RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1287
(292 letters)
>gnl|CDD|222446 pfam13903, Claudin_2, PMP-22/EMP/MP20/Claudin tight junction.
Members of this family are claudins, that form tight
junctions between cells.
Length = 170
Score = 40.4 bits (95), Expect = 3e-04
Identities = 22/131 (16%), Positives = 36/131 (27%), Gaps = 37/131 (28%)
Query: 85 VIAFFCVVFAFFSASWLVSDSRITG----------AKFDRLGLWTHCFRSLPDPNDEYIR 134
+A ++ A + W+ +D R T F LGLW CF S D N+
Sbjct: 1 CLALGLLLVALATDYWVEADPRRTNSLGSNGAVNTGLFSHLGLWRICFTSEVDVNNFV-- 58
Query: 135 RFFVGCRWIFDPFTKGYDQIRGYLVPGFLVFTEFFYTLTFLATIFCAMLVLLFFLCFTPD 194
+ T L + ++L + LC
Sbjct: 59 ------------------------LTSLPDLTIVVLLFLTLGLVL-SLLACVLGLCSALK 93
Query: 195 HKRFVQLTLVI 205
+ L +
Sbjct: 94 KSGALLLLTGV 104
Score = 27.7 bits (62), Expect = 5.9
Identities = 13/38 (34%), Positives = 16/38 (42%)
Query: 199 VQLTLVIGSTLTCAGAKFDRLGLWTHCFRSLPDPNDEY 236
+ T +GS F LGLW CF S D N+
Sbjct: 21 PRRTNSLGSNGAVNTGLFSHLGLWRICFTSEVDVNNFV 58
>gnl|CDD|234012 TIGR02784, addA_alphas, double-strand break repair helicase AddA,
alphaproteobacterial type. AddAB, also called RexAB,
substitutes for RecBCD in several bacterial lineages.
These DNA recombination proteins act before synapse and
are particularly important for DNA repair of
double-stranded breaks by homologous recombination. The
term AddAB is used broadly, with AddA homologous between
the alphaproteobacteria (as modeled here) and the
Firmicutes, while the partner AddB proteins show no
strong homology across the two groups of species [DNA
metabolism, DNA replication, recombination, and repair].
Length = 1135
Score = 29.7 bits (67), Expect = 2.1
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 194 DHKRFVQLTLVIGSTLTCAGAKFDRLGLWTHCFRSLPD 231
D +RF + + G KF+ L L + FRS PD
Sbjct: 448 DPERFAEERREFSRKVRAVGRKFEDLSL-NYSFRSTPD 484
>gnl|CDD|130009 TIGR00934, 2a38euk, potassium uptake protein, Trk family. The
proteins of the Trk family are derived from
Gram-negative and Gram-positive bacteria, yeast and
wheat. The proteins of E. coli K12 TrkH and TrkG as well
as several yeast proteins have been functionally
characterized.The E. coli TrkH and TrkG proteins are
complexed to two peripheral membrane proteins, TrkA, an
NAD-binding protein, and TrkE, an ATP-binding protein.
This complex forms the potassium uptake system. This
family is specific for the eukaryotic Trk system
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 800
Score = 29.6 bits (66), Expect = 2.4
Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 3/62 (4%)
Query: 123 RSLPDPNDEYIRRFFVGCRWIFDPFTKGYDQIRGYLVPGFLVFTEFFYTLTFLATIFCAM 182
P +R F R + K + Y+ P F+ Y TI ++
Sbjct: 6 SRYPTFIHIKLRSFGHISRDVIAKIAKVCRPLAKYVFPFFIAVH---YFYIISLTIIASI 62
Query: 183 LV 184
L+
Sbjct: 63 LL 64
Score = 28.4 bits (63), Expect = 5.6
Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 1/54 (1%)
Query: 227 RSLPDPNDEYIRRFFVGCRWIFDPFTKGYDQIRGYLVPGFLVFTEFFYTLTFLV 280
P +R F R + K + Y+ P F+ +FY ++ +
Sbjct: 6 SRYPTFIHIKLRSFGHISRDVIAKIAKVCRPLAKYVFPFFIAV-HYFYIISLTI 58
>gnl|CDD|173760 cd08220, STKc_Nek8, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 8. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 8 (Nek8)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek8 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek family is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. Nek8 contains an N-terminal
kinase catalytic domain and a C-terminal RCC1
(regulator of chromosome condensation) domain. A double
point mutation in Nek8 causes cystic kidney disease in
mice that genetically resembles human autosomal
recessive polycystic kidney disease (ARPKD). Nek8 is
also associated with a rare form of juvenile renal
cystic disease, nephronophthisis type 9. It has been
suggested that a defect in the ciliary localization of
Nek8 contributes to the development of cysts manifested
by these diseases.
Length = 256
Score = 28.7 bits (64), Expect = 2.9
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 12/62 (19%)
Query: 8 ITNFNVEQFSQEELSALINSAAIIYIKQYQDFISKLGAPVVIEHLNSMIKD---FTIMEY 64
I VEQ +++E A N ++ L P +IE+ + ++D +MEY
Sbjct: 30 IKQIPVEQMTKDERLAAQNECQVL---------KLLSHPNIIEYYENFLEDKALMIVMEY 80
Query: 65 SE 66
+
Sbjct: 81 AP 82
>gnl|CDD|180548 PRK06380, PRK06380, metal-dependent hydrolase; Provisional.
Length = 418
Score = 28.7 bits (64), Expect = 4.3
Identities = 26/75 (34%), Positives = 33/75 (44%), Gaps = 19/75 (25%)
Query: 41 SKLGAPVVIEHLNSMIKDFTIMEYSEDKMTKPRSLAGNVGIAVFVIAFFCVVFAFFSASW 100
+KLG + E +NS I F + YSED + K A +GI F+ SW
Sbjct: 100 AKLG---MYEMINSGITAFVDLYYSEDIIAKA---AEELGIRAFL-------------SW 140
Query: 101 LVSDSRITGAKFDRL 115
V D IT K D L
Sbjct: 141 AVLDEEITTQKGDPL 155
>gnl|CDD|132940 cd06609, STKc_MST3_like, Catalytic domain of Mammalian Ste20-like
protein kinase 3-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), mammalian Ste20-like
protein kinase 3 (MST3)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MST3-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. This subfamily is composed
of MST3, MST4, STK25, Schizosaccharomyces pombe Nak1
and Sid1, Saccharomyces cerevisiae sporulation-specific
protein 1 (SPS1), and related proteins. Nak1 is
required by fission yeast for polarizing the tips of
actin cytoskeleton and is involved in cell growth, cell
separation, cell morphology and cell-cycle progression.
Sid1 is a component in the septation initiation network
(SIN) signaling pathway, and plays a role in
cytokinesis. SPS1 plays a role in regulating proteins
required for spore wall formation. MST4 plays a role in
mitogen-activated protein kinase (MAPK) signaling
during cytoskeletal rearrangement, morphogenesis, and
apoptosis. MST3 phosphorylates the STK NDR and may play
a role in cell cycle progression and cell morphology.
STK25 may play a role in the regulation of cell
migration and polarization.
Length = 274
Score = 28.0 bits (63), Expect = 5.1
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 30 IIYIKQYQDFISKLGAPVVIEHLNSMIKDFT---IMEY 64
I I+Q F+S+ +P + ++ S +K IMEY
Sbjct: 43 IEDIQQEIQFLSQCRSPYITKYYGSFLKGSKLWIIMEY 80
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
0.333 0.147 0.478
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,888,286
Number of extensions: 1593195
Number of successful extensions: 2835
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2827
Number of HSP's successfully gapped: 63
Length of query: 292
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 196
Effective length of database: 6,679,618
Effective search space: 1309205128
Effective search space used: 1309205128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 59 (26.5 bits)