Contacts of the helix formed by residues 390 - 427 (chain B) in PDB entry 2VDE
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 THR 390 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B ASP* 3.2 13.8 + - - -
388B THR 4.2 0.6 + - - -
389B GLU* 1.3 72.9 - - + +
391B ILE* 1.3 64.9 + - - +
392B VAL* 3.1 18.7 - - + +
393B ASP* 3.1 45.6 + - - +
394B VAL* 3.3 11.1 + - - +
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Residues in contact with ILE 391 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B GLN* 3.4 23.3 - - + +
159B LEU 4.5 0.2 - - - +
162B THR* 3.1 25.1 - - + +
171B VAL* 5.8 0.2 - - + -
175B ASP* 3.8 38.3 + - + +
179B ALA* 3.6 27.4 - - + -
384B PHE* 3.6 27.3 - - + -
389B GLU 3.8 2.4 + - - -
390B THR* 1.3 67.7 + - - +
392B VAL* 1.3 71.8 + - + +
394B VAL* 2.9 7.6 + - + -
395B LEU* 2.8 34.8 + - + +
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Residues in contact with VAL 392 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A MET* 6.2 0.7 - - + -
175B ASP* 4.3 10.8 - - - +
178B ASN* 3.3 45.1 - - + +
182B GLN* 4.7 2.9 + - - +
390B THR* 3.1 22.2 - - + +
391B ILE* 1.3 80.5 - - + +
393B ASP* 1.3 73.3 + - - +
395B LEU* 3.4 10.6 + - + +
396B ASP* 3.2 29.5 + - - +
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Residues in contact with ASP 393 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380B MET* 3.5 21.4 - - + +
389B GLU* 5.3 1.4 - - - +
390B THR* 3.1 33.5 + - + +
392B VAL* 1.3 84.1 - - - +
394B VAL* 1.3 64.1 + - - +
396B ASP* 3.3 10.9 + - - +
397B ALA* 3.2 19.2 + - - +
392C VAL* 6.2 0.3 - - - +
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Residues in contact with VAL 394 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B GLN* 3.1 24.2 - - + +
376B SER* 5.7 0.2 - - - +
380B MET* 3.7 36.8 - - + +
381B GLU* 3.8 19.5 - - + +
384B PHE* 3.5 34.1 - - + -
389B GLU* 4.5 1.6 - - + +
390B THR 3.3 16.4 - - - +
391B ILE* 2.9 9.2 + - + +
393B ASP* 1.3 72.8 - - - +
395B LEU* 1.3 59.1 + - - +
397B ALA* 3.5 1.9 + - - +
398B THR* 2.8 29.6 + - + +
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Residues in contact with LEU 395 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B ILE* 3.6 50.4 - - + +
158B GLN* 4.5 7.6 - - + +
179B ALA* 4.0 14.6 - - - +
182B GLN* 3.3 33.9 - - + +
391B ILE* 2.8 42.4 + - + +
392B VAL* 3.6 12.3 - - + +
393B ASP 3.2 0.2 - - - -
394B VAL* 1.3 75.8 - - - +
396B ASP* 1.3 61.2 + - - +
398B THR* 2.9 28.4 + - - +
399B THR* 3.0 18.3 + - + +
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Residues in contact with ASP 396 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B GLN* 3.6 17.5 + - - -
392B VAL 3.2 15.7 + - - +
393B ASP* 3.3 12.3 + - - +
395B LEU* 1.3 73.9 - - - +
397B ALA* 1.3 58.6 + - - +
399B THR* 3.1 16.5 + - - +
400B THR* 2.8 23.8 + - - -
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Residues in contact with ALA 397 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373B ALA 4.9 0.7 - - - +
375B SER* 5.1 2.9 - - - +
376B SER* 3.8 30.9 - - - +
380B MET* 3.9 16.4 - - + -
393B ASP 3.2 12.0 + - - +
394B VAL 3.6 9.0 - - - +
395B LEU 3.1 0.6 - - - -
396B ASP* 1.3 76.1 - - - +
398B THR* 1.3 56.8 + - - +
399B THR 3.1 5.5 + - - -
400B THR* 3.3 6.5 + - - -
401B LEU* 3.2 25.5 + - - +
178C ASN* 6.4 0.2 - - - +
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Residues in contact with THR 398 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B GLN* 3.6 10.9 - - - +
154B ALA* 5.2 10.1 - - + -
155B ILE* 4.8 4.4 - - - +
157B ARG* 6.0 1.3 - - - +
158B GLN* 3.7 27.7 + - - +
376B SER* 3.3 20.9 - - - +
381B GLU* 4.7 9.4 - - - +
394B VAL* 2.8 20.7 + - + +
395B LEU* 2.9 19.6 + - - +
397B ALA* 1.3 73.9 - - - +
399B THR* 1.3 57.3 + - - +
401B LEU* 4.6 5.8 - - + -
402B TYR* 3.3 28.4 - - + -
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Residues in contact with THR 399 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B GLN* 3.2 26.0 - - - +
155B ILE* 5.0 7.2 - - + -
182B GLN* 5.4 7.9 - - - +
395B LEU* 3.0 15.5 + - + +
396B ASP* 3.1 13.2 + - - +
398B THR* 1.3 77.9 - - - +
400B THR* 1.3 65.7 + - - +
401B LEU 3.1 1.8 - - - -
402B TYR* 2.8 4.7 + - - +
403B ASN* 2.5 49.6 + - - +
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Residues in contact with THR 400 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373B ALA* 4.6 9.9 - - + +
396B ASP 2.8 20.7 + - - -
397B ALA* 3.8 6.7 - - - -
399B THR* 1.3 82.9 + - - +
401B LEU* 1.3 60.9 + - - +
403B ASN* 3.6 9.8 - - + +
404B ALA* 3.1 23.3 + - + +
181C ALA* 5.4 11.0 - - + +
182C GLN* 6.3 0.9 - - - -
185C THR* 5.1 14.8 - - + -
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Residues in contact with LEU 401 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370B VAL* 3.8 12.1 - - + +
373B ALA* 3.6 32.6 + - + +
374B GLN* 3.7 32.8 - - - +
376B SER* 4.7 8.7 - - - +
397B ALA 3.2 15.4 + - - +
398B THR* 4.9 2.7 - - + -
399B THR 3.1 0.4 - - - -
400B THR* 1.3 75.5 - - - +
402B TYR* 1.3 79.2 + - + +
404B ALA* 3.1 6.1 + - - +
405B LYS* 2.8 55.5 + - + +
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Residues in contact with TYR 402 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B TYR* 3.3 39.3 - + + +
150B ALA* 3.5 41.3 + - + +
151B GLN* 4.0 24.2 - - + +
154B ALA* 4.9 8.8 - - + +
398B THR* 3.3 26.5 - - + -
399B THR* 2.8 6.1 + - - +
401B LEU* 1.3 95.0 - - + +
403B ASN* 1.3 63.0 + - - +
404B ALA 3.0 6.0 + - - -
405B LYS* 3.7 15.2 - - + +
406B GLN* 3.3 34.6 + - - +
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Residues in contact with ASN 403 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B GLN* 5.9 1.4 + - - -
399B THR* 2.5 38.4 + - - +
400B THR* 3.6 12.0 - - + +
401B LEU 3.3 0.2 - - - -
402B TYR* 1.3 73.7 - - - +
404B ALA* 1.3 55.9 + - - +
406B GLN* 4.6 9.6 + - - +
407B GLU* 3.0 25.1 - - - +
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Residues in contact with ALA 404 (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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366B TYR* 4.7 5.1 - - + +
369B ALA* 4.4 15.7 - - + +
370B VAL* 3.5 32.3 - - + +
400B THR* 3.1 12.7 + - + +
401B LEU* 3.4 8.7 - - - +
402B TYR 3.0 0.4 - - - -
403B ASN* 1.3 78.3 - - - +
405B LYS* 1.3 64.0 + - - +
406B GLN 3.3 1.6 - - - -
407B GLU* 3.3 8.1 + - - +
408B LEU* 3.0 19.1 + - - +
185C THR* 5.5 6.1 - - + -
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Residues in contact with LYS 405 (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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147B TYR* 3.2 46.2 + - + +
370B VAL* 3.5 35.2 - - + -
374B GLN* 5.5 4.0 - - - +
401B LEU* 2.8 40.8 + - + +
402B TYR* 3.3 25.7 + - + +
404B ALA* 1.3 78.8 - - - +
406B GLN* 1.3 60.1 + - - +
408B LEU* 3.5 6.4 + - + +
409B ALA 3.3 15.4 + - - -
412B ARG* 5.6 0.2 + - - -
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Residues in contact with GLN 406 (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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140B ASN* 5.2 1.3 + - - +
143B ASP* 6.2 0.7 - - - -
144B VAL* 3.5 37.4 - - + +
147B TYR* 3.7 31.8 - - + +
148B THR* 4.5 12.5 + - - +
151B GLN* 5.7 4.2 - - - +
402B TYR* 3.3 20.9 + - - +
403B ASN* 5.0 8.9 + - - +
405B LYS* 1.3 73.0 - - - +
407B GLU* 1.3 68.1 + - + +
408B LEU 3.1 0.4 - - - -
409B ALA* 3.4 1.6 + - - +
410B ASN* 2.9 30.0 + - + +
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Residues in contact with GLU 407 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366B TYR* 3.7 47.1 + - + -
403B ASN 3.0 25.0 - - - +
404B ALA 3.3 8.8 + - - +
406B GLN* 1.3 76.8 - - + +
408B LEU* 1.3 57.3 + - - +
410B ASN* 3.9 14.8 + - - +
411B ALA* 3.0 30.8 + - - +
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Residues in contact with LEU 408 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363B ILE* 3.5 21.8 - - + +
366B TYR* 3.6 12.3 - - + +
367B LYS* 3.5 38.4 - - + +
370B VAL* 4.2 20.6 - - + -
404B ALA 3.0 16.6 + - - +
405B LYS* 3.6 7.6 - - + +
406B GLN 3.1 0.2 - - - -
407B GLU* 1.3 74.0 - - - +
409B ALA* 1.3 65.6 + - - +
411B ALA* 2.9 14.9 + - + +
412B ARG* 3.0 43.7 + - - +
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Residues in contact with ALA 409 (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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140B ASN* 5.5 0.9 - - - +
143B ASP* 3.4 33.4 - - + +
147B TYR* 4.3 8.3 - - + +
405B LYS 3.3 11.9 + - - +
406B GLN* 4.1 2.5 - - - +
408B LEU* 1.3 77.0 - - - +
410B ASN* 1.3 62.0 + - - +
412B ARG* 3.2 33.5 + - - +
413B TYR* 3.0 24.8 + - + -
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Residues in contact with ASN 410 (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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140B ASN* 3.3 29.5 + - - +
406B GLN* 2.9 21.3 + - + +
407B GLU* 3.9 16.1 + - - +
409B ALA* 1.3 75.5 - - - +
411B ALA* 1.3 64.5 + - - +
413B TYR* 3.4 4.2 + - - +
414B ASN* 3.1 48.1 + - - +
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Residues in contact with ALA 411 (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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359B SER* 3.7 4.8 + - - -
362B SER* 4.4 19.5 - - - +
363B ILE* 3.4 21.3 - - + +
366B TYR* 4.4 7.2 - - + -
407B GLU 3.0 19.6 + - - +
408B LEU* 2.9 8.7 + - - +
410B ASN* 1.3 77.9 - - - +
412B ARG* 1.3 62.5 + - - +
414B ASN* 3.3 11.6 + - - +
415B TYR 3.1 16.6 + - - -
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Residues in contact with ARG 412 (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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147B TYR* 5.0 6.1 + - - -
218B LEU* 4.2 14.6 - - + +
220B VAL* 3.5 31.5 - - - +
223B PHE* 3.7 45.2 - - + -
363B ILE* 3.6 19.0 - - + +
367B LYS* 6.1 1.8 - - - +
408B LEU* 3.0 43.3 + - - +
409B ALA* 3.2 31.8 + - - +
411B ALA* 1.3 74.1 - - - +
413B TYR* 1.3 61.1 + - - +
415B TYR* 3.1 19.8 + - - +
416B LEU* 3.1 17.9 + - - +
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Residues in contact with TYR 413 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B PHE* 3.6 37.1 - + + +
139B LEU* 3.3 44.1 + - + +
140B ASN* 3.5 29.4 - - + +
143B ASP* 3.2 28.8 + - - -
217B ALA* 4.9 2.4 - - - +
218B LEU* 3.8 36.8 + - + +
409B ALA* 3.0 25.9 + - + -
410B ASN 4.0 4.3 - - - +
412B ARG* 1.3 75.0 - - + +
414B ASN* 1.3 63.0 + - - +
415B TYR 3.3 0.2 - - - -
416B LEU* 3.7 7.4 + - + +
417B ILE* 3.3 28.6 + - - +
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Residues in contact with ASN 414 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359B SER* 3.5 6.5 - - - +
410B ASN* 3.1 45.8 + - - +
411B ALA* 3.4 12.9 - - - +
412B ARG 3.1 0.4 - - - -
413B TYR* 1.3 75.4 - - - +
415B TYR* 1.3 61.4 + - - +
417B ILE* 3.6 14.8 + - - +
418B ASN* 2.9 36.0 + - - +
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Residues in contact with TYR 415 (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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223B PHE* 3.5 21.8 - + + -
224B LYS 3.3 26.8 + - - -
225B THR* 3.4 16.8 - - - -
226B ASP* 3.8 8.6 + - - -
356B ILE* 4.4 10.1 - - + -
359B SER* 3.0 21.5 + - - +
360B ILE* 3.6 39.0 - - + -
363B ILE* 4.8 6.7 - - + -
411B ALA 3.1 5.8 + - - +
412B ARG* 3.1 10.8 + - - +
414B ASN* 1.3 73.5 - - - +
416B LEU* 1.3 85.9 + - + +
418B ASN* 2.8 23.9 + - - +
419B GLN* 2.9 44.3 + - + +
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Residues in contact with LEU 416 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B PHE* 3.8 36.1 - - + -
218B LEU* 3.8 25.6 - - + -
223B PHE* 4.2 11.7 - - + -
412B ARG 3.1 13.5 + - - +
413B TYR* 4.0 7.9 - - + +
414B ASN 3.5 0.2 - - - -
415B TYR* 1.3 100.9 - - + +
417B ILE* 1.3 59.1 + - - +
418B ASN 3.4 0.6 + - - -
419B GLN* 4.1 6.0 - - - +
420B LEU* 4.0 12.8 + - - +
437B LEU* 3.6 42.8 - - + +
440B ALA* 5.0 13.7 - - + -
441B LEU* 5.3 2.5 - - + -
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Residues in contact with ILE 417 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B LEU* 5.3 6.5 - - + -
132B ALA* 4.8 3.8 - - + -
133B THR* 4.2 30.7 - - - +
136B PHE* 3.5 34.8 - - + -
413B TYR 3.3 15.1 + - - +
414B ASN* 3.8 17.7 - - - +
415B TYR 3.1 1.2 - - - -
416B LEU* 1.3 76.9 - - - +
418B ASN* 1.3 66.8 + - - +
419B GLN 3.6 0.7 - - - -
420B LEU* 4.2 11.7 - - + -
421B ASN* 3.2 30.5 + - - +
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Residues in contact with ASN 418 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352B SER* 3.8 4.0 + - - +
355B ASN* 3.0 45.6 + - + +
356B ILE* 3.8 18.1 - - + +
359B SER* 4.2 4.4 + - - -
414B ASN* 2.9 25.8 + - - +
415B TYR* 2.8 7.9 + - - +
417B ILE* 1.3 87.4 - - - +
419B GLN* 1.3 64.5 + - - +
420B LEU 3.4 0.2 - - - -
421B ASN* 3.8 14.4 + - - -
422B ILE* 3.4 28.2 + - - +
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Residues in contact with GLN 419 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226B ASP* 4.6 6.6 - - - +
356B ILE* 3.5 21.5 - - + +
415B TYR* 2.9 48.4 + - + +
416B LEU* 4.1 9.2 - - - +
418B ASN* 1.3 77.8 - - - +
420B LEU* 1.3 68.0 + - + +
422B ILE* 3.3 15.4 + - - +
423B LYS* 3.3 18.3 + - - +
437B LEU* 3.6 27.1 - - - +
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Residues in contact with LEU 420 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B ILE* 5.2 2.5 - - + +
129B LEU* 5.0 13.0 - - + -
132B ALA* 3.6 31.2 - - + -
416B LEU 4.0 9.7 + - - +
417B ILE* 4.4 10.1 - - + +
418B ASN 3.4 0.2 - - - -
419B GLN* 1.3 85.5 - - + +
421B ASN* 1.3 61.3 + - - +
423B LYS* 3.3 7.4 + - + +
424B SER 3.1 17.5 + - - -
429B LEU* 3.3 29.1 - - + +
433B ASP* 4.1 27.8 - - + +
434B LEU* 4.0 10.1 - - + -
437B LEU* 3.8 31.4 - - + -
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Residues in contact with ASN 421 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B LEU* 3.4 28.5 - - - +
348B THR* 5.3 2.9 - - - +
352B SER* 3.5 18.8 + - - +
355B ASN* 5.8 4.2 - - - +
417B ILE* 3.2 26.9 + - - +
418B ASN* 3.9 12.1 + - - +
419B GLN 3.3 0.6 - - - -
420B LEU* 1.3 75.7 - - - +
422B ILE* 1.3 63.7 + - - +
424B SER* 3.4 9.9 - - - -
425B ALA* 3.3 17.8 + - - +
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Residues in contact with ILE 422 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B PRO* 4.5 11.7 - - + -
234B LEU* 4.1 23.1 - - + -
349B VAL* 5.4 4.3 - - + +
352B SER* 3.3 29.4 - - - +
353B PHE* 4.5 1.6 - - - +
356B ILE* 3.6 37.9 - - + -
418B ASN 3.4 10.3 + - - +
419B GLN* 3.3 9.0 + - - +
421B ASN* 1.3 72.9 - - - +
423B LYS* 1.3 63.5 + - + +
425B ALA* 2.8 23.3 + - + +
426B LEU* 2.8 34.1 + - + +
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Residues in contact with LYS 423 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419B GLN 3.3 14.1 + - - +
420B LEU* 3.3 10.9 + - + +
422B ILE* 1.3 79.1 - - + +
424B SER* 1.3 52.2 + - - +
426B LEU* 3.3 12.4 + - + +
427B GLY 2.8 28.2 + - - -
428B THR* 3.0 47.5 + - - -
429B LEU* 3.3 15.1 + - + -
430B ASN* 4.7 0.9 - - - +
433B ASP* 3.0 46.3 + - + +
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Residues in contact with SER 424 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B GLN* 3.0 28.7 + - - +
129B LEU* 4.2 17.3 - - - +
242B ASN* 4.6 3.5 + - - -
243B LEU 5.4 0.9 + - - -
420B LEU 3.1 6.9 + - - -
421B ASN* 3.4 12.8 - - - -
422B ILE 3.1 0.2 - - - -
423B LYS* 1.3 76.5 - - - +
425B ALA* 1.3 62.7 + - - +
427B GLY* 3.2 3.5 + - - -
429B LEU* 3.7 20.6 - - - +
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Residues in contact with ALA 425 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B ALA* 3.4 11.5 - - - +
242B ASN* 2.8 29.2 + - - +
345B VAL* 4.7 1.5 - - + +
348B THR* 3.9 31.1 - - + +
349B VAL* 3.5 25.1 - - + +
421B ASN 3.3 6.3 + - - +
422B ILE* 2.8 14.2 + - - +
424B SER* 1.3 74.6 - - - +
426B LEU* 1.3 59.5 + - - +
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Residues in contact with LEU 426 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 3.5 60.1 - - + +
237B GLU* 4.1 17.0 - - + +
238B ALA* 3.6 15.3 - - + +
241B ARG* 3.2 29.1 - - - +
242B ASN* 3.4 2.6 + - - -
349B VAL* 4.3 4.7 - - + -
422B ILE* 2.8 24.1 + - + +
423B LYS* 3.7 14.6 - - + +
424B SER 3.2 0.4 - - - -
425B ALA* 1.3 76.3 - - - +
427B GLY* 1.3 60.0 + - - +
428B THR* 3.1 20.7 + - - +
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Residues in contact with GLY 427 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B GLN* 3.3 29.5 + - - -
241B ARG* 3.8 23.9 + - - +
242B ASN* 4.2 5.2 - - - -
243B LEU* 4.3 10.9 - - - +
423B LYS 2.8 5.5 + - - -
424B SER 3.2 5.7 + - - -
425B ALA 3.3 0.8 + - - -
426B LEU* 1.3 77.8 - - - +
428B THR* 1.3 57.2 + - - +
429B LEU 3.4 4.7 - - - -
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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