Contacts of the helix formed by residues 239 - 275 (chain A) in PDB entry 1SIR
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 LEU 239 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A PRO* 4.1 20.6 - - + +
145A SER* 4.2 18.8 - - - +
147A MET* 6.3 1.8 - - + -
183A ARG* 4.8 9.6 - - - +
189A ILE* 3.7 26.4 - - + +
238A SER* 1.3 84.3 + - - +
240A GLY* 1.3 61.2 + - - +
241A GLY 3.1 0.9 - - - -
242A PRO* 3.1 13.7 - - + +
243A PHE* 2.9 64.1 + - + -
400A NBC 4.4 19.5 - - + +
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Residues in contact with GLY 240 (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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111A TYR* 3.9 3.8 + - - -
238A SER* 2.7 11.6 + - - -
239A LEU* 1.3 75.3 - - - +
241A GLY* 1.3 55.9 + - - +
243A PHE* 4.1 0.2 - - - +
244A GLY* 2.9 25.8 + - - -
400A NBC 4.3 39.4 + - - -
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Residues in contact with GLY 241 (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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111A TYR* 3.5 19.0 - - - -
181A TRP* 4.1 3.8 - - - -
236A ALA* 3.8 22.9 - - - +
238A SER 2.9 9.9 + - - +
240A GLY* 1.3 76.1 - - - +
242A PRO* 1.3 65.2 - - - +
244A GLY 3.1 10.4 + - - -
245A CYS* 3.3 15.9 + - - -
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Residues in contact with PRO 242 (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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133A PHE* 4.0 22.2 - - + -
135A LEU* 4.1 24.9 - - + -
181A TRP* 3.7 34.0 - - + +
189A ILE* 4.9 4.3 - - + -
238A SER 3.3 10.1 - - - +
239A LEU* 3.1 26.2 - - + +
241A GLY* 1.3 87.4 - - - +
243A PHE* 1.3 57.3 + - + +
245A CYS* 3.2 6.3 + - - +
246A LEU* 2.8 32.7 + - + +
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Residues in contact with PHE 243 (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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135A LEU* 5.2 2.7 - - + -
144A PRO* 4.2 12.8 - - + -
239A LEU* 2.9 51.4 + - + +
240A GLY 4.1 0.2 - - - +
242A PRO* 1.3 75.3 - - + +
244A GLY* 1.3 66.5 + - - +
246A LEU* 3.3 21.5 - - + +
247A ASN* 2.9 19.6 + - - +
250A ARG* 5.3 2.0 - - - +
400A NBC 3.2 126.0 + + + +
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Residues in contact with GLY 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A HIS* 4.4 3.8 - - - -
111A TYR* 3.6 12.3 - - - -
240A GLY 2.9 19.8 + - - -
241A GLY 3.1 2.4 + - - -
243A PHE* 1.3 78.0 - - - +
245A CYS* 1.3 61.8 + - - +
247A ASN* 3.5 9.2 + - - +
248A ASN* 3.4 19.2 + - - -
400A NBC 3.7 13.0 - - - -
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Residues in contact with CYS 245 (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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102A SER 3.5 21.2 - - - +
103A LEU* 4.0 11.2 - - + -
106A HIS* 4.0 8.7 - - - -
107A PRO* 3.3 37.2 - - - -
111A TYR* 3.8 9.4 - - - -
133A PHE* 4.2 8.7 - - + -
181A TRP* 4.5 1.3 - - - -
241A GLY 3.3 18.4 - - - -
242A PRO* 3.4 8.3 - - - +
243A PHE 3.1 0.2 - - - -
244A GLY* 1.3 74.3 - - - +
246A LEU* 1.3 66.8 + - - +
248A ASN* 3.0 14.6 + - - +
249A ALA* 3.1 10.4 + - - +
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Residues in contact with LEU 246 (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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103A LEU* 4.3 5.2 - - + -
133A PHE* 4.1 14.4 - - + -
135A LEU* 4.2 6.7 - - + -
242A PRO 2.8 21.5 + - - +
243A PHE* 3.2 40.4 + - + +
245A CYS* 1.3 76.9 - - - +
247A ASN* 1.3 56.9 + - - +
249A ALA* 3.1 2.6 + - - +
250A ARG* 2.9 46.2 + - - +
370A GLU* 3.0 28.3 - - - +
400A NBC 3.4 46.0 - - - +
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Residues in contact with ASN 247 (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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243A PHE 2.9 13.6 + - - +
244A GLY 3.7 6.1 - - - +
245A CYS 3.1 0.2 - - - -
246A LEU* 1.3 78.7 - - - +
248A ASN* 1.3 61.9 + - - +
250A ARG* 4.0 16.2 + - - +
251A TYR* 3.2 21.7 + - - +
313A LYS* 5.3 1.5 - - - -
319A ALA 4.3 1.0 - - - -
320A PRO* 3.0 38.3 - - - +
323A VAL* 3.7 26.3 - - - +
324A SER* 5.5 0.7 + - - -
400A NBC 2.5 30.8 + - - +
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Residues in contact with ASN 248 (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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65A THR* 5.8 0.3 + - - -
79A TYR* 3.8 10.9 - - + -
102A SER* 3.3 25.7 + - - +
106A HIS* 3.2 34.2 + - + -
244A GLY 3.4 18.0 + - - -
245A CYS 3.0 8.7 + - - +
247A ASN* 1.3 77.8 - - - +
249A ALA* 1.3 64.4 + - - +
251A TYR* 3.6 6.6 - - - +
252A GLY 3.5 13.9 + - - -
313A LYS* 2.9 36.3 + - - +
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Residues in contact with ALA 249 (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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79A TYR* 4.7 0.2 - - - -
98A SER* 4.0 12.9 + - - +
102A SER* 3.6 12.5 - - - -
103A LEU* 3.9 15.9 - - + -
245A CYS 3.1 10.2 + - - +
246A LEU 3.5 6.3 - - - +
248A ASN* 1.3 76.5 - - - +
250A ARG* 1.3 65.1 + - - +
252A GLY* 3.1 4.7 + - - -
253A ILE* 3.0 28.2 + - + +
370A GLU* 3.4 25.1 - - - +
400A NBC 5.5 0.4 - - - -
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Residues in contact with ARG 250 (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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243A PHE* 5.5 1.2 - - - +
246A LEU* 2.9 34.8 + - - +
247A ASN* 4.0 17.7 + - - +
249A ALA* 1.3 72.0 - - - +
251A TYR* 1.3 65.2 + - - +
253A ILE* 3.2 10.2 + - - +
254A ALA* 3.0 23.4 + - - +
323A VAL* 3.4 19.2 - - + +
324A SER* 4.7 5.0 + - - +
327A LYS* 3.9 13.8 - - + +
370A GLU* 2.9 46.8 + - + +
371A GLY* 3.9 3.0 - - - +
376A HIS* 3.7 21.4 - - - -
379A ILE* 4.7 4.6 - - - +
400A NBC 2.7 58.4 + - - +
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Residues in contact with TYR 251 (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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76A SER* 2.7 45.7 + - - -
77A VAL* 3.5 1.9 + - - -
79A TYR* 4.1 17.7 - + - -
80A GLY 4.4 2.0 - - - -
247A ASN 3.2 18.4 + - - +
248A ASN* 3.6 8.5 - - - +
249A ALA 3.2 0.2 - - - -
250A ARG* 1.3 76.5 - - - +
252A GLY* 1.3 65.5 + - - +
254A ALA* 3.2 19.6 + - - +
255A TRP* 3.1 39.5 + + - -
309A LEU* 3.6 28.0 - - + -
310A GLY* 3.1 32.7 - - - -
313A LYS* 4.3 20.2 - - + -
323A VAL* 3.7 12.5 - - + +
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Residues in contact with GLY 252 (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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79A TYR* 4.5 16.6 - - - -
80A GLY* 5.3 1.6 - - - -
83A ALA* 3.5 17.9 - - - +
94A ARG* 4.9 1.3 - - - -
98A SER* 5.2 3.6 - - - -
248A ASN 3.5 4.7 + - - -
249A ALA 3.1 7.3 + - - -
251A TYR* 1.3 89.0 - - - +
253A ILE* 1.3 57.5 + - - +
255A TRP* 3.3 5.0 + - - +
256A GLY* 2.8 25.3 + - - -
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Residues in contact with ILE 253 (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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94A ARG* 3.6 25.6 - - - +
98A SER* 4.3 2.0 - - - +
249A ALA* 3.0 24.9 + - + +
250A ARG* 3.6 8.7 - - - +
251A TYR 3.2 0.4 - - - -
252A GLY* 1.3 73.6 - - - +
254A ALA* 1.3 67.1 + - - +
256A GLY* 4.3 1.1 - - - +
257A VAL* 3.1 25.3 + - + +
327A LYS* 4.1 6.5 - - + -
331A CYS* 3.7 26.9 - - - -
366A VAL* 3.7 17.3 - - + -
369A TYR* 3.8 11.2 - - + -
370A GLU* 3.4 37.2 - - + +
400A NBC 4.2 6.3 - - - +
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Residues in contact with ALA 254 (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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250A ARG 3.0 12.7 + - - +
251A TYR* 3.2 12.8 + - - +
253A ILE* 1.3 77.9 - - - +
255A TRP* 1.3 62.4 + - + +
257A VAL* 3.6 5.4 - - - +
258A LEU* 3.5 6.9 - - - +
306A CYS* 3.7 16.6 - - - -
309A LEU* 5.6 3.1 - - + -
323A VAL* 5.5 0.7 - - + +
326A LEU* 4.1 28.7 - - + +
327A LYS* 4.1 5.8 - - + +
330A ASN* 3.1 24.5 - - - +
331A CYS* 5.6 0.4 - - - -
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Residues in contact with TRP 255 (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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12A LEU* 4.7 4.7 - - + -
16A LEU* 5.5 0.4 - - + -
77A VAL* 4.5 17.3 - - + -
80A GLY* 3.4 40.8 - - - +
81A LEU* 3.9 20.6 - - + -
84A ARG* 4.3 14.3 - - - +
251A TYR* 3.1 46.0 + + - -
252A GLY 3.3 6.1 + - - +
253A ILE 3.2 0.4 - - - -
254A ALA* 1.3 77.4 - - - +
256A GLY* 1.3 69.3 + - - +
258A LEU* 2.8 25.0 + - + +
259A GLY 3.8 1.4 + - - -
303A LEU* 3.9 29.2 - - + -
306A CYS* 3.4 26.3 + - + +
307A LEU* 3.5 43.5 - - + -
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Residues in contact with GLY 256 (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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83A ALA* 3.7 21.9 - - - +
84A ARG* 4.0 0.7 - - - -
87A GLU* 3.1 32.2 - - - +
94A ARG* 4.8 0.2 - - - -
252A GLY 2.8 19.9 + - - -
253A ILE* 3.4 1.7 + - - -
255A TRP* 1.3 71.8 - - - +
257A VAL* 1.3 52.3 + - - +
259A GLY* 2.7 26.9 + - - -
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Residues in contact with VAL 257 (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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87A GLU* 3.5 16.4 + - - +
253A ILE* 3.1 14.2 + - + +
254A ALA 3.6 6.7 - - - +
256A GLY* 1.3 70.0 - - - +
258A LEU* 1.3 60.7 + - + +
259A GLY 3.2 0.2 - - - -
260A ALA* 3.2 6.1 + - - +
261A SER* 2.8 30.6 + - - -
330A ASN* 3.5 42.6 - - + +
331A CYS* 3.8 11.2 - - - +
334A ALA* 3.8 11.5 - - + +
363A LEU* 4.4 6.3 - - + -
366A VAL* 3.7 29.8 - - + -
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Residues in contact with LEU 258 (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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84A ARG* 4.6 6.5 - - + +
254A ALA 3.5 10.8 - - - +
255A TRP* 2.8 20.8 + - + +
257A VAL* 1.3 71.9 - - + +
259A GLY* 1.3 60.4 + - - +
261A SER* 3.3 9.1 + - - +
262A GLU* 2.8 34.0 + - - +
298A GLU 5.1 1.1 - - - +
299A ILE* 4.2 27.2 - - + +
302A GLY* 3.7 5.8 - - - +
303A LEU* 3.7 43.7 - - + +
306A CYS* 4.0 7.4 - - - -
330A ASN* 3.7 32.1 - - + +
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Residues in contact with GLY 259 (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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84A ARG* 3.5 31.8 - - - +
88A ARG* 3.7 25.9 - - - +
256A GLY 2.7 9.8 + - - -
258A LEU* 1.3 75.0 - - - +
260A ALA* 1.3 65.9 + - - +
262A GLU* 3.2 3.0 + - - +
263A PHE 2.9 19.1 + - - -
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Residues in contact with ALA 260 (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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87A GLU* 3.7 26.4 + - + -
88A ARG* 4.4 0.2 - - - +
91A SER* 4.7 0.2 - - - +
256A GLY 3.5 3.6 + - - -
257A VAL 3.2 10.1 + - - +
259A GLY* 1.3 77.6 - - - +
261A SER* 1.3 61.4 + - - +
263A PHE* 3.3 4.9 + - - +
264A CYS* 3.2 26.5 + - - -
359A HIS* 3.6 28.5 - - + -
363A LEU* 4.1 20.9 - - + -
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Residues in contact with SER 261 (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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257A VAL 2.8 15.7 + - - -
258A LEU* 3.5 13.7 - - - +
260A ALA* 1.3 77.2 - - - +
262A GLU* 1.3 58.2 + - - +
264A CYS* 2.9 8.4 + - - +
265A LEU* 2.9 27.4 + - - +
299A ILE* 3.7 23.5 - - - +
334A ALA* 3.3 26.8 - - - +
337A ILE* 3.9 20.0 - - - +
363A LEU* 5.3 1.1 - - - +
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Residues in contact with GLU 262 (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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7A GLN 5.2 4.3 - - - +
84A ARG* 2.5 45.1 + - - -
88A ARG* 2.8 29.2 + - - +
258A LEU 2.8 18.2 + - - +
259A GLY* 3.5 0.6 - - - +
261A SER* 1.3 76.5 - - - +
263A PHE* 1.3 62.2 + - - +
265A LEU* 3.2 4.2 + - + +
266A HIS* 2.8 42.4 + - + +
299A ILE* 3.9 25.3 - - + +
303A LEU* 3.7 15.0 - - - +
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Residues in contact with PHE 263 (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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32A GLN* 6.4 0.4 - - - -
36A MET* 4.1 21.3 - - + -
88A ARG* 3.8 34.4 - - + +
259A GLY 2.9 12.6 + - - +
260A ALA 3.6 8.1 - - - +
261A SER 3.2 0.2 - - - -
262A GLU* 1.3 76.4 - - - +
264A CYS* 1.3 63.7 + - - +
266A HIS* 3.8 6.1 - - + +
267A THR* 2.8 55.4 + - + -
354A TYR 4.7 1.8 - - - -
355A HIS* 3.7 41.3 - + + -
356A VAL* 4.6 5.6 - - + -
358A ARG* 5.2 0.4 - - - -
359A HIS* 3.6 21.1 - + - +
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Residues in contact with CYS 264 (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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260A ALA 3.2 16.4 + - - -
261A SER* 2.9 10.1 + - - +
263A PHE* 1.3 81.6 - - - +
265A LEU* 1.3 59.5 + - - +
267A THR* 3.3 4.0 + - - -
268A ALA* 2.8 33.9 + - - +
337A ILE* 4.1 11.0 - - + -
338A ALA* 3.9 22.9 - - - -
341A ALA* 3.9 21.8 - - + +
356A VAL* 4.5 8.7 - - - -
359A HIS* 4.0 24.7 - - - -
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Residues in contact with LEU 265 (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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6A TRP* 4.5 20.9 - - + +
261A SER 2.9 12.0 + - - +
262A GLU* 3.6 9.4 - - + +
264A CYS* 1.3 76.2 - - - +
266A HIS* 1.3 59.8 + - + +
268A ALA* 3.7 0.7 - - - +
269A ARG* 2.8 35.5 + - + +
292A LEU* 4.0 30.3 - - + +
295A MET* 4.0 25.1 - - + -
296A LEU* 4.0 31.0 - - + +
299A ILE* 3.9 23.3 - - + -
337A ILE* 4.7 0.8 - - - +
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Residues in contact with HIS 266 (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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6A TRP* 3.3 34.9 - + - -
7A GLN* 3.2 32.6 - - - +
88A ARG* 5.6 2.3 + - - -
262A GLU* 2.8 43.7 + - + +
263A PHE* 3.8 6.5 - - + +
265A LEU* 1.3 76.6 - - + +
267A THR* 1.3 66.9 + - - +
269A ARG* 3.7 5.7 + - - +
270A GLN* 3.0 30.1 + - + +
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Residues in contact with THR 267 (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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263A PHE* 2.8 47.1 + - + -
264A CYS 3.8 3.1 - - - -
266A HIS* 1.3 76.9 - - - +
268A ALA* 1.3 64.7 + - - +
270A GLN* 3.8 3.8 - - - +
271A TYR* 3.0 24.3 + - + +
345A LEU* 4.3 15.5 - - + -
354A TYR* 4.4 9.9 - - + +
356A VAL* 4.1 21.1 - - + -
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Residues in contact with ALA 268 (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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264A CYS 2.8 18.7 + - - +
265A LEU* 3.7 4.9 - - - +
267A THR* 1.3 77.1 - - - +
269A ARG* 1.3 64.6 + - - +
271A TYR* 3.2 3.3 + - - +
272A ALA* 2.9 23.6 + - - +
292A LEU* 4.2 8.3 - - + -
295A MET* 4.7 2.2 - - - -
341A ALA* 4.5 14.3 - - + +
344A MET* 4.1 30.9 - - + +
345A LEU* 4.4 11.7 - - + -
356A VAL* 5.6 0.2 - - - +
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Residues in contact with ARG 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A TRP* 3.3 60.8 - - - +
265A LEU* 2.8 24.0 + - + +
266A HIS 3.7 4.4 + - - +
268A ALA* 1.3 73.7 - - - +
270A GLN* 1.3 82.1 + - - +
272A ALA* 3.1 16.6 + - - +
273A LEU* 3.1 40.6 + - + +
292A LEU* 4.1 22.6 - - + +
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Residues in contact with GLN 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A HIS 3.0 19.1 + - - +
267A THR* 3.8 4.9 - - - +
269A ARG* 1.3 94.2 + - - +
271A TYR* 1.3 59.6 + - - +
273A LEU* 2.9 13.9 + - - +
274A ASP* 2.8 67.4 + - - +
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Residues in contact with TYR 271 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A THR* 3.0 19.2 + - + +
268A ALA 3.5 3.1 - - - +
270A GLN* 1.3 75.1 - - - +
272A ALA* 1.3 58.2 + - - +
274A ASP* 4.5 5.4 - - + +
275A ARG* 2.8 75.2 + - + +
282A LEU* 4.1 6.5 - - + -
344A MET* 3.9 10.3 - - + -
345A LEU* 3.3 59.1 + - + -
348A ASN* 2.9 31.2 + - - -
354A TYR* 4.3 17.0 - + - -
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Residues in contact with ALA 272 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A ALA 2.9 13.2 + - - +
269A ARG* 3.1 13.7 + - - +
271A TYR* 1.3 77.6 - - - +
273A LEU* 1.3 59.9 + - - +
275A ARG 3.6 0.7 - - - +
281A PRO* 3.5 1.6 - - - +
282A LEU* 3.1 21.4 + - + -
283A ALA* 2.8 45.2 + - + +
288A ILE* 4.1 15.7 - - + -
292A LEU* 4.7 3.6 - - + -
344A MET* 4.7 4.9 - - + -
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Residues in contact with LEU 273 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A ARG* 3.1 51.8 + - + +
270A GLN* 2.9 15.5 + - - +
272A ALA* 1.3 78.5 - - - +
274A ASP* 1.3 68.7 + - - +
276A MET* 4.8 1.6 - - - +
281A PRO* 3.6 19.6 - - + +
283A ALA* 4.0 17.7 - - + -
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Residues in contact with ASP 274 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A GLN* 2.8 47.7 + - - +
271A TYR* 4.3 4.6 - - + +
273A LEU* 1.3 79.3 - - - +
275A ARG* 1.3 64.5 + - - +
276A MET* 3.7 9.5 + - - +
----------------------------------------------------------
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Residues in contact with ARG 275 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A TYR* 2.8 56.5 + - + +
272A ALA 3.6 2.8 - - - +
274A ASP* 1.3 73.9 - - - +
276A MET* 1.3 70.1 + - - +
277A GLN* 3.4 34.4 - - - +
281A PRO* 3.3 5.9 - - - +
282A LEU* 3.0 48.1 + - + +
348A ASN* 5.9 2.0 - - - +
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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