Contacts of the helix formed by residues 285 - 311 (chain A) in PDB entry 2PWZ
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 SER 285 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187A SER* 3.9 16.9 + - - -
199A VAL* 5.9 0.7 - - - +
284A LEU* 1.3 78.1 - - - +
286A ALA* 1.3 59.4 + - - +
287A PHE* 3.5 8.3 + - - +
288A GLU* 2.9 39.2 + - - +
289A GLN* 3.0 26.6 + - - +
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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
----------------------------------------------------------
285A SER* 1.3 72.5 - - - +
287A PHE* 1.3 64.2 - - - +
289A GLN* 3.3 6.8 + - - +
290A ASN* 3.1 24.1 + - - +
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Residues in contact with PHE 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU* 5.1 3.1 - - + -
196A GLU* 5.5 13.2 - - + -
199A VAL* 3.3 37.0 - - + -
200A ALA* 4.5 20.6 - - + -
203A THR* 3.9 23.6 - - + -
285A SER* 3.5 7.3 + - - +
286A ALA* 1.3 79.2 - - - +
288A GLU* 1.3 65.4 + - + +
290A ASN* 3.6 8.8 + - - +
291A ALA* 2.9 38.5 + - + +
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Residues in contact with GLU 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU* 3.4 20.5 - - + +
184A PRO 3.9 2.4 - - - +
185A LEU* 3.4 23.4 - - + +
186A LEU* 3.2 12.6 + - - +
187A SER* 2.7 46.2 + - - -
199A VAL* 6.0 2.4 - - + +
283A THR 4.3 0.3 - - - +
284A LEU* 3.4 20.6 - - + +
285A SER* 2.9 31.2 + - - +
286A ALA 3.2 0.2 - - - -
287A PHE* 1.3 80.7 - - + +
289A GLN* 1.3 60.8 + - - +
291A ALA 3.1 0.7 + - - -
292A LEU* 2.9 32.6 + - - +
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Residues in contact with GLN 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A TYR* 5.5 5.8 + - - -
284A LEU* 3.9 24.5 - - + +
285A SER 3.0 18.0 + - - +
286A ALA* 3.3 6.3 + - - +
288A GLU* 1.3 74.6 - - - +
290A ASN* 1.3 63.2 + - - +
292A LEU* 3.4 11.8 + - - +
293A GLU* 2.6 63.3 + - - +
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Residues in contact with ASN 290 (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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286A ALA 3.1 16.8 + - - +
287A PHE* 3.7 9.4 + - - +
289A GLN* 1.3 76.5 - - - +
291A ALA* 1.3 57.9 - - - +
293A GLU* 3.4 10.5 + - - +
294A GLY* 3.0 26.3 + - - -
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Residues in contact with ALA 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A VAL 4.6 4.0 - - - +
183A LEU* 3.7 23.1 - - + -
207A GLN* 6.2 2.2 - - - +
287A PHE* 2.9 30.4 + - + +
288A GLU 3.5 4.7 - - - +
290A ASN* 1.3 78.9 - - - +
292A LEU* 1.3 63.0 + - - +
294A GLY* 3.4 2.7 + - - -
295A MET* 3.1 26.1 + - - +
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Residues in contact with LEU 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ILE* 4.6 3.1 - - + -
183A LEU* 3.7 5.7 - - + +
260A TYR* 3.6 35.4 - - + +
264A PHE* 3.5 37.0 - - + -
281A ILE* 4.0 6.1 - - + -
284A LEU* 3.6 23.8 - - + -
288A GLU 2.9 16.8 + - - +
289A GLN* 3.5 14.6 - - - +
291A ALA* 1.3 72.3 - - - +
293A GLU* 1.3 69.0 + - + +
295A MET* 3.2 24.4 + - + +
296A LEU* 3.1 28.0 - - + +
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Residues in contact with GLU 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A TYR* 6.4 1.3 - - + -
289A GLN* 2.6 51.5 + - - +
290A ASN* 3.9 9.5 - - - +
292A LEU* 1.3 79.0 - - + +
294A GLY* 1.3 60.6 + - - +
295A MET 3.4 1.0 + - - -
296A LEU* 3.5 25.4 + - + +
297A ASP 4.9 1.0 + - - -
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Residues in contact with GLY 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A VAL* 4.8 4.8 - - - +
290A ASN 3.0 16.2 + - - -
291A ALA* 3.7 2.9 - - - -
292A LEU 3.2 0.2 - - - -
293A GLU* 1.3 77.2 - - - +
295A MET* 1.3 57.5 + - - +
296A LEU 3.4 0.2 - - - -
297A ASP* 4.9 4.4 + - - +
298A THR* 4.8 5.0 + - - -
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Residues in contact with MET 295 (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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175A GLY* 3.8 11.4 - - - -
180A VAL* 3.4 32.3 - - + +
181A THR* 3.5 33.8 - - + +
183A LEU* 4.0 17.5 - - + -
264A PHE* 4.2 0.7 - - + -
291A ALA 3.1 8.9 + - - +
292A LEU* 3.2 39.0 + - + +
294A GLY* 1.3 78.1 - - - +
296A LEU* 1.3 70.0 + - + +
297A ASP 3.4 1.8 - - - -
298A THR* 3.1 10.0 + - - -
299A LEU* 3.0 51.1 + - + -
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Residues in contact with LEU 296 (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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259A GLN 5.3 0.9 - - - +
260A TYR* 3.7 49.1 - - + +
261A ALA* 5.5 0.2 - - + -
264A PHE* 4.5 2.0 - - + -
292A LEU* 3.1 36.8 - - + +
293A GLU* 3.5 19.0 + - + +
294A GLY 3.4 1.2 - - - -
295A MET* 1.3 92.6 - - + +
297A ASP* 1.3 64.0 + - - +
299A LEU* 3.4 7.4 + - + +
300A LYS* 3.0 40.7 + - - +
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Residues in contact with ASP 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A GLU 4.9 1.0 + - - -
294A GLY 4.9 4.0 + - - +
295A MET 3.4 0.6 - - - -
296A LEU* 1.3 77.6 - - - +
298A THR* 1.3 59.3 + - - +
300A LYS* 3.4 12.5 + - - +
301A LYS* 2.9 54.3 + - - +
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Residues in contact with THR 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A SER 5.7 0.7 - - - +
180A VAL* 4.2 17.3 - - + +
181A THR* 3.8 17.9 - - + -
294A GLY 4.8 3.1 + - - -
295A MET 3.1 11.0 + - - -
297A ASP* 1.3 75.2 - - - +
299A LEU* 1.3 61.0 + - - +
301A LYS* 3.2 10.6 + - - +
302A ASP* 2.9 44.9 + - - +
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Residues in contact with LEU 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A ASN* 3.8 31.0 - - - +
175A GLY 4.1 4.7 - - - -
176A GLY* 4.0 6.7 - - - -
181A THR* 4.0 8.0 - - + +
253A TYR* 3.8 20.2 - - + +
261A ALA* 4.2 16.2 - - + -
263A PHE 4.3 4.5 - - - +
264A PHE* 3.7 26.2 - - + -
295A MET* 3.0 39.4 + - + +
296A LEU* 3.7 12.1 - - + +
297A ASP 3.4 0.2 - - - -
298A THR* 1.3 75.8 - - - +
300A LYS* 1.3 57.0 + - - +
302A ASP* 3.2 6.2 + - - +
303A ILE* 3.0 33.7 + - + +
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Residues in contact with LYS 300 (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 TYR 3.4 23.3 + - - -
261A ALA* 4.3 15.3 - - + +
262A ARG 5.8 0.4 - - - +
296A LEU* 3.0 32.3 + - - +
297A ASP* 3.6 12.0 + - - +
299A LEU* 1.3 73.1 - - - +
301A LYS* 1.3 59.4 - - - +
303A ILE* 3.4 8.9 + - + +
304A ALA* 3.0 29.0 + - - +
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Residues in contact with LYS 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A ASP* 2.9 42.1 + - - +
298A THR* 3.4 10.8 - - - +
300A LYS* 1.3 71.2 - - - +
302A ASP* 1.3 67.8 + - - +
304A ALA* 3.4 5.4 + - - +
305A LEU* 3.0 25.7 + - - +
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Residues in contact with ASP 302 (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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120A PRO* 6.5 0.9 - - - -
122A ASN* 3.2 42.1 + - + +
123A THR* 2.4 33.0 + - - +
178A SER* 4.7 5.2 + - - -
181A THR* 4.4 0.3 - - - +
298A THR* 2.9 33.6 + - - +
299A LEU 3.2 9.2 + - - +
301A LYS* 1.3 78.2 - - - +
303A ILE* 1.3 61.8 + - - +
305A LEU* 3.5 10.4 - - - +
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Residues in contact with ILE 303 (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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122A ASN 4.0 5.6 - - - +
126A ALA* 3.6 8.8 - - + +
253A TYR* 3.2 25.4 - - - +
261A ALA* 3.6 29.8 - - + -
262A ARG* 4.2 8.7 - - + +
263A PHE* 3.7 35.4 - - + +
299A LEU* 3.0 24.3 + - + +
300A LYS* 3.7 7.6 - - + +
301A LYS 3.2 0.4 - - - -
302A ASP* 1.3 75.2 - - - +
304A ALA* 1.3 63.0 + - - +
306A GLY 3.0 10.4 + - - -
307A GLU* 3.4 30.9 + - - +
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Residues in contact with ALA 304 (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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300A LYS 3.0 17.4 + - - +
301A LYS* 3.9 6.5 - - - +
303A ILE* 1.3 72.3 - - - +
305A LEU* 1.3 60.3 + - - +
307A GLU* 3.4 18.0 + - - +
308A GLU* 3.0 43.0 + - + +
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Residues in contact with LEU 305 (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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91A PHE* 3.9 35.8 - - + -
120A PRO* 6.2 0.4 - - + -
123A THR* 3.9 9.7 - - - +
301A LYS 3.0 18.1 + - - +
302A ASP* 3.5 10.5 - - - +
304A ALA* 1.3 77.5 - - - +
306A GLY* 1.3 56.7 + - - +
308A GLU* 3.7 25.1 + - + +
309A PHE* 3.2 25.8 + - - +
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Residues in contact with GLY 306 (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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123A THR* 3.5 25.6 - - - +
126A ALA* 4.2 0.4 - - - -
127A ILE* 3.5 26.9 - - - +
302A ASP 3.7 0.2 + - - -
303A ILE 3.0 8.8 + - - -
305A LEU* 1.3 76.9 - - - +
307A GLU* 1.3 63.3 - - - +
309A PHE* 3.2 12.6 + - - +
310A VAL* 3.4 12.8 + - - +
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Residues in contact with GLU 307 (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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126A ALA* 4.6 3.4 - - + -
130A GLU* 3.8 28.5 - - + +
262A ARG* 2.8 37.5 + - - +
303A ILE* 3.4 24.8 - - - +
304A ALA* 3.7 17.2 - - - +
306A GLY* 1.3 73.1 - - - +
308A GLU* 1.3 63.5 + - - +
309A PHE 3.3 0.3 + - - -
310A VAL* 3.3 1.4 + - - -
311A ASN* 3.0 35.6 + - - +
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Residues in contact with GLU 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A ALA* 3.0 36.6 + - + +
305A LEU* 3.7 25.5 + - + +
307A GLU* 1.3 75.7 - - - +
309A PHE* 1.3 62.7 + - - +
311A ASN* 5.3 0.9 - - - -
312A LYS* 3.0 40.1 + - - +
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Residues in contact with PHE 309 (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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91A PHE* 4.2 13.5 - + + -
92A ASN* 3.9 24.0 - - + -
95A ALA* 3.4 37.0 - - + -
96A GLY* 3.5 22.4 - - - -
99A LYS* 3.9 26.8 + - + -
127A ILE* 4.1 15.5 - - + -
305A LEU 3.2 11.7 + - - +
306A GLY 3.5 9.4 - - - +
307A GLU 3.2 0.8 - - - -
308A GLU* 1.3 81.2 - - - +
310A VAL* 1.3 63.4 + - - +
312A LYS* 3.5 28.6 + - - +
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Residues in contact with VAL 310 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A LYS* 4.4 22.7 + - + +
127A ILE* 3.6 38.4 - - + +
130A GLU* 3.7 22.4 - - + -
131A VAL* 4.2 12.3 - - + +
134A LYS* 3.6 31.3 - - + -
306A GLY 3.6 12.3 - - - +
307A GLU 3.3 3.7 + - - +
309A PHE* 1.3 81.6 - - + +
311A ASN* 1.3 59.8 + - - +
312A LYS* 3.2 10.8 + - - +
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Residues in contact with ASN 311 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A GLU* 3.3 24.6 + - - +
134A LYS* 2.9 39.8 - - - +
307A GLU* 3.0 25.0 + - - +
308A GLU* 4.0 1.1 - - - -
310A VAL* 1.3 81.1 - - - +
312A LYS* 1.3 71.3 + - - +
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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