Contacts of the helix formed by residues 250 - 283 (chain B) in PDB entry 4DTZ
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 250 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95B ASN* 5.4 5.2 + - - -
98B LYS* 5.0 3.5 - - - +
248B PRO 3.7 3.2 + - - +
249B LEU* 1.4 75.5 - - - +
251B ASP* 1.3 64.9 + - - +
252B GLU* 3.4 11.4 + - - +
253B ASN* 3.0 27.0 + - - +
254B ILE* 3.0 20.5 + - - +
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Residues in contact with ASP 251 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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217B ASP* 4.9 1.5 - - - +
220B ILE* 3.8 18.4 - - + +
224B LYS* 2.8 45.0 + - - +
238B LEU* 4.2 2.3 - - - +
249B LEU 4.9 1.2 - - - +
250B ASP* 1.3 77.0 - - - +
252B GLU* 1.3 63.0 + - - +
254B ILE* 3.7 18.6 - - - +
255B ARG* 3.0 23.2 + - - +
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Residues in contact with GLU 252 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B ASP* 4.8 5.9 - - - +
217B ASP* 5.5 0.7 - - - -
250B ASP* 3.2 10.5 + - - +
251B ASP* 1.3 79.6 - - - +
253B ASN* 1.3 59.6 + - - +
255B ARG* 3.1 30.2 + - - +
256B TYR* 3.0 57.2 + - + -
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Residues in contact with ASN 253 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B ASP* 3.0 46.9 + - - +
85B GLY 4.3 0.2 - - - +
95B ASN* 4.0 18.9 - - - +
99B ALA* 4.1 0.5 - - - +
249B LEU* 3.5 22.0 - - + +
250B ASP* 3.0 25.5 + - - +
252B GLU* 1.3 74.4 + - - +
254B ILE* 1.3 66.0 + - - +
256B TYR* 3.1 8.5 + - - +
257B GLN* 2.9 45.1 + - - +
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Residues in contact with ILE 254 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220B ILE* 3.8 10.5 - - + -
234B LEU* 3.6 26.2 - - + -
237B MET* 4.0 36.3 - - + +
238B LEU* 3.9 27.1 - - + -
249B LEU* 3.7 30.1 - - + +
250B ASP 3.0 15.3 + - - +
251B ASP* 3.7 14.6 - - - +
252B GLU 3.3 0.2 - - - -
253B ASN* 1.3 75.6 - - - +
255B ARG* 1.4 64.4 + - - +
257B GLN* 3.1 10.1 + - - +
258B ILE* 3.0 23.5 + - + +
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Residues in contact with ARG 255 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213B ASN* 3.5 38.5 + - - +
216B VAL* 3.7 21.1 - - + -
217B ASP* 2.8 46.6 + - - +
220B ILE* 3.5 12.3 - - + +
251B ASP 3.0 12.1 + - - +
252B GLU* 3.3 25.9 + - - +
254B ILE* 1.4 75.3 - - - +
256B TYR* 1.3 93.2 + - - +
258B ILE* 3.2 3.6 + - - +
259B ILE* 2.9 37.6 + - + +
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Residues in contact with TYR 256 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80B ASP 5.3 3.0 + - - -
81B PHE* 3.4 22.0 - - - -
82B ALA* 3.4 25.0 - - - +
83B GLY* 3.7 18.6 - - - -
84B ASP* 3.6 19.3 - - - -
85B GLY* 3.9 9.4 - - - +
213B ASN* 4.7 4.8 + - - -
252B GLU* 3.0 48.9 + - + -
253B ASN* 3.1 8.0 + - - +
255B ARG* 1.3 102.8 + - - +
257B GLN* 1.4 52.9 + - - +
259B ILE* 3.5 4.5 + - + +
260B THR* 2.7 38.5 + - - -
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Residues in contact with GLN 257 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B ASP 4.0 1.2 + - - -
85B GLY* 3.6 9.4 - - - -
86B LEU* 3.0 34.1 + - - +
99B ALA* 3.2 23.5 - - - +
103B LEU* 4.2 6.1 - - + +
237B MET* 3.7 26.2 - - - -
249B LEU* 4.5 2.5 - - + -
253B ASN* 2.9 51.0 + - - +
254B ILE* 3.1 5.1 + - - +
256B TYR* 1.4 71.1 - - - +
258B ILE* 1.3 59.8 + - - +
260B THR* 3.1 4.1 + - - -
261B PHE* 2.9 48.8 + - + -
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Residues in contact with ILE 258 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157B GLY* 4.9 5.2 - - - +
158B PHE* 4.0 44.9 - - + -
216B VAL* 3.7 31.2 - - + -
220B ILE* 4.2 9.0 - - + -
234B LEU* 4.3 7.0 - - + -
237B MET* 4.0 14.1 - - + -
254B ILE* 3.0 28.3 + - + +
255B ARG 3.6 6.1 - - - +
257B GLN* 1.3 77.7 - - - +
259B ILE* 1.3 64.2 + - - +
261B PHE* 3.3 10.5 + - + +
262B LEU* 3.2 32.4 + - + +
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Residues in contact with ILE 259 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B PHE* 3.8 44.9 - - + +
82B ALA* 4.3 6.1 - - + -
173B PHE* 4.5 11.0 - - + -
177B MET* 4.6 0.2 - - - +
212B MET* 4.1 26.0 - - + +
213B ASN* 3.5 24.5 - - - +
216B VAL* 4.2 14.8 - - + -
255B ARG* 2.9 36.2 + - + +
256B TYR* 3.8 4.9 - - + +
258B ILE* 1.3 73.9 - - - +
260B THR* 1.4 53.5 + - - +
262B LEU* 3.4 5.0 + - - +
263B ALA* 2.8 33.6 + - + +
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Residues in contact with THR 260 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82B ALA* 3.6 25.0 + - + +
85B GLY* 3.8 6.8 - - - -
86B LEU 4.5 2.5 - - - +
87B PHE* 3.7 35.9 - - + +
88B THR* 5.0 0.3 + - - -
256B TYR 2.7 23.3 + - - -
257B GLN* 3.4 9.2 - - - +
259B ILE* 1.4 74.4 - - - +
261B PHE* 1.3 61.0 + - + +
263B ALA* 4.5 1.3 - - - +
264B ALA* 2.8 40.6 + - + +
500B HEM 3.8 19.2 - - + +
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Residues in contact with PHE 261 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86B LEU* 4.8 1.6 - - + -
103B LEU* 3.8 24.0 - - + -
107B PHE* 3.7 30.7 - + - -
153B ILE* 3.7 23.5 - - + +
157B GLY* 5.1 4.9 - - - -
233B LEU* 4.0 26.7 - - + -
237B MET* 3.9 23.3 - - + -
257B GLN* 2.9 37.0 + - + +
258B ILE* 3.3 10.3 + - + +
260B THR* 1.3 72.6 - - + +
262B LEU* 1.4 59.6 + - + +
265B GLY* 2.9 27.3 + - - +
500B HEM 3.9 35.6 - - + +
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Residues in contact with LEU 262 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B LEU* 3.9 15.3 - - + +
153B ILE* 3.8 23.8 - - + -
154B GLY 3.8 9.0 - - - +
158B PHE* 4.1 14.8 - - + -
162B PHE* 3.7 23.3 - - + -
173B PHE* 3.8 26.7 - - + -
177B MET* 3.7 17.0 - - + -
258B ILE* 3.2 28.9 + - + +
259B ILE 3.7 4.3 - - - +
261B PHE* 1.4 75.2 - - - +
263B ALA* 1.3 56.9 + - - +
266B HIS* 2.7 40.6 + - - +
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Residues in contact with ALA 263 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78B VAL* 5.7 2.9 - - + -
81B PHE* 3.8 27.1 - - + -
82B ALA* 5.9 0.7 - - + -
177B MET* 3.5 23.3 - - + -
181B LEU* 3.9 23.0 - - + +
259B ILE* 2.8 21.6 + - + +
260B THR* 4.5 1.8 - - - +
262B LEU* 1.3 75.4 - - - +
264B ALA* 1.3 60.8 + - + +
266B HIS* 3.6 10.0 + - - -
267B GLU* 4.9 4.0 + - - +
437B LEU* 4.6 3.7 - - - +
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Residues in contact with ALA 264 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78B VAL* 6.3 0.9 - - + -
87B PHE* 4.1 20.4 - - + -
260B THR* 2.8 28.2 + - + +
263B ALA* 1.3 75.6 - - + +
265B GLY* 1.3 61.1 + - - +
266B HIS 3.7 0.2 - - - -
267B GLU* 4.9 1.0 + - - +
268B ALA* 4.4 9.7 + - - +
437B LEU* 4.8 4.7 - - + -
438B THR* 5.3 1.7 - - - +
500B HEM 4.7 3.8 - - + -
501B LDP 3.2 45.9 + - + +
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Residues in contact with GLY 265 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B ILE* 3.7 5.3 - - - +
260B THR 3.7 0.2 + - - -
261B PHE 2.9 18.3 + - - -
264B ALA* 1.3 79.8 - - - +
266B HIS* 1.3 62.1 + - - +
267B GLU 3.4 2.1 + - - -
268B ALA 4.0 0.6 + - - -
269B THR* 2.9 28.9 + - - -
500B HEM 3.4 29.3 - - - +
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Residues in contact with HIS 266 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B THR* 4.0 20.4 - - + +
149B THR* 2.7 29.4 + - - +
150B LEU* 3.5 35.4 - - + +
153B ILE* 3.6 16.9 - - + +
177B MET* 3.9 17.7 - - + -
178B VAL* 4.8 9.3 - - + +
181B LEU* 4.2 7.2 - - + -
262B LEU 2.7 29.0 + - - +
263B ALA 3.6 9.1 + - - -
265B GLY* 1.3 78.6 - - - +
267B GLU* 1.3 92.3 + - + +
270B SER* 3.0 17.7 + - - -
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Residues in contact with GLU 267 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B THR* 5.1 1.6 - - - +
181B LEU* 4.1 14.4 - - - +
263B ALA 4.9 4.5 + - - +
264B ALA 4.9 0.8 + - - +
265B GLY 3.4 0.4 - - - +
266B HIS* 1.3 104.0 + - + +
268B ALA* 1.3 63.4 + - - +
269B THR 3.1 1.3 - - - -
270B SER* 3.2 5.6 + - - +
271B GLY* 2.8 27.5 + - - -
436B THR* 2.7 29.4 + - - +
437B LEU* 4.6 8.0 - - - +
438B THR* 3.2 26.2 + - + +
439B LEU 4.8 0.9 - - - +
440B LYS* 2.7 28.8 + - - +
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Residues in contact with ALA 268 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264B ALA 4.4 8.6 + - - +
265B GLY 4.0 1.2 + - - -
267B GLU* 1.3 79.2 - - - +
269B THR* 1.3 56.3 + - - +
272B LEU* 3.0 21.5 + - - +
327B THR* 2.8 31.2 + - - +
328B ALA* 4.4 5.2 - - + -
438B THR* 3.8 19.1 - - + +
500B HEM 3.4 38.9 - - + +
501B LDP 5.1 0.2 - - - +
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Residues in contact with THR 269 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B THR* 3.8 18.2 - - + -
153B ILE* 5.6 1.1 - - - -
265B GLY 2.9 19.4 + - - -
266B HIS 3.9 3.1 - - - -
267B GLU 3.1 0.6 - - - -
268B ALA* 1.3 75.7 - - - +
270B SER* 1.3 64.8 + - - +
272B LEU* 3.2 5.0 + - + +
273B LEU* 3.1 25.7 + - + +
405B PHE* 6.1 0.9 - - + -
406B ALA* 3.7 20.0 - - + +
409B GLU* 3.9 21.5 - - + -
410B ALA* 5.0 2.5 - - + +
500B HEM 3.5 33.0 - - + +
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Residues in contact with SER 270 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B PRO* 4.7 0.9 - - - -
145B MET* 3.5 29.9 - - - +
146B THR* 2.8 28.1 + - - -
149B THR* 3.6 7.8 - - - +
266B HIS 3.0 18.6 + - - -
267B GLU* 3.2 10.7 + - - +
269B THR* 1.3 76.5 - - - +
271B GLY* 1.3 65.9 + - - +
273B LEU* 3.3 4.4 + - - +
274B SER* 3.0 26.6 + - - -
440B LYS* 4.9 2.4 - - - -
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Residues in contact with GLY 271 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B PRO* 6.2 0.2 - - - -
267B GLU 2.8 18.1 + - - -
268B ALA 4.0 0.9 - - - -
270B SER* 1.3 79.8 + - - +
272B LEU* 1.3 50.9 + - - +
274B SER* 3.2 6.5 + - - -
275B PHE* 2.8 39.7 + - - -
327B THR* 3.6 7.6 - - - -
439B LEU 3.8 17.0 - - - -
440B LYS* 4.3 10.3 - - - +
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Residues in contact with LEU 272 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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268B ALA 3.0 16.1 + - - +
269B THR* 3.2 8.5 + - + +
271B GLY* 1.3 73.1 - - - +
273B LEU* 1.4 67.2 + - - +
275B PHE* 3.8 2.6 - - + -
276B ALA* 2.8 21.1 + - - +
318B LEU* 3.6 38.6 - - + +
321B ALA* 3.8 14.1 - - + -
322B LEU* 3.7 27.4 - - + +
327B THR* 3.6 6.2 - - - +
406B ALA 5.1 1.3 - - - +
407B LEU* 4.3 11.4 - - + -
410B ALA* 4.0 20.0 - - + -
500B HEM 3.8 22.2 - - + -
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Residues in contact with LEU 273 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145B MET* 3.6 29.6 - - + +
148B LEU* 4.1 22.0 - - + -
149B THR* 4.4 9.2 - - + -
269B THR 3.1 18.5 + - - +
270B SER 3.8 4.9 - - - +
272B LEU* 1.4 75.2 - - - +
274B SER* 1.3 62.5 + - - +
276B ALA* 3.4 5.2 + - - +
277B LEU* 3.1 23.9 + - - +
318B LEU* 5.1 1.6 - - + -
409B GLU* 4.8 3.4 - - + -
410B ALA* 3.6 43.1 - - + +
413B VAL* 4.1 11.2 - - + -
414B LEU* 4.0 23.8 - - + +
417B MET* 4.8 4.0 - - - +
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Residues in contact with SER 274 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B VAL* 3.9 15.0 - - - +
142B PRO* 3.3 29.9 - - - +
145B MET* 3.7 6.2 - - - +
270B SER 3.0 15.1 + - - -
271B GLY* 3.5 8.7 - - - -
272B LEU 3.2 0.2 - - - -
273B LEU* 1.3 77.8 - - - +
275B PHE* 1.3 59.7 + - - +
277B LEU 3.4 0.9 + - - -
278B TYR* 2.9 27.9 + - - +
441B PRO* 3.5 23.3 - - - -
444B PHE* 3.5 6.8 - - - -
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Residues in contact with PHE 275 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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271B GLY 2.8 28.9 + - - +
272B LEU* 3.9 3.6 - - - +
274B SER* 1.3 71.4 - - - +
276B ALA* 1.3 66.7 + - - +
278B TYR* 3.2 6.4 + + - +
279B PHE* 2.9 39.9 + + + -
321B ALA* 4.5 8.5 - - + +
325B TRP* 3.8 44.9 - + + -
327B THR* 3.7 14.4 - - + -
431B LEU* 4.1 10.8 - - + -
433B ILE* 4.0 25.6 - - + -
439B LEU* 3.5 26.5 - - + -
440B LYS* 3.6 22.0 - - - -
441B PRO* 3.9 13.5 - - + -
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Residues in contact with ALA 276 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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272B LEU 2.8 18.5 + - - +
273B LEU* 3.8 4.7 - - - +
274B SER 3.2 0.2 - - - -
275B PHE* 1.3 78.2 - - - +
277B LEU* 1.3 55.9 + - - +
279B PHE* 3.3 4.5 + - - +
280B LEU* 3.0 35.7 + - - +
317B VAL* 4.3 6.9 - - + +
318B LEU* 3.7 26.9 - - + -
321B ALA* 4.0 16.1 - - + +
414B LEU* 3.9 14.1 - - + -
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Residues in contact with LEU 277 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130B TRP* 4.9 2.7 - - + -
141B VAL* 4.0 31.9 - - + -
273B LEU 3.1 17.3 + - - +
274B SER 3.9 3.1 - - - +
276B ALA* 1.3 73.2 - - - +
278B TYR* 1.4 66.9 + - - +
280B LEU* 3.2 10.0 + - + +
281B VAL* 2.9 31.9 + - + +
287B LEU* 5.6 0.7 - - + -
414B LEU* 4.8 8.5 - - + +
417B MET* 3.7 32.8 - - + -
418B LEU* 5.1 3.6 - - + -
423B PHE* 4.1 28.7 - - + -
444B PHE* 3.9 9.0 - - + -
446B VAL* 4.3 13.9 - - + -
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Residues in contact with TYR 278 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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274B SER 2.9 18.4 + - - +
275B PHE* 3.5 9.2 - + - +
277B LEU* 1.4 76.5 - - - +
279B PHE* 1.4 98.3 + + - +
281B VAL* 3.3 1.6 + - - +
282B LYS* 3.1 59.8 + - + +
429B TYR* 3.7 34.5 + + - -
431B LEU* 3.5 41.2 + - + +
441B PRO* 4.9 3.4 - - + -
444B PHE* 3.4 21.0 - + + -
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Residues in contact with PHE 279 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275B PHE* 2.9 33.5 + - + +
276B ALA 3.9 2.5 - - - +
278B TYR* 1.4 98.5 - + - +
280B LEU* 1.3 63.7 + - - +
282B LYS* 3.3 1.4 + - + -
283B ASN* 2.9 36.6 + - - +
321B ALA* 4.3 12.8 - - + -
324B LEU* 3.6 30.1 - - + -
325B TRP* 3.6 34.1 - + - -
372B GLU 5.5 3.6 - - - -
374B PHE* 3.5 48.5 - + + -
431B LEU* 5.5 0.4 - - + -
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Residues in contact with LEU 280 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276B ALA 3.0 21.6 + - - +
277B LEU* 3.9 6.7 - - + +
278B TYR 3.2 0.2 - - - -
279B PHE* 1.3 77.7 - - - +
281B VAL* 1.3 59.4 + - - +
283B ASN 3.0 26.1 + - - +
284B PRO 3.7 0.3 - - - -
286B GLU* 3.8 10.5 - - + +
287B LEU* 3.4 48.9 - - + +
290B ALA* 4.3 2.5 - - + -
317B VAL* 3.9 31.9 - - + -
374B PHE* 4.1 12.8 - - + -
414B LEU* 4.2 14.6 - - + -
418B LEU* 4.1 27.1 - - + -
----------------------------------------------------------
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Residues in contact with VAL 281 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277B LEU* 2.9 28.5 + - + +
278B TYR* 3.4 12.6 - - - +
280B LEU* 1.3 75.8 - - - +
282B LYS* 1.4 64.3 + - + +
283B ASN 3.5 0.5 + - - -
284B PRO* 4.2 9.2 - - - +
287B LEU* 4.4 9.6 - - + -
423B PHE* 3.8 33.0 - - + +
425B ASP* 4.1 31.1 - - + +
444B PHE* 3.8 22.0 - - + -
446B VAL* 4.4 9.9 - - + -
----------------------------------------------------------
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Residues in contact with LYS 282 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278B TYR* 3.1 55.5 + - + +
279B PHE* 4.4 2.0 - - + -
280B LEU 3.2 0.2 - - - -
281B VAL* 1.4 79.0 - - + +
283B ASN* 1.4 76.2 + - - +
284B PRO* 3.6 7.0 - - - +
425B ASP* 2.7 31.5 + - - +
428B ASN* 3.2 18.0 + - - -
429B TYR* 2.8 30.6 + - - +
444B PHE* 6.1 0.2 - - - -
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Residues in contact with ASN 283 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279B PHE* 2.9 30.6 + - - +
280B LEU 3.0 6.1 + - - +
282B LYS* 1.4 92.4 + - - +
284B PRO* 1.4 64.2 - - - +
285B HIS 3.2 3.1 - - - -
286B GLU* 3.0 30.7 + - + +
287B LEU 3.1 9.5 + - - -
374B PHE* 3.8 36.7 + - + +
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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