RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17761
(92 letters)
>gnl|CDD|177669 PLN00035, PLN00035, histone H4; Provisional.
Length = 103
Score = 56.8 bits (137), Expect = 4e-12
Identities = 27/34 (79%), Positives = 31/34 (91%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEETRGVLK+ LENVIRDAVTY HA+R+T
Sbjct: 48 SGLIYEETRGVLKIFLENVIRDAVTYTEHARRKT 81
>gnl|CDD|128694 smart00417, H4, Histone H4.
Length = 74
Score = 54.1 bits (130), Expect = 2e-11
Identities = 24/34 (70%), Positives = 29/34 (85%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIY+ETR VLK LENV+RDAVTY HA+R+T
Sbjct: 32 SGLIYDETRNVLKSFLENVVRDAVTYTEHARRKT 65
>gnl|CDD|185397 PTZ00015, PTZ00015, histone H4; Provisional.
Length = 102
Score = 53.6 bits (129), Expect = 6e-11
Identities = 20/34 (58%), Positives = 26/34 (76%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+G IYEE RGVLK LENV+RD+ Y +A+R+T
Sbjct: 49 SGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKT 82
>gnl|CDD|238031 cd00076, H4, Histone H4, one of the four histones, along with
H2A, H2B and H3, which forms the eukaryotic nucleosome
core; along with H3, it plays a central role in
nucleosome formation; histones bind to DNA and wrap the
genetic material into "beads on a string" in which DNA
(the string) is wrapped around small blobs of histones
(the beads) at regular intervals; play a role in the
inheritance of specialized chromosome structures and
the control of gene activity; defects in the
establishment of proper chromosome structure by
histones may activate or silence genes aberrantly and
thus lead to disease; the sequence of histone H4 has
remained almost invariant in more than 2 billion years
of evolution.
Length = 85
Score = 49.4 bits (118), Expect = 2e-09
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 36 GLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
G +Y+E R VLK LE+VIRDAVTY HAKR+T
Sbjct: 33 GGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKT 65
>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and
dynamics].
Length = 91
Score = 35.4 bits (82), Expect = 5e-04
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+ EE + L+ LE + DAV HAKR+T
Sbjct: 37 VSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKT 71
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4.
Length = 75
Score = 29.1 bits (66), Expect = 0.11
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 39 YEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+ L+ +LE ++ DA RHAKR+T
Sbjct: 33 PVALQEALEDLLEEILEDAGLLARHAKRKT 62
>gnl|CDD|165730 PLN00163, PLN00163, histone H4; Provisional.
Length = 59
Score = 26.2 bits (57), Expect = 1.1
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 35 AGLIYEETRGVL 46
+GLIYEETR VL
Sbjct: 48 SGLIYEETRTVL 59
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 26.1 bits (57), Expect = 2.6
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 8/69 (11%)
Query: 10 AHGLRT-PVSGPPSVVWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+ G++T P + V+W + ++ ++RG K V++ + YPR A +
Sbjct: 349 SSGVQTFPDAPGSPVIW-------AYCITVFCQSRGTAKAVIKAQKKYEKKYPRSAHLKA 401
Query: 69 GHQRMDSRL 77
RM L
Sbjct: 402 SLVRMSRGL 410
>gnl|CDD|143416 cd07098, ALDH_F15-22, Aldehyde dehydrogenase family 15A1 and
22A1-like. Aldehyde dehydrogenase family members
ALDH15A1 (Saccharomyces cerevisiae YHR039C) and
ALDH22A1 (Arabidopsis thaliana, EC=1.2.1.3), and
similar sequences, are in this CD. Significant
improvement of stress tolerance in tobacco plants was
observed by overexpressing the ALDH22A1 gene from maize
(Zea mays) and was accompanied by a reduction of
malondialdehyde derived from cellular lipid
peroxidation.
Length = 465
Score = 26.1 bits (58), Expect = 3.0
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 39 YEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRL 77
+ E R VL+ +L+ ++ + R A R TG +D+ L
Sbjct: 39 FAERRKVLRSLLKYILENQEEICRVACRDTGKTMVDASL 77
>gnl|CDD|224515 COG1599, RFA1, Single-stranded DNA-binding replication protein A
(RPA), large (70 kD) subunit and related ssDNA-binding
proteins [DNA replication, recombination, and repair].
Length = 407
Score = 25.9 bits (57), Expect = 3.2
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 17 VSGPPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRD 56
V G + + ES VF+ + +E RGV+ + +D
Sbjct: 177 VVGSEIKTFDNQGGESKVFSNELEDEERGVIVFTDWDPSQD 217
>gnl|CDD|129039 smart00803, TAF, TATA box binding protein associated factor.
TAFs (TATA box binding protein associated factors) are
part of the transcription initiation factor TFIID
multimeric protein complex. TFIID is composed of the
TATA box binding protein (TBP) and a number of TAFs.
The TAFs provide binding sites for many different
transcriptional activators and co-activators that
modulate transcription initiation by Pol II. TAF
proteins adopt a histone-like fold.
Length = 65
Score = 24.1 bits (53), Expect = 5.4
Identities = 6/19 (31%), Positives = 15/19 (78%)
Query: 50 LENVIRDAVTYPRHAKRQT 68
++ ++++A+ + RH+KR T
Sbjct: 36 IKEIVQEALKFMRHSKRTT 54
>gnl|CDD|240426 PTZ00466, PTZ00466, actin-like protein; Provisional.
Length = 380
Score = 24.9 bits (54), Expect = 8.1
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 29 VESSVFAGLIYEETRGVLKV 48
VE ++F G EE RG+LKV
Sbjct: 55 VEGNIFVGNKAEEYRGLLKV 74
>gnl|CDD|205235 pfam13054, DUF3915, Protein of unknown function (DUF3915). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are approximately 120 amino acids in
length.
Length = 116
Score = 24.5 bits (53), Expect = 8.8
Identities = 11/31 (35%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 62 RHAKRQTGHQRMDSRLRAKTS-RPHPCTVLA 91
H + +R R R K RP C VLA
Sbjct: 14 CHHHEREDFEREREREREKEPQRPAVCNVLA 44
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
0.320 0.134 0.405
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,619,747
Number of extensions: 370599
Number of successful extensions: 294
Number of sequences better than 10.0: 1
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 21
Length of query: 92
Length of database: 10,937,602
Length adjustment: 59
Effective length of query: 33
Effective length of database: 8,320,716
Effective search space: 274583628
Effective search space used: 274583628
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.1 bits)