TG2 enzymatic activity was investigated in the presence of a series of polymeric and oligomeric GAG derivatives (Supplementary Figure S1 and Table 3). Details of the experimental settings used are shown in Fig. 5.
TG2 activity is inhibited by polymeric sulfated GAG.
The influence of several polymeric GAG derivatives on rhTG2 and gpTG2 crosslinking activity was investigated according to experimental setting I (Fig. 5). Remarkably, complete inhibition to zero activity was not always achieved. Therefore, MC50 values (values of inhibitor/modifier concentration at which the effect is half as strong as the limiting value for the effect at saturating concentration40), were calculated by non-linear regression. For a more complete description, the remaining TG2 activities at saturating GAG concentration v[M]→∞ are additionally stated in Table 1, which in combination with the MC50 values characterize the inhibitory efficiency. In the GAG concentration range examined, [M] = 0.1 nM − 10 µM, non-sulfated HA did not have any significant effect on neither rhTG2 (Fig. 1a top) nor gpTG2 (Fig. 1a middle). Sulfated GAG derivatives decreased transamidase activity of both homologues in a concentration-dependent manner (Fig. 1bd). For HE, the MC50 value was 211.0 ± 38.4 nM for rhTG2 and 16.5 ± 0.9 nM for gpTG2. However, for rhTG2 residual enzymatic activity v[M]→∞ at a presumed infinite HE concentration was still about 40% (Fig. 1b, Table 1). Low-sulfated HA derivative SH1 decreased TG2 enzyme activity with an MC50 of 74.8 ± 8.3 nM (rhTG2) and 16.3 ± 1.0 nM (gpTG2) (Fig. 1c). Residual enzymatic rhTG2 activity v[M]→∞ was determined to be around 52%. For high-sulfated HA derivative SH3, the obtained values were similar to those of SH1: MC50 of 76.2 ± 7.4 nM for rhTG2, and MC50 16.9 ± 1.6 nM for gpTG2 (Fig. 1d). Again, v[M]→∞ of rhTG2 was estimated to be about 23%. The inhibitory behavior of medium-sulfated HA derivative SH2 and of CS derivatives with increasing DS (CS1, CS2 and CS3) was assessed toward gpTG2 (Supplementary Figure S2). All of these derivatives had comparable MC50 values in nM range with negligible enzymatic activity at the highest concentrations applied. Comparing the MC50 values and the inhibitory efficiency of all sulfated GAG derivatives for gpTG2, no influence of DS can be stated. For rhTG2, however, the inhibitory efficiency seems to be DSdependent (residual activity values: SH1 > HE > SH3) (Tables 1 and 3). The corresponding MC50 values of SH1 and SH3 represent one third of the one obtained for HE.
Table 1
MC50 values for gpTG2 and rhTG2 of the investigated polymeric and oligomeric GAG derivatives and the irreversible inhibitors. - (no inhibition), n.d. (not determined).
|
DS
|
gpTG2
|
rhTG2
|
|
MC50 ±SD
[nM]
|
v[M]→∞
[%]
|
MC50 ±SD
[nM]
|
v[M]→∞
[%]
|
Polymeric GAG
|
HA
|
-
|
-
|
-
|
-
|
-
|
HE
|
2.2
|
16.5 ± 0.9
|
0.0
|
211 ± 38.4
|
39.4
|
SH1
|
1.2
|
16.3 ± 1.0
|
0.0
|
74.8 ± 8.3
|
51.8
|
SH2
|
1.9
|
10.9 ± 1.9
|
0.0
|
n.d.
|
n.d.
|
SH3
|
3.2
|
16.9 ± 1.6
|
0.0
|
76.2 ± 7.4
|
22.7
|
CS1
|
0.8
|
41.0 ± 4.1
|
13.4
|
n.d.
|
n.d.
|
CS2
|
1.8
|
9.4 ± 1.1
|
0.0
|
n.d.
|
n.d.
|
CS3
|
2.8
|
11.9 ± 1.3
|
0.0
|
n.d.
|
n.d.
|
Oligomeric GAG
|
HA-dp2
|
-
|
-
|
-
|
n.d.
|
n.d.
|
HA-dp3
|
-
|
-
|
-
|
n.d.
|
n.d.
|
psHA-dp2
|
4.5
|
-
|
-
|
n.d.
|
n.d.
|
psHA-dp3
|
4.3
|
112.9 ± 25.3
|
0.0
|
n.d.
|
n.d.
|
Irreversible inhibitors
|
7b
|
-
|
2510 ± 140
|
0.0
|
n.d.
|
n.d.
|
Z013
|
-
|
60.0 ± 8.3
|
0.0
|
n.d.
|
n.d.
|
The obtained MC50 values in the nM range (Table 1) gave evidence that polymeric sulfated GAG derivatives are very potent in reducing TG2 crosslinking activity, comparable or even better than those of established irreversible inhibitors41,42 in our particular experimental setup (Supplementary Figure S3). For example, for the commercially available TG inhibitor Z013 (Zedira) an MC50 value of 60.0 ± 8.3 nM was calculated in our test system for gpTG2. The MC50 value of another recently published inhibitor (7b43) was calculated to be in the µM-range (2.51 ± 0.14 µM) in our setting. However, both inhibitors, 7b and Z013, bind only in the presence of Ca2+ to TG2, which is only possible once the assay mix is added.
To exclude an interference of GAG with the assay procedure itself, e.g., by competing for poly-l-lysine coating on the assay plate and therefore causing a smaller availability of binding sites for TG2, a coating control experiment was performed exemplarily with SH3 and gpTG2: The concentrations (4.4 and 88 nM) were chosen according to the inhibition curves – a slight inhibition (20%) and a high inhibition (80%) would have been expected if there was an interference. However, activity of gpTG2 was not significantly impaired (Supplementary Figure S4), suggesting that the inhibitory effect of sulfated GAG derivatives is not an artefact but a result of their interaction with TG2.
Furthermore, a “jump dilution” experiment was performed to get an idea on whether GAG are rather reversible or irreversible inhibitors according to Copeland44. Supplementary Figure S5 shows that both HE and SH3 appear to be indeed reversibly bound to TG2, as the remaining activity after 100fold dilution is at about 100% for HE and SH3. A control dilution sample (resulting in 1fold concentration of enzyme and 1fold MC50) showed roughly the expected activity (see also Table 1) with about 70% for HE and SH3.
The inhibitory effect of sulfated GAG derivatives on TG2 activity requires a minimum sugar chain length.
Due to the more pronounced inhibitory effect of gpTG2 in the employed readout and, therefore, easier handling in comparison to rhTG2, the guinea pig enzyme was used to further investigate the inhibitory mechanisms of sulfated GAG derivatives.
In order to determine a possible minimum sugar chain length (i.e. number of disaccharide units of GAG) for the GAG inhibitory capacity, non-sulfated and persulfated tetra- and hexasaccharides of HA (Supplementary Figure S1, Table 3) were investigated. Neither the non-sulfated oligohyaluronans (HAdp2 and dp3) nor the persulfated psHAdp2 affected gpTG2 activity (Fig. 1eg). An appreciable dose-dependent effect on TG2 activity was only observed with the persulfated HA hexasaccharide psHAdp3 (Fig. 1h), which indicates a minimum requirement of three disaccharide units for TG2 inhibition. The MC50 value of psHAdp3 is with 112.9 ± 25.3 nM (Table 1) about one order of magnitude higher than for comparable polymeric sulfated GAG (i.e. SH3).
The inhibitory effect of sulfated GAG derivatives and irreversible inhibitors is additive.
The peptidic TG2 inhibitor Z01341,45 (Zedira GmbH) stabilizes the open conformation upon covalently binding to the catalytic site of TG2 (crystal structure of the TG2Z013 complex: PDB ID 3S3P). Compound 7b belongs to the chemotype of Nε-acryloyllysine piperazides43, which also inhibit TG2 in an irreversible manner. For structurally related inhibitors it has been shown by kinetic capillary electrophoresis that they also stabilize the open conformation46, 47. Similar to the additional Ca2+ experiments (see below), an approach of subsequently adding GAG and the inhibitor Z013 or 7b (experimental setting III) was investigated.
Figure 2. Influence of inhibiting or activating modifiers on the inhibitory effect of sulfated GAG derivatives. ad Irreversible inhibitors: Before applying to the assay plate, gpTG2 was incubated according to experimental settings IIII with irreversible inhibitors Z013 and 7b, respectively (residual activity around 80%), and sulfated GAG derivatives a,c) HE and b,d) SH3, respectively (residual activity around 65%). Positive control “Ctl” (gpTG2 without any treatment) was set to 100%. ef Ca2+ activation: gpTG2 was incubated according to experimental settings I (residual gpTG2 activity around 65%) and IVVI with 5 mM CaCl2 and e) HE or f) SH3. The given Ca2+ concentration refers to that one in the reaction tube before the mixture was applied to the assay plate and assay buffer (with Ca2+ in excess) was added. Positive controls “Ctl” (gpTG2 without any treatment for “I”, “IV” and “V”; highlighted with a dotted line) and “IV” (gpTG2 activated with 5 mM CaCl2 concentration for “VI”) were set to 100%. Values in all panels are shown as mean ± SEM; n = 3. Significant differences (p < 0.05) between settings I-III (ad) or I, V and VI (e-f) were calculated by one-way ANOVA and Bonferroni’s post-test and are indicated with *.
The inhibitory effect of polymeric sulfated GAG on TG2 is modulated by Ca 2+ .
Ca2+ ions are needed to induce the conformational change of TG2 from the closed inactive to the open enzymatically active conformation11,46. In the experiments described before (using experimental setting I), TG2 and GAG were pre-incubated in the absence of Ca2+. Hence, activation did not occur before performing the TG2 activity measurement due to the included Ca2+concentration in the assay buffer (> 85 mM, see Supporting Information “Calcium quantitation”). Therefore, the influence of prior addition of 2.520 mM Ca2+ to TG2 (experimental setting IV) was checked. Pre-activation did not change gpTG2 activity of positive control compared to experimental setting I and only to a low extent of rhTG2 (Supplementary Figure S6).
To evaluate whether GAG interact preferentially with either closed or open TG2 conformation, a sequential approach was followed by adding first GAG and thereafter Ca2+ with each 5 min of incubation time (experimental setting V) or vice versa (experimental setting VI). Furthermore, experimental setting V served to check whether GAG are preventing an opening of the TG2 3D conformation by blocking Ca2+ binding sites of the enzyme. Figure 2e,f and Supplementary Figure S7 show that the experimental settings V and VI performed with HE and SH3, each with rhTG2 and gpTG2, lead to a significant weakening of the inhibitory effect of both GAG. The inhibitory effect of HE on gpTG2 was almost completely abrogated (~ 92% activity) when Ca2+ was added first. In the same setting (VI) with SH3, the inhibitory effect was completely abolished. In setting V, the inhibitory efficiency was reduced, resulting in about 80% activity for both GAG. In fact, for setting V neither a lower (2.5 mM) nor a higher (20 mM) Ca2+ concentration altered this effect for SH3 on gpTG2 (Supplementary Figure S8).
The obtained results highlight that the sequence order of the pre-incubation with sulfated GAG and Ca2+ is indeed crucial. They suggest a putative inhibition mechanism of GAG (see Discussion below).
TG2 in closed conformation reveal manifold molecular recognition sites for GAG.
Molecular docking calculations were performed to predict and investigate putative GAG recognition sites at rhTG2 and gpTG2. Both TG2 homologues share 83% and 91% sequence identity and similarity, respectively (Supplementary Figure S11). For the first part of the in silico studies, both enzymes were considered in their closed conformation (Fig. 3), according to experimental setting I (Fig. 5). In order to cover the full protein structure in closed conformation, docking studies were performed in two main steps involving the βsandwich, α/βtransamidase and βbarrel 2 domains and, on the other hand, the α/βtransamidase and βbarrels 1 and 2 domains. Hexasaccharidic GAG (as representatives of polymeric GAG) were predicted to bind along the four TG2 domains of both orthologous enzymes in the closed conformation (Fig. 3, Table 2).
Table 2
Predicted recognition sites for GAG hexasaccharides on rhTG2 closed conformation. a Different recognition sites are shown in different columns or in the same column separated by dashed lines. b Underlined residues correspond to low populated GAG recognition sites. c It includes catalytic core (cat) (triad C277, H335, D358) and Ca2+ binding sites (S1 (226GMVNCNDD233), S2A (396EVNADV401), S2B (447EGSSEERE454), S3A (306DQNSNLL312), S3B (328SEM330), S4 (151DSEEERQE158) and S5 (433RDERED438)). d Residues between contiguous domains are shown in italic.
β-sandwicha
(1-139)
|
α/β-transamidasea,b,c
(147-460)
|
β-barrel 1a,d
(472-583)
|
β-barrel 2a,d
(591-687)
|
HA
|
E15
R19
A24
D25
|
R35
A108
N109
|
Q157 (S4)
E158
Q163
Q164
K429
D434 (S5)
----------
N243
Y245
G246
G248
R263
|
P144
A145
K202
R213
S216
R222
N231 (S1)
T343
P345
K364
Y369
Y388
|
K173 (cat)
K425
D434 (S5)
R436 (S5)
|
N229 (S1)
N231 (S1)
G239
R271
D326
K327
E329 (S3B)
P361
T368
|
L555
R580
|
R512
L520
|
Q599
M659
K600
L661
K663
L688
-----
Q633
K634
T635
E637
D653
K674
|
E588
I589
R680
|
HE
|
-----
K30
T63
P65
K74
R116
|
R35
N109
-----
|
-----
D198
R262
K265
N266
|
K202
R209
R213
S216
R222
N231 (S1)
R344
K364
K387
Y388
|
K173 (cat)
K176 (cat)
K425
R433 (S5)
R436 (S5)
D438 (S5)
|
|
R476
R478
T496
R580
|
|
K600
R601
-----
K602
K634
|
R592
R651
R680
N681
|
SH1
|
R19
E29
K30
----- L26
R28
R116
|
R35
E70
N109
|
Q157 (S4)
T162
Q163
K429
R433 (S5)
-------- R262
R263
K265
N266
|
K202
R209
R213
S216
R222
K364
E366
K387
Y388
|
K173 (cat)
K176 (cat)
N177
K425
R433 (S5)
D434 (S5)
R436 (S5)
|
N231 (S1)
D232 (S1)
D233 (S1)
W241
D242
R271
D326
S328 (S3B)
T368
|
R476
R478
G480
N484
R580
----- R512
L520
|
|
Q599
M659
L661
K663
----- Q633
|
R680
N681
|
SH3
|
K30
H134
-----
|
R35
N109
----- Q69
K74
R76
R116
|
K429
----- Q234
K265
N266
R271
|
K205
R209
R213
S216
R222
N231 (S1)
K387
Y388
|
K173 (cat)
K176 (cat)
N177
K425
R433 (S5)
E435 (S5)
R436 (S5)
|
|
R476
R478
K540
S541
R580
|
|
K598
K600
R601
----- K602
K634
|
R592
K649
R651
K663
R680
N681
|
In the case of rhTG2, the investigated GAG (in major extent, the medium- and high-sulfated HE and SH3) were predicted to stabilize the closed conformation by acting as a “molecular staple” between the βbarrel 1, α/βtransamidase and βbarrel 2 domains (Fig. 3a). In βbarrel 1, all investigated GAG participated in interactions with R580 and, in addition, sulfated GAG derivatives recognized R476 and R478, which are constituents of the GTP binding site49,50. The common GAG recognition region along the α/βtransamidase domain involved K173, K176, K425 and the reported S5 Ca2+ binding site10 through interactions with R433 and R436. Similarly, R680 from βbarrel 2 served as anchor recognition residue for all investigated GAG when bridging the α/βtransamidase domain. In the case of HE and SH3, the predictions revealed further interactions with R592, R680 and N681 (Fig. 3b,c, Table 2). The α/βtransamidase domain also served as anchoring of the GAG recognition site with the βsandwich, and, to a lesser extent, the βbarrel 2 domain. Thus, docking predicted interactions of HA and SH1 with R19, Q157 (S4 Ca2+ binding site), Q163, K429 and D434 (for HA, S5 Ca2+ binding site), R433 (for SH1, S5 Ca2+ binding site)10, Q599 and K663. For SH3 and HE, the common interacting residues along the three domains were K30, K265, N266, K602 and K634 (Fig. 3c), which have been previously reported as recognition site of HS/HE23,25 (Supplementary Table S2). Also, two common recognition patterns of sulfated GAG bridging the βsandwich and the α/βtransamidase domains were observed. The common recognition site involved the residues R35, N109, K202, R213, S216, R222, N231 (S1 Ca2+ binding site), K364 and K387, which have been previously described as another HS/HE binding site (Supplementary Table S2)25,26. On the other hand, sulfated GAG participated in interactions with R262, K265, N266 and either with R28 (for SH1) or K30 (for SH3 and HE) (Fig. 3c), which resembles the previously reported HE binding site23.
The results obtained from molecular docking of SH3 on gpTG2 in the modeled closed conformation (see Methods for details) similarly suggested that the sulfated GAG derivatives could possibly stabilize the closed conformation through interactions between the α/βtransamidase domain and the βbarrels 1 and 2 and, to a lesser extent, the βsandwich domain (Fig. 3d, Supplementary Table S3). A main gpTG2 recognition path by SH3 involved interactions with residues R30, R240, N244, R262, R263, K265, K553, R567, Q636, N670 and K677. Similarly, a second SH3 recognition path less populated was predicted distributed along residues R263, R271, K273, N318, N326, K327, K408, R567, T626, K634 and S638. As for rhTG2, SH3 participated in interactions with the βbarrel 1 residues R481, Q484 and T487 (the rhTG2/gpTG2 residue correspondences are as follows: R478/R481, Q481/Q484 and N484/T487). However, these binding poses did not interconnect with the α/βtransamidase domain as predicted for the human analogue. Furthermore, in contrast to rhTG2, only one SH3 recognition site along the βsandwich residues Y50, R76, S78, S80, S81 and S129 was observed (Supplementary Table S3).