RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2779
(101 letters)
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 57.0 bits (138), Expect = 5e-11
Identities = 25/46 (54%), Positives = 32/46 (69%), Gaps = 1/46 (2%)
Query: 2 KIEEVKSTVKTQRISSHSHVKGLGLKENGEANEMAAGLVGQQAARE 47
KI E + RI++HSH+KGLGL ENG+A + GLVGQ+ ARE
Sbjct: 5 KIREEDVGERE-RIAAHSHIKGLGLDENGKAKFIGDGLVGQEEARE 49
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49
(TIP49) was originally identified as a TBP-binding
protein, and two related proteins are encoded by
individual genes, tip49a and b. Although the function
of this gene family has not been elucidated, they are
supposed to play a critical role in nuclear events
because they interact with various kinds of nuclear
factors and have DNA helicase activities.TIP49a has
been suggested to act as an autoantigen in some
patients with autoimmune diseases.
Length = 395
Score = 56.2 bits (136), Expect = 1e-10
Identities = 21/34 (61%), Positives = 29/34 (85%)
Query: 14 RISSHSHVKGLGLKENGEANEMAAGLVGQQAARE 47
RI++HSH++GLGL E+GEA ++ GLVGQ+ ARE
Sbjct: 1 RIAAHSHIRGLGLDEDGEARYVSEGLVGQEKARE 34
>gnl|CDD|223023 PHA03249, PHA03249, DNA packaging tegument protein UL25;
Provisional.
Length = 653
Score = 28.1 bits (62), Expect = 0.84
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 10/63 (15%)
Query: 31 EANEMAAGLVGQQAAREVSRAVTWEKSFQFER----CKSHSLFRGGRAVAGGRTKCPKPP 86
+ + M AGL ++ + + SF+ RG RA GGR K KP
Sbjct: 41 DLDRMEAGLSSYSSSSDN------KSSFEVVSETDSGSEAEAERGRRAGMGGRNKATKPS 94
Query: 87 NTS 89
+
Sbjct: 95 RRN 97
>gnl|CDD|183499 PRK12396, PRK12396, 5-methylribose kinase; Reviewed.
Length = 409
Score = 26.7 bits (59), Expect = 2.4
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 1 MKIEEVKSTVKTQRISSHSHVKGLGLKENGEAN 33
M+ +V VK + +S H KGL KE G+ N
Sbjct: 10 MEANDVIVYVKEK-LSKFEHAKGLQCKEIGDGN 41
>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 = 24.9 bits (55), Expect = 8.9
Identities = 16/36 (44%), Positives = 18/36 (50%), Gaps = 7/36 (19%)
Query: 51 AVTWEKSFQFERCKSHSLFRGGRAVAGGRTKCPKPP 86
A TWEKS + SL RGGR V G T + P
Sbjct: 245 AATWEKSLK-------SLARGGRLVTCGATTGYEAP 273
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
0.313 0.127 0.372
Gapped
Lambda K H
0.267 0.0731 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,885,605
Number of extensions: 378907
Number of successful extensions: 175
Number of sequences better than 10.0: 1
Number of HSP's gapped: 175
Number of HSP's successfully gapped: 10
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)