Contacts of the helix formed by residues 232 - 257 (chain A) in PDB entry 1Z10
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 232 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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230A LEU 3.7 0.2 + - - -
231A PRO* 1.3 77.6 - - - +
233A PRO* 1.3 67.2 - - - +
234A GLN* 3.1 6.3 - - - -
235A GLN* 2.8 32.3 + - - +
236A GLN* 3.8 2.1 + - - +
50B ASN* 3.9 16.8 - - - +
51B THR* 4.4 6.5 - - - -
52B GLU* 4.6 4.3 - - - +
215B SER* 5.6 0.2 - - - -
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Residues in contact with PRO 233 (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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211A PHE* 3.9 19.2 - - + -
216A THR* 4.2 19.1 - - + +
232A GLY* 1.3 82.0 - - - +
234A GLN* 1.3 69.3 + - - +
236A GLN* 3.1 7.7 + - + +
237A ALA* 3.1 18.4 + - - +
51B THR* 4.6 1.6 - - - +
52B GLU* 3.3 25.5 - - - +
215B SER* 3.0 33.7 - - - +
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Residues in contact with GLN 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A PHE* 3.6 27.8 - - + -
216A THR* 4.1 8.0 - - - +
220A TYR* 4.0 9.6 - - + -
227A MET* 3.0 48.1 + - + +
230A LEU* 3.0 23.0 + - - +
231A PRO 3.3 9.5 + - - -
232A GLY* 3.4 12.7 - - - -
233A PRO* 1.3 81.0 - - - +
235A GLN* 1.3 57.8 + - - +
237A ALA* 3.2 2.8 + - - +
238A PHE* 3.0 51.0 + - + -
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Residues in contact with GLN 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A TRP* 5.8 0.5 - - - -
227A MET 3.7 2.8 + - - -
228A LYS 2.8 30.8 + - - +
229A HIS 4.1 1.4 - - - -
230A LEU 2.8 31.1 + - - +
231A PRO* 4.1 4.0 - - + -
232A GLY 2.8 19.0 + - - +
234A GLN* 1.3 75.7 - - - +
236A GLN* 1.3 63.8 + - - +
238A PHE* 3.3 21.8 + - - +
239A GLN* 3.1 26.1 + - - +
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Residues in contact with GLN 236 (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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232A GLY 3.8 1.8 + - - +
233A PRO 3.1 9.1 + - - +
235A GLN* 1.3 76.0 - - - +
237A ALA* 1.3 66.8 + - - +
239A GLN* 3.2 14.2 + - + +
240A LEU* 3.1 43.2 + - - +
52B GLU* 4.3 16.8 - - - +
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Residues in contact with ALA 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A THR* 4.8 5.2 - - + -
208A ILE* 4.3 5.1 - - + +
211A PHE* 3.6 43.1 - - + -
233A PRO 3.1 8.0 + - - +
234A GLN 3.2 9.6 + - - +
236A GLN* 1.3 78.5 - - - +
238A PHE* 1.3 65.9 + - + +
240A LEU* 2.9 25.4 + - + +
241A LEU* 3.1 15.9 + - - +
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Residues in contact with PHE 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A THR* 4.9 7.6 - - + -
109A TRP* 3.4 70.4 - + + -
211A PHE* 5.6 0.2 - + - -
220A TYR* 3.3 44.2 - + - -
228A LYS* 3.8 9.2 - - - -
234A GLN* 3.0 29.6 + - + -
235A GLN* 3.4 41.3 - - - +
237A ALA* 1.3 79.7 - - + +
239A GLN* 1.3 57.4 + - + +
241A LEU* 3.3 8.0 + - + +
242A GLN* 2.8 30.1 + - - +
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Residues in contact with GLN 239 (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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109A TRP* 5.3 2.8 - - - -
204A MET* 5.3 0.2 - - - +
235A GLN 3.1 17.2 + - - +
236A GLN* 3.6 20.6 - - - +
237A ALA 3.2 0.2 - - - -
238A PHE* 1.3 79.7 - - + +
240A LEU* 1.3 57.7 + - - +
242A GLN* 3.6 21.4 - - - +
243A GLY* 2.9 25.1 + - - -
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Residues in contact with LEU 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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203A ARG 4.6 1.8 - - - +
204A MET* 3.7 43.9 - - + +
207A GLY* 3.7 26.2 - - - +
208A ILE* 3.7 13.0 - - + +
236A GLN* 3.1 42.8 + - - +
237A ALA* 2.9 12.0 + - - +
239A GLN* 1.3 77.6 - - - +
241A LEU* 1.3 62.8 + - - +
243A GLY 3.3 0.9 + - - -
244A LEU* 3.1 28.1 + - - +
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Residues in contact with LEU 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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106A THR* 3.3 39.0 - - + +
107A PHE* 4.3 14.4 - - + -
109A TRP* 4.2 13.9 - - + -
110A VAL* 3.9 36.0 - - + +
208A ILE* 3.9 30.3 - - + -
237A ALA 3.1 12.5 + - - +
238A PHE* 3.3 9.4 + - + +
240A LEU* 1.3 74.3 - - - +
242A GLN* 1.3 59.5 + - - +
244A LEU* 3.2 6.8 + - + +
245A GLU* 2.9 28.2 + - - +
296A LEU* 4.7 2.2 - - + +
300A ILE* 4.7 9.4 - - + -
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Residues in contact with GLN 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A TRP* 3.9 21.5 - - + -
110A VAL* 5.1 0.2 - - - -
238A PHE 2.8 18.4 + - - +
239A GLN* 3.6 23.6 - - - +
241A LEU* 1.3 76.8 - - - +
243A GLY* 1.3 57.4 + - - +
245A GLU* 4.0 21.8 + - - +
246A ASP* 2.7 69.7 + - - +
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Residues in contact with GLY 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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201A LEU* 4.6 0.7 - - - +
204A MET* 3.7 21.6 - - - +
239A GLN 2.9 17.8 + - - -
240A LEU 3.7 2.7 - - - -
241A LEU 3.2 0.4 - - - -
242A GLN* 1.3 78.1 - - - +
244A LEU* 1.3 60.4 + - - +
246A ASP* 3.8 7.3 - - - +
247A PHE* 3.1 22.0 + - - +
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Residues in contact with LEU 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A LEU* 3.7 39.7 - - + +
204A MET* 3.8 12.1 - - + -
205A MET* 4.0 19.7 - - + -
208A ILE* 4.1 10.8 - - + -
240A LEU 3.1 21.1 + - - +
241A LEU* 3.2 8.7 + - - +
243A GLY* 1.3 76.9 - - - +
245A GLU* 1.3 65.7 + - - +
247A PHE* 3.2 5.8 + - - +
248A ILE* 3.0 28.6 + - - +
296A LEU* 3.7 14.1 - - + -
299A PHE* 4.1 16.6 - - + -
300A ILE* 4.0 22.9 - - + -
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Residues in contact with GLU 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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110A VAL* 3.1 25.1 - - + +
112A LYS* 6.0 1.2 - - - -
241A LEU 2.9 16.4 + - - +
242A GLN* 3.8 22.1 + - - +
244A LEU* 1.3 78.3 - - - +
246A ASP* 1.3 57.2 + - - +
248A ILE* 3.2 5.0 + - - +
249A ALA* 2.8 31.7 + - + +
289A LYS* 4.6 6.6 + - - -
292A VAL* 4.0 18.1 - - + +
293A MET* 3.7 22.5 - - + +
296A LEU* 4.0 10.7 - - + +
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Residues in contact with ASP 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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242A GLN* 2.7 56.0 + - - +
243A GLY* 3.8 7.6 - - - +
245A GLU* 1.3 76.6 - - - +
247A PHE* 1.3 63.8 + - - +
249A ALA* 3.3 6.8 + - - +
250A LYS* 3.0 27.0 + - - +
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Residues in contact with PHE 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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187A PHE* 3.8 18.6 - + - -
191A PHE* 3.7 26.2 - + - -
197A GLU* 3.5 38.1 - - - -
201A LEU* 3.7 33.9 - - + -
243A GLY 3.1 12.0 + - - +
244A LEU 3.6 7.4 - - - +
246A ASP* 1.3 80.9 - - - +
248A ILE* 1.3 74.4 + - + +
250A LYS* 3.3 15.3 + - - +
251A LYS* 3.0 57.1 + - + +
299A PHE* 4.6 3.4 - + - -
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Residues in contact with ILE 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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187A PHE* 3.7 31.2 - - + -
244A LEU 3.0 13.9 + - - +
245A GLU* 3.6 6.3 - - - +
247A PHE* 1.3 84.5 - - + +
249A ALA* 1.3 58.8 + - - +
251A LYS* 3.1 5.5 + - - +
252A VAL* 2.9 43.1 + - + +
268A ILE* 5.3 1.1 - - + -
292A VAL* 3.7 28.3 - - + +
295A THR* 3.9 22.2 - - + -
296A LEU* 4.1 23.8 - - + -
299A PHE* 4.2 13.7 - - + -
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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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245A GLU* 2.8 25.0 + - + +
246A ASP* 3.3 7.4 + - - +
248A ILE* 1.3 73.7 - - - +
250A LYS* 1.3 56.9 + - - +
252A VAL* 3.6 7.6 + - - +
253A GLU* 3.1 44.3 + - - +
292A VAL* 4.6 16.3 - - + +
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Residues in contact with LYS 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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197A GLU* 2.6 37.4 + - - -
246A ASP 3.0 15.6 + - - +
247A PHE* 3.5 19.1 - - + +
248A ILE 3.1 0.2 - - - -
249A ALA* 1.3 75.6 - - - +
251A LYS* 1.3 70.3 + - + +
253A GLU* 3.3 18.0 + - - +
254A HIS* 3.2 21.7 + - - +
257A ARG* 4.9 3.4 + - - +
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Residues in contact with LYS 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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187A PHE* 4.2 32.8 + - + +
189A ASP* 5.5 4.8 + - - -
191A PHE* 5.7 3.8 - - - -
247A PHE* 3.0 54.0 + - + +
248A ILE 3.1 5.8 + - - +
250A LYS* 1.3 80.8 - - + +
252A VAL* 1.3 57.6 + - - +
254A HIS* 3.5 11.9 + - + +
255A ASN* 3.1 39.3 + - - +
268A ILE* 4.3 14.8 - - + -
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Residues in contact with VAL 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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248A ILE* 2.9 35.4 + - + +
249A ALA* 3.8 7.0 - - - +
251A LYS* 1.3 75.1 - - - +
253A GLU* 1.3 59.0 + - + +
255A ASN* 3.3 3.1 + - - +
256A GLN* 2.9 38.2 + - - +
268A ILE* 4.0 26.7 - - + -
272A LEU* 4.5 2.5 - - + -
288A LEU* 3.8 19.5 - - + -
291A LEU* 3.6 34.1 - - + -
292A VAL* 4.4 6.1 - - + -
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Residues in contact with GLU 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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249A ALA* 3.1 34.1 + - - +
250A LYS* 3.5 18.4 - - - +
252A VAL* 1.3 75.3 - - + +
254A HIS* 1.3 63.7 + - - +
256A GLN* 3.1 19.8 + - - +
257A ARG* 3.1 44.7 + - - +
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Residues in contact with HIS 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 LYS 3.2 9.1 + - - +
251A LYS* 3.8 16.5 + - + +
253A GLU* 1.3 82.1 - - - +
255A ASN* 1.3 75.9 + - - +
256A GLN 3.3 0.3 + - - -
257A ARG* 3.3 28.8 + - - +
258A THR* 2.9 46.8 + - + +
265A ARG* 4.6 7.9 - - - -
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Residues in contact with ASN 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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187A PHE* 5.1 3.8 - - - +
251A LYS* 3.1 27.6 + - - +
252A VAL 3.7 4.0 - - - +
254A HIS* 1.3 85.2 + - - +
256A GLN* 1.3 56.4 + - - +
258A THR* 3.1 1.6 + - - -
259A LEU* 2.9 30.0 + - - +
265A ARG* 3.0 17.5 + - - +
266A ASP* 3.0 39.6 + - - +
268A ILE* 3.7 21.6 - - + +
269A ASP* 3.1 17.0 + - - +
272A LEU* 4.2 3.6 - - + -
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Residues in contact with GLN 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A VAL* 2.9 19.1 + - - +
253A GLU* 3.1 28.9 + - - +
255A ASN* 1.3 77.6 - - - +
257A ARG* 1.3 58.1 + - + +
258A THR 3.2 3.6 + - - -
259A LEU* 3.6 13.3 + - - +
272A LEU* 3.7 35.4 - - + +
275A MET* 4.9 6.3 - - - +
288A LEU* 4.6 15.7 - - - +
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Residues in contact with ARG 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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250A LYS* 4.9 3.6 + - - +
253A GLU* 3.1 33.8 + - - +
254A HIS* 3.6 39.9 - - - +
256A GLN* 1.3 77.8 - - + +
258A THR* 1.3 66.3 + - + +
259A LEU 3.7 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