RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13574
(145 letters)
>gnl|CDD|233147 TIGR00840, b_cpa1, sodium/hydrogen exchanger 3. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36)The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals.Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in(1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles.This model is specific for the
eukaryotic members members of this family [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 559
Score = 131 bits (332), Expect = 7e-37
Identities = 47/121 (38%), Positives = 71/121 (58%), Gaps = 1/121 (0%)
Query: 1 MFVTTTIAVIYFTVFFQGITIKPLVKILNVKTAERRKPSMNERIHERLMDHVMAGIEDIL 60
+FVTTT+ V++FTV FQG TIKPLV++L VK K +NE +H+R DH++ GIEDI
Sbjct: 388 LFVTTTLVVVFFTVIFQGGTIKPLVEVLKVKKGCISKTKINEELHDREFDHLLPGIEDIC 447
Query: 61 GRHGNHHVRDRFKRFDNRFIRPYLLRDHQQGAEPKILETYSKLAMKDAMEFMRRNASTIG 120
G+ G+ D+ FD +++ L+R I+ Y KL +K A+ + + +
Sbjct: 448 GQIGHDRAIDKLNGFDIKYLLKPLIR-RNSPKSSDIVAVYHKLNLKQAISLVEGGSLSFV 506
Query: 121 G 121
G
Sbjct: 507 G 507
>gnl|CDD|223104 COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic
ion transport and metabolism].
Length = 429
Score = 31.1 bits (71), Expect = 0.15
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 3 VTTTIAVIYFTVFFQGITIKPLVKILNVKTAERR 36
+ VI F++ QG+T+ PL K L V
Sbjct: 380 LFIVFLVILFSLLVQGLTLPPLAKKLEVSEESAL 413
>gnl|CDD|224428 COG1511, COG1511, Predicted membrane protein [Function unknown].
Length = 780
Score = 29.4 bits (66), Expect = 0.77
Identities = 6/34 (17%), Positives = 12/34 (35%)
Query: 7 IAVIYFTVFFQGITIKPLVKILNVKTAERRKPSM 40
+ G+ +K + K +E+ K S
Sbjct: 746 LIGFLILFIIGGLFLKLPLDKKLKKVSEKAKKSG 779
>gnl|CDD|198029 smart00961, RuBisCO_small, Ribulose bisphosphate carboxylase,
small chain. RuBisCO (ribulose-1,5-bisphosphate
carboxylase/oxygenase) is a bifunctional enzyme that
catalyses both the carboxylation and oxygenation of
ribulose-1,5-bisphosphate (RuBP), thus fixing carbon
dioxide as the first step of the Calvin cycle. RuBisCO
is the major protein in the stroma of chloroplasts, and
in higher plants exists as a complex of 8 large and 8
small subunits. The function of the small subunit is
unknown. While the large subunit is coded for by a
single gene, the small subunit is coded for by several
different genes, which are distributed in a tissue
specific manner. They are transcriptionally regulated
by light receptor phytochrome. which results in RuBisCO
being more abundant during the day when it is required.
Length = 96
Score = 26.3 bits (59), Expect = 2.7
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 44 IHERLMDHVMAGIEDILGRHGNHHVR 69
V+A +E L H +VR
Sbjct: 51 FGATDAAEVLAELEACLAEHPGEYVR 76
>gnl|CDD|236159 PRK08134, PRK08134, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 433
Score = 26.6 bits (59), Expect = 5.4
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 76 DNRFIRPYLLRDHQQGAEPKILETYSKLAMKDAMEFMRRNASTIGGGSITG 126
D+ F PYLLR + GA+ L A +F+ + + IGG + G
Sbjct: 185 DSTFTTPYLLRPFEHGAD---------LVYHSATKFLGGHGTAIGGVLVDG 226
>gnl|CDD|221360 pfam11988, Dsl1_N, Retrograde transport protein Dsl1 N terminal.
Dsl1 is a peripheral membrane protein required for
transport between the Golgi and the endoplasmic
reticulum. It is localised to the ER membrane, and in
vitro it specifically binds to coatomer, the major
component of the protein coat of COPI vesicles. It is
comprised primarily of alpha helical bundles. It
complexes with another subunit of the Dsl1p complex
called Tip20 which forms heterodimers by pairing the N
termini of each protein. A central disorganised region
between the N and C termini of Dsl1 contains binding
sites for coatomer. The C terminus of Dsl1 contains a
binding site to the Sec39 subunit of the Dsl1p complex.
Length = 353
Score = 26.6 bits (59), Expect = 5.7
Identities = 11/57 (19%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 63 HGNHHVRDRFKRFDNRFIRPYLLRDHQQGAEPKILETYSKLAMKDAMEFMRRNASTI 119
+G + D+ + F+N + +LL + ++L + + ++F+++NAS +
Sbjct: 236 NGLDCLADKIESFEN--LADFLLNGLSPHDKNQLLMKLGPAILTELLKFVKQNASEL 290
>gnl|CDD|239119 cd02653, nuc_hydro_3, NH_3: A subgroup of nucleoside hydrolases.
This group contains eukaryotic and bacterial proteins
similar to nucleoside hydrolases. Nucleoside hydrolases
cleave the N-glycosidic bond in nucleosides generating
ribose and the respective base. These enzymes vary in
their substrate specificity. .
Length = 320
Score = 26.2 bits (58), Expect = 7.4
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 16 FQGITIKPLVKILNVKTAERRKPSMNERIHERLMDHVMAGIEDIL 60
F G ++P + L+V A P++ ER+ R D V A IED L
Sbjct: 178 FGGHPVRPTICGLDVTRAVVLTPNLLERLA-RAKDSVGAFIEDAL 221
>gnl|CDD|236201 PRK08248, PRK08248, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 431
Score = 26.0 bits (57), Expect = 8.3
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 9/46 (19%)
Query: 76 DNRFIRPYLLRDHQQGAEPKILETYSKLAMKDAMEFMRRNASTIGG 121
DN F PYLLR + GA+ + + A +F+ + ++IGG
Sbjct: 185 DNTFASPYLLRPIEHGAD---------IVVHSATKFIGGHGTSIGG 221
>gnl|CDD|139906 PRK13846, PRK13846, putative glycerol-3-phosphate acyltransferase
PlsX; Provisional.
Length = 316
Score = 25.9 bits (57), Expect = 8.3
Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 10/91 (10%)
Query: 40 MNERIHERLM--DH----VMAGIEDIL-GRHGNHHVRDRFKRFDNRFIRPYLLRDHQQGA 92
M +I LM DH V + D+L V F F + + +L +
Sbjct: 1 MKVQIGIDLMGGDHSPLVVWEVLGDVLLSSSSEQPVE--FTVFASSEVHHQILSNSPLSR 58
Query: 93 EPKILETYSKLAMKDA-MEFMRRNASTIGGG 122
P+I+ ++M+D+ + +R+ +S++ G
Sbjct: 59 SPRIITAEDFVSMEDSPLAAIRKKSSSMALG 89
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 25.9 bits (58), Expect = 8.8
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 31 KTAERRKPSMNERIHERLMDH 51
K AE R+ SM++ I +R
Sbjct: 205 KRAEMREMSMSQWIKKRCDKV 225
>gnl|CDD|240091 cd04740, DHOD_1B_like, Dihydroorotate dehydrogenase (DHOD) class 1B
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
Length = 296
Score = 25.6 bits (57), Expect = 9.8
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 106 KDAMEFMRRNASTIGGGS--ITGTDSMSAIFR 135
+DA+EF+ AS + G+ ++ I
Sbjct: 244 EDALEFLMAGASAVQVGTANFVDPEAFKEIIE 275
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
0.326 0.139 0.407
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,618,153
Number of extensions: 704972
Number of successful extensions: 934
Number of sequences better than 10.0: 1
Number of HSP's gapped: 933
Number of HSP's successfully gapped: 26
Length of query: 145
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 57
Effective length of database: 7,034,450
Effective search space: 400963650
Effective search space used: 400963650
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.7 bits)