RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021495
(311 letters)
>gnl|CDD|215508 PLN02941, PLN02941, inositol-tetrakisphosphate 1-kinase.
Length = 328
Score = 532 bits (1372), Expect = 0.0
Identities = 204/292 (69%), Positives = 237/292 (81%), Gaps = 3/292 (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 PGIAELPPRPLLERLARELRHRLGLRLFNIDMIREHGMRDVFYVIDINYFPG 309
P +AELPPRP LE LARELR RLGLRLFN DMIREHG D +YVIDINYFPG
Sbjct: 254 PEVAELPPRPFLEDLARELRRRLGLRLFNFDMIREHGTGDRYYVIDINYFPG 305
>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 = 424 bits (1093), Expect = e-151
Identities = 166/285 (58%), Positives = 214/285 (75%), Gaps = 2/285 (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--PGIAELP 264
FK+Y++GE + VV+R SLP+VS L + FRF +VS+ ASADDA+LD IAE+P
Sbjct: 186 FKVYVVGEHVTVVKRRSLPDVSAGTLDRSSGSFRFSQVSNLTASADDAELDKILEIAEMP 245
Query: 265 PRPLLERLARELRHRLGLRLFNIDMIREHGMRDVFYVIDINYFPG 309
P P LE LAR LR LGLRLFN D+IR+ G D + VIDINYFPG
Sbjct: 246 PDPFLEDLARALRRALGLRLFNFDIIRDAGTADRYLVIDINYFPG 290
>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 = 38.4 bits (90), Expect = 0.002
Identities = 32/185 (17%), Positives = 61/185 (32%), Gaps = 31/185 (16%)
Query: 134 VRVPRQMVITKDSLSIPDQVFEAGLKLPLVAKPLVVDGSAKSH------ELFLAYDRF-S 186
+ VP ++ + + P+V KP GS EL A +
Sbjct: 17 LPVPPFFLVDDEE---DLDAAAEEIGFPVVLKPRDGAGSLGVFRVDSAAELEAALAALAA 73
Query: 187 LSELEPPMLLQEFVNHGGILFKI--YIIGETIKVVRRFSLPNVSKRELAKVVSVFRFPRV 244
E L++E++ G + + + + + VS+ V
Sbjct: 74 EVEDTREYLVEEYI--DGDEYHVDGLVDDGELVFL------GVSRYLGPPPPDFSE--GV 123
Query: 245 SSAAASADDADLDPGIAELPPRPLLERLARELRHRLGLRLFNIDMIREHGMRDVFYVIDI 304
+ S + L + R L ER+ + L R G +F+++ +++I
Sbjct: 124 ELGSVSPGEDPLPEAL-----RELAERVLKALGLRNG--VFHLEFFLTP--DGRPVLLEI 174
Query: 305 NYFPG 309
N PG
Sbjct: 175 NPRPG 179
>gnl|CDD|223267 COG0189, RimK, Glutathione synthase/Ribosomal protein S6
modification enzyme (glutaminyl transferase) [Coenzyme
metabolism / Translation, ribosomal structure and
biogenesis].
Length = 318
Score = 32.0 bits (73), Expect = 0.38
Identities = 50/219 (22%), Positives = 79/219 (36%), Gaps = 42/219 (19%)
Query: 100 VTILDPPDAIKHLHNRQSMLQDVADLNLSDCNGKVRVPRQMVITKDSLSIPDQVFEAGLK 159
V +++ P +I+ N + L G + VP +IT+D + V E L
Sbjct: 105 VPVINDPQSIRRCRN------KLYTTQLLAKAG-IPVPPT-LITRDPDEAAEFVAEH-LG 155
Query: 160 LPLVAKPLVVDGSAKSHELFLA--YDRFSLSELE-------PPMLLQEFVNHGGILFKIY 210
P+V KPL DGS +FL D LS LE +++QE++ +
Sbjct: 156 FPVVLKPL--DGSG-GRGVFLVEDADPELLSLLETLTQEGRKLIIVQEYIPKAKRDDRRV 212
Query: 211 IIGETIKVVRRFSLPNVSKRELAKVVSVFRFPRVSSAAASADDADLDPGIAELPPRPLLE 270
++G V + + ++ A EL E
Sbjct: 213 LVGGGEVVAIYALARIPASGDFRSNLARG-------GRAEP---------CELTEE--EE 254
Query: 271 RLARELRHRLGLRLFNIDMIREHGMRDVFYVIDINYFPG 309
LA + LGL L +D+I E YV ++N P
Sbjct: 255 ELAVKAAPALGLGLVGVDII-EDKDGL--YVTEVNVSPT 290
>gnl|CDD|179554 PRK03204, PRK03204, haloalkane dehalogenase; Provisional.
Length = 286
Score = 31.4 bits (71), Expect = 0.50
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 9/47 (19%)
Query: 259 GIAELP-----PRPLLERLARELRHRLGLRLFNIDMIREHGMRDVFY 300
G+AE+P RPLL RLARE+ LG + + GM+DV +
Sbjct: 199 GVAEMPKQILAARPLLARLAREVPATLGTK----PTLLVWGMKDVAF 241
>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 = 30.4 bits (69), Expect = 0.76
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|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 = 29.9 bits (68), Expect = 1.1
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|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 = 30.0 bits (68), Expect = 1.5
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|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 = 28.0 bits (63), Expect = 1.8
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|233971 TIGR02678, TIGR02678, TIGR02678 family protein. Members of this
protein belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria) [Hypothetical
proteins, Conserved].
Length = 375
Score = 29.8 bits (67), Expect = 1.9
Identities = 22/47 (46%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 241 FPRVSSAAASADDAD--LDPGIAELPPRPLLERLARELRHRLGLRLF 285
PR SA A D D L P AE P R R LRHRL RLF
Sbjct: 172 APRGPSAVAVPADHDERLAPLTAEEAPGTD-ARRWRALRHRLVRRLF 217
>gnl|CDD|221300 pfam11898, DUF3418, Domain of unknown function (DUF3418). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is typically
between 582 to 594 amino acids in length. This domain is
found associated with pfam07717, pfam00271, pfam04408.
Length = 586
Score = 29.0 bits (66), Expect = 3.6
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 7/50 (14%)
Query: 260 IAELPPR--PLLERLARELRHRLGLRL----FNIDMIREHGMRDVFYVID 303
+ L P PLL+ LARELR G+R+ ++++ + H +R F V+D
Sbjct: 219 LEALEPGEGPLLDALARELRRMTGVRIPPDDWDLEALPPH-LRMNFRVVD 267
>gnl|CDD|236961 PRK11716, PRK11716, DNA-binding transcriptional regulator IlvY;
Provisional.
Length = 269
Score = 27.9 bits (63), Expect = 5.9
Identities = 9/33 (27%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 88 KIIEDYRQKHPEVTIL----DPPDAIKHLHNRQ 116
I++ +R +HP V I D DA++ + + +
Sbjct: 84 PILDRFRAEHPLVEIKLTTGDAADAVEKVQSGE 116
>gnl|CDD|236160 PRK08136, PRK08136, glycosyl transferase family protein;
Provisional.
Length = 317
Score = 27.9 bits (63), Expect = 6.7
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 15/56 (26%)
Query: 243 RVSSA----------AASADDA--DLDPG-IAELPPRPLLERLAR--ELRHRLGLR 283
RV+SA AD A L G A +P L LAR LR R+G+R
Sbjct: 123 RVTSAEIFEALGIPPTLHADQAQAKLAEGQPAFIPVGVLCPPLARLLALRWRMGVR 178
>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 = 27.9 bits (63), Expect = 7.2
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|182509 PRK10513, PRK10513, sugar phosphate phosphatase; Provisional.
Length = 270
Score = 27.3 bits (61), Expect = 9.7
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
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 0.140 0.403
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: 16,795,337
Number of extensions: 1693329
Number of successful extensions: 1817
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1815
Number of HSP's successfully gapped: 37
Length of query: 311
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 214
Effective length of database: 6,635,264
Effective search space: 1419946496
Effective search space used: 1419946496
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 (21.8 bits)
S2: 59 (26.3 bits)