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Receptor
PDB id Resolution Class Description Source Keywords
5N0L 1.68 Å NON-ENZYME: TRANSCRIPT_TRANSLATE THE STRUCTURE OF THE COFACTOR BINDING GAF DOMAIN OF THE NUTR SENSOR CODY FROM CLOSTRIDIUM DIFFICILE CLOSTRIDIOIDES DIFFICILE NUTRIENT SENSOR TRANSCRIPTION REGULATION GAF DOMAIN CLOSTTRANSCRIPTION
Ref.: IMPACT OF CODY PROTEIN ON METABOLISM, SPORULATION A VIRULENCE IN CLOSTRIDIOIDES DIFFICILE RIBOTYPE 027 TO BE PUBLISHED
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
ILE D:201;
F:201;
C:201;
B:201;
A:201;
E:201;
Valid;
Valid;
Valid;
Valid;
Valid;
Valid;
none;
none;
none;
none;
none;
none;
submit data
131.173 C6 H13 N O2 CC[C@...
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90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
5N0L 1.68 Å NON-ENZYME: TRANSCRIPT_TRANSLATE THE STRUCTURE OF THE COFACTOR BINDING GAF DOMAIN OF THE NUTR SENSOR CODY FROM CLOSTRIDIUM DIFFICILE CLOSTRIDIOIDES DIFFICILE NUTRIENT SENSOR TRANSCRIPTION REGULATION GAF DOMAIN CLOSTTRANSCRIPTION
Ref.: IMPACT OF CODY PROTEIN ON METABOLISM, SPORULATION A VIRULENCE IN CLOSTRIDIOIDES DIFFICILE RIBOTYPE 027 TO BE PUBLISHED
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 291 families.
1 5N0L - ILE C6 H13 N O2 CC[C@H](C)....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 247 families.
1 5N0L - ILE C6 H13 N O2 CC[C@H](C)....
50% Homology Family (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 5N0L - ILE C6 H13 N O2 CC[C@H](C)....
2 2GX5 - PCG C10 H12 N5 O7 P c1nc2c(n1[....
3 2B18 - ILE C6 H13 N O2 CC[C@H](C)....
4 2HGV - VAL C5 H11 N O2 CC(C)[C@@H....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: ILE; Similar ligands found: 12
No: Ligand ECFP6 Tc MDL keys Tc
1 ILE 1 1
2 VAL 0.565217 0.727273
3 MD0 0.551724 0.655172
4 THR 0.541667 0.6
5 ALO 0.541667 0.6
6 VAH 0.538462 0.703704
7 DAL 0.5 0.714286
8 ALA 0.5 0.714286
9 DBB 0.5 0.782609
10 ABA 0.5 0.782609
11 NVA 0.428571 0.833333
12 LEU 0.428571 0.791667
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 230
This union binding pocket(no: 1) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 2CM4 RCL None
2 1N5S ADL None
3 1SLT NDG GAL None
4 2BOS GLA GAL GLC None
5 2C1Q BTN None
6 4BJ8 BTN None
7 2BOS GLA GAL None
8 3T50 FMN None
9 4GGZ BTN None
10 5SVV FMN None
11 1X0P FAD None
12 1BGQ RDC None
13 1IA9 ANP None
14 2Z77 NCA None
15 1MFI FHC None
16 4WN5 MVC None
17 4R38 RBF None
18 4A91 GLU 1.25786
19 4GCZ FMN 1.25786
20 1W6P NDG GAL 1.49254
21 3OYW TDG 1.49254
22 2GC0 PAN 1.88679
23 5LXB 7A9 1.88679
24 1ZK4 NAP 1.88679
25 1ZK4 AC0 1.88679
26 4IMO PWZ 1.88679
27 5GWT NAD 1.88679
28 3AGC RCC 2.51572
29 4D52 GXL 2.51572
30 4D52 GIV 2.51572
31 3SAO NKN 2.51572
32 1F5F DHT 2.51572
33 5H2U 1N1 2.51572
34 1GSA ADP 2.51572
35 5HA0 LTD 2.5641
36 5N2D 8J8 2.77778
37 2Z6C FMN 3.10078
38 5NIU 8YZ 3.125
39 1PN0 IPH 3.14465
40 5VCV 1N1 3.14465
41 1I06 TZL 3.14465
42 3VSV XYP 3.14465
43 3D3W NAP 3.14465
44 2GOU FMN 3.14465
45 5N2F 8HW 3.22581
46 2QL9 CIT 3.77358
47 4P5Z Q7M 3.77358
48 1QY1 PRZ 3.77358
49 3L9R L9Q 3.77358
50 3L9R L9R 3.77358
51 1X1T NAD 3.77358
52 2RDQ AKG 3.77358
53 5LGA 6VH 3.77358
54 5DXI TRE 3.77358
55 4N02 FNR 3.77358
56 3AMN CBK 3.77358
57 3AMN CBI 3.77358
58 6GBV FMN 4.10959
59 6A63 LAT 4.34783
60 5IXG OTP 4.40252
61 4MNS 2AX 4.40252
62 2A1L PCW 4.40252
63 1V25 ANP 4.40252
64 3VMG 9CA 4.40252
65 5B4T 3HR 4.40252
66 5B4T NAD 4.40252
67 1IIU RTL 4.40252
68 2DQU CPD 4.40252
69 2FCU AKG 4.40252
70 2AXR ABL 4.40252
71 4KQL 1SG 4.40252
72 5NBW 8SK 4.40252
73 1J0D 5PA 4.40252
74 1MH5 HAL 4.40252
75 1NX4 AKG 4.40252
76 1WW5 SGA BGC 4.40252
77 2J62 GSZ 4.40252
78 4QXB OGA 4.40252
79 3WUD GLC GAL 4.41176
80 1UNB PN1 5.03145
81 1UNB AKG 5.03145
82 5DRB 5FJ 5.03145
83 2PT9 S4M 5.03145
84 2I7C AAT 5.03145
85 3UN3 G16 5.03145
86 3HY8 FMN 5.03145
87 5UC4 83S 5.03145
88 3ZXR IQ1 5.03145
89 3ZXR P3S 5.03145
90 3T1A 5MA 5.03145
91 5GLT BGC GAL NAG GAL 5.03145
92 3DLG GWE 5.03145
93 1ZBQ NAD 5.03145
94 4RFR RHN 5.03145
95 2JIG PD2 5.03145
96 6F5W KG1 5.03145
97 5EJ2 NAD 5.03145
98 3UKR CKH 5.03145
99 4WW8 VD9 5.03145
100 5A89 ADP 5.12821
101 5A89 FMN 5.12821
102 1ULE GLA GAL NAG 5.33333
103 1OGX EQU 5.34351
104 4V24 GYR 5.39084
105 3A6T 8OG 5.42636
106 3I8T LBT 5.4878
107 1TW4 CHD 5.6
108 3VZS NAP 5.66038
109 3VZS CAA 5.66038
110 5XDT MB3 5.66038
111 5YBN AKG 5.66038
112 3AY6 BGC 5.66038
113 3WY2 BGC 5.66038
114 6F6J SIN 5.66038
115 4A3U NCA 5.66038
116 4M26 ZZU 5.66038
117 6F6J CUW 5.66038
118 2HZQ STR 5.66038
119 4M26 SIN 5.66038
120 1YFS ALA 5.66038
121 5NLD LBT 5.7554
122 6EXF LYS 6.28931
123 5KD6 6C7 6.28931
124 4QIJ 1HA 6.28931
125 5XEG AKG 6.28931
126 2YKX AKG 6.28931
127 2WPU KYT 6.28931
128 3ZJX BOG 6.28931
129 5OCG 9R5 6.28931
130 4EKV BTN 6.28931
131 1PS9 MDE 6.28931
132 1XLI GLT 6.28931
133 1DZK PRZ 6.36943
134 3RDO BTN 6.53595
135 5AE9 OKO 6.91824
136 1IND EOT 6.91824
137 2WA4 069 6.91824
138 6CI9 NAP 6.91824
139 3UUA 0CZ 6.91824
140 5U98 1KX 7.07071
141 2FTB OLA 7.2
142 5A5W GUO 7.54717
143 4U7W NDP 7.54717
144 4BX7 B4F 7.8125
145 4PIV NDP 8.1761
146 1QIN GIP 8.1761
147 4XQC 13D 8.1761
148 5OF1 SAL 8.1761
149 4DXD 9PC 8.1761
150 5ETR 5RW 8.1761
151 5ETR APC 8.1761
152 3WMX NAD 8.1761
153 6F6D AKG 8.1761
154 3QRC SCR 8.28025
155 5Y72 DST 8.80503
156 1ZB6 GST 8.80503
157 1ZB6 DIN 8.80503
158 2ABS ACP 8.80503
159 3OZ2 OZ2 8.80503
160 4LH0 GLV 8.80503
161 5AB1 BCD TA5 HP6 MAN 8.80503
162 4QAC KK3 8.80503
163 3ZW2 NAG GAL FUC 9.1954
164 3A7R LAQ 9.43396
165 4IAW LIZ 9.43396
166 3KMW ATP 9.43396
167 3STK PLM 9.84848
168 3CBC DBS 10.0629
169 6GR0 F8W 10.0629
170 2DC1 CIT 10.0629
171 3DZ6 PUT 10.4478
172 1I7M PUT 10.4478
173 6E08 NAP 10.6918
174 5N87 N66 10.6918
175 2AG5 NAD 10.6918
176 1ELI PYC 10.6918
177 2RHO GDP 10.6918
178 3NUG NAD 10.6918
179 4C0R GDS 10.6918
180 2RHO GSP 10.6918
181 4MOB ADP 10.6918
182 2FLI DX5 10.6918
183 3ZXE PGZ 11.2782
184 3KV5 OGA 11.3208
185 1OZH HE3 11.3208
186 4OMJ 2TX 11.3208
187 2VQ5 HBA 11.9497
188 4AZC NGW 11.9497
189 2XIQ MLC 11.9497
190 1OIJ AKG 11.9497
191 5JE8 NAD 11.9497
192 1GT4 UNA 12.5786
193 4UDB CV7 13.2075
194 2A3I C0R 13.2075
195 2WBP ZZU 13.2075
196 2WBP SIN 13.2075
197 3E2M E2M 13.2075
198 4C2V YJA 13.6364
199 4PFC 2QX 13.8365
200 1YTM OXD 13.8365
201 4MZU TYD 13.8365
202 4RGQ 1GP 13.8365
203 4RJK TPP 13.8365
204 1M2Z DEX 14.4654
205 4P6X HCY 14.4654
206 4LSJ LSJ 14.4654
207 5FBN 5WF 14.4654
208 5G5W R8C 14.4654
209 2J7T 274 14.4654
210 4WVW SLT 14.5833
211 4FHD 0TT 15.0943
212 4FHD EEM 15.0943
213 4P6W MOF 15.0943
214 4D3S BOG 15.0943
215 4JGP PYR 15.0943
216 6C1S EFV 15.0943
217 4MLO PAM 15.7233
218 3LVW GSH 16.3522
219 4CCO OGA 16.3522
220 1NYW DAU 16.3522
221 4CCK OGA 16.3522
222 5H9P TD2 17.7215
223 3B1Q NOS 19.4969
224 2B1Q TRE 20.1258
225 2I6A 5I5 20.7547
226 5EZU MYR 22.4719
227 1IUP ALQ 23.2704
228 1Z03 OCH 26.4151
229 1QD1 FON 30.8176
230 3VHH VHH 46.3415
Pocket No.: 2; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 56
This union binding pocket(no: 2) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 3D78 NBB None
2 3N0Y APC None
3 4WUJ FMN None
4 1OI6 TMP 1.88679
5 1DRY AKG 1.88679
6 1DRY AAG 1.88679
7 1A78 TDG 2.23881
8 1GP6 QUE 2.51572
9 1GP6 DH2 2.51572
10 1GP6 SIN 2.51572
11 3TFJ THG 3.77358
12 1MHC FME TYR PHE ILE ASN ILE LEU THR LEU 3.77358
13 5L6G XYP 3.77358
14 1G2O IMH 3.77358
15 3E85 BSU 3.79747
16 2E56 MYR 4.16667
17 2A8Y MTA 4.40252
18 3TAY MN0 5.03145
19 1OFZ FUL 5.03145
20 4WXJ GLU 5.66038
21 1PVN MZP 5.66038
22 5KD6 LBU 6.28931
23 5UFS 1TA 6.28931
24 4E2J MOF 6.28931
25 2Q1H AS4 6.28931
26 6FA4 D1W 6.28931
27 2CHN NGT 6.28931
28 2HSA FMN 6.28931
29 5X8I SQZ 6.28931
30 3BJE URA 6.28931
31 1LSH PLD 6.28931
32 5EJL C2E 6.91824
33 1EU8 TRE 6.91824
34 1G0N NDP 7.54717
35 4TW7 37K 7.8125
36 2YFT DQR 8.1761
37 4CCN OGA 8.1761
38 2R5V HHH 8.1761
39 3RGA LSB 8.80503
40 1Y7P RIP 8.80503
41 5D3X 4IP 8.80503
42 5XNC MTA 8.80503
43 2OBD 2OB 9.43396
44 5ABF XRJ 9.43396
45 1QFT HSM 9.43396
46 4R3U 3HC 10.0629
47 4R3U 3KK 10.0629
48 4QCK ASD 10.6918
49 5XVG 8FX 13.2075
50 4G31 0WH 13.8365
51 6CMJ F6J 15.0943
52 5W10 CMP 18.8679
53 4XIZ LPP 18.8679
54 6GH1 ARG LEU PRO ALA LYS ALA PRO LEU LEU 20.7547
55 5Y1G NAD 21.3836
56 1TT8 PHB 22.6415
Pocket No.: 3; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 56
This union binding pocket(no: 3) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 1OAA OAA None
2 2OG7 SIN 1.88679
3 5GWT SIN 1.88679
4 5DG2 GAL GLC 2.22222
5 5UR1 YY9 2.51572
6 4CQM NAP 3.14465
7 4L4J NAG NAG BMA MAN NAG 3.77358
8 4O67 1SY 3.77358
9 4JJJ CE6 4.40252
10 4J7U YTZ 4.40252
11 4J7U NAP 4.40252
12 1OPK P16 4.40252
13 3EYA TDP 4.40252
14 1WRA PC 5.03145
15 5CC2 CKA 5.03145
16 1U0A BGC BGC BGC BGC 5.66038
17 4MP8 MLI 5.66038
18 4MP8 NAD 5.66038
19 3AY6 NAI 5.66038
20 3PUR 2HG 5.66038
21 4M26 AKG 5.66038
22 2HFN FMN 5.88235
23 3GN8 DEX 6.28931
24 6CDG PRO GLY LEU TRP LYS SER 6.28931
25 1A99 PUT 6.28931
26 2YVF NAD 6.91824
27 2YVF FAD 6.91824
28 5FKP 6UL 6.91824
29 3SCM LGN 6.91824
30 1H74 ADP 6.91824
31 1H74 ILE 6.91824
32 3MF2 AMP 6.91824
33 5XS3 VAL ARG SER ARG ARG CYS LEU ARG LEU 7.14286
34 4ZW3 4S9 7.54717
35 4WO4 JLS 7.54717
36 5V7I 8Z1 7.54717
37 2PA7 TYD 7.80142
38 2CH5 NAG 8.1761
39 1VA6 P2S 8.1761
40 2CH5 NDG 8.1761
41 5FP3 3JI 8.1761
42 1JBW ACQ 8.80503
43 5BSH PRO 9.43396
44 5OSW DIU 9.43396
45 4TR9 38D 9.43396
46 1SR7 MOF 10.0629
47 3FW4 CAQ 10.0629
48 3EKK GS2 10.0629
49 1IDA 0PO 10.101
50 4RYV ZEA 15.4839
51 1KGI T4A 15.748
52 2FR1 NDP 16.9811
53 5LRT ADP 18.239
54 1C1X NAD 20.1258
55 4NBT NAD 24.5283
56 4UP3 FAD 26.4151
Pocket No.: 4; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 37
This union binding pocket(no: 4) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 5HZ5 65X None
2 3P7N FMN None
3 6HDT BTN None
4 3MTX PGT 1.3245
5 2PR5 FMN 1.51515
6 3PFG SAM 2.51572
7 3PFG TLO 2.51572
8 2J3M PRI 3.14465
9 2X34 UQ8 4.40252
10 4OJ8 AKG 4.40252
11 4OJ8 2TQ 4.40252
12 3C6K SPD 4.40252
13 3C6K MTA 4.40252
14 2P7Q GG6 4.51128
15 3KF3 FRU 5.03145
16 3WV6 GAL GLC 5.03145
17 4USF 6UI 5.03145
18 2RG0 CTT 5.03145
19 5HGR 45D 5.66038
20 5HCY 60D 6.28931
21 2ZHL NAG GAL GAL NAG 6.75676
22 1REQ DCA 6.91824
23 4K2M O1G 6.91824
24 4H2X G5A 6.91824
25 4P7U 1PS 7.14286
26 3NNF AKG 7.54717
27 4UCF GLA 7.54717
28 3VV1 GAL FUC 8.1761
29 5H9Q TD2 9.67742
30 1LFO OLA 10.1562
31 1KJM ALA GLN PHE SER ALA SER ALA SER ARG 10.6918
32 5ZEC NAP 10.6918
33 6BU0 IHP 13.7405
34 1WUU ANP 13.8365
35 3WXL ADP 14.4654
36 4Y3O OGA 16.3522
37 1ODM ASV 18.8679
Pocket No.: 5; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 17
This union binding pocket(no: 5) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 3EW2 BTN None
2 4QM9 CYS None
3 3WUC GLC GAL 2.18978
4 1PZX PLM 2.51572
5 4D4U FUC GAL 2.51572
6 4D4U FUC NDG GAL FUC 2.51572
7 1PN0 FAD 3.14465
8 4Y24 TD2 3.24675
9 4HK8 XYP XYP XYP XYP XYP XYP 6.28931
10 5GVL GI8 6.91824
11 5GVL PLG 6.91824
12 1W96 S1A 6.91824
13 2DKH 3HB 8.80503
14 3O0G 3O0 9.43396
15 3NW7 LGV 10.0629
16 1VJY 460 10.0629
17 2ZMF CMP 16.9811
Pocket No.: 6; Query (leader) PDB : 5N0L; Ligand: ILE; Similar sites found with APoc: 22
This union binding pocket(no: 6) in the query (biounit: 5n0l.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 1I7A FLC None
2 4D86 ADP 2.51572
3 4ZS4 ATP 3.14465
4 4HMT FMN 3.14465
5 3GDH SAH 3.14465
6 4NBU NAI 3.77358
7 3PDT ADP 4.40252
8 4M52 M52 5.03145
9 5ENQ 5QE 5.66038
10 5HV0 AKG 5.66038
11 2EWM NAD 5.66038
12 4IDT T28 5.66038
13 3EMY IVA VAL VAL STA ALA STA 6.07903
14 2NNQ T4B 6.87023
15 4OIV XX9 6.91824
16 4TV1 36M 6.91824
17 5TVM PUT 7.05882
18 5K4W THR 7.54717
19 4XOE KGM 8.80503
20 4BXF AKG 10.6918
21 5NFB 8VT 17.6101
22 3ZGJ RMN 17.6101
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