RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12413
(192 letters)
>gnl|CDD|223248 COG0170, SEC59, Dolichol kinase [Lipid metabolism].
Length = 216
Score = 41.2 bits (97), Expect = 1e-04
Identities = 29/134 (21%), Positives = 56/134 (41%), Gaps = 13/134 (9%)
Query: 43 LRKYFHLLAVAVYIPGLVFNRCLLYLASGVVLALFLVLEIMRILCLPPLSDVLNQGFHMY 102
RK H+ +++ ++ ++ + L ++L + L+ + L +P L +
Sbjct: 20 RRKLLHISGGLLFLLYILRDKFAIILFLLILLIILLLEFELFRLLIPGLEGKVTLLLSEL 79
Query: 103 VD------EKDSTVALTPLYLLTGCSLPLWLSPGPLDQADMLSLSAGILSIGVGDCFASM 156
+ EK+ +Y + G L L P + AGIL + +GD AS+
Sbjct: 80 LSLIEREREKNGPGLGGIIYFIGGGLLASLLFPIEV-------AIAGILVLALGDGLASI 132
Query: 157 VGFKYGKHKWKSKT 170
+G +YG+HK
Sbjct: 133 IGKRYGRHKRILGN 146
>gnl|CDD|216329 pfam01148, CTP_transf_1, Cytidylyltransferase family. The members
of this family are integral membrane protein
cytidylyltransferases. The family includes phosphatidate
cytidylyltransferase EC:2.7.7.41 as well as Sec59 from
yeast. Sec59 is a dolichol kinase EC:2.7.1.108.
Length = 259
Score = 32.0 bits (73), Expect = 0.15
Identities = 32/158 (20%), Positives = 53/158 (33%), Gaps = 20/158 (12%)
Query: 11 LVLLVIYWVACVLIAIAVIAFQ---ISSNQKATTSLRKYFHLLAVAVYIPGLVFNRCLLY 67
L+ L ++ AI ++A K ++ L L + Y+ GL+
Sbjct: 17 LLFLGPLIFLLLVAAIIILALYELIRLLRLKFSSRLLLLTRGLGLIFYLLGLLLVYGEGL 76
Query: 68 LASGVVLALFLVLEIMRILCLPPLSDVLNQGFHMYVDEKDSTVALTPLYLLTGCSLPLWL 127
LA ++ L + + + +L + V + L L L L L
Sbjct: 77 LALFGLVLLVIPVLWLLVLPVLAYHRVS-----------------STLLPLFYVGLFLSL 119
Query: 128 SPGPLDQADMLSLSAGILSIGVGDCFASMVGFKYGKHK 165
+L IL + D A VG +GKHK
Sbjct: 120 LLITNPFFGLLWALLLILVVWASDIGAYFVGKAFGKHK 157
>gnl|CDD|176022 cd08376, C2B_MCTP_PRT, C2 domain second repeat found in Multiple C2
domain and Transmembrane region Proteins (MCTP). MCTPs
are involved in Ca2+ signaling at the membrane. MCTP is
composed of a variable N-terminal sequence, three C2
domains, two transmembrane regions (TMRs), and a short
C-terminal sequence. It is one of four protein classes
that are anchored to membranes via a transmembrane
region; the others being synaptotagmins, extended
synaptotagmins, and ferlins. MCTPs are the only
membrane-bound C2 domain proteins that contain two
functional TMRs. MCTPs are unique in that they bind Ca2+
but not phospholipids. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-II topology.
Length = 116
Score = 28.8 bits (65), Expect = 0.91
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 148 GVGDCFASMVGFKYGKHKWKSKTIWIILLPK 178
G+ D + V F+ G K+KSK L P+
Sbjct: 19 GLSDPY---VKFRLGNEKYKSKVCSKTLNPQ 46
>gnl|CDD|225892 COG3356, COG3356, Predicted membrane protein [Function unknown].
Length = 578
Score = 29.0 bits (65), Expect = 1.6
Identities = 8/55 (14%), Positives = 20/55 (36%)
Query: 3 VYINILHSLVLLVIYWVACVLIAIAVIAFQISSNQKATTSLRKYFHLLAVAVYIP 57
++ + ++ + VL+AI + + S R L++ +P
Sbjct: 79 SFLAFVSLVIWSTFLVLLLVLLAIRPVDVSLILAVALVLSFRFLIVLVSYKNSVP 133
>gnl|CDD|197875 smart00788, Adenylsucc_synt, Adenylosuccinate synthetase.
Adenylosuccinate synthetase plays an important role in
purine biosynthesis, by catalyzing the GTP-dependent
conversion of IMP and aspartic acid to AMP.
Adenylosuccinate synthetase has been characterized from
various sources ranging from Escherichia coli (gene
purA) to vertebrate tissues. In vertebrates, two
isozymes are present - one involved in purine
biosynthesis and the other in the purine nucleotide
cycle. The crystal structure of adenylosuccinate
synthetase from E. coli reveals that the dominant
structural element of each monomer of the homodimer is
a central beta-sheet of 10 strands. The first nine
strands of the sheet are mutually parallel with
right-handed crossover connections between the strands.
The 10th strand is antiparallel with respect to the
first nine strands. In addition, the enzyme has two
antiparallel beta-sheets, comprised of two strands and
three strands each, 11 alpha-helices and two short
3/10-helices. Further, it has been suggested that the
similarities in the GTP-binding domains of the
synthetase and the p21ras protein are an example of
convergent evolution of two distinct families of
GTP-binding proteins. Structures of adenylosuccinate
synthetase from Triticum aestivum and Arabidopsis
thaliana when compared with the known structures from
E. coli reveals that the overall fold is very similar
to that of the E. coli protein.
Length = 417
Score = 28.2 bits (64), Expect = 2.7
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 9/42 (21%)
Query: 44 RKY-FHLLAVAVYIP-GLVFNRCLLYLASGVVLALF-LVLEI 82
+KY HL +P G++ + +GVV+ L EI
Sbjct: 46 KKYKLHL------LPSGILNPNKKNVIGNGVVIDPEALFKEI 81
>gnl|CDD|176004 cd04039, C2_PSD, C2 domain present in Phosphatidylserine
decarboxylase (PSD). PSD is involved in the
biosynthesis of aminophospholipid by converting
phosphatidylserine (PtdSer) to phosphatidylethanolamine
(PtdEtn). There is a single C2 domain present and it is
thought to confer PtdSer binding motif that is common to
PKC and synaptotagmin. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 108
Score = 26.4 bits (59), Expect = 4.8
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 77 FLVLEIMRILCLPPLSDVLNQGFHM 101
+ +EI I LPPL ++ GF M
Sbjct: 2 VVFMEIKSITDLPPLKNMTRTGFDM 26
>gnl|CDD|238922 cd01947, Guanosine_kinase_like, Guanosine kinase-like sugar
kinases. Found in bacteria and archaea, the guanosine
kinase-like group is part of the ribokinase/pfkB sugar
kinase superfamily. Its oligomerization state is unknown
at this time.
Length = 265
Score = 27.0 bits (60), Expect = 5.8
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 146 SIGVGDCFASMVGFKYGKHKWKSKTIWIILLPKCG 180
S G GD FA+ GF YG K S + L +CG
Sbjct: 223 STGAGDSFAA--GFIYGLLKGWSIEEALELGAQCG 255
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 0.144 0.450
Gapped
Lambda K H
0.267 0.0847 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,817,097
Number of extensions: 909478
Number of successful extensions: 1359
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1354
Number of HSP's successfully gapped: 69
Length of query: 192
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 100
Effective length of database: 6,857,034
Effective search space: 685703400
Effective search space used: 685703400
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 (25.1 bits)