RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9258
(163 letters)
>gnl|CDD|216184 pfam00907, T-box, T-box. The T-box encodes a 180 amino acid domain
that binds to DNA. Genes encoding T-box proteins are
found in a wide range of animals, but not in other
kingdoms such as plants. Family members are all thought
to bind to the DNA consensus sequence TCACACCT. they are
found exclusively in the nucleus, and perform
DNA-binding and transcriptional activation/repression
roles. They are generally required for development of
the specific tissues they are expressed in, and
mutations in T-box genes are implicated in human
conditions such as DiGeorge syndrome and X-linked cleft
palate, which feature malformations.
Length = 182
Score = 155 bits (393), Expect = 9e-49
Identities = 69/153 (45%), Positives = 95/153 (62%), Gaps = 10/153 (6%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDAERPIAH 59
MIITK+GRRMFP+L++ VSGLD A YS+L++F H+YK+ W G AE H
Sbjct: 20 MIITKSGRRMFPTLKVSVSGLDPNALYSVLLDFVPVDDHRYKFHNGEWVVAGKAEP---H 76
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVE--GTILLNSMHKYIPRIHLIKNSP 117
P R+Y HP A G+ W Q + +K+KL N ++ G I+LNSMHKY PR+H+++
Sbjct: 77 PPPRVYIHPDSPATGAHWMKQPVSFDKVKLTNNKLDGNGHIILNSMHKYQPRLHIVR-VD 135
Query: 118 QPSTHWETPLSRAIFAFPITEFIAVTAYANQTV 150
S T + F+FP T+FIAVTAY N+ +
Sbjct: 136 DESPSQRTVRT---FSFPETQFIAVTAYQNEEI 165
>gnl|CDD|238106 cd00182, TBOX, T-box DNA binding domain of the T-box family of
transcriptional regulators. The T-box family is an
ancient group that appears to play a critical role in
development in all animal species. These genes were
uncovered on the basis of similarity to the DNA binding
domain of murine Brachyury (T) gene product, the
defining feature of the family. Common features shared
by T-box family members are DNA-binding and
transcriptional regulatory activity, a role in
development and conserved expression patterns, most of
the known genes in all species being expressed in
mesoderm or mesoderm precursors.
Length = 188
Score = 153 bits (390), Expect = 3e-48
Identities = 68/154 (44%), Positives = 91/154 (59%), Gaps = 9/154 (5%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDAERPIAH 59
MIITK+GRRMFP+L+++VSGLD A YS+L++ H+YK+ W G AE H
Sbjct: 22 MIITKSGRRMFPTLKVKVSGLDPNALYSVLMDLVPVDDHRYKFSGGKWVVAGKAE---PH 78
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSP 117
R+Y HP A G+ W Q + +K+KL N + G I+LNSMHKY PR+H+++
Sbjct: 79 LPPRVYVHPDSPATGAHWMKQPVSFDKLKLTNNTLDNNGHIILNSMHKYQPRLHIVEVDD 138
Query: 118 QPSTHWETPLSRAIFAFPITEFIAVTAYANQTVK 151
W F+FP TEFIAVTAY NQ +
Sbjct: 139 SSPFSWR---LVQTFSFPETEFIAVTAYQNQEIT 169
>gnl|CDD|214656 smart00425, TBOX, Domain first found in the mice T locus
(Brachyury) protein.
Length = 190
Score = 144 bits (365), Expect = 2e-44
Identities = 65/165 (39%), Positives = 89/165 (53%), Gaps = 14/165 (8%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDAERPIAH 59
MI+TK+GRRMFP+L+ +VSGLD A YS+L++ +YK+ W G AE H
Sbjct: 21 MIVTKSGRRMFPTLKYKVSGLDPNALYSVLMDLVPVDDKRYKFNNGKWVVAGKAEP---H 77
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFV----EGTILLNSMHKYIPRIHLIKN 115
+R+Y HP A G+ W Q + +K+KL N I+LNSMHKY PR+H+++
Sbjct: 78 MPSRVYVHPDSPATGAHWMKQPVSFDKVKLTNNQSDKNGHLQIILNSMHKYQPRLHIVEV 137
Query: 116 SPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDACLKKSM 160
+ F FP T+FIAVTAY NQ + LK
Sbjct: 138 DDISKEILSQFKT---FVFPETQFIAVTAYQNQKITK---LKIDN 176
>gnl|CDD|239487 cd03393, PAP2_like_3, PAP2_like_3 proteins. PAP2 is a
super-family of phosphatases and haloperoxidases. This
subgroup, which is specific to bacteria and archaea,
lacks functional characterization and may act as a
membrane-associated lipid phosphatase.
Length = 125
Score = 28.5 bits (64), Expect = 0.98
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 40 KYKYKTSWEPVGDAERPIAHPAARLYSHPAGHALGS--FWTGQTLHLNK 86
K +K D + I +A Y P+GHA S FW LH+ K
Sbjct: 33 KEVFKIPRPFTYDGIQAIYEESAGGYGFPSGHAQTSATFWGSLMLHVRK 81
>gnl|CDD|238716 cd01436, Dipth_tox_like, Mono-ADP-ribosylating toxins catalyze the
transfer of ADP_ribose from NAD+ to eukaryotic
Elongation Factor 2, halting protein synthesis. A single
molecule of delivered toxin is sufficient to kill a
cell. These toxins share mono-ADP-ribosylating activity
with a variety of bacterial toxins, such as cholera
toxin and pertussis toxin. The structural core is
homologous to the poly-ADP ribosylating enzymes such as
the PARP enzymes and Tankyrase. Diphtheria toxin is
encoded by a lysogenic bacteriophage. Both diphtheria
toxin and Pseudomonas aeruginosa exotoxin A are
multi-domain proteins. These domains provide a EF2
ADP_ribosylating, receptor-binding, and intracellular
trafficking/transmembrane functions .
Length = 147
Score = 28.0 bits (61), Expect = 1.6
Identities = 2/45 (4%), Positives = 7/45 (15%)
Query: 43 YKTSWEPVGDAERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKI 87
+ ++ + G G +
Sbjct: 75 LALKVDNAETIKKELGLSLTEPLMEQVGTEEFIKRFGDGASRVVL 119
>gnl|CDD|224541 COG1626, TreA, Neutral trehalase [Carbohydrate transport and
metabolism].
Length = 558
Score = 27.0 bits (60), Expect = 4.9
Identities = 22/115 (19%), Positives = 40/115 (34%), Gaps = 10/115 (8%)
Query: 18 VSGLDQAAHYSLLVEFH-LASPHKYKYKTSWEPVGDAERPIAHPAARLYSH-----PAGH 71
V+ D + L + +P + Y E + A+ P +Y +G
Sbjct: 274 VTLGDGSPPEVLNRYWDDRDTPRQESYH---ETIATAKHNPERPLDEIYRDDRAGRESGW 330
Query: 72 ALGSFWTGQTLHLNKIKLANA-FVEGTILLNSMHKYIPRIHLIKNSPQPSTHWET 125
S W G L I+ + V+ LL + + I I IK + + ++
Sbjct: 331 DFSSRWLGVPAPLASIRTTSILPVDLNALLYKLEEIIANISAIKGDKETAERYQR 385
>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ. The
ATP-dependent DNA helicase RecQ of E. coli is about 600
residues long. This model represents bacterial proteins
with a high degree of similarity in domain architecture
and in primary sequence to E. coli RecQ. The model
excludes eukaryotic and archaeal proteins with RecQ-like
regions, as well as more distantly related bacterial
helicases related to RecQ [DNA metabolism, DNA
replication, recombination, and repair].
Length = 591
Score = 27.0 bits (60), Expect = 6.0
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 127 LSRAIFAFPITEFIAVTAYANQTVKDD 153
L FP IA+TA A+ + D
Sbjct: 153 LGSLAERFPQVPRIALTATADAETRQD 179
>gnl|CDD|190849 pfam04061, ORMDL, ORMDL family. Evidence form suggests that ORMDLs
are involved in protein folding in the ER. Orm proteins
have been identified as negative regulators of
sphingolipid synthesis that form a conserved complex
with serine palmitoyltransferase, the first and
rate-limiting enzyme in sphingolipid production. This
novel and conserved protein complex, has been termed the
SPOTS complex (serine palmitoyltransferase, Orm1/2,
Tsc3, and Sac1).
Length = 135
Score = 26.0 bits (58), Expect = 7.6
Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 16/53 (30%)
Query: 111 HLIKNSPQPS--------THWE--------TPLSRAIFAFPITEFIAVTAYAN 147
H +K +P T WE TP + + PI F+ T Y +
Sbjct: 55 HWVKGTPFEFDQGAYDNLTMWEQIDEGAQYTPARKFLTVVPIVLFLLSTHYTH 107
>gnl|CDD|237605 PRK14086, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 617
Score = 26.3 bits (58), Expect = 8.6
Identities = 17/59 (28%), Positives = 18/59 (30%), Gaps = 9/59 (15%)
Query: 15 QLQVSGLDQAAHYSLLVEFHLASPHKYKYKTS-WEPVGDAERPIAHPAARLYSHPAGHA 72
Q Q G A Y ASP Y + DA RP R Y HP
Sbjct: 168 QQQRLGFPPRAPY--------ASPASYAPEQERDREPYDAGRPEYDQRRRDYDHPRPDW 218
>gnl|CDD|224193 COG1274, PckA, Phosphoenolpyruvate carboxykinase (GTP) [Energy
production and conversion].
Length = 608
Score = 26.2 bits (58), Expect = 9.0
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 39 HKYKYKTSWEPVGDAERPIAHPAAR 63
+K + G+ P AHP +R
Sbjct: 367 ELIDWKGNDWRPGETGEPAAHPNSR 391
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 0.132 0.407
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,208,801
Number of extensions: 720515
Number of successful extensions: 508
Number of sequences better than 10.0: 1
Number of HSP's gapped: 497
Number of HSP's successfully gapped: 16
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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 (21.9 bits)
S2: 55 (24.9 bits)