RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17735
(96 letters)
>gnl|CDD|176072 cd08690, C2_Freud-1, C2 domain found in 5' repressor element under
dual repression binding protein-1 (Freud-1). Freud-1 is
a novel calcium-regulated repressor that negatively
regulates basal 5-HT1A receptor expression in neurons.
It may also play a role in the altered regulation of
5-HT1A receptors associated with anxiety or major
depression. Freud-1 contains two DM-14 basic repeats, a
helix-loop-helix DNA binding domain, and a C2 domain.
The Freud-1 C2 domain is thought to be calcium
insensitive and it lacks several acidic residues that
mediate calcium binding of the PKC C2 domain. In
addition, it contains a poly-basic insert that is not
present in calcium-dependent C2 domains and may function
as a nuclear localization signal. 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 first C2
repeat, C2A, and has a type-II topology.
Length = 155
Score = 125 bits (317), Expect = 1e-38
Identities = 46/68 (67%), Positives = 55/68 (80%)
Query: 25 RGFFRSDTLVGTVNVKLQPLETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQ 84
GF RSD L+GT VKL+PLETKC IH++ DLMDGRK GGKLEVK+R+R P+ KQLE+
Sbjct: 88 GGFLRSDKLLGTAQVKLEPLETKCEIHESVDLMDGRKATGGKLEVKVRLREPLTGKQLEE 147
Query: 85 VKEKWLVI 92
+ EKWLVI
Sbjct: 148 ITEKWLVI 155
>gnl|CDD|218800 pfam05895, DUF859, Siphovirus protein of unknown function (DUF859).
This family consists of several uncharacterized
proteins from the Siphoviruses as well as one bacterial
sequence. Some of the members of this family are
described as putative minor structural proteins.
Length = 534
Score = 31.2 bits (71), Expect = 0.058
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 18 SLSFSTSRGFFRSDTLVGTVNVKLQPL 44
+LSFS R S+ LV T N K+ PL
Sbjct: 330 ALSFSVQRTGETSNQLVVTRNAKIAPL 356
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found in
cyanobacteria KaiC is a RecA-like ATPase, having both
Walker A and Walker B motifs. A related protein is found
in archaea.
Length = 187
Score = 27.3 bits (61), Expect = 1.2
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 19 LSFSTSRGFFRSDTLVGTVNVKLQPLETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIV 78
++ S + +++ E I DA G +LE+ R+++ I
Sbjct: 33 VTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAESSLRLELIQRLKDAI- 91
Query: 79 SKQLEQVKEKWLVIDSVS 96
E+ K K +VIDSVS
Sbjct: 92 ----EEFKAKRVVIDSVS 105
>gnl|CDD|235657 PRK05967, PRK05967, cystathionine beta-lyase; Provisional.
Length = 395
Score = 27.1 bits (60), Expect = 1.3
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 10/49 (20%)
Query: 30 SDTLVGTV--NVKLQP--LETKCTI------HDAYDLMDGRKTLGGKLE 68
SD L+GTV N K P LE T+ D Y ++ G +T+G +LE
Sbjct: 216 SDILLGTVSANEKCWPQLLEAHGTLGLCAGPDDTYQILRGLRTMGIRLE 264
>gnl|CDD|130391 TIGR01324, cysta_beta_ly_B, cystathionine beta-lyase, bacterial.
This model represents cystathionine beta-lyase
(alternate name: beta-cystathionase), one of several
pyridoxal-dependent enzymes of cysteine, methionine, and
homocysteine metabolism. This enzyme is involved in the
biosynthesis of Met from Cys [Amino acid biosynthesis,
Aspartate family].
Length = 377
Score = 25.6 bits (56), Expect = 4.3
Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 7 VLMLPLSHN-HQSLSFSTSRGFFRSDTLVGTVNVKL----QPLETKCTI------HDAYD 55
+L PL H S+ T SD ++GTV Q E + DAY
Sbjct: 178 LLFKPLEHGVDISIQAGTKYLVGHSDIMIGTVVANARTWDQLREHSYLMGQMVDADDAYT 237
Query: 56 LMDGRKTLGGKLE 68
+ G +TLG +L+
Sbjct: 238 TLRGLRTLGVRLK 250
>gnl|CDD|236541 PRK09496, trkA, potassium transporter peripheral membrane
component; Reviewed.
Length = 453
Score = 25.5 bits (57), Expect = 5.2
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 52 DAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSV 95
D + DGR L +EVK+ +P+V K L ++E + ID
Sbjct: 143 DVEEFADGRVQL---VEVKVYEGSPLVGKPLSDLREHFPDIDVR 183
>gnl|CDD|176009 cd04044, C2A_Tricalbin-like, C2 domain first repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2 domain
are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane trafficking
and sorting. 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 first C2
repeat, C2A, and has a type-II topology.
Length = 124
Score = 24.8 bits (55), Expect = 6.4
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 28 FRSDTLVGTVNVKLQPLETKCTIHDAY-DLMDGRKTLG 64
R D L+GT L L + +L+ K +G
Sbjct: 77 KRKDKLIGTAEFDLSSLLQNPEQENLTKNLLRNGKPVG 114
>gnl|CDD|215095 PLN00191, PLN00191, enolase.
Length = 457
Score = 25.1 bits (55), Expect = 6.9
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 10/44 (22%)
Query: 23 TSRGFFRSDTLVGTVNVKLQPLETKCTIHDAYDLMDGRKTLGGK 66
TS+G FR+ G I++A +L DG K GK
Sbjct: 51 TSKGMFRAAVPSGAST----------GIYEALELRDGDKDYLGK 84
>gnl|CDD|220668 pfam10271, Tmp39, Putative transmembrane protein. This is a
family of conserved proteins found from worms to
humans. They are putative transmembrane proteins but
the function is unknown.
Length = 423
Score = 25.1 bits (55), Expect = 7.4
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 1 MNIRHLVLMLPLSHNHQSLSF 21
+NI V LP SH+H SL+F
Sbjct: 52 LNIYKTVWWLPPSHSHTSLNF 72
>gnl|CDD|178304 PLN02701, PLN02701, alpha-mannosidase.
Length = 1050
Score = 25.1 bits (55), Expect = 7.8
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 12 LSHNHQSLSFSTSRGFFRS 30
+S++HQ+L F G R
Sbjct: 644 ISNSHQTLGFDVKTGLLRK 662
>gnl|CDD|183859 PRK13103, secA, preprotein translocase subunit SecA; Reviewed.
Length = 913
Score = 24.9 bits (54), Expect = 9.7
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 57 MDGRKT---LGGKLEVKI-RIRNPIVSKQLEQVKEKW 89
M GR T LGG EV++ + NP +Q+ Q+K W
Sbjct: 506 MAGRGTDILLGGNWEVEVAALENP-TPEQIAQIKADW 541
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
0.321 0.136 0.389
Gapped
Lambda K H
0.267 0.0683 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,687,502
Number of extensions: 366112
Number of successful extensions: 281
Number of sequences better than 10.0: 1
Number of HSP's gapped: 281
Number of HSP's successfully gapped: 18
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.3 bits)