Contacts of the helix formed by residues 222 - 254 (chain K) in PDB entry 2QJK
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 LYS 222 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84J MET 4.3 10.8 - - - +
85J ARG* 3.2 25.8 + - - +
86J ASN* 5.8 1.6 - - - +
87J VAL 5.9 2.7 - - - -
91J PHE* 3.2 45.8 - - + -
52K GLU* 3.5 25.1 + - - +
220K GLU* 3.2 8.7 + - - +
221K PRO* 1.3 92.2 - - + +
223K LEU* 1.3 61.6 + - - +
224K MET 3.6 1.3 - - - -
225K ALA* 4.1 11.4 - - + -
226K ARG* 3.1 24.1 + - - +
42L ALA* 5.6 3.2 - - - +
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Residues in contact with LEU 223 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431J BGL 4.8 3.8 - - - +
13K PHE* 4.4 19.3 - - + +
18K GLY 5.1 0.9 - - - +
19K THR* 6.4 0.2 - - - -
20K PHE* 3.7 30.5 - - + -
216K MET* 4.4 19.5 - - + -
220K GLU* 3.0 20.2 + - + +
221K PRO 3.1 2.8 + - - -
222K LYS* 1.3 74.0 - - - +
224K MET* 1.3 72.2 + - + +
226K ARG* 3.0 39.5 + - - +
227K LYS* 3.0 48.6 + - + +
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Residues in contact with MET 224 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18K GLY 4.7 2.0 - - - +
19K THR* 3.4 40.4 - - + -
20K PHE* 3.8 29.8 - - + +
54K GLY* 3.9 33.6 + - - +
221K PRO 4.8 1.6 + - - +
222K LYS 3.6 0.2 - - - -
223K LEU* 1.3 80.0 - - + +
225K ALA* 1.3 68.3 + - - +
227K LYS* 3.1 7.5 + - - +
228K GLN* 2.9 43.2 + - + +
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Residues in contact with ALA 225 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91J PHE* 3.9 22.4 - - + -
222K LYS* 3.8 17.8 - - + +
223K LEU 3.2 0.2 - - - -
224K MET* 1.3 78.4 - - - +
226K ARG* 1.3 65.0 + - - +
228K GLN* 3.2 9.9 + - - +
229K ALA* 2.9 23.6 + - - +
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Residues in contact with ARG 226 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91J PHE* 3.5 15.4 - - + -
92J MET* 3.5 22.7 - - + +
95J TYR* 3.4 27.7 - - - -
267J VAL 4.1 4.9 - - - +
268J GLY* 3.2 25.9 + - - +
269J PHE 4.1 8.3 + - - -
271J PRO* 3.8 19.9 - - - +
272J ASN* 5.1 0.8 - - - +
431J BGL 4.8 4.8 + - - -
220K GLU* 2.3 40.4 + - - +
222K LYS 3.1 11.5 + - - +
223K LEU* 3.0 36.6 + - - +
225K ALA* 1.3 79.6 - - - +
227K LYS* 1.3 65.2 + - - +
229K ALA* 3.1 6.1 - - - +
230K GLY* 2.9 22.5 + - - -
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Residues in contact with LYS 227 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268J GLY 4.5 10.5 - - - +
269J PHE* 4.1 12.5 - - + -
431J BGL 3.4 28.8 + - - -
13K PHE 2.8 23.6 + - - -
15K GLY 2.5 27.4 + - - -
16K PRO* 3.8 20.0 - - - +
18K GLY 3.6 14.8 + - - +
223K LEU* 3.0 35.2 + - + +
224K MET* 3.1 9.6 + - - +
226K ARG* 1.3 76.0 - - - +
228K GLN* 1.3 59.4 + - + +
230K GLY* 2.6 26.4 + - - +
231K PHE* 3.1 14.8 + - + -
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Residues in contact with GLN 228 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19K THR* 6.0 0.5 - - - +
224K MET* 2.9 39.4 + - + +
225K ALA* 3.7 7.9 - - - +
227K LYS* 1.3 70.6 - - + +
229K ALA* 1.3 67.3 + - - +
230K GLY 3.0 0.7 + - - -
231K PHE* 3.4 14.8 + - + +
232K THR* 3.0 25.1 + - - -
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Residues in contact with ALA 229 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91J PHE* 5.1 3.6 - - + -
92J MET* 4.3 20.6 - - + -
225K ALA 2.9 13.8 + - - +
226K ARG* 3.1 15.0 - - - +
228K GLN* 1.3 74.1 - - - +
230K GLY* 1.3 66.8 + - - +
232K THR* 3.3 7.7 - - - -
233K ALA* 3.0 21.2 + - - +
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Residues in contact with GLY 230 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264J PHE 5.4 1.8 - - - -
268J GLY* 4.4 15.0 - - - -
269J PHE* 4.2 9.6 - - - -
226K ARG 2.9 10.3 + - - -
227K LYS 2.6 17.1 + - - -
229K ALA* 1.3 66.0 - - - +
231K PHE* 1.3 68.8 + - - +
233K ALA* 2.8 18.3 + - - +
234K VAL* 3.0 17.6 + - - +
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Residues in contact with PHE 231 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269J PHE* 3.8 19.7 - + - -
16K PRO* 3.1 32.5 - - + -
17K PHE* 3.3 40.4 - + - -
227K LYS* 3.1 22.6 + - + -
228K GLN* 4.0 14.1 - - + +
230K GLY* 1.3 66.6 - - - +
232K THR* 1.3 66.6 + - - +
234K VAL* 2.9 11.0 + - + +
235K MET* 2.7 43.5 + - + +
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Residues in contact with THR 232 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228K GLN 3.0 12.3 + - - -
229K ALA* 3.3 12.6 - - - -
230K GLY 2.9 0.4 + - - -
231K PHE* 1.3 80.5 - - - +
233K ALA* 1.3 66.9 + - - +
235K MET* 2.8 16.4 + - - +
236K PHE* 3.0 40.6 + - + -
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Residues in contact with ALA 233 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264J PHE* 3.7 39.0 - - + -
229K ALA 3.0 8.6 + - - +
230K GLY* 2.8 13.4 + - - +
232K THR* 1.3 76.4 - - - +
234K VAL* 1.3 62.8 + - - +
236K PHE* 3.6 10.4 + - - +
237K LEU* 3.0 34.5 + - + +
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Residues in contact with VAL 234 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261J LEU* 3.6 20.6 - - + +
264J PHE* 5.3 0.9 - - - -
265J ALA* 4.6 19.1 - - + +
269J PHE* 4.0 19.1 - - + -
230K GLY* 3.3 18.2 - - - +
231K PHE* 2.9 7.6 + - + +
233K ALA* 1.3 78.1 - - + +
235K MET* 1.3 69.4 + - + +
237K LEU* 3.2 1.3 + - - +
238K THR* 2.5 51.7 + - - +
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Residues in contact with MET 235 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231K PHE* 2.7 47.7 + - + +
232K THR* 2.8 9.8 + - - +
234K VAL* 1.3 87.4 - - + +
236K PHE* 1.3 71.4 + - + +
238K THR* 3.7 6.6 - - - +
239K VAL* 2.9 28.6 + - + +
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Residues in contact with PHE 236 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232K THR* 3.0 39.0 + - + -
233K ALA* 3.7 9.9 - - - +
235K MET* 1.3 78.7 - - + +
237K LEU* 1.3 58.3 + - + +
239K VAL* 3.3 5.6 - - - +
240K LEU* 2.7 39.6 + - + +
22L ALA* 5.7 1.9 - - + +
25L VAL* 3.7 33.0 - - + -
26L ALA* 5.0 17.0 - - + -
29L ALA* 4.1 25.8 - - + -
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Residues in contact with LEU 237 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257J ALA* 4.1 22.2 - - + +
260J LEU* 4.1 19.5 - - + +
261J LEU* 4.1 17.9 - - + -
264J PHE* 3.6 34.3 - - + -
233K ALA* 3.0 24.8 + - - +
234K VAL 3.6 2.0 - - - +
235K MET 3.1 0.2 - - - -
236K PHE* 1.3 81.3 - - + +
238K THR* 1.3 55.2 + - - +
240K LEU* 4.0 19.5 - - + -
241K SER* 2.5 43.1 + - - +
26L ALA* 6.1 2.5 - - + -
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Residues in contact with THR 238 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261J LEU* 3.6 17.2 - - + +
234K VAL* 2.5 45.9 + - - +
235K MET* 3.7 8.8 - - - +
237K LEU* 1.3 72.8 - - - +
239K VAL* 1.3 64.4 + - + +
241K SER* 3.3 6.1 - - - -
242K VAL* 3.1 32.1 + - + +
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Residues in contact with VAL 239 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235K MET* 2.9 18.1 + - + +
236K PHE* 3.3 8.3 - - - +
238K THR* 1.3 74.8 - - + +
240K LEU* 1.3 60.7 + - - +
241K SER 2.8 3.4 - - - -
242K VAL* 2.7 31.3 + - + +
243K LEU* 2.9 30.2 + - + +
22L ALA* 5.2 5.2 - - + -
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Residues in contact with LEU 240 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257J ALA* 4.8 4.3 - - + -
236K PHE* 2.7 22.8 + - + +
237K LEU* 3.7 22.2 - - + +
239K VAL* 1.3 76.5 - - - +
241K SER* 1.3 56.5 + - - +
243K LEU* 3.8 8.5 - - + +
244K LEU* 2.9 59.8 + - + +
19L THR* 4.5 6.3 - - + +
22L ALA* 3.8 24.9 - - + +
23L GLY* 4.0 15.9 - - - +
26L ALA* 4.4 21.8 - - + -
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Residues in contact with SER 241 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254J PHE* 3.9 5.4 - - - -
257J ALA* 3.9 21.3 - - - +
258J VAL* 4.1 17.2 + - - -
261J LEU* 4.1 10.6 - - - +
237K LEU 2.5 30.9 + - - -
238K THR* 3.3 9.0 - - - -
239K VAL 2.7 2.6 + - - -
240K LEU* 1.3 69.3 - - - +
242K VAL* 1.3 56.4 + - - -
244K LEU* 3.2 6.0 + - - +
245K TYR* 2.6 38.2 + - - +
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Residues in contact with VAL 242 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238K THR* 3.1 23.6 - - + +
239K VAL* 2.7 14.0 + - + +
241K SER* 1.3 72.5 - - - +
243K LEU* 1.3 66.2 + - + +
245K TYR* 3.1 10.6 + - + +
246K LEU* 3.0 44.3 + - + +
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Residues in contact with LEU 243 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239K VAL* 2.9 27.2 + - + +
240K LEU* 3.8 8.1 - - + +
242K VAL* 1.3 79.1 - - + +
244K LEU* 1.3 59.3 + - - +
246K LEU* 3.0 13.5 + - + +
247K THR* 2.7 31.6 + - - -
14L PHE* 6.4 0.7 - - + -
15L LEU* 4.2 19.8 - - + +
18L ALA* 3.7 34.3 - - + +
19L THR* 3.4 16.4 - - - +
22L ALA* 4.1 17.0 - - + -
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Residues in contact with LEU 244 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250J ILE* 4.7 9.7 - - + +
253J VAL* 3.5 39.3 - - + +
254J PHE* 4.1 19.4 - - + +
257J ALA* 3.9 15.9 - - + -
240K LEU* 2.9 55.3 + - + +
241K SER 3.6 2.9 - - - +
243K LEU* 1.3 73.7 - - - +
245K TYR* 1.3 58.0 - - - +
247K THR* 3.4 10.1 - - + +
248K ASN* 2.8 30.3 + - - +
19L THR* 4.5 16.8 - - + -
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Residues in contact with TYR 245 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254J PHE* 3.8 35.2 - + + -
241K SER 2.6 17.4 + - - +
242K VAL* 3.2 14.4 - - + +
243K LEU 3.0 0.2 + - - -
244K LEU* 1.3 73.1 - - - +
246K LEU* 1.3 69.2 + - + +
248K ASN* 3.1 6.4 + - + +
249K LYS* 2.7 81.5 + - + +
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Residues in contact with LEU 246 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242K VAL* 3.0 29.6 - - + +
243K LEU* 3.4 10.5 - - + +
245K TYR* 1.3 92.8 - - + +
247K THR* 1.3 69.8 + - - +
248K ASN 3.0 0.5 + - - -
249K LYS* 3.0 9.9 + - + +
250K ARG* 2.8 26.5 + - - +
15L LEU* 3.8 30.3 - - + -
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Residues in contact with THR 247 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250J ILE* 4.1 22.9 - - + -
243K LEU 2.7 14.9 + - - -
244K LEU* 3.4 12.3 - - + -
246K LEU* 1.3 75.0 - - - +
248K ASN* 1.3 63.0 + - - +
250K ARG* 3.7 3.5 - - - +
251K LEU* 3.1 23.2 + - - +
15L LEU* 3.6 15.4 - - - +
16L TYR* 4.3 27.6 + - + -
19L THR* 2.9 30.4 + - + +
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Residues in contact with ASN 248 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43J TRP* 4.5 7.3 - - - -
250J ILE* 3.2 25.8 - - + +
251J LYS* 3.3 24.8 + - - +
254J PHE* 4.3 15.3 - - + -
244K LEU 2.8 14.9 + - - +
245K TYR* 3.2 13.7 + - - +
247K THR* 1.3 73.2 - - - +
249K LYS* 1.3 70.4 + - - +
251K LEU* 2.8 15.9 + - - +
252K TRP* 2.9 40.5 + - - +
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Residues in contact with LYS 249 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245K TYR* 2.7 57.1 + - + +
246K LEU* 3.4 13.7 - - + +
248K ASN* 1.3 75.4 - - - +
250K ARG* 1.3 52.9 + - - +
252K TRP* 3.5 3.7 + - - +
253K ALA* 2.8 39.4 + - + +
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Residues in contact with ARG 250 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246K LEU 2.8 20.1 + - - +
247K THR* 3.7 4.9 - - - +
249K LYS* 1.3 74.7 - - - +
251K LEU* 1.3 64.8 + - - +
253K ALA* 3.3 19.0 + - + +
254K GLY* 3.6 4.5 + - - -
9L GLY 5.6 1.2 - - - +
11L ARG* 4.5 14.6 - - - +
12L ARG* 2.7 66.0 - - - +
15L LEU* 4.4 10.2 - - + +
16L TYR* 4.1 16.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 251 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246J PRO* 3.5 37.7 - - + +
247J TYR* 3.4 38.8 + - + +
250J ILE* 3.4 31.6 - - + -
247K THR 3.1 15.2 + - - +
248K ASN* 2.8 10.1 + - - +
250K ARG* 1.3 76.8 - - - +
252K TRP* 1.3 61.9 + - + +
254K GLY* 3.4 10.0 + - - -
16L TYR* 4.4 16.3 + - + +
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Residues in contact with TRP 252 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39J ARG* 4.2 15.0 - - - -
242J VAL* 4.1 20.2 - - + -
247J TYR* 3.0 45.1 + + + -
248J PHE* 3.6 42.8 - + - -
251J LYS* 3.9 15.5 - - + +
428J PHE* 5.0 12.3 - + - -
248K ASN* 2.9 45.1 + - - +
249K LYS* 4.1 3.4 - - - +
251K LEU* 1.3 76.5 - - + +
253K ALA* 1.3 65.0 + - - +
254K GLY 2.8 7.0 + - - -
255K VAL* 2.8 27.8 + - + +
256K LYS* 3.2 15.1 + - + +
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Residues in contact with ALA 253 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249K LYS* 2.8 28.2 + - + +
250K ARG* 3.3 10.9 + - - +
252K TRP* 1.3 72.2 - - - +
254K GLY* 1.3 56.4 + - - +
255K VAL 3.1 5.0 + - - -
256K LYS 3.8 18.7 + - - -
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Residues in contact with GLY 254 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247J TYR* 5.0 2.4 + - - -
250K ARG 3.6 4.1 + - - -
251K LEU 3.4 9.2 + - - -
252K TRP 2.8 2.8 + - - -
253K ALA* 1.3 77.0 - - - +
255K VAL* 1.3 64.2 + - - +
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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).
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