RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13137
(164 letters)
>gnl|CDD|202161 pfam02214, K_tetra, K+ channel tetramerisation domain. The
N-terminal, cytoplasmic tetramerisation domain (T1) of
voltage-gated K+ channels encodes molecular determinants
for subfamily-specific assembly of alpha-subunits into
functional tetrameric channels. It is distantly related
to the BTB/POZ domain pfam00651.
Length = 92
Score = 106 bits (266), Expect = 1e-30
Identities = 39/82 (47%), Positives = 47/82 (57%), Gaps = 4/82 (4%)
Query: 62 VVLNVGGIRHETYKATLKKIPATRLSRLTEALGNYDPVLNEYFFDRHPGVFAQVLNYYRV 121
V LNVGG R ET K+TL + P T L RL + YD NEYFFDR P F +LN+YR
Sbjct: 1 VRLNVGGKRFETSKSTLTRFPDTLLGRLLKRCDFYDDDTNEYFFDRSPKHFETILNFYRT 60
Query: 122 F-RLPLGFKPWTVCMASYTSEL 142
+L P VC+ S+ EL
Sbjct: 61 GGKLHR---PEEVCLDSFLEEL 79
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac. Domain
in Broad-Complex, Tramtrack and Bric a brac. Also known
as POZ (poxvirus and zinc finger) domain. Known to be a
protein-protein interaction motif found at the N-termini
of several C2H2-type transcription factors as well as
Shaw-type potassium channels. Known structure reveals a
tightly intertwined dimer formed via interactions
between N-terminal strand and helix structures. However
in a subset of BTB/POZ domains, these two secondary
structures appear to be missing. Be aware SMART predicts
BTB/POZ domains without the beta1- and alpha1-secondary
structures.
Length = 97
Score = 51.9 bits (125), Expect = 1e-09
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 1/59 (1%)
Query: 62 VVLNVGGIRHETYKATLKKIPATRLSRLTEALGNYDPVLNEYFFDRHPGVFAQVLNYYR 120
V L VGG + +KA L + + Y D P F +LN+
Sbjct: 2 VTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFK-ESDKSEIYLDDVSPEDFRALLNFLY 59
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 37.0 bits (86), Expect = 0.002
Identities = 16/22 (72%), Positives = 20/22 (90%)
Query: 140 SELLKKKKKKKKKKKKKKKKKD 161
SE++K KK KKKKKKKKK++KD
Sbjct: 270 SEMVKFKKPKKKKKKKKKRRKD 291
Score = 34.3 bits (79), Expect = 0.021
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
KK KKKKKKKKK++K D
Sbjct: 275 FKKPKKKKKKKKKRRKDLD 293
Score = 34.3 bits (79), Expect = 0.023
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 138 YTSELLKKKKKKKKKKKKKKKKKD 161
Y + K KK KKKKKKKKK++
Sbjct: 267 YDVSEMVKFKKPKKKKKKKKKRRK 290
Score = 31.7 bits (72), Expect = 0.18
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 138 YTSELLKKKKKKKKKKKKKKKKK 160
Y K KK KKKKKKKKK+
Sbjct: 266 YYDVSEMVKFKKPKKKKKKKKKR 288
Score = 30.9 bits (70), Expect = 0.31
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 135 MASYTSELLKKKKKKKKKKKKKKKKK 160
AS ++ + K KK KKKKKKKKK
Sbjct: 262 PASDYYDVSEMVKFKKPKKKKKKKKK 287
Score = 30.5 bits (69), Expect = 0.36
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K KKKKKKKKK++K +
Sbjct: 277 KPKKKKKKKKKRRKDLDE 294
Score = 28.2 bits (63), Expect = 2.1
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKKKK++K +D
Sbjct: 278 PKKKKKKKKKRRKDLDED 295
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 33.8 bits (78), Expect = 0.028
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+KK+K+K+K K KK+ +D
Sbjct: 401 EKKEKEKEKPKVKKRHRD 418
Score = 33.4 bits (77), Expect = 0.036
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 143 LKKKKKKKKKKKKKKKKKDCH 163
L K+ +KK+K+K+K K K H
Sbjct: 396 LAKRAEKKEKEKEKPKVKKRH 416
Score = 32.2 bits (74), Expect = 0.094
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
L K+ +KK+K+K+K K KK
Sbjct: 395 VLAKRAEKKEKEKEKPKVKKR 415
Score = 31.1 bits (71), Expect = 0.20
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K+K+K+K K KK+ +
Sbjct: 403 KEKEKEKPKVKKRHRDT 419
Score = 31.1 bits (71), Expect = 0.20
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K+K+K K KK+ + K
Sbjct: 405 KEKEKPKVKKRHRDTKN 421
Score = 31.1 bits (71), Expect = 0.22
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K+K+K K KK+ + K
Sbjct: 404 EKEKEKPKVKKRHRDTK 420
Score = 29.9 bits (68), Expect = 0.60
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
S+ + K+ +KK+K+K+K K
Sbjct: 392 SKKVLAKRAEKKEKEKEKPKV 412
Score = 29.5 bits (67), Expect = 0.83
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K+K K KK+ + K
Sbjct: 406 EKEKPKVKKRHRDTKNI 422
Score = 29.1 bits (66), Expect = 1.0
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K K KK+ + K K
Sbjct: 408 EKPKVKKRHRDTKNIGK 424
Score = 28.8 bits (65), Expect = 1.2
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K+K K KK+ + K
Sbjct: 407 KEKPKVKKRHRDTKNIG 423
Score = 28.4 bits (64), Expect = 2.1
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K K KK+ + K K+
Sbjct: 409 KPKVKKRHRDTKNIGKR 425
Score = 27.6 bits (62), Expect = 3.0
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K KK+ + K K++K
Sbjct: 411 KVKKRHRDTKNIGKRRK 427
Score = 26.8 bits (60), Expect = 6.1
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K KK+ + K K++
Sbjct: 410 PKVKKRHRDTKNIGKRR 426
Score = 26.4 bits (59), Expect = 8.3
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
SE K KK K+ +KK+
Sbjct: 384 SEKKTGKPSKKVLAKRAEKKE 404
Score = 26.4 bits (59), Expect = 8.6
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KK K+ +KK+K+K+
Sbjct: 391 PSKKVLAKRAEKKEKEKE 408
Score = 26.4 bits (59), Expect = 8.6
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KK+ + K K++K
Sbjct: 413 KKRHRDTKNIGKRRKPS 429
Score = 26.1 bits (58), Expect = 9.8
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KK+ + K K++K
Sbjct: 412 VKKRHRDTKNIGKRRKP 428
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 32.5 bits (74), Expect = 0.036
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKK KK KK KK KKD
Sbjct: 103 KKKKSKKTKKPKKSSKKD 120
Score = 31.0 bits (70), Expect = 0.099
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 140 SELLKKKKKKKKKKKKKKKKKD 161
+E KKKKKK KK KK KK
Sbjct: 97 TEKPKKKKKKSKKTKKPKKSSK 118
Score = 30.2 bits (68), Expect = 0.21
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 138 YTSELLKKKKKKKKKKKKKKKKK 160
+ E +K KKKKKK KK KK K
Sbjct: 92 HPPEPTEKPKKKKKKSKKTKKPK 114
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 30.9 bits (70), Expect = 0.088
Identities = 14/18 (77%), Positives = 14/18 (77%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
LK KK KKKKKKKKKK
Sbjct: 12 LKGKKIDVKKKKKKKKKK 29
Score = 29.7 bits (67), Expect = 0.24
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
+ KKKKKKKKKK K K++
Sbjct: 17 IDVKKKKKKKKKKNKSKEE 35
Score = 28.9 bits (65), Expect = 0.36
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
+ KKKKKKKKKK K K++
Sbjct: 17 IDVKKKKKKKKKKNKSKEEV 36
Score = 28.5 bits (64), Expect = 0.54
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKKKKK K K++
Sbjct: 20 KKKKKKKKKKNKSKEEVV 37
Score = 28.5 bits (64), Expect = 0.60
Identities = 13/19 (68%), Positives = 13/19 (68%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
LK K KK KKKKKKKK
Sbjct: 10 LKLKGKKIDVKKKKKKKKK 28
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 31.9 bits (73), Expect = 0.14
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K+KKKKK+KKK KK+KK
Sbjct: 394 KRKKKKKRKKKGKKRKKK 411
Score = 31.1 bits (71), Expect = 0.22
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKK+KKK KK+KKK
Sbjct: 396 KKKKKRKKKGKKRKKKGR 413
Score = 31.1 bits (71), Expect = 0.23
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+KKKKK+KKK KK+KKK
Sbjct: 395 RKKKKKRKKKGKKRKKKG 412
Score = 30.7 bits (70), Expect = 0.35
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K+KKKKK+KKK KK+K
Sbjct: 393 QKRKKKKKRKKKGKKRK 409
Score = 30.3 bits (69), Expect = 0.36
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KKK+KKK KK+KKK +K
Sbjct: 398 KKKRKKKGKKRKKKGRK 414
Score = 30.3 bits (69), Expect = 0.44
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KK +K+KKKKK+KKK K
Sbjct: 390 KKPQKRKKKKKRKKKGK 406
Score = 30.3 bits (69), Expect = 0.46
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K +K+KKKKK+KKK KK
Sbjct: 391 KPQKRKKKKKRKKKGKK 407
Score = 29.9 bits (68), Expect = 0.61
Identities = 11/17 (64%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KKK+++KK +K+KKKKK
Sbjct: 384 KKKREEKKPQKRKKKKK 400
Score = 29.6 bits (67), Expect = 0.80
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K+KKKKK+KKK KK+
Sbjct: 392 PQKRKKKKKRKKKGKKR 408
Score = 29.2 bits (66), Expect = 0.97
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+KK +K+KKKKK+KKK
Sbjct: 389 EKKPQKRKKKKKRKKKG 405
Score = 29.2 bits (66), Expect = 1.1
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KK+++KK +K+KKKKK+
Sbjct: 385 KKREEKKPQKRKKKKKRK 402
Score = 29.2 bits (66), Expect = 1.1
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKK+++KK +K+KKKK
Sbjct: 383 PKKKREEKKPQKRKKKKK 400
Score = 29.2 bits (66), Expect = 1.2
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K+++KK +K+KKKKK+K
Sbjct: 386 KREEKKPQKRKKKKKRKK 403
Score = 28.8 bits (65), Expect = 1.3
Identities = 11/17 (64%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
++KK +K+KKKKK+KKK
Sbjct: 388 EEKKPQKRKKKKKRKKK 404
Score = 26.1 bits (58), Expect = 9.6
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K KKK+++KK +K+KK
Sbjct: 381 KPPKKKREEKKPQKRKKK 398
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 30.7 bits (70), Expect = 0.29
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 10/38 (26%)
Query: 122 FRLPLGFKPWTVCMASYTSELLKKKKKKKKKKKKKKKK 159
F L KPW + S+L ++ K KKK KKK
Sbjct: 776 FHL----KPW------HRSKLRSSQRDKLKKKLLKKKD 803
Score = 28.4 bits (64), Expect = 2.2
Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 104 FFDRHPGVFAQVLNYYRVFRLPLGFKPWTVCMAS-YTSELLKKKKKKKKKKKKKKKKKD 161
F DR + + ++ F+ W + ++K KK++KK+K K+++
Sbjct: 619 FLDRIEKTLFFSFDISELMKIKQIFRNWIEKKKEFKILDYTEEKTKKEEKKEKNKREEK 677
>gnl|CDD|176075 cd08693, C2_PI3K_class_I_beta_delta, C2 domain present in class I
beta and delta phosphatidylinositol 3-kinases (PI3Ks).
PI3Ks (AKA phosphatidylinositol (PtdIns) 3-kinases)
regulate cell processes such as cell growth,
differentiation, proliferation, and motility. PI3Ks
work on phosphorylation of phosphatidylinositol,
phosphatidylinositide (4)P (PtdIns (4)P),2 or
PtdIns(4,5)P2. Specifically they phosphorylate the D3
hydroxyl group of phosphoinositol lipids on the inositol
ring. There are 3 classes of PI3Ks based on structure,
regulation, and specificity. All classes contain a C2
domain, a PIK domain, and a kinase catalytic domain.
The members here are class I, beta and delta isoforms of
PI3Ks and contain both a Ras-binding domain and a
p85-binding domain. Class II PI3Ks contain both of
these as well as a PX domain, and a C-terminal C2 domain
containing a nuclear localization signal. C2 domains
fold into an 8-standed beta-sandwich that can adopt 2
structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members have a type-I
topology.
Length = 173
Score = 30.0 bits (68), Expect = 0.37
Identities = 32/110 (29%), Positives = 44/110 (40%), Gaps = 24/110 (21%)
Query: 53 LNMMDAENRVVLNVGGIRHETYKATLKKIPATRLSRLTEALGNYDPVLNE-YFFDRHPGV 111
LN + +V + G + H + + T + E G DPV NE FD
Sbjct: 20 LNAAERTMKVGVQAG-LFHGG-----ESLCKTVKTS--EVSGKNDPVWNETLEFD----- 66
Query: 112 FAQVLNYYRVFRLPLGFKPWTVCMASYTSELLKKKKKKKKKKKKKKKKKD 161
V + R+ RL C A Y K K+ +K + KKKKKKD
Sbjct: 67 -INVCDLPRMARL---------CFAIYEVSKKAKGKRSRKNQTKKKKKKD 106
>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2
complex component). RNases H are enzymes that
specifically hydrolyse RNA when annealed to a
complementary DNA and are present in all living
organisms. In yeast RNase H2 is composed of a complex of
three proteins (Rnh2Ap, Ydr279p and Ylr154p), this
family represents the homologues of Ydr279p. It is not
known whether non yeast proteins in this family fulfil
the same function.
Length = 287
Score = 30.4 bits (69), Expect = 0.41
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 139 TSELLKKKKKKKKKKKKKKKKKD 161
+ E +KKKK K+ K K KK
Sbjct: 254 SKEEIKKKKPKESKGVKALKKVV 276
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 29.8 bits (67), Expect = 0.43
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKK + K++KKKKK+
Sbjct: 144 HKKKKHEDDKERKKKKKE 161
Score = 29.0 bits (65), Expect = 0.74
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K++KKKKK+KKKKKK+
Sbjct: 153 KERKKKKKEKKKKKKRH 169
Score = 29.0 bits (65), Expect = 0.80
Identities = 16/27 (59%), Positives = 17/27 (62%), Gaps = 7/27 (25%)
Query: 144 KKKKKK-------KKKKKKKKKKKDCH 163
K KKKK KKKKK+KKKKK H
Sbjct: 143 KHKKKKHEDDKERKKKKKEKKKKKKRH 169
Score = 27.1 bits (60), Expect = 3.7
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+KKKKK+KKKKKK+ +
Sbjct: 155 RKKKKKEKKKKKKRHSPE 172
Score = 27.1 bits (60), Expect = 4.2
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKK+KKKKKK+ +
Sbjct: 156 KKKKKEKKKKKKRHSPEH 173
>gnl|CDD|225769 COG3228, COG3228, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 266
Score = 30.1 bits (68), Expect = 0.49
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 7/30 (23%)
Query: 99 VLNEYFF-------DRHPGVFAQVLNYYRV 121
VL+EYFF +R P ++ ++ +Y+
Sbjct: 220 VLSEYFFSAPELLQERFPALYQRLQKFYQQ 249
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 29.2 bits (66), Expect = 0.51
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
KK+ K++KKK+KKKKKK
Sbjct: 84 AKKRAKRQKKKQKKKKKKK 102
Score = 29.2 bits (66), Expect = 0.55
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
K++KKK+KKKKKKK KK
Sbjct: 88 AKRQKKKQKKKKKKKAKK 105
Score = 29.2 bits (66), Expect = 0.63
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
KKK+KKKKKKK KK K
Sbjct: 91 QKKKQKKKKKKKAKKGNK 108
Score = 27.3 bits (61), Expect = 2.2
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KK+KKKKKKK KK KK+
Sbjct: 93 KKQKKKKKKKAKKGNKKE 110
Score = 27.3 bits (61), Expect = 2.5
Identities = 12/16 (75%), Positives = 14/16 (87%)
Query: 146 KKKKKKKKKKKKKKKD 161
KKK+KKKKKKK KK +
Sbjct: 92 KKKQKKKKKKKAKKGN 107
Score = 25.8 bits (57), Expect = 9.9
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 143 LKKKKKKKKKKKKKKKK 159
K+KKKKKKK KK KK
Sbjct: 93 KKQKKKKKKKAKKGNKK 109
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 29.4 bits (67), Expect = 0.60
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
K +KK +K K K +KKK
Sbjct: 71 WEKAEKKAEKAKAKAEKKK 89
Score = 29.0 bits (66), Expect = 0.74
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+KK +K K K +KKK K
Sbjct: 75 EKKAEKAKAKAEKKKAKK 92
Score = 28.6 bits (65), Expect = 1.1
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
KK +K K K +KKK KK+
Sbjct: 75 EKKAEKAKAKAEKKKAKKE 93
Score = 28.3 bits (64), Expect = 1.4
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
+ LK +K +KK +K K K +
Sbjct: 66 KELKAWEKAEKKAEKAKAKAE 86
Score = 27.1 bits (61), Expect = 2.8
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
+ K +K +KK +K K K
Sbjct: 64 DKKELKAWEKAEKKAEKAKAK 84
Score = 26.7 bits (60), Expect = 4.5
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+KK +K K K +KKK
Sbjct: 74 AEKKAEKAKAKAEKKKA 90
Score = 26.0 bits (58), Expect = 7.1
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
+ LL KK+ K +K +KK +K
Sbjct: 60 AALLDKKELKAWEKAEKKAEK 80
>gnl|CDD|218921 pfam06167, MtfA, Phosphoenolpyruvate:glucose-phosphotransferase
regulator. MtfA (earlier known as YeeI) is a
transcription factor A that binds Mlc (make large
colonies), itself a repressor of glucose and hence a
protein important in regulation of the
phosphoenolpyruvate:glucose-phosphotransferase (ptsG)
system, the major glucose transporter in E.coli. Mlc is
a repressor of ptsG, and MtfA is found to bind and
inactivate Mlc with high affinity. The membrane-bound
protein EIICBGlc encoded by the ptsG gene is the major
glucose transporter in Escherichia coli.
Length = 248
Score = 29.4 bits (67), Expect = 0.61
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 99 VLNEYFF-------DRHPGVFAQVLNYYR 120
V +EYFF HP ++ Q+ +YR
Sbjct: 220 VASEYFFEKPELLAREHPALYRQLARFYR 248
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 29.4 bits (66), Expect = 0.66
Identities = 14/31 (45%), Positives = 15/31 (48%)
Query: 128 FKPWTVCMASYTSELLKKKKKKKKKKKKKKK 158
FKP KK KK KKKKKKK+
Sbjct: 187 FKPLYTWHYKGDKSSAKKDKKSKKKKKKKRS 217
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 29.6 bits (66), Expect = 0.74
Identities = 11/20 (55%), Positives = 17/20 (85%)
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
++KK KK KKK+KK+K+K+
Sbjct: 194 AVEKKSKKPKKKEKKEKEKE 213
Score = 28.9 bits (64), Expect = 1.3
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K KK KKK+KK+K+K++D
Sbjct: 198 KSKKPKKKEKKEKEKERD 215
Score = 28.5 bits (63), Expect = 1.7
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KK KKK+KK+K+K++ KD
Sbjct: 200 KKPKKKEKKEKEKERDKD 217
Score = 28.1 bits (62), Expect = 2.3
Identities = 9/23 (39%), Positives = 18/23 (78%)
Query: 141 ELLKKKKKKKKKKKKKKKKKDCH 163
+ L+K K++KKK++K+K+ + H
Sbjct: 92 QRLEKDKREKKKREKEKRGRRRH 114
Score = 28.1 bits (62), Expect = 2.4
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 133 VCMASYTSELLKKKKKKKKKKKKKKKKK 160
V S+ KKK+KK+K+K++ K KK
Sbjct: 192 VPAVEKKSKKPKKKEKKEKEKERDKDKK 219
Score = 27.0 bits (59), Expect = 6.7
Identities = 13/20 (65%), Positives = 18/20 (90%)
Query: 144 KKKKKKKKKKKKKKKKKDCH 163
KKKK++K+K++KKKKKK H
Sbjct: 281 KKKKQRKEKEEKKKKKKHHH 300
Score = 26.6 bits (58), Expect = 7.5
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 145 KKKKKKKKKKKKKKKKDCH 163
+K+K++KKKKKK CH
Sbjct: 286 RKEKEEKKKKKKHHHHRCH 304
Score = 26.2 bits (57), Expect = 9.6
Identities = 5/20 (25%), Positives = 14/20 (70%)
Query: 144 KKKKKKKKKKKKKKKKKDCH 163
++KKK++K+K+ +++
Sbjct: 99 REKKKREKEKRGRRRHHSLG 118
Score = 26.2 bits (57), Expect = 9.8
Identities = 9/22 (40%), Positives = 17/22 (77%)
Query: 142 LLKKKKKKKKKKKKKKKKKDCH 163
L K K++KKK++K+K+ ++ H
Sbjct: 94 LEKDKREKKKREKEKRGRRRHH 115
>gnl|CDD|221177 pfam11708, Slu7, Pre-mRNA splicing Prp18-interacting factor. The
spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and
U5) and proteins, catalyzes the excision of introns from
pre-mRNAs in two successive trans-esterification
reactions. Step 2 depends upon integral spliceosome
constituents such as U5 snRNA and Prp8 and
non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22.
ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a
conformational change in the spliceosome that leads to
protection of the 3'ss from targeted RNase H cleavage.
This change, which probably reflects binding of the 3'ss
PyAG in the catalytic centre of the spliceosome,
requires the ordered recruitment of Slu7, Prp18, and
Prp22 to the spliceosome. There is a close functional
relationship between Prp8, Prp18, and Slu7, and Prp18
interacts with Slu7, so that together they recruit Prp22
to the spliceosome. Most members of the family carry a
zinc-finger of the CCHC-type upstream of this domain.
Length = 236
Score = 29.3 bits (66), Expect = 0.85
Identities = 11/21 (52%), Positives = 18/21 (85%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
ELL+KK+K+KK++ K +KK+
Sbjct: 159 ELLRKKEKEKKEQLKIQKKQS 179
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 29.2 bits (66), Expect = 0.88
Identities = 13/20 (65%), Positives = 17/20 (85%)
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
L +++ KKKKKKKKKK KK+
Sbjct: 176 LEEERAKKKKKKKKKKTKKN 195
Score = 28.9 bits (65), Expect = 1.1
Identities = 13/21 (61%), Positives = 13/21 (61%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
E KKKKKKKKKK KK
Sbjct: 178 EERAKKKKKKKKKKTKKNNAT 198
Score = 26.5 bits (59), Expect = 7.1
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKKKK KK
Sbjct: 183 KKKKKKKKKTKKNNATGS 200
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 29.0 bits (66), Expect = 1.0
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
K +KKK+K++ K K K
Sbjct: 69 WHKAQKKKEKQEAKAAKAK 87
Score = 28.6 bits (65), Expect = 1.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
KKK+K++ K K K K
Sbjct: 73 QKKKEKQEAKAAKAKSKP 90
Score = 28.6 bits (65), Expect = 1.6
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 139 TSELLKKKKKKKKKKKKKKKKKD 161
+ LK K +KKK+K++ K
Sbjct: 62 DKKELKAWHKAQKKKEKQEAKAA 84
Score = 27.9 bits (63), Expect = 2.9
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 144 KKKKKKKKKKKKKKKKKDC 162
+KKK+K++ K K K K
Sbjct: 73 QKKKEKQEAKAAKAKSKPR 91
Score = 27.5 bits (62), Expect = 3.0
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
EL K +KKK+K++ K
Sbjct: 65 ELKAWHKAQKKKEKQEAKAAK 85
Score = 27.5 bits (62), Expect = 3.3
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 143 LKKKKKKKKKKKKKKKKKD 161
K +KKK+K++ K K
Sbjct: 69 WHKAQKKKEKQEAKAAKAK 87
Score = 27.1 bits (61), Expect = 4.2
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
+ LL KK+ K K +KKK+K
Sbjct: 58 AALLDKKELKAWHKAQKKKEK 78
Score = 25.9 bits (58), Expect = 9.7
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 144 KKKKKKKKKKKKKKKKKDCHV 164
+KKK+K++ K K K +
Sbjct: 72 AQKKKEKQEAKAAKAKSKPRL 92
>gnl|CDD|234533 TIGR04285, nucleoid_noc, nucleoid occlusion protein. This model
describes nucleoid occlusion protein, a close homolog to
ParB chromosome partitioning proteins including Spo0J in
Bacillus subtilis. Its gene often is located near the
gene for the Spo0J ortholog. This protein bind a
specific DNA sequence and blocks cytokinesis from
happening until chromosome segregation is complete.
Length = 255
Score = 29.0 bits (66), Expect = 1.1
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 129 KPWTVCMASYTSELLKKKKKKKKKKKKKKKKK 160
K V T EL+KK +K +K KKKKK++
Sbjct: 180 KGLNV---KQTEELIKKLLEKPEKPKKKKKRR 208
Score = 26.7 bits (60), Expect = 6.4
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
L K +K KKKKK++K KD
Sbjct: 195 LEKPEKPKKKKKRRKGFSKD 214
Score = 25.9 bits (58), Expect = 9.3
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 141 ELLKKKKKKKKKKKKKKK 158
+LL+K +K KKKKK++K
Sbjct: 193 KLLEKPEKPKKKKKRRKG 210
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 27.7 bits (62), Expect = 1.2
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
L KKKKKKKKKK +
Sbjct: 22 LVKKKKKKKKKKAEDTAA 39
Score = 27.3 bits (61), Expect = 1.3
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
L+KKKKKKKKKK +
Sbjct: 22 LVKKKKKKKKKKAEDTAATA 41
>gnl|CDD|224118 COG1197, Mfd, Transcription-repair coupling factor (superfamily II
helicase) [DNA replication, recombination, and repair /
Transcription].
Length = 1139
Score = 29.2 bits (66), Expect = 1.2
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 4/80 (5%)
Query: 83 ATRLSRLTEALGNYDPVLNEYFFDRHPGVFAQVLNYYRVFRLPLGFKPWTVCMASYT-SE 141
R RL E L +D + DR + V L GF +A T SE
Sbjct: 387 EGRRERLLELLAEHD--IPPQKVDRLDEAKKGEVYIA-VGPLESGFILPDEKLAVITESE 443
Query: 142 LLKKKKKKKKKKKKKKKKKD 161
LL + K+++++K++KK
Sbjct: 444 LLGSRVKRRRRRKRRKKNAT 463
>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is typically
between 156 to 174 amino acids in length. This domain is
found associated with pfam07780, pfam01728.
Length = 154
Score = 28.4 bits (64), Expect = 1.4
Identities = 6/22 (27%), Positives = 15/22 (68%)
Query: 140 SELLKKKKKKKKKKKKKKKKKD 161
E K K++K+++ ++K+K+
Sbjct: 124 LEKELAKLKREKRRENERKQKE 145
>gnl|CDD|219947 pfam08639, SLD3, DNA replication regulator SLD3. The SLD3 DNA
replication regulator is required for loading and
maintenance of Cdc45 on chromatin during DNA
replication.
Length = 437
Score = 28.6 bits (64), Expect = 1.4
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 139 TSELLKKKKKKKKKKKKKKKKKD 161
S+ L + K++K++K+KK KK+D
Sbjct: 137 RSQNLDRSKRRKRRKRKKNKKQD 159
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 28.5 bits (64), Expect = 1.4
Identities = 13/18 (72%), Positives = 17/18 (94%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K+KKKKK+ KK+KK+KKD
Sbjct: 155 KEKKKKKEVKKEKKEKKD 172
Score = 27.8 bits (62), Expect = 2.1
Identities = 12/18 (66%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKK+ KK+KK+KK KK+
Sbjct: 158 KKKKEVKKEKKEKKDKKE 175
Score = 27.4 bits (61), Expect = 2.7
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KK+ KK+KK+KK KK+K
Sbjct: 160 KKEVKKEKKEKKDKKEKM 177
Score = 27.0 bits (60), Expect = 3.7
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKK+ KK+KK+KK K
Sbjct: 157 KKKKKEVKKEKKEKKDKK 174
Score = 27.0 bits (60), Expect = 4.1
Identities = 14/24 (58%), Positives = 15/24 (62%), Gaps = 6/24 (25%)
Query: 144 KKKKKKK------KKKKKKKKKKD 161
KK KK+K KKKKKKKKK
Sbjct: 170 KKDKKEKMVEPKGSKKKKKKKKKK 193
Score = 25.8 bits (57), Expect = 9.4
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KK+KKKKK+ KK+KK+K
Sbjct: 154 KKEKKKKKEVKKEKKEK 170
Score = 25.8 bits (57), Expect = 9.5
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 140 SELLKKKKKKKKKKKKKK 157
+ K KKKKKKKKKK
Sbjct: 176 KMVEPKGSKKKKKKKKKK 193
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 28.7 bits (64), Expect = 1.5
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKK K+KKKKK ++
Sbjct: 685 KKKKKKKSKEKKKKKNRE 702
Score = 28.3 bits (63), Expect = 2.4
Identities = 13/17 (76%), Positives = 15/17 (88%)
Query: 143 LKKKKKKKKKKKKKKKK 159
+KKKKKKK K+KKKKK
Sbjct: 683 SRKKKKKKKSKEKKKKK 699
Score = 27.9 bits (62), Expect = 3.3
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 145 KKKKKKKKKKKKKKKKD 161
+KKKKKKK K+KKKKK+
Sbjct: 684 RKKKKKKKSKEKKKKKN 700
>gnl|CDD|218805 pfam05910, DUF868, Plant protein of unknown function (DUF868).
This family consists of several hypothetical proteins
from Arabidopsis thaliana and Oryza sativa. The function
of this family is unknown.
Length = 271
Score = 28.5 bits (64), Expect = 1.5
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 58 AENRVVLNVGGIRHETYKATLKKIPATR 85
+ VVL +G ++ E +K T PA
Sbjct: 103 VDGEVVLLLGDLKKEAFKRTKSGPPAAD 130
>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6. The surfeit locus
protein SURF-6 is shown to be a component of the
nucleolar matrix and has a strong binding capacity for
nucleic acids.
Length = 206
Score = 28.0 bits (63), Expect = 1.8
Identities = 12/20 (60%), Positives = 17/20 (85%)
Query: 141 ELLKKKKKKKKKKKKKKKKK 160
+LLKK K+K+K+KKK KK+
Sbjct: 142 KLLKKALKRKEKQKKKSKKE 161
Score = 27.3 bits (61), Expect = 3.8
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
LKK+K KK KKKKK KK
Sbjct: 184 LKKRKDDKKNKKKKKAKK 201
Score = 26.5 bits (59), Expect = 6.3
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
L K+K KK KKKKK KKK
Sbjct: 184 LKKRKDDKKNKKKKKAKKK 202
Score = 26.1 bits (58), Expect = 7.5
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K KK KKKKK KKK +
Sbjct: 188 KDDKKNKKKKKAKKKGR 204
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 28.6 bits (65), Expect = 1.9
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 141 ELLKKKKKKKKKKKKKKKKKDCHV 164
E ++K KKKKKKK K K K V
Sbjct: 680 EKIQKPKKKKKKKPKTVKPKPRTV 703
Score = 27.5 bits (62), Expect = 4.5
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 141 ELLKKKKKKKKKKKKKKKKK 160
L+K +K KKKKKKK K
Sbjct: 677 SDLEKIQKPKKKKKKKPKTV 696
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 27.7 bits (62), Expect = 2.0
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 138 YTSELLKKKKKKKKKKKKKKKKKD 161
+ + K KKKK K K KK KKD
Sbjct: 84 WKWKKKKSKKKKDKDKDKKDDKKD 107
Score = 27.0 bits (60), Expect = 4.6
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K K KKKK KKKK K KD
Sbjct: 83 KWKWKKKKSKKKKDKDKD 100
Score = 26.6 bits (59), Expect = 5.5
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKK K K KK KK D
Sbjct: 91 SKKKKDKDKDKKDDKKDD 108
Score = 26.2 bits (58), Expect = 6.6
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K+K K KKKK KKKK KD
Sbjct: 81 KQKWKWKKKKSKKKKDKD 98
>gnl|CDD|241486 cd13332, FERM_C_JAK1, Janus kinase 1 FERM domain C-lobe. JAK1 is a
tyrosine kinase protein essential in signaling type I
and type II cytokines. It interacts with the gamma chain
of type I cytokine receptors to elicit signals from the
IL-2 receptor family, the IL-4 receptor family, the
gp130 receptor family, ciliary neurotrophic factor
receptor (CNTF-R), neurotrophin-1 receptor (NNT-1R) and
Leptin-R). It also is involved in transducing a signal
by type I (IFN-alpha/beta) and type II (IFN-gamma)
interferons, and members of the IL-10 family via type II
cytokine receptors. JAK (also called Just Another
Kinase) is a family of intracellular, non-receptor
tyrosine kinases that transduce cytokine-mediated
signals via the JAK-STAT pathway. The JAK family in
mammals consists of 4 members: JAK1, JAK2, JAK3 and
TYK2. JAKs are composed of seven JAK homology (JH)
domains (JH1-JH7) . The C-terminal JH1 domain is the
main catalytic domain, followed by JH2, which is often
referred to as a pseudokinase domain, followed by
JH3-JH4 which is homologous to the SH2 domain, and
lastly JH5-JH7 which is a FERM domain. Named after
Janus, the two-faced Roman god of doorways, JAKs possess
two near-identical phosphate-transferring domains; one
which displays the kinase activity (JH1), while the
other negatively regulates the kinase activity of the
first (JH2). The FERM domain has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe,A-lobe, B-lobe, C-lobe/F1, F2, F3). The
C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 198
Score = 27.9 bits (62), Expect = 2.0
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 139 TSELLKKKKKKKKKKKKKKKKKD 161
T+ + KKKK K KK K K KK +
Sbjct: 86 TTAVEKKKKGKSKKNKLKGKKDE 108
Score = 27.1 bits (60), Expect = 3.7
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 129 KPWTVCMASYTSELLKKKKKKKKKKKKKKKKKD 161
KP T + KK K K KK + KKK ++
Sbjct: 83 KPATTAVEKKKKGKSKKNKLKGKKDEDKKKARE 115
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 27.3 bits (61), Expect = 2.2
Identities = 14/20 (70%), Positives = 19/20 (95%)
Query: 141 ELLKKKKKKKKKKKKKKKKK 160
++LK+K K+KK+KKKKKKKK
Sbjct: 103 QVLKEKAKQKKQKKKKKKKK 122
Score = 27.0 bits (60), Expect = 2.9
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K+KK+KKKKKKKKKKK
Sbjct: 110 KQKKQKKKKKKKKKKKT 126
Score = 27.0 bits (60), Expect = 3.1
Identities = 14/18 (77%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K+KKKKKKKKKKK KK
Sbjct: 113 KQKKKKKKKKKKKTSKKA 130
Score = 27.0 bits (60), Expect = 3.3
Identities = 14/22 (63%), Positives = 15/22 (68%)
Query: 140 SELLKKKKKKKKKKKKKKKKKD 161
KK+KKKKKKKKKKK K
Sbjct: 108 KAKQKKQKKKKKKKKKKKTSKK 129
Score = 26.6 bits (59), Expect = 4.9
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+KKKKKKKKKKK KK
Sbjct: 114 QKKKKKKKKKKKTSKKAA 131
Score = 26.6 bits (59), Expect = 5.2
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKKK KK KKK
Sbjct: 118 KKKKKKKKTSKKAAKKKK 135
Score = 26.2 bits (58), Expect = 6.1
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KKKKKKKKK KK KK
Sbjct: 117 KKKKKKKKKTSKKAAKK 133
Score = 26.2 bits (58), Expect = 6.2
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KKKKKKKKKK KK K
Sbjct: 116 KKKKKKKKKKTSKKAAK 132
Score = 26.2 bits (58), Expect = 6.5
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 144 KKKKKKKKKKKKKKKKK 160
+K K+KK+KKKKKKKKK
Sbjct: 107 EKAKQKKQKKKKKKKKK 123
>gnl|CDD|100101 cd00349, Ribosomal_L11, Ribosomal protein L11. Ribosomal protein
L11, together with proteins L10 and L7/L12, and 23S
rRNA, form the L7/L12 stalk on the surface of the large
subunit of the ribosome. The homologous eukaryotic
cytoplasmic protein is also called 60S ribosomal protein
L12, which is distinct from the L12 involved in the
formation of the L7/L12 stalk. The C-terminal domain
(CTD) of L11 is essential for binding 23S rRNA, while
the N-terminal domain (NTD) contains the binding site
for the antibiotics thiostrepton and micrococcin. L11
and 23S rRNA form an essential part of the
GTPase-associated region (GAR). Based on differences in
the relative positions of the L11 NTD and CTD during the
translational cycle, L11 is proposed to play a
significant role in the binding of initiation factors,
elongation factors, and release factors to the ribosome.
Several factors, including the class I release factors
RF1 and RF2, are known to interact directly with L11. In
eukaryotes, L11 has been implicated in regulating the
levels of ubiquinated p53 and MDM2 in the MDM2-p53
feedback loop, which is responsible for apoptosis in
response to DNA damage. In bacteria, the "stringent
response" to harsh conditions allows bacteria to
survive, and ribosomes that lack L11 are deficient in
stringent factor stimulation.
Length = 131
Score = 27.4 bits (62), Expect = 2.4
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 139 TSELLKKKKKKKKKKKKKKKKK 160
S LLKK +K KK K+K
Sbjct: 67 ASALLKKAAGIEKGSKKPNKEK 88
>gnl|CDD|240576 cd12932, RRP7_like, RRP7 domain ribosomal RNA-processing protein 7
(Rrp7p), ribosomal RNA-processing protein 7 homolog A
(Rrp7A), and similar proteins. This CD corresponds to
the RRP7 domain of Rrp7p and Rrp7A. Rrp7p is encoded by
YCL031C gene from Saccharomyces cerevisiae. It is an
essential yeast protein involved in pre-rRNA processing
and ribosome assembly, and is speculated to be required
for correct assembly of rpS27 into the pre-ribosomal
particle. Rrp7A, also termed gastric cancer antigen
Zg14, is the Rrp7p homolog mainly found in Metazoans.
The cellular function of Rrp7A remains unclear
currently. Both Rrp7p and Rrp7A harbor an N-terminal RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain), and a
C-terminal RRP7 domain.
Length = 118
Score = 27.2 bits (61), Expect = 2.4
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K K+K+KKKKKKK+ +D
Sbjct: 73 AKAKEKEKKKKKKKELED 90
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 28.1 bits (63), Expect = 2.5
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 135 MASYTSELLKKKKKKKKKKKKKKKKKD 161
++ E KKKKKK+KKK+++ K+++
Sbjct: 737 ISDSVEEKTKKKKKKEKKKEEEYKREE 763
>gnl|CDD|193409 pfam12936, Kri1_C, KRI1-like family C-terminal. The yeast member
of this family (Kri1p) is found to be required for 40S
ribosome biogenesis in the nucleolus. This is the
C-terminal domain of the family.
Length = 93
Score = 26.8 bits (60), Expect = 2.6
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 134 CMASYTSELLKKKKKKKKKKKKKKKKK 160
+A Y + ++K KKK KK + ++
Sbjct: 62 KLAPYRDKEERRKDKKKYGKKARLREW 88
>gnl|CDD|218435 pfam05104, Rib_recp_KP_reg, Ribosome receptor lysine/proline rich
region. This highly conserved region is found towards
the C-terminus of the transmembrane domain. The function
is unclear.
Length = 151
Score = 27.3 bits (60), Expect = 2.7
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKK+K +KK K KKK+
Sbjct: 27 KKKKEKVSEKKGKSKKKE 44
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 27.7 bits (62), Expect = 2.7
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
+E LK +K K KKKK K K
Sbjct: 192 NEKLKAEKAAKGGKKKKGKAK 212
Score = 26.9 bits (60), Expect = 5.4
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 144 KKKKKKKKKKKKKKKK 159
K K KKKK K K K
Sbjct: 199 KAAKGGKKKKGKAKAK 214
Score = 26.9 bits (60), Expect = 5.4
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 145 KKKKKKKKKKKKKKKK 160
K K KKKK K K K
Sbjct: 199 KAAKGGKKKKGKAKAK 214
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 27.9 bits (62), Expect = 2.8
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
+E LKKK K KKKKK
Sbjct: 122 TEKLKKKITVNKSTNKKKKKV 142
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 27.5 bits (61), Expect = 3.0
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 144 KKKKKKKKKKKKKKK 158
K+KKKKK KKKK K
Sbjct: 90 KQKKKKKDKKKKSPK 104
Score = 27.5 bits (61), Expect = 3.0
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 145 KKKKKKKKKKKKKKK 159
K+KKKKK KKKK K
Sbjct: 90 KQKKKKKDKKKKSPK 104
Score = 27.5 bits (61), Expect = 3.0
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 146 KKKKKKKKKKKKKKK 160
K+KKKKK KKKK K
Sbjct: 90 KQKKKKKDKKKKSPK 104
Score = 26.3 bits (58), Expect = 8.3
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 139 TSELLKKKKKKKKKKKKKKKKK 160
T + ++ K+KKKKK KKK
Sbjct: 79 TEDWFSPNQENKQKKKKKDKKK 100
>gnl|CDD|216652 pfam01698, FLO_LFY, Floricaula / Leafy protein. This family
consists of various plant development proteins which are
homologues of floricaula (FLO) and Leafy (LFY) proteins
which are floral meristem identity proteins. Mutations
in the sequences of these proteins affect flower and
leaf development.
Length = 382
Score = 27.7 bits (62), Expect = 3.0
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 127 GFKPWTVCMASYTSELLKKKKKKKKKKKKKKKKK 160
G W + S +KKK++KK+++K+ K+
Sbjct: 165 GGGTWGLVGVPGHSSDSEKKKQRKKQRRKRSKEL 198
>gnl|CDD|239978 cd04605, CBS_pair_MET2_assoc, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains
associated with the MET2 domain. Met2 is a key enzyme in
the biosynthesis of methionine. It encodes a homoserine
transacetylase involved in converting homoserine to
O-acetyl homoserine. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 26.9 bits (60), Expect = 3.1
Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 21/78 (26%)
Query: 18 KTLARVQYTVKAILTKAVL-AVGDAGVGGAGGKMNLLNM-----MDAENRVVLNVGGIRH 71
K +AR + +V+ I+T+ V+ A D + A KM N+ +DAENRV+ GI
Sbjct: 48 KAVARDKKSVEDIMTRNVITATPDEPIDVAARKMERHNISALPVVDAENRVI----GI-- 101
Query: 72 ETYKATLKKIPATRLSRL 89
I + +S+L
Sbjct: 102 ---------ITSEDISKL 110
>gnl|CDD|221654 pfam12589, WBS_methylT, Methyltransferase involved in
Williams-Beuren syndrome. This domain family is found
in eukaryotes, and is typically between 72 and 83 amino
acids in length. The family is found in association with
pfam08241. This family is made up of
S-adenosylmethionine-dependent methyltransferases. The
proteins are deleted in Williams-Beuren syndrome (WBS),
a complex developmental disorder with multisystemic
manifestations including supravalvular aortic stenosis
(SVAS) and a specific cognitive phenotype.
Length = 85
Score = 26.1 bits (58), Expect = 3.4
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
+ ++KKKKKKK KKK K+
Sbjct: 38 RNRRKKKKKKKLKKKSKE 55
Score = 25.0 bits (55), Expect = 8.7
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 138 YTSELLKKKKKKKKKKKKKKK 158
S+ ++KKKKKKK KKK K
Sbjct: 34 RISQRNRRKKKKKKKLKKKSK 54
>gnl|CDD|191863 pfam07818, HCNGP, HCNGP-like protein. This family comprises
sequences bearing significant similarity to the mouse
transcriptional regulator protein HCNGP. This protein is
localised to the nucleus and is thought to be involved
in the regulation of beta-2-microglobulin genes.
Length = 96
Score = 26.5 bits (59), Expect = 3.5
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 5/33 (15%)
Query: 125 PLGFKPWTVCMASYTSELLKKKKKKKKKKKKKK 157
P F W Y EL K++K++++K++KKK
Sbjct: 69 PHVFPSW-----DYYEELAKEQKEEQEKREKKK 96
>gnl|CDD|220654 pfam10254, Pacs-1, PACS-1 cytosolic sorting protein. PACS-1 is a
cytosolic sorting protein that directs the localisation
of membrane proteins in the trans-Golgi network
(TGN)/endosomal system. PACS-1 connects the clathrin
adaptor AP-1 to acidic cluster sorting motifs contained
in the cytoplasmic domain of cargo proteins such as
furin, the cation-independent mannose-6-phosphate
receptor and in viral proteins such as human
immunodeficiency virus type 1 Nef.
Length = 413
Score = 27.5 bits (61), Expect = 3.5
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 121 VFRLPLGFKPWTVCMASYTSELLKKKKKKKKKK---KKKKKKKD 161
V RLP + + ++ K+K KK KK K+K+
Sbjct: 309 VSRLPSS-GQEAQMTNTMSMTVVTKEKNKKVPVMFLGKKPKEKE 351
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 27.0 bits (60), Expect = 3.6
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 117 NYYRVFRLPLGFKPWTVCMASYTSELLKKKKKKKKKKKKKKKKKD 161
+ R FRLP P + A Y + LL K + ++KK K+ +
Sbjct: 101 EFERTFRLPEKVDPEVI-KAKYKNGLLTVTLPKAEPEEKKPKRIE 144
>gnl|CDD|217923 pfam04140, ICMT, Isoprenylcysteine carboxyl methyltransferase
(ICMT) family. The isoprenylcysteine
o-methyltransferase (EC:2.1.1.100) family carry out
carboxyl methylation of cleaved eukaryotic proteins that
terminate in a CaaX motif. In Saccharomyces cerevisiae
this methylation is carried out by Ste14p, an integral
endoplasmic reticulum membrane protein. Ste14p is the
founding member of the isoprenylcysteine carboxyl
methyltransferase (ICMT) family, whose members share
significant sequence homology.
Length = 94
Score = 26.1 bits (58), Expect = 3.7
Identities = 8/37 (21%), Positives = 13/37 (35%), Gaps = 2/37 (5%)
Query: 103 YFFDRHPGVFAQVLNYYRVFRLPLGFKPWTVCMASYT 139
Y + RHP F + + PL W + +
Sbjct: 41 YRYLRHPNYFGNF--IWELATQPLLCNAWYTALVFFP 75
>gnl|CDD|236579 PRK09585, anmK, anhydro-N-acetylmuramic acid kinase; Reviewed.
Length = 365
Score = 27.4 bits (62), Expect = 3.8
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 59 ENRVVLNVGGI 69
E R VLN+GGI
Sbjct: 159 ETRAVLNIGGI 169
>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria
(DUF2058). This domain, found in various prokaryotic
proteins, has no known function.
Length = 177
Score = 27.2 bits (61), Expect = 3.9
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KKK KK KK+K+K++K+
Sbjct: 14 KKKAKKAKKEKRKQRKQ 30
Score = 26.8 bits (60), Expect = 4.1
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 143 LKKKKKKKKKKKKKKKKK 160
KK KK+K+K++K+ +K
Sbjct: 17 AKKAKKEKRKQRKQARKG 34
Score = 26.8 bits (60), Expect = 4.2
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
L+ KKK KK KK+K+K++K
Sbjct: 11 LVDKKKAKKAKKEKRKQRK 29
Score = 26.0 bits (58), Expect = 7.2
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 144 KKKKKKKKKKKKKKKKK 160
KK KK KK+K+K++K+
Sbjct: 15 KKAKKAKKEKRKQRKQA 31
Score = 25.6 bits (57), Expect = 9.6
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
K KK+K+K++K+ +K D
Sbjct: 19 KAKKEKRKQRKQARKGAD 36
>gnl|CDD|237276 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 27.5 bits (62), Expect = 4.1
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
L+K++ KKKKK+KK KK
Sbjct: 731 DLEKRRLKKKKKRKKVKKW 749
Score = 27.5 bits (62), Expect = 4.4
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
+L K++ KKKKK+KK KK +
Sbjct: 731 DLEKRRLKKKKKRKKVKKWEV 751
>gnl|CDD|220121 pfam09135, Alb1, Alb1. Alb1 is a nuclear shuttling factor involved
in ribosome biogenesis.
Length = 112
Score = 26.3 bits (58), Expect = 4.1
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 132 TVCMASYTSELLKKKKKKKKKKKKKKKKK 160
+ AS + KKK++KKK K+ +K++
Sbjct: 36 GILAASKNEGVSKKKQRKKKPKRLTRKQR 64
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 27.6 bits (61), Expect = 4.1
Identities = 12/22 (54%), Positives = 18/22 (81%)
Query: 139 TSELLKKKKKKKKKKKKKKKKK 160
T E L++KKKK++K K+K+ KK
Sbjct: 14 TEEELERKKKKEEKAKEKELKK 35
>gnl|CDD|220129 pfam09159, Ydc2-catalyt, Mitochondrial resolvase Ydc2 / RNA
splicing MRS1. Members of this family adopt a secondary
structure consisting of two beta sheets and one alpha
helix, arranged as a beta-alpha-beta motif. Each beta
sheet has five strands, arranged in a 32145 order, with
the second strand being antiparallel to the rest.
Mitochondrial resolvase Ydc2 is capable of resolving
Holliday junctions and cleaves DNA after 5'-CT-3' and
5'-TT-3' sequences. This family also contains the
mitochondrial RNA-splicing protein MRS1 which is
involved in the excision of group I introns.
Length = 254
Score = 27.0 bits (60), Expect = 4.2
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 135 MASY----TSELLKKKKKKKKKKKKKKKKK 160
MA+Y T L +KKK + KKK K KK
Sbjct: 141 MANYWCERTEILAEKKKPRSKKKSSKNSKK 170
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 27.3 bits (60), Expect = 4.5
Identities = 10/26 (38%), Positives = 20/26 (76%)
Query: 136 ASYTSELLKKKKKKKKKKKKKKKKKD 161
A+ +S++ ++K +KK +K++K KK D
Sbjct: 122 AAASSDVEEEKTEKKVRKRRKVKKMD 147
Score = 26.2 bits (57), Expect = 9.6
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 136 ASYTSELLKKKKKKKKKKKKKKKKKD 161
A+ + +K +KK +K++K KK +
Sbjct: 123 AASSDVEEEKTEKKVRKRRKVKKMDE 148
Score = 26.2 bits (57), Expect = 9.9
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 136 ASYTSELLKKKKKKKKKKKKKKKKKD 161
A+ S ++++K +KK +K++K KK
Sbjct: 121 AAAASSDVEEEKTEKKVRKRRKVKKM 146
>gnl|CDD|241004 cd12560, RRM_SRSF12, RNA recognition motif in serine/arginine-rich
splicing factor 12 (SRSF12) and similar proteins. This
subgroup corresponds to the RRM of SRSF12, also termed
35 kDa SR repressor protein (SRrp35), or splicing
factor, arginine/serine-rich 13B (SFRS13B), or splicing
factor, arginine/serine-rich 19 (SFRS19). SRSF12 is a
serine/arginine (SR) protein-like alternative splicing
regulator that antagonizes authentic SR proteins in the
modulation of alternative 5' splice site choice. For
instance, it activates distal alternative 5' splice site
of the adenovirus E1A pre-mRNA in vivo. SRSF12 contains
a single N-terminal RNA recognition motif (RRM), also
termed RBD (RNA binding domain) or RNP
(ribonucleoprotein domain), followed by a C-terminal RS
domain rich in serine-arginine dipeptides. .
Length = 84
Score = 26.1 bits (57), Expect = 4.5
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 83 ATRLSRLTEALGNYDPVLNEY----FFDRHPGVFAQV 115
ATR L G Y P+++ Y F+ R P FA +
Sbjct: 11 ATRPEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYI 47
>gnl|CDD|215251 PLN02457, PLN02457, phenylalanine ammonia-lyase.
Length = 706
Score = 27.3 bits (61), Expect = 4.7
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 124 LPLGFKPWTVCMASYTSEL 142
L GFK + MASY SEL
Sbjct: 441 LDYGFKGAEIAMASYCSEL 459
>gnl|CDD|205545 pfam13366, PDDEXK_3, PD-(D/E)XK nuclease superfamily. Members of
this family belong to the PD-(D/E)XK nuclease
superfamily.
Length = 117
Score = 26.2 bits (59), Expect = 5.1
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 113 AQVLNYYRVFRLPLGF 128
AQ+LNY + LPLG
Sbjct: 87 AQLLNYLKATGLPLGL 102
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 27.1 bits (60), Expect = 5.2
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 141 ELLKKKKKKKKKKKKKKKKKD 161
+ K KK K KKK KK KK
Sbjct: 141 GIETKAKKGKAKKKTKKSKKK 161
>gnl|CDD|236444 PRK09275, PRK09275, aspartate aminotransferase; Provisional.
Length = 527
Score = 27.1 bits (61), Expect = 5.6
Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 12/43 (27%)
Query: 52 LLNMMDAENRVVLNVGGIRHETYKATLKKIPATRLSRLTEALG 94
L ++D E+ YK +K I R L E LG
Sbjct: 394 LFALLDEED------------AYKKAMKDIIRRRYKALYEGLG 424
>gnl|CDD|100022 cd02202, FtsZ_type2, FtsZ is a GTPase that is similar to the
eukaryotic tubulins and is essential for cell division
in prokaryotes. FtsZ is capable of polymerizing in a
GTP-driven process into structures similar to those
formed by tubulin. FtsZ forms a ring-shaped septum at
the site of bacterial cell division, which is required
for constriction of cell membrane and cell envelope to
yield two daughter cells.
Length = 349
Score = 26.9 bits (60), Expect = 5.7
Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 42 GVGGAGGKM-NLLNMMDAENRVVLNVGGIRHETYKATLKK---IPATRLSRLTEALGNYD 97
GVG AGG++ + LN D + VG + T K LK IPA + ++
Sbjct: 7 GVGQAGGRIVDALNRHDKRSGFGYCVGALAINTAKNDLKGLKHIPAEDRILIGQSEVKGH 66
Query: 98 PV 99
V
Sbjct: 67 GV 68
>gnl|CDD|233160 TIGR00869, sec62, protein translocation protein, Sec62 family.
Members of the NSCC2 family have been sequenced from
various yeast, fungal and animals species including
Saccharomyces cerevisiae, Drosophila melanogaster and
Homo sapiens. These proteins are the Sec62 proteins,
believed to be associated with the Sec61 and Sec63
constituents of the general protein secretary systems of
yeast microsomes. They are also the non-selective cation
(NS) channels of the mammalian cytoplasmic membrane. The
yeast Sec62 protein has been shown to be essential for
cell growth. The mammalian NS channel proteins has been
implicated in platelet derived growth factor(PGDF)
dependent single channel current in fibroblasts. These
channels are essentially closed in serum deprived
tissue-culture cells and are specifically opened by
exposure to PDGF. These channels are reported to exhibit
equal selectivity for Na+, K+ and Cs+ with low
permeability to Ca2+, and no permeability to anions
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 232
Score = 26.8 bits (59), Expect = 5.7
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 128 FKPWTVCMASYTSELLKKKKKKKKKKKKKKK 158
FKP KK K KK KKK+ K+
Sbjct: 199 FKPLWGWHEKDKYSYKKKLKSKKLKKKQAKR 229
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 26.8 bits (60), Expect = 5.8
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 135 MASYTSELLKKKKKKKKKKKKKKKK 159
+ + KK +KK++K +KK +K
Sbjct: 403 NGNLSPAERKKLRKKQRKAEKKAEK 427
Score = 26.4 bits (59), Expect = 9.1
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 142 LLKKKKKKKKKKKKKKKKK 160
L KK++K +KK +K++ +K
Sbjct: 414 LRKKQRKAEKKAEKEEAEK 432
>gnl|CDD|218332 pfam04929, Herpes_DNAp_acc, Herpes DNA replication accessory
factor. Replicative DNA polymerases are capable of
polymerising tens of thousands of nucleotides without
dissociating from their DNA templates. The high
processivity of these polymerases is dependent upon
accessory proteins that bind to the catalytic subunit of
the polymerase or to the substrate. The Epstein-Barr
virus (EBV) BMRF1 protein is an essential component of
the viral DNA polymerase and is absolutely required for
lytic virus replication. BMRF1 is also a transactivator.
This family is predicted to have a UL42 like structure.
Length = 381
Score = 26.9 bits (60), Expect = 5.9
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 134 CMASYTSELLKKKKKKKKKKKKKKKKK 160
+ K+K++ KK+KKKK KK
Sbjct: 346 AFERPLALSPKRKREGDKKQKKKKSKK 372
>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the
eukaryotic RNase H complex which cleaves RNA-DNA
hybrids. Ribonuclease H2B is one of the three proteins
of eukaryotic RNase H2 complex that is required for
nucleic acid binding and hydrolysis. RNase H is
classified into two families, type I (prokaryotic RNase
HI, eukaryotic RNase H1 and viral RNase H) and type II
(prokaryotic RNase HII and HIII, and eukaryotic RNase
H2/HII). RNase H endonucleolytically hydrolyzes an RNA
strand when it is annealed to a complementary DNA strand
in the presence of divalent cations, in DNA replication
and repair. The enzyme can be found in bacteria,
archaea, and eukaryotes. Most prokaryotic and eukaryotic
genomes contain multiple RNase H genes. Despite a lack
of evidence for homology from sequence comparisons, type
I and type II RNase H share a common fold and similar
steric configurations of the four acidic active-site
residues, suggesting identical or very similar catalytic
mechanisms. Eukaryotic RNase HII is active during
replication and is believed to play a role in removal of
Okazaki fragment primers and single ribonucleotides in
DNA-DNA duplexes. Eukaryotic RNase HII is functional
when it forms a complex with RNase H2B and RNase H2C
proteins. It is speculated that the two accessory
subunits are required for correct folding of the
catalytic subunit of RNase HII. Mutations in the three
subunits of human RNase HII cause neurological disorder.
Length = 211
Score = 26.5 bits (59), Expect = 6.1
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 144 KKKKKKKKKKKKKKKKKD 161
KKKKKKK KKKK KK
Sbjct: 182 KKKKKKKSAKKKKLKKVA 199
>gnl|CDD|222466 pfam13945, NST1, Splicing factor, salt tolerance regulator. NST1
is a family of proteins that seem to be involved,
directly or indirectly, in the salt sensitivity of some
cellular functions in yeast. These proteins also
interact with the splicing factor Msl1p.
Length = 189
Score = 26.4 bits (58), Expect = 6.4
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 147 KKKKKKKKKKKKKKDCH 163
K KKKKKK+ K H
Sbjct: 32 KSKKKKKKRSKATSPSH 48
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 26.6 bits (59), Expect = 6.5
Identities = 15/25 (60%), Positives = 17/25 (68%), Gaps = 4/25 (16%)
Query: 141 ELLKKKKKKK----KKKKKKKKKKD 161
E LKKKK+ K K+ KKKKKKD
Sbjct: 82 ERLKKKKRVKTKAYKEPTKKKKKKD 106
>gnl|CDD|220583 pfam10118, Metal_hydrol, Predicted metal-dependent hydrolase.
Members of this family of proteins comprise various
bacterial transition metal-dependent hydrolases.
Length = 251
Score = 26.4 bits (59), Expect = 6.5
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 103 YFFDRHPGVFAQVL-NYYRVFRLPLGFKPW 131
+ + PGV ++L Y R FR GF PW
Sbjct: 220 FLLGKRPGVLRKLLPAYLRYFR--PGFHPW 247
>gnl|CDD|225252 COG2377, COG2377, Predicted molecular chaperone distantly related
to HSP70-fold metalloproteases [Posttranslational
modification, protein turnover, chaperones].
Length = 371
Score = 26.5 bits (59), Expect = 7.3
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 59 ENRVVLNVGGIRHETY 74
E R VLN+GGI + TY
Sbjct: 163 ERRAVLNIGGIANLTY 178
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 26.5 bits (59), Expect = 7.4
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 6/37 (16%)
Query: 34 AVLAVGDAGVGGAGGKMNLLNMMDAENRVVLNVGGIR 70
A+ A G AGV NLL++++ E RV + + G +
Sbjct: 335 ALAAAGQAGV------ANLLDLIEKEMRVAMTLTGAK 365
>gnl|CDD|237273 PRK13018, PRK13018, cell division protein FtsZ; Provisional.
Length = 378
Score = 26.5 bits (59), Expect = 7.8
Identities = 16/57 (28%), Positives = 20/57 (35%), Gaps = 8/57 (14%)
Query: 42 GVGGAGGKMNLLNMMDAENRVVLNVGGIRHETYKATLKKIPATRL----SRLTEALG 94
G GGAG N +N + + I T L I A + LT LG
Sbjct: 35 GCGGAGN--NTINRLYEIG--IEGAETIAINTDAQHLAMIKADKKILIGKSLTRGLG 87
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 26.6 bits (59), Expect = 8.3
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 141 ELLKKKKKKKKKKKKKKKK 159
E L K KKKK+KKK+ +K
Sbjct: 422 EGLLKSKKKKRKKKEWFEK 440
>gnl|CDD|137503 PRK09744, PRK09744, DNA-binding transcriptional regulator DicC;
Provisional.
Length = 75
Score = 24.9 bits (54), Expect = 8.3
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 63 VLNVGGIRHETYKATLKKIPATRLSRLTEALG---NYDP-VLNEYFFDRHPG 110
+ N G+R + A + +P R RL EA G YDP V +EY + G
Sbjct: 16 LANAAGVRLASVAAWGELVPEGRAMRLQEASGGELQYDPKVYDEYRKAKRAG 67
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 26.3 bits (59), Expect = 8.9
Identities = 6/17 (35%), Positives = 7/17 (41%)
Query: 144 KKKKKKKKKKKKKKKKK 160
K KK K +K K
Sbjct: 830 KDPAGKKAAVKFSRKTK 846
>gnl|CDD|227935 COG5648, NHP6B, Chromatin-associated proteins containing the HMG
domain [Chromatin structure and dynamics].
Length = 211
Score = 26.0 bits (57), Expect = 8.9
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 140 SELLKKKKKKKKKKKKKKKKK 160
SEL + KKKK K KK K++
Sbjct: 183 SELDESKKKKYIDKYKKLKEE 203
>gnl|CDD|233849 TIGR02401, trehalose_TreY, malto-oligosyltrehalose synthase. This
enzyme, formally named (1->4)-alpha-D-glucan
1-alpha-D-glucosylmutase, is the TreY enzyme of the
TreYZ pathway of trehalose biosynthesis, an alternative
to the OtsAB pathway. Trehalose may be incorporated into
more complex compounds but is best known as compatible
solute. It is one of the most effective osmoprotectants,
and unlike the various betaines does not require
nitrogen for its synthesis [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 825
Score = 26.6 bits (59), Expect = 8.9
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 84 TRLSRLTEALGNYDPVLNEYFFDRHPGVFAQVLNYYRVFRLPLGFK 129
RL+RL L DP ++ + ++L + V+R L
Sbjct: 357 RRLARLLARLAELDPAARDFTPEALRQALRELLACFPVYRTYLPGG 402
>gnl|CDD|233032 TIGR00580, mfd, transcription-repair coupling factor (mfd). All
proteins in this family for which functions are known
are DNA-dependent ATPases that function in the process
of transcription-coupled DNA repair in which the repair
of the transcribed strand of actively transcribed genes
is repaired at a higher rate than the repair of
non-transcribed regions of the genome and than the
non-transcribed strand of the same gene. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University). This family is
closely related to the RecG and UvrB families [DNA
metabolism, DNA replication, recombination, and repair].
Length = 926
Score = 26.5 bits (59), Expect = 9.4
Identities = 30/145 (20%), Positives = 50/145 (34%), Gaps = 15/145 (10%)
Query: 18 KTLARVQYTVKAILTKAVLAVGDAGVGGAGGKMNLLNMMDAENRVVLNVGGIRHETYKAT 77
+L+RVQ + + KA A+ A +L + R +K T
Sbjct: 188 ISLSRVQLENEHLSLKASEAIEGAQKHSRLEFGEILAFKEELFR-------WLKAGFKIT 240
Query: 78 LKKIPATRLSRLTEALGNYDPVLNEYFFDRHP--GVFAQVLNYYRVFRLPLGFKPWTVCM 135
+ ++ RL L +D + + Y + L GF T +
Sbjct: 241 VAAESESQAERLKSLLAEHD-----IAAQVIDESCIIIPAVRYVMIGALSSGFILPTAGL 295
Query: 136 ASYT-SELLKKKKKKKKKKKKKKKK 159
A T SEL + ++ KK + K K
Sbjct: 296 AVITESELFGSRVLRRPKKSRLKSK 320
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 26.1 bits (58), Expect = 9.4
Identities = 8/20 (40%), Positives = 15/20 (75%)
Query: 141 ELLKKKKKKKKKKKKKKKKK 160
E +KK++KKK++++ K K
Sbjct: 283 EAQEKKEEKKKEEREAKLAK 302
>gnl|CDD|211979 TIGR04256, GxxExxY, GxxExxY protein. Members of this protein
family average about 130 residues in length and include
an almost perfectly conserved motif GxxExxY. Members
occur in a wide range of prokaryotes, including
Proteobacteria, Perrucomicrobia, Cyanobacteria,
Bacteriodetes, Archaea, etc.
Length = 116
Score = 25.4 bits (57), Expect = 9.5
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 113 AQVLNYYRVFRLPLGF 128
AQ+LNY ++ L LG
Sbjct: 86 AQLLNYLKLTGLKLGL 101
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 0.404
Gapped
Lambda K H
0.267 0.0820 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,466,738
Number of extensions: 791637
Number of successful extensions: 5827
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4908
Number of HSP's successfully gapped: 464
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
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: 55 (24.8 bits)