALR E + G+ V + P T F + V E A +A+
Sbjct: 169 ALREELKGTGVKVTAVCPGPTRT---EFFDAKGSDVYLLSPGELVLSPEDVAEAAL---- 221
Query: 102 VTDTSTGFWVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKK 153
+ + ++ G + A + L R + L + +K K+
Sbjct: 222 -------KALEKGKREIIPGLPNKA-LALSFRLLPRSLREKLAGKIFKKKKR 265
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 234
Score = 121 bits (305), Expect = 2e-33
Identities = 55/156 (35%), Positives = 74/156 (47%), Gaps = 11/156 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
+VTG + GIGRA A LAR G +VL R E L + A G + D+S
Sbjct: 2 LVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAIEA--LGGNAVAVQADVSDEE 59
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+A +E + G + ILVNN G E+ E WD L +N+ L+T+
Sbjct: 60 DVEALVEEALEEFG--RLDILVNNAGIA---RPGPLEELTDEDWDRVLDVNLTGVFLLTR 114
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP MK G G IVN+SS++ P YAA+K
Sbjct: 115 AALPHMKKQGGGRIVNISSVAGLRPLPGQAAYAASK 150
Score = 33.0 bits (76), Expect = 0.10
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMN 73
+L +E YGI V +AP V T M
Sbjct: 159 SLALELAPYGIRVNAVAPGLVDTPML 184
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 104 bits (260), Expect = 7e-27
Identities = 57/156 (36%), Positives = 91/156 (58%), Gaps = 10/156 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
++TG GIGRA A LA+ G+N+ L++RT E LK A+E+E+ GV+ I D+S
Sbjct: 11 LITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAY-GVKVVIATADVSDYE 69
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETW-DTLSLNVVFTTLMTK 233
AAIE +KN+LG + IL+NN G +S + K L + + W + +N++ T+
Sbjct: 70 EVTAAIEQLKNELGS--IDILINNAG-ISKFGKFL--ELDPAEWEKIIQVNLMGVYYATR 124
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP M + G I+N+SS + A+ + Y+A+K
Sbjct: 125 AVLPSMIERQSGDIINISSTAGQKGAAVTSAYSASK 160
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 101 bits (253), Expect = 1e-25
Identities = 49/156 (31%), Positives = 74/156 (47%), Gaps = 10/156 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG + GIGRA A LA G +V+ E + A E+ + G + +++ D+S
Sbjct: 9 LVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAA-GGEARVLVFDVSDEA 67
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+A IEA G + ILVNN G +L +E WD + +N+ T + +
Sbjct: 68 AVRALIEAAVEAFG--ALDILVNNAG---ITRDALLPRMSEEDWDRVIDVNLTGTFNVVR 122
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP M G IVN+SS+S + Y+A K
Sbjct: 123 AALPPMIKARYGRIVNISSVSGVTGNPGQTNYSAAK 158
>gnl|CDD|223959 COG1028, FabG, Dehydrogenases with different specificities (related
to short-chain alcohol dehydrogenases) [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 251
Score = 100 bits (251), Expect = 2e-25
Identities = 51/157 (32%), Positives = 81/157 (51%), Gaps = 10/157 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT--LEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+VTG + GIGRA A LAR G +V+ +R E + A I+ G + +A D+S
Sbjct: 9 LVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAAAVAADVSD 68
Query: 176 TKAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMT 232
+ ++EA+ + + ILVNN G P + E+ +E WD + +N++ L+T
Sbjct: 69 DEESVEALVAAAEEEFGRIDILVNNAGIA--GPDAPLEELTEEDWDRVIDVNLLGAFLLT 126
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ LP MK + IVN+SS++ YAA+K
Sbjct: 127 RAALPLMK---KQRIVNISSVAGLGGPPGQAAYAASK 160
Score = 30.9 bits (70), Expect = 0.58
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMN 73
AL +E GI V +AP ++ T M
Sbjct: 169 ALALELAPRGIRVNAVAPGYIDTPMT 194
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 101 bits (254), Expect = 2e-25
Identities = 58/157 (36%), Positives = 91/157 (57%), Gaps = 4/157 (2%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHG-VQTKIIAVDLSG- 175
+VTG TDGIG+ +A +LAR+G+N+VL++R +KLK + I+S + Q K + VD SG
Sbjct: 57 LVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSKTQIKTVVVDFSGD 116
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
++ +K + V +L+NNVG Y + E E+ + + +NV TT +T+ +
Sbjct: 117 IDEGVKRIKETIEGLDVGVLINNVGVSYPYARFFHEVDEELLKNLIKVNVEGTTKVTQAV 176
Query: 236 LPRMKDNGRGAIVNVSSISEA--SPWALFNVYAATKT 270
LP M +GAI+N+ S + L+ VYAATK
Sbjct: 177 LPGMLKRKKGAIINIGSGAAIVIPSDPLYAVYAATKA 213
Score = 55.6 bits (134), Expect = 5e-09
Identities = 27/66 (40%), Positives = 39/66 (59%), Gaps = 4/66 (6%)
Query: 49 LRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYARSAVSTLGVTDTSTG 108
L VEY+K GI VQ P +V+TKM + +R SF VP ++ YAR+A+ +G T
Sbjct: 222 LYVEYKKSGIDVQCQVPLYVATKMAS----IRRSSFLVPSSDGYARAALRWVGYEPRCTP 277
Query: 109 FWVHGI 114
+W H +
Sbjct: 278 YWPHSL 283
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 97.3 bits (243), Expect = 3e-24
Identities = 46/155 (29%), Positives = 75/155 (48%), Gaps = 10/155 (6%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS---G 175
+TG + GIG+A A A+ G ++ L++R+ + L+ A E+ S GV+ ++DLS
Sbjct: 11 ITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELRST-GVKAAAYSIDLSNPEA 69
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKL 234
I + Q G +L+NN G +Y L E W + LN+
Sbjct: 70 IAPGIAELLEQFG--CPDVLINNAG--MAYTGPLLE-MPLSDWQWVIQLNLTSVFQCCSA 124
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP M+ G G I+NVSSI+ + + + Y +K
Sbjct: 125 VLPGMRARGGGLIINVSSIAARNAFPQWGAYCVSK 159
>gnl|CDD|187604 cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 97.0 bits (242), Expect = 4e-24
Identities = 53/161 (32%), Positives = 84/161 (52%), Gaps = 18/161 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIG A A A+ G ++L R E+L++ A E+ + V+ + +D+S
Sbjct: 4 LITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLPLQLDVSDR- 62
Query: 178 AAIEAVKNQLGDHP-----VHILVNNVG---SLSSYPKSLTEDTEKETWDT-LSLNVVFT 228
E+++ L + P + ILVNN G L ++ ED W+T + NV
Sbjct: 63 ---ESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLED-----WETMIDTNVKGL 114
Query: 229 TLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+T+LILP M +G I+N+ SI+ P+A NVY ATK
Sbjct: 115 LNVTRLILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATK 155
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 93.1 bits (232), Expect = 1e-22
Identities = 50/153 (32%), Positives = 77/153 (50%), Gaps = 6/153 (3%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIG A A LA G +VL +R E+L+ A EI + + + D + +
Sbjct: 10 LITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIGAGAALALALDVTDRAAVE 69
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLS-LNVVFTTLMTKLIL 236
AAIEA+ + G + ILVNN G ++ + + WD + NV T+ +L
Sbjct: 70 AAIEALPEEFGR--IDILVNNAG---LALGDPLDEADLDDWDRMIDTNVKGLLNGTRAVL 124
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P M + G I+N+ SI+ P+ VY ATK
Sbjct: 125 PGMVERKSGHIINLGSIAGRYPYPGGAVYGATK 157
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 92.3 bits (230), Expect = 2e-22
Identities = 45/157 (28%), Positives = 79/157 (50%), Gaps = 8/157 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQ-TKI--IAVDLS 174
++TG + GIG+A A EL + G N+++++R+ KL++ +EIE+ K+ I+ DLS
Sbjct: 5 LITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQKVSYISADLS 64
Query: 175 GTKAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
+ +A Q + P ++VN G S P + T +E + +N + +
Sbjct: 65 DYEEVEQAFA-QAVEKGGPPDLVVNCAG--ISIPGLFEDLTAEEFERGMDVNYFGSLNVA 121
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP MK+ G IV VSS + ++ Y +K
Sbjct: 122 HAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAYCPSK 158
>gnl|CDD|187602 cd05344, BKR_like_SDR_like, putative beta-ketoacyl acyl carrier
protein [ACP] reductase (BKR)-like, SDR. This subgroup
resembles the SDR family, but does not have a perfect
match to the NAD-binding motif or the catalytic tetrad
characteristic of the SDRs. It includes the SDRs, Q9HYA2
from Pseudomonas aeruginosa PAO1 and APE0912 from
Aeropyrum pernix K1. BKR catalyzes the NADPH-dependent
reduction of ACP in the first reductive step of de novo
fatty acid synthesis (FAS). FAS consists of four
elongation steps, which are repeated to extend the fatty
acid chain through the addition of two-carbo units from
malonyl acyl-carrier protein (ACP): condensation,
reduction, dehydration, and a final reduction. Type II
FAS, typical of plants and many bacteria, maintains
these activities on discrete polypeptides, while type I
FAS utilizes one or two multifunctional polypeptides.
BKR resembles enoyl reductase, which catalyzes the
second reduction step in FAS. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 92.0 bits (229), Expect = 3e-22
Identities = 47/151 (31%), Positives = 70/151 (46%), Gaps = 14/151 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
+VT + GIG A A LAR G + + +R E L++ A E+ G + DL+
Sbjct: 5 LVTAASSGIGLAIARALAREGARVAICARNRENLERAASEL-RAGGAGVLAVVADLTDPE 63
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTE---KETWDTLSLNVVFTTLM 231
+E + G V ILVNN G P E T+ E +D L+V+ +
Sbjct: 64 DIDRLVEKAGDAFG--RVDILVNNAGGPP--PGPFAELTDEDWLEAFDLKLLSVIR---I 116
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALF 262
+ +LP MK+ G G IVN+SS++ P
Sbjct: 117 VRAVLPGMKERGWGRIVNISSLTVKEPEPNL 147
>gnl|CDD|187593 cd05332, 11beta-HSD1_like_SDR_c, 11beta-hydroxysteroid
dehydrogenase type 1 (11beta-HSD1)-like, classical (c)
SDRs. Human 11beta_HSD1 catalyzes the NADP(H)-dependent
interconversion of cortisone and cortisol. This subgroup
also includes human dehydrogenase/reductase SDR family
member 7C (DHRS7C) and DHRS7B. These proteins have the
GxxxGxG nucleotide binding motif and S-Y-K catalytic
triad characteristic of the SDRs, but have an atypical
C-terminal domain that contributes to homodimerization
contacts. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 90.3 bits (225), Expect = 1e-21
Identities = 44/156 (28%), Positives = 73/156 (46%), Gaps = 7/156 (4%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
++TG + GIG A+ LAR G +VL +R E+L++ E L ++ +D+S
Sbjct: 6 VIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGAPSPHVVPLDMSDL 65
Query: 177 KAAIEAVK---NQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+ A + V+ G + IL+NN G S + + + +N +TK
Sbjct: 66 EDAEQVVEEALKLFGG--LDILINNAG--ISMRSLFHDTSIDVDRKIMEVNYFGPVALTK 121
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP + + +G+IV VSSI+ YAA+K
Sbjct: 122 AALPHLIERSQGSIVVVSSIAGKIGVPFRTAYAASK 157
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 88.0 bits (219), Expect = 2e-21
Identities = 42/157 (26%), Positives = 67/157 (42%), Gaps = 13/157 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGI-NIVLISRTL--EKLKKTAKEIESLHGVQTKIIAVDLS 174
++TG T G+G A A LA G ++VL+SR + E+E+L G + + A D++
Sbjct: 4 LITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEAL-GAEVTVAACDVA 62
Query: 175 GTKAAIEAVKNQL--GDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
+ A+ A+ L P+ +V+N G L L E T + L+ V +
Sbjct: 63 -DRDALAALLAALPAALGPLDGVVHNAGVLDD--GPLEELTPERFERVLAPKVTGAWNLH 119
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+L GA V SS++ YAA
Sbjct: 120 ELTRDL----DLGAFVLFSSVAGVLGSPGQANYAAAN 152
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 89.5 bits (223), Expect = 3e-21
Identities = 49/155 (31%), Positives = 70/155 (45%), Gaps = 8/155 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESL---HGVQTKIIAVDLS 174
+VTG + GIG A A G +V+ R E ++ A EI + V D +
Sbjct: 9 IVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAGGRAIAVAAD--VSDEA 66
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+AA+ A + G V ILVNN G+ L + E E ++NV L T+
Sbjct: 67 DVEAAVAAALERFGS--VDILVNNAGTTHRN-GPLLDVDEAEFDRIFAVNVKSPYLWTQA 123
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P M+ G GAIVNV+S + P Y A+K
Sbjct: 124 AVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNASK 158
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 88.4 bits (220), Expect = 7e-21
Identities = 51/162 (31%), Positives = 79/162 (48%), Gaps = 21/162 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+VTG + GIGRA A LA+ G +V+ E ++ +EI+ G + D+S
Sbjct: 9 IVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEE-GGDAIAVKADVSSE 67
Query: 175 -GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMT 232
+ +E + + G + ILVNN G +S++ L D E WD + +N+ L+T
Sbjct: 68 EDVENLVEQIVEKFG--KIDILVNNAG-ISNF--GLVTDMTDEEWDRVIDVNLTGVMLLT 122
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFN-----VYAATK 269
+ LP M G IVN+SSI W L +Y+A+K
Sbjct: 123 RYALPYMIKRKSGVIVNISSI-----WGLIGASCEVLYSASK 159
Score = 29.8 bits (68), Expect = 1.2
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSY 77
AL E GI V +AP + T+M +
Sbjct: 168 ALAKELAPSGIRVNAVAPGAIDTEMWSSFS 197
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 88.1 bits (219), Expect = 8e-21
Identities = 45/154 (29%), Positives = 76/154 (49%), Gaps = 7/154 (4%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
++TGC+ GIG A A LA +G ++ +R +KL+ + L +++ +D++
Sbjct: 3 VLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGE----LLNDNLEVLELDVTDE 58
Query: 177 KAAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
++ AVK + + +LVNN G L E + +E + +NV +T+
Sbjct: 59 ESIKAAVKEVIERFGRIDVLVNNAGY--GLFGPLEETSIEEVRELFEVNVFGPLRVTRAF 116
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP M+ G G IVNVSS++ P Y A+K
Sbjct: 117 LPLMRKQGSGRIVNVSSVAGLVPTPFLGPYCASK 150
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs. These
proteins are members of the SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 88.3 bits (219), Expect = 9e-21
Identities = 44/159 (27%), Positives = 77/159 (48%), Gaps = 11/159 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIG A A L + G+ +V +R ++K++ A E +S DLS +
Sbjct: 10 LVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGYPTLFPYQCDLSNEE 69
Query: 178 ---AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ A++ Q V + +NN G P+ L + + +NV+ ++ T+
Sbjct: 70 QILSMFSAIRTQHQG--VDVCINNAGLA--RPEPLLSGKTEGWKEMFDVNVLALSICTRE 125
Query: 235 ILPRMKDNG--RGAIVNVSSISEAS--PWALFNVYAATK 269
MK+ G I+N++S+S P ++F+ YAATK
Sbjct: 126 AYQSMKERNVDDGHIININSMSGHRVPPVSVFHFYAATK 164
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 87.0 bits (216), Expect = 2e-20
Identities = 51/157 (32%), Positives = 74/157 (47%), Gaps = 12/157 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG + GIG A LA G NIV+ SR EK ++ + IE GV+ D+S
Sbjct: 9 LVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKE-GVEATAFTCDVSDEE 67
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
KAA+EA++ G + ILVNN G E E E D + +N+ +++
Sbjct: 68 AIKAAVEAIEEDFG--KIDILVNNAG--IIRRHPAEEFPEAEWRDVIDVNLNGVFFVSQA 123
Query: 235 ILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
+ M G G I+N+ S+ P YAA+K
Sbjct: 124 VARHMIKQGHGKIINICSLLSELGGPPV--PAYAASK 158
Score = 31.6 bits (72), Expect = 0.37
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL E+ ++GI V IAP + +T+M
Sbjct: 167 ALATEWARHGIQVNAIAPGYFATEM 191
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 85.2 bits (212), Expect = 1e-19
Identities = 46/156 (29%), Positives = 68/156 (43%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG + GIGRA A LA +G N+V+ + E + G + + D+S
Sbjct: 9 LVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALGGKALAVQGDVSDAE 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+ A++ K + G V ILVNN G L E E WD + N+ +TK
Sbjct: 69 SVERAVDEAKAEFG--GVDILVNNAGITRD--NLLMRMKE-EDWDRVIDTNLTGVFNLTK 123
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ M G I+N+SS+ YAA+K
Sbjct: 124 AVARPMMKQRSGRIINISSVVGLMGNPGQANYAASK 159
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 85.5 bits (212), Expect = 1e-19
Identities = 47/137 (34%), Positives = 72/137 (52%), Gaps = 7/137 (5%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+ ++TG + GIG A A A G ++ L++R + L+ A ++ + HGV + A+DLS
Sbjct: 8 KRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVHALDLS 67
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTK 233
+ A E + + GD + ILVNN G++ P +D + W L V +T+
Sbjct: 68 -SPEAREQLAAEAGD--IDILVNNAGAI---PGGGLDDVDDAAWRAGWELKVFGYIDLTR 121
Query: 234 LILPRMKDNGRGAIVNV 250
L PRMK G G IVNV
Sbjct: 122 LAYPRMKARGSGVIVNV 138
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14, dehydrogenase/reductase
SDR family member (DHRS)-12 , -13 and -X (a DHRS on
chromosome X), and WWOX (WW domain-containing
oxidoreductase), as well as a Neurospora crassa SDR
encoded by the blue light inducible bli-4 gene. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 269
Score = 85.0 bits (211), Expect = 2e-19
Identities = 49/143 (34%), Positives = 76/143 (53%), Gaps = 14/143 (9%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKI--IAVDLS 174
V+TG GIG+ A ELA+RG ++++ R EK ++ A EI+ G K+ I +DLS
Sbjct: 4 VVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNA-KVEVIQLDLS 62
Query: 175 ---GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTED-TEKETWDTLSLNVVFTTL 230
+ E + + IL+NN G ++ P+ LT+D E ++N + L
Sbjct: 63 SLASVRQFAEEFLARF--PRLDILINNAGIMAP-PRRLTKDGFEL----QFAVNYLGHFL 115
Query: 231 MTKLILPRMKDNGRGAIVNVSSI 253
+T L+LP +K + IVNVSSI
Sbjct: 116 LTNLLLPVLKASAPSRIVNVSSI 138
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 83.4 bits (207), Expect = 4e-19
Identities = 45/147 (30%), Positives = 78/147 (53%), Gaps = 21/147 (14%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + GIGRA A +LA+ G +++ R+ E ++ +E+++ GV+ + D+S
Sbjct: 2 LVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAY-GVKALGVVCDVSDR 60
Query: 177 ---KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDT-----EKETWDT-LSLNVVF 227
KA +E ++ +LG P+ ILVNN G +T D ++E WD + N+
Sbjct: 61 EDVKAVVEEIEEELG--PIDILVNNAG--------ITRDNLLMRMKEEDWDAVIDTNLTG 110
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSIS 254
+T+ +L M G I+N+SS+
Sbjct: 111 VFNLTQAVLRIMIKQRSGRIINISSVV 137
Score = 27.6 bits (62), Expect = 6.8
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 52 EYQKYGITVQHIAPAFVSTKM 72
E ITV +AP F+ T M
Sbjct: 165 ELASRNITVNAVAPGFIDTDM 185
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 83.6 bits (207), Expect = 5e-19
Identities = 44/156 (28%), Positives = 74/156 (47%), Gaps = 8/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIE--SLHGVQTKIIAVDLSG 175
++TG + GIG A AR G + L R E+L++T + + + ++ DL+
Sbjct: 7 IITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLVVADLTE 66
Query: 176 TKAAIEAVKNQLGD-HPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+ + L + ILVNN G L+ K ED + E +D ++LN+ +TK
Sbjct: 67 EEGQDRIISTTLAKFGRLDILVNNAGILA---KGGGEDQDIEEYDKVMNLNLRAVIYLTK 123
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
L +P + +G IVNVSS++ + Y +K
Sbjct: 124 LAVPHLIKT-KGEIVNVSSVAGGRSFPGVLYYCISK 158
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 83.1 bits (206), Expect = 7e-19
Identities = 42/157 (26%), Positives = 80/157 (50%), Gaps = 8/157 (5%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+ ++TG + GIG+A A LA G ++L+ R EKL+ A + + + + + DL
Sbjct: 6 KRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLP--YPGRHRWVVADL- 62
Query: 175 GTKAAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTED-TEKETWDTLSLNVVFTTLMT 232
++A EAV + + +++L+NN G + + +L ED + L+LN+ +T
Sbjct: 63 TSEAGREAVLARAREMGGINVLINNAGV-NHF--ALLEDQDPEAIERLLALNLTAPMQLT 119
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ +LP ++ +VNV S + + + Y A+K
Sbjct: 120 RALLPLLRAQPSAMVVNVGSTFGSIGYPGYASYCASK 156
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 85.0 bits (211), Expect = 1e-18
Identities = 49/160 (30%), Positives = 77/160 (48%), Gaps = 14/160 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIGRA A ++A G + L++R E L + EI + G DL+ +
Sbjct: 375 LITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA-KGGTAHAYTCDLTDSA 433
Query: 178 AAIEAVKNQLGDHP-VHILVNNVGS------LSSYPKSLTEDTEKETWDTLSLNVVFTTL 230
A VK+ L +H V LVNN G +S + D E+ T+++N
Sbjct: 434 AVDHTVKDILAEHGHVDYLVNNAGRSIRRSVENSTDRF--HDYER----TMAVNYFGAVR 487
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
+ +LP M++ G +VNVSSI + F+ Y A+K
Sbjct: 488 LILGLLPHMRERRFGHVVNVSSIGVQTNAPRFSAYVASKA 527
>gnl|CDD|212493 cd08932, HetN_like_SDR_c, HetN oxidoreductase-like, classical (c)
SDR. This subgroup includes Anabaena sp. strain PCC
7120 HetN, a putative oxidoreductase involved in
heterocyst differentiation, and related proteins. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 223
Score = 81.6 bits (202), Expect = 1e-18
Identities = 40/153 (26%), Positives = 72/153 (47%), Gaps = 8/153 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIG A LAR G + L R E L + + V A D +
Sbjct: 4 LVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSASGGDVEAVP--YDARDPEDAR 61
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLIL 236
A ++A++++ G + +LV+N G + + + S+NV+ +T+ +L
Sbjct: 62 ALVDALRDRFG--RIDVLVHNAGIGR---PTTLREGSDAELEAHFSINVIAPAELTRALL 116
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P +++ G G +V ++S+S A Y+A+K
Sbjct: 117 PALREAGSGRVVFLNSLSGKRVLAGNAGYSASK 149
>gnl|CDD|187597 cd05338, DHRS1_HSDL2-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) and human hydroxysteroid
dehydrogenase-like protein 2 (HSDL2), classical (c)
SDRs. This subgroup includes human DHRS1 and human
HSDL2 and related proteins. These are members of the
classical SDR family, with a canonical Gly-rich
NAD-binding motif and the typical YXXXK active site
motif. However, the rest of the catalytic tetrad is not
strongly conserved. DHRS1 mRNA has been detected in many
tissues, liver, heart, skeletal muscle, kidney and
pancreas; a longer transcript is predominantly expressed
in the liver , a shorter one in the heart. HSDL2 may
play a part in fatty acid metabolism, as it is found in
peroxisomes. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 82.1 bits (203), Expect = 2e-18
Identities = 57/168 (33%), Positives = 86/168 (51%), Gaps = 22/168 (13%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEK------------LKKTAKEIESLHGVQ 165
VTG + GIGRA A LA+ G +V+ ++T + +++TA+EIE+ G Q
Sbjct: 7 FVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAA-GGQ 65
Query: 166 TKIIAVDL---SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TL 221
I VD+ +A +EA +Q G + ILVNN G++ SL EDT + +D
Sbjct: 66 ALPIVVDVRDEDQVRALVEATVDQFG--RLDILVNNAGAIWL---SLVEDTPAKRFDLMQ 120
Query: 222 SLNVVFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+N+ T L+++ LP M G+G I+N+S P YAA K
Sbjct: 121 RVNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGK 168
>gnl|CDD|187620 cd05362, THN_reductase-like_SDR_c,
tetrahydroxynaphthalene/trihydroxynaphthalene
reductase-like, classical (c) SDRs.
1,3,6,8-tetrahydroxynaphthalene reductase (4HNR) of
Magnaporthe grisea and the related
1,3,8-trihydroxynaphthalene reductase (3HNR) are typical
members of the SDR family containing the canonical
glycine rich NAD(P)-binding site and active site tetrad,
and function in fungal melanin biosynthesis. This
subgroup also includes an SDR from Norway spruce that
may function to protect against both biotic and abitoic
stress. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 81.9 bits (203), Expect = 2e-18
Identities = 51/159 (32%), Positives = 79/159 (49%), Gaps = 17/159 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHGVQTKIIAV----- 171
+VTG + GIGRA A LAR G ++V+ + + ++ EIE+ G K IAV
Sbjct: 7 LVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEAAGG---KAIAVQADVS 63
Query: 172 DLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTL 230
D S +A + G V ILVNN G + K + E +E+E +D ++N
Sbjct: 64 DPSQVARLFDAAEKAFG--GVDILVNNAGVMLK--KPIAETSEEE-FDRMFTVNTKGAFF 118
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ + R++D GR I+N+SS A+ + YA +K
Sbjct: 119 VLQEAAKRLRDGGR--IINISSSLTAAYTPNYGAYAGSK 155
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 81.4 bits (202), Expect = 2e-18
Identities = 48/148 (32%), Positives = 74/148 (50%), Gaps = 24/148 (16%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG + GIGRA A LA G + + R+ E +T +EI++L G + D+S
Sbjct: 4 LVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKAL-GGNAAALEADVSDRE 62
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDT-----EKETWDT---LSLNVV 226
+A +E V+ + G PV ILVNN G +T D +E WD ++L V
Sbjct: 63 AVEALVEKVEAEFG--PVDILVNNAG--------ITRDNLLMRMSEEDWDAVINVNLTGV 112
Query: 227 FTTLMTKLILPRMKDNGRGAIVNVSSIS 254
F +T+ ++ M G I+N+SS+
Sbjct: 113 F--NVTQAVIRAMIKRRSGRIINISSVV 138
Score = 30.2 bits (69), Expect = 0.92
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
+L E GITV +AP F+ T M
Sbjct: 162 SLAKELASRGITVNAVAPGFIDTDM 186
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 80.8 bits (200), Expect = 4e-18
Identities = 51/156 (32%), Positives = 78/156 (50%), Gaps = 10/156 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG G+G A+A LA G + + ++ A +E+ G + IA DL+
Sbjct: 11 LVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEA-AGGRAHAIAADLADPA 69
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+ +A LG + LVNN G +S KS TE +TWD +++NV T LM +
Sbjct: 70 SVQRFFDAAAAALGG--LDGLVNNAGITNS--KSATELDI-DTWDAVMNVNVRGTFLMLR 124
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP ++D+GRG IVN++S + Y A+K
Sbjct: 125 AALPHLRDSGRGRIVNLASDTALWGAPKLGAYVASK 160
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 80.7 bits (200), Expect = 1e-17
Identities = 47/143 (32%), Positives = 70/143 (48%), Gaps = 12/143 (8%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
Q V+TG + G+GRA A ARRG +VL++R E L+ A EI + G + + D++
Sbjct: 9 QVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRA-AGGEALAVVADVA 67
Query: 175 ---GTKAAIEAVKNQLGDHPVHILVNN--VGSLSSYPKSLTEDTEKETWDTLSLNVVFTT 229
+AA + + +LG P+ VNN V + E+ + T + L VV T
Sbjct: 68 DAEAVQAAADRAEEELG--PIDTWVNNAMVTVFGPFEDVTPEEFRRVT-EVTYLGVVHGT 124
Query: 230 LMTKLILPRMKDNGRGAIVNVSS 252
L L M+ RGAI+ V S
Sbjct: 125 LAA---LRHMRPRDRGAIIQVGS 144
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 78.9 bits (195), Expect = 1e-17
Identities = 41/153 (26%), Positives = 68/153 (44%), Gaps = 6/153 (3%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG T GIG A A + G +++ R E+L + KE+ ++H + +D+ +
Sbjct: 9 LITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKELPNIHTIV-----LDVGDAE 63
Query: 178 AAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
+ + L ++P + IL+NN G + + N++ + K L
Sbjct: 64 SVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKADTEIDTNLIGPIRLIKAFL 123
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P +K IVNVSS P A VY ATK
Sbjct: 124 PHLKKQPEATIVNVSSGLAFVPMAANPVYCATK 156
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 79.1 bits (195), Expect = 2e-17
Identities = 50/155 (32%), Positives = 73/155 (47%), Gaps = 15/155 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIGRA LA+ G +V +SRT L +E G++ + VDLS
Sbjct: 11 LVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRECP---GIEP--VCVDLSDW- 64
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
+A + LG PV +LVNN P + KE +D + +NV +++++
Sbjct: 65 ---DATEEALGSVGPVDLLVNNAAVAILQP---FLEVTKEAFDRSFDVNVRAVIHVSQIV 118
Query: 236 LPRMKDNG-RGAIVNVSSISEASPWALFNVYAATK 269
M G G+IVNVSS + VY +TK
Sbjct: 119 ARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTK 153
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 78.8 bits (195), Expect = 2e-17
Identities = 49/157 (31%), Positives = 80/157 (50%), Gaps = 11/157 (7%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISR-TLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VTG G+GRA A LAR G ++V+ R E ++ + +E+L G + + + D++
Sbjct: 11 VTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEAL-GRRAQAVQADVTDKA 69
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDTL---SLNVVFTTLMTK 233
A AV + + ILVNN G K L + ++ E WD + +L+ VF + +
Sbjct: 70 ALEAAVAAAVERFGRIDILVNNAGIFE--DKPLADMSDDE-WDEVIDVNLSGVF--HLLR 124
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
++P M+ G IVN+SS++ W + YAA K
Sbjct: 125 AVVPPMRKQRGGRIVNISSVAGLPGWPGRSNYAAAKA 161
>gnl|CDD|187600 cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs. This subgroup
includes members identified as 3beta17beta
hydroxysteroid dehydrogenase, 20beta hydroxysteroid
dehydrogenase, and R-alcohol dehydrogenase. These
proteins exhibit the canonical active site tetrad and
glycine rich NAD(P)-binding motif of the classical SDRs.
17beta-dehydrogenases are a group of isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 247
Score = 78.6 bits (194), Expect = 3e-17
Identities = 46/156 (29%), Positives = 75/156 (48%), Gaps = 13/156 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG G+G A+A L G +VL E+ + A E+ G + +D++
Sbjct: 9 IVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAEL----GDAARFFHLDVTDED 64
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
G A ++ + G + +LVNN G L+ ++ E T E W L +N+ L T+
Sbjct: 65 GWTAVVDTAREAFG--RLDVLVNNAGILT--GGTV-ETTTLEEWRRLLDINLTGVFLGTR 119
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
++P MK+ G G+I+N+SSI Y A+K
Sbjct: 120 AVIPPMKEAGGGSIINMSSIEGLVGDPALAAYNASK 155
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 79.0 bits (195), Expect = 3e-17
Identities = 53/160 (33%), Positives = 78/160 (48%), Gaps = 15/160 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIG A A + ARRG +V ++R + L A I G + DLS
Sbjct: 44 LLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRAGGD-AMAVPCDLSDLD 102
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWD----TLSLNVVFTTLMT 232
A V + V IL+NN G S + L E ++ W T+ LN +
Sbjct: 103 AVDALVADVEKRIGGVDILINNAG--RSIRRPLAESLDR--WHDVERTMVLNYYAPLRLI 158
Query: 233 KLILPRMKDNGRGAIVNVSS---ISEASPWALFNVYAATK 269
+ + P M + G G I+NV++ +SEASP LF+VY A+K
Sbjct: 159 RGLAPGMLERGDGHIINVATWGVLSEASP--LFSVYNASK 196
>gnl|CDD|187639 cd08934, CAD_SDR_c, clavulanic acid dehydrogenase (CAD), classical
(c) SDR. CAD catalyzes the NADP-dependent reduction of
clavulanate-9-aldehyde to clavulanic acid, a
beta-lactamase inhibitor. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 78.0 bits (192), Expect = 4e-17
Identities = 49/158 (31%), Positives = 77/158 (48%), Gaps = 14/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
+VTG + GIG A A LA G + + +R +++L+ A E+E+ G + ++ +D+
Sbjct: 7 LVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEA-EGGKALVLELDVTDEQ 65
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
AA+E LG + ILVNN G + P ED + W + N++ T
Sbjct: 66 QVDAAVERTVEALGR--LDILVNNAGIMLLGP---VEDADTTDWTRMIDTNLLGLMYTTH 120
Query: 234 LILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
LP +G IVN+SS++ A + VY ATK
Sbjct: 121 AALPHHLLRNKGTIVNISSVAGRVAVRNSA--VYNATK 156
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 78.2 bits (193), Expect = 5e-17
Identities = 48/158 (30%), Positives = 85/158 (53%), Gaps = 12/158 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINI-VLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+VT GIG+A A LA++G +I + E K+TA+E+ S HGV+ +I +DLS
Sbjct: 6 IVTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVRS-HGVRAEIRQLDLSDL 64
Query: 175 -GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETW-DTLSLNVVFTTLMT 232
A++ + +LG + +LVNN G+++ K+ D + + W +++V L +
Sbjct: 65 PEGAQALDKLIQRLGR--IDVLVNNAGAMT---KAPFLDMDFDEWRKIFTVDVDGAFLCS 119
Query: 233 KLILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
++ M G+G I+N++S+ E +P + Y A K
Sbjct: 120 QIAARHMVKQGQGGRIINITSVHEHTPLPGASAYTAAK 157
>gnl|CDD|211705 TIGR01963, PHB_DH, 3-hydroxybutyrate dehydrogenase. This model
represents a subfamily of the short chain
dehydrogenases. Characterized members so far as
3-hydroxybutyrate dehydrogenases and are found in
species that accumulate ester polmers called
polyhydroxyalkanoic acids (PHAs) under certain
conditions. Several members of the family are from
species not known to accumulate PHAs, including
Oceanobacillus iheyensis and Bacillus subtilis. However,
polymer formation is not required for there be a role
for 3-hydroxybutyrate dehydrogenase; it may be members
of this family have the same function in those species.
Length = 255
Score = 78.2 bits (193), Expect = 5e-17
Identities = 50/163 (30%), Positives = 69/163 (42%), Gaps = 18/163 (11%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
++ +VTG GIG A A LA G N+V+ E + AK G + D++
Sbjct: 2 KTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAG-DAGGSVIYLPADVT 60
Query: 175 ---GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL---SLNVVFT 228
I A + G + ILVNN G P E+ E WD + L F
Sbjct: 61 KEDEIADMIAAAAAEFGG--LDILVNNAGIQHVAP---IEEFPPEDWDRIIAVMLTSAFH 115
Query: 229 TLMTKLILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
T + LP MK G G I+N++S ASP+ + Y A K
Sbjct: 116 T--IRAALPHMKKQGWGRIINIASAHGLVASPFK--SAYVAAK 154
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 76.9 bits (190), Expect = 1e-16
Identities = 43/141 (30%), Positives = 70/141 (49%), Gaps = 10/141 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG GIGRA A LA G ++++ + TA+ +E+ G + + VD+
Sbjct: 10 LVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAGG-KARARQVDVRDRA 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
KAA+ A G + ILV N G +P + + + E W+ + +N+ T L+T+
Sbjct: 69 ALKAAVAAGVEDFG--RLDILVANAG---IFPLTPFAEMDDEQWERVIDVNLTGTFLLTQ 123
Query: 234 LILPRMKDNGRGAIVNVSSIS 254
LP + G G IV SS++
Sbjct: 124 AALPALIRAGGGRIVLTSSVA 144
Score = 27.6 bits (62), Expect = 7.8
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL +E ITV + P V T M
Sbjct: 169 ALALELAARNITVNSVHPGGVDTPM 193
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 76.9 bits (190), Expect = 1e-16
Identities = 48/140 (34%), Positives = 75/140 (53%), Gaps = 9/140 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + G+G A L G +VL +R E+L++ A +E+L G+ IA D++ +
Sbjct: 16 LVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEAL-GIDALWIAADVA-DE 73
Query: 178 AAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKL 234
A IE + + + V ILVNN G+ P ED E WD ++LNV L+++
Sbjct: 74 ADIERLAEETLERFGHVDILVNNAGATWGAP---AEDHPVEAWDKVMNLNVRGLFLLSQA 130
Query: 235 ILPR-MKDNGRGAIVNVSSI 253
+ R M G G I+NV+S+
Sbjct: 131 VAKRSMIPRGYGRIINVASV 150
Score = 34.5 bits (80), Expect = 0.034
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL E+ +GI V IAP F TKM
Sbjct: 179 ALAAEWGPHGIRVNAIAPGFFPTKM 203
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition to
SPRs, this subgroup also contains Bacillus cereus yueD,
a benzil reductase, which catalyzes the stereospecific
reduction of benzil to (S)-benzoin. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 76.2 bits (188), Expect = 2e-16
Identities = 51/163 (31%), Positives = 84/163 (51%), Gaps = 19/163 (11%)
Query: 117 FVVTGCTDGIGRAYAHELARRG--INIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
++TG + GIGRA A EL +RG +VL++R+ E L++ +E+ G++ + DLS
Sbjct: 2 IILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRP--GLRVTTVKADLS 59
Query: 175 ---GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTL 230
G + +EA++ G+ +L+NN GSL P S E + + LN+
Sbjct: 60 DAAGVEQLLEAIRKLDGERD--LLINNAGSL--GPVSKIEFIDLDELQKYFDLNLTSPVC 115
Query: 231 MTKLILPRMKDNG-RGAIVNVSSISEASP---WALFNVYAATK 269
+T +L K G + +VNVSS + +P W L Y ++K
Sbjct: 116 LTSTLLRAFKKRGLKKTVVNVSSGAAVNPFKGWGL---YCSSK 155
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 75.7 bits (187), Expect = 3e-16
Identities = 51/158 (32%), Positives = 78/158 (49%), Gaps = 14/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
++TG GIGR A E A+RG +V++ + ++TA + G + D+S
Sbjct: 3 LITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKA-GGKVHYYKCDVSKRE 61
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVV--FTTLMT 232
A + +K ++GD V IL+NN G +S K L E ++E T +N + F T T
Sbjct: 62 EVYEAAKKIKKEVGD--VTILINNAGVVSG--KKLLELPDEEIEKTFEVNTLAHFWT--T 115
Query: 233 KLILPRMKDNGRGAIVNVSSI-SEASPWALFNVYAATK 269
K LP M + G IV ++S+ SP L Y A+K
Sbjct: 116 KAFLPDMLERNHGHIVTIASVAGLISPAGL-ADYCASK 152
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 75.7 bits (187), Expect = 3e-16
Identities = 48/155 (30%), Positives = 76/155 (49%), Gaps = 6/155 (3%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-TK 177
VTG DGIGR A AR G ++L+ RT EKL+ EIE+ G Q II +DL T
Sbjct: 17 VTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPLDLLTATP 76
Query: 178 AAIEAVKNQLGDHPVHI--LVNNVGSLSSYPKSLTEDTEKETW-DTLSLNVVFTTLMTKL 234
+ + + + + + +++N G L E + E W D + +NV T ++T+
Sbjct: 77 QNYQQLADTIEEQFGRLDGVLHNAGLLG--ELGPMEQQDPEVWQDVMQVNVNATFMLTQA 134
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP + + ++V SS A + YA +K
Sbjct: 135 LLPLLLKSPAASLVFTSSSVGRQGRANWGAYAVSK 169
>gnl|CDD|226476 COG3967, DltE, Short-chain dehydrogenase involved in D-alanine
esterification of lipoteichoic acid and wall teichoic
acid (D-alanine transfer protein) [Cell envelope
biogenesis, outer membrane].
Length = 245
Score = 75.5 bits (186), Expect = 3e-16
Identities = 43/153 (28%), Positives = 68/153 (44%), Gaps = 8/153 (5%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLIS-RTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG GIG A A G N V+I R E+L + E +H D +
Sbjct: 10 ITGGASGIGLALAKRFLELG-NTVIICGRNEERLAEAKAENPEIHTEVCD--VADRDSRR 66
Query: 178 AAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
+E +K + +P +++L+NN G + + ED + ++ N++ +T L+L
Sbjct: 67 ELVEWLKKE---YPNLNVLINNAGIQRNEDLTGAEDLLDDAEQEIATNLLAPIRLTALLL 123
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P + I+NVSS P A VY ATK
Sbjct: 124 PHLLRQPEATIINVSSGLAFVPMASTPVYCATK 156
>gnl|CDD|187644 cd08940, HBDH_SDR_c, d-3-hydroxybutyrate dehydrogenase (HBDH),
classical (c) SDRs. DHBDH, an NAD+ -dependent enzyme,
catalyzes the interconversion of D-3-hydroxybutyrate and
acetoacetate. It is a classical SDR, with the canonical
NAD-binding motif and active site tetrad. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 75.2 bits (185), Expect = 6e-16
Identities = 52/143 (36%), Positives = 69/143 (48%), Gaps = 14/143 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLIS-RTLEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+VTG T GIG A LA G NIVL +++ + + HGV+ DLS
Sbjct: 6 LVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGADLSKP 65
Query: 175 -GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD---TLSLNVVFTTL 230
+ + + Q G V ILVNN G P ED E WD L+L+ VF T
Sbjct: 66 AAIEDMVAYAQRQFGG--VDILVNNAGIQHVAP---IEDFPTEKWDAIIALNLSAVFHT- 119
Query: 231 MTKLILPRMKDNGRGAIVNVSSI 253
T+L LP MK G G I+N++S+
Sbjct: 120 -TRLALPHMKKQGWGRIINIASV 141
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 74.9 bits (185), Expect = 7e-16
Identities = 44/147 (29%), Positives = 65/147 (44%), Gaps = 12/147 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG GIG A LA+ G +V+ E A+ ++ G + +A+D++
Sbjct: 8 LVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKA-GGKAIGVAMDVTDEE 66
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTK 233
A I+ G V ILVNN G P ED E W +++ + L TK
Sbjct: 67 AINAGIDYAVETFG--GVDILVNNAGIQHVAP---IEDFPTEKWKKMIAIMLDGAFLTTK 121
Query: 234 LILPRMKDNGRGAIVNVSSIS--EASP 258
LP MK G G I+N++S+ S
Sbjct: 122 AALPIMKAQGGGRIINMASVHGLVGSA 148
>gnl|CDD|187599 cd05340, Ycik_SDR_c, Escherichia coli K-12 YCIK-like, classical (c)
SDRs. Escherichia coli K-12 YCIK and related proteins
have a canonical classical SDR nucleotide-binding motif
and active site tetrad. They are predicted oxoacyl-(acyl
carrier protein/ACP) reductases. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 236
Score = 74.1 bits (182), Expect = 9e-16
Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 4/155 (2%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL-SGT 176
+VTG +DGIGR A AR G ++L+ R EKL++ A I G Q + +DL + T
Sbjct: 8 LVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFILDLLTCT 67
Query: 177 KAAIEAVKNQLGDHPVHI--LVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ + ++ + + +++N G L L+E + D +NV T ++T+
Sbjct: 68 SENCQQLAQRIAVNYPRLDGVLHNAGLLGD-VCPLSEQNPQVWQDVXQVNVNATFMLTQA 126
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP + + G++V SS A + YA +K
Sbjct: 127 LLPLLLKSDAGSLVFTSSSVGRQGRANWGAYAVSK 161
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 73.9 bits (182), Expect = 9e-16
Identities = 42/142 (29%), Positives = 66/142 (46%), Gaps = 15/142 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLIS----RTLEKLKKTAKEIESLHGVQTKIIAVDL 173
++TG + GIG +L RG N V+ + +L LH I+ +D+
Sbjct: 2 LITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAALGASHSRLH-----ILELDV 56
Query: 174 -SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTE--KETWDTLSLNVVFTTL 230
+ EAV +LGD + +L+NN G L SY + D+E E + NV+ L
Sbjct: 57 TDEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQV---NVLGPLL 113
Query: 231 MTKLILPRMKDNGRGAIVNVSS 252
+T+ LP + R I+N+SS
Sbjct: 114 LTQAFLPLLLKGARAKIINISS 135
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 73.8 bits (182), Expect = 2e-15
Identities = 51/143 (35%), Positives = 70/143 (48%), Gaps = 16/143 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
VVTG GIGR A A G +VL+ R+ E + + A E+ + G + A DL +
Sbjct: 12 VVTGAAQGIGRGVALRAAAEGARVVLVDRS-ELVHEVAAELRAAGGEALALTA-DLETYA 69
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGS---LSSYPKSLTEDTEKETWDTLSLNVVFTTL- 230
G +AA+ A G + +L+NNVG + + E E E +L F TL
Sbjct: 70 GAQAAMAAAVEAFGR--IDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSL-----FPTLW 122
Query: 231 MTKLILPRMKDNGRGAIVNVSSI 253
+ +LP M G GAIVNVSSI
Sbjct: 123 CCRAVLPHMLAQGGGAIVNVSSI 145
>gnl|CDD|187640 cd08935, mannonate_red_SDR_c, putative D-mannonate oxidoreductase,
classical (c) SDR. D-mannonate oxidoreductase catalyzes
the NAD-dependent interconversion of D-mannonate and
D-fructuronate. This subgroup includes Bacillus
subtitils UxuB/YjmF, a putative D-mannonate
oxidoreductase; the B. subtilis UxuB gene is part of a
putative ten-gene operon (the Yjm operon) involved in
hexuronate catabolism. Escherichia coli UxuB does not
belong to this subgroup. This subgroup has a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 271
Score = 73.6 bits (181), Expect = 2e-15
Identities = 50/169 (29%), Positives = 81/169 (47%), Gaps = 20/169 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA--VDLSG 175
V+TG T +G A A LA+ G + + R EK K AKEI +L G + A +D +
Sbjct: 9 VITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAADVLDRAS 68
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTE-------------DTEKETWDTL- 221
+ A E + Q G V IL+N G +P + T+ D ++E W+ +
Sbjct: 69 LERAREEIVAQFGT--VDILINGAGGN--HPDATTDPEHYEPETEQNFFDLDEEGWEFVF 124
Query: 222 SLNVVFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
LN+ + L +++ M + G+I+N+SS++ SP Y+A K
Sbjct: 125 DLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPAYSAAKA 173
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 73.7 bits (181), Expect = 2e-15
Identities = 43/142 (30%), Positives = 72/142 (50%), Gaps = 6/142 (4%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIE-SLHGVQTKIIAVDL 173
++ ++TG GIG+ A ELARRG +++ R + K ++ A EI + + +DL
Sbjct: 2 KTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEVIVRHLDL 61
Query: 174 SGTKAAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
+ K+ L + + +L+NN G + P S TED E +N + L+T
Sbjct: 62 ASLKSIRAFAAEFLAEEDRLDVLINNAGVMRC-PYSKTEDG-FEM--QFGVNHLGHFLLT 117
Query: 233 KLILPRMKDNGRGAIVNVSSIS 254
L+L +K + IVNVSS++
Sbjct: 118 NLLLDLLKKSAPSRIVNVSSLA 139
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 73.6 bits (181), Expect = 2e-15
Identities = 39/157 (24%), Positives = 67/157 (42%), Gaps = 6/157 (3%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+VTG GIGRA A A G + + + L TA + T D +
Sbjct: 12 LRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVTATVADVADPA 71
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+ + + G + +LVNN G + P ++ E W+ TL++N+ +
Sbjct: 72 QVERVFDTAVERFGG--LDVLVNNAG--IAGPTGGIDEITPEQWEQTLAVNLNGQFYFAR 127
Query: 234 LILPRMKDNGRG-AIVNVSSISEASPWALFNVYAATK 269
+P +K +G G I+ +SS++ + YAA+K
Sbjct: 128 AAVPLLKASGHGGVIIALSSVAGRLGYPGRTPYAASK 164
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 73.0 bits (180), Expect = 3e-15
Identities = 48/156 (30%), Positives = 71/156 (45%), Gaps = 16/156 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG T GIG A L G +V +R+ + E + +A DL+
Sbjct: 13 LVTGGTKGIGAATVARLLEAGARVVTTARS-----RPDDLPEGVE-----FVAADLTTAE 62
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
G A AV +LG V ILV+ +G S+ T++E D L+LN++ + +
Sbjct: 63 GCAAVARAVLERLGG--VDILVHVLGGSSAPAGGFAALTDEEWQDELNLNLLAAVRLDRA 120
Query: 235 ILPRMKDNGRGAIVNVSSISEASPW-ALFNVYAATK 269
+LP M G G I++V+SI P YAA K
Sbjct: 121 LLPGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAK 156
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 72.9 bits (179), Expect = 3e-15
Identities = 44/157 (28%), Positives = 75/157 (47%), Gaps = 5/157 (3%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
Q VVTG G+G A A A G ++++ +RT +L + A++I + G + ++A DL+
Sbjct: 11 QVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAA-GRRAHVVAADLA 69
Query: 175 GTKAAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+A + + I+VNNVG + P L + K+ D + NV +T
Sbjct: 70 HPEATAGLAGQAVEAFGRLDIVVNNVG--GTMPNPLLSTSTKDLADAFTFNVATAHALTV 127
Query: 234 LILPRM-KDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P M + +G G+++N+SS F Y K
Sbjct: 128 AAVPLMLEHSGGGSVINISSTMGRLAGRGFAAYGTAK 164
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 71.7 bits (176), Expect = 7e-15
Identities = 42/141 (29%), Positives = 69/141 (48%), Gaps = 11/141 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGV---QTKIIAVDLS 174
+VTG GIG A A EL G ++ + AK+ +G Q ++ +D++
Sbjct: 6 LVTGAKRGIGSAIARELLNDGYRVIATYFS---GNDCAKDWFEEYGFTEDQVRLKELDVT 62
Query: 175 GTKAAIEAVKNQLGDH-PVHILVNNVG-SLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
T+ EA+ + PV ILVNN G + S K ++ + +T +LN VF +T
Sbjct: 63 DTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQEWNDVINT-NLNSVFN--VT 119
Query: 233 KLILPRMKDNGRGAIVNVSSI 253
+ + M + G G I+N+SS+
Sbjct: 120 QPLFAAMCEQGYGRIINISSV 140
Score = 28.6 bits (64), Expect = 3.3
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL E +YGITV IAP +++T M
Sbjct: 165 ALASEGARYGITVNCIAPGYIATPM 189
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins. The
porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 71.4 bits (175), Expect = 1e-14
Identities = 52/159 (32%), Positives = 81/159 (50%), Gaps = 13/159 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VT TDGIG A A LA+ G ++V+ SR K + + + +L G + K
Sbjct: 14 LVTASTDGIGLAIARRLAQDGAHVVVSSR---KQQNVDRAVATLQGEGLSVTGTVCHVGK 70
Query: 178 AA-----IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLM 231
A + N G V ILV+N +++ + ++ + TE E WD L +NV T LM
Sbjct: 71 AEDRERLVATAVNLHGG--VDILVSNA-AVNPFFGNILDSTE-EVWDKILDVNVKATALM 126
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
TK ++P M+ G G++V VSS++ P+ Y +KT
Sbjct: 127 TKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNVSKT 165
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 71.2 bits (175), Expect = 1e-14
Identities = 45/156 (28%), Positives = 80/156 (51%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAV---DLS 174
+VTG + GIG A A LA++G ++++ SR L+ + A I + G + + +A ++
Sbjct: 12 LVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVA-AGGKAEALACHIGEME 70
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
A ++ + G + ILVNN + + L DT+ + T+ +N+ M+
Sbjct: 71 QIDALFAHIRERHGR--LDILVNNAAANPYFGHIL--DTDLGAFQKTVDVNIRGYFFMSV 126
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
MK+ G G+IVNV+S++ SP +Y+ TK
Sbjct: 127 EAGKLMKEQGGGSIVNVASVNGVSPGDFQGIYSITK 162
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 71.1 bits (175), Expect = 1e-14
Identities = 46/157 (29%), Positives = 74/157 (47%), Gaps = 10/157 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VV+G G+GR A AR G ++VL +RT E+L + A EI+ L G + + D++
Sbjct: 9 VVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDL-GRRALAVPTDITDED 67
Query: 178 AA---IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETW-DTLSLNVVFTTLMTK 233
+ + G V LVNN + S K L D + W + LNV+ T +T+
Sbjct: 68 QCANLVALALERFGR--VDALVNNAFRVPSM-KPL-ADADFAHWRAVIELNVLGTLRLTQ 123
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
P + ++G G+IV ++S+ + Y K
Sbjct: 124 AFTPALAESG-GSIVMINSMVLRHSQPKYGAYKMAKG 159
>gnl|CDD|187627 cd05369, TER_DECR_SDR_a, Trans-2-enoyl-CoA reductase (TER) and
2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR.
TTER is a peroxisomal protein with a proposed role in
fatty acid elongation. Fatty acid synthesis is known to
occur in the both endoplasmic reticulum and
mitochondria; peroxisomal TER has been proposed as an
additional fatty acid elongation system, it reduces the
double bond at C-2 as the last step of elongation. This
system resembles the mitochondrial system in that
acetyl-CoA is used as a carbon donor. TER may also
function in phytol metabolism, reducting phytenoyl-CoA
to phytanoyl-CoA in peroxisomes. DECR processes double
bonds in fatty acids to increase their utility in fatty
acid metabolism; it reduces 2,4-dienoyl-CoA to an
enoyl-CoA. DECR is active in mitochondria and
peroxisomes. This subgroup has the Gly-rich NAD-binding
motif of the classical SDR family, but does not display
strong identity to the canonical active site tetrad, and
lacks the characteristic Tyr at the usual position. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 249
Score = 71.1 bits (175), Expect = 1e-14
Identities = 37/138 (26%), Positives = 64/138 (46%), Gaps = 6/138 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG GIG+A A A G ++ + R E L+ A+EI S G + I D+ +
Sbjct: 7 FITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQCDVRDPE 66
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKLI 235
A AV L + + IL+NN ++ + E + T + +++ T TK +
Sbjct: 67 AVEAAVDETLKEFGKIDILINNAA--GNFL-APAESLSPNGFKTVIDIDLNGTFNTTKAV 123
Query: 236 LPRMKDNGRGA-IVNVSS 252
R+ + G I+N+S+
Sbjct: 124 GKRLIEAKHGGSILNISA 141
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 72.7 bits (179), Expect = 2e-14
Identities = 50/156 (32%), Positives = 68/156 (43%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VVTG GIGR A AR G +V ++TA+ I G VD+S
Sbjct: 319 VVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIR-AAGAVAHAYRVDVSDA- 376
Query: 178 AAIEAVKNQLGD-HPV-HILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKL 234
A+EA + H V I+VNN G + DT E WD L +N+ +L
Sbjct: 377 DAMEAFAEWVRAEHGVPDIVVNNAGIGMAGG---FLDTSAEDWDRVLDVNLWGVIHGCRL 433
Query: 235 ILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
+M + G G IVNV+S + +P YA +K
Sbjct: 434 FGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSK 469
>gnl|CDD|187623 cd05365, 7_alpha_HSDH_SDR_c, 7 alpha-hydroxysteroid dehydrogenase
(7 alpha-HSDH), classical (c) SDRs. This bacterial
subgroup contains 7 alpha-HSDHs, including Escherichia
coli 7 alpha-HSDH. 7 alpha-HSDH, a member of the SDR
family, catalyzes the NAD+ -dependent dehydrogenation of
a hydroxyl group at position 7 of the steroid skeleton
of bile acids. In humans the two primary bile acids are
cholic and chenodeoxycholic acids, these are formed from
cholesterol in the liver. Escherichia coli 7 alpha-HSDH
dehydroxylates these bile acids in the human intestine.
Mammalian 7 alpha-HSDH activity has been found in
livers. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 70.3 bits (172), Expect = 3e-14
Identities = 44/156 (28%), Positives = 72/156 (46%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESL----HGVQTKIIAVDL 173
+VTG GIG+A A LA+ G ++V+ E + A I+ G++ +
Sbjct: 3 IVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQAIGLECNV--TSE 60
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+A ++A +Q G + ILVNN G P + E W LN+ +++
Sbjct: 61 QDLEAVVKATVSQFGG--ITILVNNAGGGGPKPFDMPMTEEDFEW-AFKLNLFSAFRLSQ 117
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
L P M+ G GAI+N+SS+S + Y ++K
Sbjct: 118 LCAPHMQKAGGGAILNISSMSSENKNVRIAAYGSSK 153
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 70.2 bits (172), Expect = 3e-14
Identities = 47/153 (30%), Positives = 71/153 (46%), Gaps = 6/153 (3%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG A A LAR G +V+ + +I + ++ D
Sbjct: 7 IVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQIAG-GALALRVDVTDEQQVA 65
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLIL 236
A E + G + +LVNN G++ P DT+ WD T+++N+ T L +
Sbjct: 66 ALFERAVEEFGG--LDLLVNNAGAMHLTPA--IIDTDLAVWDQTMAINLRGTFLCCRHAA 121
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
PRM G G+IVN+SSI+ S + Y A+K
Sbjct: 122 PRMIARGGGSIVNLSSIAGQSGDPGYGAYGASK 154
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 69.8 bits (171), Expect = 3e-14
Identities = 39/134 (29%), Positives = 58/134 (43%), Gaps = 14/134 (10%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
VTG T GIG A + LA G ++ I+R+ ++ ++ A DL+ +
Sbjct: 8 VTGATKGIGLALSLRLANLGHQVIGIARS------------AIDDFPGELFACDLADIEQ 55
Query: 179 AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILPR 238
+ HPV +VNNVG P+ L + D LNV +T+ L
Sbjct: 56 TAATLAQINEIHPVDAIVNNVGIAL--PQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEG 113
Query: 239 MKDNGRGAIVNVSS 252
MK +G IVN+ S
Sbjct: 114 MKLREQGRIVNICS 127
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 70.0 bits (172), Expect = 3e-14
Identities = 44/162 (27%), Positives = 71/162 (43%), Gaps = 15/162 (9%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTA-KEIESLHGVQTKIIAVDLSG 175
++TG GIG A A L ++G + ++ R + I V+ + D++
Sbjct: 3 AIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAELQAINP--KVKATFVQCDVTS 60
Query: 176 ---TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM- 231
AA + + G V IL+NN G L KS + +++V T ++
Sbjct: 61 WEQLAAAFKKAIEKFG--RVDILINNAGILD--EKSYLFAGKLPPPWEKTIDVNLTGVIN 116
Query: 232 -TKLILPRM-KDNGR--GAIVNVSSISEASPWALFNVYAATK 269
T L L M K+ G G IVN+ S++ P F VY+A+K
Sbjct: 117 TTYLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASK 158
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 70.0 bits (172), Expect = 4e-14
Identities = 52/165 (31%), Positives = 76/165 (46%), Gaps = 28/165 (16%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG ++GIGRA A LAR G +VL +R +L A+E+ HG + ++ D+S +
Sbjct: 5 IITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELAD-HGGEALVVPTDVSDAE 63
Query: 178 A---AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM--- 231
A IEA + G + ILVNN G D VF +M
Sbjct: 64 ACERLIEAAVARFGG--IDILVNNAGITMWSRFDELTDLS-----------VFERVMRVN 110
Query: 232 -------TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
T LP +K + RG IV VSS++ + + YAA+K
Sbjct: 111 YLGAVYCTHAALPHLKAS-RGQIVVVSSLAGLTGVPTRSGYAASK 154
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 69.8 bits (171), Expect = 5e-14
Identities = 39/143 (27%), Positives = 70/143 (48%), Gaps = 6/143 (4%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLH-GVQTKIIAVDL 173
Q+ ++TG + GIG A A E G ++++++R + L + E+ + +A D+
Sbjct: 10 QTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGLAADV 69
Query: 174 SGTKAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
S A+ + + DH +HILVNN G + K+ + TE E N+ +
Sbjct: 70 S-DDEDRRAILDWVEDHWDGLHILVNNAG--GNIRKAAIDYTEDEWRGIFETNLFSAFEL 126
Query: 232 TKLILPRMKDNGRGAIVNVSSIS 254
++ P +K + AIVN+ S+S
Sbjct: 127 SRYAHPLLKQHASSAIVNIGSVS 149
>gnl|CDD|187635 cd08930, SDR_c8, classical (c) SDR, subgroup 8. This subgroup has
a fairly well conserved active site tetrad and domain
size of the classical SDRs, but has an atypical
NAD-binding motif ([ST]G[GA]XGXXG). SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 69.3 bits (170), Expect = 5e-14
Identities = 34/140 (24%), Positives = 68/140 (48%), Gaps = 6/140 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
++TG IG+A+ L G ++L L++ +E+ +L+ + + +D++
Sbjct: 6 LITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVIALELDITSKE 65
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTK 233
K IE+ + G + IL+NN S E+ E W+ L++N+ L ++
Sbjct: 66 SIKELIESYLEKFGR--IDILINNAYPSPKVWGSRFEEFPYEQWNEVLNVNLGGAFLCSQ 123
Query: 234 LILPRMKDNGRGAIVNVSSI 253
+ K G+G+I+N++SI
Sbjct: 124 AFIKLFKKQGKGSIINIASI 143
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 69.4 bits (170), Expect = 6e-14
Identities = 47/156 (30%), Positives = 68/156 (43%), Gaps = 10/156 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG GIG+AYA LAR G ++V+ E ++ AK+I G + VD+S
Sbjct: 10 IVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQI-VADGGTAIAVQVDVSDPD 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMTK 233
KA +A + G + LVNN L + + S+N+ + T+
Sbjct: 69 SAKAMADATVSAFGG--IDYLVNNAAIYGGMKLDLLITVPWDYYKKFMSVNLDGALVCTR 126
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ M G GAIVN SS + W N Y K
Sbjct: 127 AVYKHMAKRGGGAIVNQSS---TAAWLYSNFYGLAK 159
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 69.4 bits (170), Expect = 6e-14
Identities = 52/168 (30%), Positives = 74/168 (44%), Gaps = 19/168 (11%)
Query: 106 STGFWVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQ 165
+ F G +S +VTG + GIGRA A LA+RG +V +R L + A E
Sbjct: 2 NMAFDFSG-KSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGETGC----- 55
Query: 166 TKIIAVDLSGTKAAIEAVKNQLGDHPVHILVNNVG--SLSSYPKSLTEDTEKETWD-TLS 222
+ + +D+ AAI A G LVN G SL S D E +D ++
Sbjct: 56 -EPLRLDVGD-DAAIRAALAAAG--AFDGLVNCAGIASLESAL-----DMTAEGFDRVMA 106
Query: 223 LNVVFTTLMTKLILPRMKDNGR-GAIVNVSSISEASPWALFNVYAATK 269
+N L+ + + M GR G+IVNVSS + Y A+K
Sbjct: 107 VNARGAALVARHVARAMIAAGRGGSIVNVSSQAALVGLPDHLAYCASK 154
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 68.8 bits (169), Expect = 9e-14
Identities = 43/161 (26%), Positives = 76/161 (47%), Gaps = 11/161 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
V+TG G+GRA A LA++G + LI EKL++ E +L G + + A +++ +
Sbjct: 9 VITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGAL-GTEVRGYAANVTDEE 67
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLS------SYPKSLTEDTEKETWDT-LSLNVVFTT 229
D ++ L+NN G L + +T E + + + +N+
Sbjct: 68 DVEATFAQIAEDFGQLNGLINNAGILRDGLLVKAKDGKVTSKMSLEQFQSVIDVNLTGVF 127
Query: 230 LMTKLILPRMKDNGR-GAIVNVSSISEASPWALFNVYAATK 269
L + +M ++G G I+N+SSI+ A N Y+A+K
Sbjct: 128 LCGREAAAKMIESGSKGVIINISSIARAGNMGQTN-YSASK 167
Score = 28.4 bits (64), Expect = 3.4
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 45 SWAALRVEYQKYGITVQHIAPAFVSTKM 72
+WA E +YGI V IAP + T+M
Sbjct: 176 TWAK---ELARYGIRVAAIAPGVIETEM 200
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 68.9 bits (169), Expect = 1e-13
Identities = 50/159 (31%), Positives = 73/159 (45%), Gaps = 17/159 (10%)
Query: 119 VTGCTDGIGRAYAHELARRG--INIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+TG GIGRA A AR G + I + + ++T K IE G + +I DL
Sbjct: 31 ITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEE-EGRKCLLIPGDLGDE 89
Query: 177 KAAIEAVK---NQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMT 232
+ VK + G + ILVNN +P+ ED E + T N+ +T
Sbjct: 90 SFCRDLVKEVVKEFGK--LDILVNNAA--YQHPQESIEDITTEQLEKTFRTNIFSMFYLT 145
Query: 233 KLILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
K LP +K +I+N +S++ + SP L YAATK
Sbjct: 146 KAALPHLKKG--SSIINTTSVTAYKGSPHLL--DYAATK 180
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 69.9 bits (171), Expect = 1e-13
Identities = 46/155 (29%), Positives = 71/155 (45%), Gaps = 8/155 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIGRA AR G +V+ R +E+ ++ A + H +A+D+S +
Sbjct: 9 LVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPDH----HALAMDVS-DE 63
Query: 178 AAIEAVKNQLGDHPVHI--LVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
A I QL I LVNN G + + T +E ++N+ L+ +
Sbjct: 64 AQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLDTTLEEFARLQAINLTGAYLVAREA 123
Query: 236 LPRMKDNGRG-AIVNVSSISEASPWALFNVYAATK 269
L M + G G AIVNV+S + Y+A+K
Sbjct: 124 LRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASK 158
Score = 60.2 bits (146), Expect = 2e-10
Identities = 42/154 (27%), Positives = 66/154 (42%), Gaps = 10/154 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG GIGRA A A G +++I R E KK A+ + H I + + +
Sbjct: 273 AITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALGDEHLSVQADITDEAA-VE 331
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTE--KETWDTLSLNVVFTTLMTKLI 235
+A ++ + G + +LVNN G + SL + E +D ++L+ F
Sbjct: 332 SAFAQIQARWG--RLDVLVNNAGIAEVFKPSLEQSAEDFTRVYD-VNLSGAFACARAAAR 388
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
L G IVN+ SI+ N Y A+K
Sbjct: 389 LMS----QGGVIVNLGSIASLLALPPRNAYCASK 418
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 68.3 bits (167), Expect = 1e-13
Identities = 46/153 (30%), Positives = 66/153 (43%), Gaps = 6/153 (3%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG G+GRA A LA RG + LI R L +T + + I VD +
Sbjct: 11 AITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADALRIGGIDLVDPQAAR 70
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKLIL 236
A++ V Q G + LVN G+ D + +TWD +NV T +K L
Sbjct: 71 RAVDEVNRQFGR--LDALVNIAGAFVW---GTIADGDADTWDRMYGVNVKTTLNASKAAL 125
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P + +G G IVN+ + + YAA K
Sbjct: 126 PALTASGGGRIVNIGAGAALKAGPGMGAYAAAK 158
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 68.1 bits (167), Expect = 2e-13
Identities = 46/139 (33%), Positives = 68/139 (48%), Gaps = 13/139 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
VVTG GIG A A A +G + L+ R+ + A+ L G K + D+S
Sbjct: 19 VVTGGASGIGHAIAELFAAKGARVALLDRSED----VAEVAAQLLGGNAKGLVCDVSDSQ 74
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+AA+ AV + G + ILVN+ G P ED +E WD T+ +N+ + LM +
Sbjct: 75 SVEAAVAAVISAFGR--IDILVNSAGVALLAP---AEDVSEEDWDKTIDINLKGSFLMAQ 129
Query: 234 LILPRMKDNGRGAIVNVSS 252
+ M G G IVN++S
Sbjct: 130 AVGRHMIAAGGGKIVNLAS 148
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 68.4 bits (168), Expect = 2e-13
Identities = 46/170 (27%), Positives = 78/170 (45%), Gaps = 21/170 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA--VDLSG 175
V+TG +G A A ELAR G + ++ R EK + EI++ G + A +D
Sbjct: 14 VITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAGGEALAVKADVLDKES 73
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTE--------------DTEKETWDT- 220
+ A + + G P IL+N G ++PK+ T+ D ++E ++
Sbjct: 74 LEQARQQILEDFG--PCDILINGAG--GNHPKATTDNEFHELIEPTKTFFDLDEEGFEFV 129
Query: 221 LSLNVVFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
LN++ T L T++ M G I+N+SS++ +P Y+A K
Sbjct: 130 FDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMNAFTPLTKVPAYSAAKA 179
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 68.0 bits (167), Expect = 2e-13
Identities = 49/155 (31%), Positives = 74/155 (47%), Gaps = 12/155 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
+TG GIG A A LA G + + K+TA E+ + G +D++
Sbjct: 9 AITGGARGIGLATARALAALGARVAIGDLDEALAKETAAELGLVVGG-----PLDVTDPA 63
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A ++AV+ LG P+ +LVNN G + P ++ + T L +NV L +KL
Sbjct: 64 SFAAFLDAVEADLG--PIDVLVNNAGVMPVGP--FLDEPDAVTRRILDVNVYGVILGSKL 119
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
PRM GRG +VNV+S++ P Y A+K
Sbjct: 120 AAPRMVPRGRGHVVNVASLAGKIPVPGMATYCASK 154
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 67.6 bits (166), Expect = 2e-13
Identities = 45/153 (29%), Positives = 66/153 (43%), Gaps = 13/153 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIGRA+ +L RG K+ A++ ES+ + +++ + L T
Sbjct: 10 LVTGANRGIGRAFVEQLLARGA---------AKVYAAARDPESVTDLGPRVVPLQLDVTD 60
Query: 178 AA-IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
A + A D V ILVNN G + L E E + N M +
Sbjct: 61 PASVAAAAEAASD--VTILVNNAGIFRT-GSLLLEGDEDALRAEMETNYFGPLAMARAFA 117
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P + NG GAIVNV S+ + Y+A+K
Sbjct: 118 PVLAANGGGAIVNVLSVLSWVNFPNLGTYSASK 150
>gnl|CDD|187585 cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl
reductase (PTCR)-like, classical (c) SDRs. PTCR is a
classical SDR which catalyzes the NADPH-dependent
reduction of ketones on steroids and prostaglandins.
Unlike most SDRs, PTCR functions as a monomer. This
subgroup also includes human carbonyl reductase 1 (CBR1)
and CBR3. CBR1 is an NADPH-dependent SDR with broad
substrate specificity and may be responsible for the in
vivo reduction of quinones, prostaglandins, and other
carbonyl-containing compounds. In addition it includes
poppy NADPH-dependent salutaridine reductase which
catalyzes the stereospecific reduction of salutaridine
to 7(S)-salutaridinol in the biosynthesis of morphine,
and Arabidopsis SDR1,a menthone reductase, which
catalyzes the reduction of menthone to neomenthol, a
compound with antimicrobial activity; SDR1 can also
carry out neomenthol oxidation. 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, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 225
Score = 66.5 bits (163), Expect = 5e-13
Identities = 44/158 (27%), Positives = 76/158 (48%), Gaps = 16/158 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGIN-IVLISRTLEKLKKTAKEIESLHGVQTKIIAVD---L 173
+VTG GIG +LA+ G ++L +R +E+ + +++ + G+ + +D
Sbjct: 4 LVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRAE-GLSVRFHQLDVTDD 62
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNNVG--SLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
+ +AA + V+ + G + ILVNN G + T + +ET T N T +
Sbjct: 63 ASIEAAADFVEEKYGG--LDILVNNAGIAFKGFDDSTPTREQARETMKT---NFFGTVDV 117
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
T+ +LP +K + G IVNVSS + A Y +K
Sbjct: 118 TQALLPLLKKSPAGRIVNVSSGLGSLTSA----YGVSK 151
>gnl|CDD|187610 cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like,
classical (c) SDRs. NADP-mannitol dehydrogenase
catalyzes the conversion of fructose to mannitol, an
acyclic 6-carbon sugar. MDH is a tetrameric member of
the SDR family. This subgroup also includes various
other tetrameric SDRs, including Pichia stipitis
D-arabinitol dehydrogenase (aka polyol dehydrogenase),
Candida albicans Sou1p, a sorbose reductase, and Candida
parapsilosis (S)-specific carbonyl reductase (SCR, aka
S-specific alcohol dehydrogenase) which catalyzes the
enantioselective reduction of 2-hydroxyacetophenone into
(S)-1-phenyl-1,2-ethanediol. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser).
Length = 252
Score = 66.6 bits (163), Expect = 5e-13
Identities = 36/140 (25%), Positives = 69/140 (49%), Gaps = 7/140 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIG A A LA G ++ +I + + ++ A+E+ +GV+TK D+S +
Sbjct: 12 IVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYGVKTKAYKCDVSSQE 71
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNV--VFTTLMTKL 234
+ + K D + IL+ N G + K + T ++ + +N+ VF +
Sbjct: 72 SVEKTFKQIQKDFGKIDILIANAG--ITVHKPALDYTYEQWNKVIDVNLNGVFNC--AQA 127
Query: 235 ILPRMKDNGRGAIVNVSSIS 254
K G+G+++ +S+S
Sbjct: 128 AAKIFKKQGKGSLIITASMS 147
>gnl|CDD|187590 cd05329, TR_SDR_c, tropinone reductase-I and II (TR-1, and
TR-II)-like, classical (c) SDRs. This subgroup includes
TR-I and TR-II; these proteins are members of the SDR
family. TRs catalyze the NADPH-dependent reductions of
the 3-carbonyl group of tropinone, to a beta-hydroxyl
group. TR-I and TR-II produce different stereoisomers
from tropinone, TR-I produces tropine
(3alpha-hydroxytropane), and TR-II, produces
pseudotropine (sigma-tropine, 3beta-hydroxytropane).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 251
Score = 66.7 bits (163), Expect = 6e-13
Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 7/154 (4%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS---G 175
VTG T GIG A ELA G + +R ++L + E G + + D+S
Sbjct: 11 VTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWRE-KGFKVEGSVCDVSSRSE 69
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
+ ++ V + G ++ILVNN G+ + K + TE++ +S N +++L
Sbjct: 70 RQELMDTVASHFGG-KLNILVNNAGT--NIRKEAKDYTEEDYSLIMSTNFEAAYHLSRLA 126
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P +K +G G IV +SS++ Y ATK
Sbjct: 127 HPLLKASGNGNIVFISSVAGVIAVPSGAPYGATK 160
>gnl|CDD|213929 TIGR04316, dhbA_paeA, 2,3-dihydro-2,3-dihydroxybenzoate
dehydrogenase. Members of this family are
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (EC
1.3.1.28), the third enzyme in the biosynthesis of
2,3-dihydroxybenzoic acid (DHB) from chorismate. The
first two enzymes are isochorismate synthase (EC
5.4.4.2) and isochorismatase (EC 3.3.2.1). Synthesis is
often followed by adenylation by the enzyme DHBA-AMP
ligase (EC 2.7.7.58) to activate (DHB) for a
non-ribosomal peptide synthetase.
Length = 250
Score = 66.2 bits (162), Expect = 7e-13
Identities = 43/155 (27%), Positives = 70/155 (45%), Gaps = 10/155 (6%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
VTG GIG A A LA G + + R E+L + ++ +G +D++ + A
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRR-YGYPFATYKLDVADSAA 61
Query: 179 ---AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKL 234
++ ++ + G P+ +LVN G L + E W T ++N +++
Sbjct: 62 VDEVVQRLEREYG--PIDVLVNVAGILRL---GAIDSLSDEDWQATFAVNTFGVFNVSQA 116
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ PRMK GAIV V S + P YAA+K
Sbjct: 117 VSPRMKRRRSGAIVTVGSNAANVPRMGMAAYAASK 151
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 65.8 bits (161), Expect = 8e-13
Identities = 38/137 (27%), Positives = 59/137 (43%), Gaps = 18/137 (13%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG GIG A A +G + + + ++ L G + +DLS
Sbjct: 9 LITGAASGIGLAQARAFLAQGAQVYGVDK---------QDKPDLSG-NFHFLQLDLSD-- 56
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLIL 236
+E + + + V IL N G L Y L DT E W N+ T L+T+ L
Sbjct: 57 -DLEPLFDWVPS--VDILCNTAGILDDYKPLL--DTSLEEWQHIFDTNLTSTFLLTRAYL 111
Query: 237 PRMKDNGRGAIVNVSSI 253
P+M + G I+N+ SI
Sbjct: 112 PQMLERKSGIIINMCSI 128
>gnl|CDD|187626 cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs.
Human DHRS6, and similar proteins. These proteins are
classical SDRs, with a canonical active site tetrad and
a close match to the typical Gly-rich NAD-binding motif.
Human DHRS6 is a cytosolic type 2 (R)-hydroxybutyrate
dehydrogenase, which catalyses the conversion of
(R)-hydroxybutyrate to acetoacetate. Also included in
this subgroup is Escherichia coli UcpA (upstream cys P).
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction. Note: removed :
needed to make this chiodl smaller when drew final
trees: rmeoved text form description: Other proteins in
this subgroup include Thermoplasma acidophilum
aldohexose dehydrogenase, which has high dehydrogenase
activity against D-mannose, Bacillus subtilis BacC
involved in the biosynthesis of the dipeptide bacilysin
and its antibiotic moiety anticapsin, Sphingomonas
paucimobilis strain B90 LinC, involved in the
degradation of hexachlorocyclohexane isomers...... P).
Length = 241
Score = 66.0 bits (161), Expect = 8e-13
Identities = 50/155 (32%), Positives = 78/155 (50%), Gaps = 16/155 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++T GIGRA A AR G N++ EKLK E+E G+ T+++ V K
Sbjct: 6 LITAAAQGIGRAIALAFAREGANVIATDINEEKLK----ELERGPGITTRVLDVT---DK 58
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLIL 236
+ A+ + G + +L N G + D E + WD ++LNV LM K +L
Sbjct: 59 EQVAALAKEEGR--IDVLFNCAGFV---HHGSILDCEDDDWDFAMNLNVRSMYLMIKAVL 113
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFN--VYAATK 269
P+M G+I+N+SS++ +S + N VY+ TK
Sbjct: 114 PKMLARKDGSIINMSSVA-SSIKGVPNRFVYSTTK 147
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 66.3 bits (162), Expect = 8e-13
Identities = 46/141 (32%), Positives = 75/141 (53%), Gaps = 11/141 (7%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLIS-RTLEKLKKTAKEIESLHGVQTKIIAVD---LS 174
VTG GIG+ A LA+ G ++ L RT + L +TA+ IE+ G + IA D +
Sbjct: 13 VTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAA-GRRAIQIAADVTSKA 71
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTK 233
+AA+ + +LG + + VN G ++ P E+ E+E W T + +N+ L +
Sbjct: 72 DLRAAVARTEAELG--ALTLAVNAAGIANANP---AEEMEEEQWQTVMDINLTGVFLSCQ 126
Query: 234 LILPRMKDNGRGAIVNVSSIS 254
M +NG G+IVN++S+S
Sbjct: 127 AEARAMLENGGGSIVNIASMS 147
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 65.5 bits (160), Expect = 1e-12
Identities = 42/154 (27%), Positives = 75/154 (48%), Gaps = 8/154 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDLSGT 176
+VTG G G A A+ G +V+ + ++ A +I E+ +Q + +
Sbjct: 9 IVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADIGEAAIAIQADV--TKRADV 66
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
+A +EA ++ G + ILVNN G ++ K + E E E +D ++NV L + +
Sbjct: 67 EAMVEAALSKFG--RLDILVNNAG-ITHRNKPMLEVDE-EEFDRVFAVNVKSIYLSAQAL 122
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P M++ G G I+N++S + P Y A+K
Sbjct: 123 VPHMEEQGGGVIINIASTAGLRPRPGLTWYNASK 156
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 65.6 bits (160), Expect = 1e-12
Identities = 45/156 (28%), Positives = 69/156 (44%), Gaps = 11/156 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-- 175
+VTG GIGRA A AR G +V+ R E ++ A I + G + D+
Sbjct: 9 IVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAA--GGRAFARQGDVGSAE 66
Query: 176 -TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMTK 233
+A ++ V + G + +LVNN G T++ WD + +NV L K
Sbjct: 67 AVEALVDFVAARWGR--LDVLVNNAGFGCG---GTVVTTDEADWDAVMRVNVGGVFLWAK 121
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P M+ G G+IVN +S + Y A+K
Sbjct: 122 YAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASK 157
>gnl|CDD|187608 cd05350, SDR_c6, classical (c) SDR, subgroup 6. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a fairly well conserved typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 239
Score = 64.3 bits (157), Expect = 3e-12
Identities = 41/153 (26%), Positives = 77/153 (50%), Gaps = 6/153 (3%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLH-GVQTKIIAV-DLSGT 176
+TG + GIGRA A E A+ G N+ L +R ++L + E+ + + V+ +I+ V D
Sbjct: 3 ITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVEVEILDVTDEERN 62
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
+ I ++ +LG +++N + L+ +ET DT N++ + + L
Sbjct: 63 QLVIAELEAELGG-LDLVIINAGVGKGTSLGDLSFKAFRETIDT---NLLGAAAILEAAL 118
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P+ + GRG +V +SS++ Y+A+K
Sbjct: 119 PQFRAKGRGHLVLISSVAALRGLPGAAAYSASK 151
Score = 38.9 bits (91), Expect = 0.002
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYAR 94
+LR + +K GI V I P F+ T + + F+ EQ A+
Sbjct: 160 SLRYDVKKRGIRVTVINPGFIDTPLTANMF----TMPFLMSVEQAAK 202
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 64.6 bits (158), Expect = 4e-12
Identities = 42/140 (30%), Positives = 64/140 (45%), Gaps = 11/140 (7%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+++TG + G GRA A G +V R+ + E+LH + +A L T
Sbjct: 7 WLITGVSSGFGRALAQAALAAGHRVVGTVRSEAARA----DFEALHP--DRALARLLDVT 60
Query: 177 K-AAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
AI+AV P+ +LVNN G + ++ E E +NV MTK
Sbjct: 61 DFDAIDAVVADAEATFGPIDVLVNNAGY--GHEGAIEESPLAEMRRQFEVNVFGAVAMTK 118
Query: 234 LILPRMKDNGRGAIVNVSSI 253
+LP M+ RG IVN++S+
Sbjct: 119 AVLPGMRARRRGHIVNITSM 138
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 64.4 bits (157), Expect = 4e-12
Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 9/140 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG GIG A AR G N++L+ + +++K A E+ G + + D+
Sbjct: 10 LITGALQGIGEGIARVFARHGANLILLDIS-PEIEKLADELCG-RGHRCTAVVADVRDPA 67
Query: 178 AAIEAVKNQLGDH-PVHILVNNVG--SLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ A+K + ILVNN G L S+ ED + + +N+ +TK
Sbjct: 68 SVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFH----IDINIKGVWNVTKA 123
Query: 235 ILPRMKDNGRGAIVNVSSIS 254
+LP M G IV +SS++
Sbjct: 124 VLPEMIARKDGRIVMMSSVT 143
Score = 28.2 bits (63), Expect = 3.9
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
+L VEY + GI V I P +V T M
Sbjct: 168 SLAVEYAQSGIRVNAICPGYVRTPM 192
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 64.7 bits (158), Expect = 4e-12
Identities = 40/159 (25%), Positives = 72/159 (45%), Gaps = 15/159 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQT--KIIAVDLSG 175
+VTG + G G ELA++G ++ R EK + + +Q K+ +D++
Sbjct: 7 IVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQAT-QLNLQQNIKVQQLDVTD 65
Query: 176 TKAAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETW----DTLSLNVVFTTL 230
+I + L + + +LVNN G + E+ E + +T NV
Sbjct: 66 Q-NSIHNFQLVLKEIGRIDLLVNNAGYANG---GFVEEIPVEEYRKQFET---NVFGAIS 118
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+T+ +LP M+ G I+N+SSIS + + Y ++K
Sbjct: 119 VTQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSK 157
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 65.6 bits (161), Expect = 4e-12
Identities = 50/160 (31%), Positives = 71/160 (44%), Gaps = 18/160 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAV-----D 172
+VTG GIG+A A LA G +VL E + A E+ G + + V D
Sbjct: 426 LVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAEL----GGPDRALGVACDVTD 481
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTT--L 230
+ +AA E G V I+V+N G S P E+T E W S +V T L
Sbjct: 482 EAAVQAAFEEAALAFGG--VDIVVSNAGIAISGP---IEETSDEDWR-RSFDVNATGHFL 535
Query: 231 MTKLILPRMKDNGRG-AIVNVSSISEASPWALFNVYAATK 269
+ + + MK G G +IV ++S + +P F Y A K
Sbjct: 536 VAREAVRIMKAQGLGGSIVFIASKNAVNPGPNFGAYGAAK 575
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 64.3 bits (157), Expect = 4e-12
Identities = 50/166 (30%), Positives = 71/166 (42%), Gaps = 26/166 (15%)
Query: 117 FVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+VTG T G+G A A A RG +V+ R EK + A E+E+L G + + DLS
Sbjct: 9 ALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEAL-GAKAVFVQADLSD 67
Query: 176 T---KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTE-----DTEKETWDTL-SLNV- 225
+ + A G + LVN G LT+ DT E +D ++NV
Sbjct: 68 VEDCRRVVAAADEAFGR--LDALVNAAG--------LTDRGTILDTSPELFDRHFAVNVR 117
Query: 226 --VFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
F LM + I + G IVN+ S+S Y A+K
Sbjct: 118 APFF--LMQEAIKLMRRRKAEGTIVNIGSMSAHGGQPFLAAYCASK 161
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR
family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish CNS
myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 64.2 bits (156), Expect = 4e-12
Identities = 42/140 (30%), Positives = 77/140 (55%), Gaps = 6/140 (4%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKII-AVDL 173
+SF++TG GIG+A A +A+RG + ++ R + ++ KEIE+ G Q + VD+
Sbjct: 2 RSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLHIVDM 61
Query: 174 SGTKAAIEAVKN-QLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
S K E V+ + +H+L+NN G + + + LTED ++ + T N + T ++T
Sbjct: 62 SDPKQVWEFVEEFKEEGKKLHVLINNAGCMVN-KRELTEDGLEKNFAT---NTLGTYILT 117
Query: 233 KLILPRMKDNGRGAIVNVSS 252
++P ++ ++ VSS
Sbjct: 118 THLIPVLEKEEDPRVITVSS 137
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also an active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 235
Score = 64.0 bits (156), Expect = 4e-12
Identities = 43/157 (27%), Positives = 74/157 (47%), Gaps = 11/157 (7%)
Query: 119 VTGCTDGIGRAYAHELARRGINIV-LISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VTG GIG+A+ L G V R +A + + +G + + +D++
Sbjct: 8 VTGANRGIGKAFVESLLAHGAKKVYAAVRDPG----SAAHLVAKYGDKVVPLRLDVT-DP 62
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKLIL 236
+I+A Q D V +++NN G L P +L E+ E + +NV + +
Sbjct: 63 ESIKAAAAQAKD--VDVVINNAGVLK--PATLLEEGALEALKQEMDVNVFGLLRLAQAFA 118
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATKTVRY 273
P +K NG GAIVN++S++ + Y+A+K+ Y
Sbjct: 119 PVLKANGGGAIVNLNSVASLKNFPAMGTYSASKSAAY 155
>gnl|CDD|187616 cd05358, GlcDH_SDR_c, glucose 1 dehydrogenase (GlcDH), classical
(c) SDRs. GlcDH, is a tetrameric member of the SDR
family, it catalyzes the NAD(P)-dependent oxidation of
beta-D-glucose to D-glucono-delta-lactone. GlcDH has a
typical NAD-binding site glycine-rich pattern as well as
the canonical active site tetrad (YXXXK motif plus
upstream Ser and Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 63.9 bits (156), Expect = 5e-12
Identities = 47/162 (29%), Positives = 80/162 (49%), Gaps = 14/162 (8%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAV-- 171
+ +VTG + GIG+A A LA G N+V+ R+ + ++ +EI+++ G K IAV
Sbjct: 4 KVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIKAVGG---KAIAVQA 60
Query: 172 DLSGTKAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFT 228
D+S + + A+ + ILVNN G + + E W+ + +N+
Sbjct: 61 DVS-KEEDVVALFQSAIKEFGTLDILVNNAGLQGDAS---SHEMTLEDWNKVIDVNLTGQ 116
Query: 229 TLMTKLILPRMKDNGR-GAIVNVSSISEASPWALFNVYAATK 269
L + + R + + G I+N+SS+ E PW YAA+K
Sbjct: 117 FLCAREAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASK 158
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 63.6 bits (155), Expect = 5e-12
Identities = 49/158 (31%), Positives = 76/158 (48%), Gaps = 18/158 (11%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDLSGTK 177
VTG T G G ++G ++ R E+L++ E+ ++L+ Q + +
Sbjct: 5 VTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDNLYIAQLDV------RNR 58
Query: 178 AAIEAVKNQLGDHPVHI--LVNNVG-SLSSYP--KSLTEDTEKETWDTL-SLNVVFTTLM 231
AAIE + L +I LVNN G +L P K+ ED W+T+ N M
Sbjct: 59 AAIEEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVED-----WETMIDTNNKGLVYM 113
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
T+ +LP M + G I+N+ S + + P+A NVY ATK
Sbjct: 114 TRAVLPGMVERNHGHIINIGSTAGSWPYAGGNVYGATK 151
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 63.1 bits (154), Expect = 9e-12
Identities = 36/156 (23%), Positives = 64/156 (41%), Gaps = 12/156 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
++TG GIG A A G +V+ + + A EI G +++D++
Sbjct: 10 LLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEI----GPAAIAVSLDVTRQD 65
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ A + G + IL NN P + + + ++NV + +
Sbjct: 66 SIDRIVAAAVERFG--GIDILFNNAALFDMAP--ILDISRDSYDRLFAVNVKGLFFLMQA 121
Query: 235 ILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
+ M + GRG I+N++S + AL + Y ATK
Sbjct: 122 VARHMVEQGRGGKIINMASQAGRRGEALVSHYCATK 157
>gnl|CDD|187596 cd05337, BKR_1_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 1, classical (c) SDR.
This subgroup includes Escherichia coli CFT073 FabG. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 255
Score = 62.9 bits (153), Expect = 1e-11
Identities = 41/148 (27%), Positives = 69/148 (46%), Gaps = 15/148 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLIS-RTLEKLKKTAKEIESLHGVQTKIIAVD---L 173
+VTG + GIGRA A ELA RG +I + ++ + E+ + G + D L
Sbjct: 5 IVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLA-AGRRAIYFQADIGEL 63
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMT 232
S +A ++ G + LVNN G L + TE +++D L ++N+ +T
Sbjct: 64 SDHEALLDQAWEDFGR--LDCLVNNAGIAVRPRGDLLDLTE-DSFDRLIAINLRGPFFLT 120
Query: 233 KLILPRM------KDNGRGAIVNVSSIS 254
+ + RM D +I+ V+SI+
Sbjct: 121 QAVARRMVEQPDRFDGPHRSIIFVTSIN 148
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 62.8 bits (153), Expect = 1e-11
Identities = 43/159 (27%), Positives = 78/159 (49%), Gaps = 13/159 (8%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLIS----RTLEKLKKTAKEIESLHGVQTKIIAVDL- 173
+TG + G+GRA A LA G +++++ R + A IE+ G + +A D+
Sbjct: 11 ITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEA-AGGKALGLAFDVR 69
Query: 174 --SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVV-FTTL 230
+ T+AA++A + G + ILVNN G + + E + +E D + +N+ F +
Sbjct: 70 DFAATRAALDAGVEEFG--RLDILVNNAGIATD--AAFAELSIEEWDDVIDVNLDGFFNV 125
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ P ++ G IVN++S++ YAA+K
Sbjct: 126 TQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASK 164
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 62.8 bits (153), Expect = 1e-11
Identities = 47/161 (29%), Positives = 70/161 (43%), Gaps = 10/161 (6%)
Query: 114 IQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEK-LKKTAKEIESLHGVQTKIIAVD 172
+ ++TG GIGRA A LA G NIVL LE+ K T +EI G + D
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEA-GYNAVAVGAD 60
Query: 173 LSGTK---AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTT 229
++ A I+ + G ++VNN G P L TE++ ++NV
Sbjct: 61 VTDKDDVEALIDQAVEKFGS--FDVMVNNAGIAPITP--LLTITEEDLKKVYAVNVFGVL 116
Query: 230 LMTKLILPRMKDNGR-GAIVNVSSISEASPWALFNVYAATK 269
+ + K G G I+N SSI+ + Y+A+K
Sbjct: 117 FGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYSASK 157
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 62.5 bits (152), Expect = 2e-11
Identities = 46/155 (29%), Positives = 71/155 (45%), Gaps = 8/155 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIE--SLHGVQTKIIAVDLSG 175
+VTG + GIG A A LA+ G ++L R KL A+ ++ L D
Sbjct: 14 LVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALAFDVTDHDA 73
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMTKL 234
+AAI+A + ++G P+ ILVNN G P ED + ++ L N+ + +
Sbjct: 74 VRAAIDAFEAEIG--PIDILVNNAGMQFRTP---LEDFPADAFERLLRTNISSVFYVGQA 128
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ M G G I+N++S+ A Y ATK
Sbjct: 129 VARHMIARGAGKIINIASVQSALARPGIAPYTATK 163
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 62.3 bits (152), Expect = 2e-11
Identities = 42/156 (26%), Positives = 68/156 (43%), Gaps = 12/156 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAV-DLSGT 176
VVTG GIG A L RG + L+ +L A E+ V T + V DL+
Sbjct: 13 VVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELGGDDRVLTVVADVTDLAAM 72
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNV--VFTTLMTK 233
+AA E + G + ++V N G S + + + + +N+ VF T +
Sbjct: 73 QAAAEEAVERFG--GIDVVVANAGIASGGS---VAQVDPDAFRRVIDVNLLGVFHT--VR 125
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP + + RG ++ VSS++ + Y A+K
Sbjct: 126 ATLPALIER-RGYVLQVSSLAAFAAAPGMAAYCASK 160
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 62.1 bits (151), Expect = 3e-11
Identities = 40/158 (25%), Positives = 78/158 (49%), Gaps = 12/158 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEK-LKKTAKEIESLHGVQTKIIAVDLS-- 174
V+TG + G+GRA A + +V+ R+ E+ A+EI+ G + + D++
Sbjct: 11 VITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKK-AGGEAIAVKGDVTVE 69
Query: 175 -GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMT 232
I+ + G + +++NN G ++ P + + E W+ ++ N+ L +
Sbjct: 70 SDVVNLIQTAVKEFGT--LDVMINNAGIENAVP---SHEMSLEDWNKVINTNLTGAFLGS 124
Query: 233 KLILPRMKDNG-RGAIVNVSSISEASPWALFNVYAATK 269
+ + ++ +G I+N+SS+ E PW LF YAA+K
Sbjct: 125 REAIKYFVEHDIKGNIINMSSVHEQIPWPLFVHYAASK 162
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 62.0 bits (151), Expect = 3e-11
Identities = 38/139 (27%), Positives = 66/139 (47%), Gaps = 8/139 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDLSGT 176
+VTG GIG A A AR G + L ++ A I + G + + D++
Sbjct: 11 LVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARVLAVPADVTDA 70
Query: 177 KAAIEAVKNQLGDH-PVHILVNNVG-SLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+ AV P+ +LVNN G ++ + P ++T+ E W ++++ +
Sbjct: 71 ASVAAAVAAAEEAFGPLDVLVNNAGINVFADPLAMTD----EDWRRCFAVDLDGAWNGCR 126
Query: 234 LILPRMKDNGRGAIVNVSS 252
+LP M + GRG+IVN++S
Sbjct: 127 AVLPGMVERGRGSIVNIAS 145
Score = 27.3 bits (61), Expect = 9.1
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMN 73
AL +EY + V IAP ++ T++
Sbjct: 171 ALGIEYAARNVRVNAIAPGYIETQLT 196
>gnl|CDD|187642 cd08937, DHB_DH-like_SDR_c,
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase (DHB DH)-like, classical (c) SDR. DHB DH
(aka 1,2-dihydroxycyclohexa-3,5-diene-1-carboxylate
dehydrogenase) catalyzes the NAD-dependent conversion of
1,2-dihydroxycyclohexa-3,4-diene carboxylate to a
catechol. This subgroup also contains Pseudomonas putida
F1 CmtB, 2,3-dihydroxy-2,3-dihydro-p-cumate
dehydrogenase, the second enzyme in the pathway for
catabolism of p-cumate catabolism. This subgroup shares
the glycine-rich NAD-binding motif of the classical SDRs
and shares the same catalytic triad; however, the
upstream Asn implicated in cofactor binding or catalysis
in other SDRs is generally substituted by a Ser. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 61.4 bits (149), Expect = 3e-11
Identities = 45/141 (31%), Positives = 70/141 (49%), Gaps = 10/141 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
VVTG GIGR A LA G ++L+ R+ E + + EI + G + DL
Sbjct: 8 VVTGAAQGIGRGVAERLAGEGARVLLVDRS-ELVHEVLAEILAA-GDAAHVHTADLETYA 65
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT-K 233
G + + A + G V +L+NNVG + + K E++ + ++ F TL +
Sbjct: 66 GAQGVVRAAVERFGR--VDVLINNVGG-TIWAKPYEHYEEEQIEAEIRRSL-FPTLWCCR 121
Query: 234 LILPRMKDNGRGAIVNVSSIS 254
+LP M + +G IVNVSSI+
Sbjct: 122 AVLPHMLERQQGVIVNVSSIA 142
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 61.2 bits (149), Expect = 4e-11
Identities = 44/164 (26%), Positives = 73/164 (44%), Gaps = 14/164 (8%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISR-TLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
VTG + GIG+A A LA RG ++V+ R + + + A EIE L G + ++ D+S
Sbjct: 3 VTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEEL-GGKAVVVRADVSQPQ 61
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ AVK + G + +LV+N + + L+E T ++ N+ +
Sbjct: 62 DVEEMFAAVKERFGR--LDVLVSNAA--AGAFRPLSELTPAHWDAKMNTNLKALVHCAQQ 117
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT-----VRY 273
M++ G G IV +SS+ + K VRY
Sbjct: 118 AAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRY 161
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 61.2 bits (149), Expect = 4e-11
Identities = 43/156 (27%), Positives = 78/156 (50%), Gaps = 14/156 (8%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD---LSG 175
+TG + GIG A A L G + + +R ++L++ A E+ + V +A D +
Sbjct: 11 ITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNKGNV--LGLAADVRDEAD 68
Query: 176 TKAAIEAVKNQLGDHPVHILVNN--VGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+ A++A+ G + +L+ N VG + + LT + + DT +L F T+ K
Sbjct: 69 VQRAVDAIVAAFGG--LDVLIANAGVGHFAPV-EELTPEEWRLVIDT-NLTGAFYTI--K 122
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P +K G G I+N+SS++ + +A Y A+K
Sbjct: 123 AAVPALKRGG-GYIINISSLAGTNFFAGGAAYNASK 157
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 60.9 bits (148), Expect = 4e-11
Identities = 49/160 (30%), Positives = 79/160 (49%), Gaps = 12/160 (7%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA--VD 172
Q V+TG + GIGRA A A RG +VL +R+ E L + A+E+ L G ++A D
Sbjct: 1 QVVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGGEAIAVVADVAD 60
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVG-SLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
+ + A + + G + VNN G ++ + +T + + +D L V+ TL
Sbjct: 61 AAQVERAADTAVERFG--RIDTWVNNAGVAVFGRFEDVTPEEFRRVFDVNYLGHVYGTLA 118
Query: 232 TKLILPRMKDNGRGAIVNVSSI-SEAS-PWALFNVYAATK 269
LP ++ G GA++NV S+ S P Y+A+K
Sbjct: 119 A---LPHLRRRGGGALINVGSLLGYRSAPLQ--AAYSASK 153
>gnl|CDD|187621 cd05363, SDH_SDR_c, Sorbitol dehydrogenase (SDH), classical (c)
SDR. This bacterial subgroup includes Rhodobacter
sphaeroides SDH, and other SDHs. SDH preferentially
interconverts D-sorbitol (D-glucitol) and D-fructose,
but also interconverts L-iditol/L-sorbose and
galactitol/D-tagatose. SDH is NAD-dependent and is a
dimeric member of the SDR family. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 254
Score = 61.1 bits (148), Expect = 5e-11
Identities = 47/157 (29%), Positives = 73/157 (46%), Gaps = 8/157 (5%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
++ ++TG GIGRA+A R G + + LE + TA EI + D +
Sbjct: 4 KTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGP-AACAISLDVTDQA 62
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMTK 233
+ A+ ++ G + ILVNN P D +E++D L ++NV T M +
Sbjct: 63 SIDRCVAALVDRWGS--IDILVNNAALFDLAP---IVDITRESYDRLFAINVSGTLFMMQ 117
Query: 234 LILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
+ M GRG I+N++S + AL VY ATK
Sbjct: 118 AVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATK 154
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide it
translocates into the plasma membrane, where it's action
may generate cytotoxic aldehydes and may lower estrogen
levels through its use of 17-beta-estradiol as a
substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 252
Score = 61.2 bits (149), Expect = 5e-11
Identities = 38/172 (22%), Positives = 71/172 (41%), Gaps = 28/172 (16%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
VVTG G+G A L +G +V++ + AK ++ V +
Sbjct: 3 LVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVAKLGDNCRFVPVDV--TSEK 60
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEK----ETWD-TLSLNVVFTT 229
KAA+ K + G + I+VN G ++ K+ + ++ E + +++N++ T
Sbjct: 61 DVKAALALAKAKFG--RLDIVVNCAG-IAVAAKTYNKKGQQPHSLELFQRVINVNLIGTF 117
Query: 230 LMTKLILPRM------KDNGRGAIVNVSSISEASPWALFN------VYAATK 269
+ +L M + RG I+N +S+ A F Y+A+K
Sbjct: 118 NVIRLAAGAMGKNEPDQGGERGVIINTASV------AAFEGQIGQAAYSASK 163
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 60.9 bits (148), Expect = 5e-11
Identities = 41/158 (25%), Positives = 69/158 (43%), Gaps = 15/158 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHG--VQTKIIAVDLS 174
+VTG + GIG A A LA G + + + + + EIE+ G + + D +
Sbjct: 9 IVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEIEAAGGRAIAVQADVADAA 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNV--VFTTLM 231
+A + G + +LVNN G + D + E +D T++ N+ F L
Sbjct: 69 AVTRLFDAAETAFGR--IDVLVNNAGVMPLGT---IADFDLEDFDRTIATNLRGAFVVL- 122
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ + GR I+N+S+ A P + YAA+K
Sbjct: 123 -REAARHLGQGGR--IINLSTSVIALPLPGYGPYAASK 157
>gnl|CDD|131468 TIGR02415, 23BDH, acetoin reductases. One member of this family,
as characterized in Klebsiella terrigena, is described
as able to interconvert acetoin + NADH with
meso-2,3-butanediol + NAD(+). It is also called capable
of irreversible reduction of diacetyl with NADH to
acetoin. Blomqvist, et al. decline to specify either EC
1.1.1.4 which is (R,R)-butanediol dehydrogenase, or EC
1.1.1.5, which is acetoin dehydrogenase without a
specified stereochemistry, for this enzyme. This enzyme
is a homotetramer in the family of short chain
dehydrogenases (pfam00106). Another member of this
family, from Corynebacterium glutamicum, is called
L-2,3-butanediol dehydrogenase (PMID:11577733) [Energy
metabolism, Fermentation].
Length = 254
Score = 60.9 bits (148), Expect = 5e-11
Identities = 42/156 (26%), Positives = 68/156 (43%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG+ A LA+ G + + E K+TAKEI G + +D+S
Sbjct: 4 LVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQ-AGGKAVAYKLDVSDKD 62
Query: 178 AAIEAVKN---QLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A+ + G ++VNN G + E TE+E ++NV +
Sbjct: 63 QVFSAIDQAAEKFGG--FDVMVNNAGVAPI--TPILEITEEELKKVYNVNVKGVLFGIQA 118
Query: 235 ILPRMKDNG-RGAIVNVSSISEASPWALFNVYAATK 269
+ K G G I+N +SI+ + + Y++TK
Sbjct: 119 AARQFKKQGHGGKIINAASIAGHEGNPILSAYSSTK 154
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 60.9 bits (148), Expect = 6e-11
Identities = 48/156 (30%), Positives = 71/156 (45%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG GIGRA A AR G +V+ R ++T I G + +A D++
Sbjct: 11 LVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAGG-EALFVACDVTRDA 69
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLS-LNVVFTTLMTK 233
KA +E G + NN G + L E +E E +D + +NV L K
Sbjct: 70 EVKALVEQTIAAYGR--LDYAFNNAG-IEIEQGRLAEGSEAE-FDAIMGVNVKGVWLCMK 125
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+P M G GAIVN +S++ ++YAA+K
Sbjct: 126 YQIPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASK 161
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 60.8 bits (148), Expect = 6e-11
Identities = 38/141 (26%), Positives = 63/141 (44%), Gaps = 9/141 (6%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS---G 175
+TG + GIG A A A+ G IV E + K G++ D++ G
Sbjct: 15 ITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRE-LGIEAHGYVCDVTDEDG 73
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
+A + ++ ++G + ILVNN G + P + + LN F ++K +
Sbjct: 74 VQAMVSQIEKEVG--VIDILVNNAGIIKRIPMLEMSAEDFRQVIDIDLNAPFI--VSKAV 129
Query: 236 LPRMKDNGRGAIVNVSSI-SE 255
+P M G G I+N+ S+ SE
Sbjct: 130 IPSMIKKGHGKIINICSMMSE 150
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 60.9 bits (148), Expect = 7e-11
Identities = 49/147 (33%), Positives = 75/147 (51%), Gaps = 23/147 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
V+TG + GIG+A A LA+ G VL E + +T +I+S +G + K VD+S
Sbjct: 10 VITGASTGIGQASAIALAQEGAY-VLAVDIAEAVSETVDKIKS-NGGKAKAYHVDISDEQ 67
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNV------GSLSSYPKSLTEDTEKETWD-TLSLNVVF 227
K +K Q G V +L NN G + YP + +D +++++
Sbjct: 68 QVKDFASEIKEQFGR--VDVLFNNAGVDNAAGRIHEYP--------VDVFDKIMAVDMRG 117
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSIS 254
T LMTK++LP M + G G+I+N SS S
Sbjct: 118 TFLMTKMLLPLMMEQG-GSIINTSSFS 143
>gnl|CDD|187666 cd09806, type1_17beta-HSD-like_SDR_c, human estrogenic
17beta-hydroxysteroid dehydrogenase type 1 (type 1
17beta-HSD)-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. This classical SDR subgroup
includes human type 1 17beta-HSD, human retinol
dehydrogenase 8, zebrafish photoreceptor associated
retinol dehydrogenase type 2, and a chicken
ovary-specific 17beta-hydroxysteroid dehydrogenase. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 60.6 bits (147), Expect = 8e-11
Identities = 49/157 (31%), Positives = 73/157 (46%), Gaps = 10/157 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGV--QT-KIIAVDLS 174
++TGC+ GIG A LA + T+ LKK + E+ + T + + +D+
Sbjct: 4 LITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLETLQLDVC 63
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVG-SLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+K+ AV+ H V +LV N G L ++L+ED +D NV T M +
Sbjct: 64 DSKSVAAAVERVTERH-VDVLVCNAGVGLLGPLEALSEDAMASVFDV---NVFGTVRMLQ 119
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFN-VYAATK 269
LP MK G G I+ SS+ FN VY A+K
Sbjct: 120 AFLPDMKRRGSGRILVTSSVGGLQG-LPFNDVYCASK 155
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 60.7 bits (148), Expect = 8e-11
Identities = 46/145 (31%), Positives = 72/145 (49%), Gaps = 17/145 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLE---KLKKT----AKEIESLHGVQTKIIA 170
+TG + GIG A A AR G NIV+ ++T E KL T A+EIE+ G Q +
Sbjct: 10 FITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEA-AGGQALPLV 68
Query: 171 VDL---SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVV 226
D+ AA+ + G + I VNN +++ TEDT + +D + +NV
Sbjct: 69 GDVRDEDQVAAAVAKAVERFGG--IDICVNNASAINLTG---TEDTPMKRFDLMQQINVR 123
Query: 227 FTTLMTKLILPRMKDNGRGAIVNVS 251
T L+++ LP +K + I+ +S
Sbjct: 124 GTFLVSQACLPHLKKSENPHILTLS 148
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup has
a canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 59.4 bits (144), Expect = 1e-10
Identities = 42/153 (27%), Positives = 69/153 (45%), Gaps = 7/153 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTA-KEIESLHGVQTKIIAVDLSGT 176
+VTG + GIG A A L G + + +R +L A +E+E + G+ + D +
Sbjct: 4 LVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELEGVLGLAGDV--RDEADV 61
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
+ A++A++ G + LVNN G K + E T +E L N+
Sbjct: 62 RRAVDAMEEAFGG--LDALVNNAG--VGVMKPVEELTPEEWRLVLDTNLTGAFYCIHKAA 117
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P + G G IVNV S++ + + Y A+K
Sbjct: 118 PALLRRGGGTIVNVGSLAGKNAFKGGAAYNASK 150
>gnl|CDD|132250 TIGR03206, benzo_BadH, 2-hydroxycyclohexanecarboxyl-CoA
dehydrogenase. Members of this protein family are the
enzyme 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase.
The enzymatic properties were confirmed experimentally
in Rhodopseudomonas palustris; the enzyme is
homotetrameric, and not sensitive to oxygen. This enzyme
is part of proposed pathway for degradation of
benzoyl-CoA to 3-hydroxypimeloyl-CoA that differs from
the analogous in Thauera aromatica. It also may occur in
degradation of the non-aromatic compound
cyclohexane-1-carboxylate.
Length = 250
Score = 59.9 bits (145), Expect = 1e-10
Identities = 48/158 (30%), Positives = 71/158 (44%), Gaps = 14/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG GIG A A G + + E +K A +I + G + A D++
Sbjct: 7 IVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKGG-NAQAFACDITDRD 65
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVG--SLSSYPKSLTEDTEKETWDTL-SLNVVFTTLM 231
A+ A + LG PV +LVNN G + K TE W+ L ++N+ M
Sbjct: 66 SVDTAVAAAEQALG--PVDVLVNNAGWDKFGPFTK-----TEPPLWERLIAINLTGALHM 118
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP M + G G IVN++S + + VYAA K
Sbjct: 119 HHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYAACK 156
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 59.8 bits (145), Expect = 2e-10
Identities = 39/155 (25%), Positives = 72/155 (46%), Gaps = 8/155 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG GIG A LA G I++ T E+ + ++ G++ +++ +
Sbjct: 13 LITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQE-GIKAHAAPFNVTHKQ 71
Query: 178 A---AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
AIE ++ +G P+ +L+NN G +P TE E+E D +++N L+++
Sbjct: 72 EVEAAIEHIEKDIG--PIDVLINNAGIQRRHP--FTEFPEQEWNDVIAVNQTAVFLVSQA 127
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ M G I+N+ S+ YAA+K
Sbjct: 128 VARYMVKRQAGKIINICSMQSELGRDTITPYAASK 162
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 59.9 bits (146), Expect = 2e-10
Identities = 49/157 (31%), Positives = 79/157 (50%), Gaps = 20/157 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-- 175
+VTG + GIGRA A +LAR G + SR + + GV +++ +D++
Sbjct: 8 LVTGASSGIGRATAEKLARAGYRVFGTSRNPARAA-------PIPGV--ELLELDVTDDA 58
Query: 176 -TKAAIEAVKNQLGDHPVHILVNN--VGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
+AA++ V + G + +LVNN VG + +S + +DT NV MT
Sbjct: 59 SVQAAVDEVIARAGR--IDVLVNNAGVGLAGAAEESSIAQA-QALFDT---NVFGILRMT 112
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ +LP M+ G G I+N+SS+ P +YAA+K
Sbjct: 113 RAVLPHMRAQGSGRIINISSVLGFLPAPYMALYAASK 149
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 59.3 bits (144), Expect = 2e-10
Identities = 33/134 (24%), Positives = 54/134 (40%), Gaps = 7/134 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
V G DG+G A A A G ++ L +R KL+ +I G K + D
Sbjct: 3 AVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGGSAKAVPTDARDED 62
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A + ++ ++G P+ +LV N G ++ + E T + + L +
Sbjct: 63 EVIALFDLIEEEIG--PLEVLVYNAG--ANVWFPILETTPRVFEKVWEMAAFGGFLAARE 118
Query: 235 ILPRMKDNGRGAIV 248
RM GRG I+
Sbjct: 119 AAKRMLARGRGTII 132
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 59.3 bits (144), Expect = 2e-10
Identities = 45/159 (28%), Positives = 72/159 (45%), Gaps = 15/159 (9%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEK-LKKTAKEIESLHGVQTKIIAV----DL 173
+TG G+GRA A +A +G + L L A EI + HG AV D
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINAAHGEGVAFAAVQDVTDE 63
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNN--VGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTL 230
+ +A + + +G + +LVNN VGS + E E + W +++NV L
Sbjct: 64 AQWQALLAQAADAMGG--LSVLVNNAGVGSFGA-----IEQIELDEWRRVMAINVESIFL 116
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
K LP ++ + +IVN+SS++ + Y A+K
Sbjct: 117 GCKHALPYLRASQPASIVNISSVAAFKAEPDYTAYNASK 155
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 58.8 bits (143), Expect = 2e-10
Identities = 51/155 (32%), Positives = 77/155 (49%), Gaps = 18/155 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIG A A ELA ++L R E+L + A E+ VDL+
Sbjct: 7 LITGASRGIGAAIARELAPTHT-LLLGGRPAERLDELAAELPGATPFP-----VDLTDP- 59
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
AI A QLG + +LV+N G + + E T E TL +NVV +T+L+LP
Sbjct: 60 EAIAAAVEQLG--RLDVLVHNAG--VADLGPVAESTVDEWRATLEVNVVAPAELTRLLLP 115
Query: 238 RMKDNGRGAIVNVSSIS--EASP-WALFNVYAATK 269
++ G +V ++S + A+P W YAA+K
Sbjct: 116 ALRAA-HGHVVFINSGAGLRANPGWG---SYAASK 146
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 258
Score = 59.1 bits (143), Expect = 3e-10
Identities = 49/166 (29%), Positives = 76/166 (45%), Gaps = 28/166 (16%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
+VTG T GIG A A L + G+ + + +R E L T KE+ GV+ D+
Sbjct: 7 LVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELRE-AGVEADGRTCDVRSVP 65
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL---SLNVVFTTLM 231
+A + A + G P+ +LVNN G T + E W + +L VF +
Sbjct: 66 EIEALVAAAVARYG--PIDVLVNNAGRSGG---GATAELADELWLDVVETNLTGVF--RV 118
Query: 232 TKLILPR--MKDNGRGAIVNVSS------ISEASPWALFNVYAATK 269
TK +L M + G G I+N++S + A+P Y+A+K
Sbjct: 119 TKEVLKAGGMLERGTGRIINIASTGGKQGVVHAAP------YSASK 158
Score = 27.5 bits (61), Expect = 8.0
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVR 80
AL +E + GITV + P FV T M + VR
Sbjct: 167 ALGLELARTGITVNAVCPGFVETPM---AASVR 196
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 59.0 bits (143), Expect = 3e-10
Identities = 42/140 (30%), Positives = 75/140 (53%), Gaps = 11/140 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG G+G+ YA LA+ G +I++ + +T + IE G + + VDL+ +
Sbjct: 19 IVTGGNTGLGQGYAVALAKAGADIIITTHG-TNWDETRRLIEKE-GRKVTFVQVDLTKPE 76
Query: 178 AAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTEDTEKETWDT---LSLNVVFTTLMTK 233
+A + VK L + + ILVNN G++ P L E + E W+ ++LN V+ +++
Sbjct: 77 SAEKVVKEALEEFGKIDILVNNAGTIRRAP--LLEYKD-EDWNAVMDINLNSVY--HLSQ 131
Query: 234 LILPRMKDNGRGAIVNVSSI 253
+ M G G I+N++S+
Sbjct: 132 AVAKVMAKQGSGKIINIASM 151
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 58.9 bits (143), Expect = 3e-10
Identities = 40/153 (26%), Positives = 71/153 (46%), Gaps = 9/153 (5%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+TG + G GRA+ RG +V +R L ++ +G + +A+D++ A
Sbjct: 8 ITGASRGFGRAWTEAALERGDRVVATARDTATLA----DLAEKYGDRLLPLALDVTDRAA 63
Query: 179 AIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
AV+ +H + I+VNN G + E TE E + N +T+ +L
Sbjct: 64 VFAAVE-TAVEHFGRLDIVVNNAGYGLFGM--IEEVTESEARAQIDTNFFGALWVTQAVL 120
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P +++ G I+ +SSI S + + +Y A+K
Sbjct: 121 PYLREQRSGHIIQISSIGGISAFPMSGIYHASK 153
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 58.6 bits (142), Expect = 3e-10
Identities = 46/162 (28%), Positives = 75/162 (46%), Gaps = 21/162 (12%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHGVQTKIIAVDLS- 174
VVTG GIGRA A LA+ G +V+ + E++ +T K ++ G + + D+S
Sbjct: 9 VVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVKENGG-EGIGVLADVST 67
Query: 175 --GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM- 231
G + +A ++ G ILVNN G L + L D D L + T
Sbjct: 68 REGCETLAKATIDRYGV--ADILVNNAG-LGLFSPFLNVD------DKLIDKHISTDFKS 118
Query: 232 ----TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
++ + M++ GAIVN++S++ P ++Y A K
Sbjct: 119 VIYCSQELAKEMREG--GAIVNIASVAGIRPAYGLSIYGAMK 158
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 58.5 bits (142), Expect = 3e-10
Identities = 39/158 (24%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + G+G A A +L + GI ++ ++R+ + + G + + +DLS
Sbjct: 4 AIVTGHSRGLGAALAEQLLQPGIAVLGVARS------RHPSLAAAAGERLAEVELDLSDA 57
Query: 177 KAAIEAVKNQLGDHPVH-----ILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
AA + L V +L+NN G++ T D + LNV ++
Sbjct: 58 AAAAAWLAGDLLAAFVDGASRVLLINNAGTVEPIGPLATLD-AAAIARAVGLNVAAPLML 116
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
T + D I+++SS + + +A ++VY ATK
Sbjct: 117 TAALAQAASDAAERRILHISSGAARNAYAGWSVYCATK 154
>gnl|CDD|188169 TIGR01829, AcAcCoA_reduct, acetoacetyl-CoA reductase. This model
represent acetoacetyl-CoA reductase, a member of the
family short-chain-alcohol dehydrogenases. Note that,
despite the precision implied by the enzyme name, the
reaction of EC 1.1.1.36 is defined more generally as
(R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH.
Members of this family may act in the biosynthesis of
poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and
related poly-beta-hydroxyalkanoates. Note that the
member of this family from Azospirillum brasilense,
designated NodG, appears to lack acetoacetyl-CoA
reductase activity and to act instead in the production
of nodulation factor. This family is downgraded to
subfamily for this NodG. Other proteins designated NodG,
as from Rhizobium, belong to related but distinct
protein families.
Length = 242
Score = 58.6 bits (142), Expect = 3e-10
Identities = 42/146 (28%), Positives = 69/146 (47%), Gaps = 23/146 (15%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS---G 175
VTG GIG A LA+ G + E+ + + + G +++ D+S
Sbjct: 5 VTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGDVSSFES 64
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDT-----EKETWDTL---SLNVVF 227
KAA+ V+ +LG P+ +LVNN G +T D E W + +LN VF
Sbjct: 65 CKAAVAKVEAELG--PIDVLVNNAG--------ITRDATFKKMTYEQWSAVIDTNLNSVF 114
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSI 253
+T+ ++ M++ G G I+N+SS+
Sbjct: 115 N--VTQPVIDGMRERGWGRIINISSV 138
Score = 28.2 bits (63), Expect = 4.4
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL E G+TV I+P +++T M
Sbjct: 163 ALAQEGATKGVTVNTISPGYIATDM 187
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 58.7 bits (143), Expect = 3e-10
Identities = 36/155 (23%), Positives = 58/155 (37%), Gaps = 19/155 (12%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
VTG GIG A A G ++ + + +D+S A
Sbjct: 13 VTGAAQGIGYAVALAFVEAGAKVIGFDQ----------AFLTQEDYPFATFVLDVSDAAA 62
Query: 179 AIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETW-DTLSLNV--VFTTLMTKL 234
+ + L + P+ +LVN G L T+ E W T ++N F + +
Sbjct: 63 VAQVCQRLLAETGPLDVLVNAAGILRMGA---TDSLSDEDWQQTFAVNAGGAF--NLFRA 117
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
++P+ + GAIV V S + P Y A+K
Sbjct: 118 VMPQFRRQRSGAIVTVGSNAAHVPRIGMAAYGASK 152
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 58.4 bits (142), Expect = 4e-10
Identities = 42/138 (30%), Positives = 64/138 (46%), Gaps = 9/138 (6%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG GIG A + LA G V+ R+ + A+E+ +L + + + VDL+
Sbjct: 10 VIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDD-EFAEELRAL-QPRAEFVQVDLTDD 67
Query: 177 KAAIEAVKNQLGDHPVHI--LVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+AV+ + I LVNN G L E + +L N++ +M
Sbjct: 68 AQCRDAVEQTVAKFG-RIDGLVNNAGVNDG--VGL-EAGREAFVASLERNLIHYYVMAHY 123
Query: 235 ILPRMKDNGRGAIVNVSS 252
LP +K RGAIVN+SS
Sbjct: 124 CLPHLKA-SRGAIVNISS 140
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 58.3 bits (141), Expect = 4e-10
Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 21/140 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-- 175
+VTG + GIG+A + L G N++ K + + VD+S
Sbjct: 10 IVTGGSQGIGKAVVNRLKEEGSNVINFDI------KEPSYNDVDY------FKVDVSNKE 57
Query: 176 -TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
I+ V ++ G + ILVNN G + SY E++ WD +++NV LM+K
Sbjct: 58 QVIKGIDYVISKYGR--IDILVNNAG-IESYGA--IHAVEEDEWDRIINVNVNGIFLMSK 112
Query: 234 LILPRMKDNGRGAIVNVSSI 253
+P M +G I+N++S+
Sbjct: 113 YTIPYMLKQDKGVIINIASV 132
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 58.5 bits (142), Expect = 4e-10
Identities = 53/158 (33%), Positives = 77/158 (48%), Gaps = 16/158 (10%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEK-LKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG GIGRA A A+ G +I ++ + +T + +E GV+ +I D+S
Sbjct: 51 ITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEK-EGVKCLLIPGDVSDEA 109
Query: 178 AAIEAVKN---QLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+AV+ +LG + ILVNN YP+ ED E D T N+ MTK
Sbjct: 110 FCKDAVEETVRELGR--LDILVNNAA--FQYPQQSLEDITAEQLDKTFKTNIYSYFHMTK 165
Query: 234 LILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
LP +K G AI+N SI+ E + L + Y+ATK
Sbjct: 166 AALPHLK-QG-SAIINTGSITGYEGNE-TLID-YSATK 199
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad is
not strongly conserved. HSDL2 may play a part in fatty
acid metabolism, as it is found in peroxisomes. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 58.2 bits (141), Expect = 5e-10
Identities = 48/144 (33%), Positives = 76/144 (52%), Gaps = 17/144 (11%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLE---KLKKT----AKEIESLHGVQTKIIAV 171
+TG + GIG+A A + AR G N+V+ ++T E KL T A+EIE+ G + V
Sbjct: 8 ITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGG-KALPCIV 66
Query: 172 DL---SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVF 227
D+ +AA+E + G + ILVNN ++S + T DT + +D + +N
Sbjct: 67 DIRDEDQVRAAVEKAVEKFGG--IDILVNNASAIS---LTGTLDTPMKRYDLMMGVNTRG 121
Query: 228 TTLMTKLILPRMKDNGRGAIVNVS 251
T L +K LP +K + I+N+S
Sbjct: 122 TYLCSKACLPYLKKSKNPHILNLS 145
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 57.7 bits (140), Expect = 7e-10
Identities = 45/156 (28%), Positives = 72/156 (46%), Gaps = 8/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VTG GIGRA A LA +G + L R + L +T + +L G + A+D+S
Sbjct: 4 FVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGGTVPEHRALDISDYD 63
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLMTKLIL 236
A + H +V N+ +S++ + E W + +N++ + + +
Sbjct: 64 AVAAFAADIHAAHGSMDVVMNIAGISAW--GTVDRLTHEQWRRMVDVNLMGPIHVIETFV 121
Query: 237 PRMKDNGRGA-IVNVSSISE--ASPWALFNVYAATK 269
P M GRG +VNVSS + A PW Y+A+K
Sbjct: 122 PPMVAAGRGGHLVNVSSAAGLVALPWHA--AYSASK 155
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 57.5 bits (139), Expect = 8e-10
Identities = 37/142 (26%), Positives = 63/142 (44%), Gaps = 13/142 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
++TG GIG+ A A G ++V+ + EI+ L G + A T
Sbjct: 15 IITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGG---QAFACRCDITS 71
Query: 177 ----KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
A + ++LG V ILVNN G P + + ++ LNV ++
Sbjct: 72 EQELSALADFALSKLGK--VDILVNNAGGGGPKPFDMPMADFRRAYE---LNVFSFFHLS 126
Query: 233 KLILPRMKDNGRGAIVNVSSIS 254
+L+ P M+ NG G I+ ++S++
Sbjct: 127 QLVAPEMEKNGGGVILTITSMA 148
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 57.3 bits (139), Expect = 9e-10
Identities = 43/150 (28%), Positives = 71/150 (47%), Gaps = 19/150 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAV----- 171
+VTG GIG A LA G ++ + R E+L T +E+ + GV ++I
Sbjct: 6 LVTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRA-LGV--EVIFFPADVA 62
Query: 172 DLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTL 230
DLS +A ++A + G + LVNN G L + T E++D L++N+
Sbjct: 63 DLSAHEAMLDAAQAAWG--RIDCLVNNAGVGVKVRGDLLDLTP-ESFDRVLAINLRGPFF 119
Query: 231 MTKLILPRM----KDNGR--GAIVNVSSIS 254
+T+ + RM + +IV VSS++
Sbjct: 120 LTQAVAKRMLAQPEPEELPHRSIVFVSSVN 149
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 57.5 bits (139), Expect = 1e-09
Identities = 42/145 (28%), Positives = 68/145 (46%), Gaps = 8/145 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VT + GIG A EL ++G +V+ SR E L+K KE++ V + DLS
Sbjct: 4 LVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYGEVYA--VKADLSDKD 61
Query: 178 AAIEAVKNQ---LGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
VK LG + LV N G++ P L E + + L++V +T L
Sbjct: 62 DLKNLVKEAWELLGG--IDALVWNAGNVRCEPCMLHEAGYSDWLEAALLHLVAPGYLTTL 119
Query: 235 ILPR-MKDNGRGAIVNVSSISEASP 258
++ ++ +G +V +SS+S P
Sbjct: 120 LIQAWLEKKMKGVLVYLSSVSVKEP 144
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 57.0 bits (137), Expect = 1e-09
Identities = 49/168 (29%), Positives = 78/168 (46%), Gaps = 29/168 (17%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEI--------------ESLH 162
+VTG + GIGRA A LA G + + E+ ++T EI ESLH
Sbjct: 8 LVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIGANLESLH 67
Query: 163 GVQTKIIAVDLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL- 221
GV+ ++D ++N+ G IL+NN G P + E+T ++ +D +
Sbjct: 68 GVEALYSSLD--------NELQNRTGSTKFDILINNAG---IGPGAFIEETTEQFFDRMV 116
Query: 222 SLNVVFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
S+N + + L R++DN R I+N+SS + F Y+ TK
Sbjct: 117 SVNAKAPFFIIQQALSRLRDNSR--IINISSAATRISLPDFIAYSMTK 162
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 57.1 bits (138), Expect = 1e-09
Identities = 44/162 (27%), Positives = 77/162 (47%), Gaps = 16/162 (9%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS---G 175
VTG + G+G +A LA+ G +VL SR +E+LK+ EIE+ G ++++D++
Sbjct: 14 VTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEA-EGGAAHVVSLDVTDYQS 72
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
KAA+ + + G + ILVNN G S + L + T + N + + +
Sbjct: 73 IKAAVAHAETEAG--TIDILVNNSG--VSTTQKLVDVTPADFDFVFDTNTRGAFFVAQEV 128
Query: 236 LPRMKDNGRGA--------IVNVSSISEASPWALFNVYAATK 269
RM +GA I+N++S++ +Y +K
Sbjct: 129 AKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLYCMSK 170
Score = 29.3 bits (66), Expect = 2.0
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMN 73
A+ +E+ ++GI V I P ++ T++N
Sbjct: 179 AMALEWGRHGINVNAICPGYIDTEIN 204
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 56.6 bits (137), Expect = 1e-09
Identities = 46/164 (28%), Positives = 76/164 (46%), Gaps = 9/164 (5%)
Query: 109 FWVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKI 168
F + G Q +VTG G+G A LA G ++++ R L+ + + G +
Sbjct: 7 FSLAG-QVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAA-GGAAEA 64
Query: 169 IAVDLSGTKA---AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNV 225
+A D++ +A A + + G + ILVNNVG+ + L E + L ++
Sbjct: 65 LAFDIADEEAVAAAFARIDAEHGR--LDILVNNVGARDR--RPLAELDDAAIRALLETDL 120
Query: 226 VFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
V L+++L RMK G G I+ ++SI+ A VY A K
Sbjct: 121 VAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAK 164
Score = 30.1 bits (68), Expect = 1.2
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMN 73
AL E+ +GIT IAP + +T+ N
Sbjct: 173 ALAAEFGPHGITSNAIAPGYFATETN 198
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 57.6 bits (139), Expect = 2e-09
Identities = 51/159 (32%), Positives = 69/159 (43%), Gaps = 15/159 (9%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHG----VQTKIIAVDLS 174
VTG GIGR A LA G ++VL LE + A EI G V K+ D
Sbjct: 419 VTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGAGRAVALKMDVTDEQ 478
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
KAA V G V I+VNN G +S P E+T + W L + L+ +
Sbjct: 479 AVKAAFADVALAYGG--VDIVVNNAGIATSSP---FEETTLQEWQLNLDILATGYFLVAR 533
Query: 234 LILPRMKDNGRGA-IVNVSSISE--ASPWALFNVYAATK 269
+M++ G G IV ++S + A A Y+A K
Sbjct: 534 EAFRQMREQGLGGNIVFIASKNAVYAGKNAS--AYSAAK 570
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 56.5 bits (137), Expect = 2e-09
Identities = 38/137 (27%), Positives = 70/137 (51%), Gaps = 10/137 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIG+A A LA +G + +R ++K++ A GV +++D++
Sbjct: 7 LVTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDLAS-----LGVHP--LSLDVTDEA 59
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
+ AV + + + +LVNN G SY ++ + E +N+ +T+L+L
Sbjct: 60 SIKAAVDTIIAEEGRIDVLVNNAG-YGSY-GAIEDVPIDEARRQFEVNLFGAARLTQLVL 117
Query: 237 PRMKDNGRGAIVNVSSI 253
P M+ G I+N+SS+
Sbjct: 118 PHMRAQRSGRIINISSM 134
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 55.9 bits (135), Expect = 3e-09
Identities = 47/155 (30%), Positives = 70/155 (45%), Gaps = 12/155 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG T GIGRA A R G + ++ + E AKE+ K + K
Sbjct: 11 LITGGTRGIGRAIAEAFLREGAKVAVLYNSAE---NEAKELREKGVFTIKCDVGNRDQVK 67
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
+ E V+ + G V +LVNN G + Y E E++ + +N+ T LP
Sbjct: 68 KSKEVVEKEFGR--VDVLVNNAGIM--YLMPFEEFDEEKYNKMIKINLNGAIYTTYEFLP 123
Query: 238 RMKDNGRGAIVNVSS---ISEASPWALFNVYAATK 269
+K + GAIVN++S I A+ F YA TK
Sbjct: 124 LLKLSKNGAIVNIASNAGIGTAAEGTTF--YAITK 156
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 55.8 bits (134), Expect = 3e-09
Identities = 47/144 (32%), Positives = 78/144 (54%), Gaps = 15/144 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+VTG + GIGRA A LA G + + R + +T +EIES +G + +I DL+
Sbjct: 10 LVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIES-NGGKAFLIEADLNSI 68
Query: 175 -GTKAAIEAVKNQL----GDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFT 228
G K +E +KN+L G + ILVNN G + + E+T +E +D +++N+
Sbjct: 69 DGVKKLVEQLKNELQIRVGTSEIDILVNNAGIGT---QGTIENTTEEIFDEIMAVNIKAP 125
Query: 229 TLMTKLILPRMKDNGRGAIVNVSS 252
+ + LP ++ GR ++N+SS
Sbjct: 126 FFLIQQTLPLLRAEGR--VINISS 147
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 55.7 bits (134), Expect = 4e-09
Identities = 51/161 (31%), Positives = 70/161 (43%), Gaps = 19/161 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VVTG GIG+ A ELAR G + + + A EI G K I V + T
Sbjct: 11 VVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKAGG---KAIGVAMDVTN 67
Query: 178 -----AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL-SLNVVFTTLM 231
A I+ V + G V ILV+N G P E+ W + +++V L
Sbjct: 68 EDAVNAGIDKVAERFGS--VDILVSNAGIQIVNP---IENYSFADWKKMQAIHVDGAFLT 122
Query: 232 TKLILPRM-KDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
TK L M KD+ G ++ + S+ EASP L + Y K
Sbjct: 123 TKAALKHMYKDDRGGVVIYMGSVHSHEASP--LKSAYVTAK 161
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 55.5 bits (134), Expect = 4e-09
Identities = 38/137 (27%), Positives = 58/137 (42%), Gaps = 6/137 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG+A A G ++ + L A + V D +
Sbjct: 6 LVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADALGDARFVPVACDLTDAASLA 65
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKLIL 236
AA+ + G PV +LV N G+ + SL DT +W +LN+ L + +L
Sbjct: 66 AALANAAAERG--PVDVLVANAGAARA--ASL-HDTTPASWRADNALNLEAAYLCVEAVL 120
Query: 237 PRMKDNGRGAIVNVSSI 253
M RGA+VN+ S+
Sbjct: 121 EGMLKRSRGAVVNIGSV 137
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 55.1 bits (133), Expect = 5e-09
Identities = 40/140 (28%), Positives = 71/140 (50%), Gaps = 9/140 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLI-SRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + GIG+A A LA G +I + +R+ + ++TA+EIE+L G + + ++ G
Sbjct: 8 LVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEAL-GRKALAVKANV-GD 65
Query: 177 KAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
I+ + Q+ + + + VNN S P E E WD T+++N +
Sbjct: 66 VEKIKEMFAQIDEEFGRLDVFVNNAASGVLRP--AMELEESH-WDWTMNINAKALLFCAQ 122
Query: 234 LILPRMKDNGRGAIVNVSSI 253
M+ G G I+++SS+
Sbjct: 123 EAAKLMEKVGGGKIISLSSL 142
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 54.7 bits (132), Expect = 8e-09
Identities = 39/144 (27%), Positives = 63/144 (43%), Gaps = 16/144 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAV-----D 172
VVTG + GIG A L G ++ + R E+L + +++A D
Sbjct: 12 VVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFP-GARLLAARCDVLD 70
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVGS--LSSYPKSLTEDTEKETW-DTLSLNVVFTT 229
+ A AV+ + G V +LVNN G +S++ DT + W D L L
Sbjct: 71 EADVAAFAAAVEARFG--GVDMLVNNAGQGRVSTF-----ADTTDDAWRDELELKYFSVI 123
Query: 230 LMTKLILPRMKDNGRGAIVNVSSI 253
T+ LP ++ + +IV V+S+
Sbjct: 124 NPTRAFLPLLRASAAASIVCVNSL 147
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a member
of the family of short-chain-alcohol dehydrogenases
(pfam00106). This protein has been characterized in
Erwinia chrysanthemi as an enzyme of pectin degradation
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 248
Score = 54.4 bits (131), Expect = 8e-09
Identities = 40/142 (28%), Positives = 69/142 (48%), Gaps = 15/142 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA--VDLSG 175
+VTG G+G+ A LA G +IV R+ + +T +++E+L + A D+
Sbjct: 9 LVTGANTGLGQGIAVGLAEAGADIVGAGRS--EPSETQQQVEALGRRFLSLTADLSDIEA 66
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD---TLSLNVVFTTLMT 232
KA +++ + G + ILVNN G + E +EK+ WD ++L VF +T
Sbjct: 67 IKALVDSAVEEFG--HIDILVNNAGIIRR--ADAEEFSEKD-WDDVMNVNLKSVF--FLT 119
Query: 233 KLILPRM-KDNGRGAIVNVSSI 253
+ K G I+N++S+
Sbjct: 120 QAAAKHFLKQGRGGKIINIASM 141
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 54.6 bits (132), Expect = 8e-09
Identities = 40/167 (23%), Positives = 66/167 (39%), Gaps = 26/167 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
V+TG G G A+A A G+ +VL + L + E+ + G + + D+S
Sbjct: 10 VITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQ-GAEVLGVRTDVSDAA 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
+A +A + G VH+L NN G + + E++ + W+ L +N+ +
Sbjct: 69 QVEALADAALERFG--AVHLLFNNAGVGAGGL--VWENSLAD-WEWVLGVNLWGVIHGVR 123
Query: 234 LILPRMKDNG------RGAIVNVSSISEASPWALFN-----VYAATK 269
P M G IVN AS L +Y +K
Sbjct: 124 AFTPLMLAAAEKDPAYEGHIVNT-----ASMAGLLAPPAMGIYNVSK 165
>gnl|CDD|187592 cd05331, DH-DHB-DH_SDR_c, 2,3 dihydro-2,3 dihydrozybenzoate
dehydrogenases, classical (c) SDRs. 2,3 dihydro-2,3
dihydrozybenzoate dehydrogenase shares the
characteristics of the classical SDRs. This subgroup
includes Escherichai coli EntA which catalyzes the
NAD+-dependent oxidation of
2,3-dihydro-2,3-dihydroxybenzoate to
2,3-dihydroxybenzoate during biosynthesis of the
siderophore Enterobactin. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 54.4 bits (131), Expect = 8e-09
Identities = 47/156 (30%), Positives = 71/156 (45%), Gaps = 19/156 (12%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
VTG GIGRA A L + G ++ + L + +G ++ +D++ A
Sbjct: 3 VTGAAQGIGRAVARHLLQAGATVIALDLPFVLLLE--------YGDPLRLTPLDVADA-A 53
Query: 179 AIEAVKNQLG--DHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNV--VFTTLMTK 233
A+ V ++L P+ LVN G L P + E W+ T ++NV VF L +
Sbjct: 54 AVREVCSRLLAEHGPIDALVNCAGVL--RPGATDPL-STEDWEQTFAVNVTGVFNLL--Q 108
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ P MKD GAIV V+S + P Y A+K
Sbjct: 109 AVAPHMKDRRTGAIVTVASNAAHVPRISMAAYGASK 144
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related proteins.
These are members of the classical SDR family, with a
canonical Gly-rich NAD-binding motif and the typical
YXXXK active site motif. However, the rest of the
catalytic tetrad is not strongly conserved. DHRS1 mRNA
has been detected in many tissues, liver, heart,
skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 265
Score = 54.4 bits (131), Expect = 1e-08
Identities = 44/160 (27%), Positives = 68/160 (42%), Gaps = 19/160 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLE-KLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + GIGR A +L G + + RT+ +L TA+EIE+ G K I V +
Sbjct: 7 LVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEARGG---KCIPVRCDHS 63
Query: 177 K-AAIEAVKNQLGDHP---VHILVNNVGSLSSYPKSLTEDTEK------ETWDTLSLNVV 226
+EA+ ++ + ILVNN ++ L + WD ++ +
Sbjct: 64 DDDEVEALFERVAREQQGRLDILVNNA--YAAVQLILVGVAKPFWEEPPTIWDDINNVGL 121
Query: 227 FTTLMTKLI-LPRMKDNGRGAIVNVSSISEASPWALFNVY 265
+ P M G+G IV +SS LFNV
Sbjct: 122 RAHYACSVYAAPLMVKAGKGLIVIISSTGGLE--YLFNVA 159
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 54.4 bits (131), Expect = 1e-08
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 12/157 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
+V G + GIG A A ELA G + L +R +EK ++ +I + G + +A L T
Sbjct: 14 LVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRADGG---EAVAFPLDVTD 70
Query: 177 ----KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
K+ + + LG + +LV+ G Y L E + ++ + +++V +
Sbjct: 71 PDSVKSFVAQAEEALG--EIEVLVSGAGDT--YFGKLHEISTEQFESQVQIHLVGANRLA 126
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+LP M + RG ++ V S Y A K
Sbjct: 127 TAVLPGMIERRRGDLIFVGSDVALRQRPHMGAYGAAK 163
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 53.9 bits (130), Expect = 1e-08
Identities = 40/151 (26%), Positives = 68/151 (45%), Gaps = 24/151 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL---------ISRTLEKLKKTAKEIESLHGVQTKI 168
+VTG G+GRAYA A RG +V+ ++ K EI++ G
Sbjct: 9 LVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAAGG----- 63
Query: 169 IAV----DLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSL 223
AV + + ++ + G V ILVNN G L +S + +E++ WD + +
Sbjct: 64 KAVANYDSVEDGEKIVKTAIDAFGR--VDILVNNAGILRD--RSFAKMSEED-WDLVMRV 118
Query: 224 NVVFTTLMTKLILPRMKDNGRGAIVNVSSIS 254
++ + +T+ P M+ G I+N SS +
Sbjct: 119 HLKGSFKVTRAAWPYMRKQKFGRIINTSSAA 149
>gnl|CDD|187607 cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP]reductase (BKR), subgroup 2, classical (c) SDR.
This subgroup includes Rhizobium sp. NGR234 FabG1. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 53.6 bits (129), Expect = 2e-08
Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 10/161 (6%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEI-ESLHGVQTKIIAVD 172
Q +VTG + G+G A A AR G +V+ R+ E + A E E +Q + D
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEAGERAIAIQADVR--D 58
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTL-- 230
+A IE KN G PV +VNN + + + W+ +
Sbjct: 59 RDQVQAMIEEAKNHFG--PVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVKGA 116
Query: 231 --MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ + +LP K+ G G ++N+ + +P ++ Y K
Sbjct: 117 LNLLQAVLPDFKERGSGRVINIGTNLFQNPVVPYHDYTTAK 157
>gnl|CDD|187615 cd05357, PR_SDR_c, pteridine reductase (PR), classical (c) SDRs.
Pteridine reductases (PRs), members of the SDR family,
catalyzes the NAD-dependent reduction of folic acid,
dihydrofolate and related compounds. In Leishmania,
pteridine reductase (PTR1) acts to circumvent the
anti-protozoan drugs that attack dihydrofolate reductase
activity. Proteins in this subgroup have an N-terminal
NAD-binding motif and a YxxxK active site motif, but
have an Asp instead of the usual upstream catalytic Ser.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 234
Score = 53.4 bits (129), Expect = 2e-08
Identities = 39/156 (25%), Positives = 63/156 (40%), Gaps = 9/156 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAK-EIESLHGVQTKIIAV--DLS 174
+VTG IGRA A LA G +V+ E + K E+ +L + V DLS
Sbjct: 4 LVTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQRLKDELNALRN---SAVLVQADLS 60
Query: 175 GTKAAIEAVKN-QLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
A + V +LVNN + YP L + +E + +N+ L+ +
Sbjct: 61 DFAACADLVAAAFRAFGRCDVLVNNASAF--YPTPLGQGSEDAWAELFGINLKAPYLLIQ 118
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
R+ + G+I+N+ P + Y +K
Sbjct: 119 AFARRLAGSRNGSIINIIDAMTDRPLTGYFAYCMSK 154
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 53.5 bits (129), Expect = 2e-08
Identities = 39/145 (26%), Positives = 58/145 (40%), Gaps = 23/145 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG IG A A L G + ++ + A + G + + IA D++
Sbjct: 10 IVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASL----GERARFIATDITDDA 65
Query: 178 AAIEAVKNQLGD-HPVHILVNNV------GSLSSYPKSLTEDTEKETW-DTLSLNVVFTT 229
A AV + V ILVN G SS + W L +N+V
Sbjct: 66 AIERAVATVVARFGRVDILVNLACTYLDDGLASS----------RADWLAALDVNLVSAA 115
Query: 230 LMTKLILPRMKDNGRGAIVNVSSIS 254
++ + P + G GAIVN +SIS
Sbjct: 116 MLAQAAHPHLARGG-GAIVNFTSIS 139
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus cereus
was isolated for its ability to convert benzil to
(S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 52.6 bits (126), Expect = 4e-08
Identities = 45/171 (26%), Positives = 80/171 (46%), Gaps = 19/171 (11%)
Query: 118 VVTGCTDGIGRAYAHELARR----GINIVLISRTLEKLKKTAKEIES-LHGVQTKIIAVD 172
+VTG + G GR A ELA+ G +VL +R E L++ EI + G++ +++D
Sbjct: 4 LVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRVSLD 63
Query: 173 LS---GTKAAIEAVKNQLGDHPVH--ILVNNVGSLSSYPKSLTE--DTE--KETWDTLSL 223
L G + ++A++ + +L+NN G+L K + D+ + W
Sbjct: 64 LGAEAGLEQLLKALRELPRPKGLQRLLLINNAGTLGDVSKGFVDLSDSTQVQNYWAL--- 120
Query: 224 NVVFTTLMTKLILPRMKDNG--RGAIVNVSSISEASPWALFNVYAATKTVR 272
N+ +T +L KD+ +VN+SS+ P+ + +Y A K R
Sbjct: 121 NLTSMLCLTSSVLKAFKDSPGLNRTVVNISSLCAIQPFKGWALYCAGKAAR 171
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 52.5 bits (126), Expect = 5e-08
Identities = 40/146 (27%), Positives = 69/146 (47%), Gaps = 13/146 (8%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDL 173
+ ++TG G+G A A LA+ G + L+ E L+ + E + +I D+
Sbjct: 4 KVVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEVLLIKADV 63
Query: 174 SG---TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD---TLSLNVVF 227
S +A ++A Q G + NN G ++LTED + +D +++L VF
Sbjct: 64 SDEAQVEAYVDATVEQFGR--IDGFFNNAGIEGK--QNLTEDFGADEFDKVVSINLRGVF 119
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSI 253
L + +L M++ G G IVN +S+
Sbjct: 120 YGL--EKVLKVMREQGSGMIVNTASV 143
Score = 27.5 bits (61), Expect = 6.6
Identities = 13/43 (30%), Positives = 19/43 (44%)
Query: 51 VEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYA 93
VEY +YGI + IAP + T M S + E++
Sbjct: 171 VEYGQYGIRINAIAPGAILTPMVEGSLKQLGPENPEEAGEEFV 213
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 52.0 bits (125), Expect = 5e-08
Identities = 41/136 (30%), Positives = 57/136 (41%), Gaps = 7/136 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
V+TG GIG A A LA G +V+ E K A E+ L V T + D
Sbjct: 11 VITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVGGLF-VPTDV--TDEDAVN 67
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLS-LNVVFTTLMTKLIL 236
A + G V I NN G +S +T + W + +N+ L K L
Sbjct: 68 ALFDTAAETYGS--VDIAFNNAG-ISPPEDDSILNTGLDAWQRVQDVNLTSVYLCCKAAL 124
Query: 237 PRMKDNGRGAIVNVSS 252
P M G+G+I+N +S
Sbjct: 125 PHMVRQGKGSIINTAS 140
>gnl|CDD|187638 cd08933, RDH_SDR_c, retinal dehydrogenase-like, classical (c) SDR.
These classical SDRs includes members identified as
retinol dehydrogenases, which convert retinol to
retinal, a property that overlaps with 17betaHSD
activity. 17beta-dehydrogenases are a group of isozymes
that catalyze activation and inactivation of estrogen
and androgens, and include members of the short-chain
dehydrogenases/reductase family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 261
Score = 52.2 bits (125), Expect = 5e-08
Identities = 43/162 (26%), Positives = 71/162 (43%), Gaps = 21/162 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
+VTG + GIGR G +V +R + E+ K + D++
Sbjct: 13 IVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPCDVTKEE 72
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETW-DTLSLNVVFTTLMTK 233
K I + G + LVNN G P T++T + + D L+LN++ L +K
Sbjct: 73 DIKTLISVTVERFGR--IDCLVNNAGWHP--PHQTTDETSAQEFRDLLNLNLISYFLASK 128
Query: 234 LILPRMKDNGRGAIVNVSSI------SEASPWALFNVYAATK 269
LP ++ + +G I+N+SS+ +A+P Y ATK
Sbjct: 129 YALPHLRKS-QGNIINLSSLVGSIGQKQAAP------YVATK 163
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 52.4 bits (126), Expect = 7e-08
Identities = 49/164 (29%), Positives = 78/164 (47%), Gaps = 26/164 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
V+TG + GIG+A A ARRG +VL +R E L+ A+E +L G + ++ D++
Sbjct: 11 VITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRAL-GAEVLVVPTDVTDAD 69
Query: 175 GTKAAIEAVKNQLGDHPVHILVNN--VGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
KA + G + + VNN VG++ + E+T E V+ T L+
Sbjct: 70 QVKALATQAASFGG--RIDVWVNNVGVGAVGRF-----EETPIEA----HEQVIQTNLIG 118
Query: 233 KL-----ILPRMKDNGRGAIVNVSSISE--ASPWALFNVYAATK 269
+ LP K G G +N+ S+ A P+A Y+A+K
Sbjct: 119 YMRDAHAALPIFKKQGHGIFINMISLGGFAAQPYA--AAYSASK 160
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 52.1 bits (125), Expect = 7e-08
Identities = 45/160 (28%), Positives = 77/160 (48%), Gaps = 7/160 (4%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGV-QTKIIAVDL 173
++++VTG GIG+ A L G ++++ R +KL A+EIE+L G + D+
Sbjct: 8 RTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRYEPADV 67
Query: 174 SGTKAAIEAVKNQLGDH-PVHILVNNV-GSLSSYPKSLTEDTEKETW-DTLSLNVVFTTL 230
+ AV H +H +V+ GS + P +T+ + + W T+ LNV T
Sbjct: 68 TDEDQVARAVDAATAWHGRLHGVVHCAGGSETIGP--ITQ-IDSDAWRRTVDLNVNGTMY 124
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKT 270
+ K + G G+ V +SSI+ ++ F Y TK+
Sbjct: 125 VLKHAARELVRGGGGSFVGISSIAASNTHRWFGAYGVTKS 164
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 51.6 bits (124), Expect = 8e-08
Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 6/84 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + G+G+A A A G N+V+ RT EKL++ EIE G Q + +D+ +
Sbjct: 5 IITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQFPG-QVLTVQMDVRNPE 63
Query: 178 AAIEAVK---NQLGDHPVHILVNN 198
+ V+ + G + L+NN
Sbjct: 64 DVQKMVEQIDEKFG--RIDALINN 85
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 51.6 bits (124), Expect = 9e-08
Identities = 51/168 (30%), Positives = 77/168 (45%), Gaps = 33/168 (19%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL- 173
+S ++TGC+ GIG A EL RRG ++ R ++ ++ + I +DL
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACR-------KPDDVARMNSLGFTGILLDLD 55
Query: 174 ---SGTKAAIEAVKNQLGDHPVHILVNN-----VGSLSSYPKSLTEDTEKETWDTLSLNV 225
S +AA E + L D+ ++ L NN G LS+ + + E++ S N
Sbjct: 56 DPESVERAADEVI--ALTDNRLYGLFNNAGFGVYGPLSTISR---QQMEQQ----FSTNF 106
Query: 226 VFTTLMTKLILPRMKDNGRGAIVNVSS----ISEASPWALFNVYAATK 269
T +T L+LP M +G G IV SS IS A YAA+K
Sbjct: 107 FGTHQLTMLLLPAMLPHGEGRIVMTSSVMGLISTPGRGA----YAASK 150
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 51.2 bits (123), Expect = 1e-07
Identities = 36/161 (22%), Positives = 76/161 (47%), Gaps = 8/161 (4%)
Query: 114 IQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL 173
++ ++TG + G+G A A++L +G +++ ISRT K E + + + D+
Sbjct: 1 MRYVIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYNSNLTFHSLDLQDV 60
Query: 174 SGTKAAIEAVKNQL---GDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTT 229
+ + + + +H L+NN G ++ P E E E T + LN++
Sbjct: 61 HELETNFNEILSSIQEDNVSSIH-LINNAGMVA--PIKPIEKAESEELITNVHLNLLAPM 117
Query: 230 LMTKLILPRMKD-NGRGAIVNVSSISEASPWALFNVYAATK 269
++T + KD ++N+SS + +P+ ++ Y ++K
Sbjct: 118 ILTSTFMKHTKDWKVDKRVINISSGAAKNPYFGWSAYCSSK 158
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 51.6 bits (124), Expect = 1e-07
Identities = 41/139 (29%), Positives = 64/139 (46%), Gaps = 6/139 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLH-GVQTKIIAVDLSGT 176
VVTG G+G A LA +G ++VL R L+K K A I + G + +DL+
Sbjct: 20 VVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQELDLTSL 79
Query: 177 KAAIEAVKNQLGDHP-VHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
+ A +P + +L+NN G + + PK T D + + T N + +T L+
Sbjct: 80 ASVRAAADALRAAYPRIDLLINNAGVMYT-PKQTTADGFELQFGT---NHLGHFALTGLL 135
Query: 236 LPRMKDNGRGAIVNVSSIS 254
L R+ +V VSS
Sbjct: 136 LDRLLPVPGSRVVTVSSGG 154
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 50.9 bits (122), Expect = 1e-07
Identities = 43/158 (27%), Positives = 72/158 (45%), Gaps = 14/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
+VTG GIG A A LA G +V+ E +K A+ + G + + D++
Sbjct: 5 LVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAEAAQG--GPRALGVQCDVTSEA 62
Query: 177 --KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTT--LMT 232
++A E + G + I+V+N G +S P +T E W+ S+++ T L++
Sbjct: 63 QVQSAFEQAVLEFGG--LDIVVSNAGIATSSP---IAETSLEDWN-RSMDINLTGHFLVS 116
Query: 233 KLILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
+ MK G G IV +S + +P Y+A K
Sbjct: 117 REAFRIMKSQGIGGNIVFNASKNAVAPGPNAAAYSAAK 154
>gnl|CDD|187665 cd09805, type2_17beta_HSD-like_SDR_c, human 17beta-hydroxysteroid
dehydrogenase type 2 (type 2 17beta-HSD)-like, classical
(c) SDRs. 17beta-hydroxysteroid dehydrogenases are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. This
classical-SDR subgroup includes the human proteins: type
2 17beta-HSD, type 6 17beta-HSD, type 2 11beta-HSD,
dehydrogenase/reductase SDR family member 9,
short-chain dehydrogenase/reductase family 9C member 7,
3-hydroxybutyrate dehydrogenase type 1, and retinol
dehydrogenase 5. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 281
Score = 51.1 bits (123), Expect = 1e-07
Identities = 44/158 (27%), Positives = 72/158 (45%), Gaps = 15/158 (9%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT-- 176
+TGC G G A +L G + ++ L K AKE+ + + + + +D++
Sbjct: 5 ITGCDSGFGNLLAKKLDSLGFTV--LAGCLTKNGPGAKELRRVCSDRLRTLQLDVTKPEQ 62
Query: 177 -KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT----LSLNVVFTTLM 231
K A + VK +G+ + LVNN G L D E D + +N+ T +
Sbjct: 63 IKRAAQWVKEHVGEKGLWGLVNNAGIL-----GFGGDEELLPMDDYRKCMEVNLFGTVEV 117
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
TK LP ++ +G +VNVSS+ P+ Y A+K
Sbjct: 118 TKAFLPLLR-RAKGRVVNVSSMGGRVPFPAGGAYCASK 154
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 50.9 bits (122), Expect = 2e-07
Identities = 36/153 (23%), Positives = 70/153 (45%), Gaps = 9/153 (5%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+TG + G GR L RG + R + L ++++ +G + ++ +D++ + A
Sbjct: 7 ITGASSGFGRGMTERLLARGDRVAATVRRPDALD----DLKARYGDRLWVLQLDVTDSAA 62
Query: 179 AIEAVKNQLGDHP-VHILVNNVG-SLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLIL 236
V + ++V+N G L + L++ + DT N++ + + + L
Sbjct: 63 VRAVVDRAFAALGRIDVVVSNAGYGLFGAAEELSDAQIRRQIDT---NLIGSIQVIRAAL 119
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P ++ G G IV VSS + F++Y ATK
Sbjct: 120 PHLRRQGGGRIVQVSSEGGQIAYPGFSLYHATK 152
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 50.8 bits (122), Expect = 2e-07
Identities = 41/164 (25%), Positives = 69/164 (42%), Gaps = 24/164 (14%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + GIG A EL G N+V + + E+ V T +
Sbjct: 12 IIVTGGSSGIGLAIVKELLANGANVVNAD-----IHGGDGQHENYQFVPTDV--SSAEEV 64
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTE--------KETWDTL-SLNVVF 227
+ + + G + LVNN G + P+ L ++ + + +D + ++N
Sbjct: 65 NHTVAEIIEKFGR--IDGLVNNAGI--NIPRLLVDEKDPAGKYELNEAAFDKMFNINQKG 120
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSIS--EASPWALFNVYAATK 269
LM++ + +M G IVN+SS + E S + YAATK
Sbjct: 121 VFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQ--SCYAATK 162
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 50.6 bits (121), Expect = 2e-07
Identities = 43/166 (25%), Positives = 74/166 (44%), Gaps = 24/166 (14%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIGR A G +++ +R E A+E+ + I DLS ++
Sbjct: 10 LVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAYGECIA--IPADLS-SE 66
Query: 178 AAIEAVKNQLGDHPVH--ILVNNVG-----SLSSYPKSLTEDTEKETWDTL-SLNVVFTT 229
IEA+ ++ + +LVNN G L ++P+S WD + +NV
Sbjct: 67 EGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPES--------GWDKVMDINVKSVF 118
Query: 230 LMTKLILPRMKDNGR----GAIVNVSSISEASPWALFNV-YAATKT 270
+T+ +LP ++ ++N+ SI+ L N Y A+K
Sbjct: 119 FLTQALLPLLRAAATAENPARVINIGSIAGIVVSGLENYSYGASKA 164
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 50.4 bits (121), Expect = 2e-07
Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 20/157 (12%)
Query: 119 VTGCTDGIGRAYAHELARRGINI---VLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+TG G GR A LAR+G N+ V I+ + L+ A G+ ++ +DL+
Sbjct: 7 ITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTALRAEAARR----GLALRVEKLDLTD 62
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTE---DTEKETWDTLSLNVVFTTLMT 232
+ Q + V +L+NN G + + + + +E ++T NV +T
Sbjct: 63 -----AIDRAQAAEWDVDVLLNNAGIGEAGA--VVDIPVELVRELFET---NVFGPLELT 112
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ + +M G+G +V SS++ Y A+K
Sbjct: 113 QGFVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASK 149
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, 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. 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. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. 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 = 436
Score = 50.8 bits (122), Expect = 3e-07
Identities = 37/161 (22%), Positives = 64/161 (39%), Gaps = 19/161 (11%)
Query: 39 LKQKYGSWAALRVEYQKYGITVQHIAPAFVSTKMNNFSYRV--RNKSFFVPDAEQYARSA 96
L Q+Y ++ + + +A + + V R+ +V E A
Sbjct: 135 LAQEYPGLTCRLIDLDAGEASAEALARELAAELAAPGAAEVRYRDGLRYVQTLEPLPLPA 194
Query: 97 VSTLGVTDTSTGFWVHGIQSFVVTGCTDGIGRAYAHELARR-GINIVLISRT-----LEK 150
+ G ++ VTG GIGRA A LARR G +VL+ R+ E
Sbjct: 195 GAAASAPLKPGGVYL-------VTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEW 247
Query: 151 LKKTAKEIESLHGVQTKIIAVDLS---GTKAAIEAVKNQLG 188
+T +E+L G + I+ D++ + +E V+ + G
Sbjct: 248 KAQTLAALEAL-GARVLYISADVTDAAAVRRLLEKVRERYG 287
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 49.7 bits (119), Expect = 3e-07
Identities = 35/140 (25%), Positives = 63/140 (45%), Gaps = 11/140 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG A A L G + ++ E + A ++ G + + D+S
Sbjct: 6 LVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSK-DGGKAIAVKADVSDRD 64
Query: 178 ---AAIEAVKNQLGDHPVHILVNNVGSLSSYP-KSLTEDTEKETWDTLSLNVVFTTLMTK 233
AA+ V + GD ++++VNN G + P +++TE+ + ++ +NV +
Sbjct: 65 QVFAAVRQVVDTFGD--LNVVVNNAGVAPTTPIETITEEQFDKVYN---INVGGVIWGIQ 119
Query: 234 LILPRMKDNGRGA-IVNVSS 252
K G G I+N +S
Sbjct: 120 AAQEAFKKLGHGGKIINATS 139
>gnl|CDD|187587 cd05326, secoisolariciresinol-DH_like_SDR_c, secoisolariciresinol
dehydrogenase (secoisolariciresinol-DH)-like, classical
(c) SDRs. Podophyllum secoisolariciresinol-DH is a homo
tetrameric, classical SDR that catalyzes the
NAD-dependent conversion of (-)-secoisolariciresinol to
(-)-matairesinol via a (-)-lactol intermediate.
(-)-Matairesinol is an intermediate to various
8'-lignans, including the cancer-preventive mammalian
lignan, and those involved in vascular plant defense.
This subgroup also includes rice momilactone A synthase
which catalyzes the conversion of
3beta-hydroxy-9betaH-pimara-7,15-dien-19,6beta-olide
into momilactone A, Arabidopsis ABA2 which during
abscisic acid (ABA) biosynthesis, catalyzes the
conversion of xanthoxin to abscisic aldehyde and, maize
Tasselseed2 which participate in the maize sex
determination pathway. 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, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 49.8 bits (119), Expect = 4e-07
Identities = 38/154 (24%), Positives = 66/154 (42%), Gaps = 6/154 (3%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG GIG A A A+ G +V+ + + A E+ + D++
Sbjct: 8 IITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVAAELGDPDI---SFVHCDVTVEA 64
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
AV + + I+ NN G L + S+ +T E ++ L +NV L TK
Sbjct: 65 DVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSI-LETSLEEFERVLDVNVYGAFLGTKHA 123
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
M +G+IV+V+S++ + Y A+K
Sbjct: 124 ARVMIPAKKGSIVSVASVAGVVGGLGPHAYTASK 157
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 49.7 bits (119), Expect = 4e-07
Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 12/160 (7%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHG----VQTKIIA 170
++TG G+GRA A AR G + L E ++T K + G + +
Sbjct: 1 NRVMITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDGFYQRCDV-- 58
Query: 171 VDLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTT 229
D S A +A + + G + ++VNN G S E+ E WD +++N++
Sbjct: 59 RDYSQLTALAQACEEKWGG--IDVIVNNAGVASG---GFFEELSLEDWDWQIAINLMGVV 113
Query: 230 LMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
K LP K G IVN++S++ + Y K
Sbjct: 114 KGCKAFLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAK 153
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 49.5 bits (119), Expect = 4e-07
Identities = 38/138 (27%), Positives = 65/138 (47%), Gaps = 7/138 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-- 175
++TG + GIGRA A AR G +V+ +R +L + EI + G + +A D+
Sbjct: 10 IITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRA-EGGEAVALAGDVRDEA 68
Query: 176 -TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
KA + + G + I NN G+L + E + + +TL+ N+ L K
Sbjct: 69 YAKALVALAVERFGG--LDIAFNNAGTLGE-MGPVAEMSLEGWRETLATNLTSAFLGAKH 125
Query: 235 ILPRMKDNGRGAIVNVSS 252
+P M G G+++ S+
Sbjct: 126 QIPAMLARGGGSLIFTST 143
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 49.3 bits (118), Expect = 6e-07
Identities = 49/168 (29%), Positives = 74/168 (44%), Gaps = 21/168 (12%)
Query: 118 VVTGCT--DGIGRAYAHELARRGINIVLISRTLEKLKKT-----------AKEIESLHGV 164
+VTG + +GIG A LA +GI+I + +EIES +GV
Sbjct: 9 LVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIES-YGV 67
Query: 165 QTKIIAVDLSGTKAA---IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL 221
+ + + +DLS A AV +LGD IL+NN + S L E T ++
Sbjct: 68 RCEHMEIDLSQPYAPNRVFYAVSERLGD--PSILINN--AAYSTHTRLEELTAEQLDKHY 123
Query: 222 SLNVVFTTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
++NV T L++ + G I+N++S P YAATK
Sbjct: 124 AVNVRATMLLSSAFAKQYDGKAGGRIINLTSGQSLGPMPDELAYAATK 171
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 49.1 bits (117), Expect = 6e-07
Identities = 43/149 (28%), Positives = 66/149 (44%), Gaps = 7/149 (4%)
Query: 120 TGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAA 179
T + GIG A LAR G +++L+SR E LKK ++I+S V I DL+ +
Sbjct: 14 TASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESNVDVSYIVADLTKREDL 73
Query: 180 IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLILPR 238
VK I + G P E E W+ + L + +T+ ++P
Sbjct: 74 ERTVKELKNIGEPDIFFFSTG--GPKPGYFME-MSMEDWEGAVKLLLYPAVYLTRALVPA 130
Query: 239 MKDNGRGAIVNVSSISEASPW---ALFNV 264
M+ G G I+ +S++ P AL NV
Sbjct: 131 MERKGFGRIIYSTSVAIKEPIPNIALSNV 159
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 48.8 bits (116), Expect = 7e-07
Identities = 34/161 (21%), Positives = 62/161 (38%), Gaps = 15/161 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + G+G A A G ++L++R +KL+K I + I DL
Sbjct: 10 LVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRFDL---- 65
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSS--------YPKSLTEDTEKETW-DTLSLNVVFT 228
+ A + + I G L Y S + W + +N V
Sbjct: 66 --MSAEEKEFEQFAATIAEATQGKLDGIVHCAGYFYALSPLDFQTVAEWVNQYRINTVAP 123
Query: 229 TLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+T+ + P +K + +++ V +P A + + A+K
Sbjct: 124 MGLTRALFPLLKQSPDASVIFVGESHGETPKAYWGGFGASK 164
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 48.6 bits (116), Expect = 1e-06
Identities = 54/173 (31%), Positives = 78/173 (45%), Gaps = 31/173 (17%)
Query: 118 VVTGCT--DGIGRAYAHELARRGINIVLISRT---------LEKLK--KTAKEIESLHGV 164
VVTG + DGIG A ELA G +I T +++ + + +E+ GV
Sbjct: 10 VVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQEELLKN-GV 68
Query: 165 QTKIIAVDLS---GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTL 221
+ + +DL+ K + V QLG +P HILVNN ++Y S D T + L
Sbjct: 69 KVSSMELDLTQNDAPKELLNKVTEQLG-YP-HILVNN----AAY--STNNDFSNLTAEEL 120
Query: 222 S----LNVVFTTLMTKLILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
+NV TTL++ R D G I+N++S P YAATK
Sbjct: 121 DKHYMVNVRATTLLS-SQFARGFDKKSGGRIINMTSGQFQGPMVGELAYAATK 172
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 47.1 bits (113), Expect = 1e-06
Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESL--HGVQTKIIAVD 172
++++TG G+GRA A LA RG +VL+SR+ A + L G + ++A D
Sbjct: 2 TYLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVACD 61
Query: 173 LS---GTKAAIEAVKNQLGDHPVH 193
++ A + A+ P+
Sbjct: 62 VADRDALAAVLAAIPAVE--GPLT 83
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 48.3 bits (115), Expect = 1e-06
Identities = 47/158 (29%), Positives = 68/158 (43%), Gaps = 13/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG GIGRA A AR G +I L L + ++ A E+ L + + AV L G
Sbjct: 59 LITGADSGIGRATAIAFAREGADIAL--NYLPEEEQDAAEVVQLIQAEGR-KAVALPG-D 114
Query: 178 AAIEAVKNQLGDHPVH------ILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
EA QL + V ILVN G + K + + T ++ T NV +
Sbjct: 115 LKDEAFCRQLVERAVKELGGLDILVNIAGK-QTAVKDIADITTEQFDATFKTNVYAMFWL 173
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
K +P + +I+N SI P YA+TK
Sbjct: 174 CKAAIPHLPPG--ASIINTGSIQSYQPSPTLLDYASTK 209
>gnl|CDD|212496 cd11730, Tthb094_like_SDR_c, Tthb094 and related proteins,
classical (c) SDRs. Tthb094 from Thermus Thermophilus
is a classical SDR which binds NADP. Members of this
subgroup contain the YXXXK active site characteristic of
SDRs. Also, an upstream Asn residue of the canonical
catalytic tetrad is partially conserved in this subgroup
of proteins of undetermined function. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 206
Score = 47.5 bits (113), Expect = 2e-06
Identities = 40/152 (26%), Positives = 61/152 (40%), Gaps = 15/152 (9%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+ G T GIGRA A LA RG ++L R L A E+ +L D+ +
Sbjct: 3 ILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEVGALARP------ADV-AAEL 55
Query: 179 AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLILP 237
+ A+ +LG P+ +LV G++ P + T+ W L N+ L+ K L
Sbjct: 56 EVWALAQELG--PLDLLVYAAGAILGKPLA---RTKPAAWRRILDANLTGAALVLKHALA 110
Query: 238 RMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ R + P + YAA K
Sbjct: 111 LLAAGARLVFLGAYPELVMLPG--LSAYAAAK 140
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 47.6 bits (113), Expect = 2e-06
Identities = 44/145 (30%), Positives = 67/145 (46%), Gaps = 23/145 (15%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG-- 175
+VTG + GIG A L +G + L +EKL+ A E+ G + KI +LS
Sbjct: 10 LVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAEL----GERVKIFPANLSDRD 65
Query: 176 -TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTED-----TEKETWDT-LSLNVVFT 228
KA + + L V ILVNN G +T+D E WD+ L +N+ T
Sbjct: 66 EVKALGQKAEADLEG--VDILVNNAG--------ITKDGLFVRMSDEDWDSVLEVNLTAT 115
Query: 229 TLMTKLILPRMKDNGRGAIVNVSSI 253
+T+ + M G I+N++S+
Sbjct: 116 FRLTRELTHPMMRRRYGRIINITSV 140
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 47.6 bits (113), Expect = 2e-06
Identities = 32/135 (23%), Positives = 55/135 (40%), Gaps = 6/135 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG+ + G +V E+ A E E + D + K
Sbjct: 5 IVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFA-EAEGPNLFFVHGDVADETLVK 63
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
+ A+ +LG + +LVNN S L+ +E LS+N+ +++
Sbjct: 64 FVVYAMLEKLGR--IDVLVNNAARGS--KGILSSLLLEEWDRILSVNLTGPYELSRYCRD 119
Query: 238 RMKDNGRGAIVNVSS 252
+ N G I+N++S
Sbjct: 120 ELIKNK-GRIINIAS 133
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 47.5 bits (113), Expect = 2e-06
Identities = 51/171 (29%), Positives = 79/171 (46%), Gaps = 28/171 (16%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLI-------------SRTLEKLKKTAKEIESL--HG 163
+TG G GRA+A LA G +I+ I T E L +TA+ +E+L
Sbjct: 8 ITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLVEALGRKV 67
Query: 164 VQTKIIAVDLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LS 222
+ K DL+ +A +E Q G + ++V N G LS + + +E WDT L
Sbjct: 68 LARKADVRDLAEVRAVVEDGVEQFGR--LDVVVANAGVLSYGR---SWELSEEQWDTVLD 122
Query: 223 LNVVFTTLMTKLILPRMKDNGR-GAIVNVSSIS--EASPWALFNV-YAATK 269
+N+ K ++P M + G G+I+ SS++ +A P YAA K
Sbjct: 123 INLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALP---GLAHYAAAK 170
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 47.3 bits (112), Expect = 2e-06
Identities = 47/160 (29%), Positives = 76/160 (47%), Gaps = 17/160 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIES----LHGVQTKIIAVD 172
+VTG GIG+A LA+ G +V+ + + E + E+ ++ VQ + V+
Sbjct: 10 IVTGGAKGIGKAITVALAQEGAKVVINYNSSKEAAENLVNELGKEGHDVYAVQADVSKVE 69
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVGSL--SSYPKSLTEDTEKETWDTLSLNVVFTTL 230
+E N G V ILVNN G ++ K ED E+ ++L+ VF T
Sbjct: 70 --DANRLVEEAVNHFGK--VDILVNNAGITRDRTFKKLNREDWERVI--DVNLSSVFNT- 122
Query: 231 MTKLILPRMKDNGRGAIVNVSS-ISEASPWALFNVYAATK 269
T +LP + + G I+++SS I +A + N Y+A K
Sbjct: 123 -TSAVLPYITEAEEGRIISISSIIGQAGGFGQTN-YSAAK 160
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 47.3 bits (113), Expect = 3e-06
Identities = 30/146 (20%), Positives = 59/146 (40%), Gaps = 15/146 (10%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL-SG 175
++TG IG A + G ++ E L + + + K+ V+L
Sbjct: 7 ILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKS-KKLSLVELDIT 65
Query: 176 TKAAIEAVKNQLGDHPVHI--LVNNVGSLSSYPKSLT-----EDTEKETW-DTLSLNVVF 227
+ ++E ++ + I VN +YP++ D + + + LSL++
Sbjct: 66 DQESLEEFLSKSAEKYGKIDGAVN-----CAYPRNKDYGKKFFDVSLDDFNENLSLHLGS 120
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSI 253
+ L ++ K G G +VN+SSI
Sbjct: 121 SFLFSQQFAKYFKKQGGGNLVNISSI 146
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 47.4 bits (113), Expect = 3e-06
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 4/86 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLH-GVQTKIIAVDLSGT 176
VVTG +DG+G A LA G ++L R K + I + + + A+DLS +
Sbjct: 18 VVTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAKLSLRALDLS-S 76
Query: 177 KAAIEAVKNQL--GDHPVHILVNNVG 200
A++ A+ QL P+H+L+NN G
Sbjct: 77 LASVAALGEQLRAEGRPIHLLINNAG 102
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 46.4 bits (111), Expect = 3e-06
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLH--GVQTKIIAVD 172
+++VTG G+G A LA RG ++VL+SR+ + + L G + ++A D
Sbjct: 2 TYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEVTVVACD 61
Query: 173 LS---GTKAAIEAVKNQLGDHPVH 193
+S +A + ++ P+
Sbjct: 62 VSDRDAVRALLAEIRADG--PPLR 83
>gnl|CDD|187669 cd09809, human_WWOX_like_SDR_c-like, human WWOX (WW
domain-containing oxidoreductase)-like, classical
(c)-like SDRs. Classical-like SDR domain of human WWOX
and related proteins. Proteins in this subfamily share
the glycine-rich NAD-binding motif of the classical
SDRs, have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 284
Score = 46.8 bits (111), Expect = 4e-06
Identities = 36/141 (25%), Positives = 65/141 (46%), Gaps = 10/141 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDLSGT 176
++TG GIG A A G +++L R + + I E H + + + +DL+
Sbjct: 5 IITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLDLASL 64
Query: 177 KAA---IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
++ EA K + + P+H+LV N + P +LTED + T+ L + + +
Sbjct: 65 RSVQRFAEAFKAK--NSPLHVLVCNAAVFAL-PWTLTEDGLETTFQVNHLGHFYLVQLLE 121
Query: 234 LILPRMKDNGRGAIVNVSSIS 254
+L R + ++ VSS S
Sbjct: 122 DVLRR---SAPARVIVVSSES 139
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 46.2 bits (110), Expect = 6e-06
Identities = 37/162 (22%), Positives = 63/162 (38%), Gaps = 23/162 (14%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKE-IESLHGVQTKIIAVDLS 174
S ++TGC+ GIG A L G + R E + E +E+ +D +
Sbjct: 6 SILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAFQ--------LDYA 57
Query: 175 GTKAAIEAVKN--QLGDHPVHILVNN-----VGSLSSYPKSLTEDTEKETWDTLSLNVVF 227
++ V +L + L NN G++ P + + ++ N
Sbjct: 58 EPESIAALVAQVLELSGGRLDALFNNGAYGQPGAVEDLPT----EALRAQFEA---NFFG 110
Query: 228 TTLMTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+T+ ++P M+ G+G IV SSI P Y A+K
Sbjct: 111 WHDLTRRVIPVMRKQGQGRIVQCSSILGLVPMKYRGAYNASK 152
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 46.0 bits (109), Expect = 6e-06
Identities = 51/166 (30%), Positives = 72/166 (43%), Gaps = 24/166 (14%)
Query: 118 VVTGCTDGIGRAYAHELARRGINI-VLISRTLEKLKKTAKEIESLHGVQTKIIA--VDLS 174
+VTG + GIGRA A LA+ G + V + L ++ I G + A D +
Sbjct: 5 LVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAFVLQADISDEN 64
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A A+ P+ LVNN G L + + E+ E +N V +T +T
Sbjct: 65 QVVAMFTAIDQHDE--PLAALVNNAGIL--FTQCTVENLTAE-----RINRVLSTNVTGY 115
Query: 235 IL------PRM--KDNGR-GAIVNVSSISE--ASPWALFNVYAATK 269
L RM K G GAIVNVSS + +P + YAA+K
Sbjct: 116 FLCCREAVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVD-YAASK 160
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 45.6 bits (108), Expect = 8e-06
Identities = 43/142 (30%), Positives = 66/142 (46%), Gaps = 15/142 (10%)
Query: 118 VVTGCTDGIGRAYAHELARR-----GINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD 172
VVTGC G+G+ A LA GINIV + T+E++ + SL KI
Sbjct: 14 VVTGCDTGLGQGMALGLAEAGCDIVGINIVEPTETIEQVTALGRRFLSLTADLRKI---- 69
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
G A +E + G + ILVNN G + + E +EK+ D ++LN+ M+
Sbjct: 70 -DGIPALLERAVAEFGH--IDILVNNAGLIRR--EDAIEFSEKDWDDVMNLNIKSVFFMS 124
Query: 233 KLILPRMKDNGRGA-IVNVSSI 253
+ G G I+N++S+
Sbjct: 125 QAAAKHFIAQGNGGKIINIASM 146
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 45.7 bits (109), Expect = 9e-06
Identities = 40/156 (25%), Positives = 64/156 (41%), Gaps = 17/156 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
+VTG T GIG A G +V+ R E++ G + A D+
Sbjct: 10 LVTGGTRGIGAGIARAFLAAGATVVVCGRR---------APETVDGRPAEFHAADVRDPD 60
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A ++A+ + G + +LVNN G S E + + + LN++ L+ +
Sbjct: 61 QVAALVDAIVERHGR--LDVLVNNAG--GSPYALAAEASPRFHEKIVELNLLAPLLVAQA 116
Query: 235 ILPRMKDN-GRGAIVNVSSISEASPWALFNVYAATK 269
M+ G G+IVN+ S+S P Y A K
Sbjct: 117 ANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAYGAAK 152
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 45.5 bits (108), Expect = 9e-06
Identities = 48/161 (29%), Positives = 71/161 (44%), Gaps = 14/161 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
++TG + GIG A A A RG + L + + G + +A D++
Sbjct: 6 IITGASRGIGAATALLAAERGYAVCLNYLRNRDAAEAVVQAIRRQGGEALAVAADVADEA 65
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTK 233
EAV +LG + LVNN G L + E + + NVV + L +
Sbjct: 66 DVLRLFEAVDRELG--RLDALVNNAGILE--AQMRLEQMDAARLTRIFATNVVGSFLCAR 121
Query: 234 LILPRM--KDNGR-GAIVNVSSISE--ASPWALFNVYAATK 269
+ RM + GR GAIVNVSS++ SP + YAA+K
Sbjct: 122 EAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYID-YAASK 161
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 45.2 bits (107), Expect = 1e-05
Identities = 49/166 (29%), Positives = 80/166 (48%), Gaps = 18/166 (10%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINI-VLISRTLEKLKKTAKEIESLHGVQTKIIAVDL 173
+ ++TG + GIGRA A A RG ++ + +R ++TA + + G + ++A D+
Sbjct: 3 KVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAAGG-RACVVAGDV 61
Query: 174 SGTK---AAIEAVKNQLGDHPVHILVNNVGSL--SSYPKSLTEDTEKETWDTLSLNVVFT 228
+ A +AV++ G + LVNN G + S + + +DT NV+
Sbjct: 62 ANEADVIAMFDAVQSAFGR--LDALVNNAGIVAPSMPLADMDAARLRRMFDT---NVLGA 116
Query: 229 TLMTKLILPRM-KDNG--RGAIVNVSSISE--ASPWALFNVYAATK 269
L + R+ D G GAIVNVSSI+ SP + YA +K
Sbjct: 117 YLCAREAARRLSTDRGGRGGAIVNVSSIASRLGSPNEYVD-YAGSK 161
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 45.4 bits (108), Expect = 1e-05
Identities = 37/137 (27%), Positives = 60/137 (43%), Gaps = 15/137 (10%)
Query: 125 GIGRAYAHELARRGINIVLISRTLEKLKKTAKEI-ESLHGVQTKIIAVDLSGT---KAAI 180
GIG A A G +V+ +L +TA E+ L + + + D++ A I
Sbjct: 29 GIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGRVEAVVCDVTSEAQVDALI 88
Query: 181 EAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT---LSLNVVFTTLMTKLILP 237
+A +LG + +LVNN G + + T+ E W ++L F T+ L
Sbjct: 89 DAAVERLGR--LDVLVNNAGLGGQ--TPVVDMTDDE-WSRVLDVTLTGTFR--ATRAALR 141
Query: 238 RMKDNG-RGAIVNVSSI 253
M+ G G IVN +S+
Sbjct: 142 YMRARGHGGVIVNNASV 158
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 44.9 bits (107), Expect = 1e-05
Identities = 33/139 (23%), Positives = 58/139 (41%), Gaps = 4/139 (2%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+ ++ G T I RA A A G + L +R +E+L++ A ++ + V +D+
Sbjct: 2 KKILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLRARGAVAVSTHELDIL 61
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
T A+ A + L P +L+ VG+L + N + L
Sbjct: 62 DT-ASHAAFLDSLPALPDIVLI-AVGTLGDQAACEADPALALR--EFRTNFEGPIALLTL 117
Query: 235 ILPRMKDNGRGAIVNVSSI 253
+ R + G G IV +SS+
Sbjct: 118 LANRFEARGSGTIVGISSV 136
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 45.0 bits (106), Expect = 1e-05
Identities = 41/148 (27%), Positives = 68/148 (45%), Gaps = 25/148 (16%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA-----VDL 173
VTG GIG + L + G +V + + K +E + IA D
Sbjct: 8 VTGGMGGIGTSICQRLHKDGFKVV--AGCGPNSPRRVKWLEDQKALGFDFIASEGNVGDW 65
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDT-----EKETWDTLSLNVVFT 228
TKAA + VK ++G+ + +LVNN G +T D +E W + ++ T
Sbjct: 66 DSTKAAFDKVKAEVGE--IDVLVNNAG--------ITRDVVFRKMTREDWTAV-IDTNLT 114
Query: 229 TL--MTKLILPRMKDNGRGAIVNVSSIS 254
+L +TK ++ M + G G I+N+SS++
Sbjct: 115 SLFNVTKQVIDGMVERGWGRIINISSVN 142
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 44.1 bits (105), Expect = 2e-05
Identities = 43/156 (27%), Positives = 62/156 (39%), Gaps = 11/156 (7%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG IG A A L G + + + A E+ +L + DL
Sbjct: 11 ITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAELNALRPGSAAALQADLLDPD 70
Query: 178 AA---IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSL-NVVFTTLMTK 233
A + A G + LVNN S YP L TE WD L N+ +++
Sbjct: 71 ALPELVAACVAAFGR--LDALVNNASSF--YPTPLGSITE-AQWDDLFASNLKAPFFLSQ 125
Query: 234 LILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P+++ RGAIVN++ I P + VY A K
Sbjct: 126 AAAPQLRKQ-RGAIVNITDIHAERPLKGYPVYCAAK 160
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 44.0 bits (104), Expect = 3e-05
Identities = 35/157 (22%), Positives = 60/157 (38%), Gaps = 14/157 (8%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+ G ++G+G A A+ + G + + SR KLK+ K + + + D+S
Sbjct: 8 VAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKYGNIH--YVVGDVSST 65
Query: 175 -GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
+ IE L + LV VG Y + E+ + L+ ++
Sbjct: 66 ESARNVIEKAAKVLNA--IDGLVVTVG---GYVEDTVEEF-SGLEEMLTNHIKIPLYAVN 119
Query: 234 LILPRMKDNGRGAIVNVSSISEA-SPWALFNVYAATK 269
L +K+ +IV VSS+S YA K
Sbjct: 120 ASLRFLKEG--SSIVLVSSMSGIYKASPDQLSYAVAK 154
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 43.8 bits (104), Expect = 4e-05
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIA--VDLSG 175
VV G T GI A AR G N+ + SR+ EK+ +++ + A D +
Sbjct: 13 VVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQQAGPEGLGVSADVRDYAA 72
Query: 176 TKAAIEAVKNQLGDHPVHILV 196
+AA + ++ G P+ +LV
Sbjct: 73 VEAAFAQIADEFG--PIDVLV 91
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 43.8 bits (104), Expect = 4e-05
Identities = 36/137 (26%), Positives = 65/137 (47%), Gaps = 11/137 (8%)
Query: 119 VTGCTDGIGRAYAHELARRGINI-VLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS--- 174
VTG IGRA A +LA G ++ V +R+ ++ + A EI +L G + + DL+
Sbjct: 14 VTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRAL-GRRAVALQADLADEA 72
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTK 233
+A + LG P+ +LVNN S + + +WD ++ N+ ++ +
Sbjct: 73 EVRALVARASAALG--PITLLVNNA---SLFEYDSAASFTRASWDRHMATNLRAPFVLAQ 127
Query: 234 LILPRMKDNGRGAIVNV 250
+ + RG +VN+
Sbjct: 128 AFARALPADARGLVVNM 144
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 43.2 bits (102), Expect = 6e-05
Identities = 40/156 (25%), Positives = 67/156 (42%), Gaps = 19/156 (12%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT-K 177
+TGC+ GIGRA A G + +R E ++ A AV L
Sbjct: 6 ITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALA---------AAGFTAVQLDVNDG 56
Query: 178 AAIEAVKNQLGDHP--VHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLI 235
AA+ + +L + +L+NN G + P L + + NV +T+ +
Sbjct: 57 AALARLAEELEAEHGGLDVLINNAGYGAMGP--LLDGGVEAMRRQFETNVFAVVGVTRAL 114
Query: 236 LPRMKDNGRGAIVNVSSISE--ASPWALFNVYAATK 269
P ++ + RG +VN+ S+S +P+A Y A+K
Sbjct: 115 FPLLRRS-RGLVVNIGSVSGVLVTPFA--GAYCASK 147
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 42.7 bits (101), Expect = 8e-05
Identities = 36/151 (23%), Positives = 58/151 (38%), Gaps = 27/151 (17%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT- 176
VV G +G H LA G + + EK A+EI + +G + T
Sbjct: 6 VVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYG-EGMAYGFGADATS 64
Query: 177 ----KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVV----- 226
A V G V +LV N G + + D + +D +L +N+V
Sbjct: 65 EQSVLALSRGVDEIFGR--VDLLVYNAGIAKAAFIT---DFQLGDFDRSLQVNLVGYFLC 119
Query: 227 ---FTTLMTKLILPRMKDNGRGAIVNVSSIS 254
F+ LM ++D +G I+ ++S S
Sbjct: 120 AREFSRLM-------IRDGIQGRIIQINSKS 143
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 42.5 bits (100), Expect = 9e-05
Identities = 34/144 (23%), Positives = 49/144 (34%), Gaps = 32/144 (22%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
V+TG GIG A A L G ++ I + +IA DLS T
Sbjct: 3 VITGAASGIGAATAELLEDAGHTVIGIDLR-----------------EADVIA-DLS-TP 43
Query: 178 AAIEAVKNQLG---DHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
A + + LVN G + L +N + +
Sbjct: 44 EGRAAAIADVLARCSGVLDGLVNCAGVGGTTV----------AGLVLKVNYFGLRALMEA 93
Query: 235 ILPRMKDNGRGAIVNVSSISEASP 258
+LPR++ A V VSSI+ A
Sbjct: 94 LLPRLRKGHGPAAVVVSSIAGAGW 117
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 41.6 bits (98), Expect = 1e-04
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+V G + GIG A A A G + + SR+ ++L A+ + V+T A+D++
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGGGAPVRT--AALDITDE- 57
Query: 178 AAIEAVKNQLG--DHPV 192
AA++A + G DH V
Sbjct: 58 AAVDAFFAEAGPFDHVV 74
>gnl|CDD|133446 cd01078, NAD_bind_H4MPT_DH, NADP binding domain of methylene
tetrahydromethanopterin dehydrogenase. Methylene
Tetrahydromethanopterin Dehydrogenase (H4MPT DH) NADP
binding domain. NADP-dependent H4MPT DH catalyzes the
dehydrogenation of methylene- H4MPT and
methylene-tetrahydrofolate (H4F) with NADP+ as cofactor.
H4F and H4MPT are both cofactors that carry the
one-carbon units between the formyl and methyl oxidation
level. H4F and H4MPT are structurally analogous to each
other with respect to the pterin moiety, but each has
distinct side chain. H4MPT is present only in anaerobic
methanogenic archaea and aerobic methylotrophic
proteobacteria. H4MPT seems to have evolved
independently from H4F and functions as a distinct
carrier in C1 metabolism. Amino acid DH-like
NAD(P)-binding domains are members of the Rossmann fold
superfamily and include glutamate, leucine, and
phenylalanine DHs, methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 194
Score = 41.2 bits (97), Expect = 2e-04
Identities = 24/67 (35%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VV G T +G+ A LAR G +VL+ R LE+ +K A + + G + AV+ S
Sbjct: 32 VVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRARFG--EGVGAVETSDDA 89
Query: 178 AAIEAVK 184
A A+K
Sbjct: 90 ARAAAIK 96
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 41.3 bits (97), Expect = 2e-04
Identities = 17/60 (28%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKL-KKTAKEIESLHGVQTKIIAVDL 173
++ V++G T GIG+A +E A+ G+NI + + K A+++E +G++ K +++
Sbjct: 9 KTLVISGGTRGIGKAIVYEFAQSGVNIAFTYNSNVEEANKIAEDLEQKYGIKAKAYPLNI 68
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 41.6 bits (98), Expect = 2e-04
Identities = 28/139 (20%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG G+G LA+ G ++++ +R + ++ I+ +++ +DL
Sbjct: 30 IVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGID-----GVEVVMLDL-ADL 83
Query: 178 AAIEAVKNQLGD--HPVHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKL 234
++ A + D + IL+NN G ++ P++ D W+ + N + + L
Sbjct: 84 ESVRAFAERFLDSGRRIDILINNAGVMAC-PETRVGD----GWEAQFATNHLGHFALVNL 138
Query: 235 ILPRMKDNGRGAIVNVSSI 253
+ P + +V +SS
Sbjct: 139 LWPALAAGAGARVVALSSA 157
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 41.7 bits (99), Expect = 2e-04
Identities = 44/150 (29%), Positives = 67/150 (44%), Gaps = 31/150 (20%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL--ISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+VTG GIG A A LAR G ++V + E L A + G +A+D++
Sbjct: 214 LVTGAARGIGAAIAEVLARDGAHVVCLDVPAAGEALAAVANRV---GGTA---LALDITA 267
Query: 176 TKAAIEAVKNQLGDH--PVHILVNNVGSLSSYPKSLTED------TEKETWD-TLSLNVV 226
A + L + + I+V+N G +T D E WD L++N++
Sbjct: 268 PDAP-ARIAEHLAERHGGLDIVVHNAG--------ITRDKTLANMDE-ARWDSVLAVNLL 317
Query: 227 FTTLMTKLILPR--MKDNGRGAIVNVSSIS 254
+T+ +L + D GR IV VSSIS
Sbjct: 318 APLRITEALLAAGALGDGGR--IVGVSSIS 345
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 41.5 bits (98), Expect = 3e-04
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+V G G+G AH+LA+ G + + R+ EK + A+ I V+ + VD +
Sbjct: 3 KILVIGA-GGVGSVVAHKLAQNGDGEVTIADRSKEKCARIAELIGG--KVEA--LQVDAA 57
Query: 175 GTKAAIEAVK 184
A + +K
Sbjct: 58 DVDALVALIK 67
>gnl|CDD|217556 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms this
enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 380
Score = 41.5 bits (98), Expect = 3e-04
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 125 GIGRAYAHELARRG-INIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAV 183
G+G+ A LAR G + I + R+LEK G++ IAVD +A + +
Sbjct: 8 GVGQGVAPLLARHGDLEITVADRSLEKA---QALAAPKLGLRFIAIAVDADNYEALVALL 64
Query: 184 K 184
K
Sbjct: 65 K 65
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 40.7 bits (95), Expect = 3e-04
Identities = 34/140 (24%), Positives = 68/140 (48%), Gaps = 11/140 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL---S 174
++TGC G+G+ A LA+ G +IV + + + +T ++E+L G + I DL
Sbjct: 12 IITGCNTGLGQGMAIGLAKAGADIVGVG--VAEAPETQAQVEAL-GRKFHFITADLIQQK 68
Query: 175 GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKL 234
+ + +G + IL+NN G + + L E K+ D +++N +++
Sbjct: 69 DIDSIVSQAVEVMGH--IDILINNAGIIRR--QDLLEFGNKDWDDVININQKTVFFLSQA 124
Query: 235 ILPRMKDNGRGA-IVNVSSI 253
+ + G G I+N++S+
Sbjct: 125 VAKQFVKQGNGGKIINIASM 144
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 39.4 bits (92), Expect = 9e-04
Identities = 40/155 (25%), Positives = 58/155 (37%), Gaps = 5/155 (3%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+ +TG GIGR A AR G + L + L A E+ + + V + D +
Sbjct: 2 AIFITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAELGAENVVAGALDVTDRAA 61
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKL 234
AA+ G + L NN G P ED D + +NV
Sbjct: 62 WAAALADFAAATGGR-LDALFNNAGVGRGGP---FEDVPLAAHDRMVDINVKGVLNGAYA 117
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP +K ++N +S S VY+ATK
Sbjct: 118 ALPYLKATPGARVINTASSSAIYGQPDLAVYSATK 152
Score = 29.7 bits (67), Expect = 1.3
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKM 72
AL VE+ ++GI V + P FV T +
Sbjct: 161 ALDVEWARHGIRVADVWPWFVDTPI 185
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 39.4 bits (92), Expect = 0.001
Identities = 30/85 (35%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL--ISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
VVTG G+GRA A LAR G +V+ ++ L+ EI + G + +A D+S
Sbjct: 16 VVTGAAAGLGRAEALGLARLGATVVVNDVASALDA-SDVLDEIRAA-GAKAVAVAGDISQ 73
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVG 200
A E V +G + I+VNN G
Sbjct: 74 RATADELVATAVGLGGLDIVVNNAG 98
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 275
Score = 39.5 bits (92), Expect = 0.001
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG T +G A EL RG + R E A +E ++ DL
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEVRAAVRNPEAAAALAGGVE--------VVLGDLRDP 54
Query: 177 KAAIEAVK 184
K+ + K
Sbjct: 55 KSLVAGAK 62
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 38.4 bits (90), Expect = 0.001
Identities = 26/106 (24%), Positives = 34/106 (32%), Gaps = 24/106 (22%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI------------ESLHGVQ 165
V G T GR EL RG + +SR K E+L GV
Sbjct: 2 AVIGATGKTGRRLVKELLARGHQVTALSRNPSKAPAPGVTPVQKDLFDLADLAEALAGVD 61
Query: 166 TKIIAV-----DLSGTKAAIEAVKNQLGDHPV-HILVNNVGSLSSY 205
+ A D G K ++A V I+V V + Y
Sbjct: 62 AVVDAFGARPDDSDGVKHLLDAAAR----AGVRRIVV--VSAAGLY 101
>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 = 38.8 bits (91), Expect = 0.001
Identities = 35/163 (21%), Positives = 57/163 (34%), Gaps = 33/163 (20%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG T IG L + G ++++ R + ESL+ + + DL+
Sbjct: 2 LVTGGTGFIGSHLVRRLLQEGYEVIVLGR--------RRRSESLNTGRIRFHEGDLTDPD 53
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
A + D +H + + S S + + NV L T +L
Sbjct: 54 ALERLLAEVQPDAVIH-----LAAQSGVGASFEDPA--DFIRA---NV----LGTLRLLE 99
Query: 238 RMKDNGRGAIVNVSS-----------ISEASPWALFNVYAATK 269
+ G V SS I+E +P + YAA K
Sbjct: 100 AARRAGVKRFVFASSSEVYGDVADPPITEDTPLGPLSPYAAAK 142
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 38.8 bits (91), Expect = 0.001
Identities = 36/161 (22%), Positives = 72/161 (44%), Gaps = 11/161 (6%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLH-GVQTKIIAVDL 173
Q ++TG + G+G A E A +G ++ L +R ++L++ E+ + + G++ + A+D+
Sbjct: 3 QKILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLARYPGIKVAVAALDV 62
Query: 174 SGTKAAIEAVKNQLGDHPVHI--LVNNVGSLSSYP-KSLTEDTEKETWDTLSLNVVFTTL 230
+ + V + D + ++ N G + K T +T N V
Sbjct: 63 N-DHDQVFEVFAEFRDELGGLDRVIVNAGIGKGARLGTGKFWANKATAET---NFVAALA 118
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEAS--PWALFNVYAATK 269
+ + ++ G G +V +SS+S P YAA+K
Sbjct: 119 QCEAAMEIFREQGSGHLVLISSVSAVRGLPGVK-AAYAASK 158
Score = 29.9 bits (68), Expect = 1.3
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYARSAVS 98
LR E K I V I P ++ ++MN + + F+ D E ++ V
Sbjct: 167 GLRAELAKTPIKVSTIEPGYIRSEMNAKA----KSTPFMVDTETGVKALVK 213
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 38.8 bits (91), Expect = 0.002
Identities = 37/141 (26%), Positives = 66/141 (46%), Gaps = 12/141 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+TG + GIG+A A E AR+G + L++R + L+ A + + + A D+
Sbjct: 6 FITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLP--KAARVSVYAADVRDAD 63
Query: 178 AAIEAVKNQLGDHPV-HILVNN----VGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
A A + + H + +++ N VG+L+ + L +E DT +V T
Sbjct: 64 ALAAAAADFIAAHGLPDVVIANAGISVGTLTEEREDL--AVFREVMDTNYFGMVAT--FQ 119
Query: 233 KLILPRMKDNGRGAIVNVSSI 253
I P M+ RG +V ++S+
Sbjct: 120 PFIAP-MRAARRGTLVGIASV 139
Score = 33.7 bits (78), Expect = 0.061
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFS-YRVRNKSFFVPDAEQYARSAVST 99
+LRVE + G+ V IAP ++ T M + Y + F+ DA+++A A
Sbjct: 164 SLRVELRPAGVRVVTIAPGYIRTPMTAHNPYPMP----FLMDADRFAARAARA 212
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 38.5 bits (90), Expect = 0.002
Identities = 36/154 (23%), Positives = 66/154 (42%), Gaps = 29/154 (18%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHGVQTKIIAV-- 171
Q+ +VTG + G+G A A AR G +V+ ++ + + A E+ + IA+
Sbjct: 6 QTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADEL------GDRAIALQA 59
Query: 172 ---DLSGTKAAIEAVKNQLGDHPVHILVNNV-------GSLSSYPKSLT-EDTEKETWDT 220
D +A G P+ +VNN G +T ED +++ +
Sbjct: 60 DVTDREQVQAMFATATEHFG-KPITTVVNNALADFSFDGDARKKADDITWEDFQQQLEGS 118
Query: 221 L--SLNVVFTTLMTKLILPRMKDNGRGAIVNVSS 252
+ +LN + + LP M++ G G I+N+ +
Sbjct: 119 VKGALNTI------QAALPGMREQGFGRIINIGT 146
>gnl|CDD|130890 TIGR01831, fabG_rel, 3-oxoacyl-(acyl-carrier-protein) reductase,
putative. This model represents a small, very well
conserved family of proteins closely related to the FabG
family, TIGR01830, and possibly equal in function. In
all completed genomes with a member of this family, a
FabG in TIGR01830 is also found [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 239
Score = 38.3 bits (89), Expect = 0.002
Identities = 31/143 (21%), Positives = 67/143 (46%), Gaps = 12/143 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL-ISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
+VTG + GIGRA A+ LA G I + + I++ G +++ D++
Sbjct: 2 LVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQAQ-GGNARLLQFDVADR 60
Query: 177 KAAIEAVKNQLGDHPVH---ILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNV-VFTTLM 231
A ++ + +H + +L + +++P +L+E+ WD + N+ F ++
Sbjct: 61 VACRTLLEADIAEHGAYYGVVLNAGITRDAAFP-ALSEE----DWDIVIHTNLDGFYNVI 115
Query: 232 TKLILPRMKDNGRGAIVNVSSIS 254
+P ++ G I+ ++S+S
Sbjct: 116 HPCTMPMIRARQGGRIITLASVS 138
Score = 27.2 bits (60), Expect = 8.0
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 44 GSWAALRVEYQKYGITVQHIAPAFVSTKM 72
G+ AL VE K ITV IAP + T+M
Sbjct: 158 GATKALAVELAKRKITVNCIAPGLIDTEM 186
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 38.4 bits (89), Expect = 0.002
Identities = 41/158 (25%), Positives = 67/158 (42%), Gaps = 13/158 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESL---HGVQTKIIAVDLS 174
+VTG GIGRA A AR G ++ + L ++ A++++ + G + ++ DLS
Sbjct: 53 LVTGGDSGIGRAAAIAYAREGADVAI--SYLPVEEEDAQDVKKIIEECGRKAVLLPGDLS 110
Query: 175 GTKAA---IEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLM 231
K A + LG + LV LT + ++T+ NV +
Sbjct: 111 DEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDIADLTSEQFQKTFAI---NVFALFWL 167
Query: 232 TKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
T+ +P + +I+ SSI P YAATK
Sbjct: 168 TQEAIPLLPKG--ASIITTSSIQAYQPSPHLLDYAATK 203
>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 = 38.1 bits (89), Expect = 0.003
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIES-LHGVQTKIIAVDL 173
++++TG G+G A LA RG ++VL+SR + A+ G + ++ D+
Sbjct: 152 TYLITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGARVSVVRCDV 211
Query: 174 SGTKAAIEAVKNQLGDH 190
A+ L +
Sbjct: 212 ----TDPAALAALLAEL 224
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 37.4 bits (87), Expect = 0.004
Identities = 35/140 (25%), Positives = 59/140 (42%), Gaps = 6/140 (4%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VV G +G H LA G ++ + E +K A EI + +G + D + +
Sbjct: 6 VVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVADEINAEYGEKAYGFGADATNEQ 65
Query: 178 AAIEAVKNQLGD-HPVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
+ I K V +LV + G S + D E +D +L +N+V L +
Sbjct: 66 SVIALSKGVDEIFKRVDLLVYSAGIAKSAKIT---DFELGDFDRSLQVNLVGYFLCAREF 122
Query: 236 LPRM-KDNGRGAIVNVSSIS 254
M +D +G I+ ++S S
Sbjct: 123 SKLMIRDGIQGRIIQINSKS 142
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 37.3 bits (86), Expect = 0.004
Identities = 36/143 (25%), Positives = 66/143 (46%), Gaps = 13/143 (9%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
++TG + GIG+ A G + + +R L+ L+K A EI + G K++ V ++
Sbjct: 13 LITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSGG---KVVPVCCDVSQ 69
Query: 178 -----AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
+ ++ V +LG + I V N G ++ P + + +E + NV L
Sbjct: 70 HQQVTSMLDQVTAELGG--IDIAVCNAGIITVTP--MLDMPLEEFQRLQNTNVTGVFLTA 125
Query: 233 KLILPRMKDNGR-GAIVNVSSIS 254
+ M G+ G I+N +S+S
Sbjct: 126 QAAAKAMVKQGQGGVIINTASMS 148
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other enzymes)
catalyzes NADP-dependent sterol C-4 demethylation, as
part of steroid biosynthesis. 3-keto reductase is a
classical SDR, with a well conserved canonical active
site tetrad and fairly well conserved characteristic
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 37.8 bits (88), Expect = 0.004
Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 10/90 (11%)
Query: 118 VVTGCTDGIG-----RAYAHELARRGINIVLISRTLEKLKKTAKEIESLH---GVQTKII 169
+VTG G+G R A + + ++L R L++ + + + + H V +
Sbjct: 5 LVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVFDYV 64
Query: 170 AVDLSGTKAAIEAVK--NQLGDHPVHILVN 197
VDLS + A K + ++ +N
Sbjct: 65 LVDLSNMVSVFAAAKELKKRYPRLDYLYLN 94
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 37.3 bits (87), Expect = 0.005
Identities = 28/99 (28%), Positives = 41/99 (41%), Gaps = 19/99 (19%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVL--ISRTLEKLKKTAKEIESLHGVQTKIIA----- 170
+VTG GIGRA+A A G +V+ I L+ +A + V +I+A
Sbjct: 10 IVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLD---GSASGGSAAQAVVDEIVAAGGEA 66
Query: 171 -------VDLSGTKAAIEAVKNQLGDHPVHILVNNVGSL 202
D G ++A G + +LVNN G L
Sbjct: 67 VANGDDIADWDGAANLVDAAVETFGG--LDVLVNNAGIL 103
>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 = 36.1 bits (84), Expect = 0.013
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTA-KEIESLHG 163
VTG T +G A L + ++V + R EK K A +E G
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVALVRNPEKAKAFAADGVEVRQG 48
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 36.1 bits (84), Expect = 0.013
Identities = 38/154 (24%), Positives = 64/154 (41%), Gaps = 13/154 (8%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+TG T GIG A + G + + R L+ E+ G +I D +G A
Sbjct: 11 ITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAEL----GESALVIRAD-AGDVA 65
Query: 179 AIEAVKNQLGDHPVH--ILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
A +A+ L + + N G P ED ++ +D + + NV + + +
Sbjct: 66 AQKALAQALAEAFGRLDAVFINAGVAKFAP---LEDWDEAMFDRSFNTNVKGPYFLIQAL 122
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
LP + N ++N SI+ +VYAA+K
Sbjct: 123 LPLL-ANPASIVLN-GSINAHIGMPNSSVYAASK 154
>gnl|CDD|223643 COG0569, TrkA, K+ transport systems, NAD-binding component
[Inorganic ion transport and metabolism].
Length = 225
Score = 35.3 bits (82), Expect = 0.020
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQ 165
++ G +GR+ A EL+ G N+VLI R E++++ + H V
Sbjct: 3 IIIIGAGR-VGRSVARELSEEGHNVVLIDRDEERVEEFLADELDTHVVI 50
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 34.9 bits (81), Expect = 0.030
Identities = 42/164 (25%), Positives = 61/164 (37%), Gaps = 21/164 (12%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLS 174
+S +TG GIGRA A A G + L A E+ + + + D +
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAELGAGNAWTGALDVTDRA 61
Query: 175 GTKAAIEAVKNQLGDHP---VHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTL 230
AA+ + +L NN G L P ED E D + +NV
Sbjct: 62 AWDAALA----DFAAATGGRLDVLFNNAGILRGGP---FEDIPLEAHDRVIDINVKGVLN 114
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFN-----VYAATK 269
LP +K ++N SS S A++ VY+ATK
Sbjct: 115 GAHAALPYLKATPGARVINTSSAS-----AIYGQPGLAVYSATK 153
Score = 31.4 bits (72), Expect = 0.42
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 12/55 (21%)
Query: 48 ALRVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYARSAVSTLGV 102
AL +E++++GI V + P FV T M + + + + + LGV
Sbjct: 162 ALDLEWRRHGIRVADVMPLFVDTAMLDGT------------SNEVDAGSTKRLGV 204
>gnl|CDD|187670 cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide
reductase (LPOR)-like, classical (c)-like SDRs.
Classical SDR-like subgroup containing LPOR and related
proteins. Protochlorophyllide (Pchlide) reductases act
in chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 311
Score = 34.8 bits (80), Expect = 0.032
Identities = 37/147 (25%), Positives = 68/147 (46%), Gaps = 12/147 (8%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL 173
+ V+TG + G+G A A LARRG ++V+ R K ++ A+E+ + ++ DL
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEVGMPKDSYS-VLHCDL 60
Query: 174 S---GTKAAIEAVKNQLGDHPVHILVNNVG-SLSSYPKSLTEDTEKETWDTLSLNVVFTT 229
+ + ++ + P+ LV N L + + E T+ +N +
Sbjct: 61 ASLDSVRQFVDNFRRTGR--PLDALVCNAAVYLPTAKEPRFTADGFEL--TVGVNHLGHF 116
Query: 230 LMTKLILPRMK--DNGRGAIVNVSSIS 254
L+T L+L ++ +N IV V SI+
Sbjct: 117 LLTNLLLEDLQRSENASPRIVIVGSIT 143
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 35.0 bits (81), Expect = 0.033
Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 9/61 (14%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKE----IESLHGVQTKIIAVDL 173
++TG + G+G A LA+RG ++++ R L+K + A+E +S II +DL
Sbjct: 10 IITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIPPDSYT-----IIHIDL 64
Query: 174 S 174
Sbjct: 65 G 65
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 34.7 bits (80), Expect = 0.034
Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 20/83 (24%)
Query: 119 VTGCTDGIGRAYAHELARR-GINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
VTG + G+GR +A +LA G ++V + + + A+ + L + + +LSG
Sbjct: 138 VTGASGGVGR-FAVQLAALAGAHVVAVVGSPAR----AEGLRELGAAEVVVGGSELSGA- 191
Query: 178 AAIEAVKNQLGDHPVHILVNNVG 200
PV ++V++VG
Sbjct: 192 -------------PVDLVVDSVG 201
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 34.9 bits (80), Expect = 0.034
Identities = 43/154 (27%), Positives = 64/154 (41%), Gaps = 8/154 (5%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG GIG A L G +VL E+ K AK + G IA+D++
Sbjct: 14 LVTGAARGIGLGIAAWLIAEGWQVVLADLDRERGSKVAKAL----GENAWFIAMDVADEA 69
Query: 178 AAIEAVKNQLGDH-PVHILVNNVGSLSSYPKSLTEDTEKETWD-TLSLNVVFTTLMTKLI 235
V LG + LV N + +L E W+ L++N+ L+ K
Sbjct: 70 QVAAGVAEVLGQFGRLDALVCNAAIADPHNTTL-ESLSLAHWNRVLAVNLTGPMLLAKHC 128
Query: 236 LPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
P ++ + GAIVN++S YAA+K
Sbjct: 129 APYLRAHN-GAIVNLASTRARQSEPDTEAYAASK 161
>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 = 34.3 bits (79), Expect = 0.035
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 9/77 (11%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+ G T IGRA A EL +G + L+ R ++L K +E ++ DL +
Sbjct: 3 ILGATGFIGRALARELLEQGHEVTLLVRNTKRLSKEDQEPVAVVE-------GDLRDLDS 55
Query: 179 AIEAVKNQLGDHPVHIL 195
+AV+ D +H+
Sbjct: 56 LSDAVQGV--DVVIHLA 70
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. 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 = 260
Score = 34.8 bits (80), Expect = 0.037
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 7/119 (5%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+TG +DG+G A A L +G +VL +R+ ++ GV ++ L+ T+
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAACPGAAGVLIGDLS-SLAETRK 70
Query: 179 AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
+ V N +G I N G LS P T DT +++NV+ ++T LI
Sbjct: 71 LADQV-NAIGRFDAVIH--NAGILSG-PNRKTPDTGIPA--MVAVNVLAPYVLTALIRR 123
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical SDR
family members of unknown function have a glycine-rich
NAD(P)-binding motif consensus that is very similar to
the extended SDRs, GXXGXXG. Generally, this group has
poor conservation of the active site tetrad, However,
individual sequences do contain matches to the YXXXK
active site motif, and generally Tyr or Asn in place of
the upstream Ser found in most SDRs. 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 = 302
Score = 34.2 bits (79), Expect = 0.049
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 9/69 (13%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+ V G + IGR A EL RRG ++ L+SR+ KL +I+A D
Sbjct: 1 TAHVLGASGPIGREVARELRRRGWDVRLVSRSGSKLAWLPG---------VEIVAADAMD 51
Query: 176 TKAAIEAVK 184
+ I A +
Sbjct: 52 ASSVIAAAR 60
>gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate
dehydrogenase. Shikimate dehydrogenase (DH) is an amino
acid DH family member. Shikimate pathway links
metabolism of carbohydrates to de novo biosynthesis of
aromatic amino acids, quinones and folate. It is
essential in plants, bacteria, and fungi but absent in
mammals, thus making enzymes involved in this pathway
ideal targets for broad spectrum antibiotics and
herbicides. Shikimate DH catalyzes the reduction of
3-hydroshikimate to shikimate using the cofactor NADH.
Amino acid DH-like NAD(P)-binding domains are members of
the Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DHs, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 155
Score = 33.4 bits (77), Expect = 0.057
Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 125 GIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAV 183
G RA A+ LA G IV+++RTLEK K A+ L I +DL A + +
Sbjct: 29 GAARAVAYALAELGAAKIVIVNRTLEKAKALAERFGEL---GIAIAYLDLEELLAEADLI 85
Query: 184 KN 185
N
Sbjct: 86 IN 87
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave carbon-halogen
bonds. Haloalcohol dehalogenase show low sequence
similarity to short-chain dehydrogenases/reductases
(SDRs). Like the SDRs, haloalcohol dehalogenases have a
conserved catalytic triad (Ser-Tyr-Lys/Arg), and form a
Rossmann fold. However, the normal classical SDR
NAD(P)-binding motif (TGXXGXG) and NAD-binding function
is replaced with a halide binding site, allowing the
enzyme to catalyze a dehalogenation reaction. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 33.7 bits (77), Expect = 0.066
Identities = 29/157 (18%), Positives = 57/157 (36%), Gaps = 13/157 (8%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+VT G A A L G +V + A E ++ A+
Sbjct: 3 IALVTHARHFAGPASAEALTEDGYTVVCHDASF----ADAAERQAFESENPGTKALSEQK 58
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKS---LTEDTEKETWDTLSLNVVFTTLMT 232
+ ++AV G + +LV+N P+ + +E + +F +
Sbjct: 59 PEELVDAVLQAGGA--IDVLVSN----DYIPRPMNPIDGTSEADIRQAFEALSIFPFALL 112
Query: 233 KLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ + +MK G G+I+ ++S P A ++Y +
Sbjct: 113 QAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPAR 149
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 34.1 bits (78), Expect = 0.070
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL 173
+ ++TG + G+G A LA G ++++ R K ++ AK + T I+ +DL
Sbjct: 4 PTVIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSLGMPKDSYT-IMHLDL 62
Query: 174 SGTKAAIEAVKN-QLGDHPVHILVNN 198
+ + V+ + P+ LV N
Sbjct: 63 GSLDSVRQFVQQFRESGRPLDALVCN 88
>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 = 33.3 bits (76), Expect = 0.080
Identities = 31/153 (20%), Positives = 46/153 (30%), Gaps = 48/153 (31%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG + GIG A A LA RG K++ V
Sbjct: 2 LVTGGSGGIGGAIARWLASRG--------------------------SPKVLVVSRRD-- 33
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLS-LNVVFTTLMTKLIL 236
++V+N L D + NVV T + +
Sbjct: 34 ----------------VVVHNAAILDD---GRLIDLTGSRIERAIRANVVGTRRLLEAAR 74
Query: 237 PRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
MK G + +SS++ YAA+K
Sbjct: 75 ELMKAKRLGRFILISSVAGLFGAPGLGGYAASK 107
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 33.8 bits (78), Expect = 0.094
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 121 GCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI 158
G T G+G+ +A L +G +++ R +K K+ AKE+
Sbjct: 7 GGTGGLGKWFARFLKEKGFEVIVTGRDPKKGKEVAKEL 44
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 33.0 bits (75), Expect = 0.13
Identities = 41/157 (26%), Positives = 68/157 (43%), Gaps = 11/157 (7%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIES----LHGVQTKIIAVDL 173
V+TG GIG A E ARRG +VL L++ + + +HGV + +
Sbjct: 10 VITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFDVHGVMCDVRHRE- 68
Query: 174 SGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTK 233
T A EA + LG V ++ +N G + P + E T + + +++ + +
Sbjct: 69 EVTHLADEAFR-LLGH--VDVVFSNAGIVVGGP--IVEMTHDDWRWVIDVDLWGSIHTVE 123
Query: 234 LILPRMKDNGRGA-IVNVSSISEASPWALFNVYAATK 269
LPR+ + G G +V +S + P A Y K
Sbjct: 124 AFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAK 160
>gnl|CDD|161904 TIGR00507, aroE, shikimate 5-dehydrogenase. This model finds
proteins from prokaryotes and functionally equivalent
domains from larger, multifunctional proteins of fungi
and plants. Below the trusted cutoff of 180, but above
the noise cutoff of 20, are the putative shikimate
dehydrogenases of Thermotoga maritima and Mycobacterium
tuberculosis, and uncharacterized paralogs of shikimate
dehydrogenase from E. coli and H. influenzae. The
related enzyme quinate 5-dehydrogenase scores below the
noise cutoff. A neighbor-joining tree, constructed with
quinate 5-dehydrogenases as the outgroup, shows the
Clamydial homolog as clustering among the shikimate
dehydrogenases, although the sequence is unusual in the
degree of sequence divergence and the presence of an
additional N-terminal domain [Amino acid biosynthesis,
Aromatic amino acid family].
Length = 270
Score = 32.8 bits (75), Expect = 0.13
Identities = 13/56 (23%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 110 WVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQ 165
+ Q+ ++ G G +A A EL + N+++ +RT+ K ++ A+ + +Q
Sbjct: 113 PLRPNQNVLIIG-AGGAAKAVALELLKADCNVIIANRTVSKAEELAERFQRYGEIQ 167
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 32.8 bits (75), Expect = 0.14
Identities = 37/140 (26%), Positives = 59/140 (42%), Gaps = 19/140 (13%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTKIIAVDLS-- 174
+VTG + GIG A LA G ++V+ R + K EIE+ G + + DL+
Sbjct: 10 LVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEA-AGGRASAVGADLTDE 68
Query: 175 -GTKAAIEAVKNQLGDHPVHILV-NNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT 232
A ++ + + G + LV N G + S + ED + LN +
Sbjct: 69 ESVAALMDTAREEFGG--LDALVLNASGGMES---GMDED------YAMRLNRDAQRNLA 117
Query: 233 KLILPRMKDNGRGAIVNVSS 252
+ LP M R +V V+S
Sbjct: 118 RAALPLMPAGSR--VVFVTS 135
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 33.0 bits (75), Expect = 0.14
Identities = 30/165 (18%), Positives = 48/165 (29%), Gaps = 35/165 (21%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+VTG IG L G ++ + R + L +E + T VD
Sbjct: 4 LVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDPLLSGVEFVVLDLTDRDLVDELAKG 63
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
+AV + V + + + L +NV T +L
Sbjct: 64 VP-DAVIHLAAQSSVP-----------------DSNASDPAEFLDVNV----DGTLNLLE 101
Query: 238 RMKDNGRGAIVNVSSIS-------------EASPWALFNVYAATK 269
+ G V SS+S + P N Y +K
Sbjct: 102 AARAAGVKRFVFASSVSVVYGDPPPLPIDEDLGPPRPLNPYGVSK 146
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 32.4 bits (74), Expect = 0.15
Identities = 37/139 (26%), Positives = 59/139 (42%), Gaps = 9/139 (6%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHG--VQTKIIAVDLSGT 176
+T +GR + AR G ++L + LK T ++ +L ++
Sbjct: 10 ITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSALTDNVYSFQLKDFSQESI 69
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMT--KL 234
+ +A++ Q P +LVNN S S P E + LS + +TL T ++
Sbjct: 70 RHLFDAIEQQFNRAP-DVLVNNWTS-SPLPSLFDEQPSESFIQQLS--SLASTLFTYGQV 125
Query: 235 ILPRM-KDNGRGAIVNVSS 252
RM K N +G IVNV S
Sbjct: 126 AAERMRKRNKKGVIVNVIS 144
>gnl|CDD|223247 COG0169, AroE, Shikimate 5-dehydrogenase [Amino acid transport and
metabolism].
Length = 283
Score = 32.6 bits (75), Expect = 0.17
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 14/74 (18%)
Query: 125 GIGRAYAHELARRGI-NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAV 183
G RA A LA G I +++RT E+ ++ A L G A+
Sbjct: 136 GAARAVAFALAEAGAKRITVVNRTRERAEELADLFGEL-------------GAAVEAAAL 182
Query: 184 KNQLGDHPVHILVN 197
+ G +L+N
Sbjct: 183 ADLEGLEEADLLIN 196
>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 = 32.2 bits (74), Expect = 0.17
Identities = 21/97 (21%), Positives = 29/97 (29%), Gaps = 28/97 (28%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEK---------------LKKTAKEIES 160
+V G T +GR EL RG + + R + L +
Sbjct: 1 KVLVVGATGKVGRHVVRELLDRGYQVRALVRDPSQAEKLEAAGAEVVVGDLTDAESLAAA 60
Query: 161 LHGVQTKIIA-------------VDLSGTKAAIEAVK 184
L G+ I A VD G I+A K
Sbjct: 61 LEGIDAVISAAGSGGKGGPRTEAVDYDGNINLIDAAK 97
>gnl|CDD|100106 cd01425, RPS2, Ribosomal protein S2 (RPS2), involved in formation
of the translation initiation complex, where it might
contact the messenger RNA and several components of the
ribosome. It has been shown that in Escherichia coli
RPS2 is essential for the binding of ribosomal protein
S1 to the 30s ribosomal subunit. In humans, most likely
in all vertebrates, and perhaps in all metazoans, the
protein also functions as the 67 kDa laminin receptor
(LAMR1 or 67LR), which is formed from a 37 kDa
precursor, and is overexpressed in many tumors. 67LR is
a cell surface receptor which interacts with a variety
of ligands, laminin-1 and others. It is assumed that the
ligand interactions are mediated via the conserved
C-terminus, which becomes extracellular as the protein
undergoes conformational changes which are not well
understood. Specifically, a conserved palindromic motif,
LMWWML, may participate in the interactions. 67LR plays
essential roles in the adhesion of cells to the basement
membrane and subsequent signalling events, and has been
linked to several diseases. Some evidence also suggests
that the precursor of 67LR, 37LRP is also present in the
nucleus in animals, where it appears associated with
histones.
Length = 193
Score = 32.2 bits (74), Expect = 0.18
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 136 RRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK-AAIEAVK 184
R GI+I+ + +TLEKL+ I ++ KI+ V GTK A AVK
Sbjct: 27 RNGIHIIDLEKTLEKLRLALNFIANIAAKGGKILFV---GTKPQAQRAVK 73
>gnl|CDD|178374 PLN02775, PLN02775, Probable dihydrodipicolinate reductase.
Length = 286
Score = 32.3 bits (74), Expect = 0.20
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+V GCT +G A A G+ +V +S T +E + GV+ ++ V S
Sbjct: 13 PIMVNGCTGKMGHAVAEAAVSAGLQLVPVSFT--GPAGVGVTVE-VCGVEVRL--VGPSE 67
Query: 176 TKAAIEAVKNQLGDHPVHILV 196
+A + +VK ++P I+V
Sbjct: 68 REAVLSSVK---AEYPNLIVV 85
>gnl|CDD|224353 COG1436, NtpG, Archaeal/vacuolar-type H+-ATPase subunit F [Energy
production and conversion].
Length = 104
Score = 30.7 bits (70), Expect = 0.22
Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 93 ARSAVSTLGVTDTSTGFWVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLIS-RTLEKL 151
++ +G DT TGF + G++ V + RA LA + I+LI+ EK+
Sbjct: 1 MMMKIAVIGDRDTVTGFRLAGVRVVYVADDEEDELRAALRVLAEDDVGIILITEDLAEKI 60
Query: 152 KKTAKEI 158
++ + I
Sbjct: 61 REEIRRI 67
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 32.4 bits (74), Expect = 0.22
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLK-KTAKE--IESLHGVQTKIIAVDLS 174
+V G T IG+ EL RRG N+V ++R ++ K KE + L G + V
Sbjct: 64 LVVGATGYIGKFVVRELVRRGYNVVAVAREKSGIRGKNGKEDTKKELPGAEVVFGDV--- 120
Query: 175 GTKAAIEAVKNQLGDHPVHILV 196
++ V GD PV ++V
Sbjct: 121 TDADSLRKVLFSEGD-PVDVVV 141
>gnl|CDD|217105 pfam02558, ApbA, Ketopantoate reductase PanE/ApbA. This is a
family of 2-dehydropantoate 2-reductases also known as
ketopantoate reductases, EC:1.1.1.169. The reaction
catalyzed by this enzyme is: (R)-pantoate + NADP(+) <=>
2-dehydropantoate + NADPH. AbpA catalyzes the NADPH
reduction of ketopantoic acid to pantoic acid in the
alternative pyrimidine biosynthetic (APB) pathway. ApbA
and PanE are allelic. ApbA, the ketopantoate reductase
enzyme is required for the synthesis of thiamine via the
APB biosynthetic pathway.
Length = 150
Score = 31.4 bits (72), Expect = 0.22
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 20/94 (21%)
Query: 125 GIGRAYAHELARRGINIVLISRT--LEKLKKTAKEIESLHGVQTKIIAVDLS-------- 174
+G Y LAR G ++ LI+R LE +++ I S G +T V S
Sbjct: 8 AVGSLYGARLARAGHDVTLIARGRHLEAIRENGLRITSPGGERTVPPPVATSASEELGPA 67
Query: 175 ----------GTKAAIEAVKNQLGDHPVHILVNN 198
T A+E + LG + V +L+ N
Sbjct: 68 DLVIVAVKAYQTAEALEDLAPLLGPNTVVLLLQN 101
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, 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. 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. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. 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 = 480
Score = 32.5 bits (75), Expect = 0.23
Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 11/81 (13%)
Query: 119 VTGCTDGIGRAYAHELARRGI-NIVLISRT------LEKLKKTAKEIESLHGVQTKIIAV 171
VTG T +G A LARRG ++VL SR +L E+ +L G + + A
Sbjct: 235 VTGGTGALGAHVARWLARRGAEHLVLTSRRGPDAPGAAEL---VAELTAL-GARVTVAAC 290
Query: 172 DLSGTKAAIEAVKNQLGDHPV 192
D++ A + HP+
Sbjct: 291 DVADRDALAALLAALPAGHPL 311
>gnl|CDD|187658 cd08955, KR_2_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 2, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase, has 2 subdomains, each corresponding to a
short-chain dehydrogenases/reductase (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 oligomerizes but is composed of 2
subdomains, each resembling an SDR monomer. In some
instances, as in porcine FAS, an enoyl reductase (a
Rossman fold NAD binding domain of the MDR family)
module is inserted between the sub-domains. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic asparagine and tyrosine
are swapped, so that the canonical YXXXK motif changes
to YXXXN. Modular polyketide synthases are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
fatty acid synthase. In some instances, such as
porcine FAS , an enoyl reductase 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 consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses 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-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER).
Polyketide syntheses 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. This subfamily includes the KR domain of the
Lyngbya majuscule Jam J, -K, and #L which are encoded
on the jam gene cluster and are involved in the
synthesis of the Jamaicamides (neurotoxins); Lyngbya
majuscule Jam P belongs to a different KR_FAS_SDR_x
subfamily. 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 = 376
Score = 32.3 bits (74), Expect = 0.27
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 111 VHGIQSFVVTGCTDGIGRAYAHELARRGI-NIVLISRT--LEKLKKTAKEIESLHGVQTK 167
+ ++++TG G+G A L RG ++VL R ++ +E G +
Sbjct: 146 LRPDATYLITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAIAALEEA-GAEVV 204
Query: 168 IIAVDLSGTKAAIEAVK 184
++A D+S A A+
Sbjct: 205 VLAADVSDRDALAAALA 221
>gnl|CDD|187542 cd05231, NmrA_TMR_like_1_SDR_a, NmrA (a transcriptional regulator)
and triphenylmethane reductase (TMR) like proteins,
subgroup 1, atypical (a) SDRs. Atypical SDRs related to
NMRa, TMR, and HSCARG (an NADPH sensor). This subgroup
resembles the SDRs and has a partially conserved
characteristic [ST]GXXGXXG NAD-binding motif, but lacks
the conserved active site residues. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. 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. Atypical SDRs
are distinct from classical SDRs. 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 = 259
Score = 31.9 bits (73), Expect = 0.28
Identities = 12/39 (30%), Positives = 17/39 (43%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAK 156
+VTG T IG A L G + + R+ E+ A
Sbjct: 2 LVTGATGRIGSKVATTLLEAGRPVRALVRSDERAAALAA 40
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins of
undetermined function. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 198
Score = 31.4 bits (72), Expect = 0.29
Identities = 31/151 (20%), Positives = 55/151 (36%), Gaps = 25/151 (16%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+V G T IG A A L+ G ++ R+ VD++ +
Sbjct: 2 IVIGATGTIGLAVAQLLSAHGHEVITAGRSSG------------------DYQVDIT-DE 42
Query: 178 AAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILP 237
A+I+A+ ++G +V+ G L E T+ + L+ ++ + + LP
Sbjct: 43 ASIKALFEKVG--HFDAIVSTAGDAE--FAPLAELTDADFQRGLNSKLLGQINLVRHGLP 98
Query: 238 RMKDNGRGAIVNVSSISEASPWALFNVYAAT 268
+ D G+I S I P A
Sbjct: 99 YLNDG--GSITLTSGILAQRPIPGGAAAATV 127
>gnl|CDD|221693 pfam12657, TFIIIC_delta, Transcription factor IIIC subunit delta
N-term. In humans there are six subunits of
transcription factor IIIC, and this one is the 90 kDa
subunit; whereas in fungi the complex resolves into nine
different subunits and this is No. 9 in yeasts. The
whole subunit is involved in RNA polymerase III-mediated
transcription. It is possible that this N-terminal
domain interacts with TFIIIC subunit 8.
Length = 167
Score = 31.3 bits (71), Expect = 0.34
Identities = 15/51 (29%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 189 DHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNV-VFTTLMTKLILPR 238
VHIL + S P T WD L +FT ILP+
Sbjct: 23 GETVHILNPKSLAKSFIPTPSTLPASAIQWDITKLRGNLFTGQELPSILPQ 73
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 31.5 bits (72), Expect = 0.35
Identities = 30/154 (19%), Positives = 62/154 (40%), Gaps = 11/154 (7%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKA 178
+ G + G+G L RG + R ++ +++L GV I +D++ A
Sbjct: 6 IIGASRGLGLGLVDRLLERGWQVTATVRGPQQ----DTALQALPGVH--IEKLDMNDP-A 58
Query: 179 AIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFTTLMTKLILPR 238
+++ + +L +L N G +S + T E N + + + +L +
Sbjct: 59 SLDQLLQRLQGQRFDLLFVNAGISGPAHQSAADATAAEIGQLFLTNAIAPIRLARRLLGQ 118
Query: 239 MKDNGRGAIVNVSSI---SEASPWALFNVYAATK 269
++ G+G + +SS E +Y A+K
Sbjct: 119 VRP-GQGVLAFMSSQLGSVELPDGGEMPLYKASK 151
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 31.1 bits (70), Expect = 0.40
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHG 163
+VTG GIGR A LA++G +++ E + T +EI +L G
Sbjct: 20 IVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNLGG 65
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 31.1 bits (71), Expect = 0.43
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 15/91 (16%)
Query: 169 IAVDLSGTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTEDTEKETWDTLSLNVVFT 228
I DL G A+I+A L + L N G T E +N +
Sbjct: 28 IQADL-GDPASIDAAVAALPGR-IDALFNIAGV------PGTAPVE----LVARVNFLGL 75
Query: 229 TLMTKLILPRMKDNGRGAIVNVSSISEASPW 259
+T+ +LPRM G AIVNV+S++ + W
Sbjct: 76 RHLTEALLPRMAPGG--AIVNVASLA-GAEW 103
>gnl|CDD|212499 cd09815, TP_methylase, S-AdoMet dependent tetrapyrrole methylases.
This family uses S-AdoMet (S-adenosyl-L-methionine or
SAM) in the methylation of diverse substrates. Most
members catalyze various methylation steps in cobalamin
(vitamin B12) biosynthesis. There are two distinct
cobalamin biosynthetic pathways in bacteria. The aerobic
pathway requires oxygen, and cobalt is inserted late in
the pathway; the anaerobic pathway does not require
oxygen, and cobalt insertion is the first committed step
towards cobalamin synthesis. The enzymes involved in the
aerobic pathway are prefixed Cob and those of the
anaerobic pathway Cbi. Most of the enzymes are shared by
both pathways and a few enzymes are pathway-specific.
Diphthine synthase and Ribosomal RNA small subunit
methyltransferase I (RsmI) are two superfamily members
that are not involved in cobalamin biosynthesis.
Diphthine synthase participates in the posttranslational
modification of a specific histidine residue in
elongation factor 2 (EF-2) of eukaryotes and archaea to
diphthamide. RsmI catalyzes the 2-O-methylation of the
ribose of cytidine 1402 (C1402) in 16S rRNA using
S-adenosylmethionine (Ado-Met) as the methyl donor.
Length = 224
Score = 31.2 bits (71), Expect = 0.44
Identities = 22/91 (24%), Positives = 32/91 (35%), Gaps = 9/91 (9%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKI-IAVDL 173
QS D A A LA +VL + L AKE+ T + + +
Sbjct: 133 QSVTFADVRDDEPGAEAAALAAAPQTLVLYADPASALADIAKELREALPDDTPVVVTANG 192
Query: 174 S--------GTKAAIEAVKNQLGDHPVHILV 196
+ GT A + A + + P ILV
Sbjct: 193 TTRGQRIRTGTLAELAAAREEELPGPTIILV 223
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 31.2 bits (71), Expect = 0.46
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 118 VVTGCTDGIGRAYAHELARRG-INIVLISRTLEKLKKTAKEI 158
++TG + G+G A A LA G ++V+ R K ++ AK
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSA 42
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 31.2 bits (70), Expect = 0.49
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 138 GINIVLISRTLEKLKKTAKEIESLHGVQ--TKIIAVDLSGTKAAIEAVKNQLGDHP--VH 193
G +I+ I ++ K+ +E+ V + L G K A + QLG P +
Sbjct: 122 GADIISIQGNFDEALKSVRELAETEAVTLVNSVNPYRLEGQKTAAFEICEQLGSAPDVLA 181
Query: 194 ILVNNVGSLSSYPKSLTEDTEKE 216
I V N G++S+Y K E E +
Sbjct: 182 IPVGNAGNISAYWKGFKEWNEAK 204
>gnl|CDD|202773 pfam03807, F420_oxidored, NADP oxidoreductase coenzyme
F420-dependent.
Length = 93
Score = 29.5 bits (67), Expect = 0.52
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 13/62 (20%)
Query: 126 IGRAYAHELARRGINIVLI-SRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAVK 184
+G A A LA G +V+ SR EK A+E+ K AV EAV+
Sbjct: 10 MGEALARGLAAAGHEVVIANSRNPEKAAALAEELGV------KATAVS------NEEAVE 57
Query: 185 NQ 186
Sbjct: 58 EA 59
>gnl|CDD|178923 PRK00194, PRK00194, hypothetical protein; Validated.
Length = 90
Score = 29.4 bits (67), Expect = 0.56
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 12/63 (19%)
Query: 125 GIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAVK 184
GI + LA +NI+ IS+T+ + G T I+ VD+S +K +K
Sbjct: 15 GIIAGVSTVLAELNVNILDISQTI------------MDGYFTMIMLVDISESKKDFAELK 62
Query: 185 NQL 187
+L
Sbjct: 63 EEL 65
>gnl|CDD|202178 pfam02255, PTS_IIA, PTS system, Lactose/Cellobiose specific IIA
subunit. The bacterial phosphoenolpyruvate: sugar
phosphotransferase system (PTS) is a multi-protein
system involved in the regulation of a variety of
metabolic and transcriptional processes. The
lactose/cellobiose-specific family are one of four
structurally and functionally distinct group IIA PTS
system enzymes. This family of proteins normally
function as a homotrimer, stabilised by a centrally
located metal ion. Separation into subunits is thought
to occur after phosphorylation.
Length = 96
Score = 29.3 bits (67), Expect = 0.60
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 149 EKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIE 181
E L++ + + H QTK+I + G K +
Sbjct: 35 ELLEEANEALLEAHNAQTKLIQKEAGGEKVEVS 67
>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 = 30.3 bits (69), Expect = 0.95
Identities = 36/161 (22%), Positives = 63/161 (39%), Gaps = 23/161 (14%)
Query: 115 QSFVVTGCTDGIGRAYAHELARRGIN-IVLISRTLEKLKKTAKEIESLHGVQTKIIAVDL 173
++ +VTG IG ++ + G +++ R KL + +E+ S K+ +
Sbjct: 3 KTILVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVRELRS-RFPHDKLRFIIG 61
Query: 174 S-GTKAAIEAVKNQLGDHPVHILVNNVGSLSSYPK--SLTEDTEKETWDTLSLNVVFTTL 230
K + + G I+ + ++ K ED +E T NV L
Sbjct: 62 DVRDKERLRRAFKERG---PDIVFH----AAAL-KHVPSMEDNPEEAIKT---NV----L 106
Query: 231 MTKLILPRMKDNGRGAIVNVSSISEASPWALFNVYAATKTV 271
TK ++ +NG V +S+ +P NV ATK V
Sbjct: 107 GTKNVIDAAIENGVEKFVCISTDKAVNP---VNVMGATKRV 144
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 30.2 bits (69), Expect = 1.1
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 118 VVTGCTDGIGRAYAHELARRGI--NIVLISRTLEKLKKTAKEIE---SLHGVQTKIIA 170
V G +G + A L +G+ +VLI EK + A ++ + G KI
Sbjct: 4 AVIG-AGNVGSSLAFLLLLQGLGSELVLIDINEEKAEGVALDLSHAAAPLGSDVKITG 60
>gnl|CDD|187595 cd05334, DHPR_SDR_c_like, dihydropteridine reductase (DHPR),
classical (c) SDRs. Dihydropteridine reductase is an
NAD-binding protein related to the SDRs. It converts
dihydrobiopterin into tetrahydrobiopterin, a cofactor
necessary in catecholamines synthesis. Dihydropteridine
reductase has the YXXXK of these tyrosine-dependent
oxidoreductases, but lacks the typical upstream Asn and
Ser catalytic residues. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 221
Score = 29.6 bits (67), Expect = 1.2
Identities = 27/155 (17%), Positives = 47/155 (30%), Gaps = 19/155 (12%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK 177
+V G +G A RG + I L + + S II +D
Sbjct: 5 LVYGGRGALGSAVVQAFKSRGWWVASID-----LAENEEADAS-------IIVLDSDSFT 52
Query: 178 AAIEAVKNQLGDHP--VHILVNNVGSLSSYPKSLTEDTEKETWDT-LSLNVVFTTLMTKL 234
+ V + V L+ G + S + + WD N+ + + + L
Sbjct: 53 EQAKQVVASVARLSGKVDALICVAGGWAG--GSAKSKSFVKNWDLMWKQNLWTSFIASHL 110
Query: 235 ILPRMKDNGRGAIVNVSSISEASPWALFNVYAATK 269
+ G +V + + P Y A K
Sbjct: 111 ATKHLLSGGL--LVLTGAKAALEPTPGMIGYGAAK 143
>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 = 29.9 bits (68), Expect = 1.2
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKE 157
++TG T IGRA L +RG + +++R+ T E
Sbjct: 2 LITGGTGFIGRALTQRLTKRGHEVTILTRSPPPGANTKWE 41
>gnl|CDD|147328 pfam05095, DUF687, Protein of unknown function (DUF687). This
family contains several uncharacterized Chlamydia
proteins.
Length = 542
Score = 30.0 bits (68), Expect = 1.2
Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 47 AALRVEYQKYG--ITVQHIAPA-FVSTKMNNFSYRVRNKSFFVPDAEQYARSAVSTLGVT 103
AL + +Y I V IAP +V+ N YRV + D + S VSTL +
Sbjct: 132 QALD--HSRYASRIVVVGIAPTVYVTGHSNVHHYRVSGDLTSLLDRRGFTASNVSTLPYS 189
Query: 104 DTSTG-FWVH 112
S G F
Sbjct: 190 SGSEGIFLPS 199
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the BphD
protein of biphenyl catabolism and as the TodD protein
of toluene catabolism. Members catalyze the second step
in each pathway and proved interchangeable when tested;
the first and fourth enzymes in each pathway confer
metabolic specificity. In the context of biphenyl
degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 29.8 bits (67), Expect = 1.3
Identities = 33/143 (23%), Positives = 59/143 (41%), Gaps = 16/143 (11%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD----- 172
+VTG G+GRA G + ++ ++ L +E+E+ HG ++ V+
Sbjct: 9 LVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGL----QELEAAHG--DAVVGVEGDVRS 62
Query: 173 LSGTKAAIEAVKNQLGDHPVHILVNNVG--SLSSYPKSLTEDTEKETWDTL-SLNVVFTT 229
L K A+ G + L+ N G S+ + +D E +D + +NV
Sbjct: 63 LDDHKEAVARCVAAFGK--IDCLIPNAGIWDYSTALVDIPDDRIDEAFDEVFHINVKGYL 120
Query: 230 LMTKLILPRMKDNGRGAIVNVSS 252
L K LP + + I +S+
Sbjct: 121 LAVKAALPALVASRGSVIFTISN 143
>gnl|CDD|223130 COG0052, RpsB, Ribosomal protein S2 [Translation, ribosomal
structure and biogenesis].
Length = 252
Score = 29.9 bits (68), Expect = 1.3
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 135 ARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK-AAIEAVK 184
R GI+I+ + +TLE+L++ K + + KI+ V GTK A E VK
Sbjct: 34 ERNGIHIIDLQKTLERLREAYKFLRRIAANGGKILFV---GTKKQAQEPVK 81
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 29.8 bits (67), Expect = 1.3
Identities = 12/42 (28%), Positives = 20/42 (47%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIE 159
+VTG +GR A G + L+ + L+ AKE++
Sbjct: 4 LVTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAKELD 45
>gnl|CDD|233635 TIGR01915, npdG, NADPH-dependent F420 reductase. This model
represents a subset of a parent family described by
pfam03807. Unlike the parent family, members of this
family are found only in species with evidence of
coenzyme F420. All members of this family are believed
to act as NADPH-dependent F420 reductase [Energy
metabolism, Electron transport].
Length = 219
Score = 29.4 bits (66), Expect = 1.4
Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 19/102 (18%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTK----------- 167
V G T G+ A LA+ G I++ SR LEK ++ A + G
Sbjct: 5 VLGGTGDQGKGLALRLAKAGNKIIIGSRDLEKAEEAAAKALEELGHGGSDIKVTGADNAE 64
Query: 168 --------IIAVDLSGTKAAIEAVKNQLGDHPVHILVNNVGS 201
I+AV +E+++++L V V + S
Sbjct: 65 AAKRADVVILAVPWDHVLKTLESLRDELSGKLVISPVVPLAS 106
>gnl|CDD|226351 COG3830, COG3830, ACT domain-containing protein [Signal
transduction mechanisms].
Length = 90
Score = 28.0 bits (63), Expect = 1.6
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 12/63 (19%)
Query: 125 GIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAVK 184
GI A + LA G+NI+ IS+T+ + G T I+ VD+S A++
Sbjct: 15 GIVAAVSRVLAEHGVNILDISQTV------------MDGFFTMIMLVDISKEVVDFAALR 62
Query: 185 NQL 187
++L
Sbjct: 63 DEL 65
>gnl|CDD|224805 COG1893, ApbA, Ketopantoate reductase [Coenzyme metabolism].
Length = 307
Score = 29.6 bits (67), Expect = 1.8
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 19/93 (20%)
Query: 125 GIGRAYAHELARRG--INIVLISRTLEKLKKTAKEIESLHGVQTK--------------- 167
IG LA+ G + +++ SR LE LKK IE G T
Sbjct: 10 AIGSLLGARLAKAGHDVTLLVRSRRLEALKKKGLRIEDEGGNFTTPVVAATDAEALGPAD 69
Query: 168 --IIAVDLSGTKAAIEAVKNQLGDHPVHILVNN 198
I+ V + A+ ++ LG + V + + N
Sbjct: 70 LVIVTVKAYQLEEALPSLAPLLGPNTVVLFLQN 102
>gnl|CDD|145326 pfam02110, HK, Hydroxyethylthiazole kinase family.
Length = 246
Score = 29.2 bits (66), Expect = 2.0
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 131 AHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD-LSGTKAAIEAVKN 185
A + +L S + ++ A EI +L G + + VD G AI A +
Sbjct: 91 ATKFRTETALELLRSVGVAAIRGNAGEILALAGEEGLMRGVDSGEGATDAIRAAQQ 146
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 29.1 bits (65), Expect = 2.4
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 2/69 (2%)
Query: 116 SFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+ ++TG T GIG+ A + A++G ++ R L + + ++ + + D G
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDELHTQSANIFTLAFDV--TDHPG 60
Query: 176 TKAAIEAVK 184
TKAA+ +
Sbjct: 61 TKAALSQLP 69
>gnl|CDD|187606 cd05348, BphB-like_SDR_c,
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase
(BphB)-like, classical (c) SDRs.
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB) is
a classical SDR, it is of particular importance for its
role in the degradation of biphenyl/polychlorinated
biphenyls(PCBs); PCBs are a significant source of
environmental contamination. This subgroup also includes
Pseudomonas putida F1
cis-biphenyl-1,2-dihydrodiol-1,2-dehydrogenase (aka
cis-benzene glycol dehydrogenase, encoded by the bnzE
gene), which participates in benzene metabolism. In
addition it includes Pseudomonas sp. C18 putative
1,2-dihydroxy-1,2-dihydronaphthalene dehydrogenase (aka
dibenzothiophene dihydrodiol dehydrogenase, encoded by
the doxE gene) which participates in an upper
naphthalene catabolic pathway. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 28.9 bits (65), Expect = 2.4
Identities = 35/152 (23%), Positives = 58/152 (38%), Gaps = 21/152 (13%)
Query: 110 WVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKII 169
W+ G + ++TG G+GRA G + ++ R+ EK+ E+ + G +
Sbjct: 1 WLKG-EVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKV----AELRADFGDAVVGV 55
Query: 170 ---AVDLSGTKAAIEAVKNQLGDHPVHILVNNVG------SLSSYPKSLTEDTEKETWDT 220
L+ + A+ + G + + N G SL P E+ E +D
Sbjct: 56 EGDVRSLADNERAVARCVERFGK--LDCFIGNAGIWDYSTSLVDIP----EEKLDEAFDE 109
Query: 221 L-SLNVVFTTLMTKLILPRMKDNGRGAIVNVS 251
L +NV L K LP + I VS
Sbjct: 110 LFHINVKGYILGAKAALPALYATEGSVIFTVS 141
>gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of
glutamyl-tRNA reductase. Glutamyl-tRNA reductase
catalyzes the conversion of glutamyl-tRNA to
glutamate-1-semialdehyde, initiating the synthesis of
tetrapyrrole. Whereas tRNAs are generally associated
with peptide bond formation in protein translation, here
the tRNA activates glutamate in the initiation of
tetrapyrrole biosynthesis in archaea, plants and many
bacteria. In the first step, activated glutamate is
reduced to glutamate-1-semi-aldehyde via the NADPH
dependent glutamyl-tRNA reductase. Glutamyl-tRNA
reductase forms a V-shaped dimer. Each monomer has 3
domains: an N-terminal catalytic domain, a classic
nucleotide binding domain, and a C-terminal dimerization
domain. Although the representative structure 1GPJ lacks
a bound NADPH, a theoretical binding pocket has been
described. (PMID 11172694). Amino acid dehydrogenase
(DH)-like NAD(P)-binding domains are members of the
Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 311
Score = 29.2 bits (66), Expect = 2.5
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 126 IGRAYAHELARRGI-NIVLISRTLEKLKKTAKE----IESLHGVQTKIIAVDL--SGTKA 178
+G A LA +G+ I + +RT E+ ++ AKE L + + D+ S T A
Sbjct: 189 MGELAAKHLAAKGVAEITIANRTYERAEELAKELGGNAVPLDELLELLNEADVVISATGA 248
>gnl|CDD|212538 cd11592, Agmatinase_PAH, Agmatinase-like family includes
proclavaminic acid amidinohydrolase. This agmatinase
subfamily contains bacterial and fungal/metazoan
enzymes, including proclavaminic acid amidinohydrolase
(PAH, EC 3.5.3.22) and Pseudomonas aeruginosa
guanidinobutyrase (GbuA) and guanidinopropionase (GpuA).
PAH hydrolyzes amidinoproclavaminate to yield
proclavaminate and urea in clavulanic acid biosynthesis.
Clavulanic acid is an effective inhibitor of
beta-lactamases and is used in combination with
amoxicillin to prevent the beta-lactam rings of the
antibiotic from hydrolysis and, thus keeping the
antibiotic biologically active. GbuA hydrolyzes
4-guanidinobutyrate (4-GB) into 4-aminobutyrate and urea
while GpuA hydrolyzes 3-guanidinopropionate (3-GP) into
beta-alanine and urea. Mutation studies show that
significant variations in two active site loops in these
two enzymes may be important for substrate specificity.
This subfamily belongs to the ureohydrolase superfamily,
which includes arginase, agmatinase, proclavaminate
amidinohydrolase, and formiminoglutamase.
Length = 289
Score = 29.0 bits (66), Expect = 2.6
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 171 VDLSGTKAAIEAVKNQLGDHPVHI 194
VD G A IE ++ ++GD PV++
Sbjct: 196 VDDIGLDAIIEKIRERVGDGPVYL 219
>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 = 28.9 bits (65), Expect = 2.8
Identities = 20/83 (24%), Positives = 35/83 (42%), Gaps = 7/83 (8%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAV--DLS 174
VTG T +GR L G ++++ R+ E L + + IE ++ + DL+
Sbjct: 1 VFVTGGTGFLGRHLVKRLLENGFKVLVLVRS-ESLGEAHERIEEAGLEADRVRVLEGDLT 59
Query: 175 GTKAAI--EAVKNQLG--DHPVH 193
+ A + G DH +H
Sbjct: 60 QPNLGLSAAASRELAGKVDHVIH 82
>gnl|CDD|176252 cd08292, ETR_like_2, 2-enoyl thioester reductase (ETR) like
proteins, child 2. 2-enoyl thioester reductase (ETR)
like proteins. ETR catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the 2-enoyl
thioester reductase (ETR) like proteins. ETR catalyzes
the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and have 2 tightly bound
zinc atoms per subunit, a catalytic zinc at the active
site, and a structural zinc in a lobe of the catalytic
domain. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains, at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 28.8 bits (65), Expect = 2.9
Identities = 22/106 (20%), Positives = 45/106 (42%), Gaps = 15/106 (14%)
Query: 95 SAVSTLGVTDTSTGFWVHGIQSFVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKT 154
SA+ L G W+ + +G+ A A RGIN++ + R
Sbjct: 127 SALMLLDFLGVKPGQWL------IQNAAGGAVGKLVAMLAAARGINVINLVRRDA----G 176
Query: 155 AKEIESLHGVQTKIIAVDLSGTKAAIEAVKNQLGDHPVHILVNNVG 200
E+ +L G+ +++ + G + + V+ G P+ + +++VG
Sbjct: 177 VAELRAL-GIGP-VVSTEQPGWQ---DKVREAAGGAPISVALDSVG 217
>gnl|CDD|192933 pfam12076, Wax2_C, WAX2 C-terminal domain. This presumed domain is
functionally uncharacterized. This domain is found in
eukaryotes. This domain is about 170 amino acids in
length. This domain is found associated with pfam04116.
This domain has a conserved LEGW sequence motif. This
region has similarity to short chain dehydrogenases.
Length = 164
Score = 28.1 bits (63), Expect = 3.3
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRT-LEKLKKTAKEIESLHGVQTK 167
++ G T + RA A L ++G+ +V++S+ EKLK A + V +
Sbjct: 2 LLRGNTSKVARAIALALCKKGVKVVMLSKEEYEKLKPEAPPEVQDNLVLST 52
>gnl|CDD|192565 pfam10391, DNA_pol_lambd_f, Fingers domain of DNA polymerase
lambda. DNA polymerases catalyze the addition of dNMPs
onto the 3-prime ends of DNA chains. There is a general
polymerase fold consisting of three subdomains that have
been likened to the fingers, palm, and thumb of a right
hand. DNA_pol_lambd_f is the central three-helical
region of DNA polymerase lambda referred to as the F and
G helices of the fingers domain. Contacts with DNA
involve this conserved helix-hairpin-helix motif in the
fingers region which interacts with the primer strand.
This motif is common to several DNA binding proteins and
confers a sequence-independent interaction with the DNA
backbone.
Length = 52
Score = 25.9 bits (58), Expect = 3.5
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 125 GIGRAYAHELARRGINIVLISRTLEKLKKT 154
G+G A + R+GI RTLE L++
Sbjct: 9 GVGPKTARKWYRQGI------RTLEDLREN 32
>gnl|CDD|220598 pfam10142, PhoPQ_related, PhoPQ-activated pathogenicity-related
protein. Members of this family of bacterial proteins
are involved in the virulence of some pathogenic
proteobacteria.
Length = 363
Score = 28.4 bits (64), Expect = 3.8
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 22/93 (23%)
Query: 13 VAVTVLHVLWKLVNGFRVHVIGQYVDLKQKYGSWAALRVEYQKYGITVQHIAPAFVSTKM 72
+A V+ +L R + QY + YG+W+ +Y GI Q PAF
Sbjct: 198 IAPIVIDIL-----NMRAQLKHQY----ESYGNWSEALYDYTAEGIDEQLNTPAFAQLLQ 248
Query: 73 --NNFSYRVR-----------NKSFFVPDAEQY 92
+ +SYR R FFVPD+ +
Sbjct: 249 IVDPYSYRDRLTMPKYIINASGDEFFVPDSTNF 281
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 28.4 bits (64), Expect = 4.3
Identities = 23/95 (24%), Positives = 43/95 (45%), Gaps = 16/95 (16%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISRTL----------EKLKKTAKEIESLHGVQTK 167
+V G T G GR A EL G + + R+ E +++TA+ + + G +
Sbjct: 12 LVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAELVTAAGG---R 68
Query: 168 IIAVDLSGTKAA-IEAVKNQLG-DH-PVHILVNNV 199
IAV + + A+ ++ + + ILVN++
Sbjct: 69 GIAVQVDHLVPEQVRALVERIDREQGRLDILVNDI 103
>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 = 28.5 bits (64), Expect = 4.3
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 119 VTGCTDGIGRAYAHELARRGINIVLISRTLE 149
VTG IGRA +L RG + + R E
Sbjct: 4 VTGANGFIGRALVDKLLSRGEEVRIAVRNAE 34
>gnl|CDD|205225 pfam13044, DUF3904, Protein of unknown function (DUF3904). This
family of proteins is functionally uncharacterized. This
family of proteins is found in viruses. Proteins in this
family are typically between 437 and 448 amino acids in
length.
Length = 436
Score = 28.5 bits (63), Expect = 4.4
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 57 GITVQHIAPAFVSTKMNNFSYRVRNKSFFVPDAEQYARSAVSTL 100
GI V+ +P VS K N S+RV VPD +AR++ TL
Sbjct: 201 GIRVEVPSPVLVSAKCNEISFRVV-PFHSVPDKLGFARTSSFTL 243
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 28.6 bits (64), Expect = 4.5
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEI 158
FVV G G G+A A+ +G +V+ +RT E+ K+ A +
Sbjct: 382 FVVIG-AGGAGKALAYGAKEKGARVVIANRTYERAKELADAV 422
>gnl|CDD|215856 pfam00318, Ribosomal_S2, Ribosomal protein S2.
Length = 205
Score = 27.9 bits (63), Expect = 4.5
Identities = 23/51 (45%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 135 ARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTK-AAIEAVK 184
R GI+I+ + +TLEKL+K A I+ + KI+ V GTK A EAVK
Sbjct: 26 ERNGIHIIDLEKTLEKLRKAANFIKEIAAKGGKILFV---GTKKQAQEAVK 73
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 28.3 bits (64), Expect = 4.5
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 5/85 (5%)
Query: 117 FVVTGCTDGIGRAYAHELAR-RGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSG 175
+ G +G+A +LA+ GI + + R L++ + +++L ++ +
Sbjct: 150 VIQNGANSAVGQA-VIQLAKLLGIKTINVVRDRPDLEELKERLKALGA--DHVLTEEELR 206
Query: 176 TKAAIEAVKNQLGDHPVHILVNNVG 200
+ A E +K+ G P L N VG
Sbjct: 207 SLLATELLKSAPGGRPKLAL-NCVG 230
>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 = 28.0 bits (63), Expect = 4.6
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 118 VVTGCTDGIGRAYAHELARRGINIVLISR 146
V G T IGR + LA+RG +++ R
Sbjct: 4 TVFGATGFIGRYVVNRLAKRGSQVIVPYR 32
>gnl|CDD|224364 COG1447, CelC, Phosphotransferase system cellobiose-specific
component IIA [Carbohydrate transport and metabolism].
Length = 105
Score = 26.8 bits (60), Expect = 4.7
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 149 EKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAV 183
E +++ + H VQTK+I + SG K + +
Sbjct: 40 ELIQEANDALNEAHHVQTKLIQKEASGEKIEVSLL 74
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 27.9 bits (63), Expect = 4.9
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 126 IGRAYAHELARRGINIVLISRTLEKLKKTAKEIES 160
+G A AR G+ +VL+ + E L+K IE
Sbjct: 10 MGAGIAQVFARAGLEVVLVDISEEALEKARARIEK 44
>gnl|CDD|177432 PHA02607, wac, fibritin; Provisional.
Length = 454
Score = 28.5 bits (64), Expect = 5.0
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 140 NIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD-LSGTKAAIEAVKNQLGDH 190
N + ++ I+ V I +D ++ A IE +K + D
Sbjct: 60 NTKKTKDKINEVVDDVNTIQENLDVIGDISVIDQINQNVADIEVLKKDVSDT 111
>gnl|CDD|220857 pfam10715, REGB_T4, Endoribonuclease RegB T4-bacteriophage encoded.
The RegB endoribonuclease encoded by bacteriophage T4
is a unique sequence-specific nuclease that cleaves in
the middle of GGAG or, in a few cases, GGAU
tetranucleotides, preferentially those found in the
Shine-Dalgarno regions of early phage mRNAs. Phage RB49
in addition to gpRegB utilises Escherichia coli
endoribonuclease E for the degradation of its
transcripts for gene regB. The deduced primary structure
of RegB proteins of 32 phages studied is almost
identical to that of T4, while the sequences of RegB
encoded by phages RB69, TuIa and RB49 show substantial
divergence from their T4 counterpart.
Length = 142
Score = 27.2 bits (60), Expect = 6.1
Identities = 13/72 (18%), Positives = 22/72 (30%), Gaps = 3/72 (4%)
Query: 16 TVLHVLWKLVNGFRVHVIGQYVDLKQKYGSWAALRVEYQKY--GITVQHIAPAFVSTKMN 73
T+ VL L R + + +D + L + GIT I +
Sbjct: 63 TLDEVLDFLGMPMRPTLDEKDLDGVEYRARRLMLEITKGNLWIGITSSKIGWNKEKAGL- 121
Query: 74 NFSYRVRNKSFF 85
+ N +F
Sbjct: 122 CCRMAILNSAFL 133
>gnl|CDD|232863 TIGR00184, purA, adenylosuccinate synthase. Alternate name
IMP--aspartate ligase [Purines, pyrimidines,
nucleosides, and nucleotides, Purine ribonucleotide
biosynthesis].
Length = 425
Score = 27.9 bits (62), Expect = 6.4
Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 3/68 (4%)
Query: 125 GIGRAYAHELARRGINI---VLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIE 181
GIG AY ++AR G+ + + EK K + + K VD
Sbjct: 128 GIGPAYEDKVARSGLRVGDLLDDEAFAEKAKNILEYLNEQLVKYYKDEGVDYEKKLDEYM 187
Query: 182 AVKNQLGD 189
+L
Sbjct: 188 KYAEELKP 195
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family includes
various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 27.7 bits (62), Expect = 6.4
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 126 IGRAYAHELARRGINIVLISR 146
+G + A+ELARRG+++ L+ R
Sbjct: 10 VGLSTAYELARRGLSVTLLER 30
>gnl|CDD|153144 cd04872, ACT_1ZPV, ACT domain proteins similar to the yet
uncharacterized Streptococcus pneumoniae ACT domain
protein. This CD, ACT_1ZPV, includes those single ACT
domain proteins similar to the yet uncharacterized
Streptococcus pneumoniae ACT domain protein (pdb
structure 1ZPV). Members of this CD belong to the
superfamily of ACT regulatory domains.
Length = 88
Score = 26.4 bits (59), Expect = 6.5
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 12/63 (19%)
Query: 125 GIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAVK 184
GI + +LA +NI+ IS+T+ + G T I+ VD+S + ++
Sbjct: 13 GIVAGVSTKLAELNVNILDISQTI------------MDGYFTMIMIVDISESNLDFAELQ 60
Query: 185 NQL 187
+L
Sbjct: 61 EEL 63
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 28.1 bits (63), Expect = 6.5
Identities = 10/44 (22%), Positives = 23/44 (52%), Gaps = 8/44 (18%)
Query: 144 ISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGTKAAIEAVKNQL 187
+ R ++LKK +E++ K +L+ T+ +E ++ +L
Sbjct: 614 LEREEKELKKLEEELD-------KAFE-ELAETEKRLEELRKEL 649
>gnl|CDD|188074 TIGR00694, thiM, hydroxyethylthiazole kinase. This model
represents the hydoxyethylthiazole kinase, ThiM, of a
number of bacteria, and C-terminal domains of
bifunctional thiamine biosynthesis proteins of
Saccharomyces cerevisiae and Schizosaccharomyces pombe,
in which the N-terminal domain corresponds to the
bacterial thiamine-phosphate pyrophosphorylase (EC
2.5.1.3), ThiE [Biosynthesis of cofactors, prosthetic
groups, and carriers, Thiamine].
Length = 249
Score = 27.7 bits (62), Expect = 6.7
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 131 AHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVD-LSGTKAAIEAVKN 185
A + +L + +K A EI +L G + K+ VD G + AI A +
Sbjct: 91 ATKFRTETSLELLSEGRVAAIKGNAGEIAALAGEEGKMRGVDSGEGAEDAIRAAQQ 146
>gnl|CDD|197344 cd10036, Reelin_subrepeat_Nt, Additional N-terminal subrepeat of
reelin. Reelin is an extracellular glycoprotein
involved in neuronal development, specifically in the
brain cortex. It contains 8 tandemly repeated units,
each of which is composed of two highly similar
subrepeats and a central EGF domain. Some family members
appear to have an additional subrepeat at the N-terminus
as characterized in this model. Consecutive reelin
repeat units are packed together to form an overall
rod-like molecular structure. Reelin repeats 5 and 6 are
reported to interact with neuronal receptors, the
apolipoprotein E receptor 2 (ApoER2) and the
very-low-density lipoprotein receptor (VLDLR),
triggering a signaling cascade upon binding and
subsequent tyrosine phosphorylation of the cytoplasmic
disabled-1 (Dab1). Genetic deficiency of reelin, or
ApoER2 and VLDLR, or Dab1, all exhibit the same
phenotypes, including ataxia, cortical layer inversion
and abnormal positioning patterns.
Length = 151
Score = 27.1 bits (60), Expect = 6.8
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 44 GSWAAL-RVEYQKYGITVQHIAPAFVSTKMNNFSYRVRNKSFFVPD 88
W L ++ G T+ HI P K +N S+R R ++ +
Sbjct: 92 SDWITLEKIRAPSNGSTIIHIIPLPTDAKQDNVSFRFRQEAPNAGE 137
>gnl|CDD|147381 pfam05167, DUF711, Uncharacterized ACR (DUF711). The proteins in
this family are functionally uncharacterized. The
proteins are around 450 amino acids long. It is likely
that this family represents a group of
glycerol-3-phosphate dehydrogenases.
Length = 390
Score = 27.6 bits (62), Expect = 6.9
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 144 ISRTLEKLKKTAKEIESLHG--VQTKIIAVD 172
I+ E L + A+EIE+ +G + TK I+V
Sbjct: 26 ITSKAENLVEVAEEIEAEYGIPIVTKRISVT 56
>gnl|CDD|224996 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 27.3 bits (61), Expect = 7.3
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 11/75 (14%)
Query: 126 IGRAYAHELARRGINIVLISRTLEK-LKKTAKEIESLHGVQTK----------IIAVDLS 174
IG A A LA+ G +++ S K L A + L + ++AV
Sbjct: 12 IGSALALRLAKAGHEVIIGSSRGPKALAAAAAALGPLITGGSNEDAAALADVVVLAVPFE 71
Query: 175 GTKAAIEAVKNQLGD 189
+ +++ LG
Sbjct: 72 AIPDVLAELRDALGG 86
>gnl|CDD|130353 TIGR01286, nifK, nitrogenase molybdenum-iron protein beta chain.
This model represents the majority of known sequences of
the nitrogenase molybdenum-iron protein beta subunit. A
distinct clade in a phylogenetic tree contains
molybdenum-iron, vanadium-iron, and iron-iron forms of
nitrogenase beta subunit and is excluded from this
model. Nitrogenase, also called dinitrogenase, is
responsible for nitrogen fixation. Note: the trusted
cutoff score has recently been lowered to include an
additional family in which the beta subunit is shorter
by about 50 amino acids at the N-terminus. In species
with the shorter form of the beta subunit, the alpha
subunit has a novel insert of similar length [Central
intermediary metabolism, Nitrogen fixation].
Length = 515
Score = 27.9 bits (62), Expect = 7.4
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 13/54 (24%)
Query: 186 QLGDHPVHILVNN-----------VGSLSSYPKSLTEDTEKETWDTLSLNVVFT 228
+LG PVHIL N + + S Y ++ T K+ W SL VFT
Sbjct: 384 ELGCEPVHILCTNGTKRWKAEMKALLAASPYGQNATVWIGKDLWHLRSL--VFT 435
>gnl|CDD|223338 COG0260, PepB, Leucyl aminopeptidase [Amino acid transport and
metabolism].
Length = 485
Score = 27.6 bits (62), Expect = 7.6
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 109 FWVHGIQSFVVTGCTDGIGRAYAHELARRGINI---VLISRTLEKLKKTAKEIESLHGVQ 165
+ +G A LAR +N +L T E+L + A+ + L GV+
Sbjct: 147 VTLLVPAKSAEKAIREGEAIAEGVNLARDLVNTPANIL---TPEELAERAELLAKLGGVK 203
Query: 166 TKII 169
+++
Sbjct: 204 VEVL 207
>gnl|CDD|237402 PRK13504, PRK13504, sulfite reductase subunit beta; Provisional.
Length = 569
Score = 27.8 bits (63), Expect = 7.6
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 112 HGIQ--SFVV--TGCTDGIGRAYAHELA 135
HG+ V+ TGC +G R Y E+
Sbjct: 465 HGLSDEHIVIRMTGCPNGCARPYLAEIG 492
>gnl|CDD|238133 cd00215, PTS_IIA_lac, PTS_IIA, PTS system, lactose/cellobiose
specific IIA subunit. The bacterial phosphoenolpyruvate:
sugar phosphotransferase system (PTS) is a multi-protein
system involved in the regulation of a variety of
metabolic and transcriptional processes. This family is
one of four structurally and functionally distinct group
IIA PTS system cytoplasmic enzymes, necessary for the
uptake of carbohydrates across the cytoplasmic membrane
and their phosphorylation. This family of proteins
normally function as a homotrimer, stabilized by a
centrally located metal ion. Separation into subunits is
thought to occur after phosphorylation.
Length = 97
Score = 26.0 bits (58), Expect = 8.3
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 149 EKLKKTAKEIESLHGVQTKIIAVDLSGTKAAI 180
E L++ + H QTK++ + SG K +
Sbjct: 36 ELLEEANDSLNEAHHAQTKLLQQEASGEKVEV 67
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 27.5 bits (62), Expect = 8.6
Identities = 9/25 (36%), Positives = 18/25 (72%), Gaps = 5/25 (20%)
Query: 125 GIGRAY-----AHELARRGINIVLI 144
G+G++Y A+ELA++G++ L+
Sbjct: 166 GVGKSYLLAAIANELAKKGVSSTLL 190
>gnl|CDD|225807 COG3268, COG3268, Uncharacterized conserved protein [Function
unknown].
Length = 382
Score = 27.4 bits (61), Expect = 9.6
Identities = 23/95 (24%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 117 FVVTGCTDGIGRAYAHELARRGINIVLISRTLEKLKKTAKEIESLHGVQTKIIAVDLSGT 176
++ G T G A LAR G+ L R+ KL + G + + + G
Sbjct: 9 IIIYGATGYAGGLVAEYLAREGLTAALAGRSSAKLDALRASL----GPEAAVFPL---GV 61
Query: 177 KAAIEAVKNQLGDHPVHILVNNVGSLSSYPKSLTE 211
AA+EA+ ++ +++N VG + Y + L
Sbjct: 62 PAALEAMASR-----TQVVLNCVGPYTRYGEPLVA 91
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
0.320 0.134 0.389
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,650,662
Number of extensions: 1289590
Number of successful extensions: 2689
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2437
Number of HSP's successfully gapped: 415
Length of query: 273
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 178
Effective length of database: 6,723,972
Effective search space: 1196867016
Effective search space used: 1196867016
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: 58 (25.9 bits)