RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3858
(180 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 = 83.9 bits (208), Expect = 6e-20
Identities = 40/117 (34%), Positives = 66/117 (56%), Gaps = 4/117 (3%)
Query: 62 NHFPGMANLESKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLIL 121
NHFPG + K +L ++ R F +++ P+++ LP E + Y ++ T I+
Sbjct: 12 NHFPGSYEITRKDLLWKNIKRQPCDFGRKFDFLPRTFILPTDLAEFVDYFEDNERNTWIV 71
Query: 122 KPTRGAEGKGIKI---LNFIPEHEVMDQDASCQVYLSNVLLINGFKFDLRVYVLMTS 175
KP+ A G+GI+I L+ I + + + Q Y+ LLI+G KFD+R+YVL+TS
Sbjct: 72 KPSASARGRGIRITNDLSQILKQ-IQSRPLVVQKYIERPLLIDGRKFDIRLYVLVTS 127
>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 = 31.5 bits (72), Expect = 0.23
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 65 PGMANLESKAILAYHLNRMKYFFPDEYNIFPK--SW--SLPRQWKEVISYNREHADETLI 120
PG + KA+LA+ L R+ ++ E I P +W P + V++ N + L+
Sbjct: 238 PGTGVADDKALLAF-LPRLARYYLGEEPILPNVPTWWCGDPDDLEYVLA-NLDK----LV 291
Query: 121 LKPTRGAEGKGIKI 134
+KP G G G I
Sbjct: 292 IKPVAGYGGYGAYI 305
>gnl|CDD|183536 PRK12458, PRK12458, glutathione synthetase; Provisional.
Length = 338
Score = 30.8 bits (70), Expect = 0.38
Identities = 30/104 (28%), Positives = 46/104 (44%), Gaps = 21/104 (20%)
Query: 76 LAYHLNRMKYF--FPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRGAEGKG-I 132
L N++ YF FP+E + P + + R + + + E + +ILKP +G+ G+G
Sbjct: 124 LRIANNKL-YFQSFPEE--VRPTT-HISRNKEYIREFLEESPGDKMILKPLQGSGGQGVF 179
Query: 133 KI-------LNFIPEHEVMDQDASCQVYLSN-------VLLING 162
I LN I E D Q YL +LL+NG
Sbjct: 180 LIEKSAQSNLNQILEFYSGDGYVIAQEYLPGAEEGDVRILLLNG 223
>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 = 30.4 bits (69), Expect = 0.47
Identities = 29/113 (25%), Positives = 47/113 (41%), Gaps = 20/113 (17%)
Query: 68 ANLE-SKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRG 126
A LE SKA K F Y I + + +E SY +E +++K
Sbjct: 99 AQLEGSKAF-------AKDFM-KRYGIPTAEYEVFTDPEEAKSYIQEK-GAPIVVKADGL 149
Query: 127 AEGKGIKILNFIPE-----HEVMDQ---DASCQVYLSNVLLINGFKFDLRVYV 171
A GKG+ + E ++++Q DA +V + L +G +F L +V
Sbjct: 150 AAGKGVIVAKTNEEAIKAVEDILEQKFGDAGERVVIEEFL--DGEEFSLLAFV 200
>gnl|CDD|225513 COG2965, PriB, Primosomal replication protein N [DNA replication,
recombination, and repair].
Length = 103
Score = 28.6 bits (64), Expect = 0.77
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 131 GIKILNFIPEHE--VMDQDASCQVYLSNVLLING 162
GI F+ EH + QV+ + ++G
Sbjct: 25 GIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSG 58
>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 = 28.1 bits (63), Expect = 2.2
Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 23/86 (26%)
Query: 38 NIFPKSWSLPRQW--KEVISYNR---------EHMNHFPGMANLESKAIL---------- 76
++FPK +PR E + Y R E M + M + E++ +L
Sbjct: 96 DVFPKGVFIPRNIFQAEFMHYPRQQQCAIDVLEQMENHGVMPDKETEFLLVNIFGKKSHP 155
Query: 77 AYHLNRMKYFFPDEYNIFPKSWSLPR 102
RM Y+ P ++ P W LPR
Sbjct: 156 MRKYRRMMYWMPKFKHLNP--WPLPR 179
Score = 27.0 bits (60), Expect = 5.1
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 2/24 (8%)
Query: 25 HLNRMKYFFPDEYNIFPKSWSLPR 48
RM Y+ P ++ P W LPR
Sbjct: 158 KYRRMMYWMPKFKHLNP--WPLPR 179
>gnl|CDD|224813 COG1901, COG1901, Uncharacterized conserved protein [Function
unknown].
Length = 197
Score = 27.3 bits (61), Expect = 3.5
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 147 DASCQVYLSNVLLINGFKFDLRVYVLMTSKPNP 179
D C+ S + L +G + D+ VY+++ P+P
Sbjct: 30 DVLCRCVSSALFLSHGIRRDVVVYLVLLGPPDP 62
>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 = 26.5 bits (58), Expect = 8.0
Identities = 13/61 (21%), Positives = 16/61 (26%), Gaps = 5/61 (8%)
Query: 91 YNIFPKSWSLPRQWKEVISY-NREHADETLILKPTRGAEGKGIKILNFIPEHEVMDQDAS 149
+P S W N P G GI IL+F M Q +
Sbjct: 214 SRNYPSGTSGGTAWYYYAMDSNNYMPQMFWNANP----AGCGIVILDFQTMDLPMQQYMA 269
Query: 150 C 150
Sbjct: 270 V 270
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 26.5 bits (59), Expect = 8.7
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 104 WKEVISYNREHADETLILKPTRGAEGKGIKI 134
+E ++ E +I+K G G+G+++
Sbjct: 141 NEEALAIAEEIGYP-VIVKAAAGGGGRGMRV 170
>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 = 26.6 bits (59), Expect = 9.1
Identities = 18/92 (19%), Positives = 29/92 (31%), Gaps = 11/92 (11%)
Query: 56 YNREHMNHFPGMANLESKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQW---------KE 106
Y + N L + F + I + R + E
Sbjct: 3 YTSRELPRVSYRLNDRRYTELFEDKSIFGELFHEGLPIPQIIFQGGRDFLDLRSHADESE 62
Query: 107 VISYNREHADETLILKPTRGAEGKGIKILNFI 138
+++ R H + L +KP G GKGI+ L
Sbjct: 63 FVAFCRNH--KPLFVKPVDGMGGKGIEKLELD 92
>gnl|CDD|223267 COG0189, RimK, Glutathione synthase/Ribosomal protein S6
modification enzyme (glutaminyl transferase) [Coenzyme
metabolism / Translation, ribosomal structure and
biogenesis].
Length = 318
Score = 26.2 bits (58), Expect = 9.8
Identities = 14/72 (19%), Positives = 26/72 (36%), Gaps = 8/72 (11%)
Query: 61 MNHFPGMANLESKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLI 120
+N + +K L + P P + E ++ EH ++
Sbjct: 108 INDPQSIRRCRNKLYTTQLLAKAGIPVPPTLITRD-----PDEAAEFVA---EHLGFPVV 159
Query: 121 LKPTRGAEGKGI 132
LKP G+ G+G+
Sbjct: 160 LKPLDGSGGRGV 171
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 0.137 0.434
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,516,169
Number of extensions: 864048
Number of successful extensions: 624
Number of sequences better than 10.0: 1
Number of HSP's gapped: 623
Number of HSP's successfully gapped: 19
Length of query: 180
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 89
Effective length of database: 6,901,388
Effective search space: 614223532
Effective search space used: 614223532
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: 56 (25.4 bits)