RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3565
(168 letters)
>gnl|CDD|197784 smart00547, ZnF_RBZ, Zinc finger domain. Zinc finger domain in
Ran-binding proteins (RanBPs), and other proteins. In
RanBPs, this domain binds RanGDP.
Length = 25
Score = 40.0 bits (94), Expect = 1e-05
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 25 WDCSVCTYRNVAEAFKCSMCD 45
W+C CT+ N A KC C
Sbjct: 3 WECPACTFLNFASRSKCFACG 23
>gnl|CDD|201366 pfam00641, zf-RanBP, Zn-finger in Ran binding protein and others.
Length = 29
Score = 35.4 bits (82), Expect = 5e-04
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 22 ENYWDCSVCTYRNVAEAFKCSMCD 45
E WDCS C +N A + KC C
Sbjct: 1 EGDWDCSKCLVQNFATSTKCVACQ 24
>gnl|CDD|224508 COG1592, COG1592, Rubrerythrin [Energy production and conversion].
Length = 166
Score = 29.6 bits (67), Expect = 0.45
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 13 KRRRKQAKDENYWDCSVCTYRNVAEA-FKCSMCDVRKGTSTRK 54
+ ++ ++ W C VC Y + EA C +C K +
Sbjct: 123 RGLLERLEEGKVWVCPVCGYTHEGEAPEVCPICGAPKEKFEKF 165
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 28.8 bits (65), Expect = 1.5
Identities = 11/40 (27%), Positives = 21/40 (52%)
Query: 62 VAQVTQQYPVPATSKVGPKKEGGGKEKSENRKFKKHGRRK 101
+ ++ ++YP P K KK K+K + +K K ++K
Sbjct: 372 IEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKK 411
>gnl|CDD|219525 pfam07699, GCC2_GCC3, GCC2 and GCC3.
Length = 48
Score = 25.5 bits (56), Expect = 3.5
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 5/32 (15%)
Query: 27 CSVC---TYRNVAEAFKCSMCDVRKGTSTRKP 55
C C TY+ C C GT+T P
Sbjct: 11 CEPCPRGTYQPEEGQDSCIPCPP--GTTTLSP 40
>gnl|CDD|219406 pfam07420, DUF1509, Protein of unknown function (DUF1509). This
family consists of several uncharacterized viral
proteins from the Marek's disease-like viruses. Members
of this family are typically around 400 residues in
length. The function of this family is unknown.
Length = 377
Score = 27.3 bits (60), Expect = 4.4
Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 1/79 (1%)
Query: 45 DVRKGTSTRKPRITPDLVAQVTQQYPVPATSKVG-PKKEGGGKEKSENRKFKKHGRRKWN 103
D R GT I+ D P S G + + +S +R + G R++
Sbjct: 290 DNRAGTPDDGSAISEDSAGGSHHTMRRPPHSTSGERRGRRRNRSESRSRSRSRSGSRRYR 349
Query: 104 PPKLKHVDRTTAQTLEITV 122
+ + V +++ + TV
Sbjct: 350 RRRGRGVPGRRSESRQDTV 368
>gnl|CDD|176864 cd07822, SRPBCC_4, Ligand-binding SRPBCC domain of an
uncharacterized subfamily of proteins. Uncharacterized
group of the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily. SRPBCC domains have a deep hydrophobic
ligand-binding pocket and they bind diverse ligands.
SRPBCC domains include the steroidogenic acute
regulatory protein (StAR)-related lipid transfer (START)
domains of mammalian STARD1-STARD15, the C-terminal
catalytic domains of the alpha oxygenase subunit of
Rieske-type non-heme iron aromatic ring-hydroxylating
oxygenases (RHOs_alpha_C), Class I and II
phosphatidylinositol transfer proteins (PITPs), Bet v 1
(the major pollen allergen of white birch, Betula
verrucosa), CoxG, CalC, and related proteins. Other
members of the superfamily include PYR/PYL/RCAR plant
proteins, the aromatase/cyclase (ARO/CYC) domains of
proteins such as Streptomyces glaucescens
tetracenomycin, and the SRPBCC domains of Streptococcus
mutans Smu.440 and related proteins.
Length = 141
Score = 26.5 bits (59), Expect = 4.6
Identities = 8/39 (20%), Positives = 12/39 (30%), Gaps = 2/39 (5%)
Query: 100 RKWNP--PKLKHVDRTTAQTLEITVNNLTVKVTEFKPKI 136
+WNP + L V FKP++
Sbjct: 26 PEWNPFVRSATGLSLALGARLRFVVKLPGGPPRSFKPRV 64
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 27.1 bits (61), Expect = 4.9
Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 1/70 (1%)
Query: 70 PVPATSKVGPKKEGGGKEKSENRKFKKHGRRKWNPPKLKHVDRTTAQTLEITVNNLTVKV 129
P P K K GGK + ++ R+ K K T E+ + T+ V
Sbjct: 126 PKPKKKKPKRKAARGGKRGKGGKGRRRRRGRRRRRKKKKKQKPTEKIPREVVIPE-TITV 184
Query: 130 TEFKPKIKKS 139
E K+
Sbjct: 185 AELAEKMAVK 194
>gnl|CDD|215336 PLN02626, PLN02626, malate synthase.
Length = 551
Score = 27.0 bits (60), Expect = 5.0
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 46 VRKGTSTR----KPRITPDLVAQVTQQYPVPATSKVGPKKEGGGKEKSENRKFKK 96
++ G R+T +L +V ++ +VG ++ GK K + F +
Sbjct: 467 IKYGAELDGDGVGVRVTAELFGRVVEEEMARIEREVGKERFKKGKYKEAAKLFAR 521
>gnl|CDD|131891 TIGR02844, spore_III_D, sporulation transcriptional regulator
SpoIIID. Members of this protein are the
transcriptional regulator SpoIIID, or stage III
sporulation protein D. It is present in genomes if and
only if the species is capable of endospore formation
as occurs in the model species Bacillus subtilis.
SpoIIID is a DNA binding protein that, in B. subtilis,
downregulates many genes but also turns on ten genes
[Regulatory functions, DNA interactions, Cellular
processes, Sporulation and germination].
Length = 80
Score = 25.6 bits (56), Expect = 5.2
Identities = 14/35 (40%), Positives = 17/35 (48%)
Query: 31 TYRNVAEAFKCSMCDVRKGTSTRKPRITPDLVAQV 65
T R A+ F S V K + R P I PDL +V
Sbjct: 21 TVRETAKVFGVSKSTVHKDVTERLPEINPDLAEEV 55
>gnl|CDD|216334 pfam01153, Glypican, Glypican.
Length = 559
Score = 27.0 bits (60), Expect = 6.5
Identities = 22/72 (30%), Positives = 29/72 (40%), Gaps = 14/72 (19%)
Query: 74 TSKVG-----PKKEGGGKEKSENRKFKKHGRRKWNPPKLKHVDRTTAQTLEITVNNLTVK 128
T+KV PK G +S K RK+ P + TTA NL
Sbjct: 330 TAKVFQGCGTPKPTPGRSARSPEEASFKKRFRKYTPEE----RPTTA-----AGTNLDRL 380
Query: 129 VTEFKPKIKKSI 140
VTEFK K+++
Sbjct: 381 VTEFKSKLREFK 392
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 27.0 bits (59), Expect = 6.6
Identities = 25/101 (24%), Positives = 38/101 (37%), Gaps = 7/101 (6%)
Query: 2 KIKGMDRKTPTKRRRKQAKDENYW-DCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRITPD 60
K K +R K+ + K D S + +VAEA + S+ + GT+ P
Sbjct: 208 KEKEKERDKDKKKEVEGFKSLLLALDDSPASAASVAEADEASLANTVSGTAPDSEPDEPK 267
Query: 61 LVAQVTQQYPVPATSKVGPKKEGGGKEKSENRKFKKHGRRK 101
+ KK+ KEK E +K KKH +
Sbjct: 268 DAEAEETKKSPK------HKKKKQRKEKEEKKKKKKHHHHR 302
>gnl|CDD|197380 cd09971, SdiA-regulated, SdiA-regulated. This model represents a
bacterial family of proteins that may be regulated by
SdiA, a member of the LuxR family of transcriptional
regulators. The C-terminal domain included in the
alignment forms a five-bladed beta-propeller structure.
The X-ray structure of Escherichia coli yjiK (C-terminal
domain) exhibits binding of calcium ions (Ca++) in what
appears to be an evolutionarily conserved site. Sequence
analysis suggests a distant relationship to proteins
that are characterized as containing NHL-repeats. The
latter also form beta-propeller structures, with several
examples known to form six-bladed beta-propellers.
Several of the six-bladed beta-propellers containing NHL
repeats have been characterized functionally, including
members with enzymatic functions that are dependent on
metal ions. No functional characterization is available
for this family of five-bladed propellers, though.
Length = 242
Score = 26.4 bits (59), Expect = 7.7
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 7/56 (12%)
Query: 103 NPPKLKHVDRTTAQTLEITVNNLTVKVTEFKPKIKKSILDSDLSSVENDSQSESSL 158
NP +L V+ A L + V + K + SDLSS+ D ++ L
Sbjct: 132 NPGRLFEVNGDGAANLALVVKDR-------KLLAAADLFLSDLSSLSFDPRTGHLL 180
>gnl|CDD|226171 COG3645, COG3645, Uncharacterized phage-encoded protein [Function
unknown].
Length = 135
Score = 25.9 bits (57), Expect = 8.1
Identities = 9/47 (19%), Positives = 15/47 (31%), Gaps = 2/47 (4%)
Query: 98 GRRKWNPPKLKHVDR--TTAQTLEITVNNLTVKVTEFKPKIKKSILD 142
N P KH++ + I +N + T+ K K
Sbjct: 77 RGGDKNLPTQKHMELGLFKVKETSIAHSNGAITQTKTTKKTGKGQQL 123
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
0.310 0.126 0.364
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,755,379
Number of extensions: 650791
Number of successful extensions: 417
Number of sequences better than 10.0: 1
Number of HSP's gapped: 416
Number of HSP's successfully gapped: 28
Length of query: 168
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 78
Effective length of database: 6,945,742
Effective search space: 541767876
Effective search space used: 541767876
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.0 bits)