RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5508
(85 letters)
>gnl|CDD|238060 cd00112, LDLa, Low Density Lipoprotein Receptor Class A domain, a
cysteine-rich repeat that plays a central role in
mammalian cholesterol metabolism; the receptor protein
binds LDL and transports it into cells by endocytosis;
7 successive cysteine-rich repeats of about 40 amino
acids are present in the N-terminal of this multidomain
membrane protein; other homologous domains occur in
related receptors, including the very low-density
lipoprotein receptor and the LDL receptor-related
protein/alpha 2-macroglobulin receptor, and in proteins
which are functionally unrelated, such as the C9
component of complement; the binding of calcium is
required for in vitro formation of the native disulfide
isomer and is necessary in establishing and maintaining
the modular structure.
Length = 35
Score = 43.0 bits (102), Expect = 1e-07
Identities = 17/32 (53%), Positives = 20/32 (62%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C +E+ C NGRCI C+ DDCGD SDE
Sbjct: 1 CPPNEFRCANGRCIPSSWVCDGEDDCGDGSDE 32
>gnl|CDD|200964 pfam00057, Ldl_recept_a, Low-density lipoprotein receptor domain
class A.
Length = 37
Score = 42.3 bits (100), Expect = 3e-07
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 26 QCRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G CI + C+ DC D SDE
Sbjct: 2 TCGPDEFQCGSGECIPMSWVCDGDPDCEDGSDE 34
>gnl|CDD|197566 smart00192, LDLa, Low-density lipoprotein receptor domain class
A. Cysteine-rich repeat in the low-density lipoprotein
(LDL) receptor that plays a central role in mammalian
cholesterol metabolism. The N-terminal type A repeats
in LDL receptor bind the lipoproteins. Other homologous
domains occur in related receptors, including the very
low-density lipoprotein receptor and the LDL
receptor-related protein/alpha 2-macroglobulin
receptor, and in proteins which are functionally
unrelated, such as the C9 component of complement.
Mutations in the LDL receptor gene cause familial
hypercholesterolemia.
Length = 33
Score = 41.5 bits (98), Expect = 6e-07
Identities = 17/33 (51%), Positives = 20/33 (60%)
Query: 26 QCRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C+NGRCI C+ DDCGD SDE
Sbjct: 1 TCPPGEFQCDNGRCIPSSWVCDGVDDCGDGSDE 33
>gnl|CDD|164623 MTH00052, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 262
Score = 26.3 bits (58), Expect = 2.2
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 6 GWVLLGSCFLVVSLQQLQHHQ 26
G VL+GS FL+V L +L +HQ
Sbjct: 207 GHVLIGSSFLLVCLFRLINHQ 227
>gnl|CDD|177179 MTH00118, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 261
Score = 26.1 bits (58), Expect = 2.2
Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 2 FPITGW----VLLGSCFLVVSL-QQLQHH 25
F TG+ V++GS FL+V L + ++ H
Sbjct: 198 FVATGFHGLHVIIGSTFLIVCLLRLIKFH 226
>gnl|CDD|177238 MTH00189, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 260
Score = 26.1 bits (58), Expect = 2.5
Identities = 10/19 (52%), Positives = 15/19 (78%), Gaps = 1/19 (5%)
Query: 8 VLLGSCFLVVSL-QQLQHH 25
V++GS FL+V L +Q+Q H
Sbjct: 207 VIIGSTFLLVCLLRQIQGH 225
>gnl|CDD|215077 PLN00148, PLN00148, potassium transporter; Provisional.
Length = 785
Score = 25.6 bits (56), Expect = 4.0
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 6 GWVLLGSCFLVVSLQQLQH 24
G ++L +C ++V L LQH
Sbjct: 195 GELVLLACVILVGLFALQH 213
>gnl|CDD|193472 pfam12999, PRKCSH-like, Glucosidase II beta subunit-like. The
sequences found in this family are similar to a region
found in the beta-subunit of glucosidase II, which is
also known as protein kinase C substrate 80K-H
(PRKCSH). The enzyme catalyzes the sequential removal
of two alpha-1,3-linked glucose residues in the second
step of N-linked oligosaccharide processing. The beta
subunit is required for the solubility and stability of
the heterodimeric enzyme, and is involved in retaining
the enzyme within the endoplasmic reticulum.
Length = 176
Score = 25.1 bits (55), Expect = 5.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 40 ISLDRFCNEYDDCGDKSDEP 59
+S D+ ++Y DC D SDEP
Sbjct: 48 LSFDQVNDDYCDCPDGSDEP 67
>gnl|CDD|217193 pfam02705, K_trans, K+ potassium transporter. This is a family of
K+ potassium transporters that are conserved across
phyla, having both bacterial (KUP), yeast (HAK), and
plant (AtKT) sequences as members.
Length = 534
Score = 25.1 bits (56), Expect = 5.5
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 3 PITGWVLLGSCFLVV 17
G+ +LG+ FL V
Sbjct: 201 GKAGFFVLGAVFLAV 215
>gnl|CDD|173479 PTZ00214, PTZ00214, high cysteine membrane protein Group 4;
Provisional.
Length = 800
Score = 24.5 bits (53), Expect = 8.5
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 35 ENGRCISLDRFCNEYDDCGDKSDEPRYCSRSKTA 68
E+ C+ +E +CG D RYC+R K A
Sbjct: 467 ESADCVDQCSVGSECAECGITIDGSRYCTRCKDA 500
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
0.328 0.140 0.466
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,961,233
Number of extensions: 279882
Number of successful extensions: 293
Number of sequences better than 10.0: 1
Number of HSP's gapped: 293
Number of HSP's successfully gapped: 16
Length of query: 85
Length of database: 10,937,602
Length adjustment: 53
Effective length of query: 32
Effective length of database: 8,586,840
Effective search space: 274778880
Effective search space used: 274778880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)