RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5437
(250 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 = 296 bits (760), Expect = e-102
Identities = 124/242 (51%), Positives = 160/242 (66%), Gaps = 23/242 (9%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGATDG+GKAYAE LAK G +V+LISRT+EKLD VA EI
Sbjct: 6 VTGATDGIGKAYAE--------------------ELAKRGFNVILISRTQEKLDAVAKEI 45
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+KY V+TK I ADF+ I+ +EKEL G++ GILVNNVG S+ PE FL PE E
Sbjct: 46 EEKYGVETKTIAADFSAGDDIYERIEKELEGLDIGILVNNVGISHSIPEYFLETPEDE-- 103
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+I++ NV+ L M ++++P MV+++KG +VNISS A LIP+P+L+ Y ASK F+ FS
Sbjct: 104 LQDIINVNVMATLKMTRLILPGMVKRKKGAIVNISSFAGLIPTPLLATYSASKAFLDFFS 163
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIGIQNQTTGYY 239
L EYK GI VQ ++P VAT MSKI+KSS VPSP FV SAL T+G+ +TTGY+
Sbjct: 164 RALYEEYKSQGIDVQSLLPYLVATKMSKIRKSSLFVPSPEQFVRSALNTLGLSKRTTGYW 223
Query: 240 PH 241
H
Sbjct: 224 SH 225
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 181 bits (461), Expect = 1e-56
Identities = 80/239 (33%), Positives = 121/239 (50%), Gaps = 33/239 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G A+ LA+ G +++L++R ++KL+ LAK E+
Sbjct: 11 ITGASSGIGAELAKQLARRGYNLILVARREDKLEALAK--------------------EL 50
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKEL--TGIEAGILVNNVGYSYPYPERFLAVPEKET 118
DK V+ +VI AD +DP+ +E EL G +LVNN G+ FL + E
Sbjct: 51 EDKTGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFGTF--GPFLELSLDEE 108
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
++ N++ L + + V+P MVE+ G ++NI S A LIP+P ++VY A+K FV F
Sbjct: 109 --EEMIQLNILALTRLTKAVLPGMVERGAGHIINIGSAAGLIPTPYMAVYSATKAFVLSF 166
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMSKIKKS-------SWMVPSPATFVDSALKTIG 230
S L+ E K G+ V V PG T K S +V SP ++ALK +
Sbjct: 167 SEALREELKGTGVKVTAVCPGPTRTEFFDAKGSDVYLLSPGELVLSPEDVAEAALKALE 225
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 176 bits (447), Expect = 6e-54
Identities = 93/250 (37%), Positives = 150/250 (60%), Gaps = 29/250 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG TDG+GK +A LA+ G+++VL++R +KL +V+ I
Sbjct: 58 VTGPTDGIGKGFAF--------------------QLARKGLNLVLVARNPDKLKDVSDSI 97
Query: 61 RDKY-KVDTKVIVADFT---DPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ KY K K +V DF+ D + +++ + G++ G+L+NNVG SYPY F V E+
Sbjct: 98 QSKYSKTQIKTVVVDFSGDIDEGV-KRIKETIEGLDVGVLINNVGVSYPYARFFHEVDEE 156
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAA-LIPS-PMLSVYGASKLF 174
+ N++ NV + Q V+P M++++KG ++NI S AA +IPS P+ +VY A+K +
Sbjct: 157 --LLKNLIKVNVEGTTKVTQAVLPGMLKRKKGAIINIGSGAAIVIPSDPLYAVYAATKAY 214
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIGIQNQ 234
+ +FS L EYKK GI VQC +P YVAT M+ I++SS++VPS + +AL+ +G + +
Sbjct: 215 IDQFSRCLYVEYKKSGIDVQCQVPLYVATKMASIRRSSFLVPSSDGYARAALRWVGYEPR 274
Query: 235 TTGYYPHCFL 244
T Y+PH +
Sbjct: 275 CTPYWPHSLI 284
>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 = 141 bits (358), Expect = 1e-41
Identities = 62/211 (29%), Positives = 95/211 (45%), Gaps = 32/211 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA+ G VVL R +E L LA + + N A
Sbjct: 3 VTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAI----------EALGGNAVA-- 50
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ AD +D + +E ++ ILVNN G + P P + ++
Sbjct: 51 ----------VQADVSDEEDVEALVEEALEEFGRLD--ILVNNAGIARPGP--LEELTDE 96
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + ++ N+ + + + +PHM +Q G +VNISS A L P P + Y ASK +
Sbjct: 97 D--WDRVLDVNLTGVFLLTRAALPHMKKQGGGRIVNISSVAGLRPLPGQAAYAASKAALE 154
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ L E +GI V V PG V T M
Sbjct: 155 GLTRSLALELAPYGIRVNAVAPGLVDTPMLA 185
>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 = 125 bits (315), Expect = 4e-35
Identities = 62/235 (26%), Positives = 101/235 (42%), Gaps = 31/235 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA+ G VV+ +R E+ E + +AA I
Sbjct: 10 VTGASSGIGRAIARALAREGARVVVAARRSEE------------------EAAEALAAAI 51
Query: 61 RDKYKVDTKVIVADFTDP-----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
++ + AD +D + A E+E I+ ILVNN G + E
Sbjct: 52 KEAGGGRAAAVAADVSDDEESVEALVAAAEEEFGRID--ILVNNAGI-AGPDAPLEELTE 108
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
++ + ++ N++ + + +P M +K +VNISS A L P + Y ASK +
Sbjct: 109 ED--WDRVIDVNLLGAFLLTRAALPLM---KKQRIVNISSVAGLGGPPGQAAYAASKAAL 163
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIG 230
+ L E GI V V PGY+ T M+ +S+ + L +G
Sbjct: 164 IGLTKALALELAPRGIRVNAVAPGYIDTPMTAALESAELEALKRLAARIPLGRLG 218
>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 = 122 bits (308), Expect = 6e-34
Identities = 59/212 (27%), Positives = 94/212 (44%), Gaps = 36/212 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL---GIDVVLISRTKEK-LDNV 56
ITG + G+G A A LA G V+ +R +KL++L +L ++V+ + T E+ +
Sbjct: 5 ITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEVLELDVTDEESIKAA 64
Query: 57 AAEIRDKY-KVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
E+ +++ ++D +LVNN GY P
Sbjct: 65 VKEVIERFGRID---------------------------VLVNNAGYGLFGP--LEETSI 95
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+E + NV L + + +P M +Q G +VN+SS A L+P+P L Y ASK +
Sbjct: 96 EE--VRELFEVNVFGPLRVTRAFLPLMRKQGSGRIVNVSSVAGLVPTPFLGPYCASKAAL 153
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
S L+ E GI V + PG V T +
Sbjct: 154 EALSESLRLELAPFGIKVTIIEPGPVRTGFAD 185
>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 = 118 bits (297), Expect = 3e-32
Identities = 61/217 (28%), Positives = 98/217 (45%), Gaps = 30/217 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+ LA LA+LG +VL +R +E+L+ V +E
Sbjct: 8 ITGASSGIGEE----LAYH----------------LARLGARLVLSARREERLEEVKSEC 47
Query: 61 RDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ V+ D +D ++ K G++ IL+NN G S R L
Sbjct: 48 LELGAPSPHVVPLDMSDLEDAEQVVEEALKLFGGLD--ILINNAGISM----RSLFHDTS 101
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
V IM N +++ + +PH++E+ +G +V +SS A I P + Y ASK +
Sbjct: 102 IDVDRKIMEVNYFGPVALTKAALPHLIERSQGSIVVVSSIAGKIGVPFRTAYAASKHALQ 161
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSW 213
F L++E + I V V PG + TN++ S
Sbjct: 162 GFFDSLRAELSEPNISVTVVCPGLIDTNIAMNALSGD 198
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 115 bits (290), Expect = 3e-31
Identities = 64/204 (31%), Positives = 99/204 (48%), Gaps = 27/204 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGIDVVLISRTKEKLDNVAAE 59
ITGA+ G+G+A A LA+ G VVL +R +E+L+ LA +G L +A +
Sbjct: 11 ITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIGAGAALA---------LALD 61
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+ D+ V+ + P+ F ++ ILVNN G + +
Sbjct: 62 VTDRAAVEAAIEAL----PEEFGRID---------ILVNNAG-LAL-GDPLDEADLDD-- 104
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ NV LL+ + V+P MVE++ G ++N+ S A P P +VYGA+K V FS
Sbjct: 105 WDRMIDTNVKGLLNGTRAVLPGMVERKSGHIINLGSIAGRYPYPGGAVYGATKAAVRAFS 164
Query: 180 TDLQSEYKKHGIIVQCVMPGYVAT 203
L+ E GI V + PG V T
Sbjct: 165 LGLRQELAGTGIRVTVISPGLVET 188
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 111 bits (280), Expect = 6e-30
Identities = 64/208 (30%), Positives = 104/208 (50%), Gaps = 25/208 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G+A A LAK G++V L++RT+E L +A+ + K+ A++
Sbjct: 12 ITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEE------VEAYGVKVVIATADV 65
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV- 119
D +V + ++ EL I+ IL+NN G S +F E +
Sbjct: 66 SDYEEVTAAI-----------EQLKNELGSID--ILINNAGIS-----KFGKFLELDPAE 107
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ I+ N++ + + V+P M+E++ G ++NISSTA + + S Y ASK V +
Sbjct: 108 WEKIIQVNLMGVYYATRAVLPSMIERQSGDIINISSTAGQKGAAVTSAYSASKFGVLGLT 167
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMSK 207
L E +KH I V + P VAT+M+
Sbjct: 168 ESLMQEVRKHNIRVTALTPSTVATDMAV 195
>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 = 110 bits (277), Expect = 2e-29
Identities = 60/211 (28%), Positives = 101/211 (47%), Gaps = 31/211 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G A GLA+ G ++V+ SR +EK + A ++
Sbjct: 10 VTGASRGIGFGIASGLAEAGANIVINSRNEEKAE---------------------EAQQL 48
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+K V+ D +D +E++ I+ ILVNN G +P PE
Sbjct: 49 IEKEGVEATAFTCDVSDEEAIKAAVEAIEEDFGKID--ILVNNAGIIRRHP--AEEFPEA 104
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + +++ N+ + + Q V HM++Q G ++NI S + + P + Y ASK V+
Sbjct: 105 E--WRDVIDVNLNGVFFVSQAVARHMIKQGHGKIINICSLLSELGGPPVPAYAASKGGVA 162
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ L +E+ +HGI V + PGY AT M++
Sbjct: 163 GLTKALATEWARHGIQVNAIAPGYFATEMTE 193
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 107 bits (270), Expect = 3e-28
Identities = 70/236 (29%), Positives = 95/236 (40%), Gaps = 41/236 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+ I+R A G VV+ R +E + VAAEI
Sbjct: 10 VTGASSGIGEG--------------IARR------FAAEGARVVVTDRNEEAAERVAAEI 49
Query: 61 RDKYKVDTKVI--VADFTDPKIFAHVEK--ELTGIEAG---ILVNNVGYSYPYPERFLAV 113
+ I AD +D A VE G ILVNN G ++ L V
Sbjct: 50 LA----GGRAIAVAADVSDE---ADVEAAVAAALERFGSVDILVNNAGTTHRN-GPLLDV 101
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
E E + I NV + Q +P M + G +VN++STA L P P L Y ASK
Sbjct: 102 DEAE--FDRIFAVNVKSPYLWTQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNASKG 159
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTI 229
V + L +E I V V P V T + ++ P+P L TI
Sbjct: 160 AVITLTKALAAELGPDKIRVNAVAPVVVETGLL---EAFMGEPTPENR-AKFLATI 211
>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 = 107 bits (268), Expect = 4e-28
Identities = 57/221 (25%), Positives = 99/221 (44%), Gaps = 32/221 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A AK G +V L +R ++LD L K +L N +
Sbjct: 3 ITGASSGIGRALAREFAKAGYNVALAARRTDRLDEL-------------KAELLNPNPSV 49
Query: 61 RDKYKVDTKVIVADFTDPKI----FAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
V + D TD + A +E EL G++ +++ N G + K
Sbjct: 50 E--------VEILDVTDEERNQLVIAELEAELGGLD--LVIINAGVGKG--TSLGDLSFK 97
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ N++ ++ + +P + +G +V ISS AAL P + Y ASK +S
Sbjct: 98 AF--RETIDTNLLGAAAILEAALPQFRAKGRGHLVLISSVAALRGLPGAAAYSASKAALS 155
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMS-KIKKSSWMVP 216
+ L+ + KK GI V + PG++ T ++ + +++
Sbjct: 156 SLAESLRYDVKKRGIRVTVINPGFIDTPLTANMFTMPFLMS 196
>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 = 106 bits (268), Expect = 5e-28
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+T A+ G+G A A LA+ G V + +R +E L+ AA
Sbjct: 6 VTAASSGIGLAIARALAREGARVAICARNRENLER---------------------AASE 44
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKE----LTGIEAGILVNNVGYSYPYPERFLAV-PE 115
+VAD TDP+ + ++ ++ ILVNN G P P F + E
Sbjct: 45 LRAGGAGVLAVVADLTDPEDIDRLVEKAGDAFGRVD--ILVNNAGG--PPPGPFAELTDE 100
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+ +++++ + + V+P M E+ G +VNISS P P L + ++ +
Sbjct: 101 D---WLEAFDLKLLSVIRIVRAVLPGMKERGWGRIVNISSLTVKEPEPNLVLSNVARAGL 157
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
L E G+ V V+PGY+ T
Sbjct: 158 IGLVKTLSRELAPDGVTVNSVLPGYIDT 185
>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 = 104 bits (261), Expect = 3e-27
Identities = 62/217 (28%), Positives = 97/217 (44%), Gaps = 33/217 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G+GKA A+ L K G +V++++R++ KL+ E++ A
Sbjct: 6 ITGGSSGIGKALAKELVKEGANVIIVARSESKLEE-------------AVEEI--EAEAN 50
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
KV I AD +D + FA ++ + ++VN G S P F + +
Sbjct: 51 ASGQKVSY--ISADLSDYEEVEQAFAQAVEKGGPPD--LVVNCAGISIPGL--FEDLTAE 104
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + M N L++ V+P M EQR G +V +SS AAL+ S Y SK +
Sbjct: 105 E--FERGMDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAYCPSKFALR 162
Query: 177 KFSTDLQSEYKKHGIIVQCVMP------GYVATNMSK 207
+ L+ E K + I V V P G+ N +K
Sbjct: 163 GLAESLRQELKPYNIRVSVVYPPDTDTPGFEEENKTK 199
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 102 bits (257), Expect = 3e-26
Identities = 66/216 (30%), Positives = 93/216 (43%), Gaps = 47/216 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLG-IDVVLISRTKEKLDNVAAE 59
ITG G+G A A LA LG V + G +D L T +L V
Sbjct: 10 ITGGARGIGLATARALAALGARVAI--------------GDLDEALAKETAAELGLVVG- 54
Query: 60 IRDKYKVDTKVIVADFTDPKIFA----HVEKELTGIEAGILVNN-----VGYSYPYPERF 110
+D TDP FA VE +L I+ +LVNN VG F
Sbjct: 55 ----GPLDV-------TDPASFAAFLDAVEADLGPID--VLVNNAGVMPVG-------PF 94
Query: 111 LAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGA 170
L E + V I+ NV ++ ++ P MV + +G VVN++S A IP P ++ Y A
Sbjct: 95 LD--EPDAVTRRILDVNVYGVILGSKLAAPRMVPRGRGHVVNVASLAGKIPVPGMATYCA 152
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
SK V F+ + E + G+ V V+P +V T +
Sbjct: 153 SKHAVVGFTDAARLELRGTGVHVSVVLPSFVNTELI 188
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 101 bits (253), Expect = 5e-26
Identities = 60/207 (28%), Positives = 97/207 (46%), Gaps = 31/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+GKA A AK G D+ L++R+++ L+ +AAE+
Sbjct: 11 ITGASSGIGKATALAFAKAGWDLALVARSQDALEA--------------------LAAEL 50
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG----ILVNNVGYSYPYPERFLAVPEK 116
R V D ++P+ A EL +E +L+NN G +Y P L +P
Sbjct: 51 RST-GVKAAAYSIDLSNPEAIAPGIAEL--LEQFGCPDVLINNAGMAYTGP--LLEMPLS 105
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + ++ N+ ++ C V+P M + G+++N+SS AA P Y SK ++
Sbjct: 106 D--WQWVIQLNLTSVFQCCSAVLPGMRARGGGLIINVSSIAARNAFPQWGAYCVSKAALA 163
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVAT 203
F+ L E + HGI V + G V T
Sbjct: 164 AFTKCLAEEERSHGIRVCTITLGAVNT 190
>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 = 100 bits (251), Expect = 1e-25
Identities = 61/211 (28%), Positives = 99/211 (46%), Gaps = 30/211 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LAK G V++ R+ E E + V E+
Sbjct: 3 VTGASRGIGRAIALKLAKEGAKVIITYRSSE-------------------EGAEEVVEEL 43
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ V +V D +D + +E+EL I+ ILVNN G + L + K
Sbjct: 44 KAYG-VKALGVVCDVSDREDVKAVVEEIEEELGPID--ILVNNAGIT----RDNLLMRMK 96
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + ++ N+ + ++ Q V+ M++QR G ++NISS L+ + + Y ASK V
Sbjct: 97 EEDWDAVIDTNLTGVFNLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQANYAASKAGVI 156
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
F+ L E I V V PG++ T+M+
Sbjct: 157 GFTKSLAKELASRNITVNAVAPGFIDTDMTD 187
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 100 bits (251), Expect = 1e-25
Identities = 57/213 (26%), Positives = 92/213 (43%), Gaps = 35/213 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA G VV+ +E + +L E
Sbjct: 10 VTGASRGIGRAIALRLAADGAKVVIYDSNEEAAE-------------ALAAELRAAGGEA 56
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG-----ILVNNVGYSYPYPERFLAVPE 115
R V+V D +D A V + ILVNN G + R +P
Sbjct: 57 R--------VLVFDVSDE---AAVRALIEAAVEAFGALDILVNNAGIT-----RDALLPR 100
Query: 116 -KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
E + ++ N+ ++ + +P M++ R G +VNISS + + +P + Y A+K
Sbjct: 101 MSEEDWDRVIDVNLTGTFNVVRAALPPMIKARYGRIVNISSVSGVTGNPGQTNYSAAKAG 160
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
V F+ L E GI V V PG++ T+M++
Sbjct: 161 VIGFTKALALELASRGITVNAVAPGFIDTDMTE 193
>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 = 94.9 bits (237), Expect = 1e-23
Identities = 57/212 (26%), Positives = 95/212 (44%), Gaps = 37/212 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA G V + R++E E
Sbjct: 5 VTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAE---------------------TVEE 43
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPER---FLAV 113
+ + AD +D + VE E ++ ILVNN G + R + +
Sbjct: 44 IKALGGNAAALEADVSDREAVEALVEKVEAEFGPVD--ILVNNAGIT-----RDNLLMRM 96
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
E++ + +++ N+ + ++ Q V+ M+++R G ++NISS LI +P + Y ASK
Sbjct: 97 SEED--WDAVINVNLTGVFNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQANYAASKA 154
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V F+ L E GI V V PG++ T+M
Sbjct: 155 GVIGFTKSLAKELASRGITVNAVAPGFIDTDM 186
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 94.9 bits (237), Expect = 2e-23
Identities = 57/212 (26%), Positives = 96/212 (45%), Gaps = 36/212 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE LA G +VV+ + E + + AEI
Sbjct: 10 VTGASRGIGRAIAERLAAQGANVVINYASSEA-------------------GAEALVAEI 50
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPER---FLAV 113
+ D +D + + E G++ ILVNN G + R + +
Sbjct: 51 GA-LGGKALAVQGDVSDAESVERAVDEAKAEFGGVD--ILVNNAGIT-----RDNLLMRM 102
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
E++ + ++ N+ + ++ + V M++QR G ++NISS L+ +P + Y ASK
Sbjct: 103 KEED--WDRVIDTNLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYAASKA 160
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V F+ L E GI V V PG++ T+M
Sbjct: 161 GVIGFTKSLARELASRGITVNAVAPGFIETDM 192
>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 = 92.7 bits (231), Expect = 1e-22
Identities = 61/214 (28%), Positives = 96/214 (44%), Gaps = 37/214 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A AK G ++L R E+L LA E+
Sbjct: 5 ITGASSGIGEATARRFAKAGAKLILTGRRAERLQELAD--------------------EL 44
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG-----ILVNNVGYSY---PYPERFLA 112
K+ V + D +D +E L + ILVNN G + P E
Sbjct: 45 GAKFPVKVLPLQLDVSD---RESIEAALENLPEEFRDIDILVNNAGLALGLDPAQE--AD 99
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
+ + ET+ NV LL++ ++++P M+ + +G ++N+ S A P +VY A+K
Sbjct: 100 LEDWETMIDT----NVKGLLNVTRLILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATK 155
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
V +FS +L+ + GI V + PG V T S
Sbjct: 156 AAVRQFSLNLRKDLIGTGIRVTNIEPGLVETEFS 189
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 91.9 bits (229), Expect = 2e-22
Identities = 51/210 (24%), Positives = 77/210 (36%), Gaps = 32/210 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A A LA G +V+++ + A+L V A
Sbjct: 11 VTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAEL----------------VEAAG 54
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ D D A ++ ++ ILV N G P + +
Sbjct: 55 GK-----ARARQVDVRDRAALKAAVAAGVEDFGRLD--ILVANAGIFPLTPFAEMDDEQW 107
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALI-PSPMLSVYGASKLFV 175
E V + N+ + Q +P ++ G +V SS A P L+ Y ASK +
Sbjct: 108 ERV----IDVNLTGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPGLAHYAASKAGL 163
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
F+ L E I V V PG V T M
Sbjct: 164 VGFTRALALELAARNITVNSVHPGGVDTPM 193
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 91.2 bits (227), Expect = 5e-22
Identities = 62/222 (27%), Positives = 96/222 (43%), Gaps = 48/222 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD----NLAKLGIDVVLISRTKEKLDNV 56
+TG + GLG AE L + G VVL +R E+L+ +L LGID +
Sbjct: 17 VTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGIDAL------------ 64
Query: 57 AAEIRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLA 112
I AD D ++ + ++ ILVNN G ++ P
Sbjct: 65 -------------WIAADVADEADIERLAEETLERFGHVD--ILVNNAGATWGAP----- 104
Query: 113 VPEKETV--YHNIMHCNVITLLSMCQIVMPH-MVEQRKGVVVNISSTAALI---PSPMLS 166
E V + +M+ NV L + Q V M+ + G ++N++S A L P M +
Sbjct: 105 -AEDHPVEAWDKVMNLNVRGLFLLSQAVAKRSMIPRGYGRIINVASVAGLGGNPPEVMDT 163
Query: 167 V-YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ Y SK V F+ L +E+ HGI V + PG+ T M++
Sbjct: 164 IAYNTSKGAVINFTRALAAEWGPHGIRVNAIAPGFFPTKMTR 205
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 90.4 bits (225), Expect = 9e-22
Identities = 62/211 (29%), Positives = 99/211 (46%), Gaps = 31/211 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA++G+G+A A LA+ G A+L VL +R + +L ++A E+
Sbjct: 6 ITGASEGIGRALAVRLARAG----------------AQL----VLAARNETRLASLAQEL 45
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
D + + V+ D +D ++ GI+ ILVNN G + RF + +
Sbjct: 46 AD-HGGEALVVPTDVSDAEACERLIEAAVARFGGID--ILVNNAGITMW--SRFDELTDL 100
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
V+ +M N + + +PH+ +G +V +SS A L P S Y ASK +
Sbjct: 101 S-VFERVMRVNYLGAVYCTHAALPHLK-ASRGQIVVVSSLAGLTGVPTRSGYAASKHALH 158
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
F L+ E G+ V V PG+VAT++ K
Sbjct: 159 GFFDSLRIELADDGVAVTVVCPGFVATDIRK 189
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 89.5 bits (223), Expect = 1e-21
Identities = 58/209 (27%), Positives = 96/209 (45%), Gaps = 30/209 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE LAK G VV+ E E + EI
Sbjct: 10 VTGASGGIGRAIAELLAKEGAKVVIAYDINE-------------------EAAQELLEEI 50
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + D + AD + + + ++ I+ ILVNN G S + ++
Sbjct: 51 K-EEGGDAIAVKADVSSEEDVENLVEQIVEKFGKID--ILVNNAGISNFGL--VTDMTDE 105
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + ++ N+ ++ + + +P+M++++ GV+VNISS LI + +Y ASK V+
Sbjct: 106 E--WDRVIDVNLTGVMLLTRYALPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKGAVN 163
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
F+ L E GI V V PG + T M
Sbjct: 164 AFTKALAKELAPSGIRVNAVAPGAIDTEM 192
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 89.2 bits (222), Expect = 3e-21
Identities = 62/221 (28%), Positives = 93/221 (42%), Gaps = 28/221 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGIDVVLISRTKEKLDNVAAE 59
ITGA G+G+A A A G V + L LA LG LD
Sbjct: 6 ITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAELGAGNAWTGA----LD----- 56
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+ D+ D +ADF TG +L NN G F +P +
Sbjct: 57 VTDRAAWDA--ALADFA----------AATGGRLDVLFNNAGI--LRGGPFEDIPLEA-- 100
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ NV +L+ +P++ V+N SS +A+ P L+VY A+K V +
Sbjct: 101 HDRVIDINVKGVLNGAHAALPYLKATPGARVINTSSASAIYGQPGLAVYSATKFAVRGLT 160
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPAT 220
L E+++HGI V VMP +V T M + +S V + +T
Sbjct: 161 EALDLEWRRHGIRVADVMPLFVDTAM--LDGTSNEVDAGST 199
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 89.2 bits (222), Expect = 3e-21
Identities = 68/205 (33%), Positives = 95/205 (46%), Gaps = 31/205 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+GKA A LA G V +R +K+++LA LG+ + LD V E
Sbjct: 8 VTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDLASLGVHPL-------SLD-VTDEA 59
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGY-SYPYPERFLAVPEKETV 119
K VDT + E I+ +LVNN GY SY E VP E
Sbjct: 60 SIKAAVDT---------------IIAEEGRID--VLVNNAGYGSYGAIED---VPIDEAR 99
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
N+ + Q+V+PHM QR G ++NISS I +P+ + Y A+K + FS
Sbjct: 100 RQ--FEVNLFGAARLTQLVLPHMRAQRSGRIINISSMGGKIYTPLGAWYHATKFALEGFS 157
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATN 204
L+ E GI V + PG + T
Sbjct: 158 DALRLEVAPFGIDVVVIEPGGIKTE 182
>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 = 87.7 bits (218), Expect = 4e-21
Identities = 50/211 (23%), Positives = 85/211 (40%), Gaps = 37/211 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG T G+G A A + G V++ R +E+L K ++
Sbjct: 10 ITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKELPNI----------------- 52
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELT--GIEAGILVNNVGYSYPY----PERFLAVP 114
IV D D + + + L IL+NN G P P L
Sbjct: 53 --------HTIVLDVGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKA 104
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ E + N+I + + + +PH+ +Q + +VN+SS A +P VY A+K
Sbjct: 105 DTE------IDTNLIGPIRLIKAFLPHLKKQPEATIVNVSSGLAFVPMAANPVYCATKAA 158
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ ++ L+ + K G+ V ++P V T +
Sbjct: 159 LHSYTLALRHQLKDTGVEVVEIVPPAVDTEL 189
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 88.6 bits (220), Expect = 6e-21
Identities = 63/212 (29%), Positives = 91/212 (42%), Gaps = 38/212 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G G+A+ E + G VV +R L +LA+ D +L
Sbjct: 8 ITGASRGFGRAWTEAALERGDRVVATARDTATLADLAEKYGDRLL--------------- 52
Query: 61 RDKYKVDTKVIVADFTDPK-IFAHVEKELTGIEA----GILVNNVGYSYPYPERFLAVPE 115
+ D TD +FA VE T +E I+VNN GY F + E
Sbjct: 53 ---------PLALDVTDRAAVFAAVE---TAVEHFGRLDIVVNNAGYG-----LFGMIEE 95
Query: 116 -KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
E+ + N L + Q V+P++ EQR G ++ ISS + PM +Y ASK
Sbjct: 96 VTESEARAQIDTNFFGALWVTQAVLPYLREQRSGHIIQISSIGGISAFPMSGIYHASKWA 155
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
+ S L E + GI V V PG +T+ +
Sbjct: 156 LEGMSEALAQEVAEFGIKVTLVEPGGYSTDWA 187
>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 = 87.3 bits (217), Expect = 8e-21
Identities = 52/211 (24%), Positives = 84/211 (39%), Gaps = 33/211 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G LAK G V+L +R E+ ++
Sbjct: 5 VTGANRGIGFEIVRQLAKSG-------------------PGTVILTARDVERGQAAVEKL 45
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R + + + D TD VE++ G++ ILVNN G ++ + F
Sbjct: 46 RAE-GLSVRFHQLDVTDDASIEAAADFVEEKYGGLD--ILVNNAGIAF---KGFDDSTPT 99
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
M N + + Q ++P + + G +VN+SS + S YG SK ++
Sbjct: 100 REQARETMKTNFFGTVDVTQALLPLLKKSPAGRIVNVSSGLGSLTSA----YGVSKAALN 155
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ L E K+ GI V PG+V T+M
Sbjct: 156 ALTRILAKELKETGIKVNACCPGWVKTDMGG 186
>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 = 87.0 bits (216), Expect = 1e-20
Identities = 52/212 (24%), Positives = 92/212 (43%), Gaps = 32/212 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG + G+G A A LA+ G DV +I + + + A+ E+
Sbjct: 13 VTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAE--------------------EL 52
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
KY V TK D + K F ++K+ I+ IL+ N G + P L +
Sbjct: 53 AKKYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKID--ILIANAGITVHKP--ALDYTYE 108
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPS-PMLSV-YGASKLF 174
+ ++ ++ N+ + + Q +Q KG ++ +S + I + P Y ASK
Sbjct: 109 Q--WNKVIDVNLNGVFNCAQAAAKIFKKQGKGSLIITASMSGTIVNRPQPQAAYNASKAA 166
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
V + L E+ K+ I V + PGY+ T+++
Sbjct: 167 VIHLAKSLAVEWAKYFIRVNSISPGYIDTDLT 198
>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 = 86.5 bits (215), Expect = 2e-20
Identities = 56/209 (26%), Positives = 84/209 (40%), Gaps = 28/209 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G+ A AK G VV+ L I+ T + ++
Sbjct: 4 ITGGGSGIGRLLALEFAKRGAKVVI-------------LDINEKGAEETANNVRKAGGKV 50
Query: 61 RDKYKVDTKVIVADFTDPKIFAH-VEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
YK D V+ + A ++KE+ + IL+NN G L +P++E
Sbjct: 51 HY-YKCD----VSKREEVYEAAKKIKKEVGDV--TILINNAGVVSGKK--LLELPDEEI- 100
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
N + + +P M+E+ G +V I+S A LI L+ Y ASK F
Sbjct: 101 -EKTFEVNTLAHFWTTKAFLPDMLERNHGHIVTIASVAGLISPAGLADYCASKAAAVGFH 159
Query: 180 TDLQSE---YKKHGIIVQCVMPGYVATNM 205
L+ E Y K GI V P ++ T M
Sbjct: 160 ESLRLELKAYGKPGIKTTLVCPYFINTGM 188
>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 = 86.0 bits (213), Expect = 3e-20
Identities = 67/252 (26%), Positives = 107/252 (42%), Gaps = 59/252 (23%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRT--KEKLDNLAKLGIDVVLISRTKEKLDNVAA 58
+TGA GLG+ A GLA+ G D+V R+ E + LG + ++ A
Sbjct: 10 VTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQQVEALG----------RRFLSLTA 59
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
++ D K +V + F H++ ILVNN G R A E
Sbjct: 60 DLSDI--EAIKALVDSAVE--EFGHID---------ILVNNAGII----RRADAEEFSEK 102
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAA-----LIPSPMLSVYGASK 172
+ ++M+ N+ ++ + Q H ++Q R G ++NI+S + +PS Y ASK
Sbjct: 103 DWDDVMNVNLKSVFFLTQAAAKHFLKQGRGGKIINIASMLSFQGGIRVPS-----YTASK 157
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN---------------MSKIKKSSWMVPS 217
V+ + L +E+ GI V + PGY+ATN + +I W P
Sbjct: 158 HAVAGLTKLLANEWAAKGINVNAIAPGYMATNNTQALRADEDRNAAILERIPAGRWGTPD 217
Query: 218 ----PATFVDSA 225
PA F+ S+
Sbjct: 218 DIGGPAVFLASS 229
>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 = 86.1 bits (213), Expect = 3e-20
Identities = 61/207 (29%), Positives = 95/207 (45%), Gaps = 31/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA G V + +R ++L+ LA D + AE
Sbjct: 8 VTGASSGIGEATARALAAEGAAVAIAARRVDRLEALA----------------DELEAE- 50
Query: 61 RDKYKVDTKVIVADFTDPK-IFAHVEK---ELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
V+ D TD + + A VE+ L ++ ILVNN G P
Sbjct: 51 ----GGKALVLELDVTDEQQVDAAVERTVEALGRLD--ILVNNAGIMLLGP----VEDAD 100
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
T + ++ N++ L+ +PH + + KG +VNISS A + +VY A+K V+
Sbjct: 101 TTDWTRMIDTNLLGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVYNATKFGVN 160
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVAT 203
FS L+ E + G+ V + PG V T
Sbjct: 161 AFSEGLRQEVTERGVRVVVIEPGTVDT 187
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 85.3 bits (212), Expect = 7e-20
Identities = 58/209 (27%), Positives = 89/209 (42%), Gaps = 30/209 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA GLG+A A LA+ G DVV+ R+ +E + + +
Sbjct: 11 VTGAARGLGRAIALRLARAGADVVVHYRS-------------------DEEAAEELVEAV 51
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + AD TD A + I+ ILVNN G E
Sbjct: 52 EA-LGRRAQAVQADVTDKAALEAAVAAAVERFGRID--ILVNNAGIF----EDKPLADMS 104
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + ++ N+ + + + V+P M +QR G +VNISS A L P S Y A+K +
Sbjct: 105 DDEWDEVIDVNLSGVFHLLRAVVPPMRKQRGGRIVNISSVAGLPGWPGRSNYAAAKAGLV 164
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L E ++GI V V PG + T+M
Sbjct: 165 GLTKALARELAEYGITVNMVAPGDIDTDM 193
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 84.8 bits (210), Expect = 9e-20
Identities = 56/207 (27%), Positives = 93/207 (44%), Gaps = 26/207 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A L G V+ + G D
Sbjct: 7 VTGAKRGIGSAIARELLNDGYRVIATYFS----------GNDCAK------DWFEEYGFT 50
Query: 61 RDKYKVDTKVI-VADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
D+ V K + V D + + A +E+E ++ ILVNN G + F + +E
Sbjct: 51 EDQ--VRLKELDVTDTEECAEALAEIEEEEGPVD--ILVNNAGITRD--SVFKRMSHQE- 103
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
++++++ N+ ++ ++ Q + M EQ G ++NISS L + Y A+K + F
Sbjct: 104 -WNDVINTNLNSVFNVTQPLFAAMCEQGYGRIINISSVNGLKGQFGQTNYSAAKAGMIGF 162
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L SE ++GI V C+ PGY+AT M
Sbjct: 163 TKALASEGARYGITVNCIAPGYIATPM 189
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 83.8 bits (208), Expect = 2e-19
Identities = 71/240 (29%), Positives = 110/240 (45%), Gaps = 42/240 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ GLG G+A+ A G D+ L +R ++L+ + AE+
Sbjct: 7 ITGASSGLG----AGMAR----------------EFAAKGRDLALCARRTDRLEELKAEL 46
Query: 61 RDKYKVDTKVIVA--DFTD----PKIFAHVEKELTGIEAGILVN-NVGYSYPYPE-RFLA 112
+Y KV VA D D ++FA EL G++ ++VN +G +F A
Sbjct: 47 LARYP-GIKVAVAALDVNDHDQVFEVFAEFRDELGGLDR-VIVNAGIGKGARLGTGKFWA 104
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAAL--IPSPMLSVYGA 170
K T N + L+ C+ M EQ G +V ISS +A+ +P + Y A
Sbjct: 105 --NKATA-----ETNFVAALAQCEAAMEIFREQGSGHLVLISSVSAVRGLPGVK-AAYAA 156
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS-KIKKSSWMVPSPATFVDSALKTI 229
SK V+ L++E K I V + PGY+ + M+ K K + +MV + T V + +K I
Sbjct: 157 SKAGVASLGEGLRAELAKTPIKVSTIEPGYIRSEMNAKAKSTPFMVDT-ETGVKALVKAI 215
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 83.9 bits (208), Expect = 3e-19
Identities = 67/208 (32%), Positives = 97/208 (46%), Gaps = 30/208 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G G LAK G V+ R EK +E L + A ++
Sbjct: 8 VTGASSGFGLLTTLELAKKGYLVIATMRNPEK-----------------QENLLSQATQL 50
Query: 61 RDKYKVDTKVIVADFTDP---KIFAHVEKELTGIEAGILVNNVGYSYP-YPERFLAVPEK 116
+ + KV D TD F V KE+ I+ +LVNN GY+ + E +P +
Sbjct: 51 NLQQNI--KVQQLDVTDQNSIHNFQLVLKEIGRID--LLVNNAGYANGGFVEE---IPVE 103
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E Y NV +S+ Q V+P+M +Q+ G ++NISS + + P LS Y +SK +
Sbjct: 104 E--YRKQFETNVFGAISVTQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSKYALE 161
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATN 204
FS L+ E K GI V + PG TN
Sbjct: 162 GFSESLRLELKPFGIDVALIEPGSYNTN 189
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 83.7 bits (207), Expect = 3e-19
Identities = 63/217 (29%), Positives = 94/217 (43%), Gaps = 39/217 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ GLG +A+ LA+ G VVL SR E+L L AEI
Sbjct: 14 VTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELR--------------------AEI 53
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ V+ D TD + AH E E I+ ILVNN G S ++ + V
Sbjct: 54 EAEGG-AAHVVSLDVTDYQSIKAAVAHAETEAGTID--ILVNNSGVSTT--QKLVDVTPA 108
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGV--------VVNISSTAALIPSPMLSVY 168
+ + + N + Q V M+ + KG ++NI+S A L P + +Y
Sbjct: 109 D--FDFVFDTNTRGAFFVAQEVAKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLY 166
Query: 169 GASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
SK V + + E+ +HGI V + PGY+ T +
Sbjct: 167 CMSKAAVVHMTRAMALEWGRHGINVNAICPGYIDTEI 203
>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 = 82.8 bits (205), Expect = 3e-19
Identities = 52/208 (25%), Positives = 77/208 (37%), Gaps = 31/208 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G A LA+ G V L R E L A
Sbjct: 5 VTGASRGIGIEIARALARDGYRVSLGLRNPEDLA-----------------------ALS 41
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGI--LVNNVGYSYPYPERFLAVPEKET 118
V+ + D DP+ + L I LV+N G P R + E
Sbjct: 42 ASGGDVE--AVPYDARDPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAE--- 96
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
NVI + + ++P + E G VV ++S + + Y ASK +
Sbjct: 97 -LEAHFSINVIAPAELTRALLPALREAGSGRVVFLNSLSGKRVLAGNAGYSASKFALRAL 155
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMS 206
+ L+ E HG+ V V PG+V T M+
Sbjct: 156 AHALRQEGWDHGVRVSAVCPGFVDTPMA 183
>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 = 82.8 bits (205), Expect = 5e-19
Identities = 49/207 (23%), Positives = 93/207 (44%), Gaps = 21/207 (10%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG++ G+G A A+LG + L R E+L+ + + +++K+ V A++
Sbjct: 8 ITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQ---SCLQAGVSEKKILLVVADL 64
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
++ D +I + + ++ ILVNN G +E Y
Sbjct: 65 TEEEGQD-----------RIISTTLAKFGRLD--ILVNNAGI--LAKGGGEDQDIEE--Y 107
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
+M+ N+ ++ + ++ +PH+++ KG +VN+SS A P + Y SK + +F+
Sbjct: 108 DKVMNLNLRAVIYLTKLAVPHLIKT-KGEIVNVSSVAGGRSFPGVLYYCISKAALDQFTR 166
Query: 181 DLQSEYKKHGIIVQCVMPGYVATNMSK 207
E G+ V V PG + T +
Sbjct: 167 CTALELAPKGVRVNSVSPGVIVTGFHR 193
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 82.7 bits (205), Expect = 6e-19
Identities = 57/210 (27%), Positives = 85/210 (40%), Gaps = 33/210 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA GLG A+AE LA+ G V + +AA +
Sbjct: 12 VTGAARGLGAAFAEALAEAGATVAFND------------------GLA--AEARELAAAL 51
Query: 61 RDK-YKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
+ I AD DP + F L G++ LVNN G + + +
Sbjct: 52 EAAGGRAHA--IAADLADPASVQRFFDAAAAALGGLD--GLVNNAGIT---NSKSATELD 104
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+T + +M+ NV M + +PH+ + +G +VN++S AL +P L Y ASK V
Sbjct: 105 IDT-WDAVMNVNVRGTFLMLRAALPHLRDSGRGRIVNLASDTALWGAPKLGAYVASKGAV 163
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L E GI V + PG AT
Sbjct: 164 IGMTRSLARELGGRGITVNAIAPGLTATEA 193
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 82.9 bits (205), Expect = 9e-19
Identities = 60/213 (28%), Positives = 98/213 (46%), Gaps = 36/213 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE A+ G VV ++R ++ LD VA I
Sbjct: 45 LTGASSGIGEAAAE--------------------QFARRGATVVAVARREDLLDAVADRI 84
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
D + D +D + A VEK + G++ IL+NN G S P + E
Sbjct: 85 TRA-GGDAMAVPCDLSDLDAVDALVADVEKRIGGVD--ILINNAGRSIRRP-----LAES 136
Query: 117 ETVYHNI---MHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALI-PSPMLSVYGASK 172
+H++ M N L + + + P M+E+ G ++N+++ L SP+ SVY ASK
Sbjct: 137 LDRWHDVERTMVLNYYAPLRLIRGLAPGMLERGDGHIINVATWGVLSEASPLFSVYNASK 196
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+S S +++E+ G+ + VAT M
Sbjct: 197 AALSAVSRVIETEWGDRGVHSTTLYYPLVATPM 229
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 82.1 bits (203), Expect = 1e-18
Identities = 53/211 (25%), Positives = 89/211 (42%), Gaps = 29/211 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G A A LG DV++++R + L + + AE
Sbjct: 14 ITGASKGIGLAIAREFLGLGADVLIVARDADAL-----------------AQARDELAEE 56
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ +V + AD +D I VE G+ ILVNN G + R A+
Sbjct: 57 FPEREVHG--LAADVSDDEDRRAILDWVEDHWDGLH--ILVNNAGGNI----RKAAIDYT 108
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + I N+ + + + P + + +VNI S + L + YG +K +
Sbjct: 109 EDEWRGIFETNLFSAFELSRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYGMTKAALL 168
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ + +L E+ + GI V V P Y+ T ++
Sbjct: 169 QMTRNLAVEWAEDGIRVNAVAPWYIRTPLTS 199
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 81.7 bits (202), Expect = 1e-18
Identities = 55/209 (26%), Positives = 93/209 (44%), Gaps = 35/209 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG++ G+G A AEGLA+ G +V+L N R KL A +
Sbjct: 15 VTGSSQGIGYALAEGLAQAGAEVIL---------N-----------GRDPAKLAAAAESL 54
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEA-----GILVNNVGYSYPYP-ERFLAVP 114
+ + + + D TD V + EA ILVNN G + P E F A
Sbjct: 55 KGQ-GLSAHALAFDVTDH---DAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDFPA-- 108
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ ++ N+ ++ + Q V HM+ + G ++NI+S + + P ++ Y A+K
Sbjct: 109 ---DAFERLLRTNISSVFYVGQAVARHMIARGAGKIINIASVQSALARPGIAPYTATKGA 165
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
V + + +++ KHG+ + PGY T
Sbjct: 166 VGNLTKGMATDWAKHGLQCNAIAPGYFDT 194
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 81.7 bits (202), Expect = 1e-18
Identities = 54/212 (25%), Positives = 97/212 (45%), Gaps = 33/212 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG+ G+G A GLA+ G +++ I+ T E+ + A++
Sbjct: 14 ITGSAQGIGFLLATGLAEYGAEII-INDI-------------------TAERAELAVAKL 53
Query: 61 RDK-YKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
R + K + T H+EK++ I+ +L+NN G +P F PE
Sbjct: 54 RQEGIKAHAAPF--NVTHKQEVEAAIEHIEKDIGPID--VLINNAGIQRRHP--FTEFPE 107
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+E +++++ N + + Q V +MV+++ G ++NI S + + ++ Y ASK V
Sbjct: 108 QE--WNDVIAVNQTAVFLVSQAVARYMVKRQAGKIINICSMQSELGRDTITPYAASKGAV 165
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ + E +H I V + PGY T M+K
Sbjct: 166 KMLTRGMCVELARHNIQVNGIAPGYFKTEMTK 197
>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 = 81.3 bits (201), Expect = 2e-18
Identities = 56/207 (27%), Positives = 83/207 (40%), Gaps = 30/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG T G+G A E LA LG +V +R +++LD E
Sbjct: 11 VTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLT--------------------EW 50
Query: 61 RDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R+K V D + ++ V G + ILVNN G + A
Sbjct: 51 REKGFKVEGS-VCDVSSRSERQELMDTVASHFGG-KLNILVNNAGTNIRKE----AKDYT 104
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E Y IM N + ++ P + G +V ISS A +I P + YGA+K ++
Sbjct: 105 EEDYSLIMSTNFEAAYHLSRLAHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALN 164
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ + L E+ K I V V P +AT
Sbjct: 165 QLTRSLACEWAKDNIRVNAVAPWVIAT 191
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 81.1 bits (201), Expect = 3e-18
Identities = 62/209 (29%), Positives = 96/209 (45%), Gaps = 39/209 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE LA+ G V SR + + G++++ + T + +V A +
Sbjct: 9 VTGASSGIGRATAEKLARAGYRVFGTSRNPARAAPIP--GVELLELDVTDD--ASVQAAV 64
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTG-IEAGILVNNVGYSYPYPERFLAVPEKETV 119
+ VI G I+ +LVNN G LA +E+
Sbjct: 65 DE-------VI---------------ARAGRID--VLVNNAGVG-------LAGAAEESS 93
Query: 120 Y---HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ NV +L M + V+PHM Q G ++NISS +P+P +++Y ASK V
Sbjct: 94 IAQAQALFDTNVFGILRMTRAVLPHMRAQGSGRIINISSVLGFLPAPYMALYAASKHAVE 153
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+S L E ++ GI V V P Y TN
Sbjct: 154 GYSESLDHEVRQFGIRVSLVEPAYTKTNF 182
>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 = 80.4 bits (199), Expect = 4e-18
Identities = 60/209 (28%), Positives = 87/209 (41%), Gaps = 32/209 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A+ LA+ G VV+ N A +K + V AEI
Sbjct: 8 VTGASRGIGRAIAKRLARDGASVVV---------NYA----------SSKAAAEEVVAEI 48
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ AD +DP ++F EK G++ ILVNN G P E+
Sbjct: 49 EAA-GGKAIAVQADVSDPSQVARLFDAAEKAFGGVD--ILVNNAGVMLKKP--IAETSEE 103
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + + N + Q + + G ++NISS+ +P Y SK V
Sbjct: 104 E--FDRMFTVNTKGAFFVLQEAAKRLRD--GGRIINISSSLTAAYTPNYGAYAGSKAAVE 159
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
F+ L E GI V V PG V T+M
Sbjct: 160 AFTRVLAKELGGRGITVNAVAPGPVDTDM 188
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 83.1 bits (206), Expect = 4e-18
Identities = 68/216 (31%), Positives = 88/216 (40%), Gaps = 43/216 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A +A+ G A V L++R E LD + AEI
Sbjct: 376 ITGASSGIGRATAIKVAEAG----------------AT----VFLVARNGEALDELVAEI 415
Query: 61 RDKYKVDTKVIV--ADFTDPKIFAHVEKELTGIEAG---ILVNNVGYS-----YPYPERF 110
R K D TD H K++ E G LVNN G S +RF
Sbjct: 416 RAK---GGTAHAYTCDLTDSAAVDHTVKDILA-EHGHVDYLVNNAGRSIRRSVENSTDRF 471
Query: 111 LAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGA 170
Y M N + + ++PHM E+R G VVN+SS +P S Y A
Sbjct: 472 HD-------YERTMAVNYFGAVRLILGLLPHMRERRFGHVVNVSSIGVQTNAPRFSAYVA 524
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCV-MPGYVATNM 205
SK + FS SE GI + MP V T M
Sbjct: 525 SKAALDAFSDVAASETLSDGITFTTIHMP-LVRTPM 559
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 82.3 bits (204), Expect = 5e-18
Identities = 63/214 (29%), Positives = 93/214 (43%), Gaps = 42/214 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+ A A+ G +VV ID RT A I
Sbjct: 320 VTGAGSGIGRETALAFAREGAEVVASD-------------IDEAAAERT-------AELI 359
Query: 61 RDK------YKVDTKVIVADFTDPKIFAH-VEKELTGIEAGILVNN--VGYSYPYPERFL 111
R Y+VD V+D + FA V E G+ I+VNN +G + FL
Sbjct: 360 RAAGAVAHAYRVD----VSDADAMEAFAEWVRAEH-GV-PDIVVNNAGIGMAGG----FL 409
Query: 112 AVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRK-GVVVNISSTAALIPSPMLSVYGA 170
++ + ++ N+ ++ C++ MVE+ G +VN++S AA PS L Y
Sbjct: 410 DTSAED--WDRVLDVNLWGVIHGCRLFGRQMVERGTGGHIVNVASAAAYAPSRSLPAYAT 467
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
SK V S L++E GI V + PG+V TN
Sbjct: 468 SKAAVLMLSECLRAELAAAGIGVTAICPGFVDTN 501
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 79.8 bits (197), Expect = 6e-18
Identities = 60/211 (28%), Positives = 100/211 (47%), Gaps = 28/211 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNL-AKLGIDVVLISRTKEKLDNVAAE 59
+TGAT G G+ + G V+ R +E+L L +LG D + I++ LD
Sbjct: 5 VTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELG-DNLYIAQ----LD----- 54
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+R++ ++ + A + E I+ +LVNN G + A E
Sbjct: 55 VRNRAAIEEML-----------ASLPAEWRNID--VLVNNAGLALGLEPAHKASVED--- 98
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ N L+ M + V+P MVE+ G ++NI STA P +VYGA+K FV +FS
Sbjct: 99 WETMIDTNNKGLVYMTRAVLPGMVERNHGHIINIGSTAGSWPYAGGNVYGATKAFVRQFS 158
Query: 180 TDLQSEYKKHGIIVQCVMPGYVA-TNMSKIK 209
+L+++ + V + PG V T S ++
Sbjct: 159 LNLRTDLHGTAVRVTDIEPGLVGGTEFSNVR 189
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 80.0 bits (198), Expect = 7e-18
Identities = 56/210 (26%), Positives = 90/210 (42%), Gaps = 35/210 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE LA G ++L+ R EKL+ LA
Sbjct: 10 LTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAA---------------------- 47
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R Y + +VAD T + A E+ GI +L+NN G + F + ++
Sbjct: 48 RLPYPGRHRWVVADLTSEAGREAVLARAR-EMGGIN--VLINNAGVN-----HFALLEDQ 99
Query: 117 -ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
++ N+ + + + ++P + Q +VVN+ ST I P + Y ASK +
Sbjct: 100 DPEAIERLLALNLTAPMQLTRALLPLLRAQPSAMVVNVGSTFGSIGYPGYASYCASKFAL 159
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
FS L+ E G+ V + P T M
Sbjct: 160 RGFSEALRRELADTGVRVLYLAPRATRTAM 189
>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 = 80.4 bits (199), Expect = 7e-18
Identities = 57/227 (25%), Positives = 88/227 (38%), Gaps = 43/227 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVV-----LISRTKEKLDNLAKLGIDVVLISRTKEKLDN 55
ITG G G A+ L LG V+ ++L + + + + TK +
Sbjct: 5 ITGCDSGFGNLLAKKLDSLGFTVLAGCLTKNGPGAKELRRVCSDRLRTLQLDVTKPE--- 61
Query: 56 VAAEIRDKYKVDTKVIVADFTDPKIFAHV-EKELTGIEAGILVNNVGYS-YPYPERFLAV 113
+I+ + + HV EK L G LVNN G + E L +
Sbjct: 62 ---QIKRAAQ-------------WVKEHVGEKGLWG-----LVNNAGILGFGGDEELLPM 100
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
Y M N+ + + + +P ++ + KG VVN+SS +P P Y ASK
Sbjct: 101 ----DDYRKCMEVNLFGTVEVTKAFLP-LLRRAKGRVVNVSSMGGRVPFPAGGAYCASKA 155
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS-------KIKKSSW 213
V FS L+ E + G+ V + PG T ++ K K W
Sbjct: 156 AVEAFSDSLRRELQPWGVKVSIIEPGNFKTGITGNSELWEKQAKKLW 202
>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 = 79.3 bits (196), Expect = 7e-18
Identities = 57/231 (24%), Positives = 93/231 (40%), Gaps = 38/231 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG + G+GKA A LA+ G DVV+ R ++K+ VAAEI
Sbjct: 3 VTGGSRGIGKAIALRLAERGADVVINYR-------------------KSKDAAAEVAAEI 43
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ V+ AD + P ++FA V++ ++ +LV+N F + E
Sbjct: 44 EEL-GGKAVVVRADVSQPQDVEEMFAAVKERFGRLD--VLVSNAAAGA-----FRPLSEL 95
Query: 117 ETV-YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+ M+ N+ L+ Q M E+ G +V ISS ++ P G +K +
Sbjct: 96 TPAHWDAKMNTNLKALVHCAQQAAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAAL 155
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSAL 226
L E GI V V PG + T+ P+ +++A
Sbjct: 156 EALVRYLAVELGPRGIRVNAVSPGVIDTDALA------HFPNREDLLEAAA 200
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 79.5 bits (196), Expect = 1e-17
Identities = 53/208 (25%), Positives = 93/208 (44%), Gaps = 29/208 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G+ A A+ G +++L+ + +++ +A E+
Sbjct: 11 ITGALQGIGEGIARVFARHGANLILLDIS---------------------PEIEKLADEL 49
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGI--LVNNVGYSYPYPERFLAVPEKET 118
+ +VAD DP A K E I LVNN G FL + +++
Sbjct: 50 CGR-GHRCTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGS--FLDMSDEDR 106
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISS-TAALIPSPMLSVYGASKLFVSK 177
+H + N+ + ++ + V+P M+ ++ G +V +SS T ++ P + Y +K +
Sbjct: 107 DFH--IDINIKGVWNVTKAVLPEMIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVG 164
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L EY + GI V + PGYV T M
Sbjct: 165 LTKSLAVEYAQSGIRVNAICPGYVRTPM 192
>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 = 79.0 bits (195), Expect = 1e-17
Identities = 58/198 (29%), Positives = 88/198 (44%), Gaps = 25/198 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G G EG+A+ A+ G VV+ + + VAA+I
Sbjct: 10 VTGAGSGFG----EGIARR----------------FAQEGARVVIADINADGAERVAADI 49
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ + + V D + G ILVNN G ++ + L V E+E +
Sbjct: 50 GEA-AIAIQADVTKRADVEAMVEAALSKFG-RLDILVNNAGITH-RNKPMLEVDEEE--F 104
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
+ NV ++ Q ++PHM EQ GV++NI+STA L P P L+ Y ASK +V +
Sbjct: 105 DRVFAVNVKSIYLSAQALVPHMEEQGGGVIINIASTAGLRPRPGLTWYNASKGWVVTATK 164
Query: 181 DLQSEYKKHGIIVQCVMP 198
+ E I V C+ P
Sbjct: 165 AMAVELAPRNIRVNCLCP 182
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 78.7 bits (194), Expect = 1e-17
Identities = 55/227 (24%), Positives = 87/227 (38%), Gaps = 42/227 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG GLG+A A LA G V LI R L + + ++ +
Sbjct: 12 ITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQT------LPGVPADALRIGGI---- 61
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERF--LAVP 114
D DP + V ++ ++A LVN G ++ +
Sbjct: 62 -------------DLVDPQAARRAVDEVNRQFGRLDA--LVNIAG-AFVW-GTIADGDAD 104
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ +Y NV T L+ + +P + G +VNI + AAL P + Y A+K
Sbjct: 105 TWDRMYG----VNVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYAAAKAG 160
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVAT-----NMSKIKKSSWMVP 216
V++ + L +E GI V V+P + T +M S W+ P
Sbjct: 161 VARLTEALAAELLDRGITVNAVLPSIIDTPPNRADMPDADFSRWVTP 207
>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 = 77.9 bits (192), Expect = 3e-17
Identities = 60/207 (28%), Positives = 89/207 (42%), Gaps = 28/207 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNL-AKLGIDVVLISRTKEKLDNVAAE 59
ITGA G+G+ A A+ G V L ++ L L A+LG + V+ LD
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAELGAENVVAGA----LD----- 55
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+ D+ +ADF TG L NN G P F VP
Sbjct: 56 VTDR--AAWAAALADFA----------AATGGRLDALFNNAGVGRGGP--FEDVPLAA-- 99
Query: 120 YHNIM-HCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
H+ M NV +L+ +P++ V+N +S++A+ P L+VY A+K V
Sbjct: 100 -HDRMVDINVKGVLNGAYAALPYLKATPGARVINTASSSAIYGQPDLAVYSATKFAVRGL 158
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L E+ +HGI V V P +V T +
Sbjct: 159 TEALDVEWARHGIRVADVWPWFVDTPI 185
>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 = 3e-17
Identities = 60/208 (28%), Positives = 86/208 (41%), Gaps = 33/208 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A LA G +VV+ +E E VA +
Sbjct: 6 VTGAASGIGLAIARALAAAGANVVVNDFGEEGA-----------------EAAAKVAGDA 48
Query: 61 RDKYKVDTKVIVADFTDPKIFAH----VEKELTGIEAGILVNNVGYSYPYP-ERFLAVPE 115
+ AD T A E G++ ILVNN G + P E F PE
Sbjct: 49 G----GSVIYLPADVTKEDEIADMIAAAAAEFGGLD--ILVNNAGIQHVAPIEEF--PPE 100
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+ I+ + + + +PHM +Q G ++NI+S L+ SP S Y A+K +
Sbjct: 101 D---WDRIIAVMLTSAFHTIRAALPHMKKQGWGRIINIASAHGLVASPFKSAYVAAKHGL 157
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ L E +HGI V + PGYV T
Sbjct: 158 IGLTKVLALEVAEHGITVNAICPGYVRT 185
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 78.4 bits (194), Expect = 3e-17
Identities = 55/207 (26%), Positives = 78/207 (37%), Gaps = 42/207 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G G+A A+ G VV R++ + L D L
Sbjct: 9 ITGVSSGFGRALAQAALAAGHRVVGTVRSEAARADFEALHPDRAL--------------- 53
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGI-----LVNNVGYSYPYPERFLAVPE 115
+ D TD F ++ + EA LVNN GY + E
Sbjct: 54 ---------ARLLDVTD---FDAIDAVVADAEATFGPIDVLVNNAGYGH------EGAIE 95
Query: 116 KETVYHNIMH---CNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
E+ + NV ++M + V+P M +R+G +VNI+S LI P + Y SK
Sbjct: 96 -ESPLAEMRRQFEVNVFGAVAMTKAVLPGMRARRRGHIVNITSMGGLITMPGIGYYCGSK 154
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPG 199
+ S L E GI V V PG
Sbjct: 155 FALEGISESLAKEVAPFGIHVTAVEPG 181
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 77.5 bits (191), Expect = 4e-17
Identities = 64/236 (27%), Positives = 97/236 (41%), Gaps = 38/236 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+AYAE LA+ G VV +A + E + VA +I
Sbjct: 11 VTGAAGGIGQAYAEALAREGASVV-----------VADI---------NAEGAERVAKQI 50
Query: 61 RDK--YKVDTKVIVADFTDPKIFAHVE-KELTGIEAGILVNNVG-YSYPYPERFLAVPEK 116
+ +V V+D K A GI+ LVNN Y + + VP
Sbjct: 51 VADGGTAIAVQVDVSDPDSAKAMADATVSAFGGID--YLVNNAAIYGGMKLDLLITVPWD 108
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
Y M N+ L + V HM ++ G +VN SSTAA + S + YG +K+ ++
Sbjct: 109 Y--YKKFMSVNLDGALVCTRAVYKHMAKRGGGAIVNQSSTAAWLYS---NFYGLAKVGLN 163
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIGIQ 232
+ L E I V + PG + T ++ +P FV +K I +
Sbjct: 164 GLTQQLARELGGMNIRVNAIAPGPIDTEATR-------TVTPKEFVADMVKGIPLS 212
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 77.9 bits (192), Expect = 5e-17
Identities = 53/177 (29%), Positives = 79/177 (44%), Gaps = 32/177 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA GLG A A A+ G DV++ +RT+ +LD VA +I
Sbjct: 15 VTGAGRGLGAAIALA--------------------FAEAGADVLIAARTESQLDEVAEQI 54
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEA----GILVNNVGYSYPYPERFLAVPEK 116
R + V+ AD P+ A + +EA I+VNNVG + P P L+ K
Sbjct: 55 RAAGR-RAHVVAADLAHPEATAGLAG--QAVEAFGRLDIVVNNVGGTMPNP--LLSTSTK 109
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASK 172
+ + NV T ++ +P M+E G V+NISST + + YG +K
Sbjct: 110 DL--ADAFTFNVATAHALTVAAVPLMLEHSGGGSVINISSTMGRLAGRGFAAYGTAK 164
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 77.4 bits (191), Expect = 5e-17
Identities = 54/206 (26%), Positives = 76/206 (36%), Gaps = 33/206 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA+ G VV +R LD LA E
Sbjct: 14 VTGASSGIGRACAVALAQRGARVVAAARNAAALDRLA--------------------GET 53
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ + D D + LVN G + E L + + +
Sbjct: 54 GCE------PLRLDVGDDAAIRAALAAAGAFDG--LVNCAGIASL--ESALDMTAEG--F 101
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+M N + + V M+ R G +VN+SS AAL+ P Y ASK + +
Sbjct: 102 DRVMAVNARGAALVARHVARAMIAAGRGGSIVNVSSQAALVGLPDHLAYCASKAALDAIT 161
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNM 205
L E HGI V V P T M
Sbjct: 162 RVLCVELGPHGIRVNSVNPTVTLTPM 187
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 77.3 bits (191), Expect = 5e-17
Identities = 59/210 (28%), Positives = 90/210 (42%), Gaps = 47/210 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+ A A G VVL+ R+ E + VAAE+
Sbjct: 13 VTGAAQGIGRGVALRAAAEGARVVLVDRS---------------------ELVHEVAAEL 51
Query: 61 RDKYKVDTKVIVAD---FTDPK-IFAHVEKELTGIEAGILVNNVG---YSYPYPERFLAV 113
R + + AD + + A + I+ +L+NNVG ++ P+ E
Sbjct: 52 RAA-GGEALALTADLETYAGAQAAMAAAVEAFGRID--VLINNVGGTIWAKPFEEYEEEQ 108
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAA----LIPSPMLSVYG 169
E E + ++ L C+ V+PHM+ Q G +VN+SS A +P Y
Sbjct: 109 IEAE-IRRSLF-----PTLWCCRAVLPHMLAQGGGAIVNVSSIATRGINRVP------YS 156
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIVQCVMPG 199
A+K V+ + L EY +HGI V V PG
Sbjct: 157 AAKGGVNALTASLAFEYAEHGIRVNAVAPG 186
>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 = 76.7 bits (189), Expect = 7e-17
Identities = 61/237 (25%), Positives = 91/237 (38%), Gaps = 44/237 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
+TGA G+GKA+ E L G V R +L + D V
Sbjct: 8 VTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHL------------VAKYGDKVVP- 54
Query: 60 IRDKYKVDTKVIVADFTDP---KIFAHVEKELTGIEAGILVNNVGYSYP---YPERFLAV 113
+ D TDP K A K++ +++NN G P E L
Sbjct: 55 -----------LRLDVTDPESIKAAAAQAKDVD-----VVINNAGVLKPATLLEEGALEA 98
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
++E M NV LL + Q P + G +VN++S A+L P + Y ASK
Sbjct: 99 LKQE------MDVNVFGLLRLAQAFAPVLKANGGGAIVNLNSVASLKNFPAMGTYSASKS 152
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIG 230
+ L++E G +V V PG + T M+ + SP T ++ LK +
Sbjct: 153 AAYSLTQGLRAELAAQGTLVLSVHPGPIDTRMA--AGAGGPKESPETVAEAVLKALK 207
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 77.0 bits (190), Expect = 8e-17
Identities = 57/210 (27%), Positives = 87/210 (41%), Gaps = 45/210 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL--ISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAA 58
+TG + G+G A + L G +VV I + +N + DV + E++++ A
Sbjct: 14 VTGGSSGIGLAIVKELLANGANVVNADIHGGDGQHENYQFVPTDVS----SAEEVNHTVA 69
Query: 59 EIRDKY-KVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK- 116
EI +K+ ++D LVNN G + P R L +
Sbjct: 70 EIIEKFGRID---------------------------GLVNNAGINIP---RLLVDEKDP 99
Query: 117 -------ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYG 169
E + + + N + M Q V MV+Q GV+VN+SS A L S S Y
Sbjct: 100 AGKYELNEAAFDKMFNINQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCYA 159
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIVQCVMPG 199
A+K ++ F+ E KH I V V PG
Sbjct: 160 ATKAALNSFTRSWAKELGKHNIRVVGVAPG 189
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 76.9 bits (190), Expect = 9e-17
Identities = 48/209 (22%), Positives = 91/209 (43%), Gaps = 41/209 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTK-EKLDNLAKLGIDVVLIS---RTKEKLDNV 56
+TG T G+G A L + G VV +R++ + L V ++ T E V
Sbjct: 14 VTGGTKGIGAATVARLLEAGARVVTTARSRPDDLPE------GVEFVAADLTTAEGCAAV 67
Query: 57 AAEIRDKY-KVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
A + ++ VD ILV+ +G S F A+ +
Sbjct: 68 ARAVLERLGGVD---------------------------ILVHVLGGSSAPAGGFAALTD 100
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSP-MLSVYGASKLF 174
+E + + ++ N++ + + + ++P M+ + GV+++++S +P P + Y A+K
Sbjct: 101 EE--WQDELNLNLLAAVRLDRALLPGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAKAA 158
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+S +S L E G+ V V PG++ T
Sbjct: 159 LSTYSKSLSKEVAPKGVRVNTVSPGWIET 187
>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 = 76.6 bits (189), Expect = 1e-16
Identities = 54/209 (25%), Positives = 84/209 (40%), Gaps = 31/209 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A LA+ G V + R E+L L V + R ++
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLEL------VADLRRYGYPFATYKLDV 56
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV- 119
D VD V +E+E I+ +LVN G L + +++
Sbjct: 57 ADSAAVDEVV-----------QRLEREYGPID--VLVNVAG--------ILRLGAIDSLS 95
Query: 120 ---YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ N + ++ Q V P M +R G +V + S AA +P ++ Y ASK ++
Sbjct: 96 DEDWQATFAVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNAANVPRMGMAAYAASKAALT 155
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L E +GI V PG T M
Sbjct: 156 MLTKCLGLELAPYGIRCNVVSPGSTDTEM 184
>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 = 75.8 bits (187), Expect = 2e-16
Identities = 54/208 (25%), Positives = 90/208 (43%), Gaps = 28/208 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A AE L K G V VVL++R++E L + E+
Sbjct: 4 LTGASRGIGRALAEELLKRGSPSV------------------VVLLARSEEPLQELKEEL 45
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKEL--TGIEAGILVNNVGYSYPYPERFLAVPEKET 118
R +V T + AD +D + + + E +L+NN G P + ++
Sbjct: 46 RPGLRVTT--VKADLSDAAGVEQLLEAIRKLDGERDLLINNAGSLGPVSKIEFIDLDELQ 103
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
Y N+ + + + ++ ++ K VVN+SS AA+ P +Y +SK
Sbjct: 104 KY---FDLNLTSPVCLTSTLLRAFKKRGLKKTVVNVSSGAAVNPFKGWGLYCSSKAARDM 160
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
F L +E + V PG V T+M
Sbjct: 161 FFRVLAAEEP--DVRVLSYAPGVVDTDM 186
>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 = 76.0 bits (187), Expect = 2e-16
Identities = 57/220 (25%), Positives = 86/220 (39%), Gaps = 35/220 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG T LG A A LA+ G AK V + R +EK D VA EI
Sbjct: 10 ITGGTGVLGGAMARALAQAG----------------AK----VAALGRNQEKGDKVAKEI 49
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNNVGYSYP---YPERFLAVP 114
+ AD D +E+ + G IL+N G ++P
Sbjct: 50 -TALGGRAIALAADVLDRASLERAREEIVA-QFGTVDILINGAGGNHPDATTDPEHYEPE 107
Query: 115 EKETVY-------HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSV 167
++ + + N+ Q+ M+EQ+ G ++NISS A P +
Sbjct: 108 TEQNFFDLDEEGWEFVFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPA 167
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
Y A+K VS F+ L E+ G+ V + PG+ T ++
Sbjct: 168 YSAAKAAVSNFTQWLAVEFATTGVRVNAIAPGFFVTPQNR 207
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 75.1 bits (185), Expect = 4e-16
Identities = 51/218 (23%), Positives = 79/218 (36%), Gaps = 49/218 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL--GIDVVLISRTKEKLDNVAA 58
+TG G+G+A AE A+ G V + ++ L A G V A
Sbjct: 16 VTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVTA----------TVA 65
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPY-------PE--- 108
++ D +V+ +F + G++ +LVNN G + P PE
Sbjct: 66 DVADPAQVER-----------VFDTAVERFGGLD--VLVNNAGIAGPTGGIDEITPEQWE 112
Query: 109 RFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSV 167
+ LAV Y + +P + G V++ +SS A + P +
Sbjct: 113 QTLAVNLNGQFY-------------FARAAVPLLKASGHGGVIIALSSVAGRLGYPGRTP 159
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
Y ASK V L E GI V ++PG V
Sbjct: 160 YAASKWAVVGLVKSLAIELGPLGIRVNAILPGIVRGPR 197
>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 = 74.6 bits (184), Expect = 4e-16
Identities = 56/228 (24%), Positives = 88/228 (38%), Gaps = 35/228 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G A A+ L K G V ++ R E A+L
Sbjct: 5 ITGGASGIGLATAKLLLKKGAKVAILDRN-ENPGAAAELQ-------------------- 43
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
KV + D T F ++ ++ IL+NN G A
Sbjct: 44 AINPKVKATFVQCDVTSWEQLAAAFKKAIEKFGRVD--ILINNAGILDE-KSYLFAGKLP 100
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVE---QRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ N+ +++ + + +M + + GV+VNI S A L P+P VY ASK
Sbjct: 101 PPWEK-TIDVNLTGVINTTYLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASKH 159
Query: 174 FVSKFSTDLQSEYK-KHGIIVQCVMPGYVATNM--SKIKKSSWMVPSP 218
V F+ L + K G+ V + PG+ T + + K + M+PS
Sbjct: 160 GVVGFTRSLADLLEYKTGVRVNAICPGFTNTPLLPDLVAKEAEMLPSA 207
>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 = 74.8 bits (184), Expect = 4e-16
Identities = 49/208 (23%), Positives = 87/208 (41%), Gaps = 37/208 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGI--DVVLISRTKEKLDNVAA 58
IT A G+G+A A A+ G +V+ +EKL L + VL KE++ +A
Sbjct: 7 ITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGITTRVLDVTDKEQVAALAK 66
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
E ++D +L N G+ + L + +
Sbjct: 67 EEG---RID---------------------------VLFNCAGFVHH--GSILDCEDDDW 94
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPS-PMLSVYGASKLFVSK 177
+ M+ NV ++ M + V+P M+ ++ G ++N+SS A+ I P VY +K V
Sbjct: 95 DFA--MNLNVRSMYLMIKAVLPKMLARKDGSIINMSSVASSIKGVPNRFVYSTTKAAVIG 152
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + +++ + GI + PG V T
Sbjct: 153 LTKSVAADFAQQGIRCNAICPGTVDTPS 180
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 72.6 bits (179), Expect = 6e-16
Identities = 42/197 (21%), Positives = 65/197 (32%), Gaps = 46/197 (23%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
ITG T GLG A A LA G +VL+SR + AE
Sbjct: 5 ITGGTGGLGLALARWLAAEGARHLVLVSRRGPA------------------PGAAELVAE 46
Query: 60 IRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVG------YSYPYPER 109
+ + V D D + A + L + +V+N G PER
Sbjct: 47 LEA-LGAEVTVAACDVADRDALAALLAALPAALGPL--DGVVHNAGVLDDGPLEELTPER 103
Query: 110 FLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYG 169
F V + V ++ ++ G V SS A ++ SP + Y
Sbjct: 104 FERV----------LAPKVTGAWNLHELTRD----LDLGAFVLFSSVAGVLGSPGQANYA 149
Query: 170 ASKLFVSKFSTDLQSEY 186
A+ + + ++E
Sbjct: 150 AANAALDALAEHRRAEG 166
>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 = 74.4 bits (183), Expect = 6e-16
Identities = 60/202 (29%), Positives = 92/202 (45%), Gaps = 17/202 (8%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LAK G VV+ ++T + DN + + I T A EI
Sbjct: 8 VTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGT-IEET-------AEEI 59
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVEK--ELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
IV D D ++ A VE + G ILVNN G + P K
Sbjct: 60 EAA-GGQALPIVVDVRDEDQVRALVEATVDQFG-RLDILVNNAGAIWL--SLVEDTPAKR 115
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ + N+ + Q +PHMV+ +G ++NIS +L P+ Y A K +S+
Sbjct: 116 --FDLMQRVNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGKAGMSR 173
Query: 178 FSTDLQSEYKKHGIIVQCVMPG 199
+ L +E ++HGI V + P
Sbjct: 174 LTLGLAAELRRHGIAVNSLWPS 195
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 74.3 bits (183), Expect = 7e-16
Identities = 54/199 (27%), Positives = 74/199 (37%), Gaps = 29/199 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G G+ A LA+ G +V+ + ++ L A
Sbjct: 7 ITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTAL------------------RAEAAR 48
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
R + +V D TD A + +L+NN G + V E V
Sbjct: 49 RG---LALRVEKLDLTDAIDRAQA----AEWDVDVLLNNAGIGEAGAVVDIPV---ELVR 98
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
NV L + Q + MV + KG VV SS A LI P Y ASK + +
Sbjct: 99 EL-FETNVFGPLELTQGFVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASKHALEAIAE 157
Query: 181 DLQSEYKKHGIIVQCVMPG 199
+ +E K GI V V PG
Sbjct: 158 AMHAELKPFGIQVATVNPG 176
>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 = 74.1 bits (182), Expect = 8e-16
Identities = 58/207 (28%), Positives = 87/207 (42%), Gaps = 30/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+GKA I+ T LAK G VV+ E + VAA I
Sbjct: 4 VTGGAAGIGKA--------------IAGT------LAKAGASVVIADLKSEGAEAVAAAI 43
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKE----LTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + + + T + V K GI ILVNN G P P +P
Sbjct: 44 Q-QAGGQAIGLECNVTSEQDLEAVVKATVSQFGGIT--ILVNNAGGGGPKPF---DMPMT 97
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + N+ + + Q+ PHM + G ++NISS ++ + ++ YG+SK V+
Sbjct: 98 EEDFEWAFKLNLFSAFRLSQLCAPHMQKAGGGAILNISSMSSENKNVRIAAYGSSKAAVN 157
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ +L + GI V V PG V T
Sbjct: 158 HMTRNLAFDLGPKGIRVNAVAPGAVKT 184
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 73.8 bits (181), Expect = 1e-15
Identities = 64/247 (25%), Positives = 107/247 (43%), Gaps = 49/247 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVV--LISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAA 58
+TG GLG+ A GLA+ G D+V I E ++ + LG + ++ K+D +
Sbjct: 15 VTGCDTGLGQGMALGLAEAGCDIVGINIVEPTETIEQVTALGRRFLSLTADLRKIDGIP- 73
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
+ ++ VA+F H++ ILVNN G R A+ E
Sbjct: 74 ALLER-------AVAEF------GHID---------ILVNNAGLI----RREDAIEFSEK 107
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ ++M+ N+ ++ M Q H + Q G ++NI+S + + Y ASK V
Sbjct: 108 DWDDVMNLNIKSVFFMSQAAAKHFIAQGNGGKIINIASMLSFQGGIRVPSYTASKSGVMG 167
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATN---------------MSKIKKSSWMVPS----P 218
+ + +E+ KH I V + PGY+ATN + +I W +PS P
Sbjct: 168 VTRLMANEWAKHNINVNAIAPGYMATNNTQQLRADEQRSAEILDRIPAGRWGLPSDLMGP 227
Query: 219 ATFVDSA 225
F+ S+
Sbjct: 228 VVFLASS 234
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 74.2 bits (183), Expect = 1e-15
Identities = 57/221 (25%), Positives = 93/221 (42%), Gaps = 42/221 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG LG A A+ LA+ G V ++ R +EK + V AEI
Sbjct: 15 ITGGGGVLGGAMAKELARAGAKVAILDR--------------------NQEKAEAVVAEI 54
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNNVGYSYP----YPERFLAV 113
+ + + AD D + +++ + G IL+N G ++P E +
Sbjct: 55 KAAGG-EALAVKADVLDKESLEQARQQILE-DFGPCDILINGAGGNHPKATTDNEFHELI 112
Query: 114 PEKETVY-------HNIMHCNVI-TLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPML 165
+T + + N++ TLL Q+ MV ++ G ++NISS A +P+
Sbjct: 113 EPTKTFFDLDEEGFEFVFDLNLLGTLLP-TQVFAKDMVGRKGGNIINISSMNA--FTPLT 169
Query: 166 SV--YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
V Y A+K +S F+ L + K GI V + PG+ T
Sbjct: 170 KVPAYSAAKAAISNFTQWLAVHFAKVGIRVNAIAPGFFLTE 210
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 73.8 bits (182), Expect = 1e-15
Identities = 52/171 (30%), Positives = 73/171 (42%), Gaps = 15/171 (8%)
Query: 37 AKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAH-VE---KELTGIE 92
A+ G DVVL +RT E+LD VAAEI D + D TD A+ V + ++
Sbjct: 26 ARAGADVVLAARTAERLDEVAAEIDDL-GRRALAVPTDITDEDQCANLVALALERFGRVD 84
Query: 93 AGILVNNVGYSYPYPERFLAVPEKETVYH--NIMHCNVITLLSMCQIVMPHMVEQRKGVV 150
A LVNN + P + H ++ NV+ L + Q P + E G +
Sbjct: 85 A--LVNN-AFRVPSMKPL----ADADFAHWRAVIELNVLGTLRLTQAFTPALAES-GGSI 136
Query: 151 VNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYV 201
V I+S P Y +K + S L +E GI V V PGY+
Sbjct: 137 VMINSMVLRHSQPKYGAYKMAKGALLAASQSLATELGPQGIRVNSVAPGYI 187
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 73.7 bits (181), Expect = 1e-15
Identities = 60/214 (28%), Positives = 89/214 (41%), Gaps = 34/214 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISR-----TKEKLDNLAKLGIDVVLISRTKEKLDN 55
+TGA G+G+ A GLA+ G DV L E +++ G + I
Sbjct: 13 VTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAAGRRAIQI--------- 63
Query: 56 VAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
AA++ K + V A E EL + + VN G + P A
Sbjct: 64 -AADVTSKADLRAAV-----------ARTEAELGALT--LAVNAAGIANANP----AEEM 105
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPML--SVYGASKL 173
+E + +M N+ + CQ M+E G +VNI+S + +I + L + Y ASK
Sbjct: 106 EEEQWQTVMDINLTGVFLSCQAEARAMLENGGGSIVNIASMSGIIVNRGLLQAHYNASKA 165
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
V S L E+ GI V + PGY AT M+
Sbjct: 166 GVIHLSKSLAMEWVGRGIRVNSISPGYTATPMNT 199
>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 = 73.3 bits (180), Expect = 1e-15
Identities = 62/224 (27%), Positives = 94/224 (41%), Gaps = 45/224 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDN----LAKLGIDV------VLISRTK 50
+T +TDG+G A A LA+ G VV+ SR ++ +D L G+ V V + +
Sbjct: 15 VTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGLSVTGTVCHVGKAEDR 74
Query: 51 EKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERF 110
E+L A + G++ ILV+N + P+
Sbjct: 75 ERLVATAVNLHG---------------------------GVD--ILVSNAAVN-PFFGNI 104
Query: 111 LAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGA 170
L E+ V+ I+ NV M + V+P M ++ G VV +SS AA P P L Y
Sbjct: 105 LDSTEE--VWDKILDVNVKATALMTKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNV 162
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWM 214
SK + + +L E I V C+ PG + T+ S WM
Sbjct: 163 SKTALLGLTKNLAPELAPRNIRVNCLAPGLIKTSFSSA---LWM 203
>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 = 71.8 bits (176), Expect = 4e-15
Identities = 51/220 (23%), Positives = 87/220 (39%), Gaps = 35/220 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A L G V + +R + +L A + E + +A ++
Sbjct: 5 VTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAA---------QELEGVLGLAGDV 55
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
RD+ V + +E+ G++ LVNN G P L PE+
Sbjct: 56 RDEADVR-----------RAVDAMEEAFGGLD--ALVNNAGVGVMKPVEELT-PEEW--- 98
Query: 121 HNIMHCNVITLLSM----CQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ T L+ P ++ + G +VN+ S A + Y ASK +
Sbjct: 99 ----RLVLDTNLTGAFYCIHKAAPALLRRGGGTIVNVGSLAGKNAFKGGAAYNASKFGLL 154
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMS-KIKKSSWMV 215
S + ++ I V VMPG V T + + +W +
Sbjct: 155 GLSEAAMLDLREANIRVVNVMPGSVDTGFAGSPEGQAWKL 194
>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 = 72.1 bits (177), Expect = 4e-15
Identities = 54/210 (25%), Positives = 90/210 (42%), Gaps = 35/210 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL------ISRTKEKLDNLAKLGIDVVLISRTKEKLD 54
+TG+T G+G A LA G ++VL + AK G+ V+ K
Sbjct: 7 VTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGADLSK-- 64
Query: 55 NVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYP-ERFLAV 113
A I D + A+ +++ G++ ILVNN G + P E F
Sbjct: 65 --PAAIED-----------------MVAYAQRQFGGVD--ILVNNAGIQHVAPIEDF--- 100
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
P ++ + I+ N+ + ++ +PHM +Q G ++NI+S L+ S S Y A+K
Sbjct: 101 PTEK--WDAIIALNLSAVFHTTRLALPHMKKQGWGRIINIASVHGLVASANKSAYVAAKH 158
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
V + + E G+ + PG+V T
Sbjct: 159 GVVGLTKVVALETAGTGVTCNAICPGWVLT 188
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 73.7 bits (181), Expect = 5e-15
Identities = 56/207 (27%), Positives = 92/207 (44%), Gaps = 27/207 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A + A+ G VV+ R + R +E+ D++ +
Sbjct: 10 VTGAAGGIGRAACQRFARAGDQVVVADRN----------------VERARERADSLGPDH 53
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+D V+D + F + +E I+ +LVNN G + P L +E
Sbjct: 54 H-ALAMD----VSDEAQIREGFEQLHREFGRID--VLVNNAGVTDPTMTATLDTTLEE-- 104
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGV-VVNISSTAALIPSPMLSVYGASKLFVSKF 178
+ + N+ + + + M+EQ G +VN++S A L+ P + Y ASK V
Sbjct: 105 FARLQAINLTGAYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISL 164
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L E+ GI V V+PGYV T M
Sbjct: 165 TRSLACEWAAKGIRVNAVLPGYVRTQM 191
Score = 67.6 bits (165), Expect = 6e-13
Identities = 54/203 (26%), Positives = 86/203 (42%), Gaps = 27/203 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G+A A+ A G +++I R E LA+ D L + A+I
Sbjct: 274 ITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALGDEHLSVQ---------ADI 324
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
D+ V++ FA ++ ++ +LVNN G + + E T
Sbjct: 325 TDEAAVES-----------AFAQIQARWGRLD--VLVNNAGIAEVFKPSLEQSAEDFTRV 371
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
+++ +M + GV+VN+ S A+L+ P + Y ASK V+ S
Sbjct: 372 YDVNLSGAFACARAAARLM-----SQGGVIVNLGSIASLLALPPRNAYCASKAAVTMLSR 426
Query: 181 DLQSEYKKHGIIVQCVMPGYVAT 203
L E+ GI V V PGY+ T
Sbjct: 427 SLACEWAPAGIRVNTVAPGYIET 449
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 72.0 bits (177), Expect = 5e-15
Identities = 57/220 (25%), Positives = 91/220 (41%), Gaps = 29/220 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA GLG+A A A+ G + L +E + E L +
Sbjct: 5 ITGAASGLGRAIALRWAREGWRLALADVNEEGGE----------------ETLKLLREAG 48
Query: 61 RDKYKVDTKVIVADFTDPKIFAHV-EKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
D + + V D++ A E++ GI+ ++VNN G + F E
Sbjct: 49 GDGFYQ--RCDVRDYSQLTALAQACEEKWGGID--VIVNNAGVA---SGGFFEELSLED- 100
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ + N++ ++ C+ +P Q+ G +VNI+S A L+ P +S Y +K V S
Sbjct: 101 WDWQIAINLMGVVKGCKAFLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAKAGVVALS 160
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPA 219
L E I V V P + TN+ S+ P+PA
Sbjct: 161 ETLLVELADDEIGVHVVCPSFFQTNLL----DSFRGPNPA 196
>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 = 71.8 bits (177), Expect = 5e-15
Identities = 53/204 (25%), Positives = 88/204 (43%), Gaps = 23/204 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+GKA A+ A+LG V + R E L+ A+ + S T + + ++
Sbjct: 8 ITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAE-----EISSATGGRAHPIQCDV 62
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
RD V+ KE I+ IL+NN ++ P L+ +TV
Sbjct: 63 RDPEAVE-----------AAVDETLKEFGKID--ILINNAAGNFLAPAESLSPNGFKTV- 108
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ + + V ++E + G ++NIS+T A SP A+K V +
Sbjct: 109 ---IDIDLNGTFNTTKAVGKRLIEAKHGGSILNISATYAYTGSPFQVHSAAAKAGVDALT 165
Query: 180 TDLQSEYKKHGIIVQCVMPGYVAT 203
L E+ +GI V + PG + T
Sbjct: 166 RSLAVEWGPYGIRVNAIAPGPIPT 189
>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 = 71.6 bits (176), Expect = 5e-15
Identities = 57/213 (26%), Positives = 82/213 (38%), Gaps = 40/213 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG GLG A+A L G VVL D L + G AAE+
Sbjct: 10 VTGGARGLGLAHARLLVAEGAKVVLS-------DILDEEG-------------QAAAAEL 49
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
D + D TD + + ++ LVNN G E
Sbjct: 50 GDA----ARFFHLDVTDEDGWTAVVDTAREAFGRLDV--LVNNAGILTGGT------VET 97
Query: 117 ETVYH--NIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
T+ ++ N+ + + V+P M E G ++N+SS L+ P L+ Y ASK
Sbjct: 98 TTLEEWRRLLDINLTGVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPALAAYNASKGA 157
Query: 175 VSKF--STDLQSEYKKHGIIVQCVMPGYVATNM 205
V S L+ + +GI V V PGY+ T M
Sbjct: 158 VRGLTKSAALECATQGYGIRVNSVHPGYIYTPM 190
>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 = 71.3 bits (175), Expect = 8e-15
Identities = 57/215 (26%), Positives = 91/215 (42%), Gaps = 38/215 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL--GIDVVLISRTKEKLDNVAA 58
+TGA G+G+A + LAK G VV +SRT+ LD+L + GI
Sbjct: 12 VTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRECPGI----------------- 54
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGI-EAGILVNNVGYSYPYPERFLAVPEKE 117
+ + D +D + E+ L + +LVNN + P FL V ++
Sbjct: 55 ----------EPVCVDLSD---WDATEEALGSVGPVDLLVNNAAVAILQP--FLEVTKEA 99
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFVS 176
NV ++ + QIV M+ + G +VN+SS A+ +VY ++K +
Sbjct: 100 FDRS--FDVNVRAVIHVSQIVARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTKAALD 157
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKS 211
+ + E H I V V P V T+M + S
Sbjct: 158 MLTKVMALELGPHKIRVNSVNPTVVMTDMGRDNWS 192
>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 = 70.6 bits (173), Expect = 1e-14
Identities = 53/218 (24%), Positives = 85/218 (38%), Gaps = 43/218 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A A L + G V+ + L
Sbjct: 3 VTGAAQGIGRAVARHLLQAGATVIALDLPFVLL--------------------------- 35
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEA-----GILVNNVGYSYPYPERFLAVPE 115
+Y ++ D D A V + + + A LVN G P L+ +
Sbjct: 36 -LEYGDPLRLTPLDVADA---AAVREVCSRLLAEHGPIDALVNCAGVLRPGATDPLSTED 91
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
E NV + ++ Q V PHM ++R G +V ++S AA +P ++ YGASK +
Sbjct: 92 WE----QTFAVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNAAHVPRISMAAYGASKAAL 147
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSW 213
+ S L E +G+ V PG T M +++ W
Sbjct: 148 ASLSKCLGLELAPYGVRCNVVSPGSTDTAM---QRTLW 182
>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 = 70.6 bits (173), Expect = 1e-14
Identities = 53/221 (23%), Positives = 85/221 (38%), Gaps = 39/221 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A LA+ G VV+ + ++ A +
Sbjct: 8 VTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVA-------------QIAGGALAL 54
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R D TD + +F +E G++ +LVNN G + L
Sbjct: 55 R-----------VDVTDEQQVAALFERAVEEFGGLD--LLVNNAGAMH------LTPAII 95
Query: 117 ET---VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+T V+ M N+ C+ P M+ + G +VN+SS A P YGASK
Sbjct: 96 DTDLAVWDQTMAINLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAYGASKA 155
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWM 214
+ + L +E + GI + PG + T + K + +
Sbjct: 156 AIRNLTRTLAAELRHAGIRCNALAPGLIDTPLLLAKLAGFE 196
>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 = 70.7 bits (173), Expect = 2e-14
Identities = 58/199 (29%), Positives = 86/199 (43%), Gaps = 23/199 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A A+ G V + +E + +A I A +I
Sbjct: 8 VTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAAD------IRAKGGNAQAFACDI 61
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
D+ VDT V A E+ L ++ +LVNN G+ P F +
Sbjct: 62 TDRDSVDTAV-----------AAAEQALGPVD--VLVNNAGWDKFGP--FTKTEPPL--W 104
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
++ N+ L M V+P MVE+ G +VNI+S AA + S +VY A K + FS
Sbjct: 105 ERLIAINLTGALHMHHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSK 164
Query: 181 DLQSEYKKHGIIVQCVMPG 199
+ E+ +HGI V V PG
Sbjct: 165 TMAREHARHGITVNVVCPG 183
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 70.5 bits (173), Expect = 2e-14
Identities = 55/214 (25%), Positives = 88/214 (41%), Gaps = 36/214 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA GLG+A A +A+ G V L D+ LD AAEI
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLT---------------DIN----DAAGLDAFAAEI 44
Query: 61 RDKYKVDTK-VIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
+ V D TD + A + G+ +LVNN G E
Sbjct: 45 NAAHGEGVAFAAVQDVTDEAQWQALLAQAADAMGGLS--VLVNNAGVGS------FGAIE 96
Query: 116 KETV--YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ + + +M NV ++ C+ +P++ + +VNISS AA P + Y ASK
Sbjct: 97 QIELDEWRRVMAINVESIFLGCKHALPYLRASQPASIVNISSVAAFKAEPDYTAYNASKA 156
Query: 174 FVSKFSTDLQSEYKKHGIIVQC--VMPGYVATNM 205
V+ + + + + G+ V+C + P ++ T +
Sbjct: 157 AVASLTKSIALDCARRGLDVRCNSIHPTFIRTGI 190
>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 = 70.6 bits (173), Expect = 2e-14
Identities = 61/246 (24%), Positives = 99/246 (40%), Gaps = 36/246 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+ A L + G V + RT +L A EI
Sbjct: 8 VTGASRGIGRGIALQLGEAGATVYITGRTILP-------------------QLPGTAEEI 48
Query: 61 RDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP-- 114
+ V D +D +F V +E G ILVNN + +A P
Sbjct: 49 EARGGKCIPV-RCDHSDDDEVEALFERVAREQQG-RLDILVNNAYAAVQLILVGVAKPFW 106
Query: 115 -EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSV-YGASK 172
E T++ +I + + + P MV+ KG++V ISST L + +V YG K
Sbjct: 107 EEPPTIWDDINNVGLRAHYACSVYAAPLMVKAGKGLIVIISSTGGL--EYLFNVAYGVGK 164
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIGIQ 232
+ + + D+ E K HG+ V + PG+V T + + + M + + +
Sbjct: 165 AAIDRMAADMAHELKPHGVAVVSLWPGFVRTEL--VLE---MPEDDEGSWHAKERDAFLN 219
Query: 233 NQTTGY 238
+TT Y
Sbjct: 220 GETTEY 225
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 70.1 bits (172), Expect = 2e-14
Identities = 59/211 (27%), Positives = 89/211 (42%), Gaps = 30/211 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + GLG+A A LA G DV+++ R + + D VAA I
Sbjct: 11 ITGGSGGLGRAIAVRLAADGADVIVLDIHP----------------MRGRAEADAVAAGI 54
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKEL-TGIEAG----ILVNNVGYSYPYPERFLAVPE 115
+ D D FA L G+E ILVNN G + L++ E
Sbjct: 55 EAA-GGKALGLAFDVRD---FAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIEE 110
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRK-GVVVNISSTAALIPSPMLSVYGASKLF 174
+ +++ N+ ++ Q +P M+ R+ G +VNI+S A + + Y ASK
Sbjct: 111 ----WDDVIDVNLDGFFNVTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAG 166
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + L +E GI V V PG + T M
Sbjct: 167 LIGLTKTLANELAPRGITVNAVAPGAINTPM 197
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 70.3 bits (173), Expect = 2e-14
Identities = 43/209 (20%), Positives = 78/209 (37%), Gaps = 40/209 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A + G V+ G D +++ ++
Sbjct: 13 VTGAAQGIGYAVALAFVEAGAKVI---------------GFDQAFLTQEDYPFATFVLDV 57
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV- 119
D V ++ + E ++ +LVN G L + +++
Sbjct: 58 SDAAAVA-----------QVCQRLLAETGPLD--VLVNAAG--------ILRMGATDSLS 96
Query: 120 ---YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ N ++ + VMP QR G +V + S AA +P ++ YGASK ++
Sbjct: 97 DEDWQQTFAVNAGGAFNLFRAVMPQFRRQRSGAIVTVGSNAAHVPRIGMAAYGASKAALT 156
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + E +G+ V PG T+M
Sbjct: 157 SLAKCVGLELAPYGVRCNVVSPGSTDTDM 185
>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 = 70.0 bits (172), Expect = 2e-14
Identities = 55/214 (25%), Positives = 89/214 (41%), Gaps = 32/214 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA GLG+AYA A+ G VV+ N LG D ++ D V EI
Sbjct: 10 VTGAGGGLGRAYALAFAERGAKVVV---------N--DLGGDRKGSGKSSSAADKVVDEI 58
Query: 61 RDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPER---FLAV 113
+ VA++ KI ++ ILVNN G R F +
Sbjct: 59 KAAG----GKAVANYDSVEDGEKIVKTAIDAFGRVD--ILVNNAGIL-----RDRSFAKM 107
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
E++ + +M ++ + + P+M +Q+ G ++N SS A L + + Y A+KL
Sbjct: 108 SEED--WDLVMRVHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQANYSAAKL 165
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ S L E K+ I + P + M++
Sbjct: 166 GLLGLSNTLAIEGAKYNITCNTIAPA-AGSRMTE 198
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 69.3 bits (170), Expect = 4e-14
Identities = 50/204 (24%), Positives = 87/204 (42%), Gaps = 25/204 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G+G A AE L G V + +R +++L+ A K + +AA++
Sbjct: 11 ITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAA-------ELNNKGNVLGLAADV 63
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
RD+ V + + G++ +L+ N G + P L E +
Sbjct: 64 RDEADVQ-----------RAVDAIVAAFGGLD--VLIANAGVGHFAPVEELTPEE----W 106
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
++ N+ + +P + G ++NISS A + Y ASK + FS
Sbjct: 107 RLVIDTNLTGAFYTIKAAVPALKR-GGGYIINISSLAGTNFFAGGAAYNASKFGLVGFSE 165
Query: 181 DLQSEYKKHGIIVQCVMPGYVATN 204
+ +++GI V +MPG VAT+
Sbjct: 166 AAMLDLRQYGIKVSTIMPGSVATH 189
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 69.6 bits (171), Expect = 5e-14
Identities = 53/222 (23%), Positives = 90/222 (40%), Gaps = 59/222 (26%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLA-KLGIDVVLIS-----RTKEKLD 54
+TGA G+G A L G + L+ + +L LA +LG D +++ +
Sbjct: 14 VTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELGGDDRVLTVVADVTDLAAMQ 73
Query: 55 NVAAEIRDKY-KVDTKVIVADF----------TDPKIFAHVEKELTGIEAGILVNNVGYS 103
A E +++ +D V+VA+ DP F V I VN +G
Sbjct: 74 AAAEEAVERFGGID--VVVANAGIASGGSVAQVDPDAFRRV----------IDVNLLG-- 119
Query: 104 YPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSP 163
V+H + + +P ++E R+G V+ +SS AA +P
Sbjct: 120 ---------------VFHTV------------RATLPALIE-RRGYVLQVSSLAAFAAAP 151
Query: 164 MLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
++ Y ASK V F+ L+ E HG+ V ++ T++
Sbjct: 152 GMAAYCASKAGVEAFANALRLEVAHHGVTVGSAYLSWIDTDL 193
>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 = 68.9 bits (169), Expect = 6e-14
Identities = 46/221 (20%), Positives = 73/221 (33%), Gaps = 35/221 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA +GKA+ + L G ++L L+ L E+
Sbjct: 7 ITGAAGLIGKAFCKALLSAGARLILADINAPALEQL--------------------KEEL 46
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEA--GILVNNVGYS-YPYPERFLAVPEKE 117
+ YK + D T + + + IL+NN S + RF P E
Sbjct: 47 TNLYKNRVIALELDITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPY-E 105
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALI---------PSPMLSV- 167
+ + N+ Q + +Q KG ++NI+S +I V
Sbjct: 106 QWNEVL-NVNLGGAFLCSQAFIKLFKKQGKGSIINIASIYGVIAPDFRIYENTQMYSPVE 164
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKI 208
Y K + + L Y GI V + PG + N
Sbjct: 165 YSVIKAGIIHLTKYLAKYYADTGIRVNAISPGGILNNQPSE 205
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 68.9 bits (169), Expect = 6e-14
Identities = 54/211 (25%), Positives = 82/211 (38%), Gaps = 34/211 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A AE A G V L+ R+++ + A+L
Sbjct: 20 VTGGASGIGHAIAELFAAKGARVALLDRSEDVAEVAAQLLGG------------------ 61
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ K +V D +D A V I+ ILVN+ G + P A
Sbjct: 62 ------NAKGLVCDVSDSQSVEAAVAAVISAFGRID--ILVNSAGVALLAP----AEDVS 109
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + + N+ M Q V HM+ G +VN++S A ++ Y ASK V
Sbjct: 110 EEDWDKTIDINLKGSFLMAQAVGRHMIAAGGGKIVNLASQAGVVALERHVAYCASKAGVV 169
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ L E+ +GI V + P V T + K
Sbjct: 170 GMTKVLALEWGPYGITVNAISPTVVLTELGK 200
>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 = 68.7 bits (168), Expect = 8e-14
Identities = 61/223 (27%), Positives = 100/223 (44%), Gaps = 47/223 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+ AE LA G V+L+ R ++L +V+ E L A
Sbjct: 9 VTGAAQGIGRGVAERLAGEGARVLLVDR--------SELVHEVL-----AEILAAGDAAH 55
Query: 61 RDKYKVDTKVIVAD---FTDPK-IFAHVEKELTGIEAGILVNNVG---YSYPYPERFLAV 113
V AD + + + + ++ +L+NNVG ++ PY
Sbjct: 56 ---------VHTADLETYAGAQGVVRAAVERFGRVD--VLINNVGGTIWAKPYEHY---- 100
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAAL----IPSPMLSVYG 169
E+E + I ++ L C+ V+PHM+E+++GV+VN+SS A IP Y
Sbjct: 101 -EEEQIEAEI-RRSLFPTLWCCRAVLPHMLERQQGVIVNVSSIATRGIYRIP------YS 152
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSS 212
A+K V+ + L E+ + GI V V PG KI +++
Sbjct: 153 AAKGGVNALTASLAFEHARDGIRVNAVAPGGTEAPPRKIPRNA 195
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 69.0 bits (169), Expect = 8e-14
Identities = 53/209 (25%), Positives = 83/209 (39%), Gaps = 34/209 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G+G+A A+ G +V +R E ++ LA G V +
Sbjct: 6 ITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAAGFTAVQL-------------- 51
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG--ILVNNVGYSYPYPERFLAVPEKET 118
D D A + +EL G +L+NN GY P L +
Sbjct: 52 -------------DVNDGAALARLAEELEAEHGGLDVLINNAGYGAMGP--LLDGGVEAM 96
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
NV ++ + + + P + R G+VVNI S + ++ +P Y ASK V
Sbjct: 97 R--RQFETNVFAVVGVTRALFPLLRRSR-GLVVNIGSVSGVLVTPFAGAYCASKAAVHAL 153
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMSK 207
S L+ E G+ V V PG +A+ +
Sbjct: 154 SDALRLELAPFGVQVMEVQPGAIASQFAS 182
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 67.8 bits (166), Expect = 1e-13
Identities = 51/204 (25%), Positives = 86/204 (42%), Gaps = 24/204 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG GLG+ YA LAK G D ++I+ D + LI + K+ V ++
Sbjct: 20 VTGGNTGLGQGYAVALAKAGAD-IIITTHGTNWDETRR------LIEKEGRKVTFVQVDL 72
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ V A + F ++ ILVNN G P + K+ +
Sbjct: 73 TKPESAEKVVKEA----LEEFGKID---------ILVNNAGTIRRAP----LLEYKDEDW 115
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
+ +M N+ ++ + Q V M +Q G ++NI+S + + Y ASK V+ +
Sbjct: 116 NAVMDINLNSVYHLSQAVAKVMAKQGSGKIINIASMLSFQGGKFVPAYTASKHGVAGLTK 175
Query: 181 DLQSEYKKHGIIVQCVMPGYVATN 204
+E + I V + PGY+ T
Sbjct: 176 AFANELAAYNIQVNAIAPGYIKTA 199
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 67.6 bits (165), Expect = 1e-13
Identities = 53/207 (25%), Positives = 93/207 (44%), Gaps = 28/207 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+ A L G V L EKL+ LA AE+
Sbjct: 11 VTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALA--------------------AEL 50
Query: 61 RDKYKVDTKVIVADFTDPKIFAH-VEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
++ K+ ++D + K E +L G++ ILVNN G + + L V +
Sbjct: 51 GERVKI-FPANLSDRDEVKALGQKAEADLEGVD--ILVNNAGIT----KDGLFVRMSDED 103
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ +++ N+ + + + M+ +R G ++NI+S + +P + Y ASK + FS
Sbjct: 104 WDSVLEVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFS 163
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMS 206
L E + V CV PG++ + M+
Sbjct: 164 KSLAQEIATRNVTVNCVAPGFIESAMT 190
>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 = 67.8 bits (166), Expect = 2e-13
Identities = 56/221 (25%), Positives = 87/221 (39%), Gaps = 34/221 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+GKA A LA G +VV+ R+K ++ + V EI
Sbjct: 8 VTGASSGIGKAIAIRLATAGANVVVNYRSK-------------------EDAAEEVVEEI 48
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + AD + +F KE ++ ILVNN G + + +
Sbjct: 49 KAV-GGKAIAVQADVSKEEDVVALFQSAIKEFGTLD--ILVNNAGLQGDASSHEMTLEDW 105
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFV 175
V + N+ + + + + KG ++N+SS IP P Y ASK V
Sbjct: 106 NKV----IDVNLTGQFLCAREAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASKGGV 161
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVP 216
+ L EY GI V + PG + T I +W P
Sbjct: 162 KMMTKTLAQEYAPKGIRVNAIAPGAINT---PINAEAWDDP 199
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 67.5 bits (165), Expect = 2e-13
Identities = 48/209 (22%), Positives = 78/209 (37%), Gaps = 32/209 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A A+ A+ G VV+ R E + VAA I
Sbjct: 10 VTGAGSGIGRATAK--------------------LFAREGARVVVADRDAEAAERVAAAI 49
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
D + + V ++ +LVNN G+ + E
Sbjct: 50 AAGG--RAFARQGDVGSAEAVEALVDFVAARWGRLD--VLVNNAGFGCG--GTVVTTDEA 103
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + +M NV + + +P M Q G +VN +S AL + Y ASK ++
Sbjct: 104 D--WDAVMRVNVGGVFLWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGAIA 161
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + ++ GI V V PG + T
Sbjct: 162 SLTRAMALDHATDGIRVNAVAPGTIDTPY 190
>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 = 67.6 bits (166), Expect = 2e-13
Identities = 56/227 (24%), Positives = 85/227 (37%), Gaps = 49/227 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+GK A +E LAK G V++ R +EK + AAEI
Sbjct: 6 ITGANSGIGKETA----------------RE----LAKRGAHVIIACRNEEKGEEAAAEI 45
Query: 61 RDKYKVDTKV--IVADFTDPKIFAHVEKEL--TGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + + KV I D + +E IL+NN G P P +
Sbjct: 46 KKETG-NAKVEVIQLDLSSLASVRQFAEEFLARFPRLDILINNAGIMAP--------PRR 96
Query: 117 ETV--YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISS---TAALIPSPMLS----- 166
T + N + + +++P + +VN+SS A I L
Sbjct: 97 LTKDGFELQFAVNYLGHFLLTNLLLPVLKASAPSRIVNVSSIAHRAGPIDFNDLDLENNK 156
Query: 167 ------VYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
YG SKL F+ +L + G+ V + PG V T + +
Sbjct: 157 EYSPYKAYGQSKLANILFTRELARRLEGTGVTVNALHPGVVRTELLR 203
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 67.4 bits (165), Expect = 2e-13
Identities = 53/208 (25%), Positives = 93/208 (44%), Gaps = 33/208 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD----NLAKLGIDVVLISRTKEKLDNV 56
ITGA+ G+G A A+ AK G +V +E +D +LGI+
Sbjct: 15 ITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELGIEAH------------ 62
Query: 57 AAEIRDKYKVDTKVIVADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
Y D V D + + +EKE+ I+ ILVNN G P L +
Sbjct: 63 ------GYVCD----VTDEDGVQAMVSQIEKEVGVID--ILVNNAGIIKRIP--MLEMSA 108
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
++ + ++ ++ + + V+P M+++ G ++NI S + + +S Y A+K +
Sbjct: 109 ED--FRQVIDIDLNAPFIVSKAVIPSMIKKGHGKIINICSMMSELGRETVSAYAAAKGGL 166
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ ++ SEY + I + PGY+AT
Sbjct: 167 KMLTKNIASEYGEANIQCNGIGPGYIAT 194
>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 = 66.2 bits (162), Expect = 4e-13
Identities = 59/247 (23%), Positives = 93/247 (37%), Gaps = 34/247 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLG-IDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
ITGA+ G+G L G V+ R LA LG A+
Sbjct: 3 ITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAALG----------------ASH 46
Query: 60 IRDKYKVDTKVIVADFTDP--KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
R ++ D TD + V + L +L+NN G + Y A
Sbjct: 47 SR------LHILELDVTDEIAESAEAVAERLGDAGLDVLINNAGILHSYG---PASEVDS 97
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALI----PSPMLSVYGASKL 173
+ NV+ L + Q +P +++ + ++NISS I S Y ASK
Sbjct: 98 EDLLEVFQVNVLGPLLLTQAFLPLLLKGARAKIINISSRVGSIGDNTSGGWYS-YRASKA 156
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTI-GIQ 232
++ + L E K+ GI V + PG+V T+M + +P V LK I +
Sbjct: 157 ALNMLTKSLAVELKRDGITVVSLHPGWVRTDMGGPFAKNKGPITPEESVAGLLKVIDNLN 216
Query: 233 NQTTGYY 239
+ +G +
Sbjct: 217 EEDSGKF 223
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 66.6 bits (163), Expect = 5e-13
Identities = 56/213 (26%), Positives = 79/213 (37%), Gaps = 41/213 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A AE G VV+ I + A EI
Sbjct: 11 LTGAASGIGEAVAERYLAEGARVVIAD-------------IKP-------ARARLAALEI 50
Query: 61 RDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP-- 114
+ D T +I A + GI+ IL NN F P
Sbjct: 51 GP----AAIAVSLDVTRQDSIDRIVAAAVERFGGID--ILFNNAAL-------FDMAPIL 97
Query: 115 -EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASK 172
Y + NV L + Q V HMVEQ +G ++N++S A ++S Y A+K
Sbjct: 98 DISRDSYDRLFAVNVKGLFFLMQAVARHMVEQGRGGKIINMASQAGRRGEALVSHYCATK 157
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V ++ +HGI V + PG V T M
Sbjct: 158 AAVISYTQSAALALIRHGINVNAIAPGVVDTPM 190
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 66.6 bits (163), Expect = 5e-13
Identities = 55/216 (25%), Positives = 88/216 (40%), Gaps = 47/216 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK------LGIDVVLISRTKEKLD 54
+TGA G+G A A A+ G V L + A G V+
Sbjct: 12 VTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARVLA--------- 62
Query: 55 NVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVG---YSYPYPERFL 111
V A++ D V V A E+ ++ LVNN G ++ P L
Sbjct: 63 -VPADVTDAASVAAAV-----------AAAEEAFGPLDV--LVNNAGINVFADP-----L 103
Query: 112 AVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAA--LIPS--PMLSV 167
A+ +++ + ++ + C+ V+P MVE+ +G +VNI+ST A +IP P
Sbjct: 104 AMTDED--WRRCFAVDLDGAWNGCRAVLPGMVERGRGSIVNIASTHAFKIIPGCFP---- 157
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
Y +K + + L EY + V + PGY+ T
Sbjct: 158 YPVAKHGLLGLTRALGIEYAARNVRVNAIAPGYIET 193
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 66.3 bits (162), Expect = 6e-13
Identities = 61/218 (27%), Positives = 91/218 (41%), Gaps = 49/218 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ GA+ G+G A A LA G V L +R EK E+
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKC------------------------EEL 50
Query: 61 RDKYKVDTKVIVA---DFTDP---KIF-AHVEKELTGIEAGILVNNVGYSYP------YP 107
DK + D VA D TDP K F A E+ L IE +LV+ G +Y
Sbjct: 51 VDKIRADGGEAVAFPLDVTDPDSVKSFVAQAEEALGEIE--VLVSGAGDTYFGKLHEIST 108
Query: 108 ERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSV 167
E+F + + +++ + V+P M+E+R+G ++ + S AL P +
Sbjct: 109 EQFESQ----------VQIHLVGANRLATAVLPGMIERRRGDLIFVGSDVALRQRPHMGA 158
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
YGA+K + T+LQ E + G+ V PG T M
Sbjct: 159 YGAAKAGLEAMVTNLQMELEGTGVRASIVHPGPTLTGM 196
>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 = 66.2 bits (162), Expect = 6e-13
Identities = 54/206 (26%), Positives = 80/206 (38%), Gaps = 23/206 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G+A AE LA G ++VL E+ + IS V A++
Sbjct: 7 ITGAAQGIGRAIAERLAADGFNIVLADLNLEEA--AKST---IQEISEAGYNAVAVGADV 61
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
DK V+ + ++ + ++VNN G + P L + E++
Sbjct: 62 TDKDDVE-----------ALIDQAVEKFGSFD--VMVNNAGIAPITP--LLTITEED--L 104
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ NV +L Q + G ++N SS A + P L Y ASK V +
Sbjct: 105 KKVYAVNVFGVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYSASKFAVRGLT 164
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNM 205
E GI V PG V T M
Sbjct: 165 QTAAQELAPKGITVNAYAPGIVKTEM 190
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 65.3 bits (159), Expect = 1e-12
Identities = 60/247 (24%), Positives = 99/247 (40%), Gaps = 49/247 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG GLG+ A GLAK G D+V G+ V T+ +++ + +
Sbjct: 13 ITGCNTGLGQGMAIGLAKAGADIV---------------GVGVAEAPETQAQVEALGRKF 57
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGI--EAGILVNNVGYSYPYPERFLAVPEKET 118
I AD K + + + IL+NN G + L K+
Sbjct: 58 H--------FITADLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRR--QDLLEFGNKD- 106
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ ++++ N T+ + Q V V+Q G ++NI+S + + Y ASK V
Sbjct: 107 -WDDVININQKTVFFLSQAVAKQFVKQGNGGKIINIASMLSFQGGIRVPSYTASKSAVMG 165
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATN---------------MSKIKKSSWMVPS----P 218
+ L +E ++ I V + PGY+AT+ + +I S W P P
Sbjct: 166 LTRALATELSQYNINVNAIAPGYMATDNTAALRADTARNEAILERIPASRWGTPDDLAGP 225
Query: 219 ATFVDSA 225
A F+ S+
Sbjct: 226 AIFLSSS 232
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 64.9 bits (159), Expect = 2e-12
Identities = 50/208 (24%), Positives = 80/208 (38%), Gaps = 33/208 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A LAK G VV+ A L E A +
Sbjct: 9 VTGAASGIGLEIALALAKEGAKVVI-----------ADLN---------DEAAAAAAEAL 48
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYP-ERFLAVPE 115
+ + D TD + + G++ ILVNN G + P E F E
Sbjct: 49 QKA-GGKAIGVAMDVTDEEAINAGIDYAVETFGGVD--ILVNNAGIQHVAPIEDF--PTE 103
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
K + ++ + + +P M Q G ++N++S L+ S + Y ++K +
Sbjct: 104 K---WKKMIAIMLDGAFLTTKAALPIMKAQGGGRIINMASVHGLVGSAGKAAYVSAKHGL 160
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ + E HG+ V + PGYV T
Sbjct: 161 IGLTKVVALEGATHGVTVNAICPGYVDT 188
>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 = 64.9 bits (158), Expect = 2e-12
Identities = 60/212 (28%), Positives = 96/212 (45%), Gaps = 23/212 (10%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G G+A+A LA G D++ I D A L T+E LD A +
Sbjct: 8 ITGAARGQGRAHAVRLAAEGADIIAI-------DLCAPLSDYPTYPLATREDLDETARLV 60
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELT-GIEA----GILVNNVGY-SYPYPERFLAVP 114
+ ++A D + A V + G+E ++V N G SY R +
Sbjct: 61 EAL----GRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYG---RSWELS 113
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKL 173
E++ + ++ N+ + C+ V+PHM+E+ G ++ SS A L P L+ Y A+K
Sbjct: 114 EEQ--WDTVLDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKH 171
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + L +E ++GI V + P V T M
Sbjct: 172 GLVGLTKTLANELAEYGIRVNSIHPYSVDTPM 203
>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 = 64.6 bits (158), Expect = 2e-12
Identities = 51/237 (21%), Positives = 91/237 (38%), Gaps = 41/237 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G+A A A+ G DV + + ++ + I
Sbjct: 31 ITGGDSGIGRAVAIAFAREGADVA------------------INYLPEEEDDAEETKKLI 72
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
++ +I D D + V KE ++ ILVNN Y +P +
Sbjct: 73 EEE-GRKCLLIPGDLGDESFCRDLVKEVVKEFGKLD--ILVNNAAYQHPQES--IEDITT 127
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + N+ ++ + + +PH+ ++ ++N +S A SP L Y A+K +
Sbjct: 128 EQLEK-TFRTNIFSMFYLTKAALPHL--KKGSSIINTTSVTAYKGSPHLLDYAATKGAIV 184
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIGIQN 233
F+ L + + GI V V PG + T + P++F + + G Q
Sbjct: 185 AFTRGLSLQLAEKGIRVNAVAPGPIWTPL-----------IPSSFPEEKVSEFGSQV 230
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 64.2 bits (157), Expect = 3e-12
Identities = 54/215 (25%), Positives = 79/215 (36%), Gaps = 49/215 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG T G+G A G VV+ R + + AA++
Sbjct: 11 VTGGTRGIGAGIARAFLAAGATVVVCGRRAPETVDGRPAEF--------------HAADV 56
Query: 61 RDKYKVDTKV--IVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPY------PERFLA 112
RD +V V IV ++ +LVNN G S PY RF
Sbjct: 57 RDPDQVAALVDAIVERH--GRL-------------DVLVNNAGGS-PYALAAEASPRFHE 100
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGAS 171
I+ N++ L + Q M +Q G +VNI S + PSP + YGA+
Sbjct: 101 ---------KIVELNLLAPLLVAQAANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAYGAA 151
Query: 172 KLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
K + + L E+ + V V+ G V T S
Sbjct: 152 KAGLLNLTRSLAVEWAPK-VRVNAVVVGLVRTEQS 185
>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 = 63.6 bits (155), Expect = 5e-12
Identities = 49/211 (23%), Positives = 78/211 (36%), Gaps = 35/211 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ GLG A A A+ G VV V R+ E + VAAE
Sbjct: 5 VTGASRGLGAAIARSFAREGARVV-------------------VNYYRSTESAEAVAAEA 45
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
++ I AD D + + ++ +VNN +P
Sbjct: 46 GER----AIAIQADVRDRDQVQAMIEEAKNHFGPVD--TIVNNA--LIDFPFDPDQRKTF 97
Query: 117 ETV----YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
+T+ Y + V L++ Q V+P E+ G V+NI + P Y +K
Sbjct: 98 DTIDWEDYQQQLEGAVKGALNLLQAVLPDFKERGSGRVINIGTNLFQNPVVPYHDYTTAK 157
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ F+ ++ E +GI V V G +
Sbjct: 158 AALLGFTRNMAKELGPYGITVNMVSGGLLKV 188
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 63.0 bits (154), Expect = 6e-12
Identities = 57/233 (24%), Positives = 84/233 (36%), Gaps = 42/233 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A+ E L G AK V +R E +
Sbjct: 11 VTGANRGIGRAFVEQLLARGA---------------AK----VYAAARDPESVT------ 45
Query: 61 RDKYKVDTKVIV--ADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
+ +V+ D TDP A + + + ILVNN G L E
Sbjct: 46 ----DLGPRVVPLQLDVTDPASVAAAAEAASDVT--ILVNNAGIFRTG--SLLL-EGDED 96
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
M N L+M + P + G +VN+ S + + P L Y ASK
Sbjct: 97 ALRAEMETNYFGPLAMARAFAPVLAANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSL 156
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVP--SPATFVDSALKTI 229
+ L++E G V V PG + T+M+ + P SPA L +
Sbjct: 157 TQALRAELAPQGTRVLGVHPGPIDTDMA----AGLDAPKASPADVARQILDAL 205
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 63.2 bits (154), Expect = 6e-12
Identities = 50/208 (24%), Positives = 85/208 (40%), Gaps = 30/208 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG++ G+GKA A LA+ G D+ V +R+++ + A EI
Sbjct: 9 VTGSSRGIGKAIALRLAEEGYDIA-------------------VNYARSRKAAEETAEEI 49
Query: 61 RDKYKVDTKVIVADFTDP-KI---FAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ A+ D KI FA +++E ++ + VNN P A+ +
Sbjct: 50 E-ALGRKALAVKANVGDVEKIKEMFAQIDEEFGRLD--VFVNNAASGVLRP----AMELE 102
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E+ + M+ N LL Q M + G ++++SS ++ + G SK +
Sbjct: 103 ESHWDWTMNINAKALLFCAQEAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAALE 162
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATN 204
+ L E GI V V G V T+
Sbjct: 163 ALTRYLAVELAPKGIAVNAVSGGAVDTD 190
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 63.8 bits (156), Expect = 7e-12
Identities = 51/197 (25%), Positives = 79/197 (40%), Gaps = 47/197 (23%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A A+ G VVL++R +E L+ L AAEI
Sbjct: 13 ITGASAGVGRATARAFARRGAKVVLLARGEEGLEAL--------------------AAEI 52
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVG---YSYPYPERFLAV 113
R + +VAD D E+EL I+ VNN + F V
Sbjct: 53 RA-AGGEALAVVADVADAEAVQAAADRAEEELGPID--TWVNNAMVTVFG-----PFEDV 104
Query: 114 PEKETVYHNIMHCNVITLL-----SMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVY 168
+E +T L ++ + HM + +G ++ + S A P+ S Y
Sbjct: 105 TPEE-----FRRVTEVTYLGVVHGTL--AALRHMRPRDRGAIIQVGSALAYRSIPLQSAY 157
Query: 169 GASKLFVSKFSTDLQSE 185
A+K + F+ L+ E
Sbjct: 158 CAAKHAIRGFTDSLRCE 174
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 62.6 bits (152), Expect = 1e-11
Identities = 47/205 (22%), Positives = 84/205 (40%), Gaps = 26/205 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+GK A LA+ G V + ++ + +A I++ K VA ++
Sbjct: 12 VTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADE------INKAGGKAIGVAMDV 65
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYP-ERFLAVPEKETV 119
++ V+ + V + ++ ILV+N G P E + K+
Sbjct: 66 TNEDAVNAGI-----------DKVAERFGSVD--ILVSNAGIQIVNPIENYSFADWKK-- 110
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRK-GVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
+ +V + + HM + + GVV+ + S + SP+ S Y +K +
Sbjct: 111 ---MQAIHVDGAFLTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAYVTAKHGLLGL 167
Query: 179 STDLQSEYKKHGIIVQCVMPGYVAT 203
+ L E KH + V PG+V T
Sbjct: 168 ARVLAKEGAKHNVRSHVVCPGFVRT 192
>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 = 62.6 bits (152), Expect = 1e-11
Identities = 56/212 (26%), Positives = 92/212 (43%), Gaps = 33/212 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKL----DNLAKLGIDVVLISRTKEKLDNV 56
+TGAT G+G A A L K G+ V + +R +E L L + G++ D
Sbjct: 8 VTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVEA----------DGR 57
Query: 57 AAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
++R +++ V A I +LVNN G S LA
Sbjct: 58 TCDVRSVPEIEALVAAAVARYGPI-------------DVLVNNAGRSGGGATAELA---- 100
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPH--MVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ ++ +++ N+ + + + V+ M+E+ G ++NI+ST + Y ASK
Sbjct: 101 DELWLDVVETNLTGVFRVTKEVLKAGGMLERGTGRIINIASTGGKQGVVHAAPYSASKHG 160
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
V F+ L E + GI V V PG+V T M+
Sbjct: 161 VVGFTKALGLELARTGITVNAVCPGFVETPMA 192
>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 = 62.1 bits (151), Expect = 2e-11
Identities = 55/208 (26%), Positives = 86/208 (41%), Gaps = 24/208 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A + LAK G V E+ R + L A
Sbjct: 5 VTGGMGGIGTAICQRLAKDGYRVAANCGPNEE---------------RAEAWLQEQGALG 49
Query: 61 RDKYKVDTKVIVADFTDPK-IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
D V+ V + F K A VE EL I+ +LVNN G + + E
Sbjct: 50 FDFRVVEGDV--SSFESCKAAVAKVEAELGPID--VLVNNAGITR---DATFKKMTYEQ- 101
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ N+ ++ ++ Q V+ M E+ G ++NISS + Y A+K + F+
Sbjct: 102 WSAVIDTNLNSVFNVTQPVIDGMRERGWGRIINISSVNGQKGQFGQTNYSAAKAGMIGFT 161
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNMSK 207
L E G+ V + PGY+AT+M
Sbjct: 162 KALAQEGATKGVTVNTISPGYIATDMVM 189
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 62.8 bits (153), Expect = 2e-11
Identities = 60/208 (28%), Positives = 87/208 (41%), Gaps = 32/208 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A AE A+ G A+L VL +R +E L VA E
Sbjct: 12 ITGASSGIGQATAEAFARRG----------------ARL----VLAARDEEALQAVAEEC 51
Query: 61 RDKYKVDTKVIVADFTDP---KIFAHVEKELTG-IEAGILVNNVGYSYPYPERFLAVPEK 116
R + V+ D TD K A G I+ + VNNVG RF P +
Sbjct: 52 RAL-GAEVLVVPTDVTDADQVKALATQAASFGGRID--VWVNNVGVGAV--GRFEETPIE 106
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ ++ N+I + +P +Q G+ +N+ S P + Y ASK +
Sbjct: 107 --AHEQVIQTNLIGYMRDAHAALPIFKKQGHGIFINMISLGGFAAQPYAAAYSASKFGLR 164
Query: 177 KFSTDLQSEYKKHGIIVQC-VMPGYVAT 203
FS L+ E H I C V P ++ T
Sbjct: 165 GFSEALRGELADHPDIHVCDVYPAFMDT 192
>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 = 62.1 bits (151), Expect = 2e-11
Identities = 53/211 (25%), Positives = 80/211 (37%), Gaps = 35/211 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGIDVVLISRTK-EKLDNVAA 58
ITG G+G+A A AK G VV+ + +A LG + +V A
Sbjct: 9 ITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVAAELGDPDISFVHCDVTVEADVRA 68
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
VDT V F ++ I+ NN G L +E
Sbjct: 69 ------AVDTAV--------ARFGRLD---------IMFNNAGVLGAPCYSILETSLEE- 104
Query: 119 VYHNIMHCNVITLLSMCQIVMPH----MVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ ++ NV + H M+ +KG +V+++S A ++ Y ASK
Sbjct: 105 -FERVLDVNVYGAF----LGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPHAYTASKHA 159
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V + +E +HGI V CV P VAT +
Sbjct: 160 VLGLTRSAATELGEHGIRVNCVSPYGVATPL 190
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 62.0 bits (151), Expect = 2e-11
Identities = 59/218 (27%), Positives = 105/218 (48%), Gaps = 28/218 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + GLG+A A L + G V+ ISRT+ K L KL L + ++
Sbjct: 6 ITGTSQGLGEAIANQLLEKGTHVISISRTENK--ELTKLAEQ------YNSNLTFHSLDL 57
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYP--ERFLAVPEKET 118
+D ++++T +F + I + ++++ + + L+NN G P E+ E E
Sbjct: 58 QDVHELET-----NFNE--ILSSIQED--NVSSIHLINNAGMVAPIKPIEK----AESEE 104
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVE-QRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ N+ H N++ + + M H + + V+NISS AA P S Y +SK +
Sbjct: 105 LITNV-HLNLLAPMILTSTFMKHTKDWKVDKRVINISSGAAKNPYFGWSAYCSSKAGLDM 163
Query: 178 F--STDLQSEYKKHGIIVQCVMPGYVATNM-SKIKKSS 212
F + + E +++ + + PG + TNM ++I+ SS
Sbjct: 164 FTQTVATEQEEEEYPVKIVAFSPGVMDTNMQAQIRSSS 201
>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 = 60.9 bits (148), Expect = 3e-11
Identities = 39/197 (19%), Positives = 73/197 (37%), Gaps = 30/197 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ GA DGLG A +A+ A G V L +R + KL+ + +I
Sbjct: 4 VVGAGDGLGAA----IARR----------------FAAEGFSVALAARREAKLEALLVDI 43
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
K + D D +F +E+E+ +E +LV N G + +P L +
Sbjct: 44 IRDAGGSAKAVPTDARDEDEVIALFDLIEEEIGPLE--VLVYNAGANVWFP--ILETTPR 99
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + + M+ + +G ++ +TA+L + + +K +
Sbjct: 100 V--FEKVWEMAAFGGFLAAREAAKRMLARGRGTIIFTGATASLRGRAGFAAFAGAKFALR 157
Query: 177 KFSTDLQSEYKKHGIIV 193
+ + E GI V
Sbjct: 158 ALAQSMARELGPKGIHV 174
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 61.1 bits (149), Expect = 4e-11
Identities = 61/239 (25%), Positives = 94/239 (39%), Gaps = 54/239 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG GLG+A AE LA+ G + LI +EKL+ + + E+
Sbjct: 10 ITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLE-------------EAVAECGALGTEV 56
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
R Y + V D D FA + ++ + L+NN G L V K+
Sbjct: 57 R-GYAAN----VTDEEDVEATFAQIAEDFGQLNG--LINNAGILRDG----LLVKAKDGK 105
Query: 120 YHNIMHCNVITLLSMCQIVM---------------PHMVEQ-RKGVVVNISSTAALIPSP 163
+ M L Q V+ M+E KGV++NISS A +
Sbjct: 106 VTSKMS------LEQFQSVIDVNLTGVFLCGREAAAKMIESGSKGVIINISSIAR-AGNM 158
Query: 164 MLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK------IKKSSWMVP 216
+ Y ASK V+ + E ++GI V + PG + T M+ +++ M+P
Sbjct: 159 GQTNYSASKAGVAAMTVTWAKELARYGIRVAAIAPGVIETEMTAAMKPEALERLEKMIP 217
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 61.0 bits (148), Expect = 4e-11
Identities = 48/205 (23%), Positives = 82/205 (40%), Gaps = 26/205 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+GK A A G VV +S + ++V EI
Sbjct: 16 ITGAGAGIGKEIAITFATAGASVV-VSDIN-------------------ADAANHVVDEI 55
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGI-EAGILVNNVGYSYPYPERFLAVPEKETV 119
+ ++ ++ A + L+ + + ILVNN G P P +P +
Sbjct: 56 QQLGGQAFACRCDITSEQELSALADFALSKLGKVDILVNNAGGGGPKP---FDMPMADFR 112
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
NV + + Q+V P M + GV++ I+S AA + ++ Y +SK S
Sbjct: 113 R--AYELNVFSFFHLSQLVAPEMEKNGGGVILTITSMAAENKNINMTSYASSKAAASHLV 170
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATN 204
++ + + I V + PG + T+
Sbjct: 171 RNMAFDLGEKNIRVNGIAPGAILTD 195
>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 = 60.5 bits (147), Expect = 5e-11
Identities = 48/208 (23%), Positives = 88/208 (42%), Gaps = 35/208 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G A A+ +LG V++ R +E+L K + + E+
Sbjct: 10 ITGGASGIGLALAKRFLELGNTVIICGRNEERLA-------------EAKAENPEIHTEV 56
Query: 61 RDKYKVDTKVIVADFTDPKIFAH-VEKELTGIEAGILVNNVGYSYPY----PERFLAVPE 115
D VAD + ++KE + +L+NN G E L E
Sbjct: 57 CD---------VADRDSRRELVEWLKKEYPNLN--VLINNAGIQRNEDLTGAEDLLDDAE 105
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+E + N++ + + +++PH++ Q + ++N+SS A +P VY A+K +
Sbjct: 106 QE------IATNLLAPIRLTALLLPHLLRQPEATIINVSSGLAFVPMASTPVYCATKAAI 159
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
++ L+ + K + V + P V T
Sbjct: 160 HSYTLALREQLKDTSVEVIELAPPLVDT 187
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 60.4 bits (147), Expect = 6e-11
Identities = 47/217 (21%), Positives = 80/217 (36%), Gaps = 38/217 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A LA G D+ + R + + +AA
Sbjct: 7 VTGGRRGIGLGIARALAAAGFDLAINDRPDD----------------------EELAATQ 44
Query: 61 RDKYKVDTKVI-----VADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
++ + +VI VAD + + + I+ LVNN G L +
Sbjct: 45 QELRALGVEVIFFPADVADLSAHEAMLDAAQAAWGRID--CLVNNAGVGVKVRGDLLDL- 101
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRK------GVVVNISSTAALIPSPMLSVY 168
+ ++ N+ + Q V M+ Q + +V +SS A++ SP Y
Sbjct: 102 -TPESFDRVLAINLRGPFFLTQAVAKRMLAQPEPEELPHRSIVFVSSVNAIMVSPNRGEY 160
Query: 169 GASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
SK +S + + + GI V V PG + T+M
Sbjct: 161 CISKAGLSMAAQLFAARLAEEGIGVYEVRPGLIKTDM 197
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 60.1 bits (146), Expect = 7e-11
Identities = 54/206 (26%), Positives = 86/206 (41%), Gaps = 38/206 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL-GIDVVLISRTKEKLDNVAAE 59
+TGAT G+G A + LA LG V+ I+R+ D +L D+ I +T L A+
Sbjct: 8 VTGATKGIGLALSLRLANLGHQVIGIARSAID-DFPGELFACDLADIEQTAATL----AQ 62
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
I + + VD +VNNVG + P P + + + V
Sbjct: 63 INEIHPVDA---------------------------IVNNVGIALPQPLGKIDLAALQDV 95
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
Y NV + + Q + M + +G +VNI S A + + Y A+K + +
Sbjct: 96 Y----DLNVRAAVQVTQAFLEGMKLREQGRIVNICSRAIF-GALDRTSYSAAKSALVGCT 150
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNM 205
E ++GI V V PG + T +
Sbjct: 151 RTWALELAEYGITVNAVAPGPIETEL 176
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 60.1 bits (146), Expect = 7e-11
Identities = 51/211 (24%), Positives = 81/211 (38%), Gaps = 39/211 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDN----LAKLGIDVVLISRTKEKLDNV 56
+TG+ GLG A LA G V++ R L+ L G
Sbjct: 16 VTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGG--------------- 60
Query: 57 AAEIRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLA 112
AAE + D D FA ++ E ++ ILVNNVG P L
Sbjct: 61 AAE----------ALAFDIADEEAVAAAFARIDAEHGRLD--ILVNNVGARDRRPLAELD 108
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
++ +++ + + ++ M Q G ++ I+S A + +VY A+K
Sbjct: 109 DAA----IRALLETDLVAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAK 164
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
++ L +E+ HGI + PGY AT
Sbjct: 165 QGLTGLMRALAAEFGPHGITSNAIAPGYFAT 195
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 60.2 bits (146), Expect = 8e-11
Identities = 60/210 (28%), Positives = 86/210 (40%), Gaps = 32/210 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G+A A A+ G VV+ R + VA I
Sbjct: 12 VTGGAAGIGRATALAFAREGAKVVVADR-------------------DAAGGEETVAL-I 51
Query: 61 RDKYKVDTKVIVADFT-DPKIFAHVEKELTGIEAGIL---VNNVGYSYPYPERFLAVPEK 116
R+ + + D T D ++ A VE+ + G L NN G E+
Sbjct: 52 REAGG-EALFVACDVTRDAEVKALVEQTIAAY--GRLDYAFNNAGIEI---EQGRLAEGS 105
Query: 117 ETVYHNIMHCNVI-TLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
E + IM NV L M + +P M+ Q G +VN +S A L +P +S+Y ASK V
Sbjct: 106 EAEFDAIMGVNVKGVWLCM-KYQIPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASKHAV 164
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ EY K GI V V P + T+M
Sbjct: 165 IGLTKSAAIEYAKKGIRVNAVCPAVIDTDM 194
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 60.0 bits (146), Expect = 8e-11
Identities = 57/210 (27%), Positives = 89/210 (42%), Gaps = 31/210 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+T + G+GKA A LA+ G D+ + + E E A E+
Sbjct: 7 VTASDSGIGKACALLLAQQGFDIGITWHSDE-------------------EGAKETAEEV 47
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R + V ++ D +D + + + L I+ +LVNN G FL +
Sbjct: 48 R-SHGVRAEIRQLDLSDLPEGAQALDKLIQRLGRID--VLVNNAGAM--TKAPFLDMDFD 102
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLFV 175
E + I +V QI HMV+Q + G ++NI+S P P S Y A+K +
Sbjct: 103 E--WRKIFTVDVDGAFLCSQIAARHMVKQGQGGRIINITSVHEHTPLPGASAYTAAKHAL 160
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + E +HGI+V V PG +AT M
Sbjct: 161 GGLTKAMALELVEHGILVNAVAPGAIATPM 190
>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 = 59.6 bits (145), Expect = 1e-10
Identities = 43/213 (20%), Positives = 78/213 (36%), Gaps = 27/213 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG GLG A E L G VV++ + +AKLG + V ++
Sbjct: 7 VTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVAKLGDNCRF----------VPVDV 56
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ V + +A ++ V GI N P+ E +
Sbjct: 57 TSEKDVKAALALAKAKFGRLDIVVN--CAGIAVAAKTYNKKGQQPHS------LEL---F 105
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQ------RKGVVVNISSTAALIPSPMLSVYGASKLF 174
+++ N+I ++ ++ M + +GV++N +S AA + Y ASK
Sbjct: 106 QRVINVNLIGTFNVIRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSASKGG 165
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ + + + GI V + PG T +
Sbjct: 166 IVGMTLPIARDLAPQGIRVVTIAPGLFDTPLLA 198
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 59.9 bits (145), Expect = 1e-10
Identities = 46/172 (26%), Positives = 80/172 (46%), Gaps = 9/172 (5%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGI-EAG 94
LA+ G DV+L+SR +E L +I+ + VD IVAD T + KEL I E
Sbjct: 28 LARAGADVILLSRNEENLKKAREKIKSESNVDVSYIVADLTKREDLERTVKELKNIGEPD 87
Query: 95 ILVNNVGYSYPYPERF--LAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVN 152
I + G P P F +++ + E +++ V + + ++P M + G ++
Sbjct: 88 IFFFSTG--GPKPGYFMEMSMEDWEGAVKLLLYPAVY----LTRALVPAMERKGFGRIIY 141
Query: 153 ISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
+S A P P +++ ++ ++ L E GI V +MPG + T+
Sbjct: 142 STSVAIKEPIPNIALSNVVRISMAGLVRTLAKELGPKGITVNGIMPGIIRTD 193
>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 = 59.3 bits (144), Expect = 1e-10
Identities = 55/209 (26%), Positives = 87/209 (41%), Gaps = 33/209 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A A+ G AK VVL +R+ E L +A E+
Sbjct: 5 ITGASSGIGRATALAFAERG----------------AK----VVLAARSAEALHELAREV 44
Query: 61 RDKYKVDTKVIVADFTDPKIFAHV----EKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R+ + +VAD D + I+ VNN G + RF V +
Sbjct: 45 REL-GGEAIAVVADVADAAQVERAADTAVERFGRID--TWVNNAGVA--VFGRFEDVTPE 99
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
E + + N + + +PH+ + G ++N+ S +P+ + Y ASK V
Sbjct: 100 E--FRRVFDVNYLGHVYGTLAALPHLRRRGGGALINVGSLLGYRSAPLQAAYSASKHAVR 157
Query: 177 KFSTDLQSEYKKHG--IIVQCVMPGYVAT 203
F+ L++E G I V V P + T
Sbjct: 158 GFTESLRAELAHDGAPISVTLVQPTAMNT 186
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 59.7 bits (145), Expect = 1e-10
Identities = 56/206 (27%), Positives = 83/206 (40%), Gaps = 30/206 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G G+ E L G V R + LD+L +R ++L + ++
Sbjct: 7 ITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLK---------ARYGDRLWVLQLDV 57
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE--KET 118
D V V A FA L I+ ++V+N GY F A E
Sbjct: 58 TDSAAVRAVVDRA-------FA----ALGRID--VVVSNAGYGL-----FGAAEELSDAQ 99
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
+ I N+I + + + +PH+ Q G +V +SS I P S+Y A+K + F
Sbjct: 100 IRRQI-DTNLIGSIQVIRAALPHLRRQGGGRIVQVSSEGGQIAYPGFSLYHATKWGIEGF 158
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATN 204
+ E GI V PG TN
Sbjct: 159 VEAVAQEVAPFGIEFTIVEPGPARTN 184
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 59.2 bits (144), Expect = 1e-10
Identities = 55/208 (26%), Positives = 84/208 (40%), Gaps = 29/208 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A A+ G A LG L++R + L AA +
Sbjct: 7 ITGASSGIGQALAREYARQG----------------ATLG----LVARRTDALQAFAARL 46
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNNVGYSYPYPERFLAVPEKE 117
+V V AD D A + G +++ N G S E
Sbjct: 47 PKAARV--SVYAADVRDADALAAAAADFIA-AHGLPDVVIANAGISV---GTLTEEREDL 100
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
V+ +M N +++ Q + M R+G +V I+S A + P Y ASK K
Sbjct: 101 AVFREVMDTNYFGMVATFQPFIAPMRAARRGTLVGIASVAGVRGLPGAGAYSASKAAAIK 160
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ L+ E + G+ V + PGY+ T M
Sbjct: 161 YLESLRVELRPAGVRVVTIAPGYIRTPM 188
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 59.3 bits (144), Expect = 2e-10
Identities = 60/212 (28%), Positives = 90/212 (42%), Gaps = 35/212 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK----LGIDVVLISRTKEKLDNV 56
+TGA G+G+A A LA G ++ L R + L LG V +
Sbjct: 5 VTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGGTVPE---------HR 55
Query: 57 AAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYS-YPYPERFLAVPE 115
A +I D D VA F AH + +++N G S + +R
Sbjct: 56 ALDISD---YDA---VAAFAADIHAAHGSMD-------VVMNIAGISAWGTVDRLTHEQW 102
Query: 116 KETVYHNIMH-CNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKL 173
+ V N+M +VI + +P MV +G +VN+SS A L+ P + Y ASK
Sbjct: 103 RRMVDVNLMGPIHVI------ETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASKF 156
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ S L+ + +HGI V V+PG V T +
Sbjct: 157 GLRGLSEVLRFDLARHGIGVSVVVPGAVKTPL 188
>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 = 59.1 bits (143), Expect = 2e-10
Identities = 47/213 (22%), Positives = 90/213 (42%), Gaps = 36/213 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G A ++R L + G+ VV +R +K++ +AAE
Sbjct: 11 VTGASVGIGAA--------------VARA------LVQHGMKVVGCARRVDKIEALAAEC 50
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ D ++ + +F+ + + G++ + +NN G + P P L+ +
Sbjct: 51 QSAGYPTLFPYQCDLSNEEQILSMFSAIRTQHQGVD--VCINNAGLARPEP--LLSGKTE 106
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQR--KGVVVNISSTAA--LIPSPMLSVYGASK 172
+ + NV+ L + M E+ G ++NI+S + + P + Y A+K
Sbjct: 107 G--WKEMFDVNVLALSICTREAYQSMKERNVDDGHIININSMSGHRVPPVSVFHFYAATK 164
Query: 173 LFVSKFSTDLQSE--YKKHGIIVQCVMPGYVAT 203
V+ + L+ E K I + PG V T
Sbjct: 165 HAVTALTEGLRQELREAKTHIRATSISPGLVET 197
>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 = 58.7 bits (142), Expect = 2e-10
Identities = 47/212 (22%), Positives = 80/212 (37%), Gaps = 33/212 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+DG+G+ A A+ G V+L LG R +EKL VA I
Sbjct: 9 VTGASDGIGREAALTYARYGATVIL-------------LG-------RNEEKLRQVADHI 48
Query: 61 RDKYKVDTKVIVADFTDP------KIFAHVEKELTGIEAGILVNNVGYSY-PYPERFLAV 113
++ + + D ++ + ++ G+L +N G P
Sbjct: 49 NEEGGRQPQWFILDLLTCTSENCQQLAQRIAVNYPRLD-GVL-HNAGLLGDVCPLSEQ-- 104
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
V+ ++ NV + Q ++P +++ G +V SS+ Y SK
Sbjct: 105 --NPQVWQDVXQVNVNATFMLTQALLPLLLKSDAGSLVFTSSSVGRQGRANWGAYAVSKF 162
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
L EY++ + V C+ PG T M
Sbjct: 163 ATEGLXQVLADEYQQRNLRVNCINPGGTRTAM 194
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 58.4 bits (142), Expect = 2e-10
Identities = 56/207 (27%), Positives = 87/207 (42%), Gaps = 38/207 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G A A LA T ++L R E+LD +AAE+
Sbjct: 8 ITGASRGIGAAIARELA----------PTH-----------TLLLGGRPAERLDELAAEL 46
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET-V 119
D TDP+ A ++L ++ LV+N G + P V E
Sbjct: 47 P-----GATPFPVDLTDPEAIAAAVEQLGRLDV--LVHNAGVADLGP-----VAESTVDE 94
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ + NV+ + ++++P + G VV I+S A L +P Y ASK + +
Sbjct: 95 WRATLEVNVVAPAELTRLLLPALRAAH-GHVVFINSGAGLRANPGWGSYAASKFALRALA 153
Query: 180 TDLQSEYKKHGII-VQCVMPGYVATNM 205
L+ E + G + V V PG T+M
Sbjct: 154 DALREE--EPGNVRVTSVHPGRTDTDM 178
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 58.0 bits (140), Expect = 4e-10
Identities = 69/265 (26%), Positives = 98/265 (36%), Gaps = 76/265 (28%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD-------NLAKLGIDVVLISRTKEKL 53
ITGAT G+GK A AK G V+ R + LD N+ L DV TK L
Sbjct: 6 ITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDELHTQSANIFTLAFDVTDHPGTKAAL 65
Query: 54 DNVA------------AEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVG 101
+ E D KVD ++ F VN +G
Sbjct: 66 SQLPFIPELWIFNAGDCEYMDDGKVDATLMARVFN--------------------VNVLG 105
Query: 102 YSYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIP 161
V + Q PH+ VV + S A+ +
Sbjct: 106 --------------------------VANCIEGIQ---PHL--SCGHRVVIVGSIASELA 134
Query: 162 SPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATF 221
P YGASK V+ F+ LQ + + GI V V PG+VAT ++ K+++ +P T
Sbjct: 135 LPRAEAYGASKAAVAYFARTLQLDLRPKGIEVVTVFPGFVATPLT--DKNTFAMPMIIT- 191
Query: 222 VDSALKTIGIQ---NQTTGYYPHCF 243
V+ A + I Q ++ Y+P F
Sbjct: 192 VEQASQEIRAQLARGKSHIYFPARF 216
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 57.8 bits (140), Expect = 5e-10
Identities = 55/213 (25%), Positives = 89/213 (41%), Gaps = 41/213 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG+ G+G+A A LAK G VV V + E+++ +
Sbjct: 11 VTGSGRGIGRAIAVRLAKEGSLVV-------------------VNAKKRAEEMNETLKMV 51
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG--ILVNNVGYSYPYPERFLAVPEK-- 116
++ + ++AD + + + K ILVNN G P FL V +K
Sbjct: 52 KE-NGGEGIGVLADVSTREGCETLAKATIDRYGVADILVNNAGLGLFSP--FLNVDDKLI 108
Query: 117 ----ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
T + ++++C+ Q + M E G +VNI+S A + P+ LS+YGA K
Sbjct: 109 DKHISTDFKSVIYCS--------QELAKEMRE--GGAIVNIASVAGIRPAYGLSIYGAMK 158
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V + L E I V + PG+V T +
Sbjct: 159 AAVINLTKYLALELAPK-IRVNAIAPGFVKTKL 190
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 57.1 bits (138), Expect = 9e-10
Identities = 60/215 (27%), Positives = 94/215 (43%), Gaps = 33/215 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDV-VLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
ITG T G+G+A AE + G V VL + + + L + G+ + K + N
Sbjct: 12 ITGGTRGIGRAIAEAFLREGAKVAVLYNSAENEAKELREKGVFTI-----KCDVGN---- 62
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYP-ERFLAVPEKET 118
RD+ K K VEKE ++ +LVNN G Y P E F E
Sbjct: 63 -RDQVK-------------KSKEVVEKEFGRVD--VLVNNAGIMYLMPFEEF-----DEE 101
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAAL-IPSPMLSVYGASKLFVSK 177
Y+ ++ N+ + +P + + G +VNI+S A + + + Y +K +
Sbjct: 102 KYNKMIKINLNGAIYTTYEFLPLLKLSKNGAIVNIASNAGIGTAAEGTTFYAITKAGIII 161
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSS 212
+ L E K+GI V V PG+V T+M+ KS
Sbjct: 162 LTRRLAFELGKYGIRVNAVAPGWVETDMTLSGKSQ 196
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 57.1 bits (138), Expect = 1e-09
Identities = 57/214 (26%), Positives = 88/214 (41%), Gaps = 35/214 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G A A A+ G V L R ++ + V I
Sbjct: 7 ITGASRGIGAATALLAAERGYAVCLNYL-------------------RNRDAAEAVVQAI 47
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
R + + + AD D ++F V++EL ++A LVNN G E + + +
Sbjct: 48 RRQ-GGEALAVAADVADEADVLRLFEAVDRELGRLDA--LVNNAGIL----EAQMRLEQM 100
Query: 117 ETV-YHNIMHCNVITLLSMCQIVMPHMVEQ---RKGVVVNISSTAALIPSPMLSV-YGAS 171
+ I NV+ + + M + R G +VN+SS AA + SP + Y AS
Sbjct: 101 DAARLTRIFATNVVGSFLCAREAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYIDYAAS 160
Query: 172 KLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
K + + L E GI V V PG + T +
Sbjct: 161 KGAIDTMTIGLAKEVAAEGIRVNAVRPGVIYTEI 194
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 57.0 bits (138), Expect = 1e-09
Identities = 54/211 (25%), Positives = 83/211 (39%), Gaps = 42/211 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G A AE A G + L++R + L+ L AA++
Sbjct: 12 ITGASKGIGAAAAEAFAAEGCHLHLVARDADALEAL--------------------AADL 51
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE----- 115
R + VD V D + P+ + E I+ ILVNN G A+P
Sbjct: 52 RAAHGVDVAVHALDLSSPEAREQLAAEAGDID--ILVNNAG----------AIPGGGLDD 99
Query: 116 -KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSP--MLSVYGASK 172
+ + V + + ++ P M + GV+VN+ A P + G +
Sbjct: 100 VDDAAWRAGWELKVFGYIDLTRLAYPRMKARGSGVIVNVIGAAGENPDADYICGSAGNAA 159
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
L F+ L + G+ V V PG VAT
Sbjct: 160 LMA--FTRALGGKSLDDGVRVVGVNPGPVAT 188
>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 = 56.8 bits (137), Expect = 1e-09
Identities = 54/213 (25%), Positives = 88/213 (41%), Gaps = 24/213 (11%)
Query: 1 ITGATDGLGKAYAEGLAKL----GIDVVLISRTKEKLDNL-AKLGIDVVLISRTKEKLD- 54
+TGA+ G G+ A+ LAK G +VL +R E L L A++G + + + LD
Sbjct: 5 VTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRVSLDL 64
Query: 55 NVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
A + K + + PK G++ +L+NN G + F+ +
Sbjct: 65 GAEAGLEQLLK-----ALRELPRPK----------GLQRLLLINNAGTLGDVSKGFVDLS 109
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQR--KGVVVNISSTAALIPSPMLSVYGASK 172
+ V N N+ ++L + V+ + VVNISS A+ P ++Y A K
Sbjct: 110 DSTQV-QNYWALNLTSMLCLTSSVLKAFKDSPGLNRTVVNISSLCAIQPFKGWALYCAGK 168
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
L E K + V PG + T+M
Sbjct: 169 AARDMLFQVLALEEKNPNVRVLNYAPGVLDTDM 201
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 56.4 bits (136), Expect = 1e-09
Identities = 58/211 (27%), Positives = 93/211 (44%), Gaps = 29/211 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG + G+G+A A LA+ G V + NL V LI++ K + A+I
Sbjct: 6 VTGGSRGIGRATALLLAQEGYTVAV-----NYQQNLHAAQEVVNLITQAGGKAFVLQADI 60
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVG--YSYPYPERFLAVPEKET 118
D+ +V +F +++ + A LVNN G ++ E A E
Sbjct: 61 SDENQVVA-----------MFTAIDQHDEPLAA--LVNNAGILFTQCTVENLTA----ER 103
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQ---RKGVVVNISSTAALIPSPMLSV-YGASKLF 174
+ + ++ NV C+ + M + G +VN+SS A+ + +P V Y ASK
Sbjct: 104 I-NRVLSTNVTGYFLCCREAVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVDYAASKGA 162
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ +T L E GI V CV PG++ T M
Sbjct: 163 IDTLTTGLSLEVAAQGIRVNCVRPGFIYTEM 193
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 57.5 bits (140), Expect = 1e-09
Identities = 51/204 (25%), Positives = 77/204 (37%), Gaps = 35/204 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+GKA A+ LA G VVL D +D +E + AAE+
Sbjct: 427 VTGAAGGIGKATAKRLAAEGACVVL-------AD------LD-------EEAAEAAAAEL 466
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + D TD F G++ I+V+N G + P ++
Sbjct: 467 GGPDRALG--VACDVTDEAAVQAAFEEAALAFGGVD--IVVSNAGIAISGP--IEETSDE 520
Query: 117 E-TVYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKLF 174
+ ++ N + + + M Q G +V I+S A+ P P YGA+K
Sbjct: 521 DWRRSFDV---NATGHFLVAREAVRIMKAQGLGGSIVFIASKNAVNPGPNFGAYGAAKAA 577
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMP 198
L E GI V V P
Sbjct: 578 ELHLVRQLALELGPDGIRVNGVNP 601
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 55.3 bits (134), Expect = 3e-09
Identities = 38/169 (22%), Positives = 68/169 (40%), Gaps = 5/169 (2%)
Query: 37 AKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGIL 96
A G + L +R E+L+ +A ++R + V D D A L + +L
Sbjct: 22 AAAGARLYLAARDVERLERLADDLRARGAVAVSTHELDILDTASHAAFLDSLPALPDIVL 81
Query: 97 VNNVGYSYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISST 156
+ VG ++ + N +++ ++ + G +V ISS
Sbjct: 82 IA-VGT---LGDQAACEADPALALR-EFRTNFEGPIALLTLLANRFEARGSGTIVGISSV 136
Query: 157 AALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
A VYG++K ++ F + L++ K G+ V V PG+V T M
Sbjct: 137 AGDRGRASNYVYGSAKAALTAFLSGLRNRLFKSGVHVLTVKPGFVRTPM 185
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 55.4 bits (134), Expect = 4e-09
Identities = 56/232 (24%), Positives = 90/232 (38%), Gaps = 34/232 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A+ LA+ G V++ SR KLD VA I
Sbjct: 13 VTGASRGIGEAIAKLLAQQGAHVIVSSR---KLDGCQA-----------------VADAI 52
Query: 61 RDK-YKVDTKVI-VADFTDPK-IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
K + + + +FAH+ + ++ ILVNN + PY L
Sbjct: 53 VAAGGKAEALACHIGEMEQIDALFAHIRERHGRLD--ILVNNAA-ANPYFGHILDTDL-- 107
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ + N+ M M EQ G +VN++S + P +Y +K V
Sbjct: 108 GAFQKTVDVNIRGYFFMSVEAGKLMKEQGGGSIVNVASVNGVSPGDFQGIYSITKAAVIS 167
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTI 229
+ E GI V ++PG ++ K +S + + A AL I
Sbjct: 168 MTKAFAKECAPFGIRVNALLPG-----LTDTKFASALFKNDAIL-KQALAHI 213
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 55.3 bits (133), Expect = 5e-09
Identities = 55/214 (25%), Positives = 86/214 (40%), Gaps = 44/214 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G+A A A+ G D+ L +E+ D AAE+
Sbjct: 60 ITGADSGIGRATAIAFAREGADIALNYLPEEEQD----------------------AAEV 97
Query: 61 RDKYKVDTKVIVA---DFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAV 113
+ + + VA D D ++ KEL G++ ILVN G + AV
Sbjct: 98 VQLIQAEGRKAVALPGDLKDEAFCRQLVERAVKELGGLD--ILVNIAG-------KQTAV 148
Query: 114 PEKETVYHN----IMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYG 169
+ + NV + +C+ +PH+ ++N S + PSP L Y
Sbjct: 149 KDIADITTEQFDATFKTNVYAMFWLCKAAIPHL--PPGASIINTGSIQSYQPSPTLLDYA 206
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
++K + F+ L + + GI V V PG V T
Sbjct: 207 STKAAIVAFTKALAKQVAEKGIRVNAVAPGPVWT 240
>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 = 54.8 bits (132), Expect = 6e-09
Identities = 44/191 (23%), Positives = 63/191 (32%), Gaps = 18/191 (9%)
Query: 44 VLISRTKEKLDNVAAEIRDKYKVDTKVIVA-------------DFTDPKIFAHVEKELTG 90
V ++ K V A +RD K A D D K A + +T
Sbjct: 18 VRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLETLQLDVCDSKSVAAAVERVTE 77
Query: 91 IEAGILVNNVGYSYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVV 150
+LV N G P L+ +V NV + M Q +P M + G +
Sbjct: 78 RHVDVLVCNAGVGLLGPLEALSEDAMASV----FDVNVFGTVRMLQAFLPDMKRRGSGRI 133
Query: 151 VNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN-MSKIK 209
+ SS L P VY ASK + L + + + + G V T M K+
Sbjct: 134 LVTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQLLPFNVHLSLIECGPVHTAFMEKVL 193
Query: 210 KSSWMVPSPAT 220
S V
Sbjct: 194 GSPEEVLDRTA 204
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 53.8 bits (130), Expect = 9e-09
Identities = 47/205 (22%), Positives = 79/205 (38%), Gaps = 37/205 (18%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G A A G V G+D + ++
Sbjct: 10 ITGAASGIGLAQARAFLAQGAQVY---------------GVDKQDKPDLSGNFHFLQLDL 54
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
D D + + I + AGIL Y + L +E +
Sbjct: 55 SD----DLEPLFDWVPSVDILCNT--------AGILD---DY-----KPLLDTSLEE--W 92
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFST 180
+I N+ + + + +P M+E++ G+++N+ S A+ + + Y ASK ++ F+
Sbjct: 93 QHIFDTNLTSTFLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAYTASKHALAGFTK 152
Query: 181 DLQSEYKKHGIIVQCVMPGYVATNM 205
L +Y K GI V + PG V T M
Sbjct: 153 QLALDYAKDGIQVFGIAPGAVKTPM 177
>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 = 53.7 bits (129), Expect = 1e-08
Identities = 53/208 (25%), Positives = 86/208 (41%), Gaps = 26/208 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG GLG A A LAK G + L+ +E L+ K L +A +
Sbjct: 8 ITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEA-------------AKAALLEIAPDA 54
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVEK--ELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
+I AD +D ++ A+V+ E G G NN G ++ L
Sbjct: 55 E------VLLIKADVSDEAQVEAYVDATVEQFGRIDG-FFNNAGIE---GKQNLTEDFGA 104
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ ++ N+ + + V+ M EQ G++VN +S + S Y A+K V
Sbjct: 105 DEFDKVVSINLRGVFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYAAAKHGVVG 164
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + EY ++GI + + PG + T M
Sbjct: 165 LTRNSAVEYGQYGIRINAIAPGAILTPM 192
>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 = 53.6 bits (129), Expect = 1e-08
Identities = 54/208 (25%), Positives = 82/208 (39%), Gaps = 28/208 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+GK AE LAK G V + +E AK I++ K ++
Sbjct: 5 VTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKE------INQAGGKAVAYKLDV 58
Query: 61 RDKYKVDTKV--IVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
DK +V + + F F ++VNN G + P L + E+E
Sbjct: 59 SDKDQVFSAIDQAAEKFGG---FD------------VMVNNAGVAPITP--ILEITEEE- 100
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ + NV +L Q +Q G ++N +S A +P+LS Y ++K V
Sbjct: 101 -LKKVYNVNVKGVLFGIQAAARQFKKQGHGGKIINAASIAGHEGNPILSAYSSTKFAVRG 159
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ E GI V PG V T M
Sbjct: 160 LTQTAAQELAPKGITVNAYCPGIVKTPM 187
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 53.3 bits (129), Expect = 2e-08
Identities = 55/222 (24%), Positives = 90/222 (40%), Gaps = 53/222 (23%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKL----DNLAKLG------IDVVLISRTK 50
+TGA DG+G+ A A+ G V+L+ RT+EKL D + G I + L++ T
Sbjct: 17 VTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPLDLLTATP 76
Query: 51 EKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGI--EAGILVNNVGYSYPYPE 108
+ +A I ++ F L G+ AG+L G P +
Sbjct: 77 QNYQQLADTIEEQ-----------------FGR----LDGVLHNAGLL----GELGPMEQ 111
Query: 109 RFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVY 168
+ V+ ++M NV + Q ++P +++ +V SS+ Y
Sbjct: 112 ------QDPEVWQDVMQVNVNATFMLTQALLPLLLKSPAASLVFTSSSVGRQGRANWGAY 165
Query: 169 GASKLFVSKFSTD-----LQSEYKKHGIIVQCVMPGYVATNM 205
VSKF+T+ L EY+ + V C+ PG T M
Sbjct: 166 A-----VSKFATEGMMQVLADEYQGTNLRVNCINPGGTRTAM 202
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 53.1 bits (128), Expect = 2e-08
Identities = 46/183 (25%), Positives = 69/183 (37%), Gaps = 43/183 (23%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG T GLG A A A+ G A +V+ R EK + AAE+
Sbjct: 11 VTGGTQGLGAAIARAFAERG----------------AA---GLVICGRNAEKGEAQAAEL 51
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSY------PYPERF 110
+ AD +D ++ A ++ ++A LVN G + PE F
Sbjct: 52 E-ALGAKAVFVQADLSDVEDCRRVVAAADEAFGRLDA--LVNAAGLTDRGTILDTSPELF 108
Query: 111 LAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYG 169
NV + Q + M ++ +G +VNI S +A P L+ Y
Sbjct: 109 DR----------HFAVNVRAPFFLMQEAIKLMRRRKAEGTIVNIGSMSAHGGQPFLAAYC 158
Query: 170 ASK 172
ASK
Sbjct: 159 ASK 161
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 53.2 bits (128), Expect = 2e-08
Identities = 49/209 (23%), Positives = 86/209 (41%), Gaps = 33/209 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEK-----LDNLAKLGIDVVLISRTKEKLDN 55
ITG + GLG+A A K VV+ R+ E+ + + K G + + + +
Sbjct: 12 ITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKKAGGEAIAVKGDVTVESD 71
Query: 56 VAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
V + T V KE ++ +++NN G P +++ +
Sbjct: 72 VVN------LIQTAV---------------KEFGTLD--VMINNAGIENAVPSHEMSLED 108
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLF 174
++ +++ N+ + + + VE KG ++N+SS IP P+ Y ASK
Sbjct: 109 ----WNKVINTNLTGAFLGSREAIKYFVEHDIKGNIINMSSVHEQIPWPLFVHYAASKGG 164
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
V + L EY GI V + PG + T
Sbjct: 165 VKLMTETLAMEYAPKGIRVNNIGPGAINT 193
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 52.3 bits (125), Expect = 3e-08
Identities = 55/213 (25%), Positives = 88/213 (41%), Gaps = 34/213 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL-----ISRTKEKLDNLAKLGIDVVLISRTKEKLDN 55
+TG G+G + + L K G VV R + L++ LG D +
Sbjct: 8 VTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRRVKWLEDQKALGFDFI----------- 56
Query: 56 VAAEIRDKYKVDTKVIVADFTDPK-IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
A+E V D+ K F V+ E+ E +LVNN G + R +
Sbjct: 57 -ASEGN----------VGDWDSTKAAFDKVKAEVG--EIDVLVNNAGITRDVVFRKMTRE 103
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
+ V + N+ +L ++ + V+ MVE+ G ++NISS + Y +K
Sbjct: 104 DWTAV----IDTNLTSLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAG 159
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSK 207
+ F+ L E G+ V V PGY+ T+M K
Sbjct: 160 IHGFTMSLAQEVATKGVTVNTVSPGYIGTDMVK 192
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 52.4 bits (126), Expect = 3e-08
Identities = 56/211 (26%), Positives = 84/211 (39%), Gaps = 41/211 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G A A LA G VV+ ID K A E+
Sbjct: 12 ITGGGSGIGLATARRLAAEGATVVVGD-------------IDP---EAGKA----AADEV 51
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + D TD +F + ++ I NN G S P + L
Sbjct: 52 GGLF------VPTDVTDEDAVNALFDTAAETYGSVD--IAFNNAGISPPEDDSIL----- 98
Query: 117 ET---VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSV-YGASK 172
T + + N+ ++ C+ +PHMV Q KG ++N +S A++ S + Y ASK
Sbjct: 99 NTGLDAWQRVQDVNLTSVYLCCKAALPHMVRQGKGSIINTASFVAVMGSATSQISYTASK 158
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
V S +L ++ + GI V + PG V T
Sbjct: 159 GGVLAMSRELGVQFARQGIRVNALCPGPVNT 189
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 51.9 bits (124), Expect = 4e-08
Identities = 51/206 (24%), Positives = 88/206 (42%), Gaps = 24/206 (11%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL-ISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
+TG G+GKA LA+ G VV+ + +KE +NL KE D A +
Sbjct: 11 VTGGAKGIGKAITVALAQEGAKVVINYNSSKEAAENLVN--------ELGKEGHDVYAVQ 62
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
D +V + + F V+ ILVNN G + +R +E
Sbjct: 63 ADVSKVEDANRLVEEAVNH--FGKVD---------ILVNNAGITR---DRTFKKLNRED- 107
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ ++ N+ ++ + V+P++ E +G +++ISS + Y A+K + F+
Sbjct: 108 WERVIDVNLSSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQTNYSAAKAGMLGFT 167
Query: 180 TDLQSEYKKHGIIVQCVMPGYVATNM 205
L E K + V + PG++ T M
Sbjct: 168 KSLALELAKTNVTVNAICPGFIDTEM 193
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 52.1 bits (125), Expect = 6e-08
Identities = 53/218 (24%), Positives = 87/218 (39%), Gaps = 54/218 (24%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A LA+ G VL E + +I
Sbjct: 11 ITGASTGIGQASAIALAQEGA---------------------YVLAVDIAEAVSETVDKI 49
Query: 61 RDK------YKVDTKVIVADFTDPKIFA-HVEKELTGIEAGILVNNVG--------YSYP 105
+ Y VD ++D K FA ++++ ++ +L NN G + YP
Sbjct: 50 KSNGGKAKAYHVD----ISDEQQVKDFASEIKEQFGRVD--VLFNNAGVDNAAGRIHEYP 103
Query: 106 YPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPML 165
V+ IM ++ M ++++P M+EQ G ++N SS +
Sbjct: 104 V-----------DVFDKIMAVDMRGTFLMTKMLLPLMMEQ-GGSIINTSSFSGQAADLYR 151
Query: 166 SVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
S Y A+K V F+ + EY + GI + PG + T
Sbjct: 152 SGYNAAKGAVINFTKSIAIEYGRDGIRANAIAPGTIET 189
>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 = 51.5 bits (123), Expect = 8e-08
Identities = 51/207 (24%), Positives = 79/207 (38%), Gaps = 29/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLA-KLGIDVVLISRTKEKLDNVAAE 59
ITG+ G+G+A+A+ + G V + E A ++G IS +
Sbjct: 8 ITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAACAIS----------LD 57
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
+ D+ +D + A + I+ ILVNN P V
Sbjct: 58 VTDQASID-----------RCVAALVDRWGSID--ILVNNAALFDLAP----IVDITRES 100
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
Y + NV L M Q V M+ Q R G ++N++S A ++ VY A+K V
Sbjct: 101 YDRLFAINVSGTLFMMQAVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISL 160
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNM 205
+ +HGI V + PG V
Sbjct: 161 TQSAGLNLIRHGINVNAIAPGVVDGEH 187
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 51.1 bits (123), Expect = 1e-07
Identities = 52/212 (24%), Positives = 79/212 (37%), Gaps = 44/212 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A + LA+ G V+ R+ D A E+
Sbjct: 12 VTGGASGIGAAISLRLAEEGAIPVIFGRSAPD---------------------DEFAEEL 50
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYS-----YPYPERFL 111
R + + + D TD + I+ LVNN G + E F+
Sbjct: 51 R-ALQPRAEFVQVDLTDDAQCRDAVEQTVAKFGRIDG--LVNNAGVNDGVGLEAGREAFV 107
Query: 112 AVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGAS 171
A E+ N++H V M +PH+ + +G +VNISS AL S Y A+
Sbjct: 108 ASLER-----NLIHYYV-----MAHYCLPHL-KASRGAIVNISSKTALTGQGGTSGYAAA 156
Query: 172 KLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
K + + K G+ V V+P V T
Sbjct: 157 KGAQLALTREWAVALAKDGVRVNAVIPAEVMT 188
>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 = 45/204 (22%), Positives = 69/204 (33%), Gaps = 35/204 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G A A+ LA G VV+ ID E + VA
Sbjct: 6 VTGGASGIGLAIAKRLAAEGAAVVV-------------ADID-------PEIAEKVAEAA 45
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + D T F E G++ I+V+N G + P +
Sbjct: 46 Q--GGPRALGVQCDVTSEAQVQSAFEQAVLEFGGLD--IVVSNAGIATSSP--IAETSLE 99
Query: 117 E-TVYHNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKLF 174
+ +I + M Q G +V +S A+ P P + Y A+K
Sbjct: 100 DWNRSMDINLTGHFLVSREA---FRIMKSQGIGGNIVFNASKNAVAPGPNAAAYSAAKAA 156
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMP 198
+ + L E + GI V V P
Sbjct: 157 EAHLARCLALEGGEDGIRVNTVNP 180
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 50.5 bits (121), Expect = 1e-07
Identities = 56/219 (25%), Positives = 85/219 (38%), Gaps = 38/219 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G A A LA G V + N A D + AEI
Sbjct: 10 VTGASRGIGAAIARRLAADGFAVAV---------NYAGSA----------AAADELVAEI 50
Query: 61 RDK------YKVDTKVIVADFTD-PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAV 113
+ D VAD ++F E I+ +LVNN G +A
Sbjct: 51 EAAGGRAIAVQAD----VADAAAVTRLFDAAETAFGRID--VLVNNAGVMPLGT---IAD 101
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ E + + N+ + + H+ + G ++N+S++ +P P Y ASK
Sbjct: 102 FDLED-FDRTIATNLRGAFVVLREAARHL--GQGGRIINLSTSVIALPLPGYGPYAASKA 158
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSS 212
V L +E + GI V V PG VAT + KS+
Sbjct: 159 AVEGLVHVLANELRGRGITVNAVAPGPVATELFFNGKSA 197
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 49.5 bits (119), Expect = 3e-07
Identities = 64/246 (26%), Positives = 100/246 (40%), Gaps = 54/246 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A AKL A+ G VV+ +R + +LD + AEI
Sbjct: 11 ITGASSGIGRA----AAKL----------------FAREGAKVVVGARRQAELDQLVAEI 50
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNN---VGYSYPYPERFLAVP 114
R + + + D D +A L G I NN +G P E +
Sbjct: 51 RAE-GGEAVALAGDVRDEA-YAKALVALAVERFGGLDIAFNNAGTLGEMGPVAE----MS 104
Query: 115 EKETVYHNIMHCNVIT--LLSMCQIVMPHMVEQRKGVVVNISS----TAALIPSPMLSVY 168
+ + + N+ + L + QI P M+ + G ++ S+ TA P ++ Y
Sbjct: 105 LEG--WRETLATNLTSAFLGAKHQI--PAMLARGGGSLIFTSTFVGHTAGF---PGMAAY 157
Query: 169 GASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPAT--FVDS-- 224
ASK + + L +EY GI V ++PG T M + M +P FV
Sbjct: 158 AASKAGLIGLTQVLAAEYGAQGIRVNALLPGGTDTPMGRA-----MGDTPEALAFVAGLH 212
Query: 225 ALKTIG 230
ALK +
Sbjct: 213 ALKRMA 218
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 49.7 bits (119), Expect = 3e-07
Identities = 48/204 (23%), Positives = 81/204 (39%), Gaps = 30/204 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS-RTKEKLDNVAAE 59
ITG + G+G A L + G V+ R + + + LG +L+ E ++ A E
Sbjct: 7 ITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARMNSLGFTGILLDLDDPESVERAADE 66
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
V TD +++ L NN G+ P ++ + E
Sbjct: 67 ------------VIALTDNRLYG-------------LFNNAGFGVYGPLSTISRQQMEQQ 101
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
+ N + +++P M+ +G +V SS LI +P Y ASK + +S
Sbjct: 102 FST----NFFGTHQLTMLLLPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYALEAWS 157
Query: 180 TDLQSEYKKHGIIVQCVMPGYVAT 203
L+ E + GI V + PG + T
Sbjct: 158 DALRMELRHSGIKVSLIEPGPIRT 181
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 49.3 bits (117), Expect = 4e-07
Identities = 55/212 (25%), Positives = 84/212 (39%), Gaps = 34/212 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKL----DNLAKLGIDVVLISRTKEKLDNV 56
ITGA+ G+GK A + G V + +R + L D + G VV + + V
Sbjct: 14 ITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSGGKVVPVCCDVSQHQQV 73
Query: 57 AAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + V EL GI+ I V N G P L +P +
Sbjct: 74 TS---------------------MLDQVTAELGGID--IAVCNAGIITVTP--MLDMPLE 108
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKG--VVVNISSTAALIPSP-MLSVYGASKL 173
E + + + NV + Q MV+Q +G ++ S + +I P +S Y ASK
Sbjct: 109 E--FQRLQNTNVTGVFLTAQAAAKAMVKQGQGGVIINTASMSGHIINVPQQVSHYCASKA 166
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V + + E H I V V PGY+ T +
Sbjct: 167 AVIHLTKAMAVELAPHKIRVNSVSPGYILTEL 198
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 48.9 bits (116), Expect = 5e-07
Identities = 54/235 (22%), Positives = 97/235 (41%), Gaps = 29/235 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLI--SRTKEKLDNLAKL---GIDVVLISRTKEKLDN 55
+TGA+ G+G+A A+ LA G V + +R +E + + ++ G I E L
Sbjct: 9 VTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIGANLESLHG 68
Query: 56 VAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
V A +D ++ + + IL+NN G P F+
Sbjct: 69 VEALYS---SLDNEL--------------QNRTGSTKFDILINNAGIG---PGAFIE-ET 107
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
E + ++ N + Q + + + + ++NISS A I P Y +K +
Sbjct: 108 TEQFFDRMVSVNAKAPFFIIQQALSRLRDNSR--IINISSAATRISLPDFIAYSMTKGAI 165
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATFVDSALKTIG 230
+ + L + GI V ++PG++ T+M+ S M+ AT + SA +G
Sbjct: 166 NTMTFTLAKQLGARGITVNAILPGFIKTDMNAELLSDPMMKQYATTI-SAFNRLG 219
>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 = 48.3 bits (115), Expect = 6e-07
Identities = 42/206 (20%), Positives = 69/206 (33%), Gaps = 42/206 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
I GAT G+G+A A LA G ++L R L LA
Sbjct: 3 ILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLA----------------------- 39
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNNVGYSYPYPERFLAVPEKE 117
+ + A D + A +E E G +LV G P K
Sbjct: 40 AEVGAL------ARPAD--VAAELEVWALAQELGPLDLLVYAAGAILGKP----LARTKP 87
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ I+ N+ + + + + + V + + L+ P LS Y A+K +
Sbjct: 88 AAWRRILDANLTGAALVLKHALALLAAGARLVF--LGAYPELVMLPGLSAYAAAKAALEA 145
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ + E + + + V P V T
Sbjct: 146 YVEVARKEVRGLRLTL--VRPPAVDT 169
>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 = 48.3 bits (115), Expect = 6e-07
Identities = 22/79 (27%), Positives = 33/79 (41%)
Query: 127 NVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEY 186
NV+ + + M +R G + ISS A L +P L Y ASK + + SE
Sbjct: 62 NVVGTRRLLEAARELMKAKRLGRFILISSVAGLFGAPGLGGYAASKAALDGLAQQWASEG 121
Query: 187 KKHGIIVQCVMPGYVATNM 205
+G+ V G A +
Sbjct: 122 WGNGLPATAVACGTWAGSG 140
Score = 35.6 bits (82), Expect = 0.011
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNV 56
+TG + G+G A A LA G VL+ ++ + + A + D LI T +++
Sbjct: 3 VTGGSGGIGGAIARWLASRGSPKVLVVSRRDVVVHNAAILDDGRLIDLTGSRIERA 58
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 48.5 bits (116), Expect = 8e-07
Identities = 47/208 (22%), Positives = 80/208 (38%), Gaps = 30/208 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG + GLG A AE L + GI V+ ++R++ L + E+L V ++
Sbjct: 6 VTGHSRGLGAALAEQLLQPGIAVLGVARSR-----------HPSLAAAAGERLAEVELDL 54
Query: 61 RDKYKVDT---KVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
D ++A F D + V +L+NN G P +
Sbjct: 55 SDAAAAAAWLAGDLLAAFVDG--ASRV----------LLINNAGTVEPI-GPLATLDAAA 101
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ NV L + + + + +++ISS AA SVY A+K +
Sbjct: 102 IARA--VGLNVAAPLMLTAALAQAASDAAERRILHISSGAARNAYAGWSVYCATKAALDH 159
Query: 178 FSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + + + IV + PG V T M
Sbjct: 160 HARAVALDANRALRIVS-LAPGVVDTGM 186
>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 = 48.3 bits (115), Expect = 9e-07
Identities = 38/171 (22%), Positives = 77/171 (45%), Gaps = 12/171 (7%)
Query: 40 GIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFT---DPKIFAHVEKELTGIEAGIL 96
G VV +R + + +E+ K + D T D K V E G L
Sbjct: 33 GAKVVFCARGEAAGQALESELNRAGPGSCKFVPCDVTKEEDIKTLISVTVERFG-RIDCL 91
Query: 97 VNNVGYSYPYPERFLAVPEKETV--YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNIS 154
VNN G+ +P + ++ + + ++++ N+I+ + +PH+ + +G ++N+S
Sbjct: 92 VNNAGW-HPPHQT----TDETSAQEFRDLLNLNLISYFLASKYALPHL-RKSQGNIINLS 145
Query: 155 STAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
S I + Y A+K ++ + L + ++G+ V C+ PG + T +
Sbjct: 146 SLVGSIGQKQAAPYVATKGAITAMTKALAVDESRYGVRVNCISPGNIWTPL 196
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 47.9 bits (114), Expect = 1e-06
Identities = 41/139 (29%), Positives = 68/139 (48%), Gaps = 13/139 (9%)
Query: 40 GIDVVLISRTKEKLDNVAA-EIRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAG 94
GI +++R KE+ NV +I++ D D ++ K +V + I+
Sbjct: 17 GIGKAVVNRLKEEGSNVINFDIKEPSYNDVDYFKVDVSNKEQVIKGIDYVISKYGRID-- 74
Query: 95 ILVNNVGY-SYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNI 153
ILVNN G SY AV E E + I++ NV + M + +P+M++Q KGV++NI
Sbjct: 75 ILVNNAGIESY---GAIHAVEEDE--WDRIINVNVNGIFLMSKYTIPYMLKQDKGVIINI 129
Query: 154 SSTAALIPSPMLSVYGASK 172
+S + + + Y SK
Sbjct: 130 ASVQSFAVTRNAAAYVTSK 148
>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 = 47.8 bits (114), Expect = 1e-06
Identities = 46/216 (21%), Positives = 79/216 (36%), Gaps = 34/216 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+ G+G+A A LA G D+ + ++ V AE+
Sbjct: 6 VTGASRGIGRAIATELAARGFDIAINDL-------------------PDDDQATEVVAEV 46
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
AD + + ++ ++ LVNN G + L + E
Sbjct: 47 L-AAGRRAIYFQADIGELSDHEALLDQAWEDFGRLD--CLVNNAGIAVRPRGDLLDLTED 103
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRK------GVVVNISSTAALIPSPMLSVYGA 170
+ ++ N+ + Q V MVEQ ++ ++S A + SP Y
Sbjct: 104 S--FDRLIAINLRGPFFLTQAVARRMVEQPDRFDGPHRSIIFVTSINAYLVSPNRGEYCI 161
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
SK +S + L GI V + PG + T+M+
Sbjct: 162 SKAGLSMATRLLAYRLADEGIAVHEIRPGLIHTDMT 197
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 47.7 bits (113), Expect = 2e-06
Identities = 53/212 (25%), Positives = 85/212 (40%), Gaps = 30/212 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL-ISRTK----EKLDNLAKLGIDVVLISRTKEKLDN 55
+TGA+ G+G+A A LA G V + R K E + + G LI +D
Sbjct: 11 VTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIESNGGKAFLIEADLNSIDG 70
Query: 56 VAAEIRD-KYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
V + K ++ +V + E ILVNN G +
Sbjct: 71 VKKLVEQLKNELQIRVGTS------------------EIDILVNNAGIG----TQGTIEN 108
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
E ++ IM N+ + Q +P + + +G V+NISS + YG SK
Sbjct: 109 TTEEIFDEIMAVNIKAPFFLIQQTLPLL--RAEGRVINISSAEVRLGFTGSIAYGLSKGA 166
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
++ + L + GI V +MPGY T+++
Sbjct: 167 LNTMTLPLAKHLGERGITVNTIMPGYTKTDIN 198
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 47.2 bits (112), Expect = 2e-06
Identities = 46/213 (21%), Positives = 85/213 (39%), Gaps = 41/213 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKL----DNLAKLG------IDVVLISRTK 50
+TGA+ GLG+ A+ A G V+L++R ++KL D + + G I L+S +
Sbjct: 11 VTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRFDLMSAEE 70
Query: 51 EKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPY-PER 109
++ + AA I + G GI V+ GY Y P
Sbjct: 71 KEFEQFAATI------------------------AEATQGKLDGI-VHCAGYFYALSPLD 105
Query: 110 FLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYG 169
F V E + N N + + + + + P + + V+ + + P +G
Sbjct: 106 FQTVAE----WVNQYRINTVAPMGLTRALFPLLKQSPDASVIFVGESHGETPKAYWGGFG 161
Query: 170 ASKLFVSKFSTDLQSEYKKHGII-VQCVMPGYV 201
ASK ++ E+++ G + ++PG +
Sbjct: 162 ASKAALNYLCKVAADEWERFGNLRANVLVPGPI 194
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 46.7 bits (111), Expect = 3e-06
Identities = 49/210 (23%), Positives = 74/210 (35%), Gaps = 40/210 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G+A A G D VL + L A +
Sbjct: 7 VTGAAGGIGQALARRFLAAG-DRVL-------------------ALDIDAAALAAFADAL 46
Query: 61 RDKYKVDTKVIVADFTDP-KIFAHVEKELTGI-EAGILVNNVGYSYPYPERFLAVPEKET 118
D V + D TD + A + +LV N G + A +T
Sbjct: 47 GDARFV---PVACDLTDAASLAAALANAAAERGPVDVLVANAGAA-------RAASLHDT 96
Query: 119 ---VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISST--AALIPSPMLSVYGASKL 173
+ N+ + V+ M+++ +G VVNI S A + P Y A+K
Sbjct: 97 TPASWRADNALNLEAAYLCVEAVLEGMLKRSRGAVVNIGSVNGMAALGHP---AYSAAKA 153
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ ++ L EY + GI V PG V T
Sbjct: 154 GLIHYTKLLAVEYGRFGIRANAVAPGTVKT 183
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 46.5 bits (111), Expect = 3e-06
Identities = 45/203 (22%), Positives = 78/203 (38%), Gaps = 34/203 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGIDVVLISRTKEKLDNVAAE 59
+TG +G A A L G V ++ + +A LG I A +
Sbjct: 11 VTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGERARFI----------ATD 60
Query: 60 IRDKYKVDTKV--IVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKE 117
I D ++ V +VA F ++ ILVN + Y + LA +
Sbjct: 61 ITDDAAIERAVATVVARF-------------GRVD--ILVNL---ACTYLDDGLASSRAD 102
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSK 177
+ + N+++ + Q PH+ + G +VN +S +A +Y ASK + +
Sbjct: 103 --WLAALDVNLVSAAMLAQAAHPHLA-RGGGAIVNFTSISAKFAQTGRWLYPASKAAIRQ 159
Query: 178 FSTDLQSEYKKHGIIVQCVMPGY 200
+ + + GI V V PG+
Sbjct: 160 LTRSMAMDLAPDGIRVNSVSPGW 182
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 46.2 bits (110), Expect = 5e-06
Identities = 51/209 (24%), Positives = 80/209 (38%), Gaps = 35/209 (16%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG G+G+A A AK G D+ ++ LD A E
Sbjct: 51 ITGGDSGIGRAVAVLFAKEGADIAIVY-----LDE------------------HEDANET 87
Query: 61 R---DKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG---ILVNNVGYSYPYPERFLAVP 114
+ +K V +I D +D F E T E G ILVNN + YP + +
Sbjct: 88 KQRVEKEGVKCLLIPGDVSDEA-FCKDAVEETVRELGRLDILVNNAAFQYP-QQSLEDIT 145
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLF 174
++ N+ + M + +PH+ ++ ++N S + L Y A+K
Sbjct: 146 AEQ--LDKTFKTNIYSYFHMTKAALPHL--KQGSAIINTGSITGYEGNETLIDYSATKGA 201
Query: 175 VSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ F+ L + GI V V PG + T
Sbjct: 202 IHAFTRSLAQSLVQKGIRVNAVAPGPIWT 230
>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 = 45.7 bits (109), Expect = 5e-06
Identities = 40/181 (22%), Positives = 57/181 (31%), Gaps = 40/181 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEK-----LDNLAKLGIDVVLISRTKEKLDN 55
+TGA +G+A AE LA G VV+ E D L L VL+
Sbjct: 5 VTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQRLKDELNALRNSAVLVQ-------- 56
Query: 56 VAAEIRDKYKVDTKVIVADFTD----PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFL 111
AD +D + A + + +LVNN YP P
Sbjct: 57 -----------------ADLSDFAACADLVAAAFRAFGRCD--VLVNNASAFYPTP---- 93
Query: 112 AVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGAS 171
E + + N+ + Q + R G ++NI P Y S
Sbjct: 94 LGQGSEDAWAELFGINLKAPYLLIQAFARRLAGSRNGSIINIIDAMTDRPLTGYFAYCMS 153
Query: 172 K 172
K
Sbjct: 154 K 154
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 45.8 bits (109), Expect = 6e-06
Identities = 51/210 (24%), Positives = 81/210 (38%), Gaps = 24/210 (11%)
Query: 1 ITGAT--DGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL-GIDVVLISRTKEKLDNVA 57
+TGA+ +G+G A LA GID+ + + + VL +
Sbjct: 10 VTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVL----------LK 59
Query: 58 AEIRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAV 113
EI Y V + + D + P ++F V + L IL+NN YS L
Sbjct: 60 EEIES-YGVRCEHMEIDLSQPYAPNRVFYAVSERLGDPS--ILINNAAYSTHTRLEELTA 116
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ + Y NV + + + G ++N++S +L P P Y A+K
Sbjct: 117 EQLDKHYA----VNVRATMLLSSAFAKQYDGKAGGRIINLTSGQSLGPMPDELAYAATKG 172
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+ F+ L E + GI V V PG T
Sbjct: 173 AIEAFTKSLAPELAEKGITVNAVNPGPTDT 202
>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 = 45.6 bits (108), Expect = 8e-06
Identities = 51/219 (23%), Positives = 92/219 (42%), Gaps = 47/219 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDN----LAKLG--IDVVLISRTKEKLD 54
+TG + G+G+ A+G + G V++ +R E + L+ G I + ++E ++
Sbjct: 11 VTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAYGECIAIPADLSSEEGIE 70
Query: 55 NVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
+ A + ++ +D D +LVNN G ++ P A P
Sbjct: 71 ALVARVAER---------SDRLD-----------------VLVNNAGATWGAP--LEAFP 102
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGV-------VVNISSTAALIPSPMLSV 167
E + +M NV ++ + Q ++P + R V+NI S A ++ S + +
Sbjct: 103 ESG--WDKVMDINVKSVFFLTQALLPLL---RAAATAENPARVINIGSIAGIVVSGLENY 157
Query: 168 -YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
YGASK V + + L E I V + PG + M
Sbjct: 158 SYGASKAAVHQLTRKLAKELAGEHITVNAIAPGRFPSKM 196
>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 = 45.0 bits (107), Expect = 8e-06
Identities = 24/98 (24%), Positives = 39/98 (39%), Gaps = 9/98 (9%)
Query: 127 NVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEY 186
N+ T + H+ G++V + AAL P+P + YGA+K V + + L +E
Sbjct: 100 NLWTSFIASHLATKHL--LSGGLLVLTGAKAALEPTPGMIGYGAAKAAVHQLTQSLAAEN 157
Query: 187 K--KHGIIVQCVMPGYVAT-----NMSKIKKSSWMVPS 217
G ++P + T M SSW
Sbjct: 158 SGLPAGSTANAILPVTLDTPANRKAMPDADFSSWTPLE 195
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 45.2 bits (107), Expect = 1e-05
Identities = 51/212 (24%), Positives = 82/212 (38%), Gaps = 31/212 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA+ G+G+A A A G V + + A + + VA ++
Sbjct: 7 ITGASRGIGRATAVLAAARGWSVGI-----NYARDAAAAEETADAVRAAGGRACVVAGDV 61
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
++ V +A +F V+ ++A LVNN G P ++P +
Sbjct: 62 ANEADV-----IA------MFDAVQSAFGRLDA--LVNNAGIVAP------SMPLADMDA 102
Query: 121 HN---IMHCNVITLLSMCQIVMPHMVEQRKG---VVVNISSTAALIPSPMLSV-YGASKL 173
+ NV+ + + R G +VN+SS A+ + SP V Y SK
Sbjct: 103 ARLRRMFDTNVLGAYLCAREAARRLSTDRGGRGGAIVNVSSIASRLGSPNEYVDYAGSKG 162
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V + L E HG+ V V PG + T +
Sbjct: 163 AVDTLTLGLAKELGPHGVRVNAVRPGLIETEI 194
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 45.1 bits (107), Expect = 1e-05
Identities = 46/210 (21%), Positives = 81/210 (38%), Gaps = 32/210 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A A+ L + G V ++ +E A ++
Sbjct: 7 VTGAGQGIGFAIAK--------------------RLVEDGFKVAIVDYNEETAQAAADKL 46
Query: 61 RDKYKVDTKVIVADFTD-PKIFAHVE---KELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
K + AD +D ++FA V + ++VNN G + P +
Sbjct: 47 S-KDGGKAIAVKADVSDRDQVFAAVRQVVDTFGDLN--VVVNNAGVAPTTPIETIT---- 99
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYGASKLFV 175
E + + + NV ++ Q + G ++N +S A ++ +P L+VY ++K V
Sbjct: 100 EEQFDKVYNINVGGVIWGIQAAQEAFKKLGHGGKIINATSQAGVVGNPELAVYSSTKFAV 159
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+ + GI V PG V T M
Sbjct: 160 RGLTQTAARDLASEGITVNAYAPGIVKTPM 189
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 45.2 bits (107), Expect = 1e-05
Identities = 34/114 (29%), Positives = 56/114 (49%), Gaps = 6/114 (5%)
Query: 95 ILVNNVGYS-YPYPE-RFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVN 152
I+VNN G + P P+ R + + E E V+ + + + +I++P +KG +V+
Sbjct: 97 IMVNNAGLTGPPCPDIRNVELSEFEKVFDVNVKGVFLGMKHAARIMIP----LKKGSIVS 152
Query: 153 ISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
+ S A+ I Y SK V + + +E KHGI V CV P V T ++
Sbjct: 153 LCSVASAIGGLGPHAYTGSKHAVLGLTRSVAAELGKHGIRVNCVSPYAVPTALA 206
>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 = 44.6 bits (106), Expect = 2e-05
Identities = 17/51 (33%), Positives = 21/51 (41%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKE 51
+TGAT LG A E L VV + R EK A G++V
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVALVRNPEKAKAFAADGVEVRQGDYDDP 53
>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 = 44.1 bits (104), Expect = 2e-05
Identities = 45/228 (19%), Positives = 91/228 (39%), Gaps = 40/228 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRT-----KEKLDNLAKLGIDVVLISRTKEKLDN 55
+TGA+ G+G+A A LA G ++ + + + + + G + L+
Sbjct: 3 VTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQAQGGNARLL--------- 53
Query: 56 VAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
++ V +V + I H + AGI + F A+ E
Sbjct: 54 -------QFDVADRVACRTLLEADIAEHGAYYGVVLNAGITRDAA---------FPALSE 97
Query: 116 KETVYHNIMHCNVITLLSMCQ-IVMPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKL 173
++ + ++H N+ ++ MP M+ R+G ++ ++S + ++ + Y A+K
Sbjct: 98 ED--WDIVIHTNLDGFYNVIHPCTMP-MIRARQGGRIITLASVSGVMGNRGQVNYSAAKA 154
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM-----SKIKKSSWMVP 216
+ + L E K I V C+ PG + T M + ++ VP
Sbjct: 155 GLIGATKALAVELAKRKITVNCIAPGLIDTEMLAEVEHDLDEALKTVP 202
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 43.4 bits (103), Expect = 3e-05
Identities = 40/175 (22%), Positives = 68/175 (38%), Gaps = 16/175 (9%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPK----IFAHVEKELTGI 91
A+ G +VVL + E+ + D VI D T + +F V+++ I
Sbjct: 16 AAEEGAEVVLTTWPPALRMGAVDELAKELPAD--VIPLDVTSDEDIDELFEKVKEDGGKI 73
Query: 92 EAGILVNNVGYSYPYPERFLAVPEKETVYHN---IMHCNVITLLSMCQIVMPHMVEQRKG 148
+ LV+++ S PE P +T + + + +S+ + P M E G
Sbjct: 74 D--FLVHSIAMS---PEIRKGKPYLDTSREGFLKALDISAYSFISLAKAAKPLMNE--GG 126
Query: 149 VVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+V +S AA P G +K + + L E + GI V + G T
Sbjct: 127 SIVALSYIAAERVFPGYGGMGVAKAALESLARYLAYELGRKGIRVNTISAGPTKT 181
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 43.5 bits (103), Expect = 4e-05
Identities = 56/224 (25%), Positives = 85/224 (37%), Gaps = 51/224 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G G A+A A LG+ +VL DV ++ LD AE+
Sbjct: 11 ITGAASGFGLAFARIGAALGMKLVLA---------------DV-----QQDALDRAVAEL 50
Query: 61 RDK------YKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNN--VGYSYPYPERFLA 112
R + + D V+D + A E G +L NN VG E LA
Sbjct: 51 RAQGAEVLGVRTD----VSDAAQVEALADAALERFG-AVHLLFNNAGVGAGGLVWENSLA 105
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRK------GVVVNISSTAALIPSPMLS 166
+ ++ N+ ++ + P M+ + G +VN +S A L+ P +
Sbjct: 106 D------WEWVLGVNLWGVIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMG 159
Query: 167 VYGASKLFVSKFS----TDLQSEYKKHGIIVQCVMPGYVATNMS 206
+Y SK V + DL + G V C P +V T +
Sbjct: 160 IYNVSKHAVVSLTETLYQDLSLVTDQVGASVLC--PYFVPTGIW 201
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 43.7 bits (103), Expect = 5e-05
Identities = 57/228 (25%), Positives = 85/228 (37%), Gaps = 35/228 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G+ A LA G VVL E + VAAEI
Sbjct: 419 VTGGAGGIGRETAR--------------------RLAAEGAHVVLADLNLEAAEAVAAEI 458
Query: 61 RDKYKVDTKV-IVADFTDPK----IFAHVEKELTGIEAGILVNNVGY--SYPYPERFLAV 113
++ V + D TD + FA V G++ I+VNN G S P+ E L
Sbjct: 459 NGQFGAGRAVALKMDVTDEQAVKAAFADVALAYGGVD--IVVNNAGIATSSPFEETTL-- 514
Query: 114 PEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
++ + +I+ + M + G +V I+S A+ S Y A+K
Sbjct: 515 -QEWQLNLDILATGYFLVAREAFRQMRE--QGLGGNIVFIASKNAVYAGKNASAYSAAKA 571
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVPSPATF 221
+ + L +E +GI V V P V S I W A +
Sbjct: 572 AEAHLARCLAAEGGTYGIRVNTVNPDAVLQG-SGIWDGEWREERAAAY 618
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 43.4 bits (102), Expect = 5e-05
Identities = 49/207 (23%), Positives = 79/207 (38%), Gaps = 30/207 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+G+A A A+ G DV + E+ D +V I
Sbjct: 54 VTGGDSGIGRAAAIAYAREGADVAISYLPVEEED------------------AQDVKKII 95
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK 116
+ + ++ D +D K + K L G++ LV G P+ E+
Sbjct: 96 EECGR-KAVLLPGDLSDEKFARSLVHEAHKALGGLDIMALV--AGKQVAIPDIADLTSEQ 152
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ NV L + Q +P + + ++ SS A PSP L Y A+K +
Sbjct: 153 ---FQKTFAINVFALFWLTQEAIPLL--PKGASIITTSSIQAYQPSPHLLDYAATKAAIL 207
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+S L + + GI V V PG + T
Sbjct: 208 NYSRGLAKQVAEKGIRVNIVAPGPIWT 234
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 42.4 bits (100), Expect = 8e-05
Identities = 50/215 (23%), Positives = 88/215 (40%), Gaps = 42/215 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG + GLG A A A+ G VV V ++++ + +A E+
Sbjct: 10 VTGGSRGLGAAIARAFAREGARVV-------------------VNYHQSEDAAEALADEL 50
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIEAGILVNN--VGYSYPYPERFLAVP 114
D+ + AD TD + +FA E G +VNN +S+ R
Sbjct: 51 GDR----AIALQADVTDREQVQAMFATA-TEHFGKPITTVVNNALADFSFDGDAR----K 101
Query: 115 EKETV----YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSV--Y 168
+ + + + + +V L+ Q +P M EQ G ++NI + L +P++ Y
Sbjct: 102 KADDITWEDFQQQLEGSVKGALNTIQAALPGMREQGFGRIINIGTN--LFQNPVVPYHDY 159
Query: 169 GASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
+K + + +L +E +GI V V G + T
Sbjct: 160 TTAKAALLGLTRNLAAELGPYGITVNMVSGGLLRT 194
>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 = 41.5 bits (98), Expect = 2e-04
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS 47
+TGAT +G A L + G V + R+ E+ LA G +VV+
Sbjct: 3 VTGATGRIGSKVATTLLEAGRPVRALVRSDERAAALAARGAEVVVGD 49
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 41.7 bits (98), Expect = 2e-04
Identities = 49/206 (23%), Positives = 83/206 (40%), Gaps = 24/206 (11%)
Query: 1 ITGAT--DGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAA 58
+TG + DG+G A + LA+ G D+ T D G+D +++ +
Sbjct: 11 VTGVSRLDGIGAAICKELAEAGADIFFTYWTA--YDKEMPWGVD-------QDEQIQLQE 61
Query: 59 EIRDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
E+ K V + D T ++ V ++L ILVNN YS F +
Sbjct: 62 ELL-KNGVKVSSMELDLTQNDAPKELLNKVTEQLG--YPHILVNNAAYSTNND--FSNLT 116
Query: 115 EKETVYHNIMHCNVITLLSMCQIVMPHMVE-QRKGVVVNISSTAALIPSPMLSVYGASKL 173
+E H +++ TLLS + + G ++N++S P Y A+K
Sbjct: 117 AEELDKHYMVNVRATTLLS---SQFARGFDKKSGGRIINMTSGQFQGPMVGELAYAATKG 173
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPG 199
+ ++ L +E GI V + PG
Sbjct: 174 AIDALTSSLAAEVAHLGITVNAINPG 199
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 40.9 bits (96), Expect = 2e-04
Identities = 45/206 (21%), Positives = 76/206 (36%), Gaps = 46/206 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG LG+ AEG G V L+ ++ L+ AK
Sbjct: 5 VTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAK---------------------- 42
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTG-----IEAGILVNNVGYSYPYPERFLAVPE 115
++D IV D TDP A +E E G ++ + V + P R ++ +
Sbjct: 43 ----ELDVDAIVCDNTDP---ASLE-EARGLFPHHLDTIVNVPAPSWDAGDP-RTYSLAD 93
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIP--SPMLSVYGASKL 173
+ N + V++ + Q V H+ R G S +++P P S A K
Sbjct: 94 TANAWRNALDATVLSAVLTVQSVGDHL---RSG-----GSIISVVPENPPAGSAEAAIKA 145
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPG 199
+S ++ + + GI + V G
Sbjct: 146 ALSNWTAGQAAVFGTRGITINAVACG 171
>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 = 40.6 bits (95), Expect = 3e-04
Identities = 46/218 (21%), Positives = 73/218 (33%), Gaps = 32/218 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG G+GK + G VV D + G D AE
Sbjct: 6 VTGGGHGIGKQICLDFLEAGDKVVFA-------DIDEERGADF--------------AEA 44
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGI--LVNNVGYSYPYPERFLAVPEKET 118
VAD T K V + I LVNN ++ +E
Sbjct: 45 EGPNLFFVHGDVADETLVKF---VVYAMLEKLGRIDVLVNNAARGSK--GILSSLLLEEW 99
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
I+ N+ + + +++ KG ++NI+ST A P Y ASK +
Sbjct: 100 DR--ILSVNLTGPYELSRYCRDELIKN-KGRIINIASTRAFQSEPDSEAYAASKGGLVAL 156
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSSWMVP 216
+ L I V C+ PG++ T + ++ +
Sbjct: 157 THALAMSLGPD-IRVNCISPGWINTTEQQEFTAAPLTQ 193
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 40.3 bits (95), Expect = 4e-04
Identities = 50/205 (24%), Positives = 74/205 (36%), Gaps = 32/205 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNL-AKLGIDVVLISRTKEKLDNVAAE 59
ITG T G+G A G V + R L+ A+LG ++I
Sbjct: 11 ITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAELGESALVI------------- 57
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE-KET 118
+ D D K A E + N G + +F + + E
Sbjct: 58 -----RADA----GDVAAQKALAQALAE-AFGRLDAVFINAGVA-----KFAPLEDWDEA 102
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
++ + NV + Q ++P ++ +V+N S A I P SVY ASK +
Sbjct: 103 MFDRSFNTNVKGPYFLIQALLP-LLANPASIVLN-GSINAHIGMPNSSVYAASKAALLSL 160
Query: 179 STDLQSEYKKHGIIVQCVMPGYVAT 203
+ L E GI V V PG V T
Sbjct: 161 AKTLSGELLPRGIRVNAVSPGPVQT 185
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 40.4 bits (95), Expect = 4e-04
Identities = 51/221 (23%), Positives = 80/221 (36%), Gaps = 42/221 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA +G A + + + G V+ KE L E L+++ E
Sbjct: 9 ITGAGGLIGSALVKAILEAGGIVIAADIDKEAL----------------NELLESLGKEF 52
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGI--LVNNVGYSYPYPE----RFLAVP 114
+ K ++ D TD + + I VN +YP + +F V
Sbjct: 53 KSKKLSLVEL---DITDQESLEEFLSKSAEKYGKIDGAVNC---AYPRNKDYGKKFFDV- 105
Query: 115 EKETVYHNI-MHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIP--------SPML 165
+ N+ +H L S Q + +Q G +VNISS ++ + M
Sbjct: 106 SLDDFNENLSLHLGSSFLFS--QQFAKYFKKQGGGNLVNISSIYGVVAPKFEIYEGTSMT 163
Query: 166 SV--YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
S Y A K + + L +K I V CV PG + N
Sbjct: 164 SPVEYAAIKAGIIHLTKYLAKYFKDSNIRVNCVSPGGILDN 204
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 40.4 bits (95), Expect = 5e-04
Identities = 53/211 (25%), Positives = 79/211 (37%), Gaps = 42/211 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G+G A L G V R +E + L G++ +
Sbjct: 9 ITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAFQL-------------- 54
Query: 61 RDKYKVDTKVIVADFTDPK-IFAHVEK--ELTGIEAGILVNNVGYSYPYPERFL---AVP 114
D+ +P+ I A V + EL+G L NN Y P L A+
Sbjct: 55 -------------DYAEPESIAALVAQVLELSGGRLDALFNNGAYGQPGAVEDLPTEALR 101
Query: 115 EK-ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ E N + + V+P M +Q +G +V SS L+P Y ASK
Sbjct: 102 AQFEA--------NFFGWHDLTRRVIPVMRKQGQGRIVQCSSILGLVPMKYRGAYNASKF 153
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
+ S L+ E + GI V + PG + T
Sbjct: 154 AIEGLSLTLRMELQGSGIHVSLIEPGPIETR 184
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 40.1 bits (94), Expect = 5e-04
Identities = 43/215 (20%), Positives = 84/215 (39%), Gaps = 37/215 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
I+G T G+GKA A+ G+++ + E+ + +A ++
Sbjct: 13 ISGGTRGIGKAIVYEFAQSGVNIAFTYNSNV-------------------EEANKIAEDL 53
Query: 61 RDKYKVDTKVIVADFTDPK----IFAHVEKELTGIE-----AGILVNNV--GYSYPYPER 109
KY + K + +P+ +F ++++ ++ A I V GY+ +
Sbjct: 54 EQKYGIKAKAYPLNILEPETYKELFKKIDEDFDRVDFFISNAIISGRAVVGGYT-----K 108
Query: 110 FLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYG 169
F+ + K +NI V + Q M + G ++++SST L+ + +G
Sbjct: 109 FMRL--KPKGLNNIYTATVNAFVVGAQEAAKRMEKVGGGSIISLSSTGNLVYIENYAGHG 166
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATN 204
SK V +E + I V V G + T+
Sbjct: 167 TSKAAVETMVKYAATELGEKNIRVNAVSGGPIDTD 201
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 39.7 bits (93), Expect = 6e-04
Identities = 53/211 (25%), Positives = 90/211 (42%), Gaps = 45/211 (21%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG + G+GKA A+ A+ G +VV+ RTKEKL+ I + ++ V ++
Sbjct: 6 ITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKL------EIEQFPGQVLTVQMDV 59
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK---- 116
R+ V V D ++ I+A L+NN + F+ E
Sbjct: 60 RNPEDVQKMVEQID-----------EKFGRIDA--LINNAAGN------FICPAEDLSVN 100
Query: 117 ------ETVYHNIMHCNVITLLSMCQIVMPHMVEQ-RKGVVVNISSTAALIPSPMLSVYG 169
+ V + +C+ Q V + +E+ KG ++N+ +T A P +
Sbjct: 101 GWNSVIDIVLNGTFYCS--------QAVGKYWIEKGIKGNIINMVATYAWDAGPGVIHSA 152
Query: 170 ASKLFVSKFSTDLQSEY-KKHGIIVQCVMPG 199
A+K V + L E+ +K+GI V + PG
Sbjct: 153 AAKAGVLAMTRTLAVEWGRKYGIRVNAIAPG 183
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 39.6 bits (93), Expect = 7e-04
Identities = 41/203 (20%), Positives = 72/203 (35%), Gaps = 28/203 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ G LG GLA+ G V +A + EK NVA EI
Sbjct: 7 VIGGGQTLGAFLCHGLAEEGYRVA-----------VADI---------NSEKAANVAQEI 46
Query: 61 RDKYKVDTKV-IVADFTDPKIFAHVEKELTGI--EAGILVNNVGYSYPYPERFLAVPEKE 117
+Y AD T + + + + I +LV N G + + +
Sbjct: 47 NAEYGEGMAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLGD-- 104
Query: 118 TVYHNIMHCNVITLLSMCQIVMPHMVEQR-KGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + N++ + M+ +G ++ I+S + + S S Y A+K
Sbjct: 105 --FDRSLQVNLVGYFLCAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGV 162
Query: 177 KFSTDLQSEYKKHGIIVQCVMPG 199
+ L + ++GI V +M G
Sbjct: 163 GLTQSLALDLAEYGITVHSLMLG 185
>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 = 38.9 bits (91), Expect = 8e-04
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVD-TKVIVADFTD 77
LA+ G VVL+ R E+ A +R ++ V +D
Sbjct: 48 LAREGARVVLVGRDLERAQKAADSLRARFGEGVGAVETSDDAA 90
Score = 33.9 bits (78), Expect = 0.036
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL 39
+ G T +G+ A LA+ G VVL+ R E+ A
Sbjct: 33 VLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADS 71
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 38.8 bits (91), Expect = 0.001
Identities = 47/212 (22%), Positives = 84/212 (39%), Gaps = 44/212 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ G T G+ A+ A+ G +V + SR++EK+D + + + V+A++
Sbjct: 14 VVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVA------QLQQAGPEGLGVSADV 67
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG-----ILVNNVGYSYPYPERFLAVPE 115
RD +A VE I +LV+ ++P P A
Sbjct: 68 RD------------------YAAVEAAFAQIADEFGPIDVLVSGAAGNFPAP----AAGM 105
Query: 116 KETVYHNIMHCNVITLLSMCQI---VMPHMVEQRK--GVVVNISSTAALIPSPMLSVYGA 170
+ ++ I LL + P + R+ ++ IS+ A +P PM + A
Sbjct: 106 SANGFKTVVD---IDLLGTFNVLKAAYPLL---RRPGASIIQISAPQAFVPMPMQAHVCA 159
Query: 171 SKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVA 202
+K V + L E+ GI V ++PG +A
Sbjct: 160 AKAGVDMLTRTLALEWGPEGIRVNSIVPGPIA 191
>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 = 39.0 bits (91), Expect = 0.001
Identities = 35/174 (20%), Positives = 66/174 (37%), Gaps = 21/174 (12%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPK----IFAHVEKELTGI 91
LA+ G DV + E + VA EI +Y AD T+ + + V++ +
Sbjct: 22 LAEAGYDVAVADINSENAEKVADEINAEYGEKAYGFGADATNEQSVIALSKGVDEIFKRV 81
Query: 92 E-----AGILVNNVGYSYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQ- 145
+ AGI + + + + + N++ + M+
Sbjct: 82 DLLVYSAGIAKSAKITDFELGD-----------FDRSLQVNLVGYFLCAREFSKLMIRDG 130
Query: 146 RKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPG 199
+G ++ I+S + + S S Y A+K + L + +HGI V +M G
Sbjct: 131 IQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEHGITVNSLMLG 184
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 38.4 bits (89), Expect = 0.002
Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 139 MPHMVEQRKG-VVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVM 197
+P ++EQ G VV +S A L+P+ L YG +K V + L E GI V +
Sbjct: 126 LPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLAREVTADGIGVSVLC 185
Query: 198 PGYVATNM 205
P V TN+
Sbjct: 186 PMVVETNL 193
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 38.5 bits (90), Expect = 0.002
Identities = 30/83 (36%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
+ GA G+G A A LAK LG VV + + EKL+ L +LG D V I+ +E E
Sbjct: 148 VHGAAGGVGSA-AIQLAKALGATVVAVVSSSEKLELLKELGADHV-INYREEDFVEQVRE 205
Query: 60 IRDKYKVDTKVIVADFTDPKIFA 82
+ VD +V D FA
Sbjct: 206 LTGGKGVD---VVLDTVGGDTFA 225
>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 = 37.9 bits (88), Expect = 0.002
Identities = 15/82 (18%), Positives = 30/82 (36%)
Query: 120 YHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFS 179
I ++ Q + M + G ++ I+S P S+YG ++ +
Sbjct: 97 IRQAFEALSIFPFALLQAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALA 156
Query: 180 TDLQSEYKKHGIIVQCVMPGYV 201
L E + I+V + P +
Sbjct: 157 ESLAKELSRDNILVYAIGPNFF 178
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 38.3 bits (89), Expect = 0.002
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVL 45
+TGAT +G A L G +V R E LA G++VVL
Sbjct: 5 VTGATGFVGGAVVRELLARGHEVRAAVRNPEAAAALAG-GVEVVL 48
>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 = 38.5 bits (90), Expect = 0.003
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 13/77 (16%)
Query: 1 ITGATDGLGKAYAEGLAKL-GIDVVLISRTK---------EKLDNLAKLGIDVVLIS--- 47
+TG G+G+A A LA+ G +VL+ R+ + L L LG V+ IS
Sbjct: 210 VTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKAQTLAALEALGARVLYISADV 269
Query: 48 RTKEKLDNVAAEIRDKY 64
+ + ++R++Y
Sbjct: 270 TDAAAVRRLLEKVRERY 286
>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 = 37.5 bits (87), Expect = 0.003
Identities = 48/209 (22%), Positives = 83/209 (39%), Gaps = 31/209 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG GLG+A + G V ++ ++ L L D V+ V ++
Sbjct: 10 VTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQELEAAHGDAVV---------GVEGDV 60
Query: 61 R--DKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK-- 116
R D +K VA F KI L+ N G + Y + +P+
Sbjct: 61 RSLDDHKEAVARCVAAFG--KI-------------DCLIPNAGI-WDYSTALVDIPDDRI 104
Query: 117 ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVS 176
+ + + H NV L + +P +V R V+ IS+ A P+ +Y A+K V
Sbjct: 105 DEAFDEVFHINVKGYLLAVKAALPALVASRGSVIFTISN-AGFYPNGGGPLYTAAKHAVV 163
Query: 177 KFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
+L E + + V V PG +++++
Sbjct: 164 GLVKELAFELAPY-VRVNGVAPGGMSSDL 191
>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 = 37.6 bits (88), Expect = 0.004
Identities = 26/106 (24%), Positives = 36/106 (33%), Gaps = 29/106 (27%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
ITG GLG AE L + G +VL R + L+ AE
Sbjct: 154 ITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAI-----------AALEEAGAE 202
Query: 60 IRDKYKVDTKVIVADFTDP----KIFAHVEKE---LTGI--EAGIL 96
+ V+ AD +D A + L G+ AG+L
Sbjct: 203 VV--------VLAADVSDRDALAAALAQIRASLPPLRGVIHAAGVL 240
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 36.7 bits (85), Expect = 0.007
Identities = 32/103 (31%), Positives = 45/103 (43%), Gaps = 23/103 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVL--ISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAA 58
+TGA GLG+A A GLA+LG VV+ ++ + D L + I K VA
Sbjct: 17 VTGAAAGLGRAEALGLARLGATVVVNDVASALDASDVLDE-------IRAAGAKAVAVAG 69
Query: 59 EIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVG 101
+I + D V A L G++ I+VNN G
Sbjct: 70 DISQRATADELVATAV------------GLGGLD--IVVNNAG 98
>gnl|CDD|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed.
Length = 304
Score = 36.6 bits (86), Expect = 0.007
Identities = 11/38 (28%), Positives = 15/38 (39%)
Query: 9 GKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLI 46
G A L + G D I ++ L +LG D V
Sbjct: 25 GAAVLAALREAGYDAHPIDPGEDIAAQLKELGFDRVFN 62
>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 = 35.9 bits (84), Expect = 0.009
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRT-------KEKLDNLAKLGIDVVLIS---RT 49
ITG GLG+A A LA+ G +VL+SR+ L L G V +++
Sbjct: 5 ITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVACDVAD 64
Query: 50 KEKLDNVAAEIRDKY 64
++ L V A I
Sbjct: 65 RDALAAVLAAIPAVE 79
>gnl|CDD|176183 cd05280, MDR_yhdh_yhfp, Yhdh and yhfp-like putative quinone
oxidoreductases. Yhdh and yhfp-like putative quinone
oxidoreductases (QOR). QOR catalyzes the conversion of a
quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones
are cyclic diones derived from aromatic compounds.
Membrane bound QOR actin the respiratory chains of
bacteria and mitochondria, while soluble QOR acts to
protect from toxic quinones (e.g. DT-diaphorase) or as a
soluble eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 36.4 bits (85), Expect = 0.009
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLG 40
+TGAT G+G LAKLG VV ++ +E+ D L LG
Sbjct: 152 VTGATGGVGSIAVAILAKLGYTVVALTGKEEQADYLKSLG 191
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 35.8 bits (83), Expect = 0.015
Identities = 35/114 (30%), Positives = 48/114 (42%), Gaps = 28/114 (24%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA+DGLG GLA+ LA G +V+L R + K + A I
Sbjct: 19 VTGASDGLGL----GLAR----------------RLAAAGAEVILPVRNRAKGEAAVAAI 58
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVE---KELT--GIEAGILVNNVGYSYPYPER 109
R D K+ + D A V ++L G +L+NN G P PER
Sbjct: 59 RTAVP-DAKLSLRAL-DLSSLASVAALGEQLRAEGRPIHLLINNAGVMTP-PER 109
>gnl|CDD|224996 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 35.4 bits (82), Expect = 0.015
Identities = 29/109 (26%), Positives = 44/109 (40%), Gaps = 21/109 (19%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGI----------------DVV 44
I G + +G A A LAK G +V++ S K A + DVV
Sbjct: 6 IIGTGN-IGSALALRLAKAGHEVIIGSSRGPKALAAAAAALGPLITGGSNEDAAALADVV 64
Query: 45 LISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEA 93
+++ E + +V AE+RD IV D T+P I + E +
Sbjct: 65 VLAVPFEAIPDVLAELRDALG---GKIVIDATNP-IEVNGEPGDLYLVP 109
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 35.6 bits (82), Expect = 0.016
Identities = 47/195 (24%), Positives = 83/195 (42%), Gaps = 24/195 (12%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKE----LTGI 91
L K G VV+ SR +E L+ E+++ +V + AD +D ++ KE L GI
Sbjct: 20 LLKKGARVVISSRNEENLEKALKELKEYGEVYA--VKADLSDKDDLKNLVKEAWELLGGI 77
Query: 92 EAGILVNNVGYSYPYP-----ERFLAVPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQR 146
+A LV N G P + E + H + + TLL + + ++
Sbjct: 78 DA--LVWNAGNVRCEPCMLHEAGYSDWLEAALL-HLVAPGYLTTLL-----IQAWLEKKM 129
Query: 147 KGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT--- 203
KGV+V +SS + P P L + ++ + + + + Y GI V+ G T
Sbjct: 130 KGVLVYLSSVSVKEPMPPLVLADVTRAGLVQLAKGVSRTYGGKGIRAYTVLLGSFDTPGA 189
Query: 204 --NMSKIKKSSWMVP 216
N+++I + +
Sbjct: 190 RENLARIAEERGVSF 204
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 35.3 bits (82), Expect = 0.017
Identities = 51/219 (23%), Positives = 79/219 (36%), Gaps = 45/219 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLD----NV 56
ITGA+ G+G A A A+ G ++V+ ++T E KL
Sbjct: 11 ITGASRGIGLAIALRAARDGANIVIAAKTAEP-----------------HPKLPGTIHTA 53
Query: 57 AAEIRDKYKVDTKVIVADFTDP-KIFAHVEK---ELTGIEAGILVNNVGYSYPYPERFLA 112
A EI +V D D ++ A V K GI+ I VNN S
Sbjct: 54 AEEIEAA-GGQALPLVGDVRDEDQVAAAVAKAVERFGGID--ICVNNA--SAINLTGTED 108
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNIS-----STAALIPSP--ML 165
P K + + NV + Q +PH+ + ++ +S P +
Sbjct: 109 TPMKR--FDLMQQINVRGTFLVSQACLPHLKKSENPHILTLSPPLNLDPKWFAPHTAYTM 166
Query: 166 SVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMP-GYVAT 203
+ YG S + L E++ GI V + P +AT
Sbjct: 167 AKYGMSLCTLG-----LAEEFRDDGIAVNALWPRTTIAT 200
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 35.7 bits (82), Expect = 0.018
Identities = 39/214 (18%), Positives = 66/214 (30%), Gaps = 59/214 (27%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG +G E L G DV + R ++ LD L
Sbjct: 5 VTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDPLLS---------------------- 42
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ +V D TD V++ G+ + ++ S A E +
Sbjct: 43 ------GVEFVVLDLTDR---DLVDELAKGVPDAV-IHLAAQSSVPDS--NASDPAEFLD 90
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPM-------------LSV 167
N+ + LL + V SS + + P L+
Sbjct: 91 VNVDG--TLNLLEAAR-------AAGVKRFVFASSVSVVYGDPPPLPIDEDLGPPRPLNP 141
Query: 168 YGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYV 201
YG SKL + L++ + +G+ V + P V
Sbjct: 142 YGVSKLAAEQL---LRAYARLYGLPVVILRPFNV 172
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 34.5 bits (80), Expect = 0.025
Identities = 13/50 (26%), Positives = 21/50 (42%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTK 50
+ GAT +G+ L G V + R + + L G +VV+ T
Sbjct: 4 VVGATGKVGRHVVRELLDRGYQVRALVRDPSQAEKLEAAGAEVVVGDLTD 53
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 35.3 bits (82), Expect = 0.026
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 14/61 (22%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGI-------------DVVLI 46
I G T GLGK +A L + G +V++ R +K +AK LG+ D+V+I
Sbjct: 5 IIGGTGGLGKWFARFLKEKGFEVIVTGRDPKKGKEVAKELGVEYANDNIDAAKDADIVII 64
Query: 47 S 47
S
Sbjct: 65 S 65
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 35.0 bits (81), Expect = 0.027
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ GA G+G A+ G V++ R+ EKL+ +LG D V+ + +++ E+
Sbjct: 140 VLGAG-GVGLLAAQLAKAAGARVIVTDRSDEKLELAKELGADHVIDYKE----EDLEEEL 194
Query: 61 RDKYKVDTKVIV 72
R V++
Sbjct: 195 RLTGGGGADVVI 206
>gnl|CDD|223643 COG0569, TrkA, K+ transport systems, NAD-binding component
[Inorganic ion transport and metabolism].
Length = 225
Score = 34.5 bits (80), Expect = 0.030
Identities = 15/47 (31%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 34 DNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKI 80
L++ G +VVLI R +E+++ A+ ++DT V++ D TD +
Sbjct: 17 RELSEEGHNVVLIDRDEERVEEFLAD-----ELDTHVVIGDATDEDV 58
Score = 27.2 bits (61), Expect = 7.1
Identities = 14/46 (30%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLI 46
I GA +G++ A L++ G +VVLI R +E+++ +D ++
Sbjct: 5 IIGAGR-VGRSVARELSEEGHNVVLIDRDEERVEEFLADELDTHVV 49
>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 = 34.0 bits (79), Expect = 0.031
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 11/75 (14%)
Query: 1 ITGATDGLGKAYAEGLAKLGID-VVLISR-------TKEKLDNLAKLGIDVVLIS---RT 49
+TG GLG A LA+ G +VL+SR + L L G +V +++
Sbjct: 5 VTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEVTVVACDVSD 64
Query: 50 KEKLDNVAAEIRDKY 64
++ + + AEIR
Sbjct: 65 RDAVRALLAEIRADG 79
>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 = 34.4 bits (79), Expect = 0.033
Identities = 53/213 (24%), Positives = 78/213 (36%), Gaps = 37/213 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL--GIDVVLI---SRTKEKLDN 55
ITG++DGLG A A L G +VVL +R++++ + G VLI S E
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAACPGAAGVLIGDLSSLAE-TRK 70
Query: 56 VAAEIRDKYKVDTKVIVAD-FTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVP 114
+A ++ + D + A + P GI A + VN + PY L
Sbjct: 71 LADQVNAIGRFDAVIHNAGILSGPNRKTPDT----GIPAMVAVNVLA---PYVLTALIRR 123
Query: 115 EKETVY-HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
K +Y + MH S+ I N S Y SKL
Sbjct: 124 PKRLIYLSSGMHRGGNA--SLDDIDW-------FNRGENDSPA-----------YSDSKL 163
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
V + + +K + V PG+V T M
Sbjct: 164 HVLTLAAAVARRWKD--VSSNAVHPGWVPTKMG 194
>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 = 34.4 bits (79), Expect = 0.035
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK 38
ITGA G+GK A LA+ G V++ R K + A
Sbjct: 6 ITGANTGIGKETARELARRGARVIMACRDMAKCEEAAA 43
>gnl|CDD|181162 PRK07904, PRK07904, short chain dehydrogenase; Provisional.
Length = 253
Score = 34.3 bits (79), Expect = 0.035
Identities = 21/66 (31%), Positives = 31/66 (46%)
Query: 142 MVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYV 201
M Q G ++ +SS A VYG++K + F L +++G+ V V PG V
Sbjct: 133 MRAQGFGQIIAMSSVAGERVRRSNFVYGSTKAGLDGFYLGLGEALREYGVRVLVVRPGQV 192
Query: 202 ATNMSK 207
T MS
Sbjct: 193 RTRMSA 198
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 34.8 bits (81), Expect = 0.037
Identities = 51/210 (24%), Positives = 88/210 (41%), Gaps = 36/210 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA G+G A AE LA+ G VV +DV E L VA +
Sbjct: 215 VTGAARGIGAAIAEVLARDGAHVV---------------CLDV---PAAGEALAAVANRV 256
Query: 61 RDKYKVDTKVIVADFTDP----KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLA-VPE 115
+ D T P +I H+ + G++ I+V+N G + ++ LA + E
Sbjct: 257 G------GTALALDITAPDAPARIAEHLAERHGGLD--IVVHNAGITR---DKTLANMDE 305
Query: 116 KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFV 175
+ +++ N++ L + + ++ G +V +SS + + + + Y ASK V
Sbjct: 306 AR--WDSVLAVNLLAPLRITEALLAAGALGDGGRIVGVSSISGIAGNRGQTNYAASKAGV 363
Query: 176 SKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
L + GI + V PG++ T M
Sbjct: 364 IGLVQALAPLLAERGITINAVAPGFIETQM 393
>gnl|CDD|131880 TIGR02833, spore_III_AB, stage III sporulation protein AB. A
comparative genome analysis of all sequenced genomes of
shows a number of proteins conserved strictly among the
endospore-forming subset of the Firmicutes. This
protein, a member of this panel, is designated stage III
sporulation protein AB [Cellular processes, Sporulation
and germination].
Length = 170
Score = 33.4 bits (77), Expect = 0.044
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 6/76 (7%)
Query: 2 TGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGI-----DVVLISRTKEKLDN 55
G + +A+ + L ++ L KE L K LG I+ T E L+
Sbjct: 79 EGEGLTVYEAWKKALNEVWKQTALQKSEKEILLQFGKTLGESDREGQQKHINLTLEHLER 138
Query: 56 VAAEIRDKYKVDTKVI 71
E D+ K + K+
Sbjct: 139 QLTEAEDEQKKNEKMY 154
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 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 = 323
Score = 34.2 bits (79), Expect = 0.045
Identities = 14/76 (18%), Positives = 30/76 (39%), Gaps = 4/76 (5%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
A +G+ + LG + + R E+++ L LG D V+ S +++A +
Sbjct: 144 QNAANSAVGRMLIQLAKLLGFKTINVVRRDEQVEELKALGADEVIDSSP----EDLAQRV 199
Query: 61 RDKYKVDTKVIVADFT 76
++ + D
Sbjct: 200 KEATGGAGARLALDAV 215
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 34.0 bits (78), Expect = 0.046
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK 38
+TG G+GK A GL G V+++ R +KL A+
Sbjct: 12 VTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAE 49
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 34.2 bits (79), Expect = 0.049
Identities = 46/212 (21%), Positives = 77/212 (36%), Gaps = 37/212 (17%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGIDVVLIS---RTKEKLDNV 56
ITG G+G+A E G V ++ R+ EKL +L + G V+++ +
Sbjct: 11 ITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDHVLVVEGDVTSYADNQRA 70
Query: 57 AAEIRDKY-KVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE 115
+ D + K+D V N G + Y + +P
Sbjct: 71 VDQTVDAFGKLDC---------------------------FVGNAGI-WDYNTSLVDIPA 102
Query: 116 K--ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+ +T + I + NV L + +P + G ++ S ++ P +Y ASK
Sbjct: 103 ETLDTAFDEIFNVNVKGYLLGAKAALPALK-ASGGSMIFTLSNSSFYPGGGGPLYTASKH 161
Query: 174 FVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM 205
V L E I V V PG T++
Sbjct: 162 AVVGLVRQLAYELAPK-IRVNGVAPGGTVTDL 192
>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 = 34.1 bits (79), Expect = 0.054
Identities = 40/210 (19%), Positives = 66/210 (31%), Gaps = 54/210 (25%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG +G + K G K+ +++ R + KL + E+
Sbjct: 7 VTGGAGSIGSELVRQILKFGP--------KK-----------LIVFDRDENKLHELVREL 47
Query: 61 RDKYKVDT-KVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLA----VPE 115
R ++ D + I+ D D + KE G + A VP
Sbjct: 48 RSRFPHDKLRFIIGDVRDKERLRRAFKER------------GPDIVF---HAAALKHVPS 92
Query: 116 KETVYHNIMHC---NVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASK 172
E N NV+ ++ + + VE+ V IS+ A+ P +V GA+K
Sbjct: 93 ME---DNPEEAIKTNVLGTKNVIDAAIENGVEK----FVCISTDKAVNPV---NVMGATK 142
Query: 173 LFVSKFSTDLQSEYKKHGIIVQCVMPGYVA 202
K V G V
Sbjct: 143 RVAEKLLLAKNE--YSSSTKFSTVRFGNVL 170
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 33.4 bits (77), Expect = 0.060
Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 19/91 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD------------NLAKL-----GIDV 43
+ GAT G+ + L G V +SR K +LA L G+D
Sbjct: 3 VIGATGKTGRRLVKELLARGHQVTALSRNPSKAPAPGVTPVQKDLFDLADLAEALAGVDA 62
Query: 44 VLISR--TKEKLDNVAAEIRDKYKVDTKVIV 72
V+ + + D V + + + IV
Sbjct: 63 VVDAFGARPDDSDGVKHLLDAAARAGVRRIV 93
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 33.6 bits (77), Expect = 0.074
Identities = 48/204 (23%), Positives = 78/204 (38%), Gaps = 31/204 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
I G ++GLG A A K G V + SR + KL + K T K N+ +
Sbjct: 10 IIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKK----------TLSKYGNIHYVV 59
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
D ++ V + K L I+ G++V GY E F E +
Sbjct: 60 GDVSSTESARNVIE--------KAAKVLNAID-GLVVTVGGYVEDTVEEF---SGLEEML 107
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKG-VVVNISSTAAL-IPSPMLSVYGASKLFVSKF 178
N ++ L + + ++G +V +SS + + SP Y +K ++K
Sbjct: 108 TN----HIKIPLYAVNASLRFL---KEGSSIVLVSSMSGIYKASPDQLSYAVAKAGLAKA 160
Query: 179 STDLQSEYKKHGIIVQCVMPGYVA 202
L SE GI V + P ++
Sbjct: 161 VEILASELLGRGIRVNGIAPTTIS 184
>gnl|CDD|187633 cd08928, KR_fFAS_like_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS)-like, classical
(c)-like SDRs. KR domain of FAS, including the
fungal-type multidomain FAS alpha chain, and the single
domain daunorubicin C-13 ketoreductase. Fungal-type FAS
is a heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the classical SDR and has partial
identity of the active site tetrad, but the upstream Asn
is replaced in KR by Met. As in other SDRs, there is a
glycine rich NAD(P)-binding motif, but the pattern found
in KR does not match the classical SDRs, and is not
strictly conserved within this group. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Single domain 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 = 248
Score = 33.4 bits (76), Expect = 0.084
Identities = 44/221 (19%), Positives = 69/221 (31%), Gaps = 46/221 (20%)
Query: 1 ITGATDG-LGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
ITGA DG +G +GL G V + + R ++ +
Sbjct: 3 ITGAGDGSIGAEVLQGLLNGGAKVYVTTS-------------------RFSRQVTKYYQD 43
Query: 60 IRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPE---- 115
I V++ + VE GI VN +G+ F A+PE
Sbjct: 44 IYAACGAAGSVLIVVPFNQGSKQDVEALAIGIYDT--VNGLGWDLDLYGPFAAIPETGIE 101
Query: 116 ------KETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIP-SPM---- 164
K V H IM N++ + +I Q++ ++P SP
Sbjct: 102 IPAIDSKSEVAHRIMLTNLLRPKGLVKI-------QKQLRGQETRPAQVILPFSPNHGTF 154
Query: 165 --LSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVAT 203
Y SKL + SE + + V G+
Sbjct: 155 GDDGAYSESKLHLETLFNRWASESWGNDLTVCGAHIGWTRG 195
>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 = 32.8 bits (75), Expect = 0.086
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS 47
I GAT +G+A A L + G +V L+ R ++L + + VV
Sbjct: 3 ILGATGFIGRALARELLEQGHEVTLLVRNTKRLSKEDQEPVAVVEGD 49
>gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group contains proteins that
share the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenase family. 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 have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine
(His-51), the ribose of NAD, a serine (Ser-48), then the
alcohol, which allows the transfer of a hydride to NAD+,
creating NADH and a zinc-bound aldehyde or ketone. In
yeast and some bacteria, the active site zinc binds an
aldehyde, polarizing it, and leading to the reverse
reaction.
Length = 332
Score = 33.4 bits (77), Expect = 0.092
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEK 52
+TGA G+G +A LAK LG V+ ++R+ EKL L +LG D V+ +
Sbjct: 168 VTGAGGGVG-IHAIQLAKALGARVIAVTRSPEKLKILKELGADYVIDGSKFSE 219
>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 = 33.0 bits (75), Expect = 0.11
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 21/103 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+GKA A +AK G V ++ R + + + K ++ S +
Sbjct: 6 ITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARK---EIETESGNQNIF------- 55
Query: 61 RDKYKVDTKVIVADFTDPK-IFAHVEK-ELTGIEAGILVNNVG 101
+ + D +DPK ++ VE+ + G + +L+NN G
Sbjct: 56 ---------LHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAG 89
>gnl|CDD|176204 cd08242, MDR_like, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family, including threonine dehydrogenase.
The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 33.0 bits (76), Expect = 0.13
Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 6 DG-LGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS 47
DG LG A+ LA G DVVL+ R EKL +LG++ VL
Sbjct: 164 DGKLGLLIAQVLALTGPDVVLVGRHSEKLALARRLGVETVLPD 206
>gnl|CDD|176249 cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases.
yhfp putative quinone oxidoreductases (QOR). QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 326
Score = 32.7 bits (75), Expect = 0.13
Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISR 48
+TGAT G+G LAKLG +VV + + D L KLG V I R
Sbjct: 152 VTGATGGVGSLAVSILAKLGYEVVASTGKADAADYLKKLGAKEV-IPR 198
>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 = 32.4 bits (74), Expect = 0.14
Identities = 15/31 (48%), Positives = 22/31 (70%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKE 31
ITGA+ G+GKA A A+ G +VV+ ++T E
Sbjct: 8 ITGASRGIGKAIALKAARDGANVVIAAKTAE 38
>gnl|CDD|187538 cd05227, AR_SDR_e, aldehyde reductase, extended (e) SDRs. This
subgroup contains aldehyde reductase of the extended
SDR-type and related proteins. Aldehyde reductase I (aka
carbonyl reductase) is an NADP-binding SDR; it has an
NADP-binding motif consensus that is slightly different
from the canonical SDR form and lacks the Asn of the
extended SDR active site tetrad. Aldehyde reductase I
catalyzes the NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 301
Score = 32.6 bits (75), Expect = 0.15
Identities = 41/183 (22%), Positives = 66/183 (36%), Gaps = 22/183 (12%)
Query: 33 LDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVD--TKVIVADFTDPKIFAHVEKELTG 90
++ L K G V R+ K + A ++ D VIV D T P + K +
Sbjct: 16 VEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGYNDRLEFVIVDDLTAPNAWDEALKGVDY 75
Query: 91 IEAGILVNN-VGYSYPYPERFLAVPEKETVYHNIMH-CN--------VITLLSMCQIVMP 140
+ I V + ++ P E + P E N++ V+T S+ + P
Sbjct: 76 V---IHVASPFPFTGPDAEDDVIDPAVEGT-LNVLEAAKAAGSVKRVVLTS-SVAAVGDP 130
Query: 141 HMVEQRKGVVVNISS--TAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMP 198
+ G V + S L Y ASK K + + E K ++ + P
Sbjct: 131 TA--EDPGKVFTEEDWNDLTISKSNGLDAYIASKTLAEKAAWEFVKENKPKFELI-TINP 187
Query: 199 GYV 201
GYV
Sbjct: 188 GYV 190
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA.
YjeQ is a late-stage ribosomal biogenesis factor
involved in the 30S subunit maturation, and it
represents a protein family whose members are broadly
conserved in bacteria and have been shown to be
essential to the growth of E. coli and B. subtilis.
Proteins of the YjeQ family contain all sequence motifs
typical of the vast class of P-loop-containing GTPases,
but show a circular permutation, with a G4-G1-G3
pattern of motifs as opposed to the regular G1-G3-G4
pattern seen in most GTPases. All YjeQ family proteins
display a unique domain architecture, which includes an
N-terminal OB-fold RNA-binding domain, the central
permuted GTPase domain, and a zinc knuckle-like
C-terminal cysteine domain.
Length = 211
Score = 32.4 bits (75), Expect = 0.16
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 10/54 (18%)
Query: 20 GIDVVLI---------SRTKEKLDNLAKLGIDVVLIS-RTKEKLDNVAAEIRDK 63
GI+ V++ +E L+ KLG V+ +S +T E LD + ++ K
Sbjct: 33 GIEPVIVLNKADLVDDEELEELLEIYEKLGYPVLAVSAKTGEGLDELRELLKGK 86
>gnl|CDD|107202 cd00640, Trp-synth-beta_II, Tryptophan synthase beta superfamily
(fold type II); this family of pyridoxal phosphate
(PLP)-dependent enzymes catalyzes beta-replacement and
beta-elimination reactions. This CD corresponds to
aminocyclopropane-1-carboxylate deaminase (ACCD),
tryptophan synthase beta chain (Trp-synth_B),
cystathionine beta-synthase (CBS), O-acetylserine
sulfhydrylase (CS), serine dehydratase (Ser-dehyd),
threonine dehydratase (Thr-dehyd), diaminopropionate
ammonia lyase (DAL), and threonine synthase (Thr-synth).
ACCD catalyzes the conversion of
1-aminocyclopropane-1-carboxylate to alpha-ketobutyrate
and ammonia. Tryptophan synthase folds into a tetramer,
where the beta chain is the catalytic PLP-binding
subunit and catalyzes the formation of L-tryptophan from
indole and L-serine. CBS is a tetrameric hemeprotein
that catalyzes condensation of serine and homocysteine
to cystathionine. CS is a homodimer that catalyzes the
formation of L-cysteine from O-acetyl-L-serine.
Ser-dehyd catalyzes the conversion of L- or D-serine to
pyruvate and ammonia. Thr-dehyd is active as a homodimer
and catalyzes the conversion of L-threonine to
2-oxobutanoate and ammonia. DAL is also a homodimer and
catalyzes the alpha, beta-elimination reaction of both
L- and D-alpha, beta-diaminopropionate to form pyruvate
and ammonia. Thr-synth catalyzes the formation of
threonine and inorganic phosphate from
O-phosphohomoserine.
Length = 244
Score = 32.5 bits (75), Expect = 0.16
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 1 ITGATDG-LGKAYAEGLAKLGIDVVLI---SRTKEKLDNLAKLGIDVVLISRTKEKLDNV 56
I +T G G A A A+LG+ ++ + EK+ + LG +VVL+ + +
Sbjct: 53 IIESTGGNTGIALAAAAARLGLKCTIVMPEGASPEKVAQMRALGAEVVLVPGDFDDAIAL 112
Query: 57 AAEI 60
A E+
Sbjct: 113 AKEL 116
>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 = 32.6 bits (74), Expect = 0.16
Identities = 55/236 (23%), Positives = 83/236 (35%), Gaps = 49/236 (20%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G A A G V+L R SR + + E
Sbjct: 6 ITGANSGIGFETARSFALHGAHVILACRNM----------------SRASAAVSRILEEW 49
Query: 61 RDKYKVDTKVI-VADFTDPKIFAHVEKELTGIEAGILVNNVG-YSYPYPERFLAVPEKET 118
K +V+ + +A + FA K +LV N ++ P+ L ET
Sbjct: 50 H-KARVEAMTLDLASLRSVQRFAEAFKA-KNSPLHVLVCNAAVFALPWT---LTEDGLET 104
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIP-----------SP---- 163
+ + H L+ + + V+ R VV + S +P SP
Sbjct: 105 TFQ-VNHLGHFYLVQLLEDVLRRSAPARVIVVSSESHRFTDLPDSCGNLDFSLLSPPKKK 163
Query: 164 ---MLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNM--SKIKKSSWM 214
ML+ Y +KL FS +L GI + PG NM S I ++ W+
Sbjct: 164 YWSMLA-YNRAKLCNILFSNELHRRLSPRGITSNSLHPG----NMMYSSIHRNWWV 214
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 32.6 bits (75), Expect = 0.18
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKE 51
+ GA GLG + +G +V+ I+R++EKL+ KLG D V+ S +
Sbjct: 172 VVGAG-GLGHMAVQYAKAMGAEVIAITRSEEKLELAKKLGADHVINSSDSD 221
>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 = 32.3 bits (74), Expect = 0.19
Identities = 49/214 (22%), Positives = 80/214 (37%), Gaps = 27/214 (12%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG GLG+A E G V ++ R+ EK+ L D V+ V ++
Sbjct: 9 ITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELRADFGDAVVG---------VEGDV 59
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEK--ET 118
R D + VA + F ++ + N G + Y + +PE+ +
Sbjct: 60 RS-LA-DNERAVARCVER--FGKLD---------CFIGNAGI-WDYSTSLVDIPEEKLDE 105
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKF 178
+ + H NV + + +P + V+ +S+ A P +Y ASK V
Sbjct: 106 AFDELFHINVKGYILGAKAALPALYATEGSVIFTVSN-AGFYPGGGGPLYTASKHAVVGL 164
Query: 179 STDLQSEYKKHGIIVQCVMPGYVATNMSKIKKSS 212
L E H I V V PG + T++
Sbjct: 165 VKQLAYELAPH-IRVNGVAPGGMVTDLRGPASLG 197
>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 = 32.4 bits (74), Expect = 0.21
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRT 29
ITG GLG A LA G +VL+SR
Sbjct: 155 ITGGLGGLGLLVARWLAARGARHLVLLSRR 184
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 30.6 bits (70), Expect = 0.23
Identities = 16/46 (34%), Positives = 30/46 (65%)
Query: 8 LGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKL 53
+G++ AE L + G DVV+I + E+++ L + G+ VV+ T E++
Sbjct: 9 VGRSLAEELREGGPDVVVIDKDPERVEELREEGVPVVVGDATDEEV 54
Score = 27.1 bits (61), Expect = 4.0
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 9/56 (16%)
Query: 33 LDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIF--AHVEK 86
+ L + G DVV+I + E+++ + E V+V D TD ++ A +E+
Sbjct: 14 AEELREGGPDVVVIDKDPERVEELREE-------GVPVVVGDATDEEVLEEAGIEE 62
>gnl|CDD|202773 pfam03807, F420_oxidored, NADP oxidoreductase coenzyme
F420-dependent.
Length = 93
Score = 30.3 bits (69), Expect = 0.27
Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 18/81 (22%)
Query: 8 LGKAYAEGLAKLGIDVVLI-SRTKEKLDNLAK-LGI--------------DVVLISRTKE 51
+G+A A GLA G +VV+ SR EK LA+ LG+ DVV ++ E
Sbjct: 10 MGEALARGLAAAGHEVVIANSRNPEKAAALAEELGVKATAVSNEEAVEEADVVFLAVKPE 69
Query: 52 KLDNVAAEIRDKYKVDTKVIV 72
V AE+ D K K+++
Sbjct: 70 DAPEVLAELADLLK--GKLVI 88
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 31.5 bits (72), Expect = 0.29
Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 11/80 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD-------NLAKLGIDVVLISRTKEKL 53
+ G + G+G A A A G V + SR++++L A + + I+
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGGGAPVRTAALDITDEAA-- 59
Query: 54 DNVAAEIRDKYKVDTKVIVA 73
V A + D VI A
Sbjct: 60 --VDAFFAEAGPFDHVVITA 77
Score = 30.8 bits (70), Expect = 0.55
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 36 LAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDP 78
A G V + SR++++L A + V T D TD
Sbjct: 17 FAAEGARVTIASRSRDRLAAAARALGGGAPVRT--AALDITDE 57
>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 = 31.7 bits (72), Expect = 0.34
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAK 38
ITGA+ GLG A A+ LA+ G VV+ R K + A+
Sbjct: 6 ITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQ 44
>gnl|CDD|176205 cd08243, quinone_oxidoreductase_like_1, Quinone oxidoreductase
(QOR). NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 320
Score = 31.4 bits (72), Expect = 0.36
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLI 46
I G T +G A A LAK LG V +R+ E+ L +LG D V+I
Sbjct: 148 IRGGTSSVGLA-ALKLAKALGATVTATTRSPERAALLKELGADEVVI 193
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 30.4 bits (69), Expect = 0.37
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 7 GLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRD 62
G+G A + LG V+ + R++EKL+ +LG D V+ R ++ +R+
Sbjct: 1 GVGLAAVQLAKALGAARVIAVDRSEEKLELAKELGADHVINYRD----EDFVERVRE 53
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 31.5 bits (72), Expect = 0.38
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAK-LGID 42
ITGA+ G+G A+ LAK G V++ R +K + A+ LGI
Sbjct: 11 ITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIP 53
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 31.1 bits (71), Expect = 0.40
Identities = 31/114 (27%), Positives = 39/114 (34%), Gaps = 35/114 (30%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEK----LDNLAKL--GIDVVLISRTKEKLD 54
+TGA GLG A LA G VVL R +K + G DV L L
Sbjct: 21 VTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQELDLTSLA 80
Query: 55 NV---AAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYP 105
+V A +R Y P+I +L+NN G Y
Sbjct: 81 SVRAAADALRAAY-------------PRI-------------DLLINNAGVMYT 108
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 31.2 bits (71), Expect = 0.50
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 1 ITGATDGLGKAYAEGLAKLG-IDVVLISRTKEKLDNLAK-LGID 42
ITGA+ GLG A A+ LA+ G VV+ R K + AK G+
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSAGMP 45
>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 = 31.2 bits (71), Expect = 0.50
Identities = 9/39 (23%), Positives = 21/39 (53%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL 39
+TG T LG+ + L + G V+++ R++ + ++
Sbjct: 3 VTGGTGFLGRHLVKRLLENGFKVLVLVRSESLGEAHERI 41
>gnl|CDD|216069 pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This
family is structurally different from the alpha/beta
hydrolase family (pfam00561). This family includes
L-2-haloacid dehalogenase, epoxide hydrolases and
phosphatases. The structure of the family consists of
two domains. One is an inserted four helix bundle, which
is the least well conserved region of the alignment,
between residues 16 and 96 of Pseudomonas sp.
(S)-2-haloacid dehalogenase 1. The rest of the fold is
composed of the core alpha/beta domain. Those members
with the characteristic DxD triad at the N-terminus are
probably phosphatidylglycerolphosphate (PGP)
phosphatases involved in cardiolipin biosynthesis in the
mitochondria.
Length = 187
Score = 30.3 bits (68), Expect = 0.55
Identities = 18/81 (22%), Positives = 30/81 (37%), Gaps = 11/81 (13%)
Query: 16 LAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADF 75
L + + L +E L L + GI + +++ A I + ++ AD
Sbjct: 86 LGLIALTDPLYPGAREALKELKEAGIKLAILTGD---NRLTANAIARLLGLFDALVSADL 142
Query: 76 T--------DPKIFAHVEKEL 88
DPKIF +EL
Sbjct: 143 YGLVGVGKPDPKIFELALEEL 163
>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 = 31.0 bits (71), Expect = 0.57
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 1 ITGATDGLGKAYAEGLAKLGID-VVLISRT-------KEKLDNLAKLGIDVVL 45
+TG T LG A LA+ G + +VL SR E + L LG V +
Sbjct: 235 VTGGTGALGAHVARWLARRGAEHLVLTSRRGPDAPGAAELVAELTALGARVTV 287
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 30.9 bits (70), Expect = 0.58
Identities = 43/183 (23%), Positives = 64/183 (34%), Gaps = 23/183 (12%)
Query: 25 LISRTKEKLDNLAKLGIDVVLI----SRTKEKLDNVAAEIRDKYKVDTKVIVADFTDP-- 78
LI+R LA G V I + +K + A ++ AD T
Sbjct: 23 LIARD------LAAQGAKAVAIHYNSAASKADAEETVAAVKAA-GAKAVAFQADLTTAAA 75
Query: 79 --KIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVYHNIMHCNVITLLSMCQ 136
K+F + + I +N VG P + + E E Y + N + +
Sbjct: 76 VEKLFDDAKAAFGRPD--IAINTVGKVLKKP--IVEISEAE--YDEMFAVNSKSAFFFIK 129
Query: 137 IVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCV 196
H+ + K V + S A +P S Y SK V F+ E+ GI V V
Sbjct: 130 EAGRHLNDNGKIVTLVTSLLGAF--TPFYSAYAGSKAPVEHFTRAASKEFGARGISVTAV 187
Query: 197 MPG 199
PG
Sbjct: 188 GPG 190
>gnl|CDD|187568 cd05258, CDP_TE_SDR_e, CDP-tyvelose 2-epimerase, extended (e)
SDRs. CDP-tyvelose 2-epimerase is a tetrameric SDR
that catalyzes the conversion of CDP-D-paratose to
CDP-D-tyvelose, the last step in tyvelose biosynthesis.
This subgroup is a member of the extended SDR
subfamily, with a characteristic active site tetrad and
NAD-binding motif. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 337
Score = 30.7 bits (70), Expect = 0.59
Identities = 18/79 (22%), Positives = 28/79 (35%), Gaps = 11/79 (13%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS----RTKEKLDNV 56
ITG +G A K G +V+ DNL + G L R + V
Sbjct: 5 ITGGAGFIGSNLARFFLKQGWEVIGF-------DNLMRRGSFGNLAWLKANREDGGVRFV 57
Query: 57 AAEIRDKYKVDTKVIVADF 75
+IR++ ++ D
Sbjct: 58 HGDIRNRNDLEDLFEDIDL 76
>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 = 30.7 bits (70), Expect = 0.60
Identities = 16/59 (27%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 7 GLGKAYAEGLAKLG-IDVVLISRTKEKLDNLA--KLGIDVVLISRTKEKLDNVAAEIRD 62
G+G+ A LA+ G +++ + R+ EK LA KLG+ + I+ + + + A +++
Sbjct: 8 GVGQGVAPLLARHGDLEITVADRSLEKAQALAAPKLGLRFIAIAVDADNYEALVALLKE 66
Score = 28.0 bits (63), Expect = 4.6
Identities = 12/76 (15%), Positives = 26/76 (34%), Gaps = 9/76 (11%)
Query: 33 LDNLAKLG-IDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGI 91
LA+ G +++ + R+ EK +AA + + D + + L
Sbjct: 14 APLLARHGDLEITVADRSLEKAQALAAPKL-GLRFIAIAV-----DADNYEALVALLK-- 65
Query: 92 EAGILVNNVGYSYPYP 107
E +++N
Sbjct: 66 EGDLVINLAPPFLSLT 81
>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 = 30.6 bits (69), Expect = 0.66
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAK 38
ITGA+ GLG A+ LA G V++ R K + AK
Sbjct: 8 ITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAK 46
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 30.5 bits (70), Expect = 0.68
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNV 56
+ GA G+G A A LAK LG V+ + ++EKL LG D V+ R + + V
Sbjct: 145 VLGAAGGVGLA-AVQLAKALGARVIAAASSEEKLALARALGADHVIDYRDPDLRERV 200
>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 = 30.4 bits (69), Expect = 0.79
Identities = 54/254 (21%), Positives = 88/254 (34%), Gaps = 67/254 (26%)
Query: 1 ITGATDGLGKAYAEGL-----AKLGIDVVLISRTKEK----LDNL------AKLGIDVVL 45
+TGA GLG A E L + ++L R ++ L A++ D VL
Sbjct: 6 VTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVFDYVL 65
Query: 46 ISRTKEK-LDNVAAEIRDKY-KVD----------------TKVIVADFTDPKIFAHVEKE 87
+ + + A E++ +Y ++D I T+P +FA
Sbjct: 66 VDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIGAIKEVLTNP-LFA----- 119
Query: 88 LTGIEAGILVNNVGYSYPYPERFLAVPEKETV--YHNIMHCNVITLLSMCQIVMPHMVEQ 145
V N Y E L+ +K T + NV + + + P +
Sbjct: 120 ---------VTNPTY-KIQAEGLLSQGDKATEDGLGEVFQTNVFGHYYLIRELEPLLCRS 169
Query: 146 R-KGVVVNISSTAALIPSP-MLSV-----------YGASKLFVSKFSTDLQSEYKKHGII 192
++ SS A SP S+ Y +SK V S L ++ K G+
Sbjct: 170 DGGSQIIWTSSLNA---SPKYFSLEDIQHLKGPAPYSSSKYLVDLLSLALNRKFNKLGVY 226
Query: 193 VQCVMPGYVATNMS 206
V PG TN++
Sbjct: 227 SYVVHPGICTTNLT 240
>gnl|CDD|222161 pfam13477, Glyco_trans_4_2, Glycosyl transferase 4-like.
Length = 139
Score = 29.6 bits (67), Expect = 0.82
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 12 YAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLI-SRTKEKLDNVAA-EIRDKYK 65
+ +GL + G +V +++ +K + L GI V + K + + ++ K
Sbjct: 16 WIKGLKERGYEVHIVTPDGDKKEYLIAEGIKVHSLPIPRKGPFEYLKLFRLKKLIK 71
>gnl|CDD|233580 TIGR01809, Shik-DH-AROM, shikimate-5-dehydrogenase, fungal
AROM-type. This model represents a clade of
shikimate-5-dehydrogenases found in Corynebacterium,
Mycobacteria and fungi. The fungal sequences are
pentafunctional proteins known as AroM which contain the
central five seven steps in the chorismate biosynthesis
pathway. The Corynebacterium and Mycobacterial sequences
represent the sole shikimate-5-dehydrogenases in species
which otherwise have every enzyme of the chorismate
biosynthesis pathway [Amino acid biosynthesis, Aromatic
amino acid family].
Length = 282
Score = 30.3 bits (68), Expect = 0.82
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 7 GLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLGIDVVLISRT 49
G +A LA LG+ D+ +I+R +KL L LG+ V +I+R
Sbjct: 135 GTSRAAVYALASLGVTDITVINRNPDKLSRLVDLGVQVGVITRL 178
>gnl|CDD|219090 pfam06574, FAD_syn, FAD synthetase. This family corresponds to the
N terminal domain of the bifunctional enzyme riboflavin
kinase / FAD synthetase. These enzymes have both
ATP:riboflavin 5'-phospho transferase and
ATP:FMN-adenylyltransferase activity. They catalyze the
5'-phosphorylation of riboflavin to FMN and the
adenylylation of FMN to FAD. This domain is thought to
have the flavin mononucleotide (FMN) adenylyltransferase
activity.
Length = 158
Score = 29.4 bits (67), Expect = 0.88
Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 24 VLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE------IRDKYKVDTKVIVADFT 76
++ +EK++ LA+LG+D +L+ ++ +++AE + D V+ DF
Sbjct: 60 FRLTTLREKIELLAELGVDRLLVLPFDKEFASLSAEEFIENILVDGLGAKHVVVGFDFR 118
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar
epimerase [General function prediction only].
Length = 297
Score = 30.3 bits (69), Expect = 0.90
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 14/58 (24%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTK--------------EKLDNLAKLGIDVV 44
ITG T +G+A L K G V +++R E L + LGID V
Sbjct: 3 ITGGTGLIGRALTARLRKGGHQVTILTRRPPKASQNLHPNVTLWEGLADALTLGIDAV 60
>gnl|CDD|185679 cd02064, FAD_synthetase_N, FAD synthetase, N-terminal domain of the
bifunctional enzyme. FAD synthetase_N. N-terminal
domain of the bifunctional riboflavin biosynthesis
protein riboflavin kinase/FAD synthetase. These enzymes
have both ATP:riboflavin 5'-phosphotransferase and
ATP:FMN-adenylyltransferase activities. The N-terminal
domain is believed to play a role in the adenylylation
reaction of FAD synthetases. The C-terminal domain is
thought to have kinase activity. FAD synthetase is
present among all kingdoms of life. However, the
bifunctional enzyme is not found in mammals, which use
separate enzymes for FMN and FAD formation.
Length = 180
Score = 29.8 bits (68), Expect = 0.91
Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 25 LISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE-----IRDKYKVDTKVIVADFT 76
++ +EKL+ L LG+D +L+ ++ +++AE + K V+ DF
Sbjct: 54 RLTTLEEKLELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDFR 110
>gnl|CDD|176216 cd08254, hydroxyacyl_CoA_DH, 6-hydroxycyclohex-1-ene-1-carboxyl-CoA
dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase,
and other MDR family members. This group contains
enzymes of the zinc-dependent alcohol dehydrogenase
family, including members (aka MDR) identified as
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase and
N-benzyl-3-pyrrolidinol dehydrogenase.
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase
catalyzes the conversion of
6-Hydroxycyclohex-1-enecarbonyl-CoA and NAD+ to
6-Ketoxycyclohex-1-ene-1-carboxyl-CoA,NADH, and H+. This
group displays the characteristic catalytic and
structural zinc sites of the zinc-dependent alcohol
dehydrogenases. 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 have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 338
Score = 30.3 bits (69), Expect = 0.97
Identities = 23/71 (32%), Positives = 32/71 (45%), Gaps = 7/71 (9%)
Query: 7 GLGKAYAEGLAKL-GIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYK 65
GLG A +AK G V+ + +EKL+ +LG D VL S D AA +
Sbjct: 176 GLG-LNAVQIAKAMGAAVIAVDIKEEKLELAKELGADEVLNSLDDSPKDKKAAGLGG--G 232
Query: 66 VDTKVIVADFT 76
D ++ DF
Sbjct: 233 FD---VIFDFV 240
>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 = 29.5 bits (67), Expect = 1.00
Identities = 24/122 (19%), Positives = 45/122 (36%), Gaps = 26/122 (21%)
Query: 36 LAKLGI-DVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAG 94
LA+LG +V+++RT EK A + +++ I + D + EA
Sbjct: 38 LAELGAAKIVIVNRTLEK----AKALAERFG--ELGIAIAYLDLEELLA--------EAD 83
Query: 95 ILVN--NVG--YSYPYPERFLAVPEKETVYHNIMHCNVITLLSM-----CQIV--MPHMV 143
+++N VG P + VY + + LL + + + +V
Sbjct: 84 LIINTTPVGMKPGDELPLPPSLLKPGGVVYDVVYNPLETPLLKEARALGAKTIDGLEMLV 143
Query: 144 EQ 145
Q
Sbjct: 144 YQ 145
Score = 28.4 bits (64), Expect = 2.4
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 7 GLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAK 38
G +A A LA+LG +V+++RT EK LA+
Sbjct: 29 GAARAVAYALAELGAAKIVIVNRTLEKAKALAE 61
>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 = 29.8 bits (67), Expect = 1.2
Identities = 35/159 (22%), Positives = 54/159 (33%), Gaps = 47/159 (29%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITGA G+G A AE L G V+ GID+ + +V A++
Sbjct: 4 ITGAASGIGAATAELLEDAGHTVI---------------GIDL--------READVIADL 40
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+AD + A L G LVN G TV
Sbjct: 41 STPEGRAA--AIAD-----VLARCSGVLDG-----LVNCAGVGGT------------TVA 76
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAAL 159
++ N L ++ + ++P + + V +SS A
Sbjct: 77 GLVLKVNYFGLRALMEALLPRLRKGHGPAAVVVSSIAGA 115
>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 = 29.6 bits (67), Expect = 1.3
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL 39
+ GA+ +G+ A L + G DV L+SR+ KL L +
Sbjct: 4 VLGASGPIGREVARELRRRGWDVRLVSRSGSKLAWLPGV 42
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 29.5 bits (67), Expect = 1.3
Identities = 28/105 (26%), Positives = 42/105 (40%), Gaps = 30/105 (28%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TGA +G+A A LA G DV V +R++++ + +AAEI
Sbjct: 14 VTGAARRIGRAIALDLAAHGFDV-------------------AVHYNRSRDEAEALAAEI 54
Query: 61 RDKYKVDTKVIV--ADFTDP----KIFAHVEKELTGIEAGILVNN 99
R + + AD D + A L I +LVNN
Sbjct: 55 RAL---GRRAVALQADLADEAEVRALVARASAALGPI--TLLVNN 94
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 29.7 bits (67), Expect = 1.3
Identities = 24/107 (22%), Positives = 42/107 (39%), Gaps = 25/107 (23%)
Query: 148 GVVVNISSTAA-LIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYVATNMS 206
G ++ I S +P ++ Y ASK + + L ++ GI + V PG + T+ +
Sbjct: 125 GRIIIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGPRGITINVVQPGPIDTDAN 184
Query: 207 --------------KIKK----------SSWMVPSPATFVDSALKTI 229
IK+ +W+ A+FV A+ TI
Sbjct: 185 PANGPMKDMMHSFMAIKRHGRPEEVAGMVAWLAGPEASFVTGAMHTI 231
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 29.6 bits (67), Expect = 1.4
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVV 24
+TGA G+G+A+A A G VV
Sbjct: 11 VTGAGGGIGRAHALAFAAEGARVV 34
Score = 28.5 bits (64), Expect = 3.3
Identities = 13/55 (23%), Positives = 24/55 (43%)
Query: 144 EQRKGVVVNISSTAALIPSPMLSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMP 198
++N SS A L S Y A+K ++ + +E ++G+ V + P
Sbjct: 146 RAVDARIINTSSGAGLQGSVGQGNYSAAKAGIAALTLVAAAELGRYGVTVNAIAP 200
>gnl|CDD|213592 TIGR01179, galE, UDP-glucose-4-epimerase GalE. Alternate name:
UDPgalactose 4-epimerase This enzyme interconverts
UDP-glucose and UDP-galactose. A set of related
proteins, some of which are tentatively identified as
UDP-glucose-4-epimerase in Thermotoga maritima, Bacillus
halodurans, and several archaea, but deeply branched
from this set and lacking experimental evidence, are
excluded from This model and described by a separate
model [Energy metabolism, Sugars].
Length = 328
Score = 29.6 bits (67), Expect = 1.5
Identities = 51/198 (25%), Positives = 81/198 (40%), Gaps = 56/198 (28%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG +G L + G +VV+ LDNL+ + + + V ++
Sbjct: 4 VTGGAGYIGSHTVRQLLESGHEVVI-------LDNLSNGSREALPRGERITPVTFVEGDL 56
Query: 61 RDKYKVDTKVIVADFTDPKIFA--HVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKET 118
RD+ +D F + KI A H AG++ VG S P ++
Sbjct: 57 RDRELLD-----RLFEEHKIDAVIHF--------AGLIA--VGESVQKPLKY-------- 93
Query: 119 VYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNI-SSTAAL------IP----SPM--L 165
Y N NV+ L++ + + Q+ GV I SS+AA+ IP SP+ +
Sbjct: 94 -YRN----NVVGTLNLLEAM------QQAGVKKFIFSSSAAVYGEPSSIPISEDSPLGPI 142
Query: 166 SVYGASKLFVSKFSTDLQ 183
+ YG SKL + DLQ
Sbjct: 143 NPYGRSKLMSEQILRDLQ 160
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 29.5 bits (67), Expect = 1.5
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 7 GLGKAYAEGLAKL--GIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRD 62
GLG A + + V+ + R++E L +LG D VL + D+V E+R+
Sbjct: 178 GLG-HIAVQILRALTPATVIAVDRSEEALKLAERLGADHVLNAS-----DDVVEEVRE 229
>gnl|CDD|188573 TIGR04058, AcACP_reductase, long-chain fatty acyl-ACP reductase
(aldehyde-forming). This enzyme, found in
cyanobacteria, reduces a long-chain (mainly C16 or C18)
fatty acyl ACP ester to its corresponding fatty
aldehyde, releasing the acyl carrier protein (ACP).
NADPH or NADH is the reductant for this reaction. This
enzyme may be distantly related to the short-chain
dehydrogenase or reductase (SDR) family (pfam00106). The
purpose of this reaction is in the first step of alkane
biosynthesis (GenProp0942) [Central intermediary
metabolism, Other].
Length = 339
Score = 29.3 bits (66), Expect = 1.7
Identities = 18/43 (41%), Positives = 30/43 (69%), Gaps = 3/43 (6%)
Query: 1 ITGATDGLGKAYAEGL-AKLGI-DVVLISRTKEKLDNL-AKLG 40
+ GAT +G A L AK G+ +++L++R +E+L+NL A+LG
Sbjct: 160 VVGATGDIGSAVCRWLDAKTGVAELLLVARNQERLENLQAELG 202
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site, and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 29.3 bits (67), Expect = 1.7
Identities = 27/76 (35%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
I G G+G A A LAK LG V+ + ++EKL+ LG DV I+ E E
Sbjct: 145 IHGGASGVGTA-AIQLAKALGARVIATAGSEEKLEACRALGADVA-INYRTEDFAEEVKE 202
Query: 60 IRDKYKVDTKVIVADF 75
VD VI+ D
Sbjct: 203 ATGGRGVD--VIL-DM 215
>gnl|CDD|163279 TIGR03466, HpnA, hopanoid-associated sugar epimerase. The
sequences in this family are members of the pfam01370
superfamily of NAD-dependent epimerases and
dehydratases typically acting on nucleotide-sugar
substrates. The genes of the family modeled here are
generally in the same locus with genes involved in the
biosynthesis and elaboration of hopene, the cyclization
product of the polyisoprenoid squalene. This gene and
its association with hopene biosynthesis in Zymomonas
mobilis has been noted in the literature where the gene
symbol hpnA was assigned. Hopanoids are known to be
components of the plasma membrane and to have polar
sugar head groups in Z. mobilis and other species.
Length = 328
Score = 29.2 bits (66), Expect = 1.9
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVV 44
+TGAT +G A L + G +V ++ R NL L +++V
Sbjct: 5 VTGATGFVGSAVVRLLLEQGEEVRVLVRPTSDRRNLEGLDVEIV 48
>gnl|CDD|176251 cd08291, ETR_like_1, 2-enoyl thioester reductase (ETR) like
proteins, child 1. 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 = 29.1 bits (66), Expect = 2.0
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 2 TGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLIS 47
T A LG+ GI V+ I R KE++D L K+G + VL S
Sbjct: 150 TAAASALGRMLVRLCKADGIKVINIVRRKEQVDLLKKIGAEYVLNS 195
>gnl|CDD|225807 COG3268, COG3268, Uncharacterized conserved protein [Function
unknown].
Length = 382
Score = 29.3 bits (66), Expect = 2.0
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNL-AKLGID 42
I GAT G AE LA+ G+ L R+ KLD L A LG +
Sbjct: 11 IYGATGYAGGLVAEYLAREGLTAALAGRSSAKLDALRASLGPE 53
>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 = 29.2 bits (66), Expect = 2.1
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 2 TGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVL 45
A +GK A A GI+V+ + R + L LGI V+
Sbjct: 146 NAAGGAVGKLVAMLAAARGINVINLVRRDAGVAELRALGIGPVV 189
>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 = 28.8 bits (65), Expect = 2.5
Identities = 35/204 (17%), Positives = 64/204 (31%), Gaps = 54/204 (26%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG T +G L + G +V+ VL R + + N
Sbjct: 3 VTGGTGFIGSHLVRRLLQEGYEVI-------------------VLGRRRRSESLN----- 38
Query: 61 RDKYKVDTKVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETVY 120
+ D TDP +E+ L ++ +++ S F P + +
Sbjct: 39 ----TGRIRFHEGDLTDP---DALERLLAEVQPDAVIHLAAQS-GVGASFED-PA-DFIR 88
Query: 121 HNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTA---ALIPSPM--------LSVYG 169
N++ + LL ++ V SS+ + P+ LS Y
Sbjct: 89 ANVLG--TLRLLEAA-----RRAGVKR--FVFASSSEVYGDVADPPITEDTPLGPLSPYA 139
Query: 170 ASKLFVSKFSTDLQSEYKKHGIIV 193
A+KL + Y +I+
Sbjct: 140 AAKLAAERLVEAYARAYGLRAVIL 163
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor
of L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis.
The human gene encoding MAT2B encodes two major
splicing variants which are induced in human cell liver
cancer and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this
extended SDR domain. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 28.7 bits (65), Expect = 2.6
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNL 36
ITGAT LG+A L + G +V+ R++ L L
Sbjct: 4 ITGATGMLGRALVRLLKERGYEVIGTGRSRASLFKL 39
>gnl|CDD|99980 cd03808, GT1_cap1E_like, This family is most closely related to
the GT1 family of glycosyltransferases. cap1E in
Streptococcus pneumoniae is required for the synthesis
of type 1 capsular polysaccharides.
Length = 359
Score = 28.7 bits (65), Expect = 2.6
Identities = 10/52 (19%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 10 KAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIR 61
+ L G +V +++ ++L+ L LG+ V+ I + + N +++
Sbjct: 17 LPLIKALRAAGYEVHVVAPPGDELEELEALGVKVIPIPLDRRGI-NPFKDLK 67
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 29.2 bits (66), Expect = 2.7
Identities = 34/177 (19%), Positives = 66/177 (37%), Gaps = 44/177 (24%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG +G + K + +L SR + KL + E+
Sbjct: 255 VTGGGGSIGSELCRQILKFNPKEI-------------------ILFSRDEYKLYLIDMEL 295
Query: 61 RDKYKVDT-KVIVADFTDPKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLAVPEKETV 119
R+K+ + + D D VE+ + G + I+ + + VP V
Sbjct: 296 REKFPELKLRFYIGDVRDRDR---VERAMEGHKVDIVFHAAALKH--------VP---LV 341
Query: 120 YHNIMHC---NVITLLSMCQIVMPHMVEQRKGVVVNISSTAALIPSPMLSVYGASKL 173
+N NV+ ++ + + + V++ V IS+ A+ P+ +V GA+K
Sbjct: 342 EYNPEEAIKTNVLGTENVAEAAIKNGVKK----FVLISTDKAVNPT---NVMGATKR 391
>gnl|CDD|234703 PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed.
Length = 278
Score = 28.6 bits (65), Expect = 2.7
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 7 GLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKLG 40
G +A L LG+ ++ +++RT E+ + LAKL
Sbjct: 133 GAARAVILPLLDLGVAEITIVNRTVERAEELAKLF 167
>gnl|CDD|222611 pfam14229, DUF4332, Domain of unknown function (DUF4332). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria and
archaea. Proteins in this family are typically between
134 and 356 amino acids in length.
Length = 122
Score = 27.5 bits (62), Expect = 2.9
Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 5/47 (10%)
Query: 7 GLGKAYAEGLAKLGIDVV--LISRTKEKLDNLA---KLGIDVVLISR 48
G+ + AE L GI L+ A KLGI + +
Sbjct: 2 GIFRDEAEKLKAAGIKTTEDLLELGDTPAGRKALAAKLGITARNLLK 48
>gnl|CDD|181564 PRK08849, PRK08849,
2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 28.6 bits (64), Expect = 2.9
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 8 LGKAYAEGLAKLGIDVVLISRTKEK-LDNLAKLGIDVVLISRTKEKL 53
+G A A G AK G V +I + K + + I V IS+T L
Sbjct: 14 VGAATALGFAKQGRSVAVIEGGEPKAFEPSQPMDIRVSAISQTSVDL 60
>gnl|CDD|223598 COG0524, RbsK, Sugar kinases, ribokinase family [Carbohydrate
transport and metabolism].
Length = 311
Score = 28.6 bits (64), Expect = 3.0
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 9 GKA--YAEGLAKLGIDVVLISRT------KEKLDNLAKLGIDVVLISRTKE 51
GK A LA+LG V LI + L+ L K G+D + +
Sbjct: 38 GKGANVAVALARLGAKVALIGAVGDDDFGEFLLEELRKEGVDTSHVVTDEG 88
>gnl|CDD|223529 COG0452, Dfp, Phosphopantothenoylcysteine synthetase/decarboxylase
[Coenzyme metabolism].
Length = 392
Score = 28.9 bits (65), Expect = 3.1
Identities = 19/78 (24%), Positives = 29/78 (37%), Gaps = 3/78 (3%)
Query: 9 GKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDT 68
G A A + G V L+S L A G++VV + +E L+ V +
Sbjct: 212 GFALAAAAKRRGASVTLVS-GPTSLKIPA--GVEVVKVESAEEMLNAVLEAALPADIFIS 268
Query: 69 KVIVADFTDPKIFAHVEK 86
VAD+ + K
Sbjct: 269 AAAVADYRPKWVAEAKIK 286
>gnl|CDD|238567 cd01147, HemV-2, Metal binding protein HemV-2. These proteins are
predicted to function as initial receptors in ABC
transport of metal ions. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
A typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind the
metal ion in the cleft between these domains. In
addition, these proteins sometimes have a low complexity
region containing a metal-binding histidine-rich motif
(repetitive HDH sequence).
Length = 262
Score = 28.5 bits (64), Expect = 3.1
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 5/57 (8%)
Query: 9 GKAYAEGLAKLGIDVVLI----SRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIR 61
E +A L DVV+ T D K GI VV++ + L++ +IR
Sbjct: 63 NTPNYEKIAALKPDVVIDVGSDDPTSIADDLQKKTGIPVVVLD-GGDSLEDTPEQIR 118
>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 = 28.3 bits (64), Expect = 3.2
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 3 GATDGLGKAYAEGLAKLGIDVVLISRTKE 31
GAT +G A A+ L+ G +V+ R+
Sbjct: 5 GATGTIGLAVAQLLSAHGHEVITAGRSSG 33
>gnl|CDD|224171 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 28.8 bits (65), Expect = 3.4
Identities = 35/113 (30%), Positives = 46/113 (40%), Gaps = 34/113 (30%)
Query: 8 LGKAYAEGLAKLGID--VVLISRT--KEKLD---------NLAKLGIDVVLISRTKEKLD 54
LG A GL LG++ VV I+ T + +LD L LGI V+L T+E +
Sbjct: 156 LGLEAARGLKDLGMEVTVVHIAPTLMERQLDRTAGRLLRRKLEDLGIKVLLEKNTEEIVG 215
Query: 55 NVAAE-IRDKYKVDTKVIVADFTDPKIFAHVEKELTGI--------EAGILVN 98
E +R D I AD + A GI EAG+ VN
Sbjct: 216 EDKVEGVRFA---DGTEIPADLV---VMA------VGIRPNDELAKEAGLAVN 256
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 28.4 bits (64), Expect = 3.5
Identities = 20/64 (31%), Positives = 35/64 (54%), Gaps = 6/64 (9%)
Query: 1 ITGATDGLGKAYAEGLAKL-GIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
+ GA G+G A A +AKL G V+ + +++KL+ +LG D V+ R ++ E
Sbjct: 172 VHGAGSGVGSA-AIQIAKLFGATVIATAGSEDKLERAKELGADYVIDYRK----EDFVRE 226
Query: 60 IRDK 63
+R+
Sbjct: 227 VREL 230
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 28.0 bits (63), Expect = 3.6
Identities = 22/100 (22%), Positives = 35/100 (35%), Gaps = 18/100 (18%)
Query: 113 VPEKETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNISSTAA---------LIPSP 163
VP NV+ L++ + V++ V SS + +P
Sbjct: 43 VPASWDNPDEDFETNVVGTLNLLEAARKAGVKR----FVYASSASVYGSPEGLPEEEETP 98
Query: 164 M--LSVYGASKLFVSKFSTDLQSEYKKHGIIVQCVMPGYV 201
LS YG SKL L+S + +G+ V + V
Sbjct: 99 PRPLSPYGVSKLAAEHL---LRSYGESYGLPVVILRLANV 135
>gnl|CDD|176229 cd08268, MDR2, 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 = 328
Score = 28.3 bits (64), Expect = 3.8
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
IT A+ +G A + +A G V+ +RT EK D L LG V I +E L
Sbjct: 150 ITAASSSVGLAAIQ-IANAAGATVIATTRTSEKRDALLALGAAHV-IVTDEEDLVAEVLR 207
Query: 60 IRDKYKVDT 68
I VD
Sbjct: 208 ITGGKGVDV 216
>gnl|CDD|232992 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In
bacteria, the incorporation of selenocysteine as the
21st amino acid, encoded by TGA, requires several
elements: SelC is the tRNA itself, SelD acts as a donor
of reduced selenium, SelA modifies a serine residue on
SelC into selenocysteine, and SelB is a
selenocysteine-specific translation elongation factor.
3-prime or 5-prime non-coding elements of mRNA have been
found as probable structures for directing
selenocysteine incorporation. This model describes SelA.
This model excludes homologs that appear to differ in
function from Frankia alni, Helicobacter pylori,
Methanococcus jannaschii and other archaea, and so on
[Protein synthesis, tRNA aminoacylation].
Length = 454
Score = 28.3 bits (64), Expect = 3.9
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 3/22 (13%)
Query: 81 FAHVE---KELTGIEAGILVNN 99
++HVE ELTG E ++VNN
Sbjct: 124 YSHVEGLLCELTGAEDALVVNN 145
>gnl|CDD|236543 PRK09505, malS, alpha-amylase; Reviewed.
Length = 683
Score = 28.5 bits (64), Expect = 4.0
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 31 EKLDNLAKLGIDVVLIS 47
EKLD L +LG++ + IS
Sbjct: 234 EKLDYLQQLGVNALWIS 250
>gnl|CDD|215840 pfam00291, PALP, Pyridoxal-phosphate dependent enzyme. Members of
this family are all pyridoxal-phosphate dependent
enzymes. This family includes: serine dehydratase
EC:4.2.1.13 P20132, threonine dehydratase EC:4.2.1.16,
tryptophan synthase beta chain EC:4.2.1.20, threonine
synthase EC:4.2.99.2, cysteine synthase EC:4.2.99.8
P11096, cystathionine beta-synthase EC:4.2.1.22,
1-aminocyclopropane-1-carboxylate deaminase EC:4.1.99.4.
Length = 295
Score = 28.1 bits (63), Expect = 4.0
Identities = 19/90 (21%), Positives = 38/90 (42%), Gaps = 7/90 (7%)
Query: 1 ITGATDG-LGKAYAEGLAKLGIDVVLI---SRTKEKLDNLAKLGIDVVLISRT---KEKL 53
+ A+ G G+A A A+LG+ V ++ + KL + LG +V+L+ + L
Sbjct: 54 VVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGKLLLMRALGAEVILVVSEGDYDDAL 113
Query: 54 DNVAAEIRDKYKVDTKVIVADFTDPKIFAH 83
+ D + + + +P + A
Sbjct: 114 ELAEEAAELLAAYDGPIPLGQYNNPNVIAG 143
>gnl|CDD|189032 cd09862, PIN_Rrp44, PIN domain of yeast exosome subunit Rrp44
endoribonuclease and other eukaryotic homologs. PIN
(PilT N terminus) domain of the Saccharomyces cerevisiae
exosome subunit Rrp44 (Ribosomal RNA-processing protein
44 or Protein Dis3 homolog) and other similar eukaryotic
homologs are included in this family. The eukaryotic
exosome is a conserved macromolecular complex
responsible for many RNA-processing and RNA-degradation
reactions. It is composed of nine core subunits that
directly binds Rrp44. The Rrp44 nuclease is the
catalytic subunit of the exosome and has endonuclease
activity in the PIN domain and an exoribonuclease
activity in its RNase II-like region. Rrp44 binding to
the exosome is mediated mainly by the PIN domain and by
subunits Rrp41-Rrp45, and binding predictions indicate
that the PIN domain active site is positioned on the
outer surface of the exosome. These PIN domains are
structural homologs of flap endonuclease-1 (FEN1)-like
PIN domains, but lack the extensive arch/clamp region
and the H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domains within this subgroup contain four
highly conserved acidic residues (putative
metal-binding, active site residues) which cluster at
the C-terminal end of the beta-sheet and form a
negatively charged pocket near the center of the
molecule. Recombinant Rrp44 was shown to possess
manganese-dependent endonuclease activity in vitro that
was abolished by point mutations in the putative metal
binding residues of its PIN domain.
Length = 182
Score = 27.6 bits (62), Expect = 4.1
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 12 YAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVV 44
Y+E L KL I VVL++ + + A+ GI
Sbjct: 145 YSEHLPKLSIKVVLLTNDRANREKAAEEGITAK 177
>gnl|CDD|182649 PRK10689, PRK10689, transcription-repair coupling factor;
Provisional.
Length = 1147
Score = 28.6 bits (64), Expect = 4.4
Identities = 25/62 (40%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 11 AYAEGLAKLGIDVV---LISRTKEKLDN---LAKLGIDVVLISRTK--EKLDNVAAEIRD 62
YA AKL + V LISR + L KLG D +R K EK+ +VAAE+ D
Sbjct: 512 TYA-NDAKLYVPVSSLHLISRYAGGAEENAPLHKLGGDAWSRARQKAAEKVRDVAAELLD 570
Query: 63 KY 64
Y
Sbjct: 571 IY 572
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 28.1 bits (63), Expect = 4.4
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 12/76 (15%)
Query: 12 YAEGLAKLGIDVVLISRT------------KEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
A LAKLG +V ++ R L+ L KL + V ++ + +
Sbjct: 157 LAAALAKLGKEVTVVERRDRLLARADDEISAALLEKLEKLLLGVTVLLVVVVVVKVGDGK 216
Query: 60 IRDKYKVDTKVIVADF 75
+ + D + + AD
Sbjct: 217 VVEVKLGDGEELDADV 232
>gnl|CDD|182249 PRK10117, PRK10117, trehalose-6-phosphate synthase; Provisional.
Length = 474
Score = 28.2 bits (63), Expect = 4.5
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 78 PKIFAHVEKELTGIEAGILVNNVGYSYPYPERFLA 112
PK+ A ++ EL ++ V + YS PERFLA
Sbjct: 243 PKL-AQLKAELKNVQNIFSVERLDYSKGLPERFLA 276
>gnl|CDD|173877 cd08512, PBP2_NikA_DppA_OppA_like_7, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 476
Score = 28.3 bits (64), Expect = 4.5
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 12/54 (22%)
Query: 34 DNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIV-----ADFTDPKIFA 82
+LA++GI V + A++ + + I D+ DP FA
Sbjct: 356 ASLAQIGIKVEIEPVP-------WAQLLEAARSREFDIFIGGWGPDYPDPDYFA 402
>gnl|CDD|234027 TIGR02824, quinone_pig3, putative NAD(P)H quinone oxidoreductase,
PIG3 family. Members of this family are putative
quinone oxidoreductases that belong to the broader
superfamily (modeled by Pfam pfam00107) of
zinc-dependent alcohol (of medium chain length)
dehydrogenases and quinone oxiooreductases. The
alignment shows no motif of conserved Cys residues as
are found in zinc-binding members of the superfamily,
and members are likely to be quinone oxidoreductases
instead. A member of this family in Homo sapiens, PIG3,
is induced by p53 but is otherwise uncharacterized
[Unknown function, Enzymes of unknown specificity].
Length = 325
Score = 28.0 bits (63), Expect = 4.5
Identities = 22/73 (30%), Positives = 29/73 (39%), Gaps = 5/73 (6%)
Query: 1 ITGATDGLGKAYAEGLAK-LGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
I G G+G A LAK G V + + EK LG D+ I+ +E V
Sbjct: 145 IHGGASGIGTT-AIQLAKAFGARVFTTAGSDEKCAACEALGADIA-INYREEDFVEVVKA 202
Query: 60 IRDKYKVDTKVIV 72
VD VI+
Sbjct: 203 ETGGKGVD--VIL 213
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 26.4 bits (59), Expect = 4.5
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 12/52 (23%)
Query: 12 YAEGLAKLGIDVVLISRTKEKL------------DNLAKLGIDVVLISRTKE 51
+A LAKLG V ++ R L + L K GI+V+L + +E
Sbjct: 14 FASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEKNGIEVLLNTTVEE 65
>gnl|CDD|234026 TIGR02823, oxido_YhdH, putative quinone oxidoreductase, YhdH/YhfP
family. This model represents a subfamily of pfam00107
as defined by Pfam, a superfamily in which some members
are zinc-binding medium-chain alcohol dehydrogenases
while others are quinone oxidoreductases with no bound
zinc. This subfamily includes proteins studied
crystallographically for insight into function: YhdH
from Escherichia coli and YhfP from Bacillus subtilis.
Members bind NADPH or NAD, but not zinc [Unknown
function, Enzymes of unknown specificity].
Length = 323
Score = 27.9 bits (63), Expect = 4.5
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVL 45
+TGAT G+G L+KLG +VV + E+ D L +LG V+
Sbjct: 151 VTGATGGVGSLAVAILSKLGYEVVASTGKAEEEDYLKELGASEVI 195
>gnl|CDD|200472 cd11333, AmyAc_SI_OligoGlu_DGase, Alpha amylase catalytic domain
found in Sucrose isomerases, oligo-1,6-glucosidase
(also called isomaltase; sucrase-isomaltase;
alpha-limit dextrinase), dextran glucosidase (also
called glucan 1,6-alpha-glucosidase), and related
proteins. The sucrose isomerases (SIs) Isomaltulose
synthase (EC 5.4.99.11) and Trehalose synthase (EC
5.4.99.16) catalyze the isomerization of sucrose and
maltose to produce isomaltulose and trehalulose,
respectively. Oligo-1,6-glucosidase (EC 3.2.1.10)
hydrolyzes the alpha-1,6-glucosidic linkage of
isomaltooligosaccharides, pannose, and dextran. Unlike
alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
hydrolyze the alpha-1,4-glucosidic bonds of
maltosaccharides. Dextran glucosidase (DGase, EC
3.2.1.70) hydrolyzes alpha-1,6-glucosidic linkages at
the non-reducing end of panose,
isomaltooligosaccharides and dextran to produce
alpha-glucose.The common reaction chemistry of the
alpha-amylase family enzymes is based on a two-step
acid catalytic mechanism that requires two critical
carboxylates: one acting as a general acid/base (Glu)
and the other as a nucleophile (Asp). Both hydrolysis
and transglycosylation proceed via the nucleophilic
substitution reaction between the anomeric carbon, C1
and a nucleophile. Both enzymes contain the three
catalytic residues (Asp, Glu and Asp) common to the
alpha-amylase family as well as two histidine residues
which are predicted to be critical to binding the
glucose residue adjacent to the scissile bond in the
substrates. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains:
A, B, C. A is a (beta/alpha) 8-barrel; B is a loop
between the beta 3 strand and alpha 3 helix of A; C is
the C-terminal extension characterized by a Greek key.
The majority of the enzymes have an active site cleft
found between domains A and B where a triad of
catalytic residues performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 428
Score = 28.2 bits (64), Expect = 4.6
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 31 EKLDNLAKLGIDVVLIS 47
KLD L LG+D + +S
Sbjct: 29 SKLDYLKDLGVDAIWLS 45
>gnl|CDD|177713 PLN00093, PLN00093, geranylgeranyl diphosphate reductase;
Provisional.
Length = 450
Score = 28.2 bits (63), Expect = 4.8
Identities = 15/27 (55%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 9 GKAYAEGLAKLGIDVVLISRTKEKLDN 35
G AE LAK GI+ LI R KLDN
Sbjct: 51 GACAAETLAKGGIETFLIER---KLDN 74
>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 = 27.2 bits (61), Expect = 4.9
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 7 GLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE 59
+G Y LA+ G DV LI+R + L+ + + G+ + + VA
Sbjct: 8 AVGSLYGARLARAGHDVTLIARGR-HLEAIRENGLRITSPGGERTVPPPVATS 59
>gnl|CDD|197271 cd09174, PLDc_Nuc_like_unchar2, Putative catalytic domain of
uncharacterized hypothetical proteins closely related to
Nuc, , an endonuclease from Salmonella typhimurium.
Putative catalytic domain of uncharacterized
hypothetical proteins, which show high sequence homology
to the endonuclease from Salmonella typhimurium and
vertebrate phospholipase D6. Nuc and PLD6 belong to the
phospholipase D (PLD) superfamily. They contain a short
conserved sequence motif, the HKD motif (H-x-K-x(4)-D,
where x represents any amino acid residue), which
characterizes the PLD superfamily and is essential for
catalysis. Nuc and PLD6 utilize a two-step mechanism to
cleave phosphodiester bonds: Upon substrate binding, the
bond is first attacked by a histidine residue from one
HKD motif to form a covalent phosphohistidine
intermediate, which is then hydrolyzed by water with the
aid of a second histidine residue from the other HKD
motif in the opposite subunit. However, proteins in this
subfamily have two HKD motifs in a single polypeptide
chain.
Length = 136
Score = 27.3 bits (61), Expect = 4.9
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 9/76 (11%)
Query: 58 AEIRDKYKVDTKVIVADFTDPKIF-AHVEKELTGIEAGILVNNVGYSYPYPERFLA---- 112
EI+ K K + VA FT+ IF A K+ G+ I++N+ +
Sbjct: 14 EEIK-KAKFSIWIAVAWFTNKDIFNALKNKKKEGVNIQIIINDDDINKKDVLILDEDSFE 72
Query: 113 ---VPEKETVYHNIMH 125
+P + Y N+MH
Sbjct: 73 IYKLPGNGSRYGNLMH 88
>gnl|CDD|202027 pfam01884, PcrB, PcrB family. This family contains proteins that
are related to PcrB. The function of these proteins is
unknown.
Length = 231
Score = 27.8 bits (62), Expect = 5.0
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 29 TKEKLDNLAKLGIDVVLI--SRTKEKLDNVAAEIRDKYKV 66
+E ++ +A+ G D ++I S LDNV I+ Y +
Sbjct: 21 PEEIIEIVAESGTDAIMIGGSTGGVTLDNVVRLIKKVYGL 60
>gnl|CDD|224147 COG1226, Kch, Kef-type K+ transport systems, predicted
NAD-binding component [Inorganic ion transport and
metabolism].
Length = 212
Score = 27.8 bits (61), Expect = 5.0
Identities = 17/50 (34%), Positives = 30/50 (60%)
Query: 8 LGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVA 57
+G+ A L GI VV+I +++++ L +LG+ VVL T+E++ A
Sbjct: 32 VGQIVARALLASGIPVVVIDSDEDRVELLRELGLLVVLGDATREEVLEAA 81
>gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional.
Length = 602
Score = 28.2 bits (63), Expect = 5.2
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 45 LISRTKEKLDNVAAEIRDKYKVDTKVI 71
S+TKE+L + EIR+ +D K I
Sbjct: 323 FDSQTKERLTSPFGEIRNHIDLDYKKI 349
>gnl|CDD|176237 cd08276, MDR7, 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 = 336
Score = 27.9 bits (63), Expect = 5.3
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 16 LAKL-GIDVVLISRTKEKLDNLAKLGIDVVLISRT 49
AK G V+ S + EKL+ LG D V+ RT
Sbjct: 179 FAKAAGARVIATSSSDEKLERAKALGADHVINYRT 213
>gnl|CDD|238571 cd01166, KdgK, 2-keto-3-deoxygluconate kinase (KdgK)
phosphorylates 2-keto-3-deoxygluconate (KDG) to form
2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the
common intermediate product, that allows organisms to
channel D-glucuronate and/or D-galacturinate into the
glycolysis and therefore use polymers, like pectin and
xylan as carbon sources.
Length = 294
Score = 27.9 bits (63), Expect = 5.4
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 15 GLAKLGIDVVLISRT------KEKLDNLAKLGIDVVLISRTKEKL 53
GLA+LG V L++ + L L + G+D + +
Sbjct: 40 GLARLGHRVALVTAVGDDPFGRFILAELRREGVDTSHVRVDPGRP 84
>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 = 27.6 bits (62), Expect = 5.4
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
ITG T +G+A + L K G +V +++R+ N G + L+ A I
Sbjct: 3 ITGGTGFIGRALTQRLTKRGHEVTILTRSPPPGANTKWEGYKPW-AGEDADSLEGADAVI 61
>gnl|CDD|238563 cd01143, YvrC, Periplasmic binding protein YvrC. These proteins
are predicted to function as initial receptors in ABC
transport of metal ions in eubacteria and archaea. They
belong to the TroA superfamily of periplasmic metal
binding proteins that share a distinct fold and ligand
binding mechanism. A typical TroA protein is comprised
of two globular subdomains connected by a single helix
and can bind the metal ion in the cleft between these
domains.
Length = 195
Score = 27.6 bits (62), Expect = 5.4
Identities = 16/73 (21%), Positives = 26/73 (35%), Gaps = 10/73 (13%)
Query: 4 ATDGLGKAYAEGLAKLGIDVVLI---SRTKEKLDNLAKLGIDV-------VLISRTKEKL 53
+ E L GI VV++ S E D + +G L+ K+K+
Sbjct: 66 VSSSSLAELLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAEEEAEKLVKEMKQKI 125
Query: 54 DNVAAEIRDKYKV 66
D V + + K
Sbjct: 126 DKVKDKGKTIKKS 138
>gnl|CDD|187553 cd05242, SDR_a8, atypical (a) SDRs, subgroup 8. This subgroup
contains atypical SDRs of unknown function. Proteins in
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that resembles that of the extended SDRs,
(GXXGXXG or GGXGXXG), but lacks the characteristic
active site residues of the SDRs. A Cys often replaces
the usual Lys of the YXXXK active site motif, while the
upstream Ser is generally present and Arg replaces the
usual Asn. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 296
Score = 27.6 bits (62), Expect = 5.7
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEK 32
ITG T +G+A L G +VV++SR K
Sbjct: 4 ITGGTGFIGRALTRRLTAAGHEVVVLSRRPGK 35
>gnl|CDD|220315 pfam09614, Cas_Csy2, CRISPR-associated protein (Cas_Csy2). CRISPR
(Clustered Regularly Interspaced Short Palindromic
Repeats) is a widespread family of prokaryotic direct
repeats with spacers of unique sequence between
consecutive repeats. This entry, typified by YPO2464 of
Yersinia pestis, is a CRISPR-associated (Cas) entry
strictly associated with the Ypest subtype of CRISPR/Cas
locus. It is designated Csy2, for CRISPR/Cas Subtype
Ypest protein 2.
Length = 295
Score = 27.7 bits (62), Expect = 5.8
Identities = 14/42 (33%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 206 SKIKKSSWMVPSPATFVD-SALKTIGI-QNQTTGYYPHCFLE 245
K K + W+VP P + S L G N PH F E
Sbjct: 218 RKPKGNGWLVPIPVGYQALSPLYAAGSVSNARDPETPHAFAE 259
>gnl|CDD|130569 TIGR01505, tartro_sem_red, 2-hydroxy-3-oxopropionate reductase.
This model represents 2-hydroxy-3-oxopropionate
reductase (EC 1.1.1.60), also called tartronate
semialdehyde reductase. It follows glyoxylate
carboligase and precedes glycerate kinase in
D-glycerate pathway of glyoxylate degradation. The
eventual product, 3-phosphoglycerate, is an
intermediate of glycolysis and is readily metabolized.
Tartronic semialdehyde, the substrate of this enzyme,
may also come from other pathways, such as D-glucarate
catabolism.
Length = 291
Score = 27.5 bits (61), Expect = 5.8
Identities = 9/37 (24%), Positives = 14/37 (37%)
Query: 8 LGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVV 44
+G + LAK G + + + E D L G
Sbjct: 10 MGSPMSINLAKAGYQLHVTTIGPEVADELLAAGAVTA 46
>gnl|CDD|215842 pfam00294, PfkB, pfkB family carbohydrate kinase. This family
includes a variety of carbohydrate and pyrimidine
kinases.
Length = 298
Score = 27.7 bits (62), Expect = 5.9
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 8/63 (12%)
Query: 9 GKA--YAEGLAKLGIDVVLISRT------KEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
G A LA+LG +V I + + L+ L K G+D + ++ +A +
Sbjct: 37 GAGANVAVALARLGGEVTFIGKVGDDNFGEFLLELLKKEGVDTDYVVIDEDTRTGLALIL 96
Query: 61 RDK 63
D
Sbjct: 97 VDG 99
>gnl|CDD|153329 cd07645, I-BAR_IMD_BAIAP2L1, Inverse (I)-BAR, also known as the
IRSp53/MIM homology Domain (IMD), of Brain-specific
Angiogenesis Inhibitor 1-Associated Protein 2-Like 1.
The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs
(I-BAR) domain, is a dimerization and lipid-binding
module that bends membranes and induces membrane
protrusions. BAIAP2L1 (Brain-specific Angiogenesis
Inhibitor 1-Associated Protein 2-Like 1) is also known
as IRTKS (Insulin Receptor Tyrosine Kinase Substrate).
It is widely expressed, serves as a substrate for the
insulin receptor, and binds the small GTPase Rac. It
plays a role in regulating the actin cytoskeleton and
colocalizes with F-actin, cortactin, VASP, and vinculin.
BAIAP2L1 expression leads to the formation of short
actin bundles, distinct from filopodia-like protrusions
induced by the expression of the related protein IRSp53.
It contains an N-terminal IMD, an SH3 domain, and a WASP
homology 2 (WH2) actin-binding motif at the C-terminus.
The IMD domain of BAIAP2L1 binds and bundles actin
filaments, and binds the small GTPase Rac.
Length = 226
Score = 27.6 bits (61), Expect = 6.2
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 19/79 (24%)
Query: 9 GKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDN------------V 56
GKAY +G+AK+G + +KE LG ++ IS +KL++ +
Sbjct: 43 GKAYYDGVAKIGEIAAVSPVSKE-------LGHVLMEISDVHKKLNDSLEENFKKFHREI 95
Query: 57 AAEIRDKYKVDTKVIVADF 75
AE+ K +D K + A
Sbjct: 96 IAELERKTDLDVKYMTATL 114
>gnl|CDD|133419 cd00650, LDH_MDH_like, NAD-dependent, lactate dehydrogenase-like,
2-hydroxycarboxylate dehydrogenase family. Members of
this family include ubiquitous enzymes like L-lactate
dehydrogenases (LDH), L-2-hydroxyisocaproate
dehydrogenases, and some malate dehydrogenases (MDH).
LDH catalyzes the last step of glycolysis in which
pyruvate is converted to L-lactate. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. The LDH/MDH-like proteins
are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and
NAD-binding potassium channel domains, among others.
Length = 263
Score = 27.7 bits (62), Expect = 6.3
Identities = 21/80 (26%), Positives = 30/80 (37%), Gaps = 24/80 (30%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+ GA +G A A GLA + L I++VL +EKL VA
Sbjct: 3 VIGAGGNVGPALAFGLADGSVL----------------LAIELVLYDIDEEKLKGVA--- 43
Query: 61 RDKYKVDTKVIVADFTDPKI 80
+D + V D K+
Sbjct: 44 -----MDLQDAVEPLADIKV 58
>gnl|CDD|236557 PRK09542, manB, phosphomannomutase/phosphoglucomutase; Reviewed.
Length = 445
Score = 27.6 bits (62), Expect = 6.6
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 7 GLGKAYAEGLAKLGIDVVLI 26
L A+AEG+ G+DVV I
Sbjct: 50 ELAAAFAEGVTAQGLDVVRI 69
>gnl|CDD|237598 PRK14056, PRK14056, phenylalanine 4-monooxygenase; Provisional.
Length = 578
Score = 27.7 bits (62), Expect = 6.7
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 11 AYAEGLAKLGIDVVLISRTKEKLDNLAKLG 40
AY GL GI++ I + +E + LA++G
Sbjct: 47 AYLNGLQSTGINIERIPKVEEMNECLAEIG 76
>gnl|CDD|235536 PRK05627, PRK05627, bifunctional riboflavin kinase/FMN
adenylyltransferase; Reviewed.
Length = 305
Score = 27.4 bits (62), Expect = 7.0
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 25 LISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAE--IRDKYKVD---TKVIVA--DFT 76
++ ++K + LA+LG+D VL+ E+ ++AE I + V K +V DF
Sbjct: 68 RLTPLRDKAELLAELGVDYVLVLPFDEEFAKLSAEEFI-EDLLVKGLNAKHVVVGFDFR 125
>gnl|CDD|235953 PRK07188, PRK07188, nicotinate phosphoribosyltransferase;
Provisional.
Length = 352
Score = 27.6 bits (62), Expect = 7.2
Identities = 18/81 (22%), Positives = 32/81 (39%), Gaps = 12/81 (14%)
Query: 28 RTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEIRDKYKVDTKVIVADFTDPKIFAHVEKE 87
R E L G++ LI ++ LD + K+IV+ D K E +
Sbjct: 248 RHPEVLGTFDPRGVNPELIKALRKALDENGGK-------HVKIIVSSGFDAKKIREFEAQ 300
Query: 88 LT-----GIEAGILVNNVGYS 103
G+ + +L N+G++
Sbjct: 301 NVPVDIYGVGSSLLKINIGFT 321
>gnl|CDD|187575 cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in
this subgroup are poorly defined and have been
identified putatively as isoflavones reductase, sugar
dehydratase, mRNA binding protein etc. Atypical SDRs
are distinct from classical SDRs. Members of this
subgroup retain the canonical active site triad (though
not the upstream Asn found in most SDRs) but have an
unusual putative glycine-rich NAD(P)-binding motif,
GGXXXXG, in the usual location. Atypical SDRs generally
lack the catalytic residues characteristic of the SDRs,
and their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 250
Score = 27.3 bits (61), Expect = 7.2
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLD 34
I G T +GKA E L G DV + +R + K D
Sbjct: 5 IIGGTRFIGKALVEELLAAGHDVTVFNRGRTKPD 38
>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 = 27.4 bits (61), Expect = 7.3
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKL 39
I GA G KA A L K +V++ +RT K + LA+
Sbjct: 122 IIGA-GGAAKAVALELLKADCNVIIANRTVSKAEELAER 159
>gnl|CDD|240628 cd05303, PGDH_2, Phosphoglycerate dehydrogenase (PGDH)
NAD-binding and catalytic domains. Phosphoglycerate
dehydrogenase (PGDH) catalyzes the initial step in the
biosynthesis of L-serine from D-3-phosphoglycerate.
PGDH comes in 3 distinct structural forms, with this
first group being related to 2-hydroxy acid
dehydrogenases, sharing structural similarity to
formate and glycerate dehydrogenases. PGDH in E. coli
and Mycobacterium tuberculosis form tetramers, with
subunits containing a Rossmann-fold NAD binding domain.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The
NAD+ binding domain is inserted within the linear
sequence of the mostly N-terminal catalytic domain,
which has a similar domain structure to the internal
NAD binding domain. Structurally, these domains are
connected by extended alpha helices and create a cleft
in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 301
Score = 27.5 bits (62), Expect = 7.5
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 4 ATDGLGKAYAEGLAKLGIDVVL-ISRTKEKLDNLAKLGIDVVLI-SRTKEKLDNVAAEIR 61
TDG+ + E L + G +V KE+L K DV+++ SRTK V E+
Sbjct: 5 ITDGIDEIAIEKLEEAGFEVDYEPLIAKEELLEKIK-DYDVLIVRSRTK-----VTKEVI 58
Query: 62 DKYKVDTKVIV 72
D K + K+I
Sbjct: 59 DAAK-NLKIIA 68
>gnl|CDD|223247 COG0169, AroE, Shikimate 5-dehydrogenase [Amino acid transport and
metabolism].
Length = 283
Score = 27.2 bits (61), Expect = 7.6
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 7 GLGKAYAEGLAKLGI-DVVLISRTKEKLDNLAKL 39
G +A A LA+ G + +++RT+E+ + LA L
Sbjct: 136 GAARAVAFALAEAGAKRITVVNRTRERAEELADL 169
>gnl|CDD|215182 PLN02321, PLN02321, 2-isopropylmalate synthase.
Length = 632
Score = 27.6 bits (61), Expect = 7.6
Identities = 11/19 (57%), Positives = 15/19 (78%), Gaps = 3/19 (15%)
Query: 29 TKEKLD---NLAKLGIDVV 44
+KEKLD LAKLG+D++
Sbjct: 107 SKEKLDIARQLAKLGVDII 125
>gnl|CDD|187558 cd05247, UDP_G4E_1_SDR_e, UDP-glucose 4 epimerase, subgroup 1,
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 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 = 323
Score = 27.5 bits (62), Expect = 7.7
Identities = 24/102 (23%), Positives = 37/102 (36%), Gaps = 29/102 (28%)
Query: 110 FLAVPEK----ETVYHNIMHCNVITLLSMCQIVMPHMVEQRKGVVVNI--SSTAAL---- 159
AV E Y N + + LL R V N SS+AA+
Sbjct: 79 LKAVGESVQKPLKYYDNNV-VGTLNLLEAM----------RAHGVKNFVFSSSAAVYGEP 127
Query: 160 --IP----SPM--LSVYGASKLFVSKFSTDLQSEYKKHGIIV 193
+P +P+ + YG +KL V + DL + +I+
Sbjct: 128 ETVPITEEAPLNPTNPYGRTKLMVEQILRDLAKAPGLNYVIL 169
>gnl|CDD|235821 PRK06522, PRK06522, 2-dehydropantoate 2-reductase; Reviewed.
Length = 304
Score = 27.5 bits (62), Expect = 7.7
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 28/95 (29%)
Query: 3 GATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGI--------------------- 41
GA GL + LA+ G DV L++R LD L + G+
Sbjct: 9 GAIGGL---FGAALAQAGHDVTLVARRGAHLDALNENGLRLEDGEITVPVLAADDPAELG 65
Query: 42 --DVVLISRTKE-KLDNVAAEIRDKYKVDTKVIVA 73
D+V+++ K +L + DT V+
Sbjct: 66 PQDLVILA-VKAYQLPAALPSLAPLLGPDTPVLFL 99
>gnl|CDD|219794 pfam08323, Glyco_transf_5, Starch synthase catalytic domain.
Length = 234
Score = 27.2 bits (61), Expect = 7.7
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 7 GLG---KAYAEGLAKLGIDVVLIS-------RTKEKLDNLAKLGIDVVLISRTKEKLDNV 56
GL A + LAKLG DV +I +++L+ + +L + + + +LD V
Sbjct: 16 GLADVVGALPKALAKLGHDVRVIMPRYGFIPEERKQLEEVIELYVLFGYVGVARLELDGV 75
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 27.4 bits (61), Expect = 7.9
Identities = 20/80 (25%), Positives = 29/80 (36%), Gaps = 24/80 (30%)
Query: 1 ITGATDGLGKAYAEGLAKLGIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLDNVAAEI 60
+TG++ G+G A+ LA G VV+ R K + + V AEI
Sbjct: 11 VTGSSRGIGADTAKILAGAGAHVVVNYRQKA-------------------PRANKVVAEI 51
Query: 61 RDKYKVDTKVIV--ADFTDP 78
+ AD TD
Sbjct: 52 EAA---GGRASAVGADLTDE 68
>gnl|CDD|131872 TIGR02825, B4_12hDH, leukotriene B4
12-hydroxydehydrogenase/15-oxo-prostaglandin
13-reductase. Leukotriene B4 12-hydroxydehydrogenase is
an NADP-dependent enzyme of arachidonic acid metabolism,
responsible for converting leukotriene B4 to the much
less active metabolite 12-oxo-leukotriene B4. The BRENDA
database lists leukotriene B4 12-hydroxydehydrogenase as
one of the synonyms of 2-alkenal reductase (EC
1.3.1.74), while 1.3.1.48 is 15-oxoprostaglandin
13-reductase.
Length = 325
Score = 27.3 bits (60), Expect = 8.0
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 16 LAKL-GIDVVLISRTKEKLDNLAKLGIDVVLISRTKEKLD 54
+AKL G VV + + EK+ L KLG DV +T + L+
Sbjct: 158 IAKLKGCKVVGAAGSDEKVAYLKKLGFDVAFNYKTVKSLE 197
>gnl|CDD|214758 smart00642, Aamy, Alpha-amylase domain.
Length = 166
Score = 26.9 bits (60), Expect = 8.6
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 31 EKLDNLAKLGIDVVLIS 47
EKLD L LG+ + +S
Sbjct: 23 EKLDYLKDLGVTAIWLS 39
>gnl|CDD|236446 PRK09279, PRK09279, pyruvate phosphate dikinase; Provisional.
Length = 879
Score = 27.4 bits (62), Expect = 8.6
Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 12/45 (26%)
Query: 35 NLAKLGIDVV------LIS------RTKEKLDNVAAEIRDKYKVD 67
L K GIDVV L+ K +D VA E+ + V
Sbjct: 692 ELKKEGIDVVPEIMIPLVGTVKELKLVKAIIDAVAEEVFAEKGVK 736
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 26.9 bits (60), Expect = 9.1
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 183 QSEYKKHGIIVQCVMPGYVAT 203
Q + GI V CV PG V T
Sbjct: 153 QPWFGARGIRVNCVAPGPVFT 173
>gnl|CDD|172537 PRK14045, PRK14045, 1-aminocyclopropane-1-carboxylate deaminase;
Provisional.
Length = 329
Score = 27.2 bits (60), Expect = 9.1
Identities = 14/25 (56%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 11 AYAEGLA--KLGIDVVLISRTKEKL 33
A+ GLA KLG+D VL+ R KE+L
Sbjct: 84 AFVTGLAAKKLGLDAVLVLRGKEEL 108
>gnl|CDD|187867 cd09736, Csy2_I-F, CRISPR/Cas system-associated RAMP superfamily
protein Csy2. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
RAMP superfamily protein; predicted Cas5 ortholog.
Length = 289
Score = 26.9 bits (60), Expect = 10.0
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 206 SKIKKSSWMVPSPATFVD-SALKTIGI-QNQTTGYYPHCFLE 245
S+ K + W+VP P + S L G N PH F E
Sbjct: 212 SRKKGNGWLVPIPVGYQALSPLYDAGSVSNARDPETPHAFAE 253
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
0.318 0.134 0.384
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: 12,658,433
Number of extensions: 1202042
Number of successful extensions: 2660
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2286
Number of HSP's successfully gapped: 455
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (25.9 bits)