RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5809
(160 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 = 40.3 bits (95), Expect = 1e-05
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 49 CPVGEFLCIGSCVCIPQEWKCDGDLDCYAGEDEVKC 84
CP EF C + CIP W CDG+ DC G DE C
Sbjct: 1 CPPNEFRC-ANGRCIPSSWVCDGEDDCGDGSDEENC 35
Score = 39.5 bits (93), Expect = 2e-05
Identities = 17/24 (70%), Positives = 20/24 (83%)
Query: 117 KCLKKSWLCDGEDDCGDFSDEVNC 140
+C+ SW+CDGEDDCGD SDE NC
Sbjct: 12 RCIPSSWVCDGEDDCGDGSDEENC 35
>gnl|CDD|200964 pfam00057, Ldl_recept_a, Low-density lipoprotein receptor domain
class A.
Length = 37
Score = 39.2 bits (92), Expect = 3e-05
Identities = 14/24 (58%), Positives = 18/24 (75%)
Query: 117 KCLKKSWLCDGEDDCGDFSDEVNC 140
+C+ SW+CDG+ DC D SDE NC
Sbjct: 14 ECIPMSWVCDGDPDCEDGSDEKNC 37
Score = 34.6 bits (80), Expect = 0.001
Identities = 20/38 (52%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 47 GKCPVGEFLCIGSCVCIPQEWKCDGDLDCYAGEDEVKC 84
C EF C GS CIP W CDGD DC G DE C
Sbjct: 1 STCGPDEFQC-GSGECIPMSWVCDGDPDCEDGSDEKNC 37
>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 = 35.3 bits (82), Expect = 6e-04
Identities = 18/34 (52%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 48 KCPVGEFLCIGSCVCIPQEWKCDGDLDCYAGEDE 81
CP GEF C CIP W CDG DC G DE
Sbjct: 1 TCPPGEFQCDNGR-CIPSSWVCDGVDDCGDGSDE 33
Score = 33.4 bits (77), Expect = 0.003
Identities = 14/21 (66%), Positives = 17/21 (80%)
Query: 117 KCLKKSWLCDGEDDCGDFSDE 137
+C+ SW+CDG DDCGD SDE
Sbjct: 13 RCIPSSWVCDGVDDCGDGSDE 33
>gnl|CDD|236826 PRK11031, PRK11031, guanosine pentaphosphate phosphohydrolase;
Provisional.
Length = 496
Score = 28.4 bits (64), Expect = 1.8
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 134 FSDEVNCV--LARKFNDTKLSAEDF 156
FS + CV L R F D L+ E+F
Sbjct: 158 FSLSMGCVTWLERYFKDRNLTQENF 182
>gnl|CDD|227083 COG4740, COG4740, Predicted metalloprotease [General function
prediction only].
Length = 176
Score = 27.2 bits (60), Expect = 3.2
Identities = 11/38 (28%), Positives = 16/38 (42%)
Query: 2 SYHDSKASFVSDKSTYTNFSKNGNENSDFCIIFLFLDP 39
SY D S V+ K T + ++LFL+P
Sbjct: 44 SYRDGDVSSVAVKDVITKLDEENRAGVTLEDLYLFLNP 81
>gnl|CDD|215513 PLN02951, PLN02951, Molybderin biosynthesis protein CNX2.
Length = 373
Score = 27.0 bits (60), Expect = 5.0
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 130 DCGDFSDEVNCVLARKFNDTKLSAEDFI 157
+ G +VNCV+ R FND ++ DF+
Sbjct: 196 ELGYNPVKVNCVVMRGFNDDEIC--DFV 221
>gnl|CDD|221784 pfam12810, Gly_rich, Glycine rich protein. This family of proteins
is greatly expanded in Trichomonas vaginalis. The
proteins are composed of several glycine rich motifs
interspersed through the sequence. Although many
proteins have been annotated by similarity in the family
these annotations given the biased composition of the
sequences these are unlikely to be functionally
relevant.
Length = 248
Score = 26.4 bits (59), Expect = 6.8
Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 4/45 (8%)
Query: 2 SYHDSKASFVSDKSTYTNFSKNGNENSDFCIIFLFLDPYHASHCI 46
S H S F + NF+ +GN + I L C
Sbjct: 208 SIHGSGYFFENPGMIDGNFTNSGN---GYARI-TILSYIKCCSCN 248
>gnl|CDD|235212 PRK04043, tolB, translocation protein TolB; Provisional.
Length = 419
Score = 26.5 bits (59), Expect = 7.9
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 5 DSKASFVSDKSTYTN-FSKNGNENS 28
D + FVSD+ Y N F K N S
Sbjct: 288 DKRIVFVSDRLGYPNIFMKKLNSGS 312
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
0.323 0.140 0.483
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,623,105
Number of extensions: 637246
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 404
Number of HSP's successfully gapped: 20
Length of query: 160
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 71
Effective length of database: 6,990,096
Effective search space: 496296816
Effective search space used: 496296816
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 (21.9 bits)
S2: 55 (25.1 bits)