RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6987
(204 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 = 198 bits (505), Expect = 1e-63
Identities = 86/175 (49%), Positives = 114/175 (65%), Gaps = 7/175 (4%)
Query: 34 PHQRVNHFPRSYELTRKDRLYKNIEKMQHSKGFKHFDFIPSTFVMPGDFRELTISHYRT- 92
HQ +NHFP SYE+TRKD L+KNI++ G K FDF+P TF++P D E + ++
Sbjct: 7 YHQALNHFPGSYEITRKDLLWKNIKRQPCDFGRK-FDFLPRTFILPTDLAEF-VDYFEDN 64
Query: 93 -RGPWIVKPVASSRGRGIYIVDTPDEVPL---EESVVVAKYIEKPLLVEGHKCDLRLYVV 148
R WIVKP AS+RGRGI I + ++ +VV KYIE+PLL++G K D+RLYV+
Sbjct: 65 ERNTWIVKPSASARGRGIRITNDLSQILKQIQSRPLVVQKYIERPLLIDGRKFDIRLYVL 124
Query: 149 VTSYDPLIIYMYEEGLVRFATVKYDSGRKHLWNPCMHLCNYSINKHHSDYIKDMN 203
VTS +PL +Y+Y EGL+RFA+VKY L + MHL NYSI K S +D N
Sbjct: 125 VTSVNPLRVYVYREGLLRFASVKYSPSVSDLDDVEMHLTNYSIQKKSSSLNEDYN 179
>gnl|CDD|117020 pfam08443, RimK, RimK-like ATP-grasp domain. This ATP-grasp domain
is found in the ribosomal S6 modification enzyme RimK.
Length = 190
Score = 39.0 bits (91), Expect = 6e-04
Identities = 15/71 (21%), Positives = 30/71 (42%), Gaps = 14/71 (19%)
Query: 86 TISHYRTRGPWIVKPVASSRGRGIYIVDTPDEV--------PLEESVVVAKYIEKPLLVE 137
I + P +VK V S+G G+++ + + L+ ++V ++I +
Sbjct: 33 FIEQIK-GFPVVVKSVFGSQGIGVFLAEDEQSLEQLLEAFKWLKNQILVQEFIAEA---- 87
Query: 138 GHKCDLRLYVV 148
D+R VV
Sbjct: 88 -GNRDIRCLVV 97
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 36.1 bits (84), Expect = 0.005
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 94 GPWIVKPVASSRGRGIYIVDTPDEVP-LEESVVVAKYIEKPLLVE 137
P ++KP + G++ VD+ E+ ++ + LVE
Sbjct: 40 FPVVLKPRDGAGSLGVFRVDSAAELEAALAALAAEVEDTREYLVE 84
>gnl|CDD|233121 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This
family, related to bacterial glutathione synthetases,
contains at least two different alpha-L-glutamate
ligases. One is RimK, as in E. coli, which adds
additional Glu residues to the native Glu-Glu C-terminus
of ribosomal protein S6, but not to Lys-Glu mutants.
Most species with a member of this subfamily lack an S6
homolog ending in Glu-Glu, however. Members in
Methanococcus jannaschii act instead as a
tetrahydromethanopterin:alpha-l-glutamate ligase
(MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase
(MJ1001).
Length = 277
Score = 35.4 bits (82), Expect = 0.013
Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 16/65 (24%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEV-----------PLEESVVVAKYIEKPLLVEGHKCDL 143
P ++KPV S GR + + + V +YI+KP D+
Sbjct: 125 PVVLKPVFGSWGRLVSLARDKQAAETLLEHFEQLNGPQNLFYVQEYIKKP-----GGRDI 179
Query: 144 RLYVV 148
R++VV
Sbjct: 180 RVFVV 184
>gnl|CDD|130212 TIGR01142, purT, phosphoribosylglycinamide formyltransferase 2.
This enzyme is an alternative to PurN (TIGR00639)
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 380
Score = 35.5 bits (82), Expect = 0.013
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVP 119
P +VKPV SS G+G +V P+++
Sbjct: 138 PCVVKPVMSSSGKGQSVVRGPEDIE 162
>gnl|CDD|223106 COG0027, PurT, Formate-dependent phosphoribosylglycinamide
formyltransferase (GAR transformylase) [Nucleotide
transport and metabolism].
Length = 394
Score = 35.4 bits (82), Expect = 0.013
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVP 119
P +VKPV SS G+G +V +P++V
Sbjct: 151 PCVVKPVMSSSGKGQSVVRSPEDVE 175
>gnl|CDD|236454 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2;
Validated.
Length = 395
Score = 35.1 bits (82), Expect = 0.018
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEV 118
P +VKPV SS G+G +V +P+++
Sbjct: 151 PCVVKPVMSSSGKGQSVVRSPEDI 174
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 34.7 bits (81), Expect = 0.031
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 14/50 (28%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEESVVVAK------------YIEK 132
P ++K A GRG+ IV + +E LEE+ AK Y+EK
Sbjct: 158 PIMLKASAGGGGRGMRIVRSEEE--LEEAFERAKREAKAAFGNDEVYLEK 205
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin is
an insoluble storage polymer for carbon, nitrogen, and
energy, found in most Cyanobacteria. The polymer has a
backbone of L-aspartic acid, with most Asp side chain
carboxyl groups attached to L-arginine. The polymer is
made by this enzyme, cyanophycin synthetase, and
degraded by cyanophycinase. Heterologously expressed
cyanophycin synthetase in E. coli produces a closely
related, water-soluble polymer with some Arg replaced by
Lys. It is unclear whether enzymes that produce soluble
cyanophycin-like polymers in vivo in non-Cyanobacterial
species should be designated as cyanophycin synthetase
itself or as a related enzyme. This model makes the
designation as cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions [Cellular
processes, Biosynthesis of natural products].
Length = 864
Score = 32.4 bits (74), Expect = 0.13
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 9/60 (15%)
Query: 94 GPWIVKPVASSRGRGIYI-VDTPDEVPLEESVVVAKYIEKPLLVE----GHKCDLRLYVV 148
P ++KP + GRG+ I + T DE+ E + A ++VE G D RL VV
Sbjct: 249 YPVVIKPYDGNHGRGVTINILTRDEI--ESAYEAAVEESSGVIVERFITGR--DHRLLVV 304
>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 = 31.6 bits (72), Expect = 0.25
Identities = 22/58 (37%), Positives = 34/58 (58%), Gaps = 5/58 (8%)
Query: 94 GPWIVKPVASSRGRGIYI-VDTPDEVPLEESVVVAKYIEKPLLVEGHKC--DLRLYVV 148
G +VKPV +G+GI + V TPD+ LE ++ A+ +L+E + DLRL V+
Sbjct: 332 GAVVVKPVRGEQGKGISVDVRTPDD--LEAAIAKARQFCDRVLLERYVPGEDLRLVVI 387
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 31.5 bits (72), Expect = 0.28
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 18/59 (30%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEE----------------SVVVAKYIEKPLLVE 137
P IVK A GRG+ +V +E LE V + K+IE P +E
Sbjct: 154 PVIVKAAAGGGGRGMRVVRNEEE--LEAAFEAARGEAEAAFGNPRVYLEKFIEGPRHIE 210
>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 = 31.2 bits (71), Expect = 0.29
Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 5/64 (7%)
Query: 78 MPGDFRELTISHYRTRGPWIVKPVASSRGRGIYIVDTPD----EVPLEESVVVAKYIEKP 133
D E + R P VKPV G+GI ++ D E L + + EK
Sbjct: 56 SHADESEFV-AFCRNHKPLFVKPVDGMGGKGIEKLELDDTVSKERKLIALYKLLEDNEKG 114
Query: 134 LLVE 137
+V+
Sbjct: 115 FVVQ 118
>gnl|CDD|236307 PRK08591, PRK08591, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 451
Score = 30.9 bits (71), Expect = 0.46
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 18/59 (30%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEESVVVA----------------KYIEKPLLVE 137
P I+K A GRG+ +V T E LE++ +A KY+E P +E
Sbjct: 154 PVIIKATAGGGGRGMRVVRTEAE--LEKAFSMARAEAKAAFGNPGVYMEKYLENPRHIE 210
>gnl|CDD|129605 TIGR00514, accC, acetyl-CoA carboxylase, biotin carboxylase
subunit. This model represents the biotin carboxylase
subunit found usually as a component of acetyl-CoA
carboxylase. Acetyl-CoA carboxylase is designated EC
6.4.1.2 and this component, biotin carboxylase, has its
own designation, EC 6.3.4.14. Homologous domains are
found in eukaryotic forms of acetyl-CoA carboxylase and
in a number of other carboxylases (e.g. pyruvate
carboxylase), but seed members and trusted cutoff are
selected so as to exclude these. In some systems, the
biotin carboxyl carrier protein and this protein (biotin
carboxylase) may be shared by different
carboxyltransferases. However, this model is not
intended to identify the biotin carboxylase domain of
propionyl-coA carboxylase. The model should hit the full
length of proteins, except for chloroplast transit
peptides in plants. If it hits a domain only of a longer
protein, there may be a problem with the identification
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 449
Score = 30.5 bits (69), Expect = 0.56
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 18/59 (30%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEESVVVA----------------KYIEKPLLVE 137
P I+K A GRG+ +V PDE L +S+ + KYIE P VE
Sbjct: 154 PVIIKATAGGGGRGMRVVREPDE--LVKSISMTRAEAKAAFGNDGVYIEKYIENPRHVE 210
>gnl|CDD|216935 pfam02222, ATP-grasp, ATP-grasp domain. This family does not
contain all known ATP-grasp domain members. This family
includes a diverse set of enzymes that possess
ATP-dependent carboxylate-amine ligase activity.
Length = 171
Score = 29.9 bits (68), Expect = 0.65
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 5/50 (10%)
Query: 91 RTRGPWIVK-PVASSRGRGIYIVDTPDEVPLEESVVVAKYIEKPLLVEGH 139
P ++K G+G Y+V + ++P + P++VE
Sbjct: 26 ELGYPCVLKARRGGYDGKGQYVVRSEADIPQ----AWEELGGGPVIVEEF 71
>gnl|CDD|237195 PRK12767, PRK12767, carbamoyl phosphate synthase-like protein;
Provisional.
Length = 326
Score = 30.2 bits (69), Expect = 0.66
Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEESVVVAKYIEKPLL---VEGHKCDLRLYV 147
P VKP S G++ V+ +E+ +Y+ ++ +EG + + +
Sbjct: 150 PLFVKPRDGSASIGVFKVNDKEELEFL-----LEYVPNLIIQEFIEGQEYTVDVLC 200
>gnl|CDD|223267 COG0189, RimK, Glutathione synthase/Ribosomal protein S6
modification enzyme (glutaminyl transferase) [Coenzyme
metabolism / Translation, ribosomal structure and
biogenesis].
Length = 318
Score = 30.0 bits (68), Expect = 0.69
Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 19/77 (24%)
Query: 94 GPWIVKPVASSRGRGIYIVDTPDEV----------PLEESVVVAKYIEKPLLVEGHKCDL 143
P ++KP+ S GRG+++V+ D + ++V +YI K K D
Sbjct: 156 FPVVLKPLDGSGGRGVFLVEDADPELLSLLETLTQEGRKLIIVQEYIPKA------KRDD 209
Query: 144 RLYVVVTSYDPLIIYMY 160
R +V ++ +Y
Sbjct: 210 RRVLVG---GGEVVAIY 223
>gnl|CDD|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed.
Length = 304
Score = 29.7 bits (68), Expect = 0.88
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 12/47 (25%)
Query: 95 PWIVKPVA--SSRGRGIYIVDTPDEVP--------LEESVVVAKYIE 131
P +VKP SS G+ V DE+ ++ V+V KYI+
Sbjct: 135 PLVVKPAREGSS--VGVSKVKEEDELQAALELAFKYDDEVLVEKYIK 179
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 30.0 bits (68), Expect = 0.93
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 14/57 (24%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVP--LEES------------VVVAKYIEKPLLVE 137
P ++K A G+G+ +V+TP+E LE + V + KY++KP +E
Sbjct: 154 PVLIKASAGGGGKGMRVVETPEEFAEALESARREAKASFGDDRVFIEKYLDKPRHIE 210
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 29.6 bits (67), Expect = 1.1
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 18/59 (30%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLEE----------------SVVVAKYIEKPLLVE 137
P I+K A G G+ +V + +E LE+ +V + KY+EKP +E
Sbjct: 154 PVIIKASAGGGGIGMRVVYSEEE--LEDAIESTQSIAQSAFGDSTVFIEKYLEKPRHIE 210
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 28.8 bits (65), Expect = 2.1
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 14/57 (24%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPLE--------------ESVVVAKYIEKPLLVE 137
P ++K A GRG+ +V + ++ + V V K +E P +E
Sbjct: 160 PVMIKAAAGGGGRGMRVVRSEADLAEAFERAKSEAKAAFGNDEVYVEKLVENPKHIE 216
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr; Provisional.
Length = 1490
Score = 28.7 bits (64), Expect = 2.4
Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 72 IPSTFV--MPGDFRELTISHYRTRGPWIVKPVASSRGRGIYIVDT 114
+P ++ + R+L + + R + +A GI IV+
Sbjct: 964 LPEIYLHRVSYPLRDLFLRYLRAHALVTAEQLAHEFSLGIAIVEE 1008
>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 = 3.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDE 117
P +VK + G+G+ + T +E
Sbjct: 141 PIVVKADGLAAGKGVIVAKTNEE 163
>gnl|CDD|190425 pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP
binding domain. Carbamoyl-phosphate synthase catalyzes
the ATP-dependent synthesis of carbamyl-phosphate from
glutamine or ammonia and bicarbonate. This important
enzyme initiates both the urea cycle and the
biosynthesis of arginine and/or pyrimidines. The
carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes
is a heterodimer of a small and large chain. The small
chain promotes the hydrolysis of glutamine to ammonia,
which is used by the large chain to synthesise carbamoyl
phosphate. See pfam00988. The small chain has a GATase
domain in the carboxyl terminus. See pfam00117. The ATP
binding domain (this one) has an ATP-grasp fold.
Length = 211
Score = 27.7 bits (62), Expect = 3.9
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 14/57 (24%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVP------LEES--------VVVAKYIEKPLLVE 137
P I+K G G+ I +E+ L E+ V+V K ++ P +E
Sbjct: 40 PVIIKAAFGGGGLGMGIARNEEELAELFALALAEAPAAFGNPQVLVEKSLKGPKHIE 96
>gnl|CDD|180150 PRK05586, PRK05586, biotin carboxylase; Validated.
Length = 447
Score = 27.8 bits (62), Expect = 4.5
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 14/57 (24%)
Query: 95 PWIVKPVASSRGRGIYIVDTPDEVPL--------------EESVVVAKYIEKPLLVE 137
P +VK A GRGI IV + +E+ ++S+ + K+IE P +E
Sbjct: 154 PVMVKASAGGGGRGIRIVRSEEELIKAFNTAKSEAKAAFGDDSMYIEKFIENPKHIE 210
>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase. TrmE (MnmE,
ThdF, MSS1) is a 3-domain protein found in bacteria and
eukaryotes. It controls modification of the uridine at
the wobble position (U34) of tRNAs that read codons
ending with A or G in the mixed codon family boxes. TrmE
contains a GTPase domain that forms a canonical Ras-like
fold. It functions a molecular switch GTPase, and
apparently uses a conformational change associated with
GTP hydrolysis to promote the tRNA modification
reaction, in which the conserved cysteine in the
C-terminal domain is thought to function as a catalytic
residue. In bacteria that are able to survive in
extremely low pH conditions, TrmE regulates
glutamate-dependent acid resistance.
Length = 159
Score = 26.7 bits (60), Expect = 5.8
Identities = 9/35 (25%), Positives = 20/35 (57%)
Query: 109 IYIVDTPDEVPLEESVVVAKYIEKPLLVEGHKCDL 143
+ +VD + + E+ ++ +KP++V +K DL
Sbjct: 87 LLVVDASEGLDEEDLEILELPAKKPVIVVLNKSDL 121
>gnl|CDD|130782 TIGR01721, AMN-like, AMP nucleosidase, putative. The sequences in
the clade represented by this model are most closely
related to the AMP nucleosidase found in TIGR01717.
These sequences are found only in Chlamydia and
Porphyromonas and differ sufficiently from the
characterized AMP nucleosidase to put some doubt on
assignment of this name.
Length = 266
Score = 27.2 bits (60), Expect = 5.8
Identities = 21/47 (44%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 88 SHYRTRGPWIVKPVASSRGRGIYIVDTPDEVPLEESVVVAKYIEKPL 134
SHY+ G + V PVAS RG G P EVP + VV K I L
Sbjct: 101 SHYQV-GDYFV-PVASIRGEGTSDAYFPPEVPALANFVVQKAITSAL 145
>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 = 27.2 bits (61), Expect = 6.8
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 97 IVKPVASSRGRGIYIVDTPDEVPLEESVVVAKYIEKP 133
++KPVA G G YI + LEE V A+ + P
Sbjct: 291 VIKPVAGYGGYGAYIGPKLSKAELEE--VWARILADP 325
>gnl|CDD|237586 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
Length = 727
Score = 27.0 bits (61), Expect = 7.5
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 95 PWIVKPVASSRGRGIYI-VDTPDEVPLEESVVVAKYIEKPLLVE----GHKCDLRLYVV 148
P +VKP+ + GRG+ + + T +E+ E + VA ++VE G D RL VV
Sbjct: 251 PVVVKPLDGNHGRGVTVNITTREEI--EAAYAVASKESSDVIVERYIPGK--DHRLLVV 305
>gnl|CDD|220981 pfam11104, Competence_A, Competence protein A. Competence protein
A is responsible for the export of a
competence-stimulating peptide from the cell, which is
thought to induce competence when a critical
extracellular concentration is reached.
Length = 340
Score = 26.8 bits (60), Expect = 7.9
Identities = 11/39 (28%), Positives = 16/39 (41%)
Query: 98 VKPVASSRGRGIYIVDTPDEVPLEESVVVAKYIEKPLLV 136
VK V S+ G + ++ PL + VV I V
Sbjct: 9 VKLVELSKKGGGFRLEAYAIEPLPKGAVVDGNIVDIEAV 47
>gnl|CDD|132846 cd07207, Pat_ExoU_VipD_like, ExoU and VipD-like proteins; homologus
to patatin, cPLA2, and iPLA2. ExoU, a 74-kDa enzyme, is
a potent virulence factor of Pseudomonas aeruginosa. One
of the pathogenic mechanisms of P. aeruginosa is to
induce cytotoxicity by the injection of effector
proteins (e.g. ExoU) using the type III secretion (T3S)
system. ExoU is homologus to patatin and also has the
conserved catalytic residues of mammalian
calcium-independent (iPLA2) and cytosolic (cPLA2) PLA2.
In vitro, ExoU cytotoxity is blocked by the inhibitor of
cytosolic and Ca2-independent phospholipase A2 (cPLA2
and iPLA2) enzymes, suggesting that phospholipase A2
inhibitors may represent a novel mode of treatment for
acute P. aeruginosa infections. ExoU requires eukaryotic
superoxide dismutase as a cofactor and cleaves
phosphatidylcholine and phosphatidylethanolamine in
vitro. VipD, a 69-kDa cytosolic protein, belongs to the
members of Legionella pneumophila family and is
homologus to ExoU from Pseudomonas. Even though VipD
shows high sequence similarity with several functional
regions of ExoU (e.g. oxyanion hole, active site serine,
active site aspartate), it has been shown to have no
phospholipase activity. This family includes ExoU from
Pseudomonas aeruginosa and VipD of Legionella
pneumophila.
Length = 194
Score = 26.5 bits (59), Expect = 7.9
Identities = 18/114 (15%), Positives = 37/114 (32%), Gaps = 25/114 (21%)
Query: 14 DFNLLWSGLHPKPQTLRSLAPHQRVNHFPRSYELTRKDRLYKNIEKMQHSKGFKHFDFIP 73
DF L L SL + L + D L + + ++ K F
Sbjct: 61 DFAKLLDSPVGLLFLLPSLF---------KEGGLYKGDALEEWLRELLKEKTGNSFATSL 111
Query: 74 STFVMPGDFRELTISHYRTRGPWIVKPVAS--SRGRGIYI-VDTPDEVPLEESV 124
+ ++L + VA+ + G + +T ++P+ ++V
Sbjct: 112 LRDLDDDLGKDLKV-------------VATDLTTGALVVFSAETTPDMPVAKAV 152
>gnl|CDD|217166 pfam02655, ATP-grasp_3, ATP-grasp domain. No functional
information or experimental verification of function is
known in this family. This family appears to be an
ATP-grasp domain (Pers. obs. A Bateman).
Length = 159
Score = 26.2 bits (58), Expect = 9.2
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 95 PWIVKPVASSRGRGIYIVDT-PDEVPLEESVVVAKYIE 131
+IVKP G G+ V+ ++ E+V++ ++IE
Sbjct: 32 KYIVKPRDGCGGEGVRFVENGREDEEFIENVIIQEFIE 69
>gnl|CDD|237242 PRK12874, ubiA, prenyltransferase; Reviewed.
Length = 291
Score = 26.5 bits (59), Expect = 9.4
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 10/35 (28%)
Query: 2 VFLNLGVTSDVADFNLLWS----------GLHPKP 26
VFL LGV VA F+LL+S GLH P
Sbjct: 170 VFLALGVMFWVAGFDLLYSLQDMEFDKKRGLHSIP 204
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
0.324 0.140 0.444
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: 10,653,565
Number of extensions: 998632
Number of successful extensions: 887
Number of sequences better than 10.0: 1
Number of HSP's gapped: 882
Number of HSP's successfully gapped: 40
Length of query: 204
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 112
Effective length of database: 6,857,034
Effective search space: 767987808
Effective search space used: 767987808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.8 bits)