RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13896
(171 letters)
>gnl|CDD|240522 cd13151, DAXX_helical_bundle, Helical bundle domain of the
death-domain associated protein (DAXX). DAXX is a
nuclear protein that modulates transcription of various
genes and is involved in cell death and/or the
suppression of growth. DAXX is also a histone chaperone
conserved in Metazoa that acts specifically on histone
H3.3. This alignment models the N-terminal helical
bundle domain of DAXX, which was shown to interact with
the tumor suppressor Ras-association domain family 1C
(RASSF1C).
Length = 88
Score = 29.4 bits (66), Expect = 0.27
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 3 SFLRKSRYSKKISIFFSPGIDFTKRLACGGVERAKRAIRVFLHIRELCLLL 53
+FLR RYS+ F +F L+ A R +++++I ELC +L
Sbjct: 30 TFLRN-RYSRATPEFLKSV-EFKNILSRCLARIAARPAKLYVYINELCTVL 78
>gnl|CDD|223988 COG1060, ThiH, Thiamine biosynthesis enzyme ThiH and related
uncharacterized enzymes [Coenzyme metabolism / General
function prediction only].
Length = 370
Score = 28.8 bits (65), Expect = 1.3
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 21 GIDFTKRLACGGVERAKRAIRVFLHIREL 49
GI T + G VE + I HIR+L
Sbjct: 212 GIPTTATMLLGHVETREDRIDHLEHIRDL 240
>gnl|CDD|151794 pfam11353, DUF3153, Protein of unknown function (DUF3153). This
family of proteins with unknown function appear to be
restricted to Cyanobacteria. Some members are annotated
as membrane proteins however this cannot be confirmed.
Length = 210
Score = 27.6 bits (62), Expect = 3.0
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 13/36 (36%)
Query: 49 LCLLLAGEQETQLPLTDYRSCVQVDSVLDLTNSDLI 84
L LLL+G CV++D+ LDL D +
Sbjct: 7 LTLLLSG-------------CVRIDADLDLPGPDRL 29
>gnl|CDD|219192 pfam06823, DUF1236, Protein of unknown function (DUF1236). This
family contains a number of hypothetical bacterial
proteins of unknown function. Some family members
contain more than one copy of the region represented by
this family.
Length = 64
Score = 25.2 bits (56), Expect = 5.3
Identities = 11/19 (57%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 99 HRFLVVNDVQVILVEPDTR 117
+R+ VVND VI V+P TR
Sbjct: 40 YRYTVVNDRPVI-VDPRTR 57
Score = 25.2 bits (56), Expect = 5.3
Identities = 11/19 (57%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 142 HRFLVVNDVQVILVEPDTR 160
+R+ VVND VI V+P TR
Sbjct: 40 YRYTVVNDRPVI-VDPRTR 57
>gnl|CDD|215264 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 27.0 bits (60), Expect = 6.9
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 96 SRVHRFLVVNDVQVILVEPD----TRVGWGVVKLA 126
R+++ L V + ++ V PD TR + VK A
Sbjct: 714 DRINKMLAVLESNILWVNPDCGLKTR-KYPEVKPA 747
Score = 27.0 bits (60), Expect = 6.9
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 139 SRVHRFLVVNDVQVILVEPD----TRVGWGVVKLA 169
R+++ L V + ++ V PD TR + VK A
Sbjct: 714 DRINKMLAVLESNILWVNPDCGLKTR-KYPEVKPA 747
>gnl|CDD|176241 cd08281, liver_ADH_like1, Zinc-dependent alcohol dehydrogenases
(ADH) and class III ADG (AKA formaldehyde
dehydrogenase). NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. This group contains members
identified as zinc dependent alcohol dehydrogenases
(ADH), and class III ADG (aka formaldehyde
dehydrogenase, FDH). 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. 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.
Class III ADH are also know as glutathione-dependent
formaldehyde dehydrogenase (FDH), which convert
aldehydes to the corresponding carboxylic acid and
alcohol. 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 = 371
Score = 26.2 bits (58), Expect = 9.8
Identities = 24/72 (33%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 67 RSCVQVDSVLDLTNSDLIGCHVVRG-GAGGSRVHRFLVVNDVQVILVEPDTRVGWGVVKL 125
RS V++D + L + L GC V+ G GA VVN V + VG G V L
Sbjct: 155 RSVVKIDKDVPLEIAALFGCAVLTGVGA---------VVNTAGVRPGQSVAVVGLGGVGL 205
Query: 126 AGEYPGVGCGAG 137
+ V GA
Sbjct: 206 SALLGAVAAGAS 217
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
0.326 0.144 0.440
Gapped
Lambda K H
0.267 0.0608 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,892,844
Number of extensions: 836724
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 832
Number of HSP's successfully gapped: 20
Length of query: 171
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 81
Effective length of database: 6,945,742
Effective search space: 562605102
Effective search space used: 562605102
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.2 bits)