RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022919
(290 letters)
>gnl|CDD|215508 PLN02941, PLN02941, inositol-tetrakisphosphate 1-kinase.
Length = 328
Score = 438 bits (1129), Expect = e-156
Identities = 164/244 (67%), Positives = 196/244 (80%), Gaps = 3/244 (1%)
Query: 21 SGVLQPERLVVGYALTSKKKKSFLQPKLEILARNKGISFVAIDQNRPLSDQGPFDVVLHK 80
S Q +R VVGYALT KK KSFLQP LE LAR+KGI VAID +RPLS+QGPFDV+LHK
Sbjct: 14 SSSSQQKRFVVGYALTPKKVKSFLQPSLEALARSKGIDLVAIDPSRPLSEQGPFDVILHK 73
Query: 81 LSGMEWCKIIEDYRQKHPEVTILDPPDAIKHLHNRQSMLQDVADLNLSDCNGKVRVPRQM 140
L G EW + +E+YR+KHP+VT+LDPPDAI+ LHNRQSMLQ VADL LSD G V VP+Q+
Sbjct: 74 LYGKEWRQQLEEYREKHPDVTVLDPPDAIQRLHNRQSMLQVVADLKLSDGYGSVGVPKQL 133
Query: 141 VITKDSLSIPDQVFEAGLKLPLVAKPLVVDGSAKSHELFLAYDRFSLSELEPPMLLQEFV 200
V+ D SIPD V AGLK PLVAKPLV DGSAKSH++ LAYD+ LS+LEPP++LQEFV
Sbjct: 134 VVYDDESSIPDAVALAGLKFPLVAKPLVADGSAKSHKMSLAYDQEGLSKLEPPLVLQEFV 193
Query: 201 NHGGILFKIYIIGETIKVVRRFSLPNVSKRELAKVVSVFRFPRVSSAAASADDAD---LD 257
NHGG+LFK+Y++G+ +K VRRFSLP+VS+ EL+ V FPRVS+AAASADDAD LD
Sbjct: 194 NHGGVLFKVYVVGDYVKCVRRFSLPDVSEEELSSAEGVLPFPRVSNAAASADDADNGGLD 253
Query: 258 PGIA 261
P +A
Sbjct: 254 PEVA 257
>gnl|CDD|114493 pfam05770, Ins134_P3_kin, Inositol 1, 3, 4-trisphosphate
5/6-kinase. This family consists of several inositol 1,
3, 4-trisphosphate 5/6-kinase proteins. Inositol
1,3,4-trisphosphate is at a branch point in inositol
phosphate metabolism. It is dephosphorylated by specific
phosphatases to either inositol 3,4-bisphosphate or
inositol 1,3-bisphosphate. Alternatively, it is
phosphorylated to inositol 1,3,4,6-tetrakisphosphate or
inositol 1,3,4,5-tetrakisphosphate by inositol
trisphosphate 5/6-kinase.
Length = 307
Score = 349 bits (898), Expect = e-121
Identities = 136/245 (55%), Positives = 180/245 (73%), Gaps = 2/245 (0%)
Query: 27 ERLVVGYALTSKKKKSFLQPKLEILARNKGISFVAIDQNRPLSDQGPFDVVLHKLSGMEW 86
+R +VGYAL KK KSF+QP L LAR +GI V +D +RPLS+QGPFD+++HKL+ EW
Sbjct: 6 KRYLVGYALAEKKIKSFIQPSLAELARKRGIDLVQLDPSRPLSEQGPFDIIIHKLTDKEW 65
Query: 87 CKIIEDYRQKHPEVTILDPPDAIKHLHNRQSMLQDVADLNLSDCNGKVRVPRQMVITKDS 146
+E++R+ HPEV +LDPP AI+ LHNRQSMLQ VADLNLS +G+ VP Q+V+ KD+
Sbjct: 66 RHRLEEFREAHPEVPVLDPPPAIRRLHNRQSMLQVVADLNLSMEDGRFGVPPQVVVMKDA 125
Query: 147 LSIPDQVFEAGLKLPLVAKPLVVDGSAKSHELFLAYDRFSLSELEPPMLLQEFVNHGGIL 206
S+ +AGL PL+AKPLV DG+AKSHE+ L YD+ L++L+PP++LQEFVNHGG+L
Sbjct: 126 SSLSRAGAKAGLTFPLIAKPLVADGTAKSHEMSLVYDQEGLNKLQPPLVLQEFVNHGGVL 185
Query: 207 FKIYIIGETIKVVRRFSLPNVSKRELAKVVSVFRFPRVSSAAASADDADLD--PGIAGEN 264
FK+Y++GE + VV+R SLP+VS L + FRF +VS+ ASADDA+LD IA
Sbjct: 186 FKVYVVGEHVTVVKRRSLPDVSAGTLDRSSGSFRFSQVSNLTASADDAELDKILEIAEMP 245
Query: 265 SLPAL 269
P L
Sbjct: 246 PDPFL 250
>gnl|CDD|176121 cd08430, PBP2_IlvY, The C-terminal substrate binding of LysR-type
transcriptional regulator IlvY, which activates the
expression of ilvC gene that encoding acetohydroxy acid
isomeroreductase for the biosynthesis of branched amino
acids; contains the type 2 periplasmic binding fold. In
Escherichia coli, IlvY is required for the regulation of
ilvC gene expression that encodes acetohydroxy acid
isomeroreductase (AHIR), a key enzyme in the
biosynthesis of branched-chain amino acids (isoleucine,
valine, and leucine). The ilvGMEDA operon genes encode
remaining enzyme activities required for the
biosynthesis of these amino acids. Activation of ilvC
transcription by IlvY requires the additional binding of
a co-inducer molecule (either alpha-acetolactate or
alpha-acetohydoxybutyrate, the substrates for AHIR) to a
preformed complex of IlvY protein-DNA. Like many other
LysR-family members, IlvY negatively auto-regulates the
transcription of its own divergently transcribed ilvY
gene in an inducer-independent manner. This
substrate-binding domain has 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 = 199
Score = 30.2 bits (69), Expect = 0.85
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 7/39 (17%)
Query: 89 IIEDYRQKHPEVTIL----DPPDAIKHLHNRQSMLQDVA 123
I+E +R +HP+V I DP DAI + N ++ D+A
Sbjct: 18 ILERFRAQHPQVEIKLHTGDPADAIDKVLNGEA---DIA 53
>gnl|CDD|198386 cd10439, GIY-YIG_COG3410, GIY-YIG domain of uncharacterized
bacterial protein structurally related to COG3410. This
family contains a group of uncharacterized bacterial
proteins. Although their function roles have not been
recognized, these proteins contain a putative GIY-YIG
domain in their N-terminus. Moreover, a conserved
domain COG3410 with unknown function has been found in
the C-terminus of most family members.
Length = 80
Score = 28.7 bits (65), Expect = 0.87
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 202 HGGILFKIYIIGETIKVVRRFS--LPNVSKRELAKVVSVF 239
+ K+YI GET ++RR L + K+ L + V
Sbjct: 9 YDKKKKKVYI-GETNNILRRLKQHLKDPEKKFLRDLNQVI 47
>gnl|CDD|220974 pfam11085, YqhR, Conserved membrane protein YqhR. This family is
conserved in the Bacillaceae family of the Firmicutes.
The function is not known.
Length = 174
Score = 30.0 bits (68), Expect = 1.0
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 7/41 (17%)
Query: 179 FLAYDRFSLSELEPPMLLQEFVNHG------GILFKIYIIG 213
+LAY F+ +E+ P M+L F G + I +IG
Sbjct: 40 YLAY-IFNFTEISPNMILLPFALGEWKKGWLGNVISIVLIG 79
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 29.6 bits (67), Expect = 1.4
Identities = 14/74 (18%), Positives = 25/74 (33%), Gaps = 10/74 (13%)
Query: 134 VRVPRQMVITKDSLSIPDQVFEAGLKLPLVAKPLVVDGSAKSH------ELFLAYDRF-S 186
+ VP ++ + + P+V KP GS EL A +
Sbjct: 17 LPVPPFFLVDDEE---DLDAAAEEIGFPVVLKPRDGAGSLGVFRVDSAAELEAALAALAA 73
Query: 187 LSELEPPMLLQEFV 200
E L++E++
Sbjct: 74 EVEDTREYLVEEYI 87
>gnl|CDD|188316 TIGR03414, ABC_choline_bnd, choline ABC transporter, periplasmic
binding protein. Partial phylogenetic profiling
(PMID:16930487) vs. the genome property of glycine
betaine biosynthesis from choline consistently reveals a
member of this ABC transporter periplasmic binding
protein as the best match, save for the betaine
biosynthesis enzymes themselves. Genomes often carry
several paralogs, one encoded together with the permease
and ATP-binding components and another encoded next to a
choline-sulfatase gene, suggesting that different
members of this protein family interact with shared
components and give some flexibility in substrate. Of
two members from Sinorhizobium meliloti 1021, one
designated ChoX has been shown experimentally to bind
choline (though not various related compounds such as
betaine) and to be required for about 60 % of choline
uptake. Members of this protein have an invariant Cys
residue near the N-terminus and likely are lipoproteins
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 290
Score = 29.6 bits (67), Expect = 2.0
Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 14/73 (19%)
Query: 98 PEVTILDPPDAIKHLHNRQ----------SMLQDVADLNLSDCNGKV-RVPRQMVITKDS 146
P+VT L P L N +M D+ + G V + + K +
Sbjct: 38 PKVTTLSVPITYAGLKNGDLDVFLGNWMPAMEPDIKPYLEA---GSVEVLGPNLEGAKYT 94
Query: 147 LSIPDQVFEAGLK 159
L++P V +AG+K
Sbjct: 95 LAVPTYVADAGVK 107
>gnl|CDD|216218 pfam00964, Elicitin, Elicitin. Elicitins form a novel class of
plant necrotic proteins which are secreted by
Phytophthora and Pythium fungi, parasites of many
economically important crops. These proteins induce leaf
necrosis in infected plants and elicit an incompatible
hypersensitive-like reaction, leading to the development
of a systemic acquired resistance against a range of
fungal and bacterial plant pathogens.
Length = 90
Score = 27.4 bits (61), Expect = 2.9
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 116 QSMLQDVADLNLSDCN 131
Q++L DVA L DC
Sbjct: 53 QALLADVAALLPPDCT 68
>gnl|CDD|217900 pfam04109, APG9, Autophagy protein Apg9. In yeast, 15 Apg proteins
coordinate the formation of autophagosomes. Autophagy is
a bulk degradation process induced by starvation in
eukaryotic cells. Apg9 plays a direct role in the
formation of the cytoplasm to vacuole targeting and
autophagic vesicles, possibly serving as a marker for a
specialised compartment essential for these
vesicle-mediated alternative targeting pathways.
Length = 365
Score = 28.3 bits (64), Expect = 4.3
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 27 ERLVVGYALTSKKKKSFLQPKLEILARNKGISFVA 61
+RL Y +K F P L I+A+ +SF+A
Sbjct: 178 KRLNRSYPPANKYLDQFPSPLLAIVAKF--VSFIA 210
>gnl|CDD|236961 PRK11716, PRK11716, DNA-binding transcriptional regulator IlvY;
Provisional.
Length = 269
Score = 28.2 bits (64), Expect = 4.6
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 88 KIIEDYRQKHPEVTI-L---DPPDAIKHLHNRQ 116
I++ +R +HP V I L D DA++ + + +
Sbjct: 84 PILDRFRAEHPLVEIKLTTGDAADAVEKVQSGE 116
>gnl|CDD|182509 PRK10513, PRK10513, sugar phosphate phosphatase; Provisional.
Length = 270
Score = 28.1 bits (63), Expect = 5.7
Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 48 LEILARNKGISFVAIDQNR---PLSDQGPFDVVLHKLSGM--EWCKIIE-DYRQKHPEVT 101
LE L+R G+ F A+D+N D + V L+G+ + ++ + D + P+V
Sbjct: 96 LEKLSREVGVHFHALDRNTLYTANRDISYYTVHESFLTGIPLVFREVEKMDPNLQFPKVM 155
Query: 102 ILDPPD 107
++D P+
Sbjct: 156 MIDEPE 161
>gnl|CDD|225717 COG3176, COG3176, Putative hemolysin [General function prediction
only].
Length = 292
Score = 27.7 bits (62), Expect = 6.6
Identities = 14/89 (15%), Positives = 27/89 (30%), Gaps = 14/89 (15%)
Query: 60 VAIDQNRPLSDQGPFDVVLHKL-------SGMEWCKIIEDYRQKHPEVTILDPPDAIKHL 112
+ + DQ FD+V + L +++ YR +L A++
Sbjct: 68 LDAAALERIPDQDRFDIVCNHLGVRDGVIVADLLKQLVGTYR-------LLANAQALRAG 120
Query: 113 HNRQSMLQDVADLNLSDCNGKVRVPRQMV 141
++ V L + R V
Sbjct: 121 GFYSALEFPVDWLEELRPKKFNELGRSCV 149
>gnl|CDD|211907 TIGR04184, ATPgraspMvdD, ATP-grasp ribosomal peptide maturase, MvdD
family. The pair of ATP-grasp proteins MvdD and MvdC
(microviridin D and C), as well as an acetyltransferase,
produce microviridin K, an example of a RiPP
(ribosomally synthesized and posttranslationally
modified peptide). Microviridins are peptidase
inhibitors.
Length = 321
Score = 27.8 bits (62), Expect = 7.5
Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 14/67 (20%)
Query: 103 LDPPDAIKHLHNRQSMLQDVADLNLSDCNGKVRVPRQMVITKDSLSIPDQV--FEAGLKL 160
LDP ++ N+Q LQ L L +PR + T + P+ V F A +
Sbjct: 112 LDPISNVRRAENKQLQLQIARKLGLD-------IPRTL-TTNN----PEAVKQFAAECQQ 159
Query: 161 PLVAKPL 167
++ K L
Sbjct: 160 GIITKML 166
>gnl|CDD|219877 pfam08514, STAG, STAG domain. STAG domain proteins are subunits
of cohesin complex - a protein complex required for
sister chromatid cohesion in eukaryotes. The STAG
domain is present in Schizosaccharomyces pombe mitotic
cohesin Psc3, and the meiosis specific cohesin Rec11.
Many organisms express a meiosis-specific STAG protein,
for example, mice and humans have a meiosis specific
variant called STAG3, although budding yeast does not
have a meiosis specific version.
Length = 118
Score = 26.5 bits (59), Expect = 8.1
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 5/53 (9%)
Query: 33 YALTSKKKK-SFLQPKLEILARNKGISFVAIDQNRPLSDQGPFDVVLHKLSGM 84
Y L SK K + L V Q L D D ++ L+ +
Sbjct: 6 YPLVSKGPKLKKFRENLCEFLST----LVIQCQYSLLYDDNLMDNLISWLTAL 54
>gnl|CDD|215001 smart01058, CarD_TRCF, CarD-like/TRCF domain. CarD is a
Myxococcus xanthus protein required for the activation
of light- and starvation-inducible genes. This family
includes the presumed N-terminal domain. CarD interacts
with the zinc-binding protein CarG, to form a complex
that regulates multiple processes in Myxococcus
xanthus. This family also includes a domain to the
N-terminal side of the DEAD helicase of TRCF proteins.
TRCF displaces RNA polymerase stalled at a lesion,
binds to the damage recognition protein UvrA, and
increases the template strand repair rate during
transcription. This domain is involved in binding to
the stalled RNA polymerase.
Length = 99
Score = 26.3 bits (59), Expect = 9.1
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 59 FVAIDQ----NRPLSDQGPFDVVLHKLSGMEW 86
+V +D +R + +G + VL KL G W
Sbjct: 45 YVPVDNLDLGSRYVGSEGEVEPVLDKLGGGSW 76
>gnl|CDD|239497 cd03403, Band_7_stomatin_like, Band_7_stomatin_like: A subgroup of
the band 7 domain of flotillin (reggie) like proteins
similar to stomatin and podicin (two lipid
raft-associated integral membrane proteins). Individual
proteins of this band 7 domain family may cluster to
form membrane microdomains which may in turn recruit
multiprotein complexes. Stomatin is widely expressed
and, highly expressed in red blood cells. It localizes
predominantly to the plasma membrane and to
intracellular vesicles of the endocytic pathway, where
it is present in higher order homo-oligomeric complexes
(of between 9 and 12 monomers). Stomatin interacts with
and regulates members of the degenerin/epithelia Na+
channel family in mechanosensory cells of Caenorhabditis
elegans and vertebrate neurons and, is implicated in
trafficking of Glut1 glucose transporters. Prohibitin is
a mitochondrial inner-membrane protein hypothesized to
act as a chaperone for the stabilization of
mitochondrial proteins. Podicin localizes to the plasma
membrane of podocyte foot processes and, is found in
higher order oligomers. Podocin plays a role in
regulating glomerular permeability. Mutations in the
podicin gene give rise to autosomal recessive steroid
resistant nephritic syndrome. This group also contains
proteins similar to three Caenorhabditis elegans
proteins: UNC-1, UNC-24 and, MEC-2. Mutations in the
unc-1 and unc-24 genes result in abnormal motion and
altered patterns of sensitivity to volatile anesthetics.
MEC-2 and UNC-24 proteins interact with MEC-4 which is
part of the degenerin channel complex required for
response to gentle body touch.
Length = 215
Score = 27.1 bits (61), Expect = 10.0
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 136 VPRQMVITKDSLSI 149
VP Q VITKD++++
Sbjct: 46 VPPQEVITKDNVTV 59
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
0.319 0.137 0.399
Gapped
Lambda K H
0.267 0.0863 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,044,782
Number of extensions: 1470789
Number of successful extensions: 1241
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1241
Number of HSP's successfully gapped: 24
Length of query: 290
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 194
Effective length of database: 6,679,618
Effective search space: 1295845892
Effective search space used: 1295845892
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 (21.7 bits)
S2: 58 (25.9 bits)