RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 024689
(264 letters)
>gnl|CDD|215508 PLN02941, PLN02941, inositol-tetrakisphosphate 1-kinase.
Length = 328
Score = 455 bits (1173), Expect = e-163
Identities = 177/247 (71%), Positives = 201/247 (81%), Gaps = 3/247 (1%)
Query: 19 SFPQTQQQSKLVVVGYALTSKKTKSFLQPKLEGLARNKGILFVAIDQNRPLSDQGPFDIV 78
+ + Q K VVGYALT KK KSFLQP LE LAR+KGI VAID +RPLS+QGPFD++
Sbjct: 11 APLSSSSQQKRFVVGYALTPKKVKSFLQPSLEALARSKGIDLVAIDPSRPLSEQGPFDVI 70
Query: 79 LHKLTGKEWRQILEEYRQTHPEVTVLDPPYAIQHLHNRQSMLQCVADMNLSNSYGKVDVP 138
LHKL GKEWRQ LEEYR+ HP+VTVLDPP AIQ LHNRQSMLQ VAD+ LS+ YG V VP
Sbjct: 71 LHKLYGKEWRQQLEEYREKHPDVTVLDPPDAIQRLHNRQSMLQVVADLKLSDGYGSVGVP 130
Query: 139 RQLVIERDASSIPDVVLKAGLTLPLVAKPLVADGSAKSHELSLAYDQYSLKKLEPPLVLQ 198
+QLV+ D SSIPD V AGL PLVAKPLVADGSAKSH++SLAYDQ L KLEPPLVLQ
Sbjct: 131 KQLVVYDDESSIPDAVALAGLKFPLVAKPLVADGSAKSHKMSLAYDQEGLSKLEPPLVLQ 190
Query: 199 EFVNHGGVLFKVYIVGEAIKVVRRFSLPDVTKQDLSTSAGVFRFPRVSCAAASADDAD-- 256
EFVNHGGVLFKVY+VG+ +K VRRFSLPDV++++LS++ GV FPRVS AAASADDAD
Sbjct: 191 EFVNHGGVLFKVYVVGDYVKCVRRFSLPDVSEEELSSAEGVLPFPRVSNAAASADDADNG 250
Query: 257 -LDPCVA 262
LDP VA
Sbjct: 251 GLDPEVA 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 = 384 bits (989), Expect = e-136
Identities = 153/237 (64%), Positives = 181/237 (76%), Gaps = 2/237 (0%)
Query: 22 QTQQQSKLVVVGYALTSKKTKSFLQPKLEGLARNKGILFVAIDQNRPLSDQGPFDIVLHK 81
T + LV GYAL KK KSF+QP L LAR +GI V +D +RPLS+QGPFDI++HK
Sbjct: 2 DTFLKRYLV--GYALAEKKIKSFIQPSLAELARKRGIDLVQLDPSRPLSEQGPFDIIIHK 59
Query: 82 LTGKEWRQILEEYRQTHPEVTVLDPPYAIQHLHNRQSMLQCVADMNLSNSYGKVDVPRQL 141
LT KEWR LEE+R+ HPEV VLDPP AI+ LHNRQSMLQ VAD+NLS G+ VP Q+
Sbjct: 60 LTDKEWRHRLEEFREAHPEVPVLDPPPAIRRLHNRQSMLQVVADLNLSMEDGRFGVPPQV 119
Query: 142 VIERDASSIPDVVLKAGLTLPLVAKPLVADGSAKSHELSLAYDQYSLKKLEPPLVLQEFV 201
V+ +DASS+ KAGLT PL+AKPLVADG+AKSHE+SL YDQ L KL+PPLVLQEFV
Sbjct: 120 VVMKDASSLSRAGAKAGLTFPLIAKPLVADGTAKSHEMSLVYDQEGLNKLQPPLVLQEFV 179
Query: 202 NHGGVLFKVYIVGEAIKVVRRFSLPDVTKQDLSTSAGVFRFPRVSCAAASADDADLD 258
NHGGVLFKVY+VGE + VV+R SLPDV+ L S+G FRF +VS ASADDA+LD
Sbjct: 180 NHGGVLFKVYVVGEHVTVVKRRSLPDVSAGTLDRSSGSFRFSQVSNLTASADDAELD 236
>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 = 30.9 bits (71), Expect = 0.16
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 54 RNKGILFVAIDQ----NRPLSDQGPFDIVLHKLTGKEWRQ 89
L+V +D +R + +G + VL KL G W +
Sbjct: 39 AGGDKLYVPVDNLDLGSRYVGSEGEVEPVLDKLGGGSWSK 78
>gnl|CDD|130780 TIGR01719, euk_UDPppase, uridine phosphorylase. This model
represents a clade of mainly eucaryotic uridine
phosphorylases. Genes from human and mouse have been
characterized. This enzyme is a member of the PHP/UDP
subfamily (pfam01048) and is closely related to the
bacterial uridine (TIGR01718) and inosine (TIGR00107)
phosphorylase equivalogs. In addition to the eukaryotes,
a gene from Mycobacterium leprae is included in this
equivalog and may have resulted from lateral gene
transfer [Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 287
Score = 30.9 bits (70), Expect = 0.55
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 5/97 (5%)
Query: 164 VAKPLVADGSAKSHELSLAYDQYSLKKLEPPLVLQEFVNHGGVLFKVYIV-GEAIKVVRR 222
V L +S D++++ K+ P L V+HG + + I+ E IK++
Sbjct: 50 VGAELGLSCGRDYPNISERGDRFAMYKVGPVL----CVSHGMGIPSISIMLHELIKLLYY 105
Query: 223 FSLPDVTKQDLSTSAGVFRFPRVSCAAASADDADLDP 259
+ T + TS G+ P ++ A DA L P
Sbjct: 106 ARCKNPTFIRIGTSGGIGVPPGTVVVSSEAVDACLKP 142
>gnl|CDD|181458 PRK08527, PRK08527, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 563
Score = 30.5 bits (69), Expect = 0.91
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 85 KEWRQILEEYRQTHP-----EVTVLDPPYAIQHL 113
KEWR+IL+ Y + HP VL P + I+ +
Sbjct: 341 KEWREILKRYNELHPLSYEDSDEVLKPQWVIERV 374
>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 = 28.7 bits (65), Expect = 2.2
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 89 QILEEYRQTHPEVTVL----DPPYAIQHLHNRQ 117
ILE +R HP+V + DP AI + N +
Sbjct: 17 PILERFRAQHPQVEIKLHTGDPADAIDKVLNGE 49
>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 = 28.5 bits (64), Expect = 3.3
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 7/38 (18%)
Query: 104 LDPPYAIQHLHNRQSMLQCVADMNLSNSYGKVDVPRQL 141
LDP ++ N+Q LQ + L D+PR L
Sbjct: 112 LDPISNVRRAENKQLQLQIARKLGL-------DIPRTL 142
>gnl|CDD|234348 TIGR03761, ICE_PFL4669, integrating conjugative element protein,
PFL_4669 family. Members of this protein family, such
as PFL4669, are found in integrating conjugative
elements (ICE) of the PFGI-1 class as in Pseudomonas
fluorescens.
Length = 216
Score = 27.7 bits (62), Expect = 5.4
Identities = 24/96 (25%), Positives = 36/96 (37%), Gaps = 24/96 (25%)
Query: 105 DPPYAIQHL--------HNRQSMLQCVADMNLSNSYGKVDVPRQLVIERDASSIPDVVLK 156
D PYA L RQ M + ++ + +P L + + S P
Sbjct: 54 DDPYADWALLRIEEKLLSARQEMQALLQRLDDLLA----QLPPALDLSENLSVSP----- 104
Query: 157 AGLTLPL-VAKPLVADGSAKSHELSLAYDQYSLKKL 191
LT+PL PL G + L + YDQ + + L
Sbjct: 105 --LTVPLFFRSPL---GYRAVYLL-VDYDQLARRVL 134
>gnl|CDD|182281 PRK10170, PRK10170, hydrogenase 1 large subunit; Provisional.
Length = 597
Score = 28.1 bits (62), Expect = 6.1
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 120 LQCVADMNLSNSYGKVDVPR----QLVIERDASSIPDVVLKAGLTLPLVAKPLVADGSAK 175
+ C +++ S + G V++ R Q +I R A I +V++ L + KP G+
Sbjct: 237 MPCAINIDESGAVGAVNMERLNLVQSIITRTADFINNVMIPDALAIGQFNKPWSEIGTGL 296
Query: 176 SHELSLAYDQY 186
S + L+Y +
Sbjct: 297 SDKCVLSYGAF 307
>gnl|CDD|214392 CHL00197, carA, carbamoyl-phosphate synthase arginine-specific
small subunit; Provisional.
Length = 382
Score = 27.8 bits (62), Expect = 7.0
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 87 WRQI--LEEYRQTH--PEVTVLDPPYAIQHLHNRQSMLQCVADMNLSNSY 132
WRQ L Y Q H P + +D QHL +M C+++ NL+ SY
Sbjct: 94 WRQQESLVSYLQRHKIPFIFGIDTRALTQHLRRFGTMNGCISNQNLNLSY 143
>gnl|CDD|235010 PRK02186, PRK02186, argininosuccinate lyase; Provisional.
Length = 887
Score = 27.5 bits (61), Expect = 8.2
Identities = 22/99 (22%), Positives = 39/99 (39%), Gaps = 15/99 (15%)
Query: 135 VDVPRQLVIERDASSIPDVVLKAGLTLPLVAKPLVADGSA-----KSHELSLAYDQYSLK 189
+DVPR + A ++ GLT P+V KP + GS S + A+ +
Sbjct: 120 IDVPRTHALALRAVALD---ALDGLTYPVVVKPRMGSGSVGVRLCASVAEAAAHCAALRR 176
Query: 190 KLEPPLVLQEFVNHGGVLFKVYIVGEA-----IKVVRRF 223
++Q +V G + V + A + + R+
Sbjct: 177 AGTRAALVQAYVE--GDEYSVETLTVARGHQVLGITRKH 213
>gnl|CDD|226655 COG4192, COG4192, Signal transduction histidine kinase regulating
phosphoglycerate transport system [Signal transduction
mechanisms].
Length = 673
Score = 27.6 bits (61), Expect = 8.9
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 2 RMMKEEIEEQTREEELLSFPQTQ--QQSKLVVVGYALTS 38
+ ++ E+EE+ E L Q + Q +KL VVG +TS
Sbjct: 419 QELQAEVEERQEAEAHLKKTQGELIQAAKLAVVGQTMTS 457
>gnl|CDD|236961 PRK11716, PRK11716, DNA-binding transcriptional regulator IlvY;
Provisional.
Length = 269
Score = 27.1 bits (61), Expect = 9.6
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 89 QILEEYRQTHPEV----TVLDPPYAIQHLHNRQ 117
IL+ +R HP V T D A++ + + +
Sbjct: 84 PILDRFRAEHPLVEIKLTTGDAADAVEKVQSGE 116
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
0.318 0.134 0.381
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: 13,523,547
Number of extensions: 1292672
Number of successful extensions: 1216
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1214
Number of HSP's successfully gapped: 22
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
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: 58 (25.9 bits)