RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5629
(203 letters)
>gnl|CDD|240098 cd04750, Commd2, COMM_Domain containing protein 2. The COMM Domain
is found at the C-terminus of a variety of proteins;
presumably all COMM_Domain containing proteins are
located in the nucleus and the COMM domain plays a role
in protein-protein interactions. Several family members
have been shown to bind and inhibit NF-kappaB.
Length = 166
Score = 85.1 bits (211), Expect = 4e-21
Identities = 51/166 (30%), Positives = 90/166 (54%), Gaps = 16/166 (9%)
Query: 26 DFCTLTTNYLKDGPNQKLYKSVSKKLSLPSADNVQDSVEGLVYFLLLATILNISEYDFCN 85
+FC L +L G NQK Y+ ++KL + + VQ VE LVY L+ +T L +SE DF +
Sbjct: 1 EFCKLAIEFLFKGINQKKYEGAARKLEV-EVETVQHGVEALVYLLIESTKLKLSERDFQD 59
Query: 86 TLYHMGFTQDDKCEKILYEFYTQEKYNLYRTLISEYISV-------------VATRSHLN 132
++ +GF+ D +IL + Y + + L + +A+RS +
Sbjct: 60 SIEFLGFSDDLN--EILLQLYESNRKEIRNILKELSPDLPHYHNLEWRLDVQIASRSLRS 117
Query: 133 QCEPKFTIRLHLENPDEQEKQIDLEMDVRSVLNITQILEEALSHAK 178
Q +P T++LHLE+ +++ + L+ D +++++TQ LE+AL +K
Sbjct: 118 QVKPVITMKLHLEDENKKIETHLLQTDPANLVHLTQTLEQALQESK 163
>gnl|CDD|219352 pfam07258, HCaRG, HCaRG protein. This family consists of several
mammalian HCaRG(hypertension-related, calcium-regulated
gene) proteins. HCaRG is negatively regulated by
extracellular calcium concentration, and its basal mRNA
levels are higher in hypertensive animals. HCaRG is a
nuclear protein potentially involved in the control of
cell proliferation.
Length = 177
Score = 39.9 bits (94), Expect = 3e-04
Identities = 31/177 (17%), Positives = 70/177 (39%), Gaps = 17/177 (9%)
Query: 13 LSVLFQLPPEVIQDFCTLTTNYLKDGPNQKLYKSVSKKLSLPSADNVQDSVEGLVYFLLL 72
LS+L +L E + + L N + + +++ LS+ S + ++ + L L
Sbjct: 1 LSLLNKLDSEQFRQLLRIVVESLLGKSNPEEVEKLAESLSI-SEEELKQLLAALTTLLKE 59
Query: 73 ATILNISEYDFCNTLYHMGFTQDDKCEKILYEFYTQEKYNLYRTLISEYISV-------- 124
A N+ E + L +G ++ + + + + + + L L+ +S+
Sbjct: 60 AAKHNLDEEELSQELEQLGLPEEHA--EAISKVWKENRKELREALLERSLSLPHLQDLDW 117
Query: 125 -----VATRSHLNQCEPKFTIRLHLENPDEQEKQIDLEMDVRSVLNITQILEEALSH 176
+++ S P ++L L N D +E + E+ + + + LE A
Sbjct: 118 RLDVQISSSSLAKVNSPVILLQLKLSNGDSKE-TVTFELSLEELQELLNELERAQKE 173
>gnl|CDD|226756 COG4306, COG4306, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 160
Score = 31.1 bits (70), Expect = 0.19
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 18 QLPPEVIQDFCTLTTNYLKDGPNQKLYKSVSKKLSLPSADNVQDSVEGLV 67
L P+ +Q F T T+ KD P ++ KK+ A +V V +V
Sbjct: 97 NLNPDEVQQFRTDLTDLTKDSPKTQVATLRFKKVMSKVATSVASGVRDIV 146
>gnl|CDD|176140 cd08449, PBP2_XapR, The C-terminal substrate binding domain of
LysR-type transcriptional regulator XapR involved in
xanthosine catabolism, contains the type 2 periplasmic
binding fold. In Escherichia coli, XapR is a positive
regulator for the expression of xapA gene, encoding
xanthosine phosphorylase, and xapB gene, encoding a
polypeptide similar to the nucleotide transport protein
NupG. As an operon, the expression of both xapA and xapB
is fully dependent on the presence of both XapR and the
inducer xanthosine. Expression of the xapR is
constitutive but not auto-regulated, unlike many other
LysR family proteins. This substrate-binding domain
shows significant homology to the type 2 periplasmic
binding proteins (PBP2), which are responsible for the
uptake of a variety of substrates such as phosphate,
sulfate, polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 197
Score = 30.3 bits (69), Expect = 0.54
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 13/68 (19%)
Query: 136 PKFTIRLHLENPDEQ-----EKQIDLEMDVRSV--LNITQILEEALSHAKL-----NQRK 183
P T+R H +P+ Q K+IDL VR LN + E L + +
Sbjct: 27 PNVTVRFHELSPEAQKAALLSKRIDLGF-VRFADTLNDPPLASELLWREPMVVALPEEHP 85
Query: 184 MSRRKQLS 191
++ RK L+
Sbjct: 86 LAGRKSLT 93
>gnl|CDD|131385 TIGR02332, HpaX, 4-hydroxyphenylacetate permease. This protein is
a part of the Major Facilitator Superfamily (Pfam family
pfam07690). Member of this family are found in a number
of proteobacterial genomes, but only in the context of
having genes for 4-hydroxyphenylacetate (4-HPA)
degradation. The protein is characterized by Prieto, et
al. (PMID:9315705) as 4-hydroxyphenylacetate permease in
E. coli, where 3-HPA and 3,4-dihydroxyphenylacetate are
shown to competitively inhibit 4-HPA transport and
therefore also interact specificially.
Length = 412
Score = 28.4 bits (63), Expect = 2.6
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 148 DEQEKQIDLEMDVRSVLNITQILEEALSHAKLNQRKMSR 186
DE++K+ EM L + Q E A +HA + QR M R
Sbjct: 200 DEEDKKALKEMIDNDQLTLEQ-PEGAFAHAAMPQRSMLR 237
>gnl|CDD|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase.
Length = 468
Score = 28.3 bits (63), Expect = 3.3
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 12/62 (19%)
Query: 140 IRLHL------ENPDEQEKQIDLEMDVRSVLN------ITQILEEALSHAKLNQRKMSRR 187
+RL+L E ++ + R +LN + +L+EA+ KLN R++ RR
Sbjct: 287 LRLYLSRNENGELTSSSNNDKVMKENSRKILNFPHDDKLKILLDEAIDQVKLNTRRLVRR 346
Query: 188 KQ 189
++
Sbjct: 347 QK 348
>gnl|CDD|144961 pfam01561, Hanta_G2, Hantavirus glycoprotein G2. The medium (M)
genome segment of hantaviruses (family Bunyaviridae)
encodes the two virion glycoproteins. G1 and G2, as a
precursor protein in the complementary sense RNA.
Length = 486
Score = 27.1 bits (60), Expect = 6.6
Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 137 KFTIRLHLENPDEQEKQIDLEMDVRSVLNITQILEEALSH---AKLNQR 182
K+T R L NP ++++I + + + +I + L H A+ N +
Sbjct: 35 KYTYRRKLTNPANEQEKIPFHLQIEKQVIHAEI--QHLGHWMDARFNLK 81
>gnl|CDD|118101 pfam09565, RE_NgoFVII, NgoFVII restriction endonuclease. This
family includes the NgoFVII (recognises GCSGC but
cleavage site unknown) restriction endonuclease.
Length = 296
Score = 27.0 bits (60), Expect = 7.2
Identities = 20/85 (23%), Positives = 28/85 (32%), Gaps = 7/85 (8%)
Query: 88 YHMGFTQDDKCEKILYEFYTQEKYNLYRTL--ISEYISVVATRSHLNQCE-----PKFTI 140
Y T D LYEF L+ + E V+ S L TI
Sbjct: 115 YEAVVTLDPAPAYDLYEFLLSNIVCLHVNIEDSIEPQIVIEYNSPLTTIAGVTGIADSTI 174
Query: 141 RLHLENPDEQEKQIDLEMDVRSVLN 165
+L + + I L++ S LN
Sbjct: 175 QLLMNKGFDYSFDIPLKVPESSNLN 199
>gnl|CDD|225727 COG3186, COG3186, Phenylalanine-4-hydroxylase [Amino acid transport
and metabolism].
Length = 291
Score = 26.6 bits (59), Expect = 9.3
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 88 YHMGFTQDDKCEKILYEFYTQEKYNLYRTLISEYISVVATRSH 130
Y FT D Y Q ++ ++RTLI ++ R+
Sbjct: 29 YRADFTTDQG-----VIDYPQAEHAVWRTLIDRQTKLLKGRAC 66
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
0.317 0.132 0.368
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,721,755
Number of extensions: 874255
Number of successful extensions: 755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 751
Number of HSP's successfully gapped: 23
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.8 bits)