RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8527
(209 letters)
>gnl|CDD|217643 pfam03619, Solute_trans_a, Organic solute transporter Ostalpha.
This family is a transmembrane organic solute transport
protein. In vertebrates these proteins form a complex
with Ostbeta, and function as bile transporters. In
plants they may transport brassinosteroid-like compounds
and act as regulators of cell death.
Length = 272
Score = 136 bits (345), Expect = 9e-40
Identities = 57/104 (54%), Positives = 66/104 (63%), Gaps = 3/104 (2%)
Query: 101 AQGLASAFVGAALFLTCQQIYMHLKWYTNPAEQRWIIRILFIVPIYALHSLVSLLFFNNE 160
A +A FV AL ++ I HL YT P EQR IIRIL +VPIYA+ S +SLLF
Sbjct: 4 AILIAGLFVLLALLISLFLILQHLTNYTKPEEQRLIIRILLMVPIYAVISFLSLLFP--- 60
Query: 161 NYYIYFFTIRDCYEAFVIYSFLSLCYEYLGGEGNIMSEIRGKPI 204
IYF IRDCYEAFVIY+F SL YLGGE NI+ + GKP
Sbjct: 61 KAAIYFDLIRDCYEAFVIYTFFSLLIAYLGGERNIIRLLEGKPP 104
Score = 78.4 bits (194), Expect = 1e-17
Identities = 33/54 (61%), Positives = 36/54 (66%), Gaps = 3/54 (5%)
Query: 1 MHLKWYTNPAEQRWIIRILFIVPIYALHSLVSLLFFNNENYYIYFFTIRDCYEA 54
HL YT P EQR IIRIL +VPIYA+ S +SLLF IYF IRDCYEA
Sbjct: 25 QHLTNYTKPEEQRLIIRILLMVPIYAVISFLSLLFP---KAAIYFDLIRDCYEA 75
>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction
only].
Length = 296
Score = 27.4 bits (61), Expect = 5.6
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 2/49 (4%)
Query: 46 FTIRDCYEARPLTEVVTATIPPQEILAEMTSTSTVAPTIFPFIQPVHPI 94
F + A P E +A P + + A + Q V P+
Sbjct: 153 FVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEA--LGRLFQEVKPV 199
>gnl|CDD|241150 cd12706, RRM_LARP5, RNA recognition motif in vertebrate La-related
protein 5 (LARP5 or LARP4B). This subgroup corresponds
to the RRM of LARP5, a cytosolic protein that
co-sediments with polysomes and accumulates upon stress
induction in cellular stress granules. It can interact
with the cytosolic poly(A) binding protein 1 (PABPC1)
and the receptor for activated C Kinase (RACK1), a
component of the 40S ribosomal subunit. LARP5 may
function as a stimulatory factor of translation through
bridging mRNA factors of the 3' end with initiating
ribosomes. Like other La-related proteins (LARPs) family
members, LARP5 contains a La motif (LAM) and an RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain). .
Length = 77
Score = 25.8 bits (56), Expect = 5.9
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 13/60 (21%)
Query: 148 LHSLVSLLFFNNENYYIYFFTIRDCYEAFVIYSFLSLCYEYLGGEGNIMSEIRGKPIKAR 207
L ++ F N+N++I F + D +A Y+YL E + +GKPIKAR
Sbjct: 26 LPKFINCEFAYNDNWFITFESEADAQQA----------YKYLREE---VKTFQGKPIKAR 72
>gnl|CDD|240876 cd12430, RRM_LARP4_5_like, RNA recognition motif in La-related
protein 4 (LARP4), La-related protein 5 (LARP5 or
LARP4B) and similar proteins. This subfamily
corresponds to the RRM of LARP4 and LARP5. LARP4 is a
cytoplasmic factor that can bind poly(A) RNA and
interact with poly(A) binding protein (PABP). It may
play a role in promoting translation by stabilizing
mRNA. LARP5 is a cytosolic protein that co-sediments
with polysomes and accumulates upon stress induction in
cellular stress granules. It can interact with the
cytosolic poly(A) binding protein 1 (PABPC1) and the
receptor for activated C Kinase (RACK1), a component of
the 40S ribosomal subunit. LARP5 may function as a
stimulatory factor of translation through bridging mRNA
factors of the 3' end with initiating ribosomes. Both,
LARP4 and LARP5, are structurally related to the La
autoantigen. Like other La-related proteins (LARPs)
family members, LARP4 and LARP5 contain a La motif (LAM)
and an RNA recognition motif (RRM), also termed RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 76
Score = 25.8 bits (57), Expect = 6.0
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 13/56 (23%)
Query: 152 VSLLFFNNENYYIYFFTIRDCYEAFVIYSFLSLCYEYLGGEGNIMSEIRGKPIKAR 207
S F N ++++ F T D EA Y YL E +GKPI AR
Sbjct: 30 TSCRFDINNSWFVTFETEEDAQEA----------YRYLREEVK---TFQGKPIMAR 72
>gnl|CDD|241151 cd12707, RRM_LARP4, RNA recognition motif in vertebrate La-related
protein 4 (LARP4). This subgroup corresponds to the RRM
of LARP4, a cytoplasmic factor that can bind poly(A) RNA
and interact with poly(A) binding protein (PABP). It may
play a role in promoting translation by stabilizing
mRNA. LARP4 is structurally related to the La
autoantigen. Like other La-related proteins (LARPs)
family members, LARP4 contains a La motif (LAM) and an
RNA recognition motif (RRM), also termed RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 77
Score = 25.8 bits (56), Expect = 7.3
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 13/57 (22%)
Query: 151 LVSLLFFNNENYYIYFFTIRDCYEAFVIYSFLSLCYEYLGGEGNIMSEIRGKPIKAR 207
++S F +N N+YI F + D +AF YL E + +GKPI AR
Sbjct: 29 VISCEFAHNNNWYITFQSDTDAQQAF----------RYLREE---VKTFQGKPIMAR 72
>gnl|CDD|132856 cd07217, Pat17_PNPLA8_PNPLA9_like4, Patatin-like phospholipase.
Patatin is a storage protein of the potato tuber that
shows Phospholipase A2 activity (PLA2; EC 3.1.1.4).
Patatin catalyzes the nonspecific hydrolysis of
phospholipids, glycolipids, sulfolipids, and mono- and
diacylglycerols, thereby showing lipid acyl hydrolase
activity. The active site includes an oxyanion hole with
a conserved GGxR motif; it is found in almost all the
members of this family. The catalytic dyad is formed by
a serine and an aspartate. Patatin belongs to the
alpha-beta hydrolase family which is identified by a
characteristic nucleophile elbow with a consensus
sequence of Sm-X-Nu-Sm (Sm = small residue, X = any
residue and Nu = nucleophile). Members of this family
have been found also in vertebrates. This family
includes subfamily of PNPLA8 (iPLA2-gamma) and PNPLA9
(iPLA2-beta) like phospholipases from human as well as
the Pat17 isozyme from Solanum cardiophyllum.
Length = 344
Score = 27.1 bits (60), Expect = 8.2
Identities = 26/100 (26%), Positives = 30/100 (30%), Gaps = 33/100 (33%)
Query: 34 LFFNNENYYIYFFTIRDCYEARPLTEVVTATIPPQEILAEMTSTSTVAPTIFPFIQPVHP 93
NN DC PL ++V A ST APT FP P
Sbjct: 138 PVCNNPEAKYNDSDRSDCNLDLPLWQLVRA--------------STAAPTFFP------P 177
Query: 94 IFLQTKTAQGLASAFVGAALFLTCQQIYMHLKWYTNPAEQ 133
+ A G A FV + Y NPA Q
Sbjct: 178 EVV--SIAPGTAFVFVDGGVTT-----------YNNPAFQ 204
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
0.330 0.143 0.455
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,154,588
Number of extensions: 1066281
Number of successful extensions: 1423
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1408
Number of HSP's successfully gapped: 55
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
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 (21.9 bits)
S2: 57 (25.7 bits)