RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5355
(76 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 56.7 bits (138), Expect = 6e-13
Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 10 KHTRPTFSGQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKV 55
+ R TF+ +Q+ LEK FE+ +Y + ER +LA LG+TE QVKV
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKV 46
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 51.9 bits (125), Expect = 5e-11
Identities = 20/47 (42%), Positives = 31/47 (65%)
Query: 9 KKHTRPTFSGQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKV 55
K+ R +F+ +Q+ LEK F++ Y + ER +LA LG++E QVKV
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKV 47
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved
in the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 50.3 bits (121), Expect = 2e-10
Identities = 20/46 (43%), Positives = 29/46 (63%)
Query: 10 KHTRPTFSGQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKV 55
+ R F+ +Q+ LEK FE+ Y + ER +LA LG+TE QVK+
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKI 46
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 31.6 bits (72), Expect = 0.015
Identities = 15/55 (27%), Positives = 24/55 (43%)
Query: 1 NNSDKDAKKKHTRPTFSGQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKV 55
D + K R + +Q+ LE+ FE Y + R KL+ L M V++
Sbjct: 43 RKQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQI 97
>gnl|CDD|237132 PRK12539, PRK12539, RNA polymerase sigma factor; Provisional.
Length = 184
Score = 27.4 bits (61), Expect = 0.50
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 23 ALEKTFEQTKYLAG-PERAKLAYALGMTESQVKVTGPERAKLAYALGMTESQVK 75
A+E T + + LA PE+ +LA VK+ G A+ A GM+ES VK
Sbjct: 118 AVESTLDLGRLLARLPEKMRLAI------QAVKLEGLSVAEAATRSGMSESAVK 165
>gnl|CDD|224541 COG1626, TreA, Neutral trehalase [Carbohydrate transport and
metabolism].
Length = 558
Score = 26.6 bits (59), Expect = 1.2
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 4 DKDAKKKHTRPTFSGQQIFAL---EKTFEQTKYLAGPERAKLAYALGMTESQVK 54
D D K K R S ++ L T E+ + LA + L G++ S +
Sbjct: 408 DYDWKLKKRRAYLSAAALWPLWVGLATPERAQRLADAALSMLEQPGGLSASTPR 461
>gnl|CDD|215325 PLN02605, PLN02605, monogalactosyldiacylglycerol synthase.
Length = 382
Score = 26.1 bits (58), Expect = 1.7
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 33 YLAGPERAKLAYALGMTESQVKVTG 57
+ E AK A G+ SQ++V G
Sbjct: 155 FCPSEEVAKRALKRGLEPSQIRVYG 179
>gnl|CDD|234340 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 893
Score = 25.8 bits (57), Expect = 2.1
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 42 LAYALGMTESQVKVTGPERAKLAYALGMTE 71
L AL MTE + K ER +L G +E
Sbjct: 851 LYLALAMTEKEEKA---ERRRLMQEHGCSE 877
>gnl|CDD|236571 PRK09565, PRK09565, hypothetical protein; Reviewed.
Length = 533
Score = 25.9 bits (57), Expect = 2.2
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 11 HTRPTFSGQQIFALEKTFEQTKYLAGPERA 40
H RPT + + E+ FEQT A E+A
Sbjct: 76 HLRPTLA--DLDRAERRFEQTALAAFTEQA 103
>gnl|CDD|129739 TIGR00654, PhzF_family, phenazine biosynthesis protein PhzF family.
Members of this family show a distant global similarity
to diaminopimelate epimerases, which can be taken as the
outgroup. One member of this family has been shown to
act as an enzyme in the biosynthesis of the antibiotic
phenazine in Pseudomonas aureofaciens. The function in
other species is unclear [Cellular processes, Toxin
production and resistance].
Length = 297
Score = 26.0 bits (57), Expect = 2.2
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 18 GQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQ 52
G +LE+ + ++G RA LA ALG+TE
Sbjct: 115 GDLRISLEQPMPDFEPISGEMRADLAKALGLTEDD 149
>gnl|CDD|236385 PRK09126, PRK09126, hypothetical protein; Provisional.
Length = 392
Score = 25.7 bits (57), Expect = 2.6
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 35 AGPERAKLAYALGMTESQVKVTGPERAKLA 64
AGP A L++A + S +KVT ER LA
Sbjct: 11 AGP--AGLSFARSLAGSGLKVTLIERQPLA 38
>gnl|CDD|182354 PRK10281, PRK10281, hypothetical protein; Provisional.
Length = 299
Score = 25.0 bits (55), Expect = 4.7
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 44 YALGMTESQVKVTGP----ERAKLAYALGMTES 72
Y + MT+ + P RA + ALG+TE
Sbjct: 116 YRISMTQGTPEFEPPLEGETRAAIINALGLTED 148
>gnl|CDD|132952 cd06621, PKc_MAPKK_Pek1_like, Catalytic domain of fungal Pek1-like
dual-specificity MAP kinase kinases. Protein kinases
(PKs), MAP kinase kinase(MAPKK) subfamily, fungal
Pek1-like proteins, catalytic (c) domain. PKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK).
Members of this group include the MAPKKs Pek1/Skh1 from
Schizosaccharomyces pombe and MKK2 from Saccharomyces
cerevisiae, and related proteins. Both fission yeast
Pek1 and baker's yeast MKK2 are components of the cell
integrity MAPK pathway. In fission yeast, Pek1
phosphorylates and activates the MAPK Pmk1/Spm1 and is
regulated by the MAPKKK Mkh1. In baker's yeast, the
pathway involves the MAPK Slt2, the MAPKKs MKK1 and
MKK2, and the MAPKKK Bck1. The cell integrity MAPK
cascade is activated by multiple stress conditions, and
is essential in cell wall construction, morphogenesis,
cytokinesis, and ion homeostasis.
Length = 287
Score = 24.7 bits (54), Expect = 4.9
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 17 SGQQIFALEKTFEQTKYLAGPERAK-LAY-------ALGMT 49
SG+ + +L TF T + PER + Y +LG+T
Sbjct: 152 SGELVNSLAGTFTGTSFYMAPERIQGKPYSITSDVWSLGLT 192
>gnl|CDD|173550 PTZ00357, PTZ00357, methyltransferase; Provisional.
Length = 1072
Score = 25.0 bits (54), Expect = 5.0
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 5/35 (14%)
Query: 20 QIFALEK-----TFEQTKYLAGPERAKLAYALGMT 49
+IFA+EK F + ++ PE +LAY G T
Sbjct: 730 RIFAIEKNLPAAAFTRMRWANDPEWTQLAYTFGHT 764
>gnl|CDD|236076 PRK07710, PRK07710, acetolactate synthase catalytic subunit;
Reviewed.
Length = 571
Score = 24.0 bits (52), Expect = 9.0
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 19 QQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKVTGPERAK--LAYALGMTE 71
Q+ F + + + P+ KLA A G+ V++ AK L +A+ + E
Sbjct: 488 QEEF-YNQRYSHSLLSCQPDFVKLAEAYGI--KGVRIDDELEAKEQLQHAIELQE 539
>gnl|CDD|212680 cd10238, HSPA14-like_NBD, Nucleotide-binding domain of human HSPA14
and similar proteins. Human HSPA14 (also known as
70-kDa heat shock protein 14, HSP70L1, HSP70-4; the gene
encoding HSPA14 maps to 10p13), is ribosome-associated
and belongs to the heat shock protein 70 (HSP70) family
of chaperones that assist in protein folding and
assembly, and can direct incompetent "client" proteins
towards degradation. Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs). HSPA14
interacts with the J-protein MPP11 to form the mammalian
ribosome-associated complex (mRAC). HSPA14 participates
in a pathway along with Nijmegen breakage syndrome 1
(NBS1, also known as p85 or nibrin), heat shock
transcription factor 4b (HSF4b), and HSPA4 (belonging to
a different subfamily), that induces tumor migration,
invasion, and transformation. HSPA14 is a potent T
helper cell (Th1) polarizing adjuvant that contributes
to antitumor immune responses.
Length = 375
Score = 24.3 bits (53), Expect = 9.1
Identities = 16/81 (19%), Positives = 25/81 (30%), Gaps = 16/81 (19%)
Query: 4 DKDAKKKHTRPTFSGQQIFALEKTFEQTKYLAGPERAKLAYALGMTESQVKVTG------ 57
+ K KH P + IF K Q+ + + + + +E Q
Sbjct: 102 FTEEKTKHVSPKEVAKLIFKKMKEIAQSALGSDSKDVVITVPVYFSEKQKLALREAAEEA 161
Query: 58 ----------PERAKLAYALG 68
P A LAY +G
Sbjct: 162 GFNVLRIIHEPSAAALAYGIG 182
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
0.309 0.123 0.330
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,541,322
Number of extensions: 258216
Number of successful extensions: 227
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 18
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.1 bits)