PDB Chemical Component YIR
The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.
Bond Distances for YIR
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
OBC |
NAA |
1.407 |
1.218 |
NAA |
OBB |
1.414 |
1.218 |
NAA |
CAM |
1.329 |
1.480 |
CAH |
CAM |
1.524 |
1.376 |
CAH |
CAI |
1.394 |
1.389 |
CAM |
CAL |
1.397 |
1.392 |
CAI |
CAJ |
1.389 |
1.365 |
CAL |
NAB |
1.338 |
1.375 |
CAL |
CAK |
1.396 |
1.408 |
CAJ |
CAK |
1.394 |
1.401 |
NAB |
CAO |
1.338 |
1.381 |
CAK |
CAN |
1.508 |
1.417 |
CAO |
CAN |
1.499 |
1.359 |
CAO |
CAP |
1.520 |
1.471 |
OBD |
CAP |
1.346 |
1.216 |
CAP |
NAC |
1.339 |
1.347 |
NAC |
CAQ |
1.338 |
1.397 |
CAQ |
CAR |
1.405 |
1.390 |
CAQ |
CAV |
1.397 |
1.391 |
CAR |
CAS |
1.402 |
1.382 |
CAV |
CAU |
1.393 |
1.378 |
CAS |
CAW |
1.540 |
1.504 |
CAS |
CAT |
1.394 |
1.396 |
CAW |
CAX |
1.534 |
1.526 |
CAU |
CAT |
1.405 |
1.397 |
CAX |
CAY |
1.524 |
1.534 |
CAT |
CAZ |
1.399 |
1.478 |
CAZ |
CAY |
1.541 |
1.515 |
CAZ |
NAD |
1.329 |
1.298 |
NAD |
NAE |
1.243 |
1.401 |
NAE |
CBA |
1.332 |
1.377 |
NAG |
CBA |
1.322 |
1.304 |
CBA |
NAF |
1.330 |
1.376 |
NAB |
HNAB |
1.000 |
0.970 |
NAC |
HNAC |
1.000 |
0.970 |
NAF |
H1AF |
1.000 |
0.970 |
NAF |
H2AF |
1.000 |
0.971 |
NAG |
HAG |
1.000 |
0.969 |
CAH |
HAH |
1.080 |
1.080 |
CAI |
HAI |
1.080 |
1.080 |
CAJ |
HAJ |
1.080 |
1.080 |
CAN |
HAN |
1.080 |
1.079 |
CAR |
HAR |
1.080 |
1.079 |
CAU |
HAU |
1.081 |
1.080 |
CAV |
HAV |
1.080 |
1.080 |
CAW |
H1AW |
1.100 |
1.090 |
CAW |
H2AW |
1.100 |
1.090 |
CAX |
H1AX |
1.100 |
1.090 |
CAX |
H2AX |
1.100 |
1.090 |
CAY |
H1AY |
1.100 |
1.090 |
CAY |
H2AY |
1.100 |
1.090 |
NAE |
HAE |
1.000 |
0.969 |
Bond Angles for YIR
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
CAM |
NAA |
OBB |
123.1 |
119.9 |
NAA |
CAM |
CAH |
115.9 |
120.1 |
NAA |
CAM |
CAL |
120.5 |
120.1 |
CAI |
CAH |
CAM |
112.8 |
120.7 |
CAH |
CAM |
CAL |
123.6 |
119.8 |
CAM |
CAH |
HAH |
123.6 |
119.7 |
CAH |
CAI |
CAJ |
123.3 |
120.6 |
CAI |
CAH |
HAH |
123.6 |
119.7 |
CAH |
CAI |
HAI |
118.3 |
119.7 |
CAI |
CAJ |
CAK |
121.8 |
119.8 |
CAJ |
CAI |
HAI |
118.4 |
119.7 |
CAI |
CAJ |
HAJ |
119.1 |
120.1 |
CAL |
NAB |
CAO |
109.0 |
108.8 |
CAL |
NAB |
HNAB |
125.5 |
125.6 |
CAL |
CAK |
CAN |
108.0 |
107.0 |
CAJ |
CAK |
CAN |
131.1 |
133.3 |
CAK |
CAJ |
HAJ |
119.1 |
120.1 |
NAB |
CAO |
CAN |
112.5 |
109.2 |
NAB |
CAO |
CAP |
123.5 |
125.5 |
CAO |
NAB |
HNAB |
125.5 |
125.7 |
CAK |
CAN |
HAN |
130.6 |
126.2 |
CAO |
CAN |
HAN |
130.5 |
126.2 |
CAP |
NAC |
CAQ |
126.9 |
120.0 |
CAP |
NAC |
HNAC |
116.6 |
120.0 |
NAC |
CAQ |
CAR |
123.3 |
119.9 |
NAC |
CAQ |
CAV |
116.9 |
119.8 |
CAQ |
NAC |
HNAC |
116.6 |
120.0 |
CAR |
CAQ |
CAV |
119.6 |
120.3 |
CAQ |
CAR |
CAS |
120.3 |
120.3 |
CAQ |
CAR |
HAR |
119.8 |
119.8 |
CAQ |
CAV |
CAU |
120.0 |
119.8 |
CAQ |
CAV |
HAV |
120.0 |
120.0 |
CAR |
CAS |
CAW |
118.8 |
119.0 |
CAR |
CAS |
CAT |
119.8 |
119.3 |
CAS |
CAR |
HAR |
119.9 |
119.9 |
CAV |
CAU |
HAU |
119.8 |
120.0 |
CAT |
CAS |
CAW |
121.4 |
121.6 |
CAS |
CAW |
CAX |
112.0 |
111.3 |
CAS |
CAW |
H1AW |
108.6 |
109.1 |
CAS |
CAW |
H2AW |
108.7 |
109.1 |
CAS |
CAT |
CAZ |
117.2 |
120.1 |
CAW |
CAX |
CAY |
112.8 |
109.4 |
CAX |
CAW |
H1AW |
108.6 |
109.2 |
CAX |
CAW |
H2AW |
108.6 |
109.1 |
CAW |
CAX |
H1AX |
108.4 |
109.5 |
CAW |
CAX |
H2AX |
108.4 |
109.5 |
CAU |
CAT |
CAZ |
123.0 |
119.6 |
CAY |
CAX |
H1AX |
108.4 |
109.5 |
CAY |
CAX |
H2AX |
108.4 |
109.5 |
CAX |
CAY |
H1AY |
108.3 |
109.9 |
CAX |
CAY |
H2AY |
108.3 |
109.8 |
CAT |
CAZ |
CAY |
124.7 |
117.6 |
CAZ |
CAY |
H1AY |
108.3 |
109.9 |
CAZ |
CAY |
H2AY |
108.3 |
109.9 |
NAD |
NAE |
CBA |
118.5 |
120.0 |
NAD |
NAE |
HAE |
120.7 |
120.0 |
NAE |
CBA |
NAG |
119.9 |
120.0 |
NAE |
CBA |
NAF |
121.8 |
120.0 |
CBA |
NAE |
HAE |
120.7 |
120.0 |
CBA |
NAG |
HAG |
112.0 |
120.0 |
CBA |
NAF |
H1AF |
120.0 |
120.0 |
CBA |
NAF |
H2AF |
120.0 |
120.0 |
H1AF |
NAF |
H2AF |
120.0 |
120.0 |
H1AW |
CAW |
H2AW |
110.3 |
109.0 |
H1AX |
CAX |
H2AX |
110.6 |
109.5 |
H1AY |
CAY |
H2AY |
110.7 |
109.9 |
Torsion Angles for YIR
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
OBB |
NAA |
CAM |
CAH |
181.9 |
360.0 |
OBB |
NAA |
CAM |
CAL |
0.8 |
180.0 |
CAI |
CAH |
CAM |
NAA |
180.5 |
180.0 |
CAH |
CAM |
NAA |
CAL |
181.1 |
180.0 |
NAA |
CAM |
CAH |
HAH |
0.5 |
360.0 |
CAH |
CAM |
NAA |
OBB |
181.9 |
360.0 |
NAA |
CAM |
CAH |
CAL |
178.9 |
180.0 |
CAM |
CAH |
CAI |
CAJ |
359.1 |
0.0 |
CAI |
CAH |
CAM |
HAH |
180.0 |
180.0 |
CAM |
CAH |
CAI |
HAI |
179.1 |
180.0 |
NAA |
CAM |
CAH |
CAI |
180.5 |
180.0 |
CAI |
CAH |
CAM |
CAL |
1.6 |
360.0 |
CAM |
CAH |
CAI |
HAH |
180.0 |
180.0 |
CAH |
CAI |
CAJ |
CAK |
359.4 |
360.0 |
CAJ |
CAI |
CAH |
HAI |
180.0 |
180.1 |
CAH |
CAI |
CAJ |
HAJ |
179.4 |
180.0 |
CAL |
CAM |
NAA |
OBB |
0.8 |
180.0 |
NAA |
CAM |
CAL |
CAH |
181.2 |
180.0 |
CAL |
CAM |
CAH |
HAH |
181.6 |
179.9 |
CAM |
CAL |
NAB |
CAO |
179.9 |
180.0 |
CAM |
CAL |
NAB |
HNAB |
359.9 |
359.7 |
CAM |
CAL |
CAK |
CAN |
178.9 |
180.2 |
CAJ |
CAI |
CAH |
CAM |
359.1 |
0.0 |
CAJ |
CAI |
CAH |
HAH |
179.1 |
180.1 |
CAH |
CAI |
CAJ |
HAI |
180.0 |
179.9 |
CAI |
CAJ |
CAK |
CAN |
181.9 |
179.7 |
CAK |
CAJ |
CAI |
HAJ |
180.0 |
180.0 |
NAA |
CAM |
CAL |
NAB |
359.2 |
360.0 |
CAL |
NAB |
CAO |
CAN |
2.2 |
359.7 |
CAL |
NAB |
CAO |
CAP |
183.2 |
179.8 |
CAO |
NAB |
CAL |
HNAB |
180.0 |
180.3 |
NAA |
CAM |
CAL |
CAK |
180.5 |
180.0 |
CAH |
CAM |
CAL |
CAK |
359.3 |
0.1 |
CAK |
CAL |
NAB |
CAO |
358.7 |
360.0 |
CAK |
CAL |
NAB |
HNAB |
178.6 |
179.7 |
CAJ |
CAK |
CAL |
CAN |
180.2 |
179.7 |
CAL |
CAK |
CAJ |
HAJ |
181.7 |
180.0 |
CAL |
CAK |
CAN |
HAN |
181.2 |
179.7 |
CAK |
CAJ |
CAI |
HAI |
179.4 |
180.1 |
CAI |
CAJ |
CAK |
HAJ |
180.0 |
180.0 |
CAL |
CAK |
CAJ |
CAN |
179.8 |
180.4 |
CAJ |
CAK |
CAN |
HAN |
1.0 |
0.0 |
CAL |
NAB |
CAO |
HNAB |
180.0 |
179.7 |
NAB |
CAO |
CAN |
HAN |
177.9 |
180.3 |
CAN |
CAK |
CAJ |
HAJ |
1.9 |
359.7 |
NAB |
CAO |
CAN |
CAK |
357.9 |
0.4 |
CAO |
CAN |
CAK |
HAN |
180.0 |
179.9 |
NAB |
CAO |
CAN |
CAP |
180.9 |
180.0 |
CAN |
CAO |
NAB |
HNAB |
182.3 |
180.0 |
CAK |
CAN |
CAO |
HAN |
180.0 |
180.1 |
NAB |
CAO |
CAP |
CAN |
179.0 |
180.0 |
CAP |
CAO |
NAB |
HNAB |
3.2 |
0.1 |
CAP |
CAO |
CAN |
HAN |
357.0 |
0.3 |
CAO |
CAP |
NAC |
CAQ |
184.7 |
184.6 |
CAO |
CAP |
NAC |
HNAC |
4.7 |
4.6 |
OBD |
CAP |
NAC |
HNAC |
189.1 |
184.6 |
NAB |
CAO |
CAP |
NAC |
183.8 |
360.0 |
CAP |
NAC |
CAQ |
CAR |
358.6 |
144.9 |
CAP |
NAC |
CAQ |
CAV |
175.0 |
324.5 |
CAQ |
NAC |
CAP |
HNAC |
180.0 |
180.1 |
CAP |
NAC |
CAQ |
HNAC |
180.0 |
179.9 |
CAR |
CAQ |
NAC |
CAV |
183.6 |
180.3 |
NAC |
CAQ |
CAR |
CAS |
177.7 |
179.9 |
NAC |
CAQ |
CAR |
HAR |
357.7 |
359.8 |
NAC |
CAQ |
CAV |
CAU |
182.3 |
179.9 |
NAC |
CAQ |
CAV |
HAV |
2.3 |
0.2 |
NAC |
CAQ |
CAR |
CAV |
176.3 |
179.7 |
CAR |
CAQ |
NAC |
HNAC |
178.6 |
325.0 |
CAR |
CAQ |
CAV |
CAU |
358.9 |
359.6 |
CAR |
CAQ |
CAV |
HAV |
178.8 |
179.8 |
CAQ |
CAR |
CAS |
CAW |
179.4 |
179.7 |
CAQ |
CAR |
CAS |
CAT |
359.5 |
359.9 |
CAS |
CAR |
CAQ |
HAR |
180.0 |
180.1 |
NAC |
CAQ |
CAV |
CAR |
183.4 |
180.3 |
CAV |
CAQ |
NAC |
HNAC |
355.0 |
144.6 |
CAV |
CAQ |
CAR |
CAS |
1.4 |
0.3 |
CAV |
CAQ |
CAR |
HAR |
181.4 |
180.2 |
CAQ |
CAV |
CAU |
HAU |
179.9 |
180.3 |
CAS |
CAR |
CAQ |
CAV |
1.4 |
0.3 |
CAQ |
CAR |
CAS |
HAR |
180.0 |
179.9 |
CAT |
CAS |
CAR |
CAW |
180.2 |
180.1 |
CAR |
CAS |
CAW |
CAX |
213.8 |
157.5 |
CAR |
CAS |
CAW |
H1AW |
333.8 |
278.0 |
CAR |
CAS |
CAW |
H2AW |
93.8 |
37.0 |
CAR |
CAS |
CAT |
CAZ |
180.7 |
180.4 |
CAQ |
CAV |
CAU |
HAV |
180.0 |
180.3 |
CAV |
CAU |
CAT |
CAZ |
179.5 |
179.4 |
CAR |
CAS |
CAW |
CAT |
180.2 |
180.1 |
CAW |
CAS |
CAR |
HAR |
359.4 |
359.8 |
CAW |
CAS |
CAT |
CAZ |
0.9 |
0.5 |
CAS |
CAW |
CAX |
CAY |
310.8 |
54.7 |
CAX |
CAW |
CAS |
H1AW |
240.0 |
239.5 |
CAX |
CAW |
CAS |
H2AW |
120.0 |
120.5 |
CAS |
CAW |
CAX |
H1AX |
70.8 |
174.7 |
CAS |
CAW |
CAX |
H2AX |
190.9 |
294.7 |
H1AW |
CAW |
CAS |
H2AW |
240.0 |
241.0 |
CAR |
CAS |
CAT |
CAW |
179.8 |
179.9 |
CAT |
CAS |
CAR |
HAR |
179.5 |
179.9 |
CAT |
CAS |
CAW |
CAX |
33.6 |
337.3 |
CAT |
CAS |
CAW |
H1AW |
153.6 |
97.8 |
CAT |
CAS |
CAW |
H2AW |
273.6 |
216.9 |
CAU |
CAT |
CAS |
CAZ |
178.5 |
179.8 |
CAS |
CAT |
CAZ |
CAY |
340.0 |
348.6 |
CAS |
CAW |
CAX |
H1AW |
120.0 |
120.5 |
CAS |
CAW |
CAX |
H2AW |
240.0 |
239.5 |
CAY |
CAX |
CAW |
H1AX |
240.0 |
240.0 |
CAY |
CAX |
CAW |
H2AX |
120.0 |
120.0 |
CAW |
CAX |
CAY |
H1AY |
152.6 |
55.4 |
CAW |
CAX |
CAY |
H2AY |
272.6 |
176.4 |
H1AW |
CAW |
CAX |
H2AW |
120.0 |
119.1 |
H1AX |
CAX |
CAW |
H2AX |
240.0 |
240.0 |
CAQ |
CAV |
CAU |
CAT |
359.9 |
0.5 |
CAU |
CAT |
CAS |
CAW |
179.4 |
180.4 |
CAS |
CAT |
CAU |
CAZ |
181.5 |
180.2 |
CAU |
CAT |
CAZ |
CAY |
161.5 |
168.7 |
CAY |
CAX |
CAW |
H1AW |
190.9 |
294.2 |
CAY |
CAX |
CAW |
H2AW |
70.9 |
175.2 |
CAW |
CAX |
CAY |
H1AX |
120.0 |
120.0 |
CAW |
CAX |
CAY |
H2AX |
240.0 |
240.0 |
CAT |
CAZ |
CAY |
CAX |
2.2 |
42.5 |
CAZ |
CAY |
CAX |
H1AY |
240.0 |
240.5 |
CAZ |
CAY |
CAX |
H2AY |
120.0 |
119.5 |
H1AX |
CAX |
CAY |
H2AX |
120.0 |
120.0 |
H1AY |
CAY |
CAX |
H2AY |
240.0 |
239.0 |
CAZ |
CAT |
CAS |
CAW |
0.9 |
0.5 |
CAT |
CAZ |
CAY |
H1AY |
242.3 |
283.0 |
CAT |
CAZ |
CAY |
H2AY |
122.2 |
162.0 |
CAZ |
CAY |
CAX |
H1AX |
272.6 |
176.0 |
CAZ |
CAY |
CAX |
H2AX |
152.6 |
55.9 |
CAX |
CAY |
CAZ |
H1AY |
120.0 |
119.5 |
CAX |
CAY |
CAZ |
H2AY |
240.0 |
240.6 |
H1AY |
CAY |
CAZ |
H2AY |
120.0 |
121.1 |
CAZ |
NAD |
NAE |
CBA |
178.3 |
180.0 |
CAZ |
NAD |
NAE |
HAE |
358.2 |
0.1 |
NAD |
NAE |
CBA |
NAG |
1.4 |
0.1 |
NAD |
NAE |
CBA |
NAF |
180.6 |
180.0 |
CBA |
NAE |
NAD |
HAE |
180.0 |
179.9 |
NAD |
NAE |
CBA |
HAE |
180.0 |
180.1 |
NAE |
CBA |
NAG |
HAG |
179.2 |
180.0 |
NAE |
CBA |
NAF |
H1AF |
180.9 |
0.0 |
NAE |
CBA |
NAF |
H2AF |
0.9 |
180.1 |
NAE |
CBA |
NAG |
NAF |
179.2 |
179.9 |
NAG |
CBA |
NAE |
HAE |
181.5 |
180.0 |
NAG |
CBA |
NAF |
H1AF |
0.0 |
179.9 |
NAG |
CBA |
NAF |
H2AF |
180.0 |
360.0 |
NAE |
CBA |
NAF |
NAG |
180.9 |
180.1 |
NAF |
CBA |
NAE |
HAE |
0.6 |
359.9 |
H1AF |
NAF |
CBA |
H2AF |
180.0 |
180.0 |
CAL |
NAB |
HNAB |
CAO |
180.0 |
180.3 |
HNAB |
NAB |
CAO |
CAN |
182.3 |
180.0 |
HNAB |
NAB |
CAO |
CAP |
3.2 |
0.1 |
CAP |
NAC |
HNAC |
CAQ |
180.0 |
180.1 |
HNAC |
NAC |
CAQ |
CAR |
178.6 |
325.0 |
HNAC |
NAC |
CAQ |
CAV |
355.0 |
144.6 |
CBA |
NAF |
H1AF |
H2AF |
180.0 |
180.0 |
CBA |
NAF |
H2AF |
H1AF |
180.0 |
180.0 |
CAI |
CAH |
HAH |
CAM |
180.0 |
180.0 |
HAH |
CAH |
CAM |
CAL |
181.6 |
179.9 |
HAH |
CAH |
CAI |
CAJ |
179.1 |
180.1 |
HAH |
CAH |
CAI |
HAI |
359.1 |
360.0 |
HAI |
CAI |
CAH |
CAM |
179.1 |
180.0 |
CAH |
CAI |
HAI |
CAJ |
180.0 |
180.1 |
HAI |
CAI |
CAH |
HAH |
359.1 |
360.0 |
HAI |
CAI |
CAJ |
CAK |
179.4 |
180.1 |
HAI |
CAI |
CAJ |
HAJ |
359.4 |
0.0 |
CAI |
CAJ |
HAJ |
CAK |
180.0 |
180.0 |
HAJ |
CAJ |
CAI |
HAI |
359.4 |
0.0 |
HAJ |
CAJ |
CAK |
CAN |
1.9 |
359.7 |
HAR |
CAR |
CAQ |
CAV |
181.4 |
180.2 |
CAQ |
CAR |
HAR |
CAS |
180.0 |
180.1 |
HAR |
CAR |
CAS |
CAW |
359.4 |
359.8 |
HAR |
CAR |
CAS |
CAT |
179.5 |
179.9 |
HAU |
CAU |
CAT |
CAZ |
359.5 |
359.7 |
CAQ |
CAV |
HAV |
CAU |
180.0 |
179.7 |
HAV |
CAV |
CAU |
HAU |
359.9 |
0.0 |
CAS |
CAW |
H1AW |
CAX |
238.0 |
238.2 |
CAS |
CAW |
H1AW |
H2AW |
119.0 |
119.1 |
H1AW |
CAW |
CAX |
CAY |
190.9 |
294.2 |
CAX |
CAW |
H1AW |
H2AW |
241.1 |
240.9 |
H1AW |
CAW |
CAX |
H1AX |
310.9 |
54.2 |
H1AW |
CAW |
CAX |
H2AX |
70.9 |
174.2 |
CAS |
CAW |
H2AW |
CAX |
122.0 |
121.8 |
CAS |
CAW |
H2AW |
H1AW |
241.0 |
240.9 |
H2AW |
CAW |
CAX |
CAY |
70.9 |
175.2 |
CAX |
CAW |
H2AW |
H1AW |
119.0 |
119.1 |
H2AW |
CAW |
CAX |
H1AX |
190.9 |
295.1 |
H2AW |
CAW |
CAX |
H2AX |
310.9 |
55.1 |
CAW |
CAX |
H1AX |
CAY |
237.3 |
240.1 |
H1AX |
CAX |
CAW |
H1AW |
310.9 |
54.2 |
H1AX |
CAX |
CAW |
H2AW |
190.9 |
295.1 |
CAW |
CAX |
H1AX |
H2AX |
118.7 |
120.1 |
CAY |
CAX |
H1AX |
H2AX |
241.4 |
240.0 |
H1AX |
CAX |
CAY |
H1AY |
32.6 |
295.5 |
H1AX |
CAX |
CAY |
H2AY |
152.6 |
56.5 |
CAW |
CAX |
H2AX |
CAY |
122.7 |
119.9 |
H2AX |
CAX |
CAW |
H1AW |
70.9 |
174.2 |
H2AX |
CAX |
CAW |
H2AW |
310.9 |
55.1 |
CAW |
CAX |
H2AX |
H1AX |
241.3 |
240.0 |
CAY |
CAX |
H2AX |
H1AX |
118.6 |
120.0 |
H2AX |
CAX |
CAY |
H1AY |
272.6 |
175.4 |
H2AX |
CAX |
CAY |
H2AY |
32.6 |
296.5 |
H1AY |
CAY |
CAX |
H1AX |
32.6 |
295.5 |
H1AY |
CAY |
CAX |
H2AX |
272.6 |
175.4 |
CAX |
CAY |
H1AY |
H2AY |
118.5 |
121.0 |
CAZ |
CAY |
H1AY |
H2AY |
241.5 |
238.9 |
H2AY |
CAY |
CAX |
H1AX |
152.6 |
56.5 |
H2AY |
CAY |
CAX |
H2AX |
32.6 |
296.5 |
CAX |
CAY |
H2AY |
H1AY |
241.5 |
239.0 |
CAZ |
CAY |
H2AY |
H1AY |
118.5 |
121.1 |
NAD |
NAE |
HAE |
CBA |
180.0 |
179.9 |
HAE |
NAE |
CBA |
NAG |
181.5 |
180.0 |
HAE |
NAE |
CBA |
NAF |
0.6 |
359.9 |