RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14955
(191 letters)
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 77.3 bits (191), Expect = 6e-18
Identities = 41/115 (35%), Positives = 70/115 (60%), Gaps = 8/115 (6%)
Query: 69 EVIFTGIYTFESAVKVMARGFILESFTYLRDAWNWLDFIVIALAYVTM-----GIDLGNL 123
+ +FT I+T E +K +A GF Y R WN LDF+V+ + V++ G D G L
Sbjct: 3 DYVFTVIFTLEMLLKFIALGFK---RKYFRSPWNILDFLVVLPSLVSLILFLLGEDSGLL 59
Query: 124 AALRTFRVLRALKTVAIVPGLKTIVGAVIESVKNLRDVIILTMFSLSVFALMGLQ 178
LR R+LR L+ + PGL+T++ ++ S+K+L ++++L + L +FA++G+Q
Sbjct: 60 RVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLFIFAIIGVQ 114
>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel. This family
contains the cation channel region of PKD1 and PKD2
proteins.
Length = 423
Score = 32.7 bits (75), Expect = 0.11
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 70 VIFTGIYTFESAVKVMARGFILESFTYLRDAWNWLDFIVIALAYVTMGI 118
++F + K+ E YLR WN LD ++AL+ V + +
Sbjct: 216 LVFVLYFVVAEITKIR-----REGPRYLRSVWNLLDLAIVALSVVVIVL 259
>gnl|CDD|191371 pfam05778, Apo-CIII, Apolipoprotein CIII (Apo-CIII). This family
consists of several mammalian apolipoprotein CIII
(Apo-CIII) sequences. Apolipoprotein C-III is a
79-residue glycoprotein. It is synthesised in the
intestine and liver as part of the very low density
lipoprotein (VLDL) and the high density lipoprotein
(HDL) particles. Owing to its positive correlation with
plasma triglyceride (Tg) levels, Apo-CIII is suggested
to play a role in Tg metabolism and is therefore of
interest regarding atherosclerosis. However, unlike
other apolipoproteins such as Apo-AI, Apo E or CII for
which many naturally occurring mutations are known, the
structure-function relationships of apo C-III remains a
subject of debate. One possibility is that apo C-III
inhibits lipoprotein lipase (LPL) activity, as shown by
in vitro experiments. Another suggestion, is that
elevated levels of Apo-CIII displace other
apolipoproteins at the lipoprotein surface, modifying
their clearance from plasma.
Length = 70
Score = 29.5 bits (66), Expect = 0.21
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 79 ESAVKVMARGFILESFTYLRDAW 101
ES V ARG++ +SF+ L+D W
Sbjct: 31 ESQVAQQARGWMTDSFSSLKDYW 53
>gnl|CDD|226457 COG3948, COG3948, Phage-related baseplate assembly protein [General
function prediction only].
Length = 306
Score = 30.2 bits (68), Expect = 0.55
Identities = 27/63 (42%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 109 IALAYVTMGIDLGNLAALRTFRVLRALKTVAIVPGLKTIVGAVIESVKNLRDVIILTMFS 168
+ +AY DL LAA F V R L V PG VGAV+ES LR I L
Sbjct: 83 VMVAY-AEDADLDQLAAN--FNVKR-LTVVPGDPGAVPPVGAVMESDDALRKRIQLAPEG 138
Query: 169 LSV 171
LSV
Sbjct: 139 LSV 141
>gnl|CDD|233266 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase.
[Cell envelope, Biosynthesis and degradation of murein
sacculus and peptidoglycan].
Length = 433
Score = 30.4 bits (69), Expect = 0.60
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 12/91 (13%)
Query: 83 KVMARGFILESFTYLRDAWNWLDFIVIALAYVTMGIDLGNLA-ALRTFRVLR-ALKTVAI 140
+ + S L +A N L IALA ++G++L + ALR+F+ L L+ V
Sbjct: 249 LYLKPNDLEGSLLGLHNAENIL--AAIALA-KSLGLNLEAILEALRSFKGLPHRLEYVGQ 305
Query: 141 VPGLK-------TIVGAVIESVKNLRDVIIL 164
G+ T V A + ++ + +IL
Sbjct: 306 KNGVHFYNDSKATNVHATLAALSAFDNPVIL 336
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 29.6 bits (67), Expect = 1.1
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 4/66 (6%)
Query: 80 SAVKVMARGFILESFTYLRDAWNWLDFIVIAL--AYVTMGIDLGNLAALRTFRVLRALKT 137
S ++ M + I E YLRD V+ + + L AAL +VL
Sbjct: 266 SELEEMRQR-IKERRDYLRDGLEAAGLSVLPSQAGFFLL-TGLDPEAALALAQVLLEEVG 323
Query: 138 VAIVPG 143
V + PG
Sbjct: 324 VYVTPG 329
>gnl|CDD|227598 COG5273, COG5273, Uncharacterized protein containing DHHC-type Zn
finger [General function prediction only].
Length = 309
Score = 28.6 bits (64), Expect = 2.2
Identities = 12/80 (15%), Positives = 26/80 (32%), Gaps = 11/80 (13%)
Query: 39 HPLFSLFIITTILTNCILMIMPGTPTIESTEVIFTGIYTFESAVKVMARGFILESFTYLR 98
+ F F++ TIL ++++ ST GI++ + I
Sbjct: 152 YRFFYQFLLYTILVALVVLL--------STAYYIAGIFSIRHDTSLAICFLIFGCSLLGV 203
Query: 99 DAWNWLDFIVIALAYVTMGI 118
+ + L ++ I
Sbjct: 204 VFF---IITTLLLLFLIYLI 220
>gnl|CDD|218394 pfam05035, DGOK, 2-keto-3-deoxy-galactonokinase.
2-keto-3-deoxy-galactonokinase EC:2.7.1.58 catalyzes the
second step in D-galactonate degradation.
Length = 287
Score = 27.5 bits (62), Expect = 3.8
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 112 AYVTMGIDLGNLAALRTFRVLRALKTVAIVPGLK 145
Y+ L +LAA RV V IVPGL
Sbjct: 71 PYLACPAALADLAA-ALVRVEAPGLDVRIVPGLS 103
>gnl|CDD|205924 pfam13750, Big_3_3, Bacterial Ig-like domain (group 3). This
family consists of bacterial domains with an Ig-like
fold. Members of this family are found in a variety of
bacterial surface proteins.
Length = 157
Score = 27.0 bits (60), Expect = 4.3
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 108 VIALAYVTMGIDLGNLAALRTFRVLRALKTVAIVPGLKTIVGAVIESVKNLRDVI--ILT 165
+++ A T G + L+T +V TV+I G GAV+ ++NLR +
Sbjct: 19 LVSNATDTFG-NTTTKTPLQTIKVDNTPPTVSISFGKPISDGAVVNGLENLRITLTDAAD 77
Query: 166 MFSLSVFALMG 176
SL+ L G
Sbjct: 78 EPSLTSIQLSG 88
>gnl|CDD|215637 PLN03223, PLN03223, Polycystin cation channel protein; Provisional.
Length = 1634
Score = 27.6 bits (61), Expect = 5.0
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 96 YLRDAWNWLDFIVIALAYVTM 116
Y WN++DF I L T+
Sbjct: 1210 YFLSGWNYVDFASIGLHLATI 1230
>gnl|CDD|176556 cd08619, PI-PLCXDc_plant, Catalytic domain of
phosphatidylinositol-specific phospholipase C, X domain
containing proteins found in plants. The CD corresponds
to the catalytic domain present in uncharacterized plant
phosphatidylinositol-specific phospholipase C, X domain
containing proteins (PI-PLCXD). The typical eukaryotic
phosphoinositide-specific phospholipase C (PI-PLC, EC
3.1.4.11) has a multidomain organization that consists
of a PLC catalytic core domain, and various regulatory
domains. The catalytic core domain is assembled from two
highly conserved X- and Y-regions split by a divergent
linker sequence. In contrast, plant PI-PLCXDs contain a
single TIM-barrel type catalytic domain, X domain, and
are more closely related to bacterial PI-PLCs, which
participate in Ca2+-independent PI metabolism,
hydrolyzing the membrane lipid phosphatidylinositol (PI)
to produce phosphorylated myo-inositol and
diacylglycerol (DAG). Although the biological function
of plant PI-PLCXDs still remains unclear, it may
distinct from that of typical eukaryotic PI-PLCs.
Length = 285
Score = 26.7 bits (59), Expect = 7.0
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 80 SAVKVMARGFILESF-TYLRDAWNW--LDFIVIALAYVTMGI 118
+ AR FI E F L D LDFI + +G+
Sbjct: 240 RRISQYARLFIPEVFKRGLADRLQIFSLDFIDLDFVDACIGL 281
>gnl|CDD|223390 COG0313, COG0313, Predicted methyltransferases [General function
prediction only].
Length = 275
Score = 26.8 bits (60), Expect = 7.7
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 120 LGNLAALRTFRVLRALKTVAIV 141
+GNLA + T R L LK V ++
Sbjct: 14 IGNLADI-TLRALEVLKEVDVI 34
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
0.329 0.142 0.418
Gapped
Lambda K H
0.267 0.0678 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,060,302
Number of extensions: 985904
Number of successful extensions: 1369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1363
Number of HSP's successfully gapped: 52
Length of query: 191
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 100
Effective length of database: 6,901,388
Effective search space: 690138800
Effective search space used: 690138800
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: 56 (25.5 bits)