RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 039913
(128 letters)
>gnl|CDD|107229 cd06472, ACD_ScHsp26_like, Alpha crystallin domain (ACD) found in
Saccharomyces cerevisiae (Sc) small heat shock protein
(Hsp)26 and similar proteins. sHsps are molecular
chaperones that suppress protein aggregation and
protect against cell stress, and are generally active
as large oligomers consisting of multiple subunits.
ScHsp26 is temperature-regulated, it switches from an
inactive to a chaperone-active form upon elevation in
temperature. It associates into large 24-mers storage
forms which upon heat shock disassociate into dimers.
These dimers initiate the interaction with non-native
substrate proteins and re-assemble into large globular
assemblies having one monomer of substrate bound per
dimer. This group also contains Arabidopsis thaliana
(Ath) Hsp15.7, a peroxisomal matrix protein which can
complement the morphological phenotype of S. cerevisiae
mutants deficient in Hsps26. AthHsp15.7 is minimally
expressed under normal conditions and is strongly
induced by heat and oxidative stress. Also belonging to
this group is wheat HSP16.9 which differs in quaternary
structure from the shell-type particles of ScHsp26, it
assembles as a dodecameric double disc, with each disc
organized as a trimer of dimers.
Length = 92
Score = 103 bits (259), Expect = 4e-30
Identities = 47/92 (51%), Positives = 59/92 (64%), Gaps = 14/92 (15%)
Query: 10 RADWKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSG--------------RGRRTSG 55
R DWKET AHV D+P +K+ DVK+EVE+ RVLR+SG R R+SG
Sbjct: 1 RVDWKETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGERKKEEEKKGDDWHRVERSSG 60
Query: 56 TFWMQFRMPMSADLEHVKALLENGVLRITVPK 87
F +FR+P +AD + VKA LENGVL +TVPK
Sbjct: 61 RFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 88.8 bits (221), Expect = 3e-24
Identities = 39/102 (38%), Positives = 58/102 (56%), Gaps = 12/102 (11%)
Query: 12 DWKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSG-----------RGRRTSGTFWMQ 60
D KE + A V+ LD+P K ++K++VE+NRVL R R+ +F +
Sbjct: 1 DIKEDKDAFVVKLDVPGFKPEELKVKVEDNRVLVKGKHEKEEEDDHGLRSERSYRSFSRK 60
Query: 61 FRMPMSADLEHVKALLENGVLRITVPKLAEEKKSRPKVISIS 102
F +P +AD + VKA L++GVL +TVPKL +K P+ I I
Sbjct: 61 FVLPENADPDKVKASLKDGVLTVTVPKLEPPEKK-PRRIQIQ 101
>gnl|CDD|107221 cd06464, ACD_sHsps-like, Alpha-crystallin domain (ACD) of
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (ACD). sHsps
are generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps.
Length = 88
Score = 71.4 bits (176), Expect = 1e-17
Identities = 37/89 (41%), Positives = 51/89 (57%), Gaps = 14/89 (15%)
Query: 12 DWKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSG-------------RGRRTSGTFW 58
D ET A+V+ D+P K+ D+K+EVE+ VL +SG R R+ G+F
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVEDG-VLTISGEREEEEEEEENYLRRERSYGSFS 59
Query: 59 MQFRMPMSADLEHVKALLENGVLRITVPK 87
FR+P D + +KA LENGVL IT+PK
Sbjct: 60 RSFRLPEDVDPDKIKASLENGVLTITLPK 88
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of
human butyrate-induced transcript 1 (hB-ind1), NUD
(nuclear distribution) C, Melusin, and NAD(P)H
cytochrome b5 (NCB5) oxidoreductase (OR).
Length = 80
Score = 67.2 bits (165), Expect = 5e-16
Identities = 35/81 (43%), Positives = 49/81 (60%), Gaps = 7/81 (8%)
Query: 13 WKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSGRGR------RTSGTFWMQFRMPMS 66
W +T V+T+D+P +K+ D+K+EVE+N L +SG+ R+ G F F +P
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNV-LTISGKREEEEERERSYGEFERSFELPED 59
Query: 67 ADLEHVKALLENGVLRITVPK 87
D E KA LENGVL IT+PK
Sbjct: 60 VDPEKSKASLENGVLEITLPK 80
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 63.2 bits (154), Expect = 9e-14
Identities = 36/105 (34%), Positives = 54/105 (51%), Gaps = 16/105 (15%)
Query: 12 DWKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSG--------------RGRRTSGTF 57
D +ET + IT ++P + + D++I VE N L + G R R G F
Sbjct: 44 DIEETDDEYRITAELPGVDKEDIEITVEGN-TLTIRGEREEEEEEEEEGYLRRERAYGEF 102
Query: 58 WMQFRMPMSADLEHVKALLENGVLRITVPKLAEEKKSRPKVISIS 102
FR+P D E +KA +NG+L +T+PK AE ++ +PK I I
Sbjct: 103 ERTFRLPEKVDPEVIKAKYKNGLLTVTLPK-AEPEEKKPKRIEIE 146
>gnl|CDD|107228 cd06471, ACD_LpsHSP_like, Group of bacterial proteins containing
an alpha crystallin domain (ACD) similar to
Lactobacillus plantarum (Lp) small heat shock proteins
(sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are
molecular chaperones that suppress protein aggregation
and protect against cell stress, and are generally
active as large oligomers consisting of multiple
subunits. Transcription of the genes encoding Lp HSP
18.5, 18.55 and 19.3 is regulated by a variety of
stresses including heat, cold and ethanol. Early
growing L. plantarum cells contain elevated levels of
these mRNAs which rapidly fall of as the cells enter
stationary phase. Also belonging to this group is
Bifidobacterium breve (Bb) HSP20 and Oenococcus oenis
(syn. Leuconostoc oenos) (Oo) HSP18. Transcription of
the gene encoding BbHSP20 is strongly induced following
heat or osmotic shock, and that of the gene encoding
OoHSP18 following heat, ethanol or acid shock. OoHSP18
is peripherally associated with the cytoplasmic
membrane.
Length = 93
Score = 54.8 bits (133), Expect = 4e-11
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 18/94 (19%)
Query: 10 RADWKETRTAHVITLDIPRMKENDVKIEVEENRVLRVSG----------------RGRRT 53
+ D KET +++ D+P K+ D+K++ ++ L +S R R
Sbjct: 2 KTDIKETDDEYIVEADLPGFKKEDIKLDYKDG-YLTISAKRDESKDEKDKKGNYIRRERY 60
Query: 54 SGTFWMQFRMPMSADLEHVKALLENGVLRITVPK 87
G+F F +P + D E +KA ENGVL+IT+PK
Sbjct: 61 YGSFSRSFYLP-NVDEEEIKAKYENGVLKITLPK 93
>gnl|CDD|107247 cd06526, metazoan_ACD, Alpha-crystallin domain (ACD) of metazoan
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (ACD). sHsps
are generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps.
Length = 83
Score = 35.6 bits (83), Expect = 0.001
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 22 ITLDIPRMKENDVKIEVEENRVLRVSGR-------GRRTSGTFWMQFRMPMSADLEHVKA 74
+TLD+ K ++K++V +N+++ V G+ S F ++++P D + V +
Sbjct: 11 VTLDVKGFKPEELKVKVSDNKLV-VEGKHEEREDEHGYVSREFTRRYQLPEGVDPDSVTS 69
Query: 75 -LLENGVLRITVPK 87
L +GVL I PK
Sbjct: 70 SLSSDGVLTIEAPK 83
>gnl|CDD|107227 cd06470, ACD_IbpA-B_like, Alpha-crystallin domain (ACD) found in
Escherichia coli inclusion body-associated proteins
IbpA and IbpB, and similar proteins. IbpA and IbpB are
16 kDa small heat shock proteins (sHsps). sHsps are
molecular chaperones that suppress protein aggregation
and protect against cell stress, and are generally
active as large oligomers consisting of multiple
subunits. IbpA and IbpB are produced during high-level
production of various heterologous proteins,
specifically human prorenin, renin and bovine
insulin-like growth factor 2 (bIGF-2), and are strongly
associated with inclusion bodies containing these
heterologous proteins. IbpA and IbpB work as an
integrated system to stabilize thermally aggregated
proteins in a disaggregation competent state. The
chaperone activity of IbpB is also significantly
elevated as the temperature increases from normal to
heat shock. The high temperature results in the
disassociation of 2-3-MDa IbpB oligomers into smaller
approximately 600-kDa structures. This elevated
activity seen under heat shock conditions is retained
for an extended period of time after the temperature is
returned to normal. IbpA also forms multimers.
Length = 90
Score = 35.2 bits (82), Expect = 0.001
Identities = 25/80 (31%), Positives = 35/80 (43%), Gaps = 22/80 (27%)
Query: 20 HVITLDIPRMKENDVKIEVEENRVLRVSGRGRRTS-------------GTFWMQFRMPMS 66
+ ITL + E+D++IEVE N L V+G+ F F +
Sbjct: 13 YRITLAVAGFSEDDLEIEVENN-QLTVTGKKADEENEEREYLHRGIAKRAFERSFNLA-- 69
Query: 67 ADLEHVK---ALLENGVLRI 83
+HVK A LENG+L I
Sbjct: 70 ---DHVKVKGAELENGLLTI 86
>gnl|CDD|107239 cd06489, p23_CS_hSgt1_like, p23_like domain similar to the
C-terminal CS (CHORD-SGT1) domain of human (h) Sgt1 and
related proteins. hSgt1 is a co-chaperone which has
been shown to be elevated in HEp-2 cells as a result of
stress conditions such as heat shock. It interacts with
the heat shock proteins (HSPs) Hsp70 and Hsp90, and it
expression pattern is synchronized with these two Hsps.
The interaction with HSP90 has been shown to involve
the hSgt1_CS domain, and appears to be required for
correct kinetochore assembly and efficient cell
division. Some proteins in this subgroup contain a
tetratricopeptide repeat (TPR) HSP-binding domain
N-terminal to this CS domain, and most proteins in this
subgroup contain a Sgt1-specific (SGS) domain
C-terminal to the CS domain. The SGS domain interacts
with some S100 family proteins. Studies suggest that
S100A6 modulates in a Ca2+ dependent manner the
interactions of hSgt1 with Hsp90 and Hsp70. The yeast
Sgt1 CS domain is not found in this subgroup.
Length = 84
Score = 32.3 bits (74), Expect = 0.015
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 12 DWKETRTAHVITLDIPRMKENDVKIEVEENRVL 44
DW +T + VIT+ I +K DV +E E+ +
Sbjct: 1 DWYQTESQVVITILIKNVKPEDVSVEFEKRELS 33
>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 = 30.4 bits (69), Expect = 0.22
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 46 VSGRGRRTSGTFWMQFRMPMSADLEHVKALLENGVL 81
V G G R TF++ P++ADL + L+ G L
Sbjct: 237 VGGGGGRRLYTFFLYDGEPLAADLARLLGLVAAGRL 272
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 28.3 bits (64), Expect = 0.39
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 20 HVITLDIPRMKENDVKIEVEENRVLRVSGRGRRTSGTFWMQFR 62
+T +IP V ++VE+ V+ VSG + G F
Sbjct: 22 GELTREIP----PGVTVKVEKITVIIVSGIDKEKVGQFAALIG 60
>gnl|CDD|213800 TIGR03349, IV_VI_DotU, type IV / VI secretion system protein, DotU
family. At least two families of proteins, often
encoded by adjacent genes, show sequence similarity due
to homology between type IV secretion systems and type
VI secretion systems. One is the IcmF family
(TIGR03348). The other is the family described by this
model. Members include DotU from the Legionella
pneumophila type IV secretion system. Many of the
members of this protein family from type VI secretion
systems have an additional C-terminal domain with
OmpA/MotB homology [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 183
Score = 27.6 bits (62), Expect = 1.5
Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 59 MQFRMPMSADLEHVKALLENGVLRITV--PKLAEEKKSRPKVISISGFFCTIADEAAGNS 116
+ ++ + V+AL E V + + +L S + + C + DEA N+
Sbjct: 1 LVTQLRATPAPPDVEALREQLVEELRLFERRLRAAGYSSEDIEAARYALCALLDEAVLNT 60
>gnl|CDD|216076 pfam00712, DNA_pol3_beta, DNA polymerase III beta subunit,
N-terminal domain. A dimer of the beta subunit of DNA
polymerase beta forms a ring which encircles duplex DNA.
Each monomer contains three domains of identical
topology and DNA clamp fold.
Length = 120
Score = 27.2 bits (61), Expect = 1.7
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 24 LDIPRMKEN--DVKIEVEENRVLRVSGRGRRTSGTF 57
LDI R + DVK+ V E+R+L +SG R + T
Sbjct: 76 LDIVRALPDDKDVKLSVNEDRLLIISGNSRFSLPTL 111
>gnl|CDD|222256 pfam13602, ADH_zinc_N_2, Zinc-binding dehydrogenase.
Length = 129
Score = 27.0 bits (60), Expect = 2.3
Identities = 10/44 (22%), Positives = 15/44 (34%)
Query: 42 RVLRVSGRGRRTSGTFWMQFRMPMSADLEHVKALLENGVLRITV 85
V +G + ADL + L+E G LR +
Sbjct: 59 SVAAKAGGRGVRGVFLFPVSPGEAGADLAELAELVEAGKLRPVI 102
>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 = 26.8 bits (60), Expect = 3.0
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 15/65 (23%)
Query: 47 SGRGRRTSGTFWMQFRMPMSADLEHVKALLENGVLRITVPK------------LAEEKKS 94
+ R +G +++ P L + L+E G LR V + E +
Sbjct: 247 AKRRGVRAGFVFVE---PDGEQLAELAELVEAGKLRPVVDRVFPLEDAAEAHERLESGHA 303
Query: 95 RPKVI 99
R KV+
Sbjct: 304 RGKVV 308
>gnl|CDD|239835 cd04370, BAH, BAH, or Bromo Adjacent Homology domain (also called
ELM1 and BAM for Bromo Adjacent Motif). BAH domains have
first been described as domains found in the polybromo
protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure
of Chromatin). They also occur in mammalian DNA
methyltransferases and the MTA1 subunits of histone
deacetylase complexes. A BAH domain is also found in
Yeast Sir3p and in the origin receptor complex protein 1
(Orc1p), where it was found to interact with the
N-terminal lobe of the silence information regulator 1
protein (Sir1p), confirming the initial hypothesis that
BAH plays a role in protein-protein interactions.
Length = 123
Score = 26.2 bits (58), Expect = 3.3
Identities = 11/41 (26%), Positives = 15/41 (36%)
Query: 66 SADLEHVKALLENGVLRITVPKLAEEKKSRPKVISISGFFC 106
S L+ + G ++ E K RP I FFC
Sbjct: 68 SDHLDEIPVESIIGKCKVLFVSEFEGLKQRPNKIDTDDFFC 108
>gnl|CDD|227422 COG5091, SGT1, Suppressor of G2 allele of skp1 and related proteins
[General function prediction only].
Length = 368
Score = 26.6 bits (58), Expect = 4.0
Identities = 12/86 (13%), Positives = 32/86 (37%), Gaps = 5/86 (5%)
Query: 10 RADWKETRTAHVITLDIPRMKENDVKIE-VEENRVLRVSGRGRRTSGTFWMQFRMPMSAD 68
+ + T+ + I R D ++ V E L +S + RR W + + +
Sbjct: 176 EIAYDFSETSDTAIIFIYRPPVGDEQVSPVLEGNTLSISYQPRR--LRLWNDITISLYKE 233
Query: 69 LEHVKALLE--NGVLRITVPKLAEEK 92
+ ++ + + + + K+ +
Sbjct: 234 VYPDIRSIKSFSKRVEVHLRKVEMVR 259
>gnl|CDD|217038 pfam02445, NadA, Quinolinate synthetase A protein. Quinolinate
synthetase catalyzes the second step of the de novo
biosynthetic pathway of pyridine nucleotide formation.
In particular, quinolinate synthetase is involved in the
condensation of dihydroxyacetone phosphate and
iminoaspartate to form quinolinic acid. This synthesis
requires two enzymes, a FAD-containing "B protein" and
an "A protein".
Length = 296
Score = 26.2 bits (59), Expect = 4.6
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 68 DLEHVKALLENGVLRITVPK 87
LE + LEN ITVP+
Sbjct: 261 TLEKLLDALENLENEITVPE 280
>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 = 26.4 bits (59), Expect = 5.1
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 42 RVLRVSGRGRRTSGTFWMQFRMPMSADLEHVKALLENGVLRITV 85
+ G G R F P + DLE + L+E G L+ +
Sbjct: 252 LLPLTLGGGGRRLKFFLA---KPNAEDLEQLAELVEEGKLKPVI 292
>gnl|CDD|140022 PRK13966, nrdF2, ribonucleotide-diphosphate reductase subunit
beta; Provisional.
Length = 324
Score = 26.2 bits (57), Expect = 6.0
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 52 RTSGTFWMQFRMPMSADLEHVKALLEN 78
R +G FW+ ++P+S D+ L
Sbjct: 30 RLTGNFWLPEKVPVSNDIPSWGTLTAG 56
>gnl|CDD|235045 PRK02506, PRK02506, dihydroorotate dehydrogenase 1A; Reviewed.
Length = 310
Score = 25.7 bits (57), Expect = 8.9
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 85 VPKLAEEKKSRPKVISISGF 104
V +L ++ ++P +S+ G
Sbjct: 83 VLELQKKGPNKPHFLSVVGL 102
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 0.130 0.372
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,517,818
Number of extensions: 575861
Number of successful extensions: 687
Number of sequences better than 10.0: 1
Number of HSP's gapped: 680
Number of HSP's successfully gapped: 38
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
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: 53 (24.1 bits)