RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 019600
(338 letters)
>gnl|CDD|215508 PLN02941, PLN02941, inositol-tetrakisphosphate 1-kinase.
Length = 328
Score = 603 bits (1557), Expect = 0.0
Identities = 231/318 (72%), Positives = 262/318 (82%), Gaps = 3/318 (0%)
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 -LDPCVAELPPRPLLERLAKELRRQLGLRLFNLDIIREHGTRDQFYVIDINYFPGYGKMP 315
LDP VAELPPRP LE LA+ELRR+LGLRLFN D+IREHGT D++YVIDINYFPGY KMP
Sbjct: 251 GLDPEVAELPPRPFLEDLARELRRRLGLRLFNFDMIREHGTGDRYYVIDINYFPGYAKMP 310
Query: 316 EYEHIFTDFLLSLTQSRY 333
YE + TDFLLSL Q +Y
Sbjct: 311 GYETVLTDFLLSLVQKKY 328
>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 = 504 bits (1300), Expect = 0.0
Identities = 199/308 (64%), Positives = 234/308 (75%), Gaps = 4/308 (1%)
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--P 259
NHGGVLFKVY+VGE + VV+R SLPDV+ L S+G FRF +VS ASADDA+LD
Sbjct: 180 NHGGVLFKVYVVGEHVTVVKRRSLPDVSAGTLDRSSGSFRFSQVSNLTASADDAELDKIL 239
Query: 260 CVAELPPRPLLERLAKELRRQLGLRLFNLDIIREHGTRDQFYVIDINYFPGYGKMPEYEH 319
+AE+PP P LE LA+ LRR LGLRLFN DIIR+ GT D++ VIDINYFPGY KMPEYE
Sbjct: 240 EIAEMPPDPFLEDLARALRRALGLRLFNFDIIRDAGTADRYLVIDINYFPGYAKMPEYET 299
Query: 320 IFTDFLLS 327
+ TDF S
Sbjct: 300 VLTDFFWS 307
>gnl|CDD|223267 COG0189, RimK, Glutathione synthase/Ribosomal protein S6
modification enzyme (glutaminyl transferase) [Coenzyme
metabolism / Translation, ribosomal structure and
biogenesis].
Length = 318
Score = 40.8 bits (96), Expect = 6e-04
Identities = 49/233 (21%), Positives = 75/233 (32%), Gaps = 46/233 (19%)
Query: 101 VTVLDPPYAIQHLHNRQSMLQCVADMNLSNSYGKVDVPRQLVIERDASSIPDVVLKAGLT 160
V V++ P +I+ N+ Q +A + VP L+ + V L
Sbjct: 105 VPVINDPQSIRRCRNKLYTTQLLAKA-------GIPVPPTLITRDPDEAAEFV--AEHLG 155
Query: 161 LPLVAKPLVADGSAKSHELSLAYDQYSLKKLE-------PPLVLQEFVNHGGVLFKVYIV 213
P+V KPL G L D L LE +++QE++ + +V
Sbjct: 156 FPVVLKPLDGSGGRGVF-LVEDADPELLSLLETLTQEGRKLIIVQEYIPKAKRDDRRVLV 214
Query: 214 GE----AIKVVRRFSLPDVTKQDLSTSAGVFRFPRVSCAAASADDADLDPCVAELPPRPL 269
G AI + R + +L+ EL
Sbjct: 215 GGGEVVAIYALARIPASGDFRSNLARGGRAEPC--------------------ELTEE-- 252
Query: 270 LERLAKELRRQLGLRLFNLDIIREHGTRDQFYVIDINYFPGYGKMPEYEHIFT 322
E LA + LGL L +DII +D YV ++N P E
Sbjct: 253 EEELAVKAAPALGLGLVGVDIIE---DKDGLYVTEVNVSPTGKGEIERVTGVN 302
>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 = 37.6 bits (88), Expect = 0.003
Identities = 34/187 (18%), Positives = 62/187 (33%), Gaps = 35/187 (18%)
Query: 135 VDVPRQLVIERDASSIPDVVLKAGLTLPLVAKPLVADGSAKSH------ELSLAYDQYSL 188
+ VP +++ D + + G P+V KP GS EL A +
Sbjct: 17 LPVPPFFLVD-DEEDLDAAAEEIGF--PVVLKPRDGAGSLGVFRVDSAAELEAALAALAA 73
Query: 189 KK-LEPPLVLQEFVNHGGVLFKV--YIVGEAIKVVRRFSLPDVTKQDLSTSAGVFRFPRV 245
+ +++E++ G + V + + + V
Sbjct: 74 EVEDTREYLVEEYI--DGDEYHVDGLVDDGELVFLGVS--------RYLGPPPPDFSEGV 123
Query: 246 SCAAASADDADLDPCVAELPPRPLLERLAKELRRQLGLR--LFNLDIIREHGTRDQFYVI 303
+ S E P L LA+ + + LGLR +F+L+ R ++
Sbjct: 124 ELGSVS---------PGEDPLPEALRELAERVLKALGLRNGVFHLEFFLTPDGR--PVLL 172
Query: 304 DINYFPG 310
+IN PG
Sbjct: 173 EINPRPG 179
>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 = 0.22
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 = 0.84
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|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 = 30.9 bits (71), Expect = 1.0
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 7/51 (13%)
Query: 260 CVAELPPR--PLLERLAKELRRQLGLRL----FNLDIIREHGTRDQFYVID 304
+ L P PLL+ LA+ELRR G+R+ ++L+ + H R F V+D
Sbjct: 218 FLEALEPGEGPLLDALARELRRMTGVRIPPDDWDLEALPPH-LRMNFRVVD 267
>gnl|CDD|181458 PRK08527, PRK08527, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 563
Score = 30.8 bits (70), Expect = 1.2
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|179554 PRK03204, PRK03204, haloalkane dehalogenase; Provisional.
Length = 286
Score = 29.4 bits (66), Expect = 2.3
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 5/27 (18%)
Query: 261 VAELP-----PRPLLERLAKELRRQLG 282
VAE+P RPLL RLA+E+ LG
Sbjct: 200 VAEMPKQILAARPLLARLAREVPATLG 226
>gnl|CDD|239259 cd02961, PDI_a_family, Protein Disulfide Isomerase (PDIa) family,
redox active TRX domains; composed of eukaryotic
proteins involved in oxidative protein folding in the
endoplasmic reticulum (ER) by acting as catalysts and
folding assistants. Members of this family include PDI
and PDI-related proteins like ERp72, ERp57 (or ERp60),
ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI,
ERp57, ERp72, P5, PDIR and ERp46 are all oxidases,
catalyzing the formation of disulfide bonds of newly
synthesized polypeptides in the ER. They also exhibit
reductase activity in acting as isomerases to correct
any non-native disulfide bonds, as well as chaperone
activity to prevent protein aggregation and facilitate
the folding of newly synthesized proteins. These
proteins usually contain multiple copies of a redox
active TRX (a) domain containing a CXXC motif, and may
also contain one or more redox inactive TRX-like (b)
domains. Only one a domain is required for the oxidase
function but multiple copies are necessary for the
isomerase function. The different types of PDIs may show
different substrate specificities and tissue-specific
expression, or may be induced by stress. PDIs are in
their reduced form at steady state and are oxidized to
the active form by Ero1, which is localized in the ER
through ERp44. Some members of this family also contain
a DnaJ domain in addition to the redox active a domains;
examples are ERdj5 and Pfj2. Also included in the family
is the redox inactive N-terminal TRX-like domain of
ERp29.
Length = 101
Score = 28.0 bits (63), Expect = 2.6
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 267 RPLLERLAKELRRQLGLRLFNLDIIREHGTRDQFYVID---INYFPGYGKMP-EYEH 319
P E+LAKEL+ + + +D + ++ V I FP K P +YE
Sbjct: 34 APEYEKLAKELKGDGKVVVAKVDCTANNDLCSEYGVRGYPTIKLFPNGSKEPVKYEG 90
>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 = 29.1 bits (66), Expect = 2.8
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|226485 COG3977, COG3977, Alanine-alpha-ketoisovalerate (or
valine-pyruvate) aminotransferase [Amino acid transport
and metabolism].
Length = 417
Score = 29.0 bits (65), Expect = 3.9
Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 268 PLLERLAKELRRQLGLRLFNLDIIREHGTRDQFYVIDINYFPGY 311
L++ LAK LRR+ G + +I +G++ F+ + N F G
Sbjct: 78 VLIDALAKMLRREYGWNITAQNIALTNGSQSAFFYL-FNLFAGR 120
>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 = 4.7
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|235550 PRK05660, PRK05660, HemN family oxidoreductase; Provisional.
Length = 378
Score = 28.3 bits (64), Expect = 5.6
Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 2/26 (7%)
Query: 274 AKELRRQLGLRLFNLDIIREHGTRDQ 299
A +L + LGLR FNLD++ HG DQ
Sbjct: 148 AAKLAQGLGLRSFNLDLM--HGLPDQ 171
>gnl|CDD|182281 PRK10170, PRK10170, hydrogenase 1 large subunit; Provisional.
Length = 597
Score = 28.1 bits (62), Expect = 8.0
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|235010 PRK02186, PRK02186, argininosuccinate lyase; Provisional.
Length = 887
Score = 28.3 bits (63), Expect = 8.6
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|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 = 27.3 bits (61), Expect = 9.8
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
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
0.320 0.137 0.395
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: 17,804,202
Number of extensions: 1766844
Number of successful extensions: 1843
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1840
Number of HSP's successfully gapped: 27
Length of query: 338
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 240
Effective length of database: 6,590,910
Effective search space: 1581818400
Effective search space used: 1581818400
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)