RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14606
(145 letters)
>gnl|CDD|201356 pfam00628, PHD, PHD-finger. PHD folds into an interleaved type
of Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 51
Score = 44.0 bits (104), Expect = 4e-07
Identities = 24/51 (47%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 14 YCEVCQQ---GGEIILCDTCPRAYHLCCLDPELDET--PEGKWSCPRCVSD 59
YC VC + GE++LCD C R +HL CL P L+ PEG+W CP C
Sbjct: 1 YCAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECKPK 51
Score = 34.0 bits (78), Expect = 0.002
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 79 CAKCKS--PGDQFLLCETCNGSYHPHCL-PDPIEGELPTSGWKCPKCSC 124
CA C + LLC+ C+ +H CL P E+P W CP+C
Sbjct: 2 CAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECKP 50
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet
known if PHD fingers have a common molecular function.
Several reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is
a ubiquitin ligase have been refuted as these domains
were RING fingers misidentified as PHD fingers.
Length = 47
Score = 41.0 bits (96), Expect = 5e-06
Identities = 24/47 (51%), Positives = 30/47 (63%), Gaps = 4/47 (8%)
Query: 14 YCEVCQQ---GGEIILCDTCPRAYHL-CCLDPELDETPEGKWSCPRC 56
YC VC + GGE++ CD C R YH C P L+E P+GKW CP+C
Sbjct: 1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47
Score = 38.7 bits (90), Expect = 4e-05
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 79 CAKCKSP--GDQFLLCETCNGSYHPHCLPDPIEGELPTSGWKCPKC 122
C+ C P G + L C+ C+ YH CL P+ E P W CPKC
Sbjct: 2 CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47
>gnl|CDD|240069 cd04718, BAH_plant_2, BAH, or Bromo Adjacent Homology domain,
plant-specific sub-family with unknown function. BAH
domains are found in a variety of proteins playing
roles in transcriptional silencing and the remodeling
of chromatin. It is assumed that in most or all of
these instances the BAH domain mediates protein-protein
interactions.
Length = 148
Score = 41.0 bits (96), Expect = 4e-05
Identities = 17/35 (48%), Positives = 21/35 (60%)
Query: 34 YHLCCLDPELDETPEGKWSCPRCVSDGPPETASPP 68
+HLCCL P L E PEG W CP C + ++A P
Sbjct: 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQ 36
>gnl|CDD|227367 COG5034, TNG2, Chromatin remodeling protein, contains PhD zinc
finger [Chromatin structure and dynamics].
Length = 271
Score = 36.5 bits (84), Expect = 0.003
Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 8/48 (16%)
Query: 14 YCEVCQQG--GEIILCDT--CPRA-YHLCCLDPELDETPEGKWSCPRC 56
YC CQQ G+++ CD C R +HL C+ L E P+GKW CP C
Sbjct: 223 YC-FCQQVSYGQMVACDNANCKREWFHLECVG--LKEPPKGKWYCPEC 267
>gnl|CDD|213032 cd11672, ADDz, ADDz for ATRX, Dnmt3 and Dnmt3l PHD-like zinc finger
domain. The ADDz zinc finger domain is present in the
chromatin-associated proteins
cytosine-5-methyltransferase 3 (Dnmt3) and ATRX, a SNF2
type transcription factor protein. The Dnmt3 family
includes two active DNA methyltransferases, Dnmt3a and
-3b, and one regulatory factor Dnmt3l. DNA methylation
is an important epigenetic mechanism involved in diverse
biological processes such as embryonic development, gene
expression, and genomic imprinting. The ADDz domain is a
PHD-like zinc finger motif that contains two parts, a
C2-C2 and a PHD-like zinc finger. PHD zinc finger
domains have been identified in more than 40 proteins
that are mainly involved in chromatin mediated
transcriptional control; the classical PHD zinc finger
has a C4-H-C3 motif that spans about 50-80 amino acids.
In ADDz, the conserved histidine residue of the PHD
finger is replaced by a cysteine, and an additional zinc
finger C2-C2 like motif is located about twenty residues
upstream of the C4-C-C3 motif.
Length = 120
Score = 33.4 bits (77), Expect = 0.014
Identities = 22/58 (37%), Positives = 27/58 (46%), Gaps = 8/58 (13%)
Query: 12 QDYCEVCQQGGEIILCDT--CPRAYHLCCLDPELDET------PEGKWSCPRCVSDGP 61
Q YC +C GGE+ILCD C R Y CLD + E WSC C+ +
Sbjct: 47 QSYCTICCGGGEVILCDNESCCRVYCTACLDFLVGPGTYDKVLDEDPWSCYLCLPESK 104
>gnl|CDD|213033 cd11725, ADDz_Dnmt3, ADDz domain of DNA (cytosine-5)
methyltransferases (C5-MTases) 3 (Dnmt3). Dnmt3 is a de
novo DNA methyltransferase family that includes two
active enzymes Dnmt3a and -3b and one regulatory factor
Dnmt3l. The ADDz domain of Dnmt3 is located in the
C-terminal region of Dnmt3, which is an active catalytic
domain in Dnmt3a and -b, but lacks some residues for
enzymatic activity in Dnmt3l. DNA methylation is an
important epigenetic mechanism involved in diverse
biological processes such as embryonic development, gene
expression, and genomic imprinting. The ADDz_Dnmt3
domain is a PHD-like zinc finger motif that contains two
parts, a C2-C2 and a PHD-like zinc finger. PHD zinc
finger domains have been identified in more than 40
proteins that are mainly involved in chromatin mediated
transcriptional control; the classical PHD zinc finger
has a C4-H-C3 motif that spans about 50-80 amino acids.
In ADDz, the conserved histidine residue of the PHD
finger is replaced by a cysteine, and an additional zinc
finger C2-C2 like motif is located about twenty residues
upstream of the C4-C-C3 motif.
Length = 126
Score = 32.2 bits (74), Expect = 0.034
Identities = 22/59 (37%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 12 QDYCEVCQQGGEIILCDT--CPRAYHLCCLDPELDET------PEGKWSCPRCVSDGPP 62
Q YC +C GGE+ILCD C R Y CLD + E WSC C+ +
Sbjct: 47 QSYCTICCGGGEVILCDNESCCRVYCTACLDILVGPGTYDKVLLEDPWSCYLCLPESKQ 105
>gnl|CDD|227470 COG5141, COG5141, PHD zinc finger-containing protein [General
function prediction only].
Length = 669
Score = 32.6 bits (74), Expect = 0.052
Identities = 29/123 (23%), Positives = 42/123 (34%), Gaps = 33/123 (26%)
Query: 18 CQQGGEIILCDTCPRAYHLCCLDPELDETPEGKWSCPRCVSDGPPETASPPAEEVKEKEV 77
+ I+ CD C H C + PEG W C +C+ G +
Sbjct: 204 NENSNAIVFCDGCEICVHQSCYG--IQFLPEGFWLCRKCIY-GEYQIRC----------- 249
Query: 78 LCAKCKSPGDQFLLCETCNGSY-HPHC---LP----------DPIEG--ELPTSGWKCPK 121
C+ C S F +T +G + H C P DPI+ + +S WK
Sbjct: 250 -CSFCPSSDGAF--KQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGC 306
Query: 122 CSC 124
C
Sbjct: 307 LIC 309
>gnl|CDD|213034 cd11726, ADDz_ATRX, ADDz domain of ATRX (alpha-thalassemia/mental
retardation, X-linked). ADDz_ATRX is a PHD-like zinc
finger domain of ATRX, which belongs to the SNF2 family
of chromatin remodeling proteins. ATRX is a large
chromatin-associated nuclear protein with two domains,
ADDz_ATRX at the N-terminus, followed by a C-terminal
ATPase/helicase domain. The ADDz_ATRX domain recognizes
a specific methylated histone, and this interaction is
required for heterochromatin localization of the ATRX
protein. Missense mutations in either of the two ATRX
domains lead to the X-linked alpha-thalassemia and
mental retardation syndrome; however the mutations in
the ADDz_ATRX domain produce a more severe disease
phenotype that may also relate to disturbing unknown
functions or interaction sites of this domain. The ADDz
domain is also present in chromatin-associated proteins
cytosine-5-methyltransferase 3 (Dnmt3); it is a PHD-like
zinc finger motif that contains two parts, a C2-C2 and a
PHD-like zinc finger. PHD zinc finger domains have been
identified in more than 40 proteins that are mainly
involved in chromatin mediated transcriptional control;
the classical PHD zinc finger has a C4-H-C3 motif that
spans about 50-80 amino acids. In ADDz, the conserved
histidine residue of the PHD finger is replaced by a
cysteine, and an additional zinc finger C2-C2 like motif
is located about twenty residues upstream of the C4-C-C3
motif.
Length = 127
Score = 31.1 bits (71), Expect = 0.086
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 14 YCEVCQQGGEIILCDTCPRAYHLCC----LDPEL--DETPEGKWSCPRC 56
YC C +GGE+I CD+CP A+ C L E + E KW C C
Sbjct: 58 YCRWCGEGGELICCDSCPNAFCKKCIKRNLGREELSEIEDEDKWKCFVC 106
>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2
finger. Apc11 is one of the subunits of the
anaphase-promoting complex or cyclosome. The APC
subunits are cullin family proteins with ubiquitin
ligase activity. Polyubiquitination marks proteins for
degradation by the 26S proteasome and is carried out by
a cascade of enzymes that includes ubiquitin-activating
enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and
ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and
is responsible for recruiting E2s to the APC and for
mediating the subsequent transfer of ubiquitin to APC
substrates in vivo. In Saccharomyces cerevisiae this
RING-H2 finger protein defines the minimal ubiquitin
ligase activity of the APC, and the integrity of the
RING-H2 finger is essential for budding yeast cell
viability.
Length = 85
Score = 28.6 bits (64), Expect = 0.48
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 79 CAKCKSPGDQF-LLCETCNGSYHPHCLPDPIEGELPTSGWKCPKC 122
C +CK PGD L+ C ++H HC+ + E TS CP C
Sbjct: 35 CPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATE--TSKGLCPMC 77
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 29.6 bits (67), Expect = 0.68
Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 14/71 (19%)
Query: 48 EGKWSCPRCVSDGP--PETASPPAEEVKEKEVLCAKCKSPGDQFLLCETCNGSYHPHCLP 105
++ CVS P+ V+ C + GDQ CE C + P L
Sbjct: 121 LREYEGLYCVSCERFLPDR------YVEGTCPKCGGEDARGDQ---CENCGRTLDPTELI 171
Query: 106 DP---IEGELP 113
+P I G P
Sbjct: 172 NPVCVISGATP 182
>gnl|CDD|237844 PRK14873, PRK14873, primosome assembly protein PriA; Provisional.
Length = 665
Score = 28.7 bits (65), Expect = 1.1
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 17/57 (29%)
Query: 79 CAKCKSPGDQFLLCETCNGSYHPHCLPDPIEGELPT--------SGWKCPKCSCPPL 127
CA+C++P C C G P LP G P W+CP+C L
Sbjct: 386 CARCRTPAR----CRHCTG---PLGLPSA--GGTPRCRWCGRAAPDWRCPRCGSDRL 433
>gnl|CDD|240236 PTZ00037, PTZ00037, DnaJ_C chaperone protein; Provisional.
Length = 421
Score = 28.6 bits (64), Expect = 1.2
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 75 KEVLCAKCKS---PGDQFLLCETCNG 97
K+V+CA C+ P D F+ C+ CNG
Sbjct: 149 KDVICANCEGHGGPKDAFVDCKLCNG 174
>gnl|CDD|213036 cd11728, ADDz_Dnmt3b, ADDz domain of DNA (cytosine-5)
methyltransferases (C5-MTases) 3 b (Dnmt3b).
ADDz_Dnmt3b is an active catalytic domain of Dnmt3b.
Dnmt3b is a member of the Dnmt3 family and is a de novo
DNA methyltransferases that has an N-terminal variable
region followed by a conserved PWWP region and the
cysteine-rich ADDz domain. DNA methylation is an
important epigenetic mechanism involved in diverse
biological processes such as embryonic development,
gene expression, and genomic imprinting. The
methyltransferase activity of Dnmt3a is not only
responsible for the establishment of DNA methylation
pattern, but is also essential for the inheritance of
these patterns during mitosis. Dnmt3b is ubiquitously
expressed in most adult tissues. The ADDz_Dnmt3 domain
is a PHD-like zinc finger motif that contains two
parts, a C2-C2 and a PHD-like zinc finger. PHD zinc
finger domains have been identified in more than 40
proteins that are mainly involved in chromatin mediated
transcriptional control; the classical PHD zinc finger
has a C4-H-C3 motif that spans about 50-80 amino acids.
In ADDz, the conserved histidine residue of the PHD
finger is replaced by a cysteine, and an additional
zinc finger C2-C2 like motif is located about twenty
residues upstream of the C4-C-C3 motif. A knockout of
Dnmt3b has been shown to be lethal in the mouse model.
Length = 150
Score = 28.2 bits (63), Expect = 1.2
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 11 HQDYCEVCQQGGEIILCD--TCPRAYHLCCLD 40
+Q YC VC +G E++LC +C R + + CLD
Sbjct: 59 YQSYCTVCCEGRELLLCSNASCCRCFCVECLD 90
>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated.
Length = 822
Score = 28.0 bits (63), Expect = 1.9
Identities = 24/85 (28%), Positives = 34/85 (40%), Gaps = 26/85 (30%)
Query: 53 CPRCVSDGPPETASPPAEEVKEKEVL--CAKC-------KSPGDQFLLCETCNGSYHPHC 103
CP C ++ EE EV+ C KC + FL C + +P C
Sbjct: 672 CPDCEAE---------KEEEDPDEVIGPCPKCGGELAIKQLKYGSFLGC-----TNYPKC 717
Query: 104 ---LPDPIEGELPTSGWKCPKCSCP 125
LP P G++ + KCP+C P
Sbjct: 718 KYTLPLPRRGKITVTDEKCPECGLP 742
>gnl|CDD|223982 COG1054, COG1054, Predicted sulfurtransferase [General function
prediction only].
Length = 308
Score = 27.6 bits (62), Expect = 2.1
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 77 VLCAKCKSPG--DQFLLCETCNGSYHPHC 103
C C++P F+ CE C G Y C
Sbjct: 244 TPCDNCRNPLCNLLFISCEYCEGKYCGCC 272
>gnl|CDD|224032 COG1107, COG1107, Archaea-specific RecJ-like exonuclease,
contains DnaJ-type Zn finger domain [DNA replication,
recombination, and repair].
Length = 715
Score = 27.4 bits (61), Expect = 3.0
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 6 DLQTEHQDYCEVCQQGGEIILCDTCPR 32
DL + C C+ G + + DTCP
Sbjct: 47 DLFASFEIPCPKCRGKGTVTVYDTCPE 73
>gnl|CDD|151199 pfam10706, Aminoglyc_resit, Aminoglycoside-2''-adenylyltransferase.
This family is conserved in Bacteria. It confers
resistance to kanamycin, gentamicin, and tobramycin. The
protein is also produced by plasmids in various
bacterial species and confers resistance to essentially
all clinically available aminoglycosides except
streptomycin, and it eliminates the synergism between
aminoglycosides and cell-wall active agents.
Length = 174
Score = 26.8 bits (59), Expect = 3.6
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 9 TEHQDYCEVCQQGGEIILCDTCPRAYHLCCLDPELDETPEGKWSCP 54
TE DY + Q G ++ C+ R E++ P G SCP
Sbjct: 69 TEQTDYGFLAQSQGILLDCEPAVRIDD----AYEIEGLPPG--SCP 108
>gnl|CDD|184611 PRK14297, PRK14297, chaperone protein DnaJ; Provisional.
Length = 380
Score = 26.7 bits (59), Expect = 4.6
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 19/51 (37%)
Query: 74 EKEVLCAKCKSPGDQFLLCETCNGSYHPHCLPDPIEGELP-TSGWKCPKCS 123
EKE+ + ++ CETCNG+ G P TS C KC
Sbjct: 140 EKEISVTRNEN-------CETCNGT-----------GAKPGTSPKTCDKCG 172
>gnl|CDD|237798 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
Length = 1337
Score = 27.0 bits (60), Expect = 4.8
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 12/54 (22%)
Query: 34 YHLCCLDPELDETPEGKWSCPRCVSDGPPETASPPAEEVKEKEVLCAKCKSPGD 87
+ C P+ E + CP C ++ PP+ + V C +C
Sbjct: 679 ENRC---PDCGTHTEPVYVCPDCGAEVPPDES---------GRVECPRCDVELT 720
>gnl|CDD|184604 PRK14283, PRK14283, chaperone protein DnaJ; Provisional.
Length = 378
Score = 26.7 bits (59), Expect = 5.1
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 63 ETASPPAEEVK-EKEVLCAKCK----SPGDQFLLCETCNGSYHPHCLPDPIEGELPTSGW 117
E AS +++K C C PG + C TC G+ + + I G++
Sbjct: 132 EAASGVEKDIKVRHTKKCPVCNGSRAEPGSEVKTCPTCGGTGQVKQVRNTILGQMMNVT- 190
Query: 118 KCPKC 122
CP C
Sbjct: 191 TCPDC 195
>gnl|CDD|222368 pfam13771, zf-HC5HC2H, PHD-like zinc-binding domain. The members
of this family are annotated as containing PHD domain,
but the zinc-binding region here is not typical of PHD
domains. The conformation here is a well-conserved
cysteine-histidine rich region spanning 90 residues,
where the Cys and His are arranged as
HxxC(31)CxxC(6)CxxCxxxxCxxxxHxxC (21)CxxH.
Length = 89
Score = 25.4 bits (56), Expect = 6.2
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 15 CEVCQQGGEIILCD--TCPRAYHLCC 38
C +C++ G I C C RA+H+ C
Sbjct: 39 CSLCKKKGACIGCCVKNCRRAFHVTC 64
>gnl|CDD|216754 pfam01873, eIF-5_eIF-2B, Domain found in IF2B/IF5. This family
includes the N terminus of eIF-5, and the C terminus of
eIF-2 beta. This region corresponds to the whole of the
archaebacterial eIF-2 beta homologue. The region
contains a putative zinc binding C4 finger.
Length = 125
Score = 25.7 bits (57), Expect = 7.6
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 9/35 (25%)
Query: 75 KEVLCAKCKSPGDQ--------FLLCETCNGSYHP 101
+ VLC +CKSP + FL C+ C G+ P
Sbjct: 92 EYVLCHECKSPDTELIKENRLIFLKCKAC-GARRP 125
>gnl|CDD|213035 cd11727, ADDz_Dnmt3l, ADDz domain of DNA (cytosine-5)
methyltransferases (C5-MTases) 3 like (Dnmt3l). Dnmt3l
is a regulator of DNA methylation, which acts by
recognizing unmethylated histone H3 tails and
interacting with Dnmt3a to stimulate its de novo DNA
methylation activity. The ADDz_Dnmt3l domain is located
in the C-terminal region of Dnmt3l that otherwise lacks
some residues required for DNA methyltransferase
activity. DNA methylation is an important epigenetic
mechanism involved in diverse biological processes such
as embryonic development, gene expression, and genomic
imprinting. Dnmt3l is also associating with HDAC1 and
acts as a transcriptional repressor. The ADDz_Dnmt3l
domain is a PHD-like zinc finger motif that contains
two parts, a C2-C2 and a PHD-like zinc finger. PHD zinc
finger domains have been identified in more than 40
proteins that are mainly involved in chromatin mediated
transcriptional control; the classical PHD zinc finger
has a C4-H-C3 motif that spans about 50-80 amino acids.
In ADDz, the conserved histidine residue of the PHD
finger is replaced by a cysteine, and an additional
zinc finger C2-C2 like motif is located about twenty
residues upstream of the C4-C-C3 motif.
Length = 149
Score = 25.5 bits (56), Expect = 8.0
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 11 HQDYCEVCQQGGEIILCDT--CPRAYHLCCLD 40
+Q YC +C G +++C+ C R Y C+D
Sbjct: 59 YQSYCSICCSGETLLICENPDCTRCYCFECVD 90
>gnl|CDD|234622 PRK00085, recO, DNA repair protein RecO; Reviewed.
Length = 247
Score = 26.0 bits (58), Expect = 8.6
Identities = 12/37 (32%), Positives = 14/37 (37%), Gaps = 8/37 (21%)
Query: 79 CAKCKSPGDQF--------LLCETCNGSYHPHCLPDP 107
CA C +PGD +C C Y LP P
Sbjct: 152 CAVCGAPGDHRYFSPKEGGAVCSECGDPYAIKLLPLP 188
>gnl|CDD|219083 pfam06548, Kinesin-related, Kinesin-related. This family
represents a region within kinesin-related proteins
from higher plants. Many family members also contain
the pfam00225 domain. Kinesins are ATP-driven
microtubule motor proteins that produce directed force.
Some family members are associated with the
phragmoplast, a structure composed mainly of
microtubules that executes cytokinesis in higher
plants.
Length = 488
Score = 26.0 bits (57), Expect = 8.8
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 65 ASPPAEEVKEKEVLCAKCKSPGDQ 88
SP E +E +LC+ CK D
Sbjct: 55 TSPEESEARESTLLCSSCKKKEDT 78
>gnl|CDD|111791 pfam02942, Flu_B_NS1, Influenza B non-structural protein (NS1). A
specific region of the influenza B virus NS1 protein,
which includes part of its effector domain, blocks the
covalent linkage of ISG15 to its target proteins both in
vitro and in infected cells. Of the several hundred
proteins induced by interferon (IFN) alpha/beta, the
ubiquitin-like ISG15 protein is one of the most
predominant. Influenza A virus employs a different
strategy: its NS1 protein does not bind the ISG15
protein, but little or no ISG15 protein is produced
during infection.
Length = 247
Score = 25.8 bits (56), Expect = 9.1
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 4/35 (11%)
Query: 99 YHPHCLPDPIEGELPTSGWKCPKCSCPPLPGKLED 133
+ P+C+ +P P W PP PGK D
Sbjct: 100 FEPYCVKNPSNSNCPNCDW----ADYPPTPGKYLD 130
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
0.319 0.139 0.484
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,209,458
Number of extensions: 599701
Number of successful extensions: 674
Number of sequences better than 10.0: 1
Number of HSP's gapped: 664
Number of HSP's successfully gapped: 62
Length of query: 145
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 57
Effective length of database: 7,034,450
Effective search space: 400963650
Effective search space used: 400963650
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 (21.7 bits)
S2: 54 (24.6 bits)