Contacts of the helix formed by residues 281 - 323 (chain A) in PDB entry 4BEJ
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 GLY 281 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A ILE* 4.4 0.5 - - - +
243A GLY 2.7 16.4 + - - +
244A VAL* 3.6 6.9 - - - +
265A GLU* 3.7 16.8 - - - -
269A LEU* 3.8 8.7 - - - +
280A ASN* 1.3 76.1 - - - +
282A THR* 1.3 65.2 + - - -
283A LYS* 3.4 3.4 - - - -
284A TYR 3.4 1.8 + - - -
285A LEU* 3.0 22.9 + - - +
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Residues in contact with THR 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A SER* 3.0 49.6 + - - +
45A LEU* 4.6 8.5 - - + +
244A VAL* 4.2 8.3 - - - +
245A VAL 4.9 0.3 + - - -
246A ASN* 4.0 6.8 + - - -
262A ILE* 4.1 14.9 - - + +
265A GLU* 2.7 28.8 + - - -
281A GLY* 1.3 68.5 - - - -
283A LYS* 1.3 66.5 + - - +
285A LEU* 3.2 5.6 + - + +
286A ALA* 3.0 24.8 + - + +
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Residues in contact with LYS 283 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A ILE* 6.0 1.3 - - + +
265A GLU* 4.6 0.4 + - - -
266A TYR* 6.3 4.0 - - + -
281A GLY* 3.4 1.1 - - - -
282A THR* 1.3 80.0 - - - +
284A TYR* 1.3 62.3 + - - +
286A ALA* 3.5 7.2 + - - +
287A ARG* 3.3 49.0 + - - +
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Residues in contact with TYR 284 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242A ILE* 3.3 32.7 - - + +
277A ALA 5.4 0.2 - - - +
278A ASN 3.6 22.0 - - - +
279A ARG* 3.4 34.1 - - + +
280A ASN* 3.4 21.5 + - - +
281A GLY 3.4 2.5 + - - +
282A THR 3.3 0.4 - - - -
283A LYS* 1.3 79.3 - - - +
285A LEU* 1.3 55.2 + - - +
287A ARG* 3.1 41.9 + - + +
288A THR* 2.8 47.7 + - - +
291A ARG* 5.0 7.7 + - - -
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Residues in contact with LEU 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41A VAL* 4.4 22.7 - - + -
45A LEU* 4.8 8.3 - - + -
182A LEU* 5.2 1.1 - - + -
211A LEU* 5.1 1.3 - - + -
213A VAL* 4.4 20.0 - - + -
242A ILE* 3.8 31.4 - - + -
244A VAL* 4.1 18.6 - - + -
281A GLY 3.0 16.8 + - - +
282A THR* 3.2 7.6 + - + +
284A TYR* 1.3 75.5 - - - +
286A ALA* 1.3 65.5 + - - +
288A THR* 3.2 5.7 + - - -
289A LEU* 3.0 52.5 + - + +
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Residues in contact with ALA 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 4.0 24.5 - - + +
140A VAL* 3.6 31.7 - - + +
142A LEU* 5.0 0.2 - - - -
282A THR* 3.0 17.2 + - + +
283A LYS* 3.8 7.0 - - - +
285A LEU* 1.3 76.8 - - - +
287A ARG* 1.3 61.5 + - - +
289A LEU* 4.1 3.4 - - - +
290A ASN* 3.2 25.5 + - - +
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Residues in contact with ARG 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A VAL* 5.2 5.1 - - + +
278A ASN 5.0 1.4 + - - -
283A LYS* 3.3 39.3 + - - +
284A TYR* 3.1 52.9 + - - +
286A ALA* 1.3 80.9 - - - +
288A THR* 1.3 62.7 + - - +
290A ASN* 3.9 8.1 + - - +
291A ARG* 3.2 27.4 + - + +
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Residues in contact with THR 288 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211A LEU* 4.6 17.7 - - + -
239A LEU 6.0 1.1 - - - +
242A ILE* 4.4 16.8 - - + -
284A TYR* 2.8 41.5 + - + +
285A LEU* 3.2 8.5 + - - -
287A ARG* 1.3 74.7 - - - +
289A LEU* 1.3 61.0 + - - +
291A ARG* 3.4 28.2 + - - +
292A LEU* 2.9 37.5 + - + +
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Residues in contact with LEU 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A ILE* 4.3 16.0 - - + +
45A LEU* 4.4 14.8 - - + -
142A LEU* 3.7 32.5 - - + -
144A LEU* 4.3 13.0 - - + -
182A LEU* 3.9 31.9 - - + -
211A LEU* 4.1 17.3 - - + -
285A LEU* 3.0 38.7 + - + +
286A ALA 4.1 2.7 - - - +
288A THR* 1.3 75.2 - - - +
290A ASN* 1.3 58.6 + - - +
292A LEU* 4.2 3.1 - - - +
293A LEU* 2.9 33.6 + - - +
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Residues in contact with ASN 290 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ILE* 3.5 5.2 - - - +
140A VAL* 4.3 15.4 - - + +
141A ASN* 3.1 30.9 - - - +
142A LEU* 4.5 4.2 - - - +
286A ALA 3.2 16.9 + - - +
287A ARG* 3.9 7.9 + - - +
288A THR 3.3 0.2 - - - -
289A LEU* 1.3 78.6 - - - +
291A ARG* 1.3 63.8 + - - +
293A LEU* 4.0 3.2 - - - +
294A MET* 3.2 45.5 + - - +
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Residues in contact with ARG 291 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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284A TYR* 5.0 7.3 + - - -
287A ARG* 3.2 18.0 + - + +
288A THR* 3.7 29.8 + - - +
290A ASN* 1.3 82.1 - - - +
292A LEU* 1.3 77.4 + - - +
294A MET* 3.4 6.0 + - - +
295A HIS* 3.0 58.7 + - + +
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Residues in contact with LEU 292 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A ILE* 4.8 6.7 - - + -
180A ILE* 3.5 44.2 - - + -
211A LEU* 4.0 27.4 - - + -
239A LEU* 4.2 29.6 - - + +
288A THR* 2.9 24.8 + - + +
289A LEU* 4.2 2.2 - - - +
291A ARG* 1.3 90.6 - - - +
293A LEU* 1.3 63.2 + - - +
295A HIS* 4.4 2.9 - - - +
296A HIS* 3.2 24.1 + - - +
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Residues in contact with LEU 293 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ILE* 4.4 18.2 - - + -
8A ILE* 6.3 0.2 - - + -
26A PRO 4.5 0.9 - - - +
27A GLN* 4.2 19.7 - - - +
28A ILE* 4.0 24.9 - - + -
142A LEU* 4.3 8.1 - - + -
143A THR* 3.8 38.1 - - - +
180A ILE* 4.8 4.7 - - + -
289A LEU 2.9 19.3 + - - +
290A ASN* 4.0 3.1 - - - +
292A LEU* 1.3 79.7 - - - +
294A MET* 1.3 62.6 + - - +
296A HIS* 3.3 7.0 + - + +
297A ILE* 3.0 48.7 + - + +
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Residues in contact with MET 294 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1A MET 3.8 36.6 - - - +
2A GLU* 4.8 4.9 - - - -
4A LEU* 4.0 6.9 - - + +
5A ILE* 3.7 23.1 - - + +
141A ASN* 6.2 0.2 - - + -
290A ASN* 3.2 41.9 + - - +
291A ARG* 3.4 5.8 + - - +
293A LEU* 1.3 79.7 - - - +
295A HIS* 1.3 66.3 + - + +
297A ILE* 3.3 13.6 + - - +
298A ARG* 3.4 27.0 + - - +
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Residues in contact with HIS 295 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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291A ARG* 3.0 52.4 + - + +
292A LEU* 4.5 3.6 - - - +
294A MET* 1.3 81.8 - - + +
296A HIS* 1.3 62.5 + - - +
298A ARG* 3.0 50.5 + - + +
299A ASP* 3.3 16.2 - - - +
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Residues in contact with HIS 296 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A PRO* 4.3 7.9 - - + -
27A GLN 4.9 2.7 - - - -
177A PRO 5.5 0.7 - - - -
178A ASN* 2.9 38.2 + - - -
180A ILE* 3.5 30.9 - - + +
292A LEU 3.2 19.2 + - - +
293A LEU* 3.3 8.3 + - + +
294A MET 3.2 0.8 - - - -
295A HIS* 1.3 80.2 - - - +
297A ILE* 1.3 60.2 + - - +
299A ASP* 3.4 7.8 - - - +
300A CYS* 2.9 43.1 + - + -
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Residues in contact with ILE 297 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A LEU* 3.9 28.7 - - + +
5A ILE* 4.2 15.0 - - + -
8A ILE* 3.6 41.1 - - + -
26A PRO* 3.9 20.0 - - + +
293A LEU* 3.0 40.9 + - + +
294A MET* 3.3 5.3 + - - +
296A HIS* 1.3 71.8 - - + +
298A ARG* 1.3 57.2 + - - +
299A ASP 3.1 1.8 - - - -
300A CYS* 3.1 7.8 + - - -
301A LEU* 2.7 42.1 + - + +
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Residues in contact with ARG 298 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1A MET* 2.8 46.3 + - - +
4A LEU* 3.3 24.9 - - + +
294A MET* 3.4 15.6 + - - +
295A HIS* 3.0 54.2 + - - +
297A ILE* 1.3 78.6 - - - +
299A ASP* 1.3 63.4 + - + +
301A LEU* 3.7 7.6 - - - +
302A PRO* 3.1 26.0 - - - +
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Residues in contact with ASP 299 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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295A HIS* 3.3 18.3 - - - +
296A HIS* 3.4 9.7 - - - +
298A ARG* 1.3 86.4 - - - +
300A CYS* 1.3 58.6 + - + +
302A PRO* 3.7 10.1 - - - +
303A GLU* 5.0 3.6 - - - +
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Residues in contact with CYS 300 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A PRO* 3.3 41.1 - - + -
178A ASN* 3.4 25.8 - - - +
296A HIS* 2.9 37.8 + - + +
297A ILE* 3.1 7.5 + - - -
299A ASP* 1.3 76.8 - - + +
301A LEU* 1.3 61.7 + - - +
302A PRO* 3.5 1.8 - - - -
303A GLU* 3.0 31.3 - - - +
304A LEU* 3.1 9.0 + - - +
307A ARG* 5.2 0.3 + - - -
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Residues in contact with LEU 301 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A LEU* 3.5 28.7 - - + -
7A VAL* 5.5 3.4 - - + -
8A ILE* 5.0 3.8 - - + -
297A ILE* 2.7 27.0 + - + +
298A ARG* 3.7 4.9 - - - +
300A CYS* 1.3 71.6 - - - +
302A PRO* 1.3 73.7 - - + +
304A LEU* 3.1 17.9 + - + +
305A LYS* 3.0 22.9 + - + +
701A ILE* 3.7 33.2 - - + -
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Residues in contact with PRO 302 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298A ARG 3.1 19.7 - - - +
299A ASP 3.7 8.3 - - - +
300A CYS 3.6 4.3 - - - -
301A LEU* 1.3 91.8 - - + +
303A GLU* 1.3 60.6 + - - +
305A LYS* 3.3 7.2 + - + +
306A THR* 3.3 19.1 + - - -
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Residues in contact with GLU 303 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A ASN* 3.6 15.0 + - - +
299A ASP 5.0 2.4 - - - +
300A CYS* 3.0 31.9 - - + +
302A PRO* 1.3 77.0 - - - +
304A LEU* 1.3 54.3 + - - +
306A THR* 3.3 12.0 + - + +
307A ARG* 2.7 60.6 + - - +
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Residues in contact with LEU 304 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ILE* 4.4 1.1 - - + -
11A LEU* 3.8 26.9 - - + -
23A ILE* 3.9 19.3 - - + +
24A GLN 4.7 2.7 - - - +
25A LEU* 4.0 3.6 - - + -
26A PRO* 3.9 25.6 - - + -
300A CYS 3.1 14.9 + - - +
301A LEU* 3.1 26.0 + - + +
303A GLU* 1.3 74.5 - - - +
305A LYS* 1.3 65.2 + - - +
307A ARG* 3.4 25.5 - - + +
308A ILE* 2.9 42.8 + - + +
701A ILE* 4.6 1.3 - - + -
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Residues in contact with LYS 305 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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301A LEU* 3.0 12.9 + - + +
302A PRO* 3.5 11.0 - - + +
304A LEU* 1.3 76.7 - - - +
306A THR* 1.3 65.5 + - - +
308A ILE* 3.4 5.9 + - + +
309A ASN* 2.4 66.6 + - - +
698A SER* 4.6 12.5 + - - +
701A ILE* 3.5 37.4 - - + +
702A ALA* 5.5 4.3 - - - +
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Residues in contact with THR 306 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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302A PRO 3.3 9.1 + - - -
303A GLU* 3.5 15.0 - - + +
305A LYS* 1.3 80.5 - - - +
307A ARG* 1.3 66.4 + - + +
309A ASN* 3.6 7.1 + - - +
310A VAL* 3.4 30.5 + - + +
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Residues in contact with ARG 307 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A ILE 5.0 2.2 - - - -
23A ILE* 3.2 26.1 + - - +
24A GLN* 3.5 33.9 + - - +
178A ASN* 3.7 11.9 + - - -
303A GLU* 2.7 56.2 + - - +
304A LEU* 3.2 42.4 + - + +
306A THR* 1.3 79.1 - - + +
308A ILE* 1.3 60.8 + - + +
310A VAL* 3.5 4.9 + - - +
311A LEU* 3.1 44.5 + - + +
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Residues in contact with ILE 308 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A LEU* 4.3 13.0 - - + -
15A PHE* 5.2 0.9 - - + -
23A ILE* 4.2 16.6 - - + -
304A LEU* 2.9 44.7 + - + +
305A LYS* 3.4 5.6 + - + +
307A ARG* 1.3 73.7 - - + +
309A ASN* 1.3 62.2 + - - +
311A LEU* 3.4 4.0 + - - +
312A ALA* 3.0 27.6 + - + +
694A LEU* 3.7 39.7 - - + +
697A ALA* 4.3 20.2 - - + -
698A SER* 4.4 12.3 - - - +
701A ILE* 4.4 11.4 - - + -
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Residues in contact with ASN 309 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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305A LYS* 2.4 49.4 + - - +
306A THR* 3.7 7.8 - - - +
308A ILE* 1.3 79.5 - - - +
310A VAL* 1.3 63.5 + - + +
312A ALA* 3.3 7.4 + - - +
313A ALA* 3.0 23.7 + - - +
698A SER* 3.8 20.6 + - - -
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Residues in contact with VAL 310 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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306A THR* 3.4 20.7 + - + +
307A ARG* 3.8 8.3 - - - +
308A ILE 3.3 0.6 - - - -
309A ASN* 1.3 78.3 - - + +
311A LEU* 1.3 67.0 + - + +
313A ALA* 3.2 7.0 + - - +
314A GLN* 2.8 35.8 + - + +
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Residues in contact with LEU 311 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A ILE* 3.8 41.5 - - + +
23A ILE* 4.3 9.4 - - + -
307A ARG* 3.1 39.1 + - + +
308A ILE* 3.9 4.3 - - - +
309A ASN 3.4 0.2 - - - -
310A VAL* 1.3 87.7 - - + +
312A ALA* 1.3 54.7 + - - +
314A GLN* 4.0 18.8 - - - +
315A TYR* 2.7 43.2 + - + +
694A LEU* 3.8 24.7 - - + -
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Residues in contact with ALA 312 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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308A ILE* 3.0 19.3 + - + +
309A ASN* 3.5 10.1 - - - +
311A LEU* 1.3 77.2 - - - +
313A ALA* 1.3 63.2 + - - +
316A GLN* 3.0 21.4 + - - +
691A LEU* 3.2 15.8 - - + +
694A LEU* 3.8 30.2 - - + +
695A GLN* 5.0 6.1 - - + +
698A SER* 6.2 1.3 - - - -
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Residues in contact with ALA 313 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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309A ASN 3.0 10.4 + - - +
310A VAL* 3.6 9.0 - - - +
312A ALA* 1.3 78.3 - - - +
314A GLN* 1.3 62.5 + - - +
316A GLN* 3.5 7.6 + - - +
317A SER* 3.3 20.8 + - - -
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Residues in contact with GLN 314 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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310A VAL* 2.8 23.0 + - + +
311A LEU* 3.5 24.1 + - - +
312A ALA 3.2 0.2 - - - -
313A ALA* 1.3 77.0 - - - +
315A TYR* 1.3 67.0 + - + +
317A SER* 2.6 26.1 + - - +
318A LEU* 3.3 8.8 + - + +
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Residues in contact with TYR 315 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ILE* 4.4 29.8 - - + +
311A LEU* 2.7 31.8 + - + +
312A ALA 3.9 2.7 - - - +
314A GLN* 1.3 78.2 - - + +
316A GLN* 1.3 60.5 + - - +
318A LEU* 3.0 25.2 + - + +
319A LEU* 2.9 28.8 + - - +
686A GLU 4.9 0.9 - - - -
687A ALA* 4.1 20.6 - - + +
690A MET* 3.4 37.8 - - + +
691A LEU* 4.0 15.1 - - + +
694A LEU* 3.7 16.8 - - + -
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Residues in contact with GLN 316 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A ALA 3.0 18.1 + - - +
313A ALA* 3.6 9.0 - - - +
314A GLN 3.3 0.2 - - - -
315A TYR* 1.3 76.9 - - - +
317A SER* 1.3 57.3 + - - +
319A LEU* 3.2 19.2 + - - +
320A ASN* 2.9 62.3 + - - +
691A LEU* 3.4 26.0 - - + +
695A GLN* 3.7 10.7 + - - -
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Residues in contact with SER 317 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A ALA 3.3 9.0 + - - -
314A GLN* 2.6 23.8 + - - +
316A GLN* 1.3 79.2 - - - +
318A LEU* 1.3 52.7 + - - +
320A ASN* 3.0 15.0 + - - +
321A SER* 2.7 34.7 + - - -
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Residues in contact with LEU 318 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A GLN* 3.3 9.4 + - + +
315A TYR* 3.0 36.5 + - + +
317A SER* 1.3 83.5 + - - +
319A LEU* 1.3 61.4 + - - +
321A SER* 3.1 19.0 + - - +
322A TYR* 3.1 44.6 + - + +
687A ALA* 4.6 5.8 - - + -
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Residues in contact with LEU 319 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A TYR 2.9 11.9 + - - +
316A GLN* 3.4 29.8 - - - +
318A LEU* 1.3 75.6 - - - +
320A ASN* 1.3 56.4 + - - +
322A TYR* 3.3 15.5 + - - +
323A GLY* 2.6 33.7 + - - -
684A ARG* 5.2 9.5 - - + +
687A ALA* 4.8 6.7 - - + +
688A ALA* 3.7 37.2 - - + +
691A LEU* 3.9 15.9 - - + -
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Residues in contact with ASN 320 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A GLN* 2.9 52.8 + - - +
317A SER* 3.2 16.1 - - - +
319A LEU* 1.3 81.9 - - - +
321A SER* 1.3 56.6 + - - +
323A GLY* 2.9 21.1 + - - +
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Residues in contact with SER 321 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A SER 2.7 16.7 + - - -
318A LEU* 3.1 16.8 + - - +
320A ASN* 1.3 75.1 - - - +
322A TYR* 1.3 60.7 + - - +
456A ARG* 3.2 26.7 + - - -
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Residues in contact with TYR 322 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A LEU* 3.1 42.7 + - + +
319A LEU* 3.6 9.9 - - - +
320A ASN 3.8 0.2 - - - -
321A SER* 1.3 82.2 - - - +
323A GLY* 1.3 64.3 + - - +
324A GLU* 3.3 11.4 + - - +
456A ARG* 3.2 25.9 + - - +
680A MET* 5.2 4.5 - - + -
683A ARG* 3.5 50.1 + - + +
684A ARG* 3.7 35.9 + - + +
687A ALA* 4.0 21.3 - - + -
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Residues in contact with GLY 323 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A LEU* 2.6 22.2 + - - -
320A ASN* 2.9 20.0 + - - -
322A TYR* 1.3 72.1 - - - +
324A GLU* 1.3 74.6 + - - +
325A PRO* 4.2 4.8 - - - +
684A ARG* 5.6 0.2 - - - -
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il