RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14260
(73 letters)
>gnl|CDD|215683 pfam00058, Ldl_recept_b, Low-density lipoprotein receptor repeat
class B. This domain is also known as the YWTD motif
after the most conserved region of the repeat. The YWTD
repeat is found in multiple tandem repeats and has been
predicted to form a beta-propeller structure.
Length = 42
Score = 27.1 bits (61), Expect = 0.21
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 25 NNLFVTSWRNQSIIRVNKYNSDDYETIA--NFSRPFAIHIYH 64
L+ T ++ I V N D T+ + P I +
Sbjct: 1 GRLYWTDSSLRASISVADLNGSDRRTLFSEDLQWPNGIAVDP 42
>gnl|CDD|214531 smart00135, LY, Low-density lipoprotein-receptor YWTD domain.
Type "B" repeats in low-density lipoprotein (LDL)
receptor that plays a central role in mammalian
cholesterol metabolism. Also present in a variety of
molecules similar to gp300/megalin.
Length = 43
Score = 24.9 bits (55), Expect = 1.2
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 7 KVLVKPVVQNLYDITV--FENNLFVTSWRNQSIIRVN 41
+ L+ + + + V E L+ T W I N
Sbjct: 1 RTLLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVAN 37
>gnl|CDD|236848 PRK11107, PRK11107, hybrid sensory histidine kinase BarA;
Provisional.
Length = 919
Score = 25.6 bits (57), Expect = 2.1
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 11/46 (23%)
Query: 1 MAQMKNKVLVKPVVQNLYDITVF--ENNLFVTS--WRNQSIIRVNK 42
+ ++ +V+ I VF N LFVTS + +R+ +
Sbjct: 74 VLHRRHSDIVR-------SIAVFDENNQLFVTSNYHLDFESMRLPE 112
>gnl|CDD|223441 COG0364, Zwf, Glucose-6-phosphate 1-dehydrogenase [Carbohydrate
transport and metabolism].
Length = 483
Score = 25.7 bits (57), Expect = 2.1
Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 9 LVKPVVQNLYDITVFENNLFVTSWRNQSI 37
L K VQNL + F N +F W I
Sbjct: 177 LGKETVQNLLALR-FANAIFEPLWNRNYI 204
>gnl|CDD|233162 TIGR00871, zwf, glucose-6-phosphate 1-dehydrogenase. This enzyme
(EC 1.1.1.49) acts on glucose 6-phospate and reduces
NADP(+). An alternate name appearing in the literature
for the human enzyme, based on a slower activity with
beta-D-glucose, is glucose 1-dehydrogenase (EC
1.1.1.47), but that name more properly describes a
subfamily of the short chain dehydrogenases/reductases
family. This is a well-studied enzyme family, with
sequences available from well over 50 species. The
trusted cutoff is set above the score for the Drosophila
melanogaster CG7140 gene product, a homolog of unknown
function. G6PD homologs from the bacteria Aquifex
aeolicus and Helicobacter pylori lack several motifs
well conserved most other members, were omitted from the
seed alignment, and score well below the trusted cutoff
[Energy metabolism, Pentose phosphate pathway].
Length = 482
Score = 25.7 bits (57), Expect = 2.4
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 9 LVKPVVQNLYDITVFENNLFVTSWRNQSI 37
L K VQNL + F N +F W + I
Sbjct: 178 LGKETVQNLL-VLRFANQIFEPLWNRRYI 205
>gnl|CDD|183126 PRK11414, PRK11414, colanic acid/biofilm transcriptional regulator;
Provisional.
Length = 221
Score = 25.2 bits (55), Expect = 3.3
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 43 YNSDDYETIANFSRPFAIHIYHRQKQP 69
D E I N +R F + IYHR P
Sbjct: 123 QEKGDMEQIINANRLFRLAIYHRSNMP 149
>gnl|CDD|206402 pfam14234, DUF4336, Domain of unknown function (DUF4336).
Length = 314
Score = 24.9 bits (55), Expect = 4.4
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 14/62 (22%)
Query: 1 MAQMKNKVLVKPVVQNLYDITVFENN-LFVTSWRNQSIIRVNKYNSDDYETI--ANFSRP 57
++ ++ V P++Q L VF V +W ++ S D+E I A+F P
Sbjct: 252 FQALRGRLQVAPILQTL----VFPRAPEEVLAW-------ADRVASWDFERIIPAHFDAP 300
Query: 58 FA 59
A
Sbjct: 301 IA 302
>gnl|CDD|146444 pfam03805, CLAG, Cytoadherence-linked asexual protein. Clag
(cytoadherence linked asexual gene) is a malaria surface
protein which has been shown to be involved in the
binding of Plasmodium falciparum infected erythrocytes
to host endothelial cells, a process termed
cytoadherence. The cytoadherence phenomenon is
associated with the sequestration of infected
erythrocytes in the blood vessels of the brain, cerebral
malaria. Clag is a multi-gene family in Plasmodium
falciparum with at least 9 members identified to date.
Orthologous proteins in the rodent malaria species
Plasmodium chabaudi (Lawson D Unpubl. obs.) suggest that
the gene family is found in other malaria species and
may play a more generic role in cytoadherence.
Length = 1282
Score = 24.6 bits (54), Expect = 5.0
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 6 NKVLVKPVVQNLYDITVFENNLF 28
NK +K VV L+ I F ++F
Sbjct: 827 NKEYLKEVVDELFSIYKFNKDIF 849
>gnl|CDD|237926 PRK15213, PRK15213, fimbrial outer membrane usher protein PefC;
Provisional.
Length = 797
Score = 23.9 bits (52), Expect = 9.7
Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 9/48 (18%)
Query: 25 NNLFVTSWRNQSIIRVNKYNSDDYETIANFSRPFAIHIYHRQKQPDDI 72
NNL + S+R Y S+ Y A+F + +++ +DI
Sbjct: 436 NNLQLLSYR---------YQSEGYVDFADFYPTDLYTRSNTKRRYEDI 474
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
0.322 0.134 0.396
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,670,621
Number of extensions: 266638
Number of successful extensions: 196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 14
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
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: 53 (24.3 bits)