Contacts of the helix formed by residues 310 - 342 (chain B) in PDB entry 4F5G
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 ASN 310 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306B THR* 3.5 15.5 + - + +
307B ILE 3.0 4.8 + - - +
308B LEU 3.2 0.6 - - - -
309B SER* 1.3 81.3 - - - +
311B ASP* 1.3 59.5 + - - +
312B ALA* 3.3 11.3 + - - +
313B LEU* 2.9 38.4 + - + +
314B ARG* 2.8 32.2 + - - +
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Residues in contact with ASP 311 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B SER 4.3 0.4 - - - -
310B ASN* 1.3 73.4 - - - +
312B ALA* 1.3 58.0 + - - +
314B ARG* 2.8 36.3 + - - +
315B ALA* 3.0 28.8 + - - +
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Residues in contact with ALA 312 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B ASN* 3.3 10.3 + - - +
311B ASP* 1.3 76.2 - - - +
313B LEU* 1.3 67.1 + - + +
315B ALA* 3.3 7.1 + - - +
316B ILE* 3.1 29.7 + - + +
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Residues in contact with LEU 313 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B SER* 4.0 13.3 - - - +
61B LYS* 3.6 38.6 - - + -
62B ALA* 4.3 10.3 - - - +
65B TYR* 5.9 1.3 - - + -
306B THR* 3.9 31.6 - - + +
307B ILE* 3.7 26.4 - - + +
310B ASN* 2.9 22.2 + - + +
312B ALA* 1.3 75.6 - - + +
314B ARG* 1.3 65.3 + - - +
316B ILE* 3.1 9.6 + - + +
317B TRP* 2.9 22.9 + - - +
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Residues in contact with ARG 314 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B ILE* 3.3 16.3 + - - +
308B LEU* 2.8 55.1 + - + -
309B SER* 4.7 1.4 - - - +
310B ASN 2.8 20.1 + - - +
311B ASP* 2.8 37.4 + - - +
313B LEU* 1.3 78.4 - - - +
315B ALA* 1.3 57.1 + - - +
317B TRP* 3.2 3.0 + - + +
318B GLU* 2.8 56.9 + - + +
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Residues in contact with ALA 315 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311B ASP 3.0 17.8 + - - +
312B ALA* 3.6 7.6 - - - +
313B LEU 3.2 0.2 - - - -
314B ARG* 1.3 77.7 - - - +
316B ILE* 1.3 61.3 + - + +
318B GLU* 3.4 8.0 + - - +
319B GLN* 3.1 23.0 + - - +
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Residues in contact with ILE 316 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B THR* 4.8 6.3 - - + -
58B SER* 3.9 11.4 - - - +
61B LYS* 4.0 30.3 - - + -
312B ALA* 3.1 16.4 + - + +
313B LEU* 3.1 14.2 + - + +
315B ALA* 1.3 76.0 - - + +
317B TRP* 1.3 59.2 + - - +
319B GLN* 3.3 6.7 + - - +
320B GLU* 3.0 49.0 + - + +
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Residues in contact with TRP 317 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B LEU* 4.0 10.1 - - + -
58B SER* 3.5 16.6 - - - +
91B LEU* 4.6 9.6 - - + -
231B LEU* 3.7 28.7 - - + -
257B ASN* 2.7 30.5 + - + -
258B PHE* 3.3 48.5 - + - -
307B ILE* 3.6 14.8 - - + -
308B LEU* 3.6 27.6 - - + -
313B LEU 2.9 6.2 + - - +
314B ARG* 3.5 8.1 - - + +
316B ILE* 1.3 75.5 - - - +
318B GLU* 1.3 95.6 + - + +
320B GLU* 3.1 10.4 + - - +
321B LEU* 2.9 38.5 + - + +
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Residues in contact with GLU 318 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B LEU* 4.0 22.4 - - + +
314B ARG* 2.8 46.5 + - + +
315B ALA* 4.0 6.7 - - - +
316B ILE 3.4 0.2 - - - -
317B TRP* 1.3 89.6 - - + +
319B GLN* 1.3 58.0 + - - +
321B LEU* 3.3 6.7 + - - +
322B THR* 2.9 32.3 + - - +
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Residues in contact with GLN 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B ALA 3.1 13.8 + - - +
316B ILE* 3.6 9.2 - - - +
317B TRP 3.1 0.2 - - - -
318B GLU* 1.3 73.0 - - - +
320B GLU* 1.3 62.1 + - + +
322B THR* 3.3 18.2 + - - +
323B ASP* 2.8 66.0 + - - +
326B GLN* 5.4 0.6 + - - -
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Residues in contact with GLU 320 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B LEU* 3.4 33.1 - - + +
57B THR* 3.0 13.6 + - - -
58B SER* 2.6 48.0 + - - -
316B ILE* 3.0 27.9 + - + +
317B TRP* 3.3 9.7 - - - +
319B GLN* 1.3 75.6 - - + +
321B LEU* 1.3 64.3 + - - +
323B ASP* 3.2 10.9 + - - +
324B MET* 3.0 28.4 + - - +
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Residues in contact with LEU 321 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225B GLN 3.8 2.5 - - - +
226B GLY* 3.8 23.6 - - - +
227B PHE* 3.9 13.0 - - + -
231B LEU* 3.7 35.4 - - + -
257B ASN* 3.8 24.2 - - + +
317B TRP* 2.9 35.9 + - + +
318B GLU* 3.6 6.5 - - - +
320B GLU* 1.3 74.5 - - - +
322B THR* 1.3 66.1 + - - +
324B MET* 3.2 23.2 + - + +
325B ARG* 2.9 25.2 + - - +
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Residues in contact with THR 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318B GLU* 2.9 20.7 + - - +
319B GLN* 3.6 20.4 - - - +
321B LEU* 1.3 76.9 - - - +
323B ASP* 1.3 56.9 + - - +
325B ARG* 3.0 33.7 + - - +
326B GLN* 2.8 54.5 + - - +
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Residues in contact with ASP 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B TYR* 4.4 1.1 + - - -
319B GLN* 2.8 52.1 + - - +
320B GLU* 3.5 12.4 - - - +
321B LEU 3.2 0.2 - - - -
322B THR* 1.3 74.8 - - - +
324B MET* 1.3 58.3 + - + +
326B GLN* 3.9 7.2 - - - +
327B ARG* 2.9 29.6 + - - +
330B ARG* 5.0 2.3 + - - -
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Residues in contact with MET 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B TYR* 3.5 49.7 - - + +
56B LEU* 4.5 23.3 - - + -
227B PHE* 3.8 24.5 - - + -
256B LLP 3.9 11.4 - - - +
257B ASN 4.0 7.6 - - - +
259B GLY* 5.5 1.1 - - - +
320B GLU 3.0 15.2 + - - +
321B LEU* 3.2 36.3 + - + +
323B ASP* 1.3 74.1 - - + +
325B ARG* 1.3 65.2 + - - +
327B ARG* 3.3 2.4 + - - +
328B ILE* 3.1 30.0 + - - +
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Residues in contact with ARG 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226B GLY* 2.7 41.7 + - - +
227B PHE* 3.7 21.1 - - - +
228B GLY 3.4 17.3 - - - -
229B ARG 3.5 18.4 + - - -
230B GLY* 3.7 16.8 - - - -
231B LEU 4.7 1.4 - - - +
321B LEU* 2.9 10.8 + - - +
322B THR* 3.0 47.5 + - - +
324B MET* 1.3 75.3 - - - +
326B GLN* 1.3 66.0 + - - +
328B ILE* 3.3 9.3 + - - +
329B GLN* 3.0 44.1 + - - +
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Residues in contact with GLN 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319B GLN* 5.4 1.0 + - - -
322B THR* 2.8 40.5 + - + +
323B ASP* 4.1 7.5 - - - +
325B ARG* 1.3 84.8 - - + +
327B ARG* 1.3 59.8 + - - +
329B GLN* 3.3 18.0 + - - +
330B ARG* 2.8 47.0 + - + +
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Residues in contact with ARG 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B TYR* 3.3 19.7 + - + +
47B LYS 3.2 19.4 + - - -
48B ASP 3.5 14.2 + - - -
49B GLU* 3.6 38.4 - - + +
323B ASP 2.9 19.2 + - - +
324B MET 3.8 0.7 - - - +
326B GLN* 1.3 76.3 - - - +
328B ILE* 1.3 58.4 - - - +
330B ARG* 3.2 28.1 + - - +
331B MET* 2.9 47.0 + - + +
388B ALA* 2.6 37.9 + - - +
390B MET 3.0 25.1 + - - -
391B THR* 4.2 4.0 - - - +
392B PRO* 4.6 1.8 - - - +
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Residues in contact with ILE 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B TYR* 4.0 20.9 - - + -
227B PHE* 3.6 32.3 - - + +
324B MET 3.1 14.8 + - - +
325B ARG* 3.5 9.4 - - - +
327B ARG* 1.3 77.0 - - + +
329B GLN* 1.3 64.9 + - + +
331B MET* 3.2 5.2 + - - +
332B ARG* 2.9 28.4 + - - +
356B GLY* 3.1 33.0 - - - +
357B MET* 3.9 24.7 - - + +
387B VAL* 3.6 14.2 - - + +
388B ALA* 4.5 8.3 - - + +
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Residues in contact with GLN 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B PHE 5.7 1.3 - - - +
228B GLY 3.0 27.4 + - - +
229B ARG* 4.7 4.8 - - - +
325B ARG* 3.0 32.0 + - + +
326B GLN* 3.7 20.7 + - - +
328B ILE* 1.3 77.9 - - + +
330B ARG* 1.3 62.5 + - + +
332B ARG* 3.2 13.0 + - - +
333B GLN* 3.1 39.3 + - - +
355B ASN* 5.4 2.4 - - - +
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Residues in contact with ARG 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B GLU* 5.1 6.5 + - - +
323B ASP 5.0 2.0 + - - -
326B GLN* 2.8 38.6 + - + +
327B ARG* 3.5 38.1 - - - +
329B GLN* 1.3 75.8 - - - +
331B MET* 1.3 72.3 + - + +
333B GLN* 3.3 9.0 + - - +
334B LEU* 2.9 30.7 + - - +
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Residues in contact with MET 331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B ARG* 2.9 43.9 + - + +
328B ILE* 3.8 4.5 - - - +
330B ARG* 1.3 92.3 - - + +
332B ARG* 1.3 60.7 + - - +
334B LEU* 3.9 19.1 - - + -
335B PHE* 2.8 33.5 + - - +
387B VAL* 3.5 24.2 - - + +
388B ALA* 5.3 0.2 - - - -
390B MET* 3.4 31.6 - - + +
391B THR* 3.7 11.0 - - - -
392B PRO* 4.0 14.6 - - + -
395B MET* 3.7 9.4 - - - +
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Residues in contact with ARG 332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328B ILE* 2.9 21.7 + - - +
329B GLN* 3.4 16.2 - - - +
331B MET* 1.3 78.1 - - - +
333B GLN* 1.3 61.9 + - - +
335B PHE* 3.5 3.6 + - - +
336B VAL* 3.3 26.2 + - - +
351B VAL* 2.8 47.3 + - + +
352B ILE* 3.9 7.0 - - + +
354B GLN* 3.3 26.5 + - - +
355B ASN 4.1 4.0 - - - -
356B GLY 2.8 31.5 + - - +
357B MET 4.1 0.8 - - - -
358B PHE 2.9 31.9 + - - +
359B SER* 2.7 21.2 + - - -
387B VAL* 4.0 15.3 - - + +
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Residues in contact with GLN 333 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329B GLN* 3.1 30.8 + - - +
330B ARG* 3.8 6.5 - - - +
332B ARG* 1.3 75.9 - - + +
334B LEU* 1.3 58.5 + - - +
336B VAL* 3.3 3.6 + - - +
337B ASN* 3.0 41.8 + - - +
352B ILE* 3.6 26.4 - - + +
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Residues in contact with LEU 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330B ARG 2.9 18.4 + - - +
331B MET* 3.9 14.6 - - + +
333B GLN* 1.3 73.5 - - - +
335B PHE* 1.3 60.4 - - - +
337B ASN* 4.5 8.1 - - + +
338B THR* 2.7 49.8 + - - +
392B PRO* 3.9 31.0 - - + +
395B MET* 3.8 22.9 - - + -
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Residues in contact with PHE 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B MET 2.8 18.6 + - - +
332B ARG* 3.6 5.2 - - - +
334B LEU* 1.3 77.5 - - - +
336B VAL* 1.3 63.5 + - - +
338B THR* 3.9 0.2 - - - -
339B LEU* 3.0 47.2 + - + +
348B PHE* 4.9 6.5 - + - -
351B VAL* 4.1 31.0 - - + -
361B SER* 5.5 9.2 - - - -
385B VAL* 5.1 11.4 - - + -
387B VAL* 5.2 2.0 - - + -
390B MET* 3.6 37.5 - - + -
395B MET* 3.7 11.8 - - - +
398B LEU* 3.8 5.4 - - + -
399B CYS* 3.7 17.5 - - - -
402B ILE* 3.5 33.2 - - + -
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Residues in contact with VAL 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332B ARG 3.3 15.1 + - - +
333B GLN 3.7 6.1 - - - +
334B LEU 3.3 0.2 - - - -
335B PHE* 1.3 76.4 - - + +
337B ASN* 1.3 69.3 + - - +
339B LEU* 3.4 9.7 + - - +
340B GLN* 3.1 23.6 + - + +
348B PHE* 3.2 39.2 - - + +
349B SER* 4.3 9.0 - - - +
351B VAL* 3.6 16.8 - - + -
352B ILE* 4.0 19.1 - - + +
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Residues in contact with ASN 337 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B GLN* 3.0 29.9 + - - +
334B LEU* 4.0 9.5 - - + +
336B VAL* 1.3 83.1 - - - +
338B THR* 1.3 58.4 + - - +
340B GLN* 3.3 18.9 + - - +
341B GLU* 2.9 27.6 + - - +
----------------------------------------------------------
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Residues in contact with THR 338 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334B LEU* 2.7 35.8 + - - +
337B ASN* 1.3 74.5 - - - +
339B LEU* 1.3 61.2 + - - +
341B GLU* 3.2 16.1 + - - +
342B LYS* 2.9 44.5 + - + +
395B MET* 3.6 11.2 - - + +
396B ALA* 4.0 22.2 - - + -
399B CYS* 3.6 27.6 - - + -
----------------------------------------------------------
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Residues in contact with LEU 339 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335B PHE* 3.0 48.1 + - + +
336B VAL 3.6 4.7 - - - +
338B THR* 1.3 76.9 - - - +
340B GLN* 1.3 60.1 + - - +
342B LYS* 3.3 4.4 + - - +
343B GLY 3.2 5.2 + - - -
344B ALA* 2.9 36.9 + - + +
348B PHE* 3.5 40.6 - - + -
399B CYS* 3.9 29.2 - - + +
402B ILE* 3.9 26.0 - - + -
403B VAL* 3.9 7.3 - - + +
----------------------------------------------------------
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Residues in contact with GLN 340 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336B VAL* 3.1 12.2 + - + +
337B ASN* 3.5 21.8 - - - +
339B LEU* 1.3 78.0 - - - +
341B GLU* 1.3 65.0 + - - +
343B GLY* 3.0 14.7 + - - -
344B ALA* 4.5 5.8 - - - +
----------------------------------------------------------
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Residues in contact with GLU 341 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B ASN 2.9 15.8 + - - +
338B THR* 3.2 18.7 + - - +
340B GLN* 1.3 79.9 - - - +
342B LYS* 1.3 75.2 + - + +
343B GLY* 3.1 3.5 + - - -
396B ALA* 6.6 0.2 - - - -
----------------------------------------------------------
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Residues in contact with LYS 342 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B THR* 2.9 36.3 + - + +
339B LEU 3.3 0.4 + - - -
340B GLN 3.2 0.4 - - - -
341B GLU* 1.3 97.1 + - + +
343B GLY* 1.3 59.8 + - - +
344B ALA 3.6 0.4 - - - -
396B ALA* 4.3 12.7 - - + +
399B CYS* 4.1 2.7 - - + +
400B GLU* 2.5 57.7 + - + +
403B VAL* 3.3 32.5 - - + +
----------------------------------------------------------
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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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