RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy950
(407 letters)
>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 = 43.7 bits (104), Expect = 3e-06
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 71 IVSNGISMPRDLTIDMQTHDVYWVDAKLDLIQKISYNGGNR 111
++S+G+ P L +D +YW D LD+I+ + +G NR
Sbjct: 3 LLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVANLDGTNR 43
Score = 31.4 bits (72), Expect = 0.062
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 111 RQIIRRNLPNPMGIAVH--KSDVYWVDRNLRTVYKAS 145
R ++ L +P G+AV + +YW D L + A+
Sbjct: 1 RTLLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVAN 37
Score = 25.6 bits (57), Expect = 6.7
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 45 RLLYWIDYGQYPRIGKSYLDGS 66
LYW D+G I + LDG+
Sbjct: 21 GRLYWTDWGL-DVIEVANLDGT 41
>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 = 37.5 bits (88), Expect = 4e-04
Identities = 11/41 (26%), Positives = 18/41 (43%)
Query: 45 RLLYWIDYGQYPRIGKSYLDGSKWTSIVSNGISMPRDLTID 85
LYW D I + L+GS ++ S + P + +D
Sbjct: 1 GRLYWTDSSLRASISVADLNGSDRRTLFSEDLQWPNGIAVD 41
>gnl|CDD|218955 pfam06247, Plasmod_Pvs28, Plasmodium ookinete surface protein
Pvs28. This family consists of several ookinete surface
protein (Pvs28) from several species of Plasmodium.
Pvs25 and Pvs28 are expressed on the surface of
ookinetes. These proteins are potential candidates for
vaccine and induce antibodies that block the infectivity
of Plasmodium vivax in immunised animals.
Length = 196
Score = 29.3 bits (66), Expect = 2.5
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 14/70 (20%)
Query: 178 PDENNPCFRTGNGGCEQLCFSYPVEFPQNKL---HYKCDCAT-------GTPSASDPKKC 227
PD+N C +TG C C E + KL +Y+C C GT S P
Sbjct: 120 PDQNGKCTKTGETKCSLKC----KENEECKLVGGYYECVCKEGFPGDGGGTGSGGPPTSS 175
Query: 228 TTMDEYLVFS 237
+ M+ +FS
Sbjct: 176 SVMNGMSIFS 185
>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 29.2 bits (65), Expect = 5.0
Identities = 25/89 (28%), Positives = 34/89 (38%), Gaps = 13/89 (14%)
Query: 51 DYGQYPRIGKSYLDGSKWTSI-------VSNGISMPRDLTIDMQTHDVYWVDAKLDLIQK 103
DY PR+ K G K I +NG S + D Y +D K D K
Sbjct: 265 DYRAIPRVNKKNKKGEKREDILNTCNANNNNGNSSSSNAVSSPAYPDQYLIDYKKDFFSK 324
Query: 104 ISYNGGNRQIIRRNLPNPMGIAVHKSDVY 132
++ + Q+ NL + MG DVY
Sbjct: 325 QAFLTVSGQLSLENLCSSMG------DVY 347
>gnl|CDD|214872 smart00869, Autotransporter, Autotransporter beta-domain.
Secretion of protein products occurs by a number of
different pathways in bacteria. One of these pathways
known as the type IV pathway was first described for the
IgA1 protease. The protein component that mediates
secretion through the outer membrane is contained within
the secreted protein itself, hence the proteins secreted
in this way are called autotransporters. This family
corresponds to the presumed integral membrane
beta-barrel domain that transports the protein. This
domain is found at the C-terminus of the proteins it
occurs in. The N-terminus contains the variable
passenger domain that is translocated across the
membrane. Once the passenger domain is exported it is
cleaved auto-catalytically in some proteins, in others a
different peptidase is used and in some cases no
cleavage occurs.
Length = 268
Score = 28.3 bits (63), Expect = 6.8
Identities = 13/108 (12%), Positives = 32/108 (29%), Gaps = 15/108 (13%)
Query: 293 TTNPSSASSNLTNVVGVEFDYADDKILFTQIRPWAKIAWI------------PTTNPSSA 340
+ +E Y + P+A +A+ S
Sbjct: 109 AGRAKGSYDGTGYGASLEAGYRFYLGGGLTLTPFAGLAYSRVRQDGFTESGGGAFGLSVD 168
Query: 341 SSNLTNV---VGVEFDYADDKILFTQIRPWAKIAWIPTTNPSSASVNT 385
S +L ++ +G+ +Y + P+ ++A++ + V
Sbjct: 169 SQSLDSLSLPLGLRLEYRLALGDGATLTPYLRLAYVHDFYDDNPVVTA 216
Score = 28.3 bits (63), Expect = 7.6
Identities = 12/99 (12%), Positives = 32/99 (32%), Gaps = 15/99 (15%)
Query: 266 VGVEFDYADDKILFTQIRPWAKIAWI------------PTTNPSSASSNLTNV---VGVE 310
+E Y + P+A +A+ S S +L ++ +G+
Sbjct: 123 ASLEAGYRFYLGGGLTLTPFAGLAYSRVRQDGFTESGGGAFGLSVDSQSLDSLSLPLGLR 182
Query: 311 FDYADDKILFTQIRPWAKIAWIPTTNPSSASSNLTNVVG 349
+Y + P+ ++A++ + + +
Sbjct: 183 LEYRLALGDGATLTPYLRLAYVHDFYDDNPVVTASLLGS 221
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 0.134 0.413
Gapped
Lambda K H
0.267 0.0609 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,705,041
Number of extensions: 1947711
Number of successful extensions: 1494
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1493
Number of HSP's successfully gapped: 18
Length of query: 407
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 308
Effective length of database: 6,546,556
Effective search space: 2016339248
Effective search space used: 2016339248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.1 bits)