RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2961
(202 letters)
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 277 bits (711), Expect = 5e-94
Identities = 109/208 (52%), Positives = 140/208 (67%), Gaps = 11/208 (5%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
+L+D+ L PGD VIQNGANSA GQ VIQ+A+ G+KTIN+VR+R D+++LK LK+LGA
Sbjct: 137 LLEDFVKLQPGDWVIQNGANSAVGQAVIQLAKLLGIKTINVVRDRPDLEELKERLKALGA 196
Query: 61 DYVFTEEEL-----RNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSRE 115
D+V TEEEL + + A +PKLALNCVGG SAT L R L G MVTYGGMS +
Sbjct: 197 DHVLTEEELRSLLATELLKSAPGGRPKLALNCVGGKSATELARLLSPGGTMVTYGGMSGQ 256
Query: 116 PVQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVT- 174
PV +PTS IFKDITLRG W+TRW + E++ M+ EL E++R GKL AP + VT
Sbjct: 257 PVTVPTSLLIFKDITLRGFWLTRW-LKRANPEEKEDMLEELAELIREGKLKAPPVEKVTD 315
Query: 175 --LKNFQEALMNTMSIQGKSGVKYYIDF 200
L+ F++AL N + G G K +
Sbjct: 316 DPLEEFKDALANALK-GGGGG-KQVLVM 341
>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 = 179 bits (455), Expect = 9e-56
Identities = 77/196 (39%), Positives = 106/196 (54%), Gaps = 9/196 (4%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
ML +Y L PGD VIQN ANSA G+ +IQ+A+ G KTIN+VR + ++ LK+LGA
Sbjct: 129 MLTEYLKLPPGDWVIQNAANSAVGRMLIQLAKLLGFKTINVVRRDEQVE----ELKALGA 184
Query: 61 DYVFTEEELRNISRDASIPKPK---LALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV 117
D V R LAL+ VGG SAT L R+L G +V YG +S EPV
Sbjct: 185 DEVIDSSPEDLAQRVKEATGGAGARLALDAVGGESATRLARSLRPGGTLVNYGLLSGEPV 244
Query: 118 QIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKN 177
P S FIFKDIT+RG W+ +W + ++ E+ +++ G L P L++
Sbjct: 245 PFPRSVFIFKDITVRGFWLRQW-LHSATKEAKQETFAEVIKLVEAGVLTTPVGAKFPLED 303
Query: 178 FQEALMNTMSIQGKSG 193
F+EA+ G+ G
Sbjct: 304 FEEAVAAAEQ-PGRGG 318
>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 = 118 bits (298), Expect = 2e-32
Identities = 68/199 (34%), Positives = 100/199 (50%), Gaps = 15/199 (7%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
ML D+ + PG +IQN A A G+ V +A G+ IN+VR + +L++ LG
Sbjct: 130 MLLDFLGVKPGQWLIQNAAGGAVGKLVAMLAAARGINVINLVRRDAGVAELRA----LGI 185
Query: 61 DYVF-TE-----EELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSR 114
V TE +++R + A I +AL+ VGG A LL L G +V++G MS
Sbjct: 186 GPVVSTEQPGWQDKVREAAGGAPI---SVALDSVGGKLAGELLSLLGEGGTLVSFGSMSG 242
Query: 115 EPVQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVT 174
EP+QI + IFK T+RG W RW +E RK M+ EL + G+L P
Sbjct: 243 EPMQISSGDLIFKQATVRGFWGGRWSQEMSV-EYRKRMIAELLTLALKGQLLLPVEAVFD 301
Query: 175 LKNFQEALMNTMSIQGKSG 193
L + +A +M G++G
Sbjct: 302 LGDAAKAAAASM-RPGRAG 319
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 100 bits (251), Expect = 1e-25
Identities = 53/198 (26%), Positives = 86/198 (43%), Gaps = 16/198 (8%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L D L PG+ V+ +GA G IQ+A+ G + +V + + ++ LK LGA
Sbjct: 133 ALFDRAGLKPGETVLVHGAAGGVGSAAIQLAKALGATVVAVVSSSEKLE----LLKELGA 188
Query: 61 DYVF--TEEELRNISRDASIPKP-KLALNCVGGNSATNLLRTLVSKGVMVTYGGMS-REP 116
D+V EE+ R+ + K + L+ VGG++ L L G +V+ G +S P
Sbjct: 189 DHVINYREEDFVEQVRELTGGKGVDVVLDTVGGDTFAASLAALAPGGRLVSIGALSGGPP 248
Query: 117 VQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLK 176
V + + K +TLRG + E + EL +++ +GKL + L
Sbjct: 249 VPLNLLPLLGKRLTLRGVTLGSRDPE-----ALAEALAELFDLLASGKLKPVIDRVYPLA 303
Query: 177 NFQEA---LMNTMSIQGK 191
A L+ GK
Sbjct: 304 EAPAAAAHLLLERRTTGK 321
>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 = 80.0 bits (198), Expect = 6e-18
Identities = 47/184 (25%), Positives = 75/184 (40%), Gaps = 10/184 (5%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L + L PGD V+ A+S+ G IQIA G I R + + L +LGA
Sbjct: 135 ALVELAGLRPGDSVLITAASSSVGLAAIQIANAAGATVIATTRTSEK----RDALLALGA 190
Query: 61 DYVFTEEELRNISRDASIPKPK---LALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV 117
+V +E ++ I K + + VGG L L G +V YG +S EP
Sbjct: 191 AHVIVTDEEDLVAEVLRITGGKGVDVVFDPVGGPQFAKLADALAPGGTLVVYGALSGEPT 250
Query: 118 QIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKN 177
P A + K +T RG+ + + R+ + + + + +G L + +
Sbjct: 251 PFPLKAALKKSLTFRGYSLDEI---TLDPEARRRAIAFILDGLASGALKPVVDRVFPFDD 307
Query: 178 FQEA 181
EA
Sbjct: 308 IVEA 311
>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 = 77.4 bits (191), Expect = 2e-17
Identities = 44/143 (30%), Positives = 63/143 (44%), Gaps = 8/143 (5%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L+ L PGD V+ GA G Q+A+ G + I V +R D +KL+ K LGA
Sbjct: 125 ALRRAGVLKPGDTVLVLGA-GGVGLLAAQLAKAAGARVI--VTDRSD-EKLE-LAKELGA 179
Query: 61 DYVF--TEEELRNISRDASIPKPKLALNCVGGNSATNL-LRTLVSKGVMVTYGGMSREPV 117
D+V EE+L R + ++ VGG LR L G +V GG S P
Sbjct: 180 DHVIDYKEEDLEEELRLTGGGGADVVIDAVGGPETLAQALRLLRPGGRIVVVGGTSGGPP 239
Query: 118 QIPTSAFIFKDITLRGHWMTRWQ 140
+FK++T+ G +
Sbjct: 240 LDDLRRLLFKELTIIGSTGGTRE 262
>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 = 77.3 bits (191), Expect = 5e-17
Identities = 42/155 (27%), Positives = 73/155 (47%), Gaps = 19/155 (12%)
Query: 14 VIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT------EE 67
V+ A SA G+ ++++ + G+K INIVR ++ +D LK +GA+YV E
Sbjct: 147 VVHTAAASALGRMLVRLCKADGIKVINIVRRKEQVDL----LKKIGAEYVLNSSDPDFLE 202
Query: 68 ELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAF--I 125
+L+ + + + VGG +L + + YG +S + + P I
Sbjct: 203 DLKELIAKL---NATIFFDAVGGGLTGQILLAMPYGSTLYVYGYLSGKLDE-PIDPVDLI 258
Query: 126 FKDITLRGHWMTRW-QKENKESAE--RKSMMNELT 157
FK+ ++ G W+T W QK E + +K + EL
Sbjct: 259 FKNKSIEGFWLTTWLQKLGPEVVKKLKKLVKTELK 293
>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 = 71.0 bits (175), Expect = 9e-15
Identities = 45/178 (25%), Positives = 82/178 (46%), Gaps = 9/178 (5%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV--FT 65
L PG+ V+ GA G +Q+A+ G + I + + KL ++LGAD+V +
Sbjct: 137 LQPGETVLVLGAAGGVGLAAVQLAKALGARVIAAASSEE---KLA-LARALGADHVIDYR 192
Query: 66 EEELRNISRDASIPK-PKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAF 124
+ +LR + + + + + VGG+ LR+L G ++ G S E QIP +
Sbjct: 193 DPDLRERVKALTGGRGVDVVYDPVGGDVFEASLRSLAWGGRLLVIGFASGEIPQIPANLL 252
Query: 125 IFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEAL 182
+ K+I++ G + + + E + EL +++ GK+ L+ EAL
Sbjct: 253 LLKNISVVGVYWGAYARREPELLRA--NLAELFDLLAEGKIRPHVSAVFPLEQAAEAL 308
>gnl|CDD|176211 cd08249, enoyl_reductase_like, enoyl_reductase_like. Member
identified as possible enoyl reductase of the MDR
family. 2-enoyl thioester reductase (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 = 339
Score = 67.2 bits (165), Expect = 2e-13
Identities = 49/200 (24%), Positives = 76/200 (38%), Gaps = 29/200 (14%)
Query: 9 SPGDVVIQNGANSACGQNVIQIARHWGLKTINIV--RNRDDIDKLKSYLKSLGADYVF-- 64
S G V+ G +S+ G IQ+A+ G K I +N D +KSLGAD VF
Sbjct: 153 SKGKPVLIWGGSSSVGTLAIQLAKLAGYKVITTASPKNFD-------LVKSLGADAVFDY 205
Query: 65 ----TEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIP 120
E++R + K + AL+C+ + L + + + P +
Sbjct: 206 HDPDVVEDIRAATGG----KLRYALDCISTPESAQLCAEALGRSGGGKLVSLLPVPEETE 261
Query: 121 TSAFIFKDITLRGHWMTRWQKENKESAERKSMMNE-LTEMMRTGKLAAPAHKFV--TLKN 177
+ L E E E + + L E++ GKL + V L+
Sbjct: 262 PRKGVKVKFVLGYTVF----GEIPEDREFGEVFWKYLPELLEEGKLKPHPVRVVEGGLEG 317
Query: 178 FQEALMNTMSIQGK-SGVKY 196
QE L + +GK SG K
Sbjct: 318 VQEGL--DLLRKGKVSGEKL 335
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. 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 = 309
Score = 64.5 bits (158), Expect = 2e-12
Identities = 39/186 (20%), Positives = 68/186 (36%), Gaps = 29/186 (15%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L + L G V+ +GA G +Q+A+ G + I + +L+SLGA
Sbjct: 135 ALFELGGLKAGQTVLIHGAAGGVGSFAVQLAKARGARVIATASAAN-----ADFLRSLGA 189
Query: 61 ----DYVFTEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREP 116
DY + E L+ VGG + L + G +V+
Sbjct: 190 DEVIDYTKGDFERAAAPGGV-----DAVLDTVGGETLARSLALVKPGGRLVS-------I 237
Query: 117 VQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLK 176
P + K +R ++ + + + E + EL E++ GKL + L+
Sbjct: 238 AGPPPAEQAAKRRGVRAGFV--FVEPDGE------QLAELAELVEAGKLRPVVDRVFPLE 289
Query: 177 NFQEAL 182
+ EA
Sbjct: 290 DAAEAH 295
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 60.4 bits (147), Expect = 4e-12
Identities = 30/120 (25%), Positives = 51/120 (42%), Gaps = 13/120 (10%)
Query: 24 GQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT------EEELRNISRDAS 77
G +Q+A+ G + I +R + +KL+ K LGAD+V E +R ++
Sbjct: 3 GLAAVQLAKALGAARV-IAVDRSE-EKLE-LAKELGADHVINYRDEDFVERVRELTGGRG 59
Query: 78 IPKPKLALNCVGGNSATN-LLRTLVSKGVMVTYGGMSREPVQIPTSAFIFKDITLRGHWM 136
+ ++CVG + L L G +V G PV P + K++T+ G
Sbjct: 60 ---VDVVIDCVGAPATLEQALELLRPGGRVVVVGLPGGAPVPFPLRDLLLKELTILGSLG 116
>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 = 63.0 bits (154), Expect = 5e-12
Identities = 46/185 (24%), Positives = 75/185 (40%), Gaps = 18/185 (9%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
ML L PG+ V+ +GA S G IQIA+ +G I + D +++ K LGA
Sbjct: 157 MLVTRARLRPGETVLVHGAGSGVGSAAIQIAKLFGATVIATAGSEDKLER----AKELGA 212
Query: 61 DYVF--TEEELRNISRD-ASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV 117
DYV +E+ R+ + + VG + L++L G +VT G +
Sbjct: 213 DYVIDYRKEDFVREVRELTGKRGVDVVVEHVGAATWEKSLKSLARGGRLVTCGATTGYEA 272
Query: 118 QIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKN 177
I ++ +++ G M AE ++E ++ GKL L+
Sbjct: 273 PIDLRHVFWRQLSILGSTMGTK-------AE----LDEALRLVFRGKLKPVIDSVFPLEE 321
Query: 178 FQEAL 182
EA
Sbjct: 322 AAEAH 326
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 63.0 bits (154), Expect = 6e-12
Identities = 44/188 (23%), Positives = 70/188 (37%), Gaps = 37/188 (19%)
Query: 7 SLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTE 66
++ PG V GA G +Q A+ G + I I R+ + KL+ K LGAD+V
Sbjct: 163 NVKPGKWVAVVGA-GGLGHMAVQYAKAMGAEVIAITRSEE---KLE-LAKKLGADHVIN- 216
Query: 67 EELRNISRDASIPKP-----KLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV-QIP 120
S D+ + ++ VG + L+ L G +V G P+ +P
Sbjct: 217 ------SSDSDALEAVKEIADAIIDTVGPATLEPSLKALRRGGTLVLVGLPGGGPIPLLP 270
Query: 121 TSAFIFKDITLRGHW-MTRWQKENKESAERKSMMNELTEMMR---TGKLAAPAHKFVTLK 176
I K+I++ G TR +L E + GK+ + + L
Sbjct: 271 AFLLILKEISIVGSLVGTRA---------------DLEEALDFAAEGKIKPEILETIPLD 315
Query: 177 NFQEALMN 184
EA
Sbjct: 316 EINEAYER 323
>gnl|CDD|176228 cd08267, MDR1, 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 = 319
Score = 62.2 bits (152), Expect = 1e-11
Identities = 49/204 (24%), Positives = 78/204 (38%), Gaps = 34/204 (16%)
Query: 1 MLKDYNSLSPGD-VVIQNGANSACGQNVIQIARHWGLKTINIV--RNRDDIDKLKSYLKS 57
L+D + PG V+I NGA+ G +QIA+ G + RN + ++S
Sbjct: 134 ALRDAGKVKPGQRVLI-NGASGGVGTFAVQIAKALGAHVTGVCSTRNAE-------LVRS 185
Query: 58 LGADYVF--TEEELRNISRDASIPKPKLALNCVGGN--SATNLLRTLVSKGVMVTYGGMS 113
LGAD V T E+ ++ K + + VG + S L G V+ GG
Sbjct: 186 LGADEVIDYTTEDFVALTAGG--EKYDVIFDAVGNSPFSLYRASLALKPGGRYVSVGGGP 243
Query: 114 REPVQIPTSAFIFKDITLRGHWMTRWQ----KENKESAERKSMMNELTEMMRTGKLAAPA 169
+ + + + G R + K N E + +L E++ GKL
Sbjct: 244 SGLLLVLLLLPLT--LGGGGR---RLKFFLAKPNAE------DLEQLAELVEEGKLKPVI 292
Query: 170 HKFVTLKNFQEALMNTMS--IQGK 191
L++ EA S +GK
Sbjct: 293 DSVYPLEDAPEAYRRLKSGRARGK 316
>gnl|CDD|176225 cd08264, Zn_ADH_like2, Alcohol dehydrogenases of the MDR family.
This group resembles the zinc-dependent alcohol
dehydrogenases of the medium chain dehydrogenase family.
However, this subgroup does not contain the
characteristic catalytic zinc site. Also, it contains an
atypical structural zinc-binding pattern:
DxxCxxCxxxxxxxC. 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 = 59.7 bits (145), Expect = 9e-11
Identities = 45/185 (24%), Positives = 78/185 (42%), Gaps = 30/185 (16%)
Query: 7 SLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT- 65
L PG+ V+ GA+ G +Q+A+ G + I + R K +LK GAD V
Sbjct: 159 GLGPGETVVVFGASGNTGIFAVQLAKMMGAEVIAVSR--------KDWLKEFGADEVVDY 210
Query: 66 ---EEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTS 122
EE+++ I++ A + +N +G + L L G +VT+G ++ V++ S
Sbjct: 211 DEVEEKVKEITKMADV-----VINSLGSSFWDLSLSVLGRGGRLVTFGTLTGGEVKLDLS 265
Query: 123 AFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEAL 182
K I++ G + + + EL ++ L K L+ +EAL
Sbjct: 266 DLYSKQISIIG-----------STGGTRKELLELVKIA--KDLKVKVWKTFKLEEAKEAL 312
Query: 183 MNTMS 187
S
Sbjct: 313 KELFS 317
>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 = 58.5 bits (142), Expect = 2e-10
Identities = 47/180 (26%), Positives = 83/180 (46%), Gaps = 25/180 (13%)
Query: 7 SLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT- 65
+ GD V+ GA G + IQ+A+ G + I + R+ + KLK LK LGADYV
Sbjct: 159 GVKKGDTVLVTGAGGGVGIHAIQLAKALGARVIAVTRSPE---KLK-ILKELGADYVIDG 214
Query: 66 ---EEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTS 122
E+++ + A + + VG + LR+L G +V G ++ +P +
Sbjct: 215 SKFSEDVKKLG-GADV-----VIELVGSPTIEESLRSLNKGGRLVLIGNVTPDPAPLRPG 268
Query: 123 AFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEAL 182
I K+I + G + K+ + E ++++ GK+ + V+L++ EAL
Sbjct: 269 LLILKEIRIIGS-----------ISATKADVEEALKLVKEGKIKPVIDRVVSLEDINEAL 317
>gnl|CDD|176254 cd08294, leukotriene_B4_DH_like, 13-PGR is a bifunctional enzyme
with delta-13 15-prostaglandin reductase and leukotriene
B4 12 hydroxydehydrogenase activity. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 57.3 bits (139), Expect = 5e-10
Identities = 50/191 (26%), Positives = 79/191 (41%), Gaps = 34/191 (17%)
Query: 9 SPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT--- 65
G+ V+ NGA A G V QIA+ G K I + DK+ +LK LG D VF
Sbjct: 142 KAGETVVVNGAAGAVGSLVGQIAKIKGCKVIGCAGSD---DKVA-WLKELGFDAVFNYKT 197
Query: 66 ---EEELRNISRDASIPKPKLALNC----VGGNSATNLLRTLVSKGVMVTYGGMS--REP 116
EE L+ + D ++C VGG ++ +L + G + G +S +
Sbjct: 198 VSLEEALKEAAPD--------GIDCYFDNVGGEFSSTVLSHMNDFGRVAVCGSISTYNDK 249
Query: 117 VQIPTSAF----IFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKF 172
IFK + + G + RWQ E+ + +L + ++ GKL H
Sbjct: 250 EPKKGPYVQETIIFKQLKMEGFIVYRWQDRWPEA------LKQLLKWIKEGKLKYREHVT 303
Query: 173 VTLKNFQEALM 183
+N +A +
Sbjct: 304 EGFENMPQAFI 314
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 56.6 bits (137), Expect = 1e-09
Identities = 44/180 (24%), Positives = 72/180 (40%), Gaps = 27/180 (15%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTE- 66
+ G+ V+ GA G + IQ+A+ G K I + + + Y ADYV
Sbjct: 160 VKKGETVLVTGAGGGVGIHAIQVAKALGAKVIAVTSSESKAKIVSKY-----ADYVIVGS 214
Query: 67 ---EELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV-QIPTS 122
EE++ I A I + VG + LR+L G ++ G + P +
Sbjct: 215 KFSEEVKKIG-GADI-----VIETVGTPTLEESLRSLNMGGKIIQIGNVDPSPTYSLRLG 268
Query: 123 AFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEAL 182
I KDI + GH SA ++ + L +++ GK+ V+L +AL
Sbjct: 269 YIILKDIEIIGH----------ISATKRDVEEAL-KLVAEGKIKPVIGAEVSLSEIDKAL 317
>gnl|CDD|223991 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
dehydrogenases [Amino acid transport and metabolism /
General function prediction only].
Length = 350
Score = 54.7 bits (132), Expect = 4e-09
Identities = 32/183 (17%), Positives = 67/183 (36%), Gaps = 19/183 (10%)
Query: 24 GQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELRNISRDASIPKPK- 82
G I +A+ G + IV +R ++L+ ++ GAD V E + + +
Sbjct: 181 GLLAIALAKLLGASVV-IVVDRSP-ERLELAKEAGGADVVVNPSEDDAGAEILELTGGRG 238
Query: 83 --LALNCVGGNSATNLLRTLVSKGVMVTYGGMS-REPVQIPTSAFIFKDITLRGHWMTRW 139
+ + VG A + + G V G+ E + +P + K++TLRG
Sbjct: 239 ADVVIEAVGSPPALDQALEALRPGGTVVVVGVYGGEDIPLPAGLVVSKELTLRGSLRP-- 296
Query: 140 QKENKESAERKSMMNELTEMMRTGKLAAPA--HKFVTLKNFQEALMNTMSIQGKSGVKYY 197
+ +++ +GK+ + L + EA + + + +K
Sbjct: 297 --------SGREDFERALDLLASGKIDPEKLITHRLPLDDAAEAYE-LFADRKEEAIKVV 347
Query: 198 IDF 200
+
Sbjct: 348 LKP 350
>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 = 53.4 bits (129), Expect = 1e-08
Identities = 33/134 (24%), Positives = 55/134 (41%), Gaps = 15/134 (11%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYL-KSLGADYVFTE 66
+ PG+ V+ G G N +QIA+ G I + DI + K L K LGAD V
Sbjct: 163 VKPGETVLVIGL-GGLGLNAVQIAKAMGAAVIAV-----DIKEEKLELAKELGADEVLNS 216
Query: 67 EELRNISRDASIPKPKL--ALNCVGGNSATNLLRTLVSKG---VMVTYGGMSREPVQIPT 121
+ + A+ + VG + V G V+V G+ R+ + +
Sbjct: 217 LDDSPKDKKAAGLGGGFDVIFDFVGTQPTFEDAQKAVKPGGRIVVV---GLGRDKLTVDL 273
Query: 122 SAFIFKDITLRGHW 135
S I +++ + G +
Sbjct: 274 SDLIARELRIIGSF 287
>gnl|CDD|176190 cd05288, PGDH, Prostaglandin dehydrogenases. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 52.5 bits (127), Expect = 2e-08
Identities = 42/207 (20%), Positives = 71/207 (34%), Gaps = 44/207 (21%)
Query: 2 LKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKS-LGA 60
L + PG+ V+ + A A G V QIA+ G + + I +K + +L LG
Sbjct: 137 LTEIGKPKPGETVVVSAAAGAVGSVVGQIAKLLGARVVGIA---GSDEKCR-WLVEELGF 192
Query: 61 DYVFTEEELRNISRDASIPKPKLALNC----------VGG---NSATNLLRT---LVSKG 104
D I+ L VGG ++A LL + G
Sbjct: 193 DAA--------INYKTPDLAEALKEAAPDGIDVYFDNVGGEILDAALTLLNKGGRIALCG 244
Query: 105 VMVTYGGMSREPVQIPTSAFIFKDITLRG----HWMTRWQKENKESAERKSMMNELTEMM 160
+ Y + + I K +T++G + R+ + + EL + +
Sbjct: 245 AISQYNATEPPGPKNLGN-IITKRLTMQGFIVSDYADRFPE----------ALAELAKWL 293
Query: 161 RTGKLAAPAHKFVTLKNFQEALMNTMS 187
GKL L+N EA + +
Sbjct: 294 AEGKLKYREDVVEGLENAPEAFLGLFT 320
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and 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.
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.
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 = 51.0 bits (123), Expect = 7e-08
Identities = 38/181 (20%), Positives = 70/181 (38%), Gaps = 25/181 (13%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF--T 65
G+ V+ +G + A G +Q+AR G + I + + + ++ GAD VF
Sbjct: 142 AKAGETVLVHGGSGAVGHAAVQLARWAGARVIATASSAEGAEL----VRQAGADAVFNYR 197
Query: 66 EEELRNISRDASIPK-PKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAF 124
E+L + A+ + + + + + L L G +V YG IP +
Sbjct: 198 AEDLADRILAATAGQGVDVIIEVLANVNLAKDLDVLAPGGRIVVYGSGGLRGT-IPINPL 256
Query: 125 IFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKL------------AAPAHKF 172
+ K+ ++RG + E + +A + + G L AA AH+
Sbjct: 257 MAKEASIRGVLLYTATPEERAAAAE-----AIAAGLADGALRPVIAREYPLEEAAAAHEA 311
Query: 173 V 173
V
Sbjct: 312 V 312
>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 = 51.2 bits (122), Expect = 7e-08
Identities = 50/198 (25%), Positives = 84/198 (42%), Gaps = 24/198 (12%)
Query: 11 GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF---TEE 67
G+ V+ N A A G V QIA+ G K + + + + YLK LG D F T +
Sbjct: 139 GETVMVNAAAGAVGSVVGQIAKLKGCKVVGAAGSDEKVA----YLKKLGFDVAFNYKTVK 194
Query: 68 ELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSRE------PVQIPT 121
L + AS + VGG + ++ + G + G +S P P
Sbjct: 195 SLEETLKKASPDGYDCYFDNVGGEFSNTVIGQMKKFGRIAICGAISTYNRTGPLPPGPPP 254
Query: 122 SAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVT--LKNFQ 179
I++++ + G + RWQ E ++ A + EL + + GK+ ++V +N
Sbjct: 255 EIVIYQELRMEGFIVNRWQGEVRQKA-----LKELLKWVLEGKIQ--YKEYVIEGFENMP 307
Query: 180 EALMNTMSIQ--GKSGVK 195
A M + + GK+ VK
Sbjct: 308 AAFMGMLKGENLGKTIVK 325
>gnl|CDD|222256 pfam13602, ADH_zinc_N_2, Zinc-binding dehydrogenase.
Length = 129
Score = 46.6 bits (111), Expect = 5e-07
Identities = 30/128 (23%), Positives = 49/128 (38%), Gaps = 22/128 (17%)
Query: 58 LGADYVFTEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV 117
LGAD V + + + L+ VGG + L L G +V+ GG P
Sbjct: 1 LGADEVIDYTT-EDFEEATAGEGVDVVLDTVGGETLLRALLALKPGGRLVSIGG----PD 55
Query: 118 QIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKL------------ 165
+ + A +RG ++ E + + EL E++ GKL
Sbjct: 56 LLLSVAAKAGGRGVRGVFLF-----PVSPGEAGADLAELAELVEAGKLRPVIDRVFPLEE 110
Query: 166 AAPAHKFV 173
AA AH+++
Sbjct: 111 AAEAHRYL 118
>gnl|CDD|176232 cd08271, MDR5, 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 = 325
Score = 46.1 bits (110), Expect = 3e-06
Identities = 45/188 (23%), Positives = 71/188 (37%), Gaps = 18/188 (9%)
Query: 2 LKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIV--RNRDDIDKLKSYLKSLG 59
L + G ++ G G +Q+A+ GL+ I RN + Y+KSLG
Sbjct: 133 LFKKLRIEAGRTILITGGAGGVGSFAVQLAKRAGLRVITTCSKRNFE-------YVKSLG 185
Query: 60 ADYVFTEEELRNISRDASIPKPK---LALNCVGGNSATNLLRTLVSKGVMVTYGGMSREP 116
AD+V + R I + L+ VGG +A L TL G +V G
Sbjct: 186 ADHVIDYNDEDVCERIKEITGGRGVDAVLDTVGGETAAALAPTLAFNGHLVCIQGRPDAS 245
Query: 117 VQIP-TSAFIFKDITLRGHWMTRWQKENKES-AERKSMMNELTEMMRTGKLAAPAHKFVT 174
P T A ++ L + + + + EL E++ GKL + +
Sbjct: 246 PDPPFTRALSVHEVALGAA----HDHGDPAAWQDLRYAGEELLELLAAGKLEPLVIEVLP 301
Query: 175 LKNFQEAL 182
+ EAL
Sbjct: 302 FEQLPEAL 309
>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 = 45.1 bits (108), Expect = 7e-06
Identities = 33/132 (25%), Positives = 58/132 (43%), Gaps = 13/132 (9%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT-- 65
L G+ V+ +G S G IQ+A+ G + I + +KL+ ++LGAD
Sbjct: 137 LKAGETVLIHGGASGVGTAAIQLAKALGARVIATAGSE---EKLE-ACRALGADVAINYR 192
Query: 66 ----EEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPT 121
EE++ + + + L+ VGG+ LR L G +V G + ++
Sbjct: 193 TEDFAEEVKEATGGRGVD---VILDMVGGDYLARNLRALAPDGRLVLIGLLGGAKAELDL 249
Query: 122 SAFIFKDITLRG 133
+ + K +TL G
Sbjct: 250 APLLRKRLTLTG 261
>gnl|CDD|176235 cd08274, MDR9, 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 = 350
Score = 43.8 bits (104), Expect = 2e-05
Identities = 31/128 (24%), Positives = 57/128 (44%), Gaps = 8/128 (6%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEE 67
+ G+ V+ GA+ G ++Q+A+ G I + + +++ LGAD V +
Sbjct: 175 VGAGETVLVTGASGGVGSALVQLAKRRGAIVIAVA-GAAKEEAVRA----LGADTVILRD 229
Query: 68 ELRNISRDASIPKPKL--ALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAFI 125
++ ++ + + VGG +LLR L G VT G ++ V++
Sbjct: 230 AP-LLADAKALGGEPVDVVADVVGGPLFPDLLRLLRPGGRYVTAGAIAGPVVELDLRTLY 288
Query: 126 FKDITLRG 133
KD+TL G
Sbjct: 289 LKDLTLFG 296
>gnl|CDD|176188 cd05285, sorbitol_DH, Sorbitol dehydrogenase. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Sorbitol dehydrogenase is tetrameric and has a single
catalytic zinc per subunit. Aldose reductase catalyzes
the NADP(H)-dependent conversion of glucose to sorbital,
and SDH uses NAD(H) in the conversion of sorbitol to
fructose. 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 = 343
Score = 43.6 bits (104), Expect = 2e-05
Identities = 35/137 (25%), Positives = 55/137 (40%), Gaps = 18/137 (13%)
Query: 7 SLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLK-SYLKSLGADYVF- 64
+ PGD V+ GA G +A+ +G + + DID + + K LGA +
Sbjct: 159 GVRPGDTVLVFGA-GPIGLLTAAVAKAFGATKVVVT----DIDPSRLEFAKELGATHTVN 213
Query: 65 -----TEEELRNISRDASIPKPKLALNCVGGNSATNL-LRTLVSKG--VMVTYGGMSREP 116
T E I+ P + + C G S + G V+V GM +
Sbjct: 214 VRTEDTPESAEKIAELLGGKGPDVVIECTGAESCIQTAIYATRPGGTVVLV---GMGKPE 270
Query: 117 VQIPTSAFIFKDITLRG 133
V +P SA ++I +RG
Sbjct: 271 VTLPLSAASLREIDIRG 287
>gnl|CDD|176257 cd08297, CAD3, Cinnamyl alcohol dehydrogenases (CAD). These
alcohol dehydrogenases are related to the cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Cinnamyl alcohol dehydrogenases
(CAD) reduce cinnamaldehydes to cinnamyl alcohols in the
last step of monolignal metabolism in plant cells walls.
CAD binds 2 zinc ions and is NADPH- dependent. CAD
family members are also found in non-plant species, e.g.
in yeast where they have an aldehyde reductase activity.
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 = 341
Score = 43.7 bits (104), Expect = 2e-05
Identities = 43/201 (21%), Positives = 70/201 (34%), Gaps = 30/201 (14%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDI--DKLKSYLKSLGADYVF- 64
L PGD V+ +GA G +Q A+ GL+ I I D+ +KL+ K LGAD
Sbjct: 163 LKPGDWVVISGAGGGLGHLGVQYAKAMGLRVIAI-----DVGDEKLE-LAKELGADAFVD 216
Query: 65 --TEEELRNISRDASIPKPKLALNCVGGNSATNL-LRTLVSKGVMVTYGGMSREPVQIPT 121
+++ + + +A L L G +V G + +
Sbjct: 217 FKKSDDVEAVKELTGGGGAHAVVVTAVSAAAYEQALDYLRPGGTLVCVGLPPGGFIPLDP 276
Query: 122 SAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEA 181
+ + IT+ G + Q + E E GK+ L++ E
Sbjct: 277 FDLVLRGITIVGSLVGTRQ-----------DLQEALEFAARGKVKPHIQVV-PLEDLNEV 324
Query: 182 L--MNTMSIQGKSGVKYYIDF 200
M I G + +DF
Sbjct: 325 FEKMEEGKIAG----RVVVDF 341
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 337
Score = 41.8 bits (99), Expect = 1e-04
Identities = 36/131 (27%), Positives = 60/131 (45%), Gaps = 14/131 (10%)
Query: 9 SPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF---- 64
+ GD V+ GA G VIQ+A+ G + I V + DD ++L+ + + LGAD
Sbjct: 158 TAGDTVLVVGAGPI-GLGVIQVAKARGARVI--VVDIDD-ERLE-FARELGADDTINVGD 212
Query: 65 --TEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTS 122
LR ++ + ++ G ++ LV+ G V G+S+ PV P
Sbjct: 213 EDVAARLRELTDG---EGADVVIDATGNPASMEEAVELVAHGGRVVLVGLSKGPVTFPDP 269
Query: 123 AFIFKDITLRG 133
F K++T+ G
Sbjct: 270 EFHKKELTILG 280
>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 = 41.4 bits (98), Expect = 1e-04
Identities = 32/106 (30%), Positives = 47/106 (44%), Gaps = 16/106 (15%)
Query: 11 GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELR 70
G V++ GA G + I G + + + D YLKSLGA V E+L
Sbjct: 148 GPVLV-TGATGGVGSIAVAILAKLGYTVVALTGKEEQAD----YLKSLGASEVLDREDLL 202
Query: 71 NISRDASIPKPKL------ALNCVGGNSATNLLRTLVSKGVMVTYG 110
+ S+ KP L A++ VGG+ NLL+ GV+ + G
Sbjct: 203 DESK-----KPLLKARWAGAIDTVGGDVLANLLKQTKYGGVVASCG 243
>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 = 41.2 bits (97), Expect = 2e-04
Identities = 41/132 (31%), Positives = 58/132 (43%), Gaps = 15/132 (11%)
Query: 6 NSLSP--GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV 63
N L+P G V++ GA G + I G + + D D YLK LGA V
Sbjct: 141 NGLTPEQGPVLVT-GATGGVGSLAVSILAKLGYEVVASTGKADAAD----YLKKLGAKEV 195
Query: 64 FTEEELRNISRDASIPKPKLA--LNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPT 121
EEL+ S + K + A ++ VGG + LL TL G V G++ ++ T
Sbjct: 196 IPREELQEESIKP-LEKQRWAGAVDPVGGKTLAYLLSTLQYGGS-VAVSGLT-GGGEVET 252
Query: 122 SAFIFKDITLRG 133
+ F F LRG
Sbjct: 253 TVFPF---ILRG 261
>gnl|CDD|176189 cd05286, QOR2, Quinone oxidoreductase (QOR). Quinone
oxidoreductase (QOR) and 2-haloacrylate reductase. 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. 2-haloacrylate reductase,
a member of this subgroup, catalyzes the NADPH-dependent
reduction of a carbon-carbon double bond in
organohalogen compounds. Although similar to QOR,
Burkholderia 2-haloacrylate reductase does not act on
the quinones 1,4-benzoquinone and 1,4-naphthoquinone.
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 = 320
Score = 40.5 bits (96), Expect = 3e-04
Identities = 39/182 (21%), Positives = 70/182 (38%), Gaps = 24/182 (13%)
Query: 10 PGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF--TEE 67
PGD V+ + A G + Q A+ G I V +K + ++ GAD+V +E
Sbjct: 136 PGDTVLVHAAAGGVGLLLTQWAKALGATVIGTV---SSEEKAE-LARAAGADHVINYRDE 191
Query: 68 EL----RNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSA 123
+ R I+ + + + VG ++ L +L +G +V++G S
Sbjct: 192 DFVERVREITGGRGVD---VVYDGVGKDTFEGSLDSLRPRGTLVSFGNASGPVPPFDLLR 248
Query: 124 FIFKDITL-R---GHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQ 179
+ L R H++ E + EL + + +GKL K L +
Sbjct: 249 LSKGSLFLTRPSLFHYIAT-------REELLARAAELFDAVASGKLKVEIGKRYPLADAA 301
Query: 180 EA 181
+A
Sbjct: 302 QA 303
>gnl|CDD|173547 PTZ00354, PTZ00354, alcohol dehydrogenase; Provisional.
Length = 334
Score = 39.6 bits (93), Expect = 4e-04
Identities = 26/116 (22%), Positives = 42/116 (36%), Gaps = 8/116 (6%)
Query: 2 LKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGAD 61
LK + + G V+ + S G Q+A +G TI + + +D K +
Sbjct: 132 LKKHGDVKKGQSVLIHAGASGVGTAAAQLAEKYGAATIITTSSEEKVDFCKKLAAIILIR 191
Query: 62 Y----VFTEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMS 113
Y F + + L L+CVGG+ + L G + YG M
Sbjct: 192 YPDEEGFAPKVKKLTGEKGV----NLVLDCVGGSYLSETAEVLAVDGKWIVYGFMG 243
>gnl|CDD|176206 cd08244, MDR_enoyl_red, Possible enoyl reductase. Member
identified as possible enoyl reductase of the MDR
family. 2-enoyl thioester reductase (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 = 39.7 bits (93), Expect = 5e-04
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 7/117 (5%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV--FT 65
L+PGDVV+ A G ++Q+A+ G + +++LGAD +T
Sbjct: 140 LTPGDVVLVTAAAGGLGSLLVQLAKAAGATVVGAAGGPAKTAL----VRALGADVAVDYT 195
Query: 66 EEELRNISRDA-SIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPT 121
+ + R+A + L+ VGG L L G +TYG S E +
Sbjct: 196 RPDWPDQVREALGGGGVTVVLDGVGGAIGRAALALLAPGGRFLTYGWASGEWTALDE 252
>gnl|CDD|225041 COG2130, COG2130, Putative NADP-dependent oxidoreductases [General
function prediction only].
Length = 340
Score = 38.4 bits (90), Expect = 0.001
Identities = 16/54 (29%), Positives = 23/54 (42%)
Query: 2 LKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYL 55
L D G+ V+ + A A G V QIA+ G + + I + D L L
Sbjct: 142 LLDIGQPKAGETVVVSAAAGAVGSVVGQIAKLKGCRVVGIAGGAEKCDFLTEEL 195
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 38.1 bits (89), Expect = 0.002
Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 12/128 (9%)
Query: 11 GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELR 70
G V+ GA+ G+ +Q+A G + +V + + L+ LGA E +
Sbjct: 133 GRRVLVTGASGGVGRFAVQLAALAGAHVVAVVGSPARAEGLRE----LGA-----AEVVV 183
Query: 71 NISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAFIFK--D 128
S + P L ++ VGG L L G +V+ G S EP +AF+
Sbjct: 184 GGSELSGAPV-DLVVDSVGGPQLARALELLAPGGTVVSVGSSSGEPAVFNPAAFVGGGGG 242
Query: 129 ITLRGHWM 136
L ++
Sbjct: 243 RRLYTFFL 250
>gnl|CDD|176224 cd08263, Zn_ADH10, Alcohol dehydrogenases of the MDR 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 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 = 367
Score = 37.7 bits (88), Expect = 0.002
Identities = 45/192 (23%), Positives = 78/192 (40%), Gaps = 31/192 (16%)
Query: 2 LKDYNSLSPGD---VVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSL 58
LK + PG+ V+ G S+ IQ+A+ +G I V RD +KL K L
Sbjct: 179 LKHAADVRPGETVAVIGVGGVGSSA----IQLAKAFGASPIIAVDVRD--EKLAK-AKEL 231
Query: 59 GADYVF--TEEELRNISRDASIPK-PKLALNCVGGNSATNLLRTLVSKG---VMVTYGGM 112
GA + +E+ R+ + + + + +G L +V G V+V
Sbjct: 232 GATHTVNAAKEDAVAAIREITGGRGVDVVVEALGKPETFKLALDVVRDGGRAVVVGLAPG 291
Query: 113 SREPVQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKL---AAPA 169
+IP + + + I + G + R +++ + EL + +GKL A
Sbjct: 292 GAT-AEIPITRLVRRGIKIIGSYGARPRQD----------LPELVGLAASGKLDPEALVT 340
Query: 170 HKFVTLKNFQEA 181
HK+ L+ EA
Sbjct: 341 HKY-KLEEINEA 351
>gnl|CDD|176234 cd08273, MDR8, 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 = 331
Score = 37.6 bits (88), Expect = 0.002
Identities = 39/208 (18%), Positives = 66/208 (31%), Gaps = 49/208 (23%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
ML + G V+ +GA+ GQ ++++A G + R+ + L+ LGA
Sbjct: 130 MLHRAAKVLTGQRVLIHGASGGVGQALLELALLAGAEVYGTASERNH-----AALRELGA 184
Query: 61 --------------------DYVFTEEELRNISRDASIPKPKLALNCVGGNSATNLLRTL 100
D VF + + P L C GGNS+
Sbjct: 185 TPIDYRTKDWLPAMLTPGGVDVVFDGVGGESYEESYAALAPGGTLVCYGGNSSLL----- 239
Query: 101 VSKGVMVTYGGMSREPVQIPTSAFIFKDITLRGHWMTR-------WQKENKESAERKSMM 153
G A + K L+ R W+ ++ + +
Sbjct: 240 ---------QGRRSLAALGSLLARLAK---LKLLPTGRRATFYYVWRDRAEDPKLFRQDL 287
Query: 154 NELTEMMRTGKLAAPAHKFVTLKNFQEA 181
EL +++ GK+ K + L EA
Sbjct: 288 TELLDLLAKGKIRPKIAKRLPLSEVAEA 315
>gnl|CDD|176202 cd08240, 6_hydroxyhexanoate_dh_like, 6-hydroxyhexanoate
dehydrogenase. 6-hydroxyhexanoate dehydrogenase, an
enzyme of the zinc-dependent alcohol dehydrogenase-like
family of medium chain dehydrogenases/reductases
catalyzes the conversion of 6-hydroxyhexanoate and
NAD(+) to 6-oxohexanoate + NADH and H+.
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 = 350
Score = 37.6 bits (88), Expect = 0.003
Identities = 32/163 (19%), Positives = 63/163 (38%), Gaps = 28/163 (17%)
Query: 28 IQIARHWGLKTINIVRNRDDID--KLKSYLKSLGADYVFTEEELRNISRDASIP--KPKL 83
+ + + G I +V DID KL++ GAD V + R
Sbjct: 192 LALLKALGPANIIVV----DIDEAKLEAAKA-AGADVVVNGSDPDAAKRIIKAAGGGVDA 246
Query: 84 ALNCVGGNSATNLLRTLVSKG---VMV-TYGGMSREPVQIPTSAFIFKDITLRGHWMTRW 139
++ V ++ +L +++KG V+V +GG +P + +T++G ++
Sbjct: 247 VIDFVNNSATASLAFDILAKGGKLVLVGLFGG----EATLPLPLLPLRALTIQGSYVGSL 302
Query: 140 QKENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEAL 182
++ + EL + + GKL L + +AL
Sbjct: 303 EE-----------LRELVALAKAGKLKPIPLTERPLSDVNDAL 334
>gnl|CDD|176258 cd08298, CAD2, Cinnamyl alcohol dehydrogenases (CAD). These
alcohol dehydrogenases are related to the cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Cinnamyl alcohol dehydrogenases
(CAD) reduce cinnamaldehydes to cinnamyl alcohols in the
last step of monolignal metabolism in plant cells walls.
CAD binds 2 zinc ions and is NADPH- dependent. CAD
family members are also found in non-plant species, e.g.
in yeast where they have an aldehyde reductase activity.
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 = 329
Score = 37.2 bits (87), Expect = 0.004
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 27 VIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELRNISRDASI 78
+QIAR+ G + R+ + + + LGAD+ ++L DA+I
Sbjct: 183 ALQIARYQGAEVFAFTRSGEHQE----LARELGADWAGDSDDLPPEPLDAAI 230
>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 = 36.8 bits (86), Expect = 0.005
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEE 67
L PGD ++ G S+ G +++A+ G R+ + + LK LGAD V ++
Sbjct: 140 LQPGDTLLIRGGTSSVGLAALKLAKALGATVTATTRS----PERAALLKELGADEVVIDD 195
Query: 68 E 68
Sbjct: 196 G 196
>gnl|CDD|176179 cd05195, enoyl_red, enoyl reductase of polyketide synthase.
Putative enoyl reductase of polyketide synthase.
Polyketide synthases produce polyketides in step by step
mechanism that is similar to fatty acid synthesis. Enoyl
reductase reduces a double to single bond. Erythromycin
is one example of a polyketide generated by 3 complex
enzymes (megasynthases). 2-enoyl thioester reductase
(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.
Length = 293
Score = 36.4 bits (85), Expect = 0.005
Identities = 42/198 (21%), Positives = 74/198 (37%), Gaps = 31/198 (15%)
Query: 8 LSPGDVV-IQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLG--ADYVF 64
L G+ V I A GQ IQ+A+H G + V + + + +L+ LG D++F
Sbjct: 106 LQKGESVLIHAAA-GGVGQAAIQLAQHLGAEVFATVGSEEK----REFLRELGGPVDHIF 160
Query: 65 TEEELRNISRDASIP-------KPK---LALNCVGGNSATNLLRTLVSKGVMVTYG-GMS 113
+ SRD S + + LN + G R L G V G
Sbjct: 161 S-------SRDLSFADGILRATGGRGVDVVLNSLSGELLRASWRCLAPFGRFVEIGKRDI 213
Query: 114 REPVQIPTSAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAHKFV 173
++ F+ ++++ + + +E E + ++ E+ E++ G L P V
Sbjct: 214 LSNSKLGMRPFL-RNVSFSSVDLDQLARERPELL--RELLREVLELLEAGVL-KPLPPTV 269
Query: 174 TLKNFQEALMNTMSIQGK 191
+ M GK
Sbjct: 270 VPSASEIDAFRLMQ-SGK 286
>gnl|CDD|176186 cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family, reduce
cinnamaldehydes to cinnamyl alcohols in the last step of
monolignal metabolism in plant cells walls. CAD binds 2
zinc ions and is NADPH- dependent. CAD family members
are also found in non-plant species, e.g. in yeast where
they have an aldehyde reductase activity. 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 = 337
Score = 36.7 bits (86), Expect = 0.005
Identities = 23/111 (20%), Positives = 43/111 (38%), Gaps = 16/111 (14%)
Query: 28 IQIARHWGLKTINIVRN---RDDIDKLKSYLKSLGAD-YVFTEEELRNISRDASIPKPKL 83
++ A+ G + R+ ++D LGAD ++ T++ S+ L
Sbjct: 186 VKFAKALGAEVTAFSRSPSKKEDA-------LKLGADEFIATKDPEAMKKAAGSL---DL 235
Query: 84 ALNCVGGN-SATNLLRTLVSKGVMVTYGGMSREPVQIPTSAFIFKDITLRG 133
++ V + L L G +V G EP+ +P IF ++ G
Sbjct: 236 IIDTVSASHDLDPYLSLLKPGGTLVLVG-APEEPLPVPPFPLIFGRKSVAG 285
>gnl|CDD|176209 cd08247, AST1_like, AST1 is a cytoplasmic protein associated with
the periplasmic membrane in yeast. This group contains
members identified in targeting of yeast membrane
proteins ATPase. AST1 is a cytoplasmic protein
associated with the periplasmic membrane in yeast,
identified as a multicopy suppressor of pma1 mutants
which cause temperature sensitive growth arrest due to
the inability of ATPase to target to the cell surface.
This family is homologous to the medium chain family of
dehydrogenases and reductases. 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 an
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 352
Score = 36.1 bits (84), Expect = 0.008
Identities = 43/220 (19%), Positives = 83/220 (37%), Gaps = 42/220 (19%)
Query: 1 MLKDYNS-LSPGDVVIQNGANSACGQNVIQIA-RHWGLKTINIVRNRDDIDKLKSYLKSL 58
+L+D L P V+ G +++ G+ IQ+A H+ + T+ + + K L
Sbjct: 141 ILEDLGQKLGPDSKVLVLGGSTSVGRFAIQLAKNHYNIGTVVGTCSSRSAE----LNKKL 196
Query: 59 GADY----------VFTEEELRNISRDASIPKPKLALNCVGGN----SATNLLRTLVSKG 104
GAD+ + L N+ K L L+CVGG ++L+ G
Sbjct: 197 GADHFIDYDAHSGVKLLKPVLENVKGQG---KFDLILDCVGGYDLFPHINSILKPKSKNG 253
Query: 105 VMVT--------YGGMSREPVQIPTSAF--IFKDITLRG-HWMTRWQKENKESAERKSMM 153
VT Y + P++ +F + L ++ N + +
Sbjct: 254 HYVTIVGDYKANYKKDTFNSWDNPSANARKLFGSLGLWSYNYQFFLLDPNADW------I 307
Query: 154 NELTEMMRTGKLAAPAHKFVTLKNFQEAL--MNTMSIQGK 191
+ E++ GK+ P ++++EA + + +GK
Sbjct: 308 EKCAELIADGKVKPPIDSVYPFEDYKEAFERLKSNRAKGK 347
>gnl|CDD|176207 cd08245, CAD, Cinnamyl alcohol dehydrogenases (CAD) and related
proteins. Cinnamyl alcohol dehydrogenases (CAD),
members of the medium chain dehydrogenase/reductase
family, reduce cinnamaldehydes to cinnamyl alcohols in
the last step of monolignal metabolism in plant cells
walls. CAD binds 2 zinc ions and is NADPH- dependent.
CAD family members are also found in non-plant species,
e.g. in yeast where they have an aldehyde reductase
activity. 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 = 330
Score = 35.8 bits (83), Expect = 0.009
Identities = 40/177 (22%), Positives = 61/177 (34%), Gaps = 25/177 (14%)
Query: 5 YNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGAD-YV 63
PG+ V G G +Q AR G +T+ I R DK + + LGAD V
Sbjct: 157 DAGPRPGERVAVLGI-GGLGHLAVQYARAMGFETVAITR---SPDK-RELARKLGADEVV 211
Query: 64 FTEEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSA 123
+ EL + + L V +A + +G + G+ P P
Sbjct: 212 DSGAELDEQAAAGGA---DVILVTVVSGAAAEAALGGLRRGGRIVLVGLPESPPFSPDIF 268
Query: 124 -FIFKDITLRGHWMTRWQKENKE----SAERK----------SMMNELTEMMRTGKL 165
I K ++ G + + +E +AE K NE E M G +
Sbjct: 269 PLIMKRQSIAG-STHGGRADLQEALDFAAEGKVKPMIETFPLDQANEAYERMEKGDV 324
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated proteins
involved in membrane trafficking and neuroendocrine
secretion. The MDR/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 350
Score = 36.0 bits (84), Expect = 0.009
Identities = 38/181 (20%), Positives = 60/181 (33%), Gaps = 23/181 (12%)
Query: 14 VIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELRNIS 73
V+ G + G IQ+ + WG D I +KS LGAD V
Sbjct: 166 VLILGGSGGVGTFAIQLLKAWGAHVTTTCST-DAIPLVKS----LGADDVIDYNNEDFEE 220
Query: 74 RDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVT----------YGGMSREPVQIPTSA 123
K + L+ VGG++ L+ L G VT G+ + SA
Sbjct: 221 ELTERGKFDVILDTVGGDTEKWALKLLKKGGTYVTLVSPLLKNTDKLGL---VGGMLKSA 277
Query: 124 FIFKDITLRGHWMTRWQK--ENKESAERKSMMNELTEMMRTGKLAAPAHKFVTLKNFQEA 181
++ + S S ++EL +++ GK+ K + EA
Sbjct: 278 VDLLKKNVKSLLKGSHYRWGFFSPSG---SALDELAKLVEDGKIKPVIDKVFPFEEVPEA 334
Query: 182 L 182
Sbjct: 335 Y 335
>gnl|CDD|176212 cd08250, Mgc45594_like, Mgc45594 gene product and other MDR family
members. Includes Human Mgc45594 gene product of
undetermined function. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 35.7 bits (83), Expect = 0.010
Identities = 40/172 (23%), Positives = 70/172 (40%), Gaps = 27/172 (15%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV--FT 65
+ G+ V+ A GQ +Q+A+ G I + D+ +LKSLG D +
Sbjct: 137 MKSGETVLVTAAAGGTGQFAVQLAKLAGCHVIGTCSS----DEKAEFLKSLGCDRPINYK 192
Query: 66 EEELRNISRDASIPKPK---LALNCVGGNSATNLLRTLVSKGVMVTYGGMSR-------E 115
E+L + + PK + VGG + L KG ++ G +S
Sbjct: 193 TEDLGEVLKKEY---PKGVDVVYESVGGEMFDTCVDNLALKGRLIVIGFISGYQSGTGPS 249
Query: 116 PVQIPT--SAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTEMMRTGKL 165
PV+ T + K ++RG ++ + K + +R L ++ + GKL
Sbjct: 250 PVKGATLPPKLLAKSASVRGFFLPHYAKLIPQHLDR------LLQLYQRGKL 295
>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 = 35.3 bits (82), Expect = 0.015
Identities = 28/129 (21%), Positives = 55/129 (42%), Gaps = 7/129 (5%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV--FT 65
L G+ V+ +G S G IQ+A+ +G + + + ++LGAD +
Sbjct: 137 LKAGETVLIHGGASGIGTTAIQLAKAFGARVFTTAGSDEKCA----ACEALGADIAINYR 192
Query: 66 EEELRNISRDASIPK-PKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAF 124
EE+ + + + K + L+ VGG+ ++ L G +V G ++
Sbjct: 193 EEDFVEVVKAETGGKGVDVILDIVGGSYLNRNIKALALDGRIVQIGFQGGRKAELDLGPL 252
Query: 125 IFKDITLRG 133
+ K +T+ G
Sbjct: 253 LAKRLTITG 261
>gnl|CDD|176213 cd08251, polyketide_synthase, polyketide synthase. Polyketide
synthases produce polyketides in step by step mechanism
that is similar to fatty acid synthesis. Enoyl reductase
reduces a double to single bond. Erythromycin is one
example of a polyketide generated by 3 complex enzymes
(megasynthases). 2-enoyl thioester reductase (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 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. 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.
Length = 303
Score = 35.1 bits (81), Expect = 0.016
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 8 LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFT-- 65
L+ G+ ++ A G +Q+AR G I + D DKL+ YLK LG +V
Sbjct: 118 LAKGEHILIQTATGGTGLMAVQLARLKG-AEIYATASSD--DKLE-YLKQLGVPHVINYV 173
Query: 66 ----EEELRNIS 73
EEE+ ++
Sbjct: 174 EEDFEEEIMRLT 185
>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 = 34.5 bits (80), Expect = 0.025
Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 26/93 (27%)
Query: 54 YLKSLGADYVFTEEELRNISRDASIPKPK-L-------ALNCVGGNSATNLLRTLVSKGV 105
YLK LGA V I R+ P K L A++ VGG++ N+L L G
Sbjct: 185 YLKELGASEV--------IDREDLSPPGKPLEKERWAGAVDTVGGHTLANVLAQLKYGGA 236
Query: 106 MVTYG---GMSREPVQIPTSA--FIFKDITLRG 133
+ G G +PT+ FI + ++L G
Sbjct: 237 VAACGLAGGP-----DLPTTVLPFILRGVSLLG 264
>gnl|CDD|214840 smart00829, PKS_ER, Enoylreductase. Enoylreductase in Polyketide
synthases.
Length = 287
Score = 33.5 bits (78), Expect = 0.051
Identities = 26/79 (32%), Positives = 38/79 (48%), Gaps = 15/79 (18%)
Query: 2 LKDYNSLSPGD-VVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLG- 59
L D L PG+ V+I A GQ IQ+ARH G + + + D +L++LG
Sbjct: 95 LVDLARLRPGESVLIHAAA-GGVGQAAIQLARHLGAEVFATAGSPEKRD----FLRALGI 149
Query: 60 -ADYVFTEEELRNISRDAS 77
D++F+ SRD S
Sbjct: 150 PDDHIFS-------SRDLS 161
>gnl|CDD|176256 cd08296, CAD_like, Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family, reduce
cinnamaldehydes to cinnamyl alcohols in the last step of
monolignal metabolism in plant cells walls. CAD binds 2
zinc ions and is NADPH- dependent. CAD family members
are also found in non-plant species, e.g. in yeast where
they have an aldehyde reductase activity. 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 (ADHs), 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 = 333
Score = 33.4 bits (77), Expect = 0.053
Identities = 36/147 (24%), Positives = 53/147 (36%), Gaps = 34/147 (23%)
Query: 5 YNSL-----SPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLG 59
+N+L PGD+V G G +Q A G +T+ I R D + LG
Sbjct: 153 FNALRNSGAKPGDLVAVQGI-GGLGHLAVQYAAKMGFRTVAISRGSD----KADLARKLG 207
Query: 60 AD-YVFTEEELRNISRDASIPKPKLALNCVGGNS-----ATN------LLRTLVSKGVMV 107
A Y+ D S AL +GG A N L+ L +G ++
Sbjct: 208 AHHYI-----------DTSKEDVAEALQELGGAKLILATAPNAKAISALVGGLAPRGKLL 256
Query: 108 TYGGMSREPVQIPTSAFIFKDITLRGH 134
G + EPV + I ++ G
Sbjct: 257 ILG-AAGEPVAVSPLQLIMGRKSIHGW 282
>gnl|CDD|176233 cd08272, MDR6, 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 = 326
Score = 33.3 bits (77), Expect = 0.056
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 2 LKDYNSLSPGD-VVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L D ++ G V+I GA G +Q+A+ G + + ++ +SLGA
Sbjct: 136 LVDRAAVQAGQTVLIHGGAGGV-GHVAVQLAKAAGARVYATASSEK-----AAFARSLGA 189
Query: 61 D 61
D
Sbjct: 190 D 190
>gnl|CDD|218731 pfam05752, Calici_MSP, Calicivirus minor structural protein. This
family consists of minor structural proteins largely
from human calicivirus isolates. Human calicivirus
causes gastroenteritis. The function of this family is
unknown.
Length = 167
Score = 31.6 bits (72), Expect = 0.17
Identities = 29/100 (29%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 38 TI-NIVRNRDDIDKLKSYLKSLGADYVFTEEELRN----ISRDASIPKPKLALNCVGGNS 92
TI NIV + + +L + L D++ +E L+ +SRD S+ P L + S
Sbjct: 20 TISNIVAQQRQLAQLAKQNQ-LQQDWMNKQEALQRRGQDLSRDLSVNGPALRVQ-----S 73
Query: 93 ATNL------LRTLVSKGVMVTYGGMSREPVQIPTSAFIF 126
A + R L G V YGG+ R Q T I
Sbjct: 74 AVDAGFDPVSARRLAGSGERVIYGGLDRPIRQRGTLPGIR 113
>gnl|CDD|182229 PRK10083, PRK10083, putative oxidoreductase; Provisional.
Length = 339
Score = 32.0 bits (73), Expect = 0.17
Identities = 31/125 (24%), Positives = 53/125 (42%), Gaps = 8/125 (6%)
Query: 10 PGDVVIQNGANSACGQNVIQIARH-WGLKTINIVRNRDDIDKLKSYLKSLGADYVF--TE 66
DV + GA G ++Q+ + + +K + + D ID+ + K GAD+V +
Sbjct: 160 EQDVALIYGAGPV-GLTIVQVLKGVYNVKAVIVA---DRIDERLALAKESGADWVINNAQ 215
Query: 67 EELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPVQIPTSAFIF 126
E L + I KP L ++ S TL S + G S EP +I
Sbjct: 216 EPLGEALEEKGI-KPTLIIDAACHPSILEEAVTLASPAARIVLMGFSSEPSEIVQQGITG 274
Query: 127 KDITL 131
K++++
Sbjct: 275 KELSI 279
>gnl|CDD|176236 cd08275, MDR3, 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 = 337
Score = 31.8 bits (73), Expect = 0.19
Identities = 42/216 (19%), Positives = 72/216 (33%), Gaps = 47/216 (21%)
Query: 1 MLKDYNSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
L + +L PG V+ + A G Q+ + + + +V K ++ LK G
Sbjct: 129 ALFELGNLRPGQSVLVHSAAGGVGLAAGQLCKT--VPNVTVVGTASA-SKHEA-LKENGV 184
Query: 61 DYVFTE------EELRNISRDASIPKP-KLALNCVGGNSATNLLRTLVSKGVMVTYGG-- 111
+V EE++ IS P+ + L+ +GG L G +V YG
Sbjct: 185 THVIDYRTQDYVEEVKKIS-----PEGVDIVLDALGGEDTRKSYDLLKPMGRLVVYGAAN 239
Query: 112 -MSREPVQIPTSAFIFKDITLRGHWMTRWQK-------ENK------------ESAERKS 151
++ E A W R + ENK E
Sbjct: 240 LVTGEKRSWFKLA---------KKWWNRPKVDPMKLISENKSVLGFNLGWLFEERELLTE 290
Query: 152 MMNELTEMMRTGKLAAPAHKFVTLKNFQEALMNTMS 187
+M++L ++ GK+ + EA+ S
Sbjct: 291 VMDKLLKLYEEGKIKPKIDSVFPFEEVGEAMRRLQS 326
>gnl|CDD|176208 cd08246, crotonyl_coA_red, crotonyl-CoA reductase. Crotonyl-CoA
reductase, a member of the medium chain
dehydrogenase/reductase family, catalyzes the
NADPH-dependent conversion of crotonyl-CoA to
butyryl-CoA, a step in (2S)-methylmalonyl-CoA
production for straight-chain fatty acid biosynthesis.
Like enoyl reductase, another enzyme in fatty acid
synthesis, crotonyl-CoA reductase is a member of the
zinc-dependent alcohol dehydrogenase-like medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 393
Score = 32.0 bits (73), Expect = 0.19
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 6 NSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGA 60
N++ PGD V+ GA+ G IQ+AR G + +V + + + Y ++LGA
Sbjct: 189 NTVKPGDNVLIWGASGGLGSMAIQLARAAGANPVAVVSSEEKAE----YCRALGA 239
>gnl|CDD|182371 PRK10309, PRK10309, galactitol-1-phosphate dehydrogenase;
Provisional.
Length = 347
Score = 31.3 bits (71), Expect = 0.27
Identities = 43/162 (26%), Positives = 65/162 (40%), Gaps = 41/162 (25%)
Query: 11 GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYL-KSLGADYVFTEEE- 68
G VI GA + G IQ A G K++ + DI+ K L KSLGA F E
Sbjct: 161 GKNVIIIGAGT-IGLLAIQCAVALGAKSVTAI----DINSEKLALAKSLGAMQTFNSREM 215
Query: 69 --------LRNISRD------ASIPKP-KLALNCVGGNSATNLLRTLVSKGVMVTYGGMS 113
LR + D A +P+ +LA+ G + L+ TL
Sbjct: 216 SAPQIQSVLRELRFDQLILETAGVPQTVELAIEIAGPRAQLALVGTL------------- 262
Query: 114 REPVQIPTSAF---IFKDITLRGHWMTR---WQKENKESAER 149
+ + ++ F + K++T+ G WM W + E+A R
Sbjct: 263 HHDLHLTSATFGKILRKELTVIGSWMNYSSPWPGQEWETASR 304
>gnl|CDD|133125 cd06594, GH31_glucosidase_YihQ, YihQ is a bacterial
alpha-glucosidase with a conserved glycosyl hydrolase
family 31 (GH31) domain that catalyzes the release of an
alpha-glucosyl residue from the non-reducing end of
alpha-glucoside substrates such as alpha-glucosyl
fluoride. Orthologs of YihQ that have not yet been
functionally characterized are present in plants and
fungi. YihQ has sequence similarity to other GH31
enzymes such as CtsZ, a 6-alpha-glucosyltransferase from
Bacillus globisporus, and YicI, an alpha-xylosidase from
Echerichia coli. In bacteria, YihQ (along with YihO) is
important for bacterial O-antigen capsule assembly and
translocation.
Length = 317
Score = 31.1 bits (71), Expect = 0.36
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 134 HWMTRWQKENKESAERKSMMNELTEMMRTGKLAAPAH 170
+ W K N+E+ E ++ MR+G + +
Sbjct: 186 RYPELWAKLNREAVEEAGKTGDILFFMRSGFTGSQKY 222
>gnl|CDD|234139 TIGR03182, PDH_E1_alph_y, pyruvate dehydrogenase E1 component,
alpha subunit. Members of this protein family are the
alpha subunit of the E1 component of pyruvate
dehydrogenase (PDH). This model represents one branch of
a larger family that E1-alpha proteins from
2-oxoisovalerate dehydrogenase, acetoin dehydrogenase,
another PDH clade, etc [Energy metabolism, Pyruvate
dehydrogenase].
Length = 315
Score = 30.2 bits (69), Expect = 0.68
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 42 VRNRDDIDKLKSYLKSLGADYVFTEEELRNISRD 75
R RD I+KLK+ L G + +EEEL+ I ++
Sbjct: 256 WRKRDPIEKLKARLIEQG---IASEEELKEIDKE 286
>gnl|CDD|176194 cd08232, idonate-5-DH, L-idonate 5-dehydrogenase. L-idonate
5-dehydrogenase (L-ido 5-DH ) catalyzes the conversion
of L-lodonate to 5-ketogluconate in the metabolism of
L-Idonate to 6-P-gluconate. In E. coli, this GntII
pathway is a subsidiary pathway to the canonical GntI
system, which also phosphorylates and transports
gluconate. L-ido 5-DH is found in an operon with a
regulator indR, transporter idnT, 5-keto-D-gluconate
5-reductase, and Gnt kinase. L-ido 5-DH is a
zinc-dependent alcohol dehydrogenase-like protein. The
alcohol dehydrogenase ADH-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) which displays 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 GroES-like catalytic
domain. 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. 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 = 339
Score = 30.3 bits (69), Expect = 0.69
Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 14/85 (16%)
Query: 56 KSLGADYVFTEEELRNISRD------ASIPKPKLALNCVGGNSA-TNLLRTLVSKGVMVT 108
+++GAD E N++RD A + G +A + LR + G +V
Sbjct: 207 RAMGAD------ETVNLARDPLAAYAADKGDFDVVFEASGAPAALASALRVVRPGGTVVQ 260
Query: 109 YGGMSREPVQIPTSAFIFKDITLRG 133
G M PV +P +A + K++ LRG
Sbjct: 261 VG-MLGGPVPLPLNALVAKELDLRG 284
>gnl|CDD|233776 TIGR02198, rfaE_dom_I, rfaE bifunctional protein, domain I. RfaE
is a protein involved in the biosynthesis of
ADP-L-glycero-D-manno-heptose, a precursor for LPS inner
core biosynthesis. RfaE is a bifunctional protein in E.
coli, and separate proteins in some other genome. The
longer, N-terminal domain I (this family) is suggested
to act in D-glycero-D-manno-heptose 1-phosphate
biosynthesis, while domain II (TIGR02199) adds ADP to
yield ADP-D-glycero-D-manno-heptose [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 315
Score = 29.9 bits (68), Expect = 0.80
Identities = 35/145 (24%), Positives = 52/145 (35%), Gaps = 47/145 (32%)
Query: 2 LKDYNS--LSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDID-KLKSYLKSL 58
L DY L+P V Q VI AR G + +D K K + +
Sbjct: 149 LSDYAKGVLTPRVV-----------QEVIAAARKHGKPVL--------VDPKGKDFSRYR 189
Query: 59 GADYVFT------EEELRNISRDASIPKPKLALNCVGGNSATNLLRTLVSKGVMVTYG-- 110
GA + T E + +A + + +A LL L + ++VT
Sbjct: 190 GA-TLITPNRKEAEAAVGACDTEAELVQ-----------AAEKLLEELDLEALLVTRSEK 237
Query: 111 GMS-----REPVQIPTSAFIFKDIT 130
GM+ EP+ IP A D+T
Sbjct: 238 GMTLFTREGEPIHIPAQAREVYDVT 262
>gnl|CDD|176248 cd08288, MDR_yhdh, Yhdh putative quinone oxidoreductases. Yhdh
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 = 324
Score = 29.8 bits (68), Expect = 0.89
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 20/90 (22%)
Query: 54 YLKSLGADYVFTEEELRNISRDASIPKPKL--------ALNCVGGNSATNLLRTLVSKGV 105
YL+SLGA + I R + A++ VGG++ N+L G
Sbjct: 186 YLRSLGASEI--------IDRAELSEPGRPLQKERWAGAVDTVGGHTLANVLAQTRYGGA 237
Query: 106 MVTYGGMSREPVQIPTSA--FIFKDITLRG 133
V G++ +PT+ FI + +TL G
Sbjct: 238 -VAACGLAGGA-DLPTTVMPFILRGVTLLG 265
>gnl|CDD|176199 cd08237, ribitol-5-phosphate_DH, ribitol-5-phosphate dehydrogenase.
NAD-linked ribitol-5-phosphate dehydrogenase, a member
of the MDR/zinc-dependent alcohol dehydrogenase-like
family, oxidizes the phosphate ester of
ribitol-5-phosphate to xylulose-5-phosphate of the
pentose phosphate pathway. 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.
Length = 341
Score = 29.6 bits (67), Expect = 0.91
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 84 ALNCVGGN---SATN-LLRTLVSKGVMVTYGGMSREPVQIPTSAFIFKDITLRG 133
A CVGG SA N ++ + +G + G +S PV I T + K +TL G
Sbjct: 226 AFECVGGRGSQSAINQIIDYIRPQGTIGLMG-VSEYPVPINTRMVLEKGLTLVG 278
>gnl|CDD|211354 cd07266, HPCD_N_class_II, N-terminal domain of
3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD);
belongs to the type I class II family of extradiol
dioxygenases. This subfamily contains the N-terminal,
non-catalytic, domain of HPCD. HPCD catalyses the
second step in the degradation of
4-hydroxyphenylacetate to succinate and pyruvate. The
aromatic ring of 4-hydroxyphenylacetate is opened by
this dioxygenase to yield the 3,4-diol product,
2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is
a homotetramer and each monomer contains two
structurally homologous barrel-shaped domains at the N-
and C-terminus. The active-site metal is located in the
C-terminal barrel and plays an essential role in the
catalytic mechanism. Most extradiol dioxygenases
contain Fe(II) in their active site, but HPCD can be
activated by either Mn(II) or Fe(II). These enzymes
belong to the type I class II family of extradiol
dioxygenases. The class III 3,4-dihydroxyphenylacetate
2,3-dioxygenases belong to a different superfamily.
Length = 121
Score = 28.4 bits (64), Expect = 1.4
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 32 RHWGLKTINIVRNRDDIDKLKSYLKSLG 59
H G + VR+ +D+DK +++ + LG
Sbjct: 62 GHLGFR----VRSEEDLDKAEAFFQELG 85
>gnl|CDD|215606 PLN03154, PLN03154, putative allyl alcohol dehydrogenase;
Provisional.
Length = 348
Score = 29.0 bits (65), Expect = 1.4
Identities = 36/141 (25%), Positives = 60/141 (42%), Gaps = 17/141 (12%)
Query: 5 YNSLSP--GDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADY 62
Y SP GD V + A+ A GQ V Q+A+ G + + +D LK+ LG D
Sbjct: 151 YEVCSPKKGDSVFVSAASGAVGQLVGQLAKLHGCYVVGSAGSSQKVDLLKN---KLGFDE 207
Query: 63 VFTEEELRNISRDASIPK--PK---LALNCVGGNSATNLLRTLVSKGVMVTYGGMSREPV 117
F +E ++ DA++ + P+ + + VGG+ L + G + G +S +
Sbjct: 208 AFNYKEEPDL--DAALKRYFPEGIDIYFDNVGGDMLDAALLNMKIHGRIAVCGMVSLNSL 265
Query: 118 QIPTS-----AFIFKDITLRG 133
I K I ++G
Sbjct: 266 SASQGIHNLYNLISKRIRMQG 286
>gnl|CDD|222203 pfam13531, SBP_bac_11, Bacterial extracellular solute-binding
protein. This family includes bacterial extracellular
solute-binding proteins.
Length = 224
Score = 28.7 bits (65), Expect = 1.5
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 3/58 (5%)
Query: 13 VVIQNGANSACGQNVIQIARHWGL-KTI--NIVRNRDDIDKLKSYLKSLGADYVFTEE 67
+ I N + G+ + GL + IV +++ + ++ S AD E
Sbjct: 105 LAIANPKTAPSGRYAKALLEKAGLVDALEDKIVVLGENVRQALQFVASGEADAGIVYE 162
>gnl|CDD|217280 pfam02906, Fe_hyd_lg_C, Iron only hydrogenase large subunit,
C-terminal domain.
Length = 272
Score = 29.1 bits (66), Expect = 1.6
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 6/36 (16%)
Query: 29 QIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF 64
+GL + KL + L+ LG DYVF
Sbjct: 14 AFGEEFGLPPGTVTG------KLVAALRKLGFDYVF 43
>gnl|CDD|176193 cd08231, MDR_TM0436_like, Hypothetical enzyme TM0436 resembles the
zinc-dependent alcohol dehydrogenases (ADH). This group
contains the hypothetical TM0436 alcohol dehydrogenase
from Thermotoga maritima, proteins annotated as
5-exo-alcohol dehydrogenase, and other members of the
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
MDR, 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.
Length = 361
Score = 29.1 bits (66), Expect = 1.6
Identities = 34/143 (23%), Positives = 52/143 (36%), Gaps = 28/143 (19%)
Query: 9 SPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLK---SLGADYV-- 63
GD V+ GA G + A+ G + + IV ID L+ GAD
Sbjct: 176 GAGDTVVVQGA-GPLGLYAVAAAKLAGARRV-IV-----IDGSPERLELAREFGADATID 228
Query: 64 ---FTEEELRNISRDASIPKP-KLALNCVGGNSAT----NLLR---TLVSKGVMVTYGGM 112
+ + R I RD + + + + G +A LLR T V G V G
Sbjct: 229 IDELPDPQRRAIVRDITGGRGADVVIEASGHPAAVPEGLELLRRGGTYVLVG-SVAPAG- 286
Query: 113 SREPVQIPTSAFIFKDITLRGHW 135
V + + K++T+ G
Sbjct: 287 ---TVPLDPERIVRKNLTIIGVH 306
>gnl|CDD|188164 TIGR01751, crot-CoA-red, crotonyl-CoA reductase. The enzyme
modelled by This model is responsible for the conversion
of crotonyl-CoA reductase to butyryl-CoA. In serine
cycle methylotrophic bacteria this enzyme is involved in
the process of acetyl-CoA to glyoxylate. In other
bacteria the enzyme is used to produce butyrate for
incorporation into polyketides such as tylosin from
Streptomyces fradiae and coronatine from Pseudomonas
syringae.
Length = 398
Score = 29.0 bits (65), Expect = 1.8
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 6 NSLSPGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYV 63
++ PGD V+ GA G Q+AR G + +V + + Y +SLGA+ V
Sbjct: 185 AAVKPGDNVLIWGAAGGLGSYATQLARAGGGNPVAVVSSPEK----AEYCRSLGAEAV 238
>gnl|CDD|183380 PRK11916, PRK11916, electron transfer flavoprotein subunit YdiR;
Provisional.
Length = 312
Score = 28.7 bits (64), Expect = 1.9
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 31 ARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF 64
A+ WG + IV+N D + G ++
Sbjct: 24 AQQWGQQVYAIVQNTDQAQ----AVMPYGPKCIY 53
>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 = 27.5 bits (62), Expect = 2.2
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 27 VIQIARHWG--LKTINIVRNRDDIDKLKSYLKSLGADYVFT 65
++ +AR LK I + + + L+ LGAD V +
Sbjct: 79 IVLLARELNPKLKIIARANDPEHAELLRR----LGADEVIS 115
>gnl|CDD|167581 PRK03670, PRK03670, competence damage-inducible protein A;
Provisional.
Length = 252
Score = 28.2 bits (63), Expect = 2.5
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 122 SAFIFKDITLRGHWMTRWQKENKESAERKSMMNELTE-----MMRTGKLAAPAHKFVTLK 176
SAFI + +T +G+W+ R + E KS++ E+ ++ +G L P H VT+
Sbjct: 22 SAFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEILSRKPEVLVISGGL-GPTHDDVTML 80
Query: 177 NFQEAL 182
EAL
Sbjct: 81 AVAEAL 86
>gnl|CDD|225131 COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin),
alpha and beta subunits [Energy production and
conversion].
Length = 317
Score = 28.1 bits (63), Expect = 2.8
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 9/56 (16%)
Query: 27 VIQIARHWGLKTINIVRNR---------DDIDKLKSYLKSLGADYVFTEEELRNIS 73
+ IA +G I+I + +D D + L+ +G T +R I
Sbjct: 50 IADIAEKYGDGLIHITSRQGLEIPGISPEDADDVVEELREIGLPVGSTGPAVRAIV 105
>gnl|CDD|130941 TIGR01886, dipeptidase, dipeptidase PepV. This model represents a
small clade of dipeptidase enzymes which are members of
the larger M25 subfamily of metalloproteases. Two
characterized enzymes are included in the seed. One,
from Lactococcus lactis has been shown to act on a wide
range of dipeptides, but not larger peptides. The enzyme
from Lactobacillus delbrueckii was originally
characterized as a Xaa-His dipeptidase, specifically a
carnosinase (beta-Ala-His) by complementation of an E.
coli mutant. Further study, including the
crystallization of the enzyme , has shown it to also be
a non-specific dipeptidase. This group also includes
enzymes from Streptococcus and Enterococcus [Protein
fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 466
Score = 27.9 bits (62), Expect = 3.5
Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 14/81 (17%)
Query: 54 YLKSLGADYVFTEEELRNISRDASI-------PKPKLALNC--VGGNSATNL---LRTLV 101
Y + LG F +E + +++ +A + + KL LN G S + +
Sbjct: 310 YGEKLGI--AFHDELMGDLAMNAGMFDFDHANKESKLLLNFRYPQGTSPETMQKQVLDKF 367
Query: 102 SKGVMVTYGGMSREPVQIPTS 122
V VTY G EP +P S
Sbjct: 368 GGIVDVTYNGHFEEPHYVPGS 388
>gnl|CDD|176226 cd08265, Zn_ADH3, Alcohol dehydrogenases of the MDR family. This
group resembles the zinc-dependent alcohol dehydrogenase
and has the catalytic and structural zinc-binding sites
characteristic of this group. 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. Other MDR members have only a catalytic zinc,
and some contain no coordinated zinc.
Length = 384
Score = 27.9 bits (62), Expect = 4.3
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 10 PGDVVIQNGANSACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEEL 69
PG V+ GA G I +A+ G + + ++ ++ K +GADYVF ++
Sbjct: 203 PGAYVVVYGA-GPIGLAAIALAKAAGASKVIAF---EISEERRNLAKEMGADYVFNPTKM 258
Query: 70 RNIS 73
R+
Sbjct: 259 RDCL 262
>gnl|CDD|182130 PRK09880, PRK09880, L-idonate 5-dehydrogenase; Provisional.
Length = 343
Score = 27.7 bits (62), Expect = 4.4
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 103 KGVMVTYGGMSREPVQIPTSAFIFKDITLRG 133
KGVMV G M P + P I K+I+L+G
Sbjct: 259 KGVMVQVG-MGGAPPEFPMMTLIVKEISLKG 288
>gnl|CDD|185705 cd07894, Adenylation_RNA_ligase, Adenylation domain of RNA
circularization proteins. RNA circularization proteins
are capable of circularizing RNA molecules in an
ATP-dependent reaction. RNA circularization may protect
RNA from exonuclease activity. This model comprises the
adenylation domain, the minimal catalytic unit that is
common to all members of the ATP-dependent DNA ligase
family, and the carboxy-terminal extension of RNA
circularization protein that serves as a dimerization
module. ATP-dependent polynucleotide ligases catalyze
phosphodiester bond formation of nicked nucleic acid
substrates using the high energy nucleotide of ATP as a
cofactor in a three step reaction mechanism. The
adenylation domain binds ATP and contains many active
site residues.
Length = 342
Score = 27.5 bits (62), Expect = 4.6
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 41 IVRNRDDIDKLKSYLKSLGADYVFTEEELR 70
R+ + ++ +L+ LG E EL
Sbjct: 283 RFRSEETAEEFLEHLRRLGVHIEIVELELE 312
>gnl|CDD|236465 PRK09319, PRK09319, bifunctional 3,4-dihydroxy-2-butanone
4-phosphate synthase/GTP cyclohydrolase II/unknown
domain fusion protein; Provisional.
Length = 555
Score = 27.6 bits (62), Expect = 4.7
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 8 LSPGDVV--IQNGANS-ACGQNVIQIARHWGLKTINI 41
L P V+ IQN S A + + A+ GLK I+I
Sbjct: 160 LYPAGVICEIQNPDGSMARLPELKEYAKQHGLKLISI 196
>gnl|CDD|237363 PRK13357, PRK13357, branched-chain amino acid aminotransferase;
Provisional.
Length = 356
Score = 27.4 bits (62), Expect = 5.5
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 27 VIQIARHWGLKTINIVRNRD-DIDKLKSYLKS 57
++Q+A GL V R ID+ ++ S
Sbjct: 264 LLQLAEDLGLT----VEERPVSIDEWQADAAS 291
>gnl|CDD|240823 cd12377, RRM3_Hu, RNA recognition motif 3 in the Hu proteins
family. This subfamily corresponds to the RRM3 of the
Hu proteins family which represent a group of
RNA-binding proteins involved in diverse biological
processes. Since the Hu proteins share high homology
with the Drosophila embryonic lethal abnormal vision
(ELAV) protein, the Hu family is sometimes referred to
as the ELAV family. Drosophila ELAV is exclusively
expressed in neurons and is required for the correct
differentiation and survival of neurons in flies. The
neuronal members of the Hu family include Hu-antigen B
(HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3
or PLE21), and Hu-antigen D (HuD or ELAV-4), which play
important roles in neuronal differentiation, plasticity
and memory. HuB is also expressed in gonads. Hu-antigen
R (HuR or ELAV-1 or HuA) is the ubiquitously expressed
Hu family member. It has a variety of biological
functions mostly related to the regulation of cellular
response to DNA damage and other types of stress. Hu
proteins perform their cytoplasmic and nuclear molecular
functions by coordinately regulating functionally
related mRNAs. In the cytoplasm, Hu proteins recognize
and bind to AU-rich RNA elements (AREs) in the 3'
untranslated regions (UTRs) of certain target mRNAs,
such as GAP-43, vascular epithelial growth factor
(VEGF), the glucose transporter GLUT1, eotaxin and
c-fos, and stabilize those ARE-containing mRNAs. They
also bind and regulate the translation of some target
mRNAs, such as neurofilament M, GLUT1, and p27. In the
nucleus, Hu proteins function as regulators of
polyadenylation and alternative splicing. Each Hu
protein contains three RNA recognition motifs (RRMs),
also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains). RRM1 and RRM2 may cooperate
in binding to an ARE. RRM3 may help to maintain the
stability of the RNA-protein complex, and might also
bind to poly(A) tails or be involved in protein-protein
interactions. .
Length = 78
Score = 25.7 bits (57), Expect = 5.6
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 172 FVTLKNFQEALMNTMSIQG 190
FVT+ N++EA S+ G
Sbjct: 47 FVTMTNYEEAYSAIASLNG 65
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 27.5 bits (61), Expect = 6.1
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 124 FIFKDITLRGHWMTRWQKENKESAERKSMMNELTE 158
FI +DI + W+ E ++ A+ TE
Sbjct: 427 FIQEDIDSMQRELEMWRSEYRQQAQALQQERRATE 461
>gnl|CDD|234639 PRK00109, PRK00109, Holliday junction resolvase-like protein;
Reviewed.
Length = 138
Score = 26.7 bits (60), Expect = 6.4
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 22 ACGQNVIQIARHWGLKTINIVRNRDDIDKLKSYLK 56
A + A+ L+TI D D+L+ +K
Sbjct: 19 AVSDPLGGTAQ--PLETIKRNNGTPDWDRLEKLIK 51
>gnl|CDD|213698 TIGR02295, HpaD, 3,4-dihydroxyphenylacetate 2,3-dioxygenase.
This enzyme catalyzes the second step in the
degradation of 4-hydroxyphenylacetate to succinate and
pyruvate. 4-hydroxyphenylacetate arises from the
degradation of tyrosine. The substrate,
3,4-dihydroxyphenylacetate (homoprotocatechuate) arises
from the action of a hydroxylase on
4-hydroxyphenylacetate. The aromatic ring is opened by
this dioxygenase exo to the 3,4-diol resulting in
2-hydroxy-5-carboxymethylmuconate semialdehyde. The
enzyme from Bacillus brevis contains manganese.
Length = 294
Score = 27.0 bits (60), Expect = 7.1
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 4/41 (9%)
Query: 31 ARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVFTEEELRN 71
+ G + V +D+DK + + LG + +
Sbjct: 61 LSYIGFR----VSKEEDLDKAADFFQKLGHPVRLVRDGGQP 97
>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 = 27.1 bits (60), Expect = 7.2
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 11 GDVVIQNGANSACGQNV-IQIARHWGLKTINIVRNRDDIDKLKSYLKSLGADYVF 64
G V + GA+ G V + +H G+K + R D I+ L + +S G +F
Sbjct: 6 GRVALVTGASVGIGAAVARALVQH-GMKVVGCARRVDKIEALAAECQSAGYPTLF 59
>gnl|CDD|163666 cd07423, MPP_PrpE, Bacillus subtilis PrpE and related proteins,
metallophosphatase domain. PrpE (protein phosphatase E)
is a bacterial member of the PPP (phosphoprotein
phosphatase) family of serine/threonine phosphatases and
a key signal transduction pathway component controlling
the expression of spore germination receptors GerA and
GerK in Bacillus subtilis. PrpE is closely related to
ApaH (also known symmetrical Ap(4)A hydrolase and
bis(5'nucleosyl)-tetraphosphatase). PrpE has
specificity for phosphotyrosine only, unlike the
serine/threonine phosphatases to which it is related.
The Bacilli members of this family are single domain
proteins while the other members have N- and C-terminal
domains in addition to this phosphatase domain. The PPP
(phosphoprotein phosphatase) family, to which PrpE
belongs, is one of two known protein phosphatase
families specific for serine and threonine. The PPP
family also includes: PP1, PP2A, PP2B (calcineurin),
PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpA/PrpB, and ApA4
hydrolase. The PPP catalytic domain is defined by three
conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The
PPP enzyme family is ancient with members found in all
eukaryotes, and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 234
Score = 26.9 bits (60), Expect = 7.6
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 87 CVGGNSATNLLRTLVSKGVMVTYG 110
CV GN L R L + V +T+G
Sbjct: 72 CVPGNHDNKLYRKLQGRNVKITHG 95
>gnl|CDD|226633 COG4158, COG4158, Predicted ABC-type sugar transport system,
permease component [General function prediction only].
Length = 329
Score = 26.7 bits (59), Expect = 8.2
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 57 SLGADYVFTEEELRNISRDASIP 79
S A TE L NI+R ASI
Sbjct: 40 SFIAPNFLTESNLLNITRQASIN 62
>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 = 26.5 bits (59), Expect = 9.1
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 137 TRWQKENKESAERKSMMNELTEMMRTGKLAAP---AHKFVTL 175
T Q+E +E++ + + G+L P A K L
Sbjct: 184 TDMQREIRETSADPETRSRFRSLKEKGELLDPEQSAEKLANL 225
>gnl|CDD|224445 COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and
metabolism].
Length = 167
Score = 26.1 bits (58), Expect = 9.5
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 123 AFIFKDITLRG--HWMTRWQKENKESAERKS-MMNELTEMMRTGKLAAPAHKFVTLKN-F 178
A +L G ++ +E A + +NE + AP +KF +LK F
Sbjct: 28 AAWCSSESLPGFAKFLRAQAQEELTHAMKLFNYLNERGARPELKAIEAPPNKFSSLKELF 87
Query: 179 QEAL 182
++ L
Sbjct: 88 EKTL 91
>gnl|CDD|225449 COG2896, MoaA, Molybdenum cofactor biosynthesis enzyme [Coenzyme
metabolism].
Length = 322
Score = 26.8 bits (60), Expect = 9.6
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 28 IQIARHWGLK--TINIV----RNRDDIDKLKSYLKSLGADYVFTE-EELRNISRDA 76
I A GL +N V N D+I+ L + K GA F E L +
Sbjct: 143 IDAAVEAGLTPVKLNTVLMKGVNDDEIEDLLEFAKERGAQLRFIELMPLGEGNSWR 198
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.132 0.381
Gapped
Lambda K H
0.267 0.0902 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,032,929
Number of extensions: 902148
Number of successful extensions: 1350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1287
Number of HSP's successfully gapped: 108
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
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: 56 (25.0 bits)