RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14872
(414 letters)
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in
the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 68.8 bits (169), Expect = 5e-15
Identities = 21/52 (40%), Positives = 28/52 (53%)
Query: 339 YCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 390
F + L + NPYPS E+ ELA+ GLT QV WF+NRR + +
Sbjct: 5 TRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLK 56
Score = 55.7 bits (135), Expect = 2e-10
Identities = 18/45 (40%), Positives = 22/45 (48%)
Query: 149 YCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFS 193
F + L + NPYPS E+ ELA+ GLT QV WF
Sbjct: 5 TRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQ 49
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 65.3 bits (160), Expect = 7e-14
Identities = 20/50 (40%), Positives = 28/50 (56%)
Query: 341 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 390
F + L + NPYPS E+ ELA+ GL+ QV WF+NRR + +
Sbjct: 8 FTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
Score = 52.6 bits (127), Expect = 3e-09
Identities = 17/43 (39%), Positives = 22/43 (51%)
Query: 151 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFS 193
F + L + NPYPS E+ ELA+ GL+ QV WF
Sbjct: 8 FTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQ 50
>gnl|CDD|203350 pfam05920, Homeobox_KN, Homeobox KN domain. This is a homeobox
transcription factor KN domain conserved from fungi to
human and plants.
Length = 40
Score = 59.4 bits (145), Expect = 7e-12
Identities = 21/34 (61%), Positives = 24/34 (70%)
Query: 355 HNPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 388
HNPYPS EK ELA TGL+ Q+ NWF N R+R
Sbjct: 7 HNPYPSEEEKSELARQTGLSRKQIDNWFINARRR 40
Score = 56.0 bits (136), Expect = 1e-10
Identities = 19/31 (61%), Positives = 22/31 (70%)
Query: 165 HNPYPSPREKRELAEATGLTTTQVSNWFSSA 195
HNPYPS EK ELA TGL+ Q+ NWF +A
Sbjct: 7 HNPYPSEEEKSELARQTGLSRKQIDNWFINA 37
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 54.8 bits (133), Expect = 3e-10
Identities = 18/35 (51%), Positives = 23/35 (65%)
Query: 356 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 390
N YPS E+ ELA+ GLT QV WF+NRR + +
Sbjct: 22 NRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWK 56
Score = 41.7 bits (99), Expect = 2e-05
Identities = 15/27 (55%), Positives = 17/27 (62%)
Query: 166 NPYPSPREKRELAEATGLTTTQVSNWF 192
N YPS E+ ELA+ GLT QV WF
Sbjct: 22 NRYPSAEEREELAKKLGLTERQVKVWF 48
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 37.8 bits (88), Expect = 0.003
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 334 GEETSYCFKEKSR------SVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQ 387
+ +S ++ R VL + NPYPS + +L+ + V WF+N+R
Sbjct: 45 QDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRA 104
Query: 388 RDRAAEQKDGSVH 400
+++
Sbjct: 105 KEKKKRSGKVEQR 117
>gnl|CDD|238045 cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
Prokaryotic DNA binding proteins belonging to the
xenobiotic response element family of transcriptional
regulators.
Length = 58
Score = 29.8 bits (68), Expect = 0.27
Identities = 8/30 (26%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 362 REKR-----ELAEATGLTTTQVSNWFKNRR 386
R+++ ELAE G++ + +S +R
Sbjct: 8 RKEKGLTQEELAEKLGVSRSTISRIENGKR 37
Score = 26.4 bits (59), Expect = 4.6
Identities = 7/27 (25%), Positives = 15/27 (55%), Gaps = 5/27 (18%)
Query: 172 REKR-----ELAEATGLTTTQVSNWFS 193
R+++ ELAE G++ + +S +
Sbjct: 8 RKEKGLTQEELAEKLGVSRSTISRIEN 34
>gnl|CDD|222133 pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain. This is a
helix-turn-helix domain that probably binds to DNA.
Length = 63
Score = 29.8 bits (68), Expect = 0.36
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 364 KRELAEATGLTTTQVSNWFKNRRQR 388
K +LA ATG++ +S K +R
Sbjct: 13 KTDLARATGISRATLSRLKKGEAKR 37
>gnl|CDD|197775 smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins.
Length = 56
Score = 29.4 bits (67), Expect = 0.39
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 5/31 (16%)
Query: 362 REKR-----ELAEATGLTTTQVSNWFKNRRQ 387
RE++ ELAE G++ + +S +R+
Sbjct: 6 REEKGLTQEELAEKLGVSRSTLSRIENGKRK 36
>gnl|CDD|239516 cd03424, ADPRase_NUDT5, ADP-ribose pyrophosphatase (ADPRase)
catalyzes the hydrolysis of ADP-ribose and a variety of
additional ADP-sugar conjugates to AMP and
ribose-5-phosphate. Like other members of the Nudix
hydrolase superfamily, it requires a divalent cation,
such as Mg2+, for its activity. It also contains a
highly conserved 23-residue Nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V) which functions
as a metal binding site/catalytic site. In addition to
the Nudix motif, there are additional conserved amino
acid residues, distal from the signature sequence, that
correlate with substrate specificity. In humans, there
are four distinct ADPRase activities, three putative
cytosolic enzymes (ADPRase-I, -II, and -Mn) and a single
mitochondrial enzyme (ADPRase-m). Human ADPRase-II is
also referred to as NUDT5. It lacks the N-terminal
target sequence unique to mitochondrial ADPRase. The
different cytosolic types are distinguished by their
specificities for substrate and specific requirement for
metal ions. NUDT5 forms a homodimer.
Length = 137
Score = 30.5 bits (70), Expect = 0.62
Identities = 18/101 (17%), Positives = 31/101 (30%), Gaps = 25/101 (24%)
Query: 174 KRELAEATGLTTTQVSNWFSSANITSSPNTSTSTASISPILPSFGFTQEQVACV-CEVLQ 232
+REL E TG + + PS GF+ E++ E L
Sbjct: 49 RRELEEETGYEAGDLE-------------------KLGSFYPSPGFSDERIHLFLAEDLS 89
Query: 233 QSGNI-----ERLGRFLWSLPACEKLHKNESVLKAKAMVAF 268
E + L L +L + ++ ++A
Sbjct: 90 PGEEGLLDEGEDIEVVLVPLDEALELLADGEIIDDATLIAL 130
>gnl|CDD|152005 pfam11569, Homez, Homeodomain leucine-zipper encoding, Homez.
Homez contains two leucine zipper-like motifs and an
acidic domain and belongs to the superfamily of
homeobox-containing proteins. The presence of leucine
zippers suggests that Homez can function as a homo or
heterodimer in the nucleus. It is thought that the first
leucine zipper and homeodomain 1 (HD1)of Homez is
responsible for dimerisation and HD2 has a specific
DNA-binding activity. Homez is also thought to function
as a transcriptional repressor due to the acidic region
in its C-terminal domain. Homez is involved in a complex
regulatory network.
Length = 57
Score = 28.2 bits (63), Expect = 1.0
Identities = 12/47 (25%), Positives = 22/47 (46%)
Query: 342 KEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 388
K L+D+Y + ++ L E +G++ QV +WF +R
Sbjct: 7 KPVDIQPLKDYYLQHHLLQEKDLDGLCEKSGMSYEQVRDWFASRMSE 53
Score = 27.8 bits (62), Expect = 1.6
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 152 KEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFSS 194
K L+D+Y + ++ L E +G++ QV +WF+S
Sbjct: 7 KPVDIQPLKDYYLQHHLLQEKDLDGLCEKSGMSYEQVRDWFAS 49
>gnl|CDD|201759 pfam01381, HTH_3, Helix-turn-helix. This large family of DNA
binding helix-turn helix proteins includes Cro and CI.
Within the Neisseria gonorrhoeae phage associated
protein NGO0477, the full protein fold incorporates a
helix-turn-helix motif, but the function of this member
is unlikely to be that of a DNA-binding regulator, the
function of most other members, so is not necessarily
characteristic of the whole family.
Length = 55
Score = 27.9 bits (63), Expect = 1.3
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 362 REKR-----ELAEATGLTTTQVSNWFKNRR 386
RE+ ELAE G++ + +S +R
Sbjct: 5 REELGLSQEELAEKLGVSRSTISKIENGKR 34
>gnl|CDD|218541 pfam05292, MCD, Malonyl-CoA decarboxylase (MCD). This family
consists of several eukaryotic malonyl-CoA decarboxylase
(MLYCD) proteins. Malonyl-CoA, in addition to being an
intermediate in the de novo synthesis of fatty acids, is
an inhibitor of carnitine palmitoyltransferase I, the
enzyme that regulates the transfer of long-chain fatty
acyl-CoA into mitochondria, where they are oxidized.
After exercise, malonyl-CoA decarboxylase participates
with acetyl-CoA carboxylase in regulating the
concentration of malonyl-CoA in liver and adipose
tissue, as well as in muscle. Malonyl-CoA decarboxylase
is regulated by AMP-activated protein kinase (AMPK).
Length = 354
Score = 30.0 bits (67), Expect = 2.1
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 296 LWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEET 337
+ L A Y+ EK RG+ L +V + ++ L R W G+ +
Sbjct: 296 MRLCARYLLQEKKRGKALDSVANFHLQNGAMLERLNWMGDRS 337
>gnl|CDD|221200 pfam11743, DUF3301, Protein of unknown function (DUF3301). This
family is conserved in Proteobacteria, but the function
is not known.
Length = 97
Score = 28.3 bits (64), Expect = 2.5
Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 12/45 (26%)
Query: 381 WFKNRRQRDRA---AEQK---------DGSVHSFRVNIGGDSKTQ 413
W++ R+QR+RA A + D +V R+ + D++ +
Sbjct: 15 WWQQRKQRERALQAARRYCKKLDLQLLDDAVALRRLRLKRDARGR 59
>gnl|CDD|137204 PRK09310, aroDE, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase protein; Reviewed.
Length = 477
Score = 29.8 bits (67), Expect = 2.6
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 14/80 (17%)
Query: 69 LPTSRLVPIQ-AHPQLALVLSYQALASHKSIFDKVVTSYKEVWKSPVKTYQ------SSS 121
P L+ I+ HP++ ++LSY H S + ++ Y E+ S Y+ SS+
Sbjct: 89 FPKEALIRIRKLHPKIKIILSY-----HTSEHEDIIQLYNEMLASAADYYKIAVSSSSST 143
Query: 122 IIINIIKYRVRRKFPLPRTI 141
++NII +R P T+
Sbjct: 144 DLLNII--HQKRSLPENTTV 161
>gnl|CDD|143450 cd07132, ALDH_F3AB, Aldehyde dehydrogenase family 3 members A1, A2,
and B1 and related proteins. NAD(P)+-dependent,
aldehyde dehydrogenase, family 3 members A1 and B1
(ALDH3A1, ALDH3B1, EC=1.2.1.5) and fatty aldehyde
dehydrogenase, family 3 member A2 (ALDH3A2, EC=1.2.1.3),
and similar sequences are included in this CD. Human
ALDH3A1 is a homodimer with a critical role in cellular
defense against oxidative stress; it catalyzes the
oxidation of various cellular membrane lipid-derived
aldehydes. Corneal crystalline ALDH3A1 protects the
cornea and underlying lens against UV-induced oxidative
stress. Human ALDH3A2, a microsomal homodimer, catalyzes
the oxidation of long-chain aliphatic aldehydes to fatty
acids. Human ALDH3B1 is highly expressed in the kidney
and liver and catalyzes the oxidation of various medium-
and long-chain saturated and unsaturated aliphatic
aldehydes.
Length = 443
Score = 29.9 bits (68), Expect = 2.9
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 22/76 (28%)
Query: 341 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVH 400
F E + L+++Y +P SP R + N R R + G
Sbjct: 256 FVEALKKTLKEFYGEDPKESPDYGRII----------------NDRHFQRLKKLLSGG-- 297
Query: 401 SFRVNIGG--DSKTQY 414
+V IGG D K +Y
Sbjct: 298 --KVAIGGQTDEKERY 311
>gnl|CDD|215304 PLN02554, PLN02554, UDP-glycosyltransferase family protein.
Length = 481
Score = 29.4 bits (66), Expect = 3.6
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 218 GFTQEQVACVCEVLQQSGNIERLGRFLWSL 247
GF++EQ + L++SG+ RFLWSL
Sbjct: 286 GFSEEQAREIAIALERSGH-----RFLWSL 310
>gnl|CDD|182115 PRK09855, PRK09855, PTS system N-acetylgalactosamine-specific
transporter subunit IID; Provisional.
Length = 263
Score = 28.9 bits (65), Expect = 4.1
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 231 LQQSGNIERL--GRFLWS-LPACEKLHKNESVLKAKAM 265
LQ S N ER+ G F W+ LP +K++K++ + AM
Sbjct: 20 LQASFNYERMQAGGFTWAMLPILKKIYKDDKPGLSAAM 57
>gnl|CDD|152349 pfam11914, DUF3432, Domain of unknown function (DUF3432). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 100
amino acids in length. This domain is found associated
with pfam00096. This domain has two conserved sequence
motifs: YPSPV and PSP.
Length = 100
Score = 27.8 bits (61), Expect = 4.4
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 165 HNPYPSPREKRELAEATGLTTTQVSNWFSSANITSSPNTSTSTA 208
H +PSP + TQV+ F S+ +T+S ++ +T
Sbjct: 54 HTSFPSPSIATTYPSVSPTFQTQVATSFPSSVVTNSFSSPVTTP 97
>gnl|CDD|178515 PLN02927, PLN02927, antheraxanthin epoxidase/zeaxanthin epoxidase.
Length = 668
Score = 28.5 bits (63), Expect = 8.6
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 32 YRVPHDDRCCASE---LKSNQDRTC 53
Y +PH D CC SE L ++D+ C
Sbjct: 535 YLIPHGDDCCVSETLCLTKDEDQPC 559
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 0.130 0.403
Gapped
Lambda K H
0.267 0.0825 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,325,573
Number of extensions: 1871680
Number of successful extensions: 1740
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1740
Number of HSP's successfully gapped: 29
Length of query: 414
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 315
Effective length of database: 6,546,556
Effective search space: 2062165140
Effective search space used: 2062165140
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: 60 (26.7 bits)