RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12658
(67 letters)
>gnl|CDD|238029 cd00074, H2A, Histone 2A; H2A is a subunit of the nucleosome. The
nucleosome is an octamer containing two H2A, H2B, H3,
and H4 subunits. The H2A subunit performs essential
roles in maintaining structural integrity of the
nucleosome, chromatin condensation, and binding of
specific chromatin-associated proteins.
Length = 115
Score = 57.0 bits (138), Expect = 1e-12
Identities = 27/43 (62%), Positives = 30/43 (69%)
Query: 16 KEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
K K K +SRS RA L FPV R HR+LKKGRYAER+G GA
Sbjct: 1 KGGGKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGA 43
>gnl|CDD|185399 PTZ00017, PTZ00017, histone H2A; Provisional.
Length = 134
Score = 54.8 bits (132), Expect = 2e-11
Identities = 25/39 (64%), Positives = 29/39 (74%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
KK P SRS +A L FPV R HR+LKKGRYA+R+G GA
Sbjct: 12 AGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGA 50
>gnl|CDD|197711 smart00414, H2A, Histone 2A.
Length = 106
Score = 53.5 bits (129), Expect = 2e-11
Identities = 21/32 (65%), Positives = 24/32 (75%)
Query: 27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
SRS RA L FPV R HR L+KG YA+R+G GA
Sbjct: 1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGA 32
>gnl|CDD|177758 PLN00157, PLN00157, histone H2A; Provisional.
Length = 132
Score = 49.5 bits (118), Expect = 2e-09
Identities = 20/39 (51%), Positives = 24/39 (61%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
K SRS +A L FPV R R+LK G+YA R+G GA
Sbjct: 11 GGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGA 49
>gnl|CDD|215080 PLN00156, PLN00156, histone H2AX; Provisional.
Length = 139
Score = 46.5 bits (110), Expect = 3e-08
Identities = 25/47 (53%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
+ G+ + KA K+ SRS +A L FPV R RFLK G+YAER+G GA
Sbjct: 7 TKGGRGKPKATKS-VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGA 52
>gnl|CDD|165721 PLN00153, PLN00153, histone H2A; Provisional.
Length = 129
Score = 44.7 bits (105), Expect = 1e-07
Identities = 27/48 (56%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
++ GK + KKA SRS +A L FPV R R+LKKG+YAERIG GA
Sbjct: 1 MAGRGKGKTSGKKA-VSRSAKAGLQFPVGRIARYLKKGKYAERIGAGA 47
>gnl|CDD|227587 COG5262, HTA1, Histone H2A [Chromatin structure and dynamics].
Length = 132
Score = 42.9 bits (101), Expect = 5e-07
Identities = 20/38 (52%), Positives = 24/38 (63%)
Query: 21 AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
+ +SRS +A L+FPV R R LKKG Y RIG GA
Sbjct: 12 DARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGA 49
>gnl|CDD|165723 PLN00155, PLN00155, histone H2A; Provisional.
Length = 58
Score = 41.2 bits (96), Expect = 6e-07
Identities = 27/48 (56%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
++ GK + KKA SRS +A L FPV R R+LKKG+YAERIG GA
Sbjct: 1 MAGRGKGKTSGKKA-VSRSAKAGLQFPVGRIARYLKKGKYAERIGAGA 47
>gnl|CDD|177756 PLN00154, PLN00154, histone H2A; Provisional.
Length = 136
Score = 41.5 bits (97), Expect = 2e-06
Identities = 18/38 (47%), Positives = 22/38 (57%)
Query: 10 GLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKK 47
+ ++ K KK P SRS RA L FPV R HR LK+
Sbjct: 13 KTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQ 50
>gnl|CDD|240330 PTZ00252, PTZ00252, histone H2A; Provisional.
Length = 134
Score = 36.9 bits (85), Expect = 1e-04
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIG 55
KA K+ RS +A L+FPV R L++G+YA RIG
Sbjct: 10 KASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIG 45
>gnl|CDD|185696 cd09019, galactose_mutarotase_like, galactose mutarotase_like.
Galactose mutarotase catalyzes the conversion of
beta-D-galactose to alpha-D-galactose. Beta-D-galactose
is produced by the degradation of lactose, a
disaccharide composed of beta-D-glucose and
beta-D-galactose. This epimerization reaction is the
first step in the four-step Leloir pathway, which
converts galactose into metabolically important
glucose. This epimerization step is followed by the
phosophorylation of alpha-D-galactose by galactokinase,
an enzyme which can only act on the alpha anomer. A
glutamate and a histidine residue of the galactose
mutarotase have been shown to be critical for
catalysis, the glutamate serves as the active site base
to initiate the reaction by removing the proton from
the C-1 hydroxyl group of the sugar substrate, and the
histidine as the active site acid to protonate the C-5
ring oxygen. Galactose mutarotase is a member of the
aldose-1-epimerase superfamily.
Length = 326
Score = 29.8 bits (68), Expect = 0.058
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 48 GRYAERIGLGAWSINGIQ 65
GR A RI G ++++G
Sbjct: 58 GRVANRIANGRFTLDGKT 75
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4.
Length = 75
Score = 28.3 bits (64), Expect = 0.097
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 28 RSQRANLVFPVSRCHRFLKKGRYAE-RIGLGA 58
S+ L P SR R LK+G YAE RI A
Sbjct: 1 SSRLLILKLPFSRVVRELKEGFYAELRISSKA 32
>gnl|CDD|233958 TIGR02636, galM_Leloir, galactose mutarotase. Members of this
protein family act as galactose mutarotase (D-galactose
1-epimerase) and participate in the Leloir pathway for
galactose/glucose interconversion. All members of the
seed alignment for this model are found in gene
clusters with other enzymes of the Leloir pathway. This
enzyme family belongs to the aldose 1-epimerase family,
described by Pfam model pfam01263. However, the enzyme
described as aldose 1-epimerase itself (EC 5.1.3.3) is
called broadly specific for D-glucose, L-arabinose,
D-xylose, D-galactose, maltose and lactose. The
restricted genome context for genes in this family
suggests members should act primarily on D-galactose.
Length = 336
Score = 26.6 bits (59), Expect = 0.84
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 48 GRYAERIGLGAWSING 63
GRYA RI G++ I+G
Sbjct: 62 GRYANRIANGSFEIDG 77
>gnl|CDD|182931 PRK11055, galM, galactose-1-epimerase; Provisional.
Length = 342
Score = 25.7 bits (57), Expect = 1.6
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 48 GRYAERIGLGAWSING 63
GRYA RI ++++G
Sbjct: 68 GRYANRIANSRFTLDG 83
>gnl|CDD|182834 PRK10914, PRK10914, dipeptide transporter permease DppB;
Provisional.
Length = 339
Score = 25.2 bits (55), Expect = 3.0
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 55 GLGAWSINGIQRR 67
GLG W I+ +QRR
Sbjct: 289 GLGRWLIDALQRR 301
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 0.133 0.393
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,307,336
Number of extensions: 223225
Number of successful extensions: 163
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 15
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
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 (21.9 bits)
S2: 53 (24.2 bits)