RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3860
(119 letters)
>gnl|CDD|217380 pfam03133, TTL, Tubulin-tyrosine ligase family. Tubulins and
microtubules are subjected to several post-translational
modifications of which the reversible
detyrosination/tyrosination of the carboxy-terminal end
of most alpha-tubulins has been extensively analysed.
This modification cycle involves a specific
carboxypeptidase and the activity of the
tubulin-tyrosine ligase (TTL). The true physiological
function of TTL has so far not been established.
Tubulin-tyrosine ligase (TTL) catalyzes the
ATP-dependent post-translational addition of a tyrosine
to the carboxy terminal end of detyrosinated
alpha-tubulin. In normally cycling cells, the
tyrosinated form of tubulin predominates. However, in
breast cancer cells, the detyrosinated form frequently
predominates, with a correlation to tumour
aggressiveness. On the other hand, 3-nitrotyrosine has
been shown to be incorporated, by TTL, into the carboxy
terminal end of detyrosinated alpha-tubulin. This
reaction is not reversible by the carboxypeptidase
enzyme. Cells cultured in 3-nitrotyrosine rich medium
showed evidence of altered microtubule structure and
function, including altered cell morphology, epithelial
barrier dysfunction, and apoptosis. Bacterial homologs
of TTL are predicted to form peptide tags. Some of these
are fused to a 2-oxoglutarate Fe(II)-dependent
dioxygenase domain.
Length = 291
Score = 65.4 bits (160), Expect = 8e-14
Identities = 30/100 (30%), Positives = 54/100 (54%), Gaps = 4/100 (4%)
Query: 7 KAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRGAEGKGI 66
K +L ++ R F +++ P+++ LP E + Y ++ T I+KP+ A G+GI
Sbjct: 23 KDLLWKNIKRQPCDFGRKFDFLPRTFILPTDLAEFVDYFEDNERNTWIVKPSASARGRGI 82
Query: 67 KI---LNFIPEHEVMDQDASCQVYLSNVLLINGFKFDLRV 103
+I L+ I + + + Q Y+ LLI+G KFD+R+
Sbjct: 83 RITNDLSQILKQ-IQSRPLVVQKYIERPLLIDGRKFDIRL 121
>gnl|CDD|183536 PRK12458, PRK12458, glutathione synthetase; Provisional.
Length = 338
Score = 30.0 bits (68), Expect = 0.25
Identities = 30/104 (28%), Positives = 46/104 (44%), Gaps = 21/104 (20%)
Query: 10 LAYHLNRMKYF--FPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRGAEGKG-I 66
L N++ YF FP+E + P + + R + + + E + +ILKP +G+ G+G
Sbjct: 124 LRIANNKL-YFQSFPEE--VRPTT-HISRNKEYIREFLEESPGDKMILKPLQGSGGQGVF 179
Query: 67 KI-------LNFIPEHEVMDQDASCQVYLSN-------VLLING 96
I LN I E D Q YL +LL+NG
Sbjct: 180 LIEKSAQSNLNQILEFYSGDGYVIAQEYLPGAEEGDVRILLLNG 223
>gnl|CDD|225513 COG2965, PriB, Primosomal replication protein N [DNA replication,
recombination, and repair].
Length = 103
Score = 28.6 bits (64), Expect = 0.39
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 65 GIKILNFIPEHE--VMDQDASCQVYLSNVLLING 96
GI F+ EH + QV+ + ++G
Sbjct: 25 GIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSG 58
>gnl|CDD|202916 pfam04174, CP_ATPgrasp_1, A circularly permuted ATPgrasp. An
ATP-grasp family that is present both as catalytically
active and inactive versions. Contextual analysis
suggests that it functions in a distinct peptide
synthesis/modification system that additionally contains
a transglutaminase, an NTN-hydrolase, the Alpha-E
domain, and a transglutaminase fused N-terminal to a
circularly permuted COOH-NH2 ligase. The inactive forms
are often fused N-terminal to the Alpha-E domain.
Length = 331
Score = 29.1 bits (66), Expect = 0.46
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 10/69 (14%)
Query: 4 LESKAILAYHLNRMKYFFPDEYNIFPK--SW--SLPRQWKEVISYNREHADETLILKPTR 59
+ KA+LA+ L R+ ++ E I P +W P + V++ N + L++KP
Sbjct: 243 ADDKALLAF-LPRLARYYLGEEPILPNVPTWWCGDPDDLEYVLA-NLDK----LVIKPVA 296
Query: 60 GAEGKGIKI 68
G G G I
Sbjct: 297 GYGGYGAYI 305
>gnl|CDD|233164 TIGR00877, purD, phosphoribosylamine--glycine ligase. Alternate
name: glycinamide ribonucleotide synthetase (GARS). This
enzyme appears as a monofunctional protein in
prokaryotes but as part of a larger, multidomain protein
in eukaryotes [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 422
Score = 28.0 bits (63), Expect = 1.1
Identities = 21/85 (24%), Positives = 34/85 (40%), Gaps = 15/85 (17%)
Query: 2 ANLE-SKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRG 60
A LE SKA K F Y I + + +E SY +E +++K
Sbjct: 99 AQLEGSKAF-------AKDFM-KRYGIPTAEYEVFTDPEEAKSYIQEK-GAPIVVKADGL 149
Query: 61 AEGKGIKILNFIPE-----HEVMDQ 80
A GKG+ + E ++++Q
Sbjct: 150 AAGKGVIVAKTNEEAIKAVEDILEQ 174
>gnl|CDD|148068 pfam06239, ECSIT, Evolutionarily conserved signalling intermediate
in Toll pathway. Activation of NF-kappaB as a
consequence of signaling through the Toll and IL-1
receptors is a major element of innate immune responses.
ECSIT plays an important role in signalling to
NF-kappaB, functioning as the intermediate in the
signaling pathways between TRAF-6 and MEKK-1.
Length = 229
Score = 27.7 bits (62), Expect = 1.3
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 2/24 (8%)
Query: 13 HLNRMKYFFPDEYNIFPKSWSLPR 36
RM Y+ P ++ P W LPR
Sbjct: 158 KYRRMMYWMPKFKHLNP--WPLPR 179
>gnl|CDD|176497 cd00137, PI-PLCc, Catalytic domain of prokaryotic and eukaryotic
phosphoinositide-specific phospholipase C. This
subfamily corresponds to the catalytic domain present in
prokaryotic and eukaryotic phosphoinositide-specific
phospholipase C (PI-PLC), which is a ubiquitous enzyme
catalyzing the cleavage of the sn3-phosphodiester bond
in the membrane phosphoinositides (phosphatidylinositol,
PI; Phosphatidylinositol-4-phosphate, PIP;
phosphatidylinositol 4,5-bisphosphate, PIP2) to yield
inositol phosphates (inositol monosphosphate, InsP;
inositol diphosphate, InsP2; inositol trisphosphate,
InsP3) and diacylglycerol (DAG). The higher eukaryotic
PI-PLCs (EC 3.1.4.11) have a multidomain organization
that consists of a PLC catalytic core domain, and
various regulatory domains. They play a critical role in
most signal transduction pathways, controlling numerous
cellular events, such as cell growth, proliferation,
excitation and secretion. These PI-PLCs strictly require
Ca2+ for their catalytic activity. They display a clear
preference towards the hydrolysis of the more highly
phosphorylated PI-analogues, PIP2 and PIP, to generate
two important second messengers, InsP3 and DAG. InsP3
triggers inflow of calcium from intracellular stores,
while DAG, together with calcium, activates protein
kinase C, which then phosphorylates other molecules,
leading to altered cellular activity. In contrast,
bacterial PI-PLCs contain a single catalytic domain.
Although their precise physiological function remains
unclear, bacterial PI-PLCs may function as virulence
factors in some pathogenic bacteria. They participate in
Ca2+-independent PI metabolism. They are characterized
as phosphatidylinositol-specific phospholipase C (EC
4.6.1.13) that selectively hydrolyze PI, not PIP or
PIP2. The TIM-barrel type catalytic domain in bacterial
PI-PLCs is very similar to the one in eukaryotic
PI-PLCs, in which the catalytic domain is assembled from
two highly conserved X- and Y-regions split by a
divergent linker sequence. The catalytic mechanism of
both prokaryotic and eukaryotic PI-PLCs is based on
general base and acid catalysis utilizing two well
conserved histidines, and consists of two steps, a
phosphotransfer and a phosphodiesterase reaction. This
superfamily also includes a distinctly different type of
eukaryotic PLC, glycosylphosphatidylinositol-specific
phospholipase C (GPI-PLC), an integral membrane protein
characterized in the protozoan parasite Trypanosoma
brucei. T. brucei GPI-PLC hydrolyzes the GPI-anchor on
the variant specific glycoprotein (VSG), releasing
dimyristyl glycerol (DMG), which may facilitate the
evasion of the protozoan to the host#s immune system. It
does not require Ca2+ for its activity and is more
closely related to bacterial PI-PLCs, but not mammalian
PI-PLCs.
Length = 274
Score = 27.2 bits (60), Expect = 1.9
Identities = 13/61 (21%), Positives = 16/61 (26%), Gaps = 5/61 (8%)
Query: 25 YNIFPKSWSLPRQWKEVISY-NREHADETLILKPTRGAEGKGIKILNFIPEHEVMDQDAS 83
+P S W N P G GI IL+F M Q +
Sbjct: 214 SRNYPSGTSGGTAWYYYAMDSNNYMPQMFWNANP----AGCGIVILDFQTMDLPMQQYMA 269
Query: 84 C 84
Sbjct: 270 V 270
>gnl|CDD|222734 pfam14397, ATPgrasp_ST, Sugar-transfer associated ATP-grasp. A
member of the ATP-grasp fold predicted to be involved
in the biosynthesis of cell surface polysaccharides.
Length = 284
Score = 26.2 bits (58), Expect = 5.0
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 39 KEVISYNREHADETLILKPTRGAEGKGIKILNFI 72
E +++ R H + L +KP G GKGI+ L
Sbjct: 61 SEFVAFCRNH--KPLFVKPVDGMGGKGIEKLELD 92
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 26.1 bits (58), Expect = 5.2
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 38 WKEVISYNREHADETLILKPTRGAEGKGIKI 68
+E ++ E +I+K G G+G+++
Sbjct: 141 NEEALAIAEEIGYP-VIVKAAAGGGGRGMRV 170
>gnl|CDD|130728 TIGR01667, YCCS_YHJK, integral membrane protein, YccS/YhfK family.
This model represents two clades of putative
transmembrane proteins including the E. coli YccS and
YhfK proteins. The YccS hypothetical equivalog
(TIGR01666) is found in beta and gamma proteobacteria,
while the smaller YhfK group is only found in E. coli,
Salmonella and Yersinia. TMHMM on the 19 hits to this
model shows a consensus of 11 transmembrane helices
separated into two clusters, an N-terminal cluster of 6
and a central cluster of 5. This would indicate two
non-membrane domains one on each side of the membrane.
Length = 701
Score = 26.0 bits (57), Expect = 5.7
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 80 QDASCQVYLSNVLLINGFKFDLRVKR------YAVEKYRQKG 115
Q +CQV ++LL + LR +R A+EK RQ
Sbjct: 274 QAQACQVLARDILLRQPYYHRLRTERALEKQIAALEKIRQNQ 315
>gnl|CDD|132147 TIGR03103, trio_acet_GNAT, GNAT-family acetyltransferase TIGR03103.
Members of this protein family belong to the GNAT
family of acetyltransferases. Each is part of a
conserved three-gene cassette sparsely distributed
across at least twenty different species known so far,
including alpha, beta, and gamma Proteobacteria,
Mycobacterium, and Prosthecochloris, which is a member
of the Chlorobi. The other two members of the cassette
are a probable protease and an asparagine synthetase
family protein.
Length = 547
Score = 25.9 bits (57), Expect = 6.2
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 53 LILKPTRGAEGKGIKI 68
+++KP RG +GKGI +
Sbjct: 334 VVVKPVRGEQGKGISV 349
>gnl|CDD|240187 cd05560, Xcc1710_like, Xcc1710_like family, specific to
proteobacteria. Xcc1710 is a hypothetical protein from
Xanthomonas campestris pv. campestris str. ATCC 33913,
similar to Mth938, a hypothetical protein encoded by
the Methanobacterium thermoautotrophicum (Mth) genome.
Their three-dimensional structures have been
determined, but their functions are unknown.
Length = 109
Score = 24.8 bits (55), Expect = 8.2
Identities = 9/18 (50%), Positives = 13/18 (72%), Gaps = 2/18 (11%)
Query: 76 EVMDQDASCQVYLSNVLL 93
EVMD A+C+ Y N+L+
Sbjct: 83 EVMDTQAACRTY--NILM 98
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 25.7 bits (57), Expect = 8.3
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 19 YFFPDEYNIFPKSWSLPRQWKEVISYNRE 47
++FP+ NIFP +S KE ++
Sbjct: 8 FYFPNCVNIFPYKYSQ----KEFEEMSKT 32
>gnl|CDD|183779 PRK12830, PRK12830, UDP-N-acetylglucosamine
1-carboxyvinyltransferase; Reviewed.
Length = 417
Score = 25.6 bits (57), Expect = 8.7
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 61 AEGKGIKILNFIPEH 75
A G G+ I N IPEH
Sbjct: 244 ACGGGVTINNVIPEH 258
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
0.322 0.138 0.417
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,191,372
Number of extensions: 528444
Number of successful extensions: 399
Number of sequences better than 10.0: 1
Number of HSP's gapped: 398
Number of HSP's successfully gapped: 20
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
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: 53 (24.2 bits)