Contacts of the helix formed by residues 251 - 286 (chain C) in PDB entry 2ZT9
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 251 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A UMQ 4.1 12.1 - - - +
42C PRO* 4.9 0.9 - - - -
144C PHE* 3.5 37.3 - - + -
250C GLN* 1.3 87.1 + - - +
252C ALA* 1.3 68.5 + - - +
253C ASN* 3.0 35.6 + - - +
254C ARG* 3.1 43.0 + - - +
255C VAL* 3.4 5.9 + - - +
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Residues in contact with ALA 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41C LEU* 3.8 27.4 - - + +
42C PRO* 5.3 1.8 - - + +
251C ASP* 1.3 76.3 + - - +
253C ASN* 1.3 52.3 + - - +
255C VAL* 3.1 10.3 + - - +
256C GLY* 2.8 32.6 + - - -
3H ILE* 4.4 17.0 - - + +
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Residues in contact with ASN 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A UMQ 3.7 30.5 + - - +
251C ASP* 3.0 24.4 + - - +
252C ALA* 1.3 74.7 - - - +
254C ARG* 1.3 65.9 + - - +
256C GLY* 3.9 2.1 - - - +
257C TRP* 3.0 36.8 + - + +
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Residues in contact with ARG 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80A TRP* 3.1 77.9 - - + +
304A UMQ 3.5 37.7 + - + +
56B VAL* 4.2 13.4 + - + +
59B PRO* 5.2 7.5 - - - +
144C PHE* 3.7 41.0 + - - +
145C GLY* 4.8 3.8 - - - +
250C GLN* 3.7 17.8 - - - +
251C ASP* 3.1 35.2 + - - +
253C ASN* 1.3 79.3 - - - +
255C VAL* 1.3 57.2 + - - +
257C TRP 3.4 0.3 + - - -
258C LEU* 3.0 26.2 + - - +
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Residues in contact with VAL 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56B VAL* 4.6 2.5 - - + -
57B LEU* 4.6 11.2 - - + -
250C GLN* 3.7 29.8 - - + +
251C ASP 3.7 13.5 - - - +
252C ALA* 3.1 8.0 + - - +
254C ARG* 1.3 71.9 - - - +
256C GLY* 1.3 66.2 + - - +
258C LEU* 3.2 8.2 + - + +
259C ILE* 2.9 29.7 + - + +
3H ILE* 3.4 36.3 - - + +
4H LEU* 4.7 7.2 - - + -
7H GLY* 3.6 21.1 - - - +
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Residues in contact with GLY 256 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252C ALA 2.8 18.3 + - - -
253C ASN* 3.9 2.7 - - - -
254C ARG 3.4 0.2 - - - -
255C VAL* 1.3 72.4 - - - +
257C TRP* 1.3 62.1 + - - +
259C ILE* 3.1 12.0 + - - +
260C ALA* 3.0 22.2 + - - +
3H ILE* 4.4 10.2 - - - +
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Residues in contact with TRP 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A UMQ 3.7 48.4 + - + +
253C ASN* 3.0 33.4 + - + +
256C GLY* 1.3 76.0 - - - +
258C LEU* 1.3 56.7 + - - +
260C ALA* 3.4 16.0 + - + +
261C PHE* 2.9 30.5 + - - +
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Residues in contact with LEU 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A UMQ 4.1 9.8 - - + +
49B ALA 5.2 0.2 - - - +
52B VAL* 4.3 14.8 - - + -
53B ALA* 3.7 30.7 - - + +
56B VAL* 4.0 26.0 - - + -
57B LEU* 4.0 25.1 - - + -
254C ARG 3.0 14.6 + - - +
255C VAL* 3.3 10.5 - - - +
256C GLY 3.2 0.2 - - - -
257C TRP* 1.3 73.6 - - - +
259C ILE* 1.3 56.6 + - + +
261C PHE* 3.0 7.8 + - + +
262C VAL* 2.8 53.4 + - + +
7H GLY* 4.6 1.8 - - - +
10H SER* 4.4 11.7 - - - +
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Residues in contact with ILE 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255C VAL* 2.9 20.5 + - + +
256C GLY* 3.5 8.7 - - - +
258C LEU* 1.3 74.2 - - + +
260C ALA* 1.3 57.8 + - - +
262C VAL* 3.7 6.8 - - - +
263C ALA* 3.0 29.4 + - + +
10E PHE* 4.3 22.8 - - + -
3H ILE* 4.9 6.1 - - + +
6H LEU* 3.3 44.0 - - + +
7H GLY* 3.8 7.0 - - - +
10H SER* 3.7 13.0 - - - +
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Residues in contact with ALA 260 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256C GLY 3.0 12.8 + - - +
257C TRP* 3.5 26.7 - - + +
258C LEU 3.2 0.2 - - - -
259C ILE* 1.3 76.7 - - - +
261C PHE* 1.3 61.5 + - - +
263C ALA* 3.4 7.5 + - - +
264C LEU* 3.1 21.8 + - - +
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Residues in contact with PHE 261 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A UMQ 3.9 41.3 - - + -
48B PHE* 3.7 33.4 - + - -
49B ALA* 4.5 12.1 - - + -
52B VAL* 4.7 7.9 - - + -
257C TRP 2.9 18.0 + - - +
258C LEU* 3.0 5.4 + - + +
260C ALA* 1.3 72.1 - - - +
262C VAL* 1.3 72.0 + - + +
264C LEU* 3.2 12.0 + - + +
265C VAL* 2.9 43.0 + - + +
30D VAL* 3.6 37.5 - - + -
33D GLY* 4.8 7.0 - - - -
34D ALA 4.2 3.8 - - - -
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Residues in contact with VAL 262 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B ALA* 5.1 4.3 - - + +
53B ALA* 5.0 4.5 - - + -
258C LEU* 2.8 41.9 + - + +
259C ILE 3.7 4.5 - - - +
261C PHE* 1.3 75.7 - - + +
263C ALA* 1.3 56.5 + - - +
265C VAL* 3.1 10.9 + - - +
266C MET* 3.0 41.6 + - + +
10E PHE* 5.0 0.9 - - + -
10H SER* 3.7 35.0 - - - +
14H VAL* 3.6 32.1 - - + -
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Residues in contact with ALA 263 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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259C ILE* 3.0 17.5 + - + +
260C ALA* 3.5 8.1 - - - +
262C VAL* 1.3 74.6 - - - +
264C LEU* 1.3 65.4 + - - +
266C MET* 3.3 14.1 + - + +
267C LEU* 3.0 24.3 + - - +
10E PHE* 4.8 6.1 - - + -
14E PHE* 3.8 19.1 - - + -
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Residues in contact with LEU 264 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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260C ALA 3.1 13.9 + - - +
261C PHE* 3.2 16.6 + - + +
263C ALA* 1.3 75.7 - - - +
265C VAL* 1.3 63.4 + - - +
267C LEU* 3.4 10.0 + - + -
268C ALA* 3.0 25.1 + - - +
26D THR* 3.8 26.7 - - + +
29D GLY* 3.5 12.8 - - - +
30D VAL* 3.4 35.0 - - + +
33D GLY* 5.9 0.9 - - - -
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Residues in contact with VAL 265 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45B MET* 3.9 29.1 - - + +
46B GLY* 4.6 0.2 - - - -
48B PHE* 6.0 0.2 - - + -
49B ALA* 4.1 15.0 - - + -
261C PHE* 2.9 48.3 + - + +
262C VAL* 3.1 8.9 + - - +
264C LEU* 1.3 77.0 - - - +
266C MET* 1.3 58.9 + - - +
268C ALA* 3.2 2.4 + - - +
269C GLN* 2.9 50.8 + - - +
30D VAL* 3.9 17.9 - - + -
14H VAL* 4.3 5.2 - - + -
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Residues in contact with MET 266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262C VAL* 3.0 32.9 + - + +
263C ALA* 3.3 16.1 + - - +
265C VAL* 1.3 72.2 - - - +
267C LEU* 1.3 64.0 + - - +
269C GLN* 3.3 8.9 + - - +
270C VAL* 3.0 27.5 + - - +
10E PHE* 3.6 26.2 - - + -
14E PHE* 3.7 20.9 - - + -
13H VAL* 3.4 26.9 - - + -
14H VAL* 4.0 14.8 - - + -
17H TRP* 3.2 34.2 + - + +
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Residues in contact with LEU 267 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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263C ALA 3.0 17.0 + - - +
264C LEU* 3.6 13.0 - - + +
266C MET* 1.3 73.4 - - - +
268C ALA* 1.3 64.8 + - - +
270C VAL* 2.9 21.5 + - + +
271C MET* 3.0 22.2 + - + +
26D THR* 4.1 17.9 - - + +
14E PHE* 3.8 13.8 - - + -
17E ILE* 4.9 10.8 - - + -
21E LEU* 4.7 20.0 - - + -
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Residues in contact with ALA 268 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45B MET* 4.1 26.0 - - + -
264C LEU 3.0 17.1 + - - +
265C VAL 3.4 5.2 - - - +
267C LEU* 1.3 76.5 - - - +
269C GLN* 1.3 56.8 + - - +
271C MET* 3.3 5.9 - - - +
272C LEU* 3.0 34.5 + - - +
26D THR* 3.8 23.0 - - + +
27D VAL* 4.3 6.6 - - + +
30D VAL* 4.2 5.6 - - + -
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Residues in contact with GLN 269 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42B ILE* 3.3 49.7 + - + +
45B MET* 4.9 5.6 - - - -
46B GLY* 3.7 7.1 - - - +
265C VAL* 2.9 23.7 + - + +
266C MET* 3.4 16.6 + - - +
267C LEU 3.1 0.2 - - - -
268C ALA* 1.3 72.8 - - - +
270C VAL* 1.3 64.7 + - - +
272C LEU* 3.3 4.1 + - - +
273C VAL* 3.0 27.2 + - - +
14H VAL* 4.9 1.0 - - - +
17H TRP* 3.3 22.8 - - - -
18H SER* 3.0 30.1 + - - +
21H MET* 3.6 17.7 - - + -
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Residues in contact with VAL 270 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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266C MET 3.0 18.9 + - - +
267C LEU* 2.9 19.2 + - + +
269C GLN* 1.3 70.6 - - - +
271C MET* 1.3 55.3 + - - +
273C VAL* 3.1 3.8 + - - +
274C LEU* 2.8 58.7 + - + +
14E PHE* 4.7 6.3 - - + +
17E ILE* 4.9 4.9 - - + +
18E ALA* 3.9 24.0 - - + +
21E LEU* 5.0 4.9 - - + -
17H TRP* 3.5 14.8 - - + -
21H MET* 3.3 27.3 - - + +
24H TRP* 4.4 1.6 - - + -
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Residues in contact with MET 271 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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267C LEU* 3.0 19.2 + - + +
268C ALA* 3.3 13.0 - - - +
270C VAL* 1.3 77.2 - - - +
272C LEU* 1.3 57.4 + - - +
274C LEU* 3.4 10.0 + - - +
275C LYS* 2.8 24.9 + - - +
19D MET* 4.2 18.5 - - + +
22D LEU* 3.7 40.4 - - + +
23D THR* 3.0 36.8 + - + +
26D THR* 3.8 14.8 - - + +
21E LEU* 4.8 20.9 - - + -
25E LEU* 4.8 9.0 - - + -
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Residues in contact with LEU 272 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37B LEU 4.1 9.2 - - - +
38B TYR* 3.6 29.1 - - + +
41B PRO* 3.7 25.6 - - + -
42B ILE* 3.9 16.6 - - + +
45B MET* 4.6 5.6 - - - -
268C ALA 3.0 24.9 + - - +
269C GLN* 3.7 4.7 - - - +
270C VAL 3.3 0.2 - - - -
271C MET* 1.3 75.0 - - - +
273C VAL* 1.3 57.1 + - - +
275C LYS* 3.2 3.9 + - - +
276C LYS* 2.9 28.1 + - - +
23D THR* 3.7 21.1 - - + -
24D PHE* 3.8 23.6 - - + -
27D VAL* 3.9 15.0 - - + -
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Residues in contact with VAL 273 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38B TYR* 6.0 0.2 - - - -
42B ILE* 3.5 15.9 - - + -
269C GLN 3.0 15.1 + - - +
270C VAL 3.6 5.8 - - - +
272C LEU* 1.3 73.5 - - - +
274C LEU* 1.3 63.4 + - - +
276C LYS* 3.2 8.3 + - - +
277C LYS* 3.1 27.2 + - + +
21H MET* 3.3 34.8 - - + +
24H TRP* 3.5 39.0 - - + -
25H GLY* 3.6 20.9 - - - +
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Residues in contact with LEU 274 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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270C VAL* 2.8 36.5 + - + +
271C MET* 3.8 5.6 - - - +
273C VAL* 1.3 71.4 - - - +
275C LYS* 1.3 62.8 + - - +
277C LYS* 3.1 10.0 + - + +
278C GLN 3.0 17.8 + - - -
19D MET* 3.7 16.8 - - + -
18E ALA 4.6 0.2 - - - +
21E LEU* 3.8 33.4 - - + -
22E LEU* 4.2 12.6 - - + +
25E LEU* 4.0 15.5 - - + -
31E LEU* 3.4 24.9 - - + +
24H TRP* 3.5 32.8 - - + -
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Residues in contact with LYS 275 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38B TYR* 3.4 38.6 - - + -
203B SQD 2.7 23.5 + - - -
271C MET 2.8 17.8 + - - +
272C LEU* 3.4 6.5 - - - +
274C LEU* 1.3 76.9 - - - +
276C LYS* 1.3 62.7 + - - +
278C GLN* 2.6 32.9 + - - +
279C VAL* 3.2 22.4 + - - +
16D ARG 3.3 8.7 + - - -
19D MET* 3.7 23.9 - - + +
20D ASN* 3.1 26.3 + - - +
23D THR* 3.7 17.3 - - + +
24D PHE* 4.9 0.9 - - + -
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Residues in contact with LYS 276 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29B GLU* 3.2 36.8 + - - -
34B ASN* 3.3 36.0 + - + +
35B ASP* 3.9 0.4 + - - -
38B TYR* 3.9 22.8 - - + -
39B VAL* 3.9 8.1 - - + +
272C LEU 2.9 12.6 + - - +
273C VAL* 3.2 11.2 + - - +
275C LYS* 1.3 75.6 - - - +
277C LYS* 1.3 54.5 + - + +
279C VAL* 2.9 5.9 + - + +
280C GLU* 2.8 50.1 + - + +
25H GLY* 3.1 33.1 + - - +
26H ARG* 3.6 14.3 - - - +
27H ASN* 5.3 1.2 - - - +
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Residues in contact with LYS 277 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273C VAL* 3.1 27.1 + - + +
274C LEU* 3.1 17.2 + - + +
276C LYS* 1.3 77.2 - - - +
278C GLN* 1.3 60.8 + - - +
280C GLU* 3.2 31.6 + - - +
281C LYS* 3.1 37.6 + - - +
22E LEU* 5.5 1.6 - - + -
31E LEU* 4.7 10.8 - - + -
30F GLN* 3.5 33.8 + - - +
24H TRP* 2.8 54.8 + - + +
25H GLY* 3.8 9.3 - - - -
27H ASN* 3.9 6.8 + - - -
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Residues in contact with GLN 278 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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203B SQD 4.1 0.3 + - - -
274C LEU 3.0 7.2 + - - +
275C LYS* 2.6 43.7 + - - +
277C LYS* 1.3 73.9 - - - +
279C VAL* 1.3 61.8 + - - +
281C LYS* 3.3 8.7 + - - +
282C VAL* 3.1 27.7 + - + +
11D PRO* 3.8 15.3 - - + +
15D ARG 3.0 29.5 + - - -
16D ARG* 3.4 14.0 - - - +
19D MET* 3.5 7.9 - - - +
30E ILE* 2.8 33.7 + - - +
31E LEU* 3.6 20.1 - - + +
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Residues in contact with VAL 279 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33B PRO* 4.6 6.5 - - + -
34B ASN* 4.5 6.3 - - - +
38B TYR* 3.5 36.6 - - + +
203B SQD 3.9 20.6 - - + +
275C LYS* 3.2 22.2 + - - +
276C LYS* 2.9 8.9 + - + +
278C GLN* 1.3 72.7 - - + +
280C GLU* 1.3 61.1 + - + +
282C VAL* 3.2 9.6 + - + +
283C GLN* 2.8 54.6 + - + +
16D ARG* 6.1 0.2 - - - -
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Residues in contact with GLU 280 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2B ALA* 4.0 17.7 + - - +
3B THR* 4.0 18.1 + - - +
29B GLU* 4.7 2.6 - - - +
34B ASN* 4.7 6.3 - - - +
276C LYS* 2.8 33.6 + - + +
277C LYS* 3.4 37.9 - - - +
279C VAL* 1.3 77.7 - - + +
281C LYS* 1.3 61.3 + - - +
283C GLN* 3.5 7.2 + - - +
284C ALA* 3.2 23.0 + - - +
30F GLN* 4.9 1.7 - - - +
25H GLY 4.7 0.5 - - - +
27H ASN* 3.3 25.6 + - - +
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Residues in contact with LYS 281 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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277C LYS* 3.1 31.0 + - - +
278C GLN* 3.6 8.3 - - - +
279C VAL 3.3 0.2 - - - -
280C GLU* 1.3 74.6 - - - +
282C VAL* 1.3 63.5 + - - +
284C ALA* 3.4 8.2 + - + +
285C ALA* 3.3 21.7 + - - +
10D VAL* 4.5 6.6 - - + +
11D PRO* 5.1 11.7 - - + -
22E LEU* 5.3 1.2 - - - +
26E ARG* 4.1 23.0 - - - +
31E LEU* 3.7 44.7 + - - +
30F GLN* 5.3 2.3 - - - +
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Residues in contact with VAL 282 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278C GLN* 3.1 17.6 + - + +
279C VAL* 3.2 10.9 + - + +
281C LYS* 1.3 75.7 - - - +
283C GLN* 1.3 58.9 + - + +
285C ALA* 3.4 1.7 + - - +
286C GLU* 3.0 46.0 + - + +
10D VAL* 4.0 22.0 - - + -
11D PRO* 4.1 11.2 - - + -
16D ARG* 3.5 51.8 - - + +
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Residues in contact with GLN 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B THR* 2.9 29.5 + - + +
30B PRO* 4.0 11.5 - - - +
33B PRO* 4.2 7.9 - - - +
34B ASN* 3.1 33.5 + - - +
203B SQD 5.8 0.2 + - - -
279C VAL* 2.8 34.1 + - + +
280C GLU* 3.9 5.8 - - - +
282C VAL* 1.3 76.1 - - + +
284C ALA* 1.3 55.4 + - - +
286C GLU* 3.3 16.8 - - - +
287C MET* 2.8 30.0 - - - +
289C PHE* 4.1 22.2 - - + +
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Residues in contact with ALA 284 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 6.3 3.4 - - + -
2B ALA 5.9 3.1 - - - +
3B THR* 5.5 0.2 + - - -
280C GLU 3.2 17.6 + - - +
281C LYS* 3.4 8.3 + - + +
283C GLN* 1.3 75.6 - - - +
285C ALA* 1.3 63.3 + - - +
287C MET* 3.4 22.4 - - - +
----------------------------------------------------------
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Residues in contact with ALA 285 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C LYS 3.3 4.9 + - - +
282C VAL 3.8 6.3 - - - +
284C ALA* 1.3 83.4 - - - +
286C GLU* 1.3 59.8 + - + +
287C MET* 3.4 8.7 + - - +
10D VAL* 3.5 35.0 - - + -
----------------------------------------------------------
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Residues in contact with GLU 286 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C VAL* 3.0 43.4 + - + +
283C GLN* 3.3 12.7 - - - +
285C ALA* 1.3 71.2 - - + +
287C MET* 1.3 60.0 + - - +
288C ASN* 2.9 21.0 + - + +
289C PHE* 5.1 0.2 - - - -
10D VAL* 6.0 1.7 - - + +
16D ARG* 3.7 20.9 + - - -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il