RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3641
(202 letters)
>gnl|CDD|215654 pfam00010, HLH, Helix-loop-helix DNA-binding domain.
Length = 52
Score = 58.6 bits (143), Expect = 3e-12
Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 4/54 (7%)
Query: 52 MSHRIIEKRRRDRMNNCLADLSRLIPADYLKKGRGRIEKTEIIEMAIKHMKYLH 105
+H E+RRRDR+N+ +L L+P KK + K EI+ +AI+++K+L
Sbjct: 3 KAHNERERRRRDRINDAFEELRELLPTPPNKK----LSKAEILRLAIEYIKHLQ 52
>gnl|CDD|238036 cd00083, HLH, Helix-loop-helix domain, found in specific DNA-
binding proteins that act as transcription factors;
60-100 amino acids long. A DNA-binding basic region is
followed by two alpha-helices separated by a variable
loop region; HLH forms homo- and heterodimers,
dimerization creates a parallel, left-handed, four helix
bundle; the basic region N-terminal to the first
amphipathic helix mediates high-affinity DNA-binding;
there are several groups of HLH proteins: those
(E12/E47) which bind specific hexanucleotide sequences
such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3),
those lacking the basic domain (Emc, Id) function as
negative regulators since they fail to bind DNA, those
(hairy, E(spl), deadpan) which repress transcription
although they can bind specific hexanucleotide sequences
such as N-box (5-CACGc/aG-3), those which have a COE
domain (Collier/Olf-1/EBF) which is involved in both in
dimerization and in DNA binding, and those which bind
pentanucleotides ACGTG or GCGTG and have a PAS domain
which allows the dimerization between PAS proteins, the
binding of small molecules (e.g., dioxin), and
interactions with non-PAS proteins.
Length = 60
Score = 55.7 bits (135), Expect = 5e-11
Identities = 17/57 (29%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 52 MSHRIIEKRRRDRMNNCLADLSRLIPADYLKKGRGRIEKTEIIEMAIKHMKYLHSVV 108
+H + E+RRR+R+N+ +L L+P K ++ K EI+ A+ ++K L ++
Sbjct: 6 EAHNLRERRRRERINDAFDELRSLLPTLPPSK---KLSKAEILRKAVDYIKSLQELL 59
>gnl|CDD|197674 smart00353, HLH, helix loop helix domain.
Length = 53
Score = 46.1 bits (110), Expect = 2e-07
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 55 RIIEKRRRDRMNNCLADLSRLIPADYLKKGRGRIEKTEIIEMAIKHMKYLHSVV 108
E+RRR ++N +L L+P K ++ K EI+ +AI+++K L +
Sbjct: 1 NARERRRRRKINEAFDELRSLLPTLPKNK---KLSKAEILRLAIEYIKSLQEEL 51
>gnl|CDD|219453 pfam07527, Hairy_orange, Hairy Orange. The Orange domain is found
in the Drosophila proteins Hesr-1, Hairy, and Enhancer
of Split. The Orange domain is proposed to mediate
specific protein-protein interaction between Hairy and
Scute.
Length = 42
Score = 28.7 bits (65), Expect = 0.25
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 181 FKLGYQECLSESMHYLVEVKG 201
F+ G++ECL+E +L V+G
Sbjct: 2 FRAGFRECLNEVARFLSSVEG 22
>gnl|CDD|128787 smart00511, ORANGE, Orange domain. This domain confers specificity
among members of the Hairy/E(SPL) family.
Length = 45
Score = 26.0 bits (58), Expect = 2.5
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 181 FKLGYQECLSESMHYLVEVKG 201
F+ GY+EC +E +L ++ G
Sbjct: 3 FRSGYRECANEVSRFLSQLPG 23
>gnl|CDD|197581 smart00219, TyrKc, Tyrosine kinase, catalytic domain.
Phosphotransferases. Tyrosine-specific kinase subfamily.
Length = 257
Score = 28.3 bits (64), Expect = 2.6
Identities = 9/31 (29%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 79 DYLKKGRGRIEKTEIIEMAI---KHMKYLHS 106
YL+K R ++ ++++ A+ + M+YL S
Sbjct: 90 SYLRKNRPKLSLSDLLSFALQIARGMEYLES 120
>gnl|CDD|131779 TIGR02732, zeta_caro_desat, 9,9'-di-cis-zeta-carotene desaturase.
Carotene 7,8-desaturase, also called zeta-carotene
desaturase, catalyzes multiple steps in the pathway from
geranylgeranyl-PP to all-trans-lycopene in plants and
cyanobacteria. A similar enzyme and pathway is found in
the green sulfur bacterium Chlorobium tepidum.
Length = 474
Score = 28.3 bits (63), Expect = 3.4
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 67 NCLADLSRLIPADYLKKGRG 86
+C ADL+ P DY K+G+G
Sbjct: 351 SCFADLALTSPDDYYKEGQG 370
>gnl|CDD|214879 smart00879, Brix, The Brix domain is found in a number of
eukaryotic proteins. Members include SSF proteins from
yeast and humans, Arabidopsis thaliana Peter Pan-like
protein and several hypothetical proteins.
Length = 180
Score = 26.9 bits (60), Expect = 5.1
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 64 RMNNCLADLSRLIPADYLKKGRGRIEKTEIIEMAIKHMKYLHSVVCTRTPNANPSN 119
R DL RL P K RG+ + E++E A + VV + P N
Sbjct: 11 RTRQLAKDLRRLFP-PSTKINRGKNKLNELLEFASEKGNTDLLVVFESSSKGRPLN 65
>gnl|CDD|215268 PLN02487, PLN02487, zeta-carotene desaturase.
Length = 569
Score = 27.5 bits (61), Expect = 6.7
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 68 CLADLSRLIPADYLKKGRG 86
C ADL+ P DY K+G G
Sbjct: 428 CFADLALTSPEDYYKEGEG 446
>gnl|CDD|215752 pfam00151, Lipase, Lipase.
Length = 329
Score = 27.0 bits (60), Expect = 6.9
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 159 ITELDPNKPEGEGSPAPINL 178
IT LDP P +G+P L
Sbjct: 178 ITGLDPAGPYFKGTPELTRL 197
>gnl|CDD|214610 smart00312, PX, PhoX homologous domain, present in p47phox and
p40phox. Eukaryotic domain of unknown function present
in phox proteins, PLD isoforms, a PI3K isoform.
Length = 105
Score = 25.8 bits (57), Expect = 9.2
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 40 LPEKKMLNREDPMSHRIIEKRRRD--RMNNCLADLSRLIPAD 79
LP KK+ R + S IEKRRR + L + LI
Sbjct: 56 LPGKKLFGRLNNFSEEFIEKRRRGLEKYLQSLLNHPELINHS 97
>gnl|CDD|238368 cd00717, URO-D, Uroporphyrinogen decarboxylase (URO-D) is a dimeric
cytosolic enzyme that decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, without requiring any prosthetic
groups or cofactors. This reaction is located at the
branching point of the tetrapyrrole biosynthetic
pathway, leading to the biosynthesis of heme,
chlorophyll or bacteriochlorophyll. URO-D deficiency is
responsible for the human genetic diseases familial
porphyria cutanea tarda (fPCT) and hepatoerythropoietic
porphyria (HEP).
Length = 335
Score = 26.7 bits (60), Expect = 9.6
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 13/41 (31%)
Query: 43 KKMLNREDPMSHRIIEKRRRDRMNNCLADLSRLIPADYLKK 83
KKM+ + H +++K L D + +YLK
Sbjct: 158 KKMMYTDPEAFHALLDK---------LTDAT----IEYLKA 185
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
0.310 0.128 0.365
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,019,089
Number of extensions: 893368
Number of successful extensions: 535
Number of sequences better than 10.0: 1
Number of HSP's gapped: 530
Number of HSP's successfully gapped: 28
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 56 (25.4 bits)