RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11901
(100 letters)
>gnl|CDD|220641 pfam10235, Cript, Microtubule-associated protein CRIPT. The CRIPT
protein is a cytoskeletal protein involved in
microtubule production. The C-terminal domain is
essential for binding to the PDZ3 domain of the SAP90
protein, one of a super-family of PDZ-containing
proteins that play an important role in coupling the
membrane ion channels with their signalling partners.
SAP90 is concentrated in the post synaptic density of
glutamatergic neurons.
Length = 89
Score = 112 bits (281), Expect = 5e-34
Identities = 58/90 (64%), Positives = 67/90 (74%), Gaps = 1/90 (1%)
Query: 11 GKVITPDNWKSGSRNTIESGGRRIGENKALTASKARFNPYTQKFESCKICRQKVHQVGSH 70
K+ TPD WK G+RNT GGR+I +NK L+ KA+ NPY Q CKIC+ KVHQ GS
Sbjct: 1 TKLATPDVWKKGARNTATLGGRKINKNKLLS-KKAKRNPYAQYSSKCKICKTKVHQKGSK 59
Query: 71 YCQACAYKKGICAMCGKKLLDVKNYKQSAA 100
YCQ CAYKKGICAMCGKK+LD KNYKQS+
Sbjct: 60 YCQRCAYKKGICAMCGKKILDTKNYKQSSV 89
>gnl|CDD|223344 COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication,
recombination, and repair].
Length = 273
Score = 30.7 bits (70), Expect = 0.076
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 46 RFNPYTQKFESCKICRQKVHQV-----GSHYCQAC 75
Y + E C+ C + ++ + YC C
Sbjct: 237 ELKVYGRAGEPCRRCGTPIEKIKLGGRSTFYCPVC 271
>gnl|CDD|173271 PRK14810, PRK14810, formamidopyrimidine-DNA glycosylase;
Provisional.
Length = 272
Score = 29.5 bits (66), Expect = 0.20
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 9/61 (14%)
Query: 24 RNTIESGGRRIGENKALTASKARF----NPYTQKFESCKICRQKVHQV-----GSHYCQA 74
R IE GG + + F Y + E C C+ + +V SHYC
Sbjct: 210 REAIELGGSSVSDYVDAEGRSGFFQLSHRVYQRTGEPCLNCKTPIRRVVVAGRSSHYCPH 269
Query: 75 C 75
C
Sbjct: 270 C 270
>gnl|CDD|212025 cd11635, HR1_PKN2_3, Third Protein kinase C-related kinase
homology region 1 (HR1) Rho-binding domain of Protein
Kinase N2. PKN2, also called PKNgamma or
Protein-kinase C-related kinase 2 (PRK2), is a
serine/threonine protein kinase and an effector of the
small GTPase Rho/Rac. It regulates G2/M cell cycle
progression and the exit from cytokinesis. It also
phosphorylates hepatitis C virus (HCV) RNA polymerase
and thus, plays a role in HCV RNA replication. PKN2
shares a common domain architecture with other PKNs,
containing three HR1 domains, a C2 domain, and a kinase
domain. In addition, PKN2 contains a proline-rich
region in between its C2 and kinase domains and has
been shown to associate with SH3 domain containing
proteins like NCK and Grb4. This model characterizes
the third HR1 domain of PKN2. HR1 domains are
anti-parallel coiled-coil (ACC) domains that bind small
GTPases from the Rho family; PKN2 specifically binds to
RhoA GTPase in a GTP-dependent manner. The HR1 domains
of PKN2, together with its C2 domain, also facilitate
the recruitment of PKN2 to primordial junctions at
nascent cell-cell contacts, where it promotes
junctional maturation.
Length = 74
Score = 27.3 bits (60), Expect = 0.54
Identities = 13/38 (34%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 22 GSRNTIES-GGRRIGENKALTASKARFNPYTQKFESCK 58
G++N ++ G ++ + KAL+ ++ARFN +QK + K
Sbjct: 27 GAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLK 64
>gnl|CDD|234899 PRK01103, PRK01103, formamidopyrimidine/5-formyluracil/
5-hydroxymethyluracil DNA glycosylase; Validated.
Length = 274
Score = 27.7 bits (63), Expect = 0.96
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 5/34 (14%)
Query: 47 FNPYTQKFESCKIC-----RQKVHQVGSHYCQAC 75
Y ++ E C+ C + K + +C C
Sbjct: 238 LQVYGREGEPCRRCGTPIEKIKQGGRSTFFCPRC 271
>gnl|CDD|233031 TIGR00577, fpg, formamidopyrimidine-DNA glycosylase (fpg). All
proteins in the FPG family with known functions are
FAPY-DNA glycosylases that function in base excision
repair. Homologous to endonuclease VIII (nei). This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 272
Score = 27.3 bits (61), Expect = 1.2
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 50 YTQKFESCKIC-----RQKVHQVGSHYCQAC 75
Y +K E C+ C + KV G+H+C C
Sbjct: 241 YGRKGEPCRRCGTPIEKIKVGGRGTHFCPQC 271
>gnl|CDD|113218 pfam04439, Adenyl_transf, Streptomycin adenylyltransferase. Also
known as Aminoglycoside 6- adenylyltransferase
(EC:2.7.7.-), this protein confers resistance to
aminoglycoside antibiotics.
Length = 282
Score = 27.0 bits (60), Expect = 1.5
Identities = 6/40 (15%), Positives = 14/40 (35%)
Query: 39 ALTASKARFNPYTQKFESCKICRQKVHQVGSHYCQACAYK 78
A + + Y + ++S +C + + YK
Sbjct: 225 AKLEATYSMSDYEEIWQSLFLCCDLFREYSKEVSEKLEYK 264
>gnl|CDD|192485 pfam10217, DUF2039, Uncharacterized conserved protein (DUF2039).
This entry is a region of approximately 100 residues
containing three pairs of cysteine residues. The region
is conserved from plants to humans but its function is
unknown.
Length = 92
Score = 25.4 bits (56), Expect = 3.4
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 44 KARFNPYTQKFES--CKICRQK-VHQVGSHYCQACAYKKGICAMCGKK 88
K ++ Y + C C+QK V H C CA K +CA C K
Sbjct: 43 KVKYGKYKPLTQPKKCNKCQQKTVRHAYHHICDDCALKLKVCAKCQKP 90
>gnl|CDD|150957 pfam10367, Vps39_2, Vacuolar sorting protein 39 domain 2. This
domain is found on the vacuolar sorting protein Vps39
which is a component of the C-Vps complex. Vps39 is
thought to be required for the fusion of endosomes and
other types of transport intermediates with the
vacuole. In Saccharomyces cerevisiae, Vps39 has been
shown to stimulate nucleotide exchange. This domain is
involved in localisation and in mediating the
interactions of Vps39 with Vps11.
Length = 109
Score = 25.7 bits (57), Expect = 3.4
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 1 MVCSKCEKKLGK---VITPDN 18
VC+ C K+LG V+ P+
Sbjct: 79 SVCAVCHKRLGNSVFVVYPNG 99
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 25.7 bits (57), Expect = 5.1
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 31 GRRIGENKALTASKARFNPYTQKFESCKI 59
GR +G+N L AS NP + I
Sbjct: 214 GRILGQNPYLYASIQMNNPQIPEIHETFI 242
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
0.318 0.130 0.409
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,577,662
Number of extensions: 333870
Number of successful extensions: 345
Number of sequences better than 10.0: 1
Number of HSP's gapped: 343
Number of HSP's successfully gapped: 20
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
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: 53 (24.1 bits)